Query 022930
Match_columns 290
No_of_seqs 347 out of 2459
Neff 9.3
Searched_HMMs 46136
Date Fri Mar 29 07:11:07 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022930.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022930hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4207 Predicted splicing fac 100.0 4.8E-27 1E-31 185.3 17.3 104 1-145 1-104 (256)
2 TIGR01659 sex-lethal sex-letha 99.9 7.3E-24 1.6E-28 188.1 13.8 121 9-137 101-221 (346)
3 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.9 1.1E-21 2.5E-26 176.5 12.1 114 15-136 3-116 (352)
4 TIGR01645 half-pint poly-U bin 99.9 2.9E-21 6.2E-26 180.4 12.0 126 12-137 104-232 (612)
5 KOG0107 Alternative splicing f 99.9 8.5E-21 1.8E-25 146.5 12.0 61 14-79 9-69 (195)
6 KOG0131 Splicing factor 3b, su 99.8 2.4E-21 5.2E-26 150.4 7.0 121 11-138 5-125 (203)
7 TIGR01622 SF-CC1 splicing fact 99.8 1.7E-20 3.7E-25 174.6 13.5 126 11-137 85-214 (457)
8 KOG0117 Heterogeneous nuclear 99.8 1.5E-20 3.2E-25 164.1 10.7 111 12-135 80-190 (506)
9 TIGR01648 hnRNP-R-Q heterogene 99.8 4.3E-20 9.3E-25 172.3 12.3 108 13-135 56-164 (578)
10 PLN03134 glycine-rich RNA-bind 99.8 1.1E-19 2.4E-24 142.0 10.6 80 13-92 32-111 (144)
11 KOG0144 RNA-binding protein CU 99.8 5.7E-20 1.2E-24 159.8 9.2 122 13-139 32-154 (510)
12 TIGR01628 PABP-1234 polyadenyl 99.8 1.6E-19 3.6E-24 172.0 11.9 115 17-137 2-116 (562)
13 KOG0113 U1 small nuclear ribon 99.8 2.7E-19 5.9E-24 148.9 11.2 80 14-93 100-179 (335)
14 KOG0145 RNA-binding protein EL 99.8 2.2E-19 4.7E-24 146.8 9.7 116 13-136 39-154 (360)
15 KOG0148 Apoptosis-promoting RN 99.8 3.9E-19 8.5E-24 146.1 9.5 128 11-138 58-193 (321)
16 PF00076 RRM_1: RNA recognitio 99.8 3E-18 6.5E-23 117.4 8.4 70 18-88 1-70 (70)
17 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.8 3.4E-18 7.5E-23 153.9 10.8 82 13-94 267-348 (352)
18 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.8 6.5E-18 1.4E-22 157.7 12.8 118 13-135 273-420 (481)
19 TIGR01642 U2AF_lg U2 snRNP aux 99.7 8.1E-18 1.8E-22 158.7 12.4 126 13-138 293-448 (509)
20 KOG0121 Nuclear cap-binding pr 99.7 3.4E-18 7.3E-23 125.4 7.4 84 12-95 33-116 (153)
21 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.7 8.9E-18 1.9E-22 156.8 11.9 117 15-137 2-124 (481)
22 KOG0109 RNA-binding protein LA 99.7 1.6E-18 3.4E-23 143.9 5.2 105 16-138 3-107 (346)
23 TIGR01628 PABP-1234 polyadenyl 99.7 1.3E-17 2.9E-22 158.9 11.2 118 15-136 88-205 (562)
24 TIGR01642 U2AF_lg U2 snRNP aux 99.7 1.5E-17 3.2E-22 157.0 11.1 119 12-137 172-323 (509)
25 KOG0149 Predicted RNA-binding 99.7 8.9E-18 1.9E-22 135.9 7.4 75 14-89 11-85 (247)
26 KOG0124 Polypyrimidine tract-b 99.7 7.1E-18 1.5E-22 144.0 6.1 124 15-138 113-239 (544)
27 KOG0126 Predicted RNA-binding 99.7 4.7E-19 1E-23 137.6 -1.2 87 6-92 26-112 (219)
28 KOG0122 Translation initiation 99.7 5.3E-17 1.2E-21 131.9 7.7 84 11-94 185-268 (270)
29 KOG0130 RNA-binding protein RB 99.7 4.8E-17 1E-21 120.4 6.8 84 6-89 63-146 (170)
30 PF14259 RRM_6: RNA recognitio 99.7 1.2E-16 2.5E-21 109.7 8.3 69 18-87 1-69 (70)
31 KOG0114 Predicted RNA-binding 99.7 3.6E-16 7.7E-21 110.6 9.8 82 11-95 14-95 (124)
32 KOG4676 Splicing factor, argin 99.7 4.1E-17 8.9E-22 140.4 5.5 73 17-89 9-84 (479)
33 TIGR01659 sex-lethal sex-letha 99.7 2E-16 4.4E-21 140.6 9.6 79 14-92 192-272 (346)
34 KOG0415 Predicted peptidyl pro 99.7 1.7E-16 3.6E-21 135.1 6.8 87 13-99 237-323 (479)
35 PLN03120 nucleic acid binding 99.7 5.3E-16 1.1E-20 129.7 9.4 75 15-93 4-78 (260)
36 PLN03121 nucleic acid binding 99.6 8.4E-16 1.8E-20 126.5 9.2 74 14-91 4-77 (243)
37 COG0724 RNA-binding proteins ( 99.6 2.1E-15 4.5E-20 130.2 11.0 122 15-136 115-252 (306)
38 TIGR01622 SF-CC1 splicing fact 99.6 1.7E-15 3.7E-20 141.1 11.0 79 15-93 186-264 (457)
39 TIGR01648 hnRNP-R-Q heterogene 99.6 2.4E-15 5.1E-20 140.7 10.8 120 14-136 137-262 (578)
40 KOG0127 Nucleolar protein fibr 99.6 2.1E-15 4.5E-20 135.0 9.5 122 15-136 5-144 (678)
41 TIGR01645 half-pint poly-U bin 99.6 2.1E-15 4.5E-20 141.4 9.4 80 14-93 203-282 (612)
42 smart00362 RRM_2 RNA recogniti 99.6 4.2E-15 9.2E-20 101.4 8.6 71 17-89 1-71 (72)
43 KOG0105 Alternative splicing f 99.6 1.8E-15 3.8E-20 118.1 6.1 81 13-135 4-84 (241)
44 KOG0127 Nucleolar protein fibr 99.6 6.2E-15 1.3E-19 132.0 9.5 120 9-128 286-415 (678)
45 smart00360 RRM RNA recognition 99.6 7.2E-15 1.6E-19 99.9 7.8 70 20-89 1-70 (71)
46 PLN03213 repressor of silencin 99.6 5.2E-15 1.1E-19 131.1 8.7 77 14-94 9-87 (759)
47 KOG4205 RNA-binding protein mu 99.6 2.3E-15 5E-20 130.3 6.4 119 14-135 5-123 (311)
48 KOG0117 Heterogeneous nuclear 99.6 9.6E-15 2.1E-19 128.0 9.4 121 13-136 162-286 (506)
49 KOG0148 Apoptosis-promoting RN 99.6 6.9E-15 1.5E-19 121.3 7.6 76 13-94 162-237 (321)
50 KOG4212 RNA-binding protein hn 99.6 2.5E-14 5.5E-19 125.0 11.4 74 15-89 44-118 (608)
51 KOG0125 Ataxin 2-binding prote 99.6 9.6E-15 2.1E-19 123.4 8.0 78 15-94 96-173 (376)
52 KOG0110 RNA-binding protein (R 99.5 1.4E-14 3.1E-19 133.5 8.7 122 16-137 516-641 (725)
53 KOG4206 Spliceosomal protein s 99.5 7.5E-14 1.6E-18 112.9 11.5 124 11-137 5-174 (221)
54 cd00590 RRM RRM (RNA recogniti 99.5 6E-14 1.3E-18 96.2 9.0 73 17-90 1-73 (74)
55 KOG0145 RNA-binding protein EL 99.5 5.4E-14 1.2E-18 115.4 8.6 86 9-94 272-357 (360)
56 KOG0111 Cyclophilin-type pepti 99.5 6.5E-15 1.4E-19 117.9 3.0 83 12-94 7-89 (298)
57 KOG0123 Polyadenylate-binding 99.5 6E-14 1.3E-18 125.6 9.4 119 16-137 77-195 (369)
58 KOG0123 Polyadenylate-binding 99.5 4.9E-14 1.1E-18 126.1 8.7 103 16-137 2-104 (369)
59 KOG0108 mRNA cleavage and poly 99.5 4E-14 8.6E-19 127.9 7.5 79 16-94 19-97 (435)
60 KOG0147 Transcriptional coacti 99.5 4.8E-14 1E-18 126.7 6.2 119 16-135 279-398 (549)
61 KOG0146 RNA-binding protein ET 99.5 6.2E-14 1.3E-18 115.5 5.7 83 12-94 282-364 (371)
62 smart00361 RRM_1 RNA recogniti 99.5 2.8E-13 6.1E-18 92.7 7.3 61 29-89 2-69 (70)
63 KOG0147 Transcriptional coacti 99.4 8.9E-14 1.9E-18 125.0 2.4 128 10-138 174-307 (549)
64 KOG0144 RNA-binding protein CU 99.4 4.9E-13 1.1E-17 116.9 4.6 81 13-94 122-205 (510)
65 PF13893 RRM_5: RNA recognitio 99.4 2.2E-12 4.7E-17 84.3 6.4 55 32-91 1-55 (56)
66 KOG4208 Nucleolar RNA-binding 99.4 2.1E-12 4.5E-17 103.0 7.5 85 11-95 45-130 (214)
67 KOG0106 Alternative splicing f 99.3 2.9E-12 6.2E-17 104.7 4.7 113 16-136 2-126 (216)
68 KOG4454 RNA binding protein (R 99.3 1.4E-12 3.1E-17 104.6 2.4 80 11-92 5-84 (267)
69 KOG0131 Splicing factor 3b, su 99.3 6E-12 1.3E-16 98.4 5.6 85 10-94 91-176 (203)
70 KOG0109 RNA-binding protein LA 99.3 3.3E-12 7.1E-17 106.6 4.3 75 13-95 76-150 (346)
71 KOG1457 RNA binding protein (c 99.3 1.9E-11 4.1E-16 98.5 8.4 72 14-85 33-105 (284)
72 KOG0153 Predicted RNA-binding 99.3 1.4E-11 3E-16 105.3 7.2 85 4-94 217-302 (377)
73 KOG4211 Splicing factor hnRNP- 99.2 5.3E-11 1.2E-15 106.1 10.2 120 11-134 6-128 (510)
74 KOG0132 RNA polymerase II C-te 99.2 1.8E-11 3.9E-16 114.1 7.0 74 15-94 421-494 (894)
75 KOG0124 Polypyrimidine tract-b 99.2 4.8E-11 1E-15 102.6 6.4 75 15-89 210-284 (544)
76 KOG1190 Polypyrimidine tract-b 99.1 2.4E-10 5.1E-15 99.7 8.8 117 15-136 297-441 (492)
77 KOG4212 RNA-binding protein hn 99.1 1.3E-10 2.8E-15 102.1 7.0 77 10-91 531-607 (608)
78 KOG0533 RRM motif-containing p 99.1 2.4E-10 5.3E-15 95.5 8.1 80 14-94 82-161 (243)
79 KOG0110 RNA-binding protein (R 99.1 1.3E-10 2.8E-15 107.8 5.5 81 14-94 612-692 (725)
80 KOG4661 Hsp27-ERE-TATA-binding 99.1 2.8E-10 6E-15 103.0 6.5 78 15-92 405-482 (940)
81 KOG0146 RNA-binding protein ET 99.0 2.8E-10 6E-15 94.1 4.7 67 14-81 18-84 (371)
82 KOG4660 Protein Mei2, essentia 99.0 5.5E-10 1.2E-14 101.2 6.6 73 12-89 72-144 (549)
83 KOG4209 Splicing factor RNPS1, 99.0 5.7E-10 1.2E-14 93.5 5.1 78 13-91 99-176 (231)
84 KOG0116 RasGAP SH3 binding pro 98.9 1.5E-09 3.2E-14 97.8 6.7 81 11-92 284-364 (419)
85 KOG4205 RNA-binding protein mu 98.9 1.4E-09 3E-14 94.6 5.2 81 14-95 96-176 (311)
86 KOG1548 Transcription elongati 98.9 5E-09 1.1E-13 89.8 8.2 83 11-94 130-220 (382)
87 KOG0120 Splicing factor U2AF, 98.9 1.6E-09 3.5E-14 98.8 4.6 85 11-95 285-369 (500)
88 PF04059 RRM_2: RNA recognitio 98.9 1.8E-08 3.9E-13 72.5 8.4 68 16-83 2-71 (97)
89 KOG4676 Splicing factor, argin 98.8 1.8E-09 3.8E-14 93.8 2.4 63 16-83 152-214 (479)
90 KOG1995 Conserved Zn-finger pr 98.8 9E-09 2E-13 88.9 6.4 85 9-93 60-152 (351)
91 KOG0226 RNA-binding proteins [ 98.8 7.9E-09 1.7E-13 85.1 5.6 80 12-91 187-266 (290)
92 KOG0151 Predicted splicing reg 98.8 8.7E-09 1.9E-13 95.7 5.8 80 12-91 171-253 (877)
93 KOG0129 Predicted RNA-binding 98.7 6.2E-08 1.3E-12 87.4 10.0 124 11-136 255-398 (520)
94 KOG1457 RNA binding protein (c 98.6 4.6E-08 9.9E-13 79.2 4.5 69 10-82 205-273 (284)
95 KOG0106 Alternative splicing f 98.5 5.4E-08 1.2E-12 79.8 3.5 72 10-89 94-165 (216)
96 KOG0112 Large RNA-binding prot 98.5 5E-08 1.1E-12 93.0 1.9 117 10-137 367-483 (975)
97 PF08777 RRM_3: RNA binding mo 98.5 4.3E-07 9.3E-12 66.9 6.1 59 16-80 2-60 (105)
98 KOG1456 Heterogeneous nuclear 98.5 1.6E-06 3.4E-11 75.4 10.3 119 12-135 284-432 (494)
99 KOG0105 Alternative splicing f 98.4 1.1E-06 2.4E-11 69.3 7.9 70 5-81 105-174 (241)
100 KOG4849 mRNA cleavage factor I 98.4 2.1E-07 4.6E-12 80.0 3.7 74 16-89 81-156 (498)
101 KOG4206 Spliceosomal protein s 98.4 5E-07 1.1E-11 73.6 5.5 67 12-83 143-209 (221)
102 KOG2202 U2 snRNP splicing fact 98.4 7E-07 1.5E-11 74.0 6.3 64 30-94 83-147 (260)
103 COG5175 MOT2 Transcriptional r 98.4 1.5E-06 3.2E-11 74.6 7.9 105 14-118 113-226 (480)
104 KOG4211 Splicing factor hnRNP- 98.3 1.4E-06 3E-11 78.4 7.6 76 14-91 102-178 (510)
105 PF11608 Limkain-b1: Limkain b 98.3 3.4E-06 7.3E-11 58.1 7.6 68 16-93 3-75 (90)
106 KOG0128 RNA-binding protein SA 98.3 3.5E-08 7.6E-13 93.6 -3.7 102 11-137 663-764 (881)
107 KOG0120 Splicing factor U2AF, 98.3 7.9E-07 1.7E-11 81.5 5.1 121 12-139 172-319 (500)
108 KOG4210 Nuclear localization s 98.3 4.3E-07 9.3E-12 78.8 2.9 75 15-90 184-259 (285)
109 PF14605 Nup35_RRM_2: Nup53/35 98.3 2.5E-06 5.4E-11 54.5 5.2 52 16-74 2-53 (53)
110 KOG1190 Polypyrimidine tract-b 98.2 2.5E-06 5.5E-11 75.0 6.7 118 14-137 27-178 (492)
111 KOG2314 Translation initiation 98.2 3.5E-06 7.6E-11 76.9 6.3 75 13-88 56-136 (698)
112 KOG3152 TBP-binding protein, a 98.2 1.4E-06 3E-11 72.2 3.3 74 14-87 73-158 (278)
113 KOG2193 IGF-II mRNA-binding pr 98.1 3.7E-06 7.9E-11 74.3 4.3 104 16-137 2-108 (584)
114 KOG1365 RNA-binding protein Fu 98.1 4.2E-06 9.2E-11 73.0 4.3 82 11-93 276-360 (508)
115 PF05172 Nup35_RRM: Nup53/35/4 98.0 1.4E-05 3E-10 58.0 6.2 73 14-88 5-84 (100)
116 KOG1855 Predicted RNA-binding 98.0 5.6E-06 1.2E-10 73.3 4.5 70 13-82 229-311 (484)
117 KOG4210 Nuclear localization s 98.0 7E-06 1.5E-10 71.3 4.9 124 13-136 86-212 (285)
118 KOG0129 Predicted RNA-binding 97.9 3.4E-05 7.4E-10 70.0 7.6 68 9-76 364-432 (520)
119 KOG4307 RNA binding protein RB 97.9 2.7E-05 5.8E-10 72.9 6.1 72 17-89 869-941 (944)
120 PF08675 RNA_bind: RNA binding 97.8 0.0001 2.2E-09 50.8 6.7 56 15-79 9-64 (87)
121 PF08952 DUF1866: Domain of un 97.8 6.2E-05 1.3E-09 57.9 6.3 56 31-95 52-107 (146)
122 KOG1365 RNA-binding protein Fu 97.8 8.5E-05 1.8E-09 65.1 7.0 118 16-135 162-306 (508)
123 KOG1548 Transcription elongati 97.7 6.9E-05 1.5E-09 64.8 6.2 77 11-91 261-348 (382)
124 KOG2416 Acinus (induces apopto 97.7 3.1E-05 6.7E-10 71.3 3.7 78 9-92 438-519 (718)
125 KOG0112 Large RNA-binding prot 97.6 7.2E-05 1.6E-09 72.0 5.4 78 11-94 451-530 (975)
126 KOG1996 mRNA splicing factor [ 97.6 0.00015 3.2E-09 61.5 5.8 63 30-92 301-364 (378)
127 KOG1456 Heterogeneous nuclear 97.6 0.00035 7.5E-09 61.2 8.2 79 10-94 26-106 (494)
128 KOG2068 MOT2 transcription fac 97.5 6.7E-05 1.5E-09 64.9 2.5 102 15-117 77-185 (327)
129 KOG4307 RNA binding protein RB 97.3 0.00015 3.3E-09 68.0 3.3 83 7-90 426-509 (944)
130 PF10309 DUF2414: Protein of u 97.3 0.0012 2.5E-08 43.3 6.4 54 16-77 6-62 (62)
131 PF07576 BRAP2: BRCA1-associat 97.3 0.0028 6E-08 46.9 9.0 72 10-83 8-80 (110)
132 KOG0107 Alternative splicing f 97.2 0.0039 8.4E-08 49.2 9.6 29 108-136 9-37 (195)
133 KOG0128 RNA-binding protein SA 97.2 0.00012 2.6E-09 70.2 1.3 79 15-94 736-814 (881)
134 KOG4207 Predicted splicing fac 97.2 0.015 3.1E-07 47.3 12.8 29 108-136 12-40 (256)
135 KOG0113 U1 small nuclear ribon 97.2 0.002 4.4E-08 54.9 7.9 34 104-137 96-129 (335)
136 PF15023 DUF4523: Protein of u 97.1 0.002 4.4E-08 49.0 6.3 61 12-79 83-147 (166)
137 PF03467 Smg4_UPF3: Smg-4/UPF3 97.1 0.00061 1.3E-08 55.0 3.8 72 13-84 5-82 (176)
138 KOG2253 U1 snRNP complex, subu 97.0 0.00057 1.2E-08 64.1 3.4 109 14-131 39-157 (668)
139 KOG0115 RNA-binding protein p5 97.0 0.00091 2E-08 55.8 4.0 63 16-79 32-94 (275)
140 KOG0226 RNA-binding proteins [ 96.8 0.0016 3.4E-08 54.4 3.8 119 16-137 97-218 (290)
141 KOG2591 c-Mpl binding protein, 96.7 0.0033 7.2E-08 57.9 5.9 72 11-89 171-246 (684)
142 KOG4285 Mitotic phosphoprotein 96.5 0.007 1.5E-07 51.8 6.0 66 15-88 197-262 (350)
143 KOG4660 Protein Mei2, essentia 96.0 0.0087 1.9E-07 55.3 4.6 66 16-81 389-455 (549)
144 KOG2135 Proteins containing th 95.8 0.0031 6.8E-08 57.0 0.8 77 11-94 368-445 (526)
145 KOG0804 Cytoplasmic Zn-finger 95.7 0.039 8.4E-07 49.9 7.0 68 15-84 74-142 (493)
146 PF04847 Calcipressin: Calcipr 95.6 0.019 4.2E-07 46.6 4.4 61 28-94 8-70 (184)
147 PF03880 DbpA: DbpA RNA bindin 95.1 0.13 2.8E-06 35.2 6.7 65 17-90 2-72 (74)
148 PF11767 SET_assoc: Histone ly 95.0 0.11 2.3E-06 34.7 5.8 50 26-84 11-60 (66)
149 KOG4574 RNA-binding protein (c 94.9 0.013 2.9E-07 56.6 1.8 71 18-94 301-373 (1007)
150 KOG0149 Predicted RNA-binding 94.6 0.024 5.2E-07 47.0 2.2 33 109-141 12-44 (247)
151 KOG2318 Uncharacterized conser 94.2 0.37 7.9E-06 45.2 9.1 73 12-84 171-295 (650)
152 PF00076 RRM_1: RNA recognitio 94.1 0.048 1E-06 36.1 2.7 26 112-137 1-26 (70)
153 KOG4483 Uncharacterized conser 93.9 0.22 4.7E-06 44.5 7.0 80 2-89 378-458 (528)
154 PLN03134 glycine-rich RNA-bind 93.2 0.083 1.8E-06 41.2 2.9 31 107-137 32-62 (144)
155 KOG2891 Surface glycoprotein [ 93.0 0.04 8.6E-07 46.8 1.0 67 16-82 150-247 (445)
156 KOG2193 IGF-II mRNA-binding pr 92.4 0.0082 1.8E-07 53.7 -4.1 73 15-91 80-153 (584)
157 PF07292 NID: Nmi/IFP 35 domai 91.7 0.11 2.4E-06 36.7 1.7 70 60-130 1-73 (88)
158 KOG0114 Predicted RNA-binding 90.3 0.28 6.1E-06 35.5 2.7 30 108-137 17-46 (124)
159 KOG0126 Predicted RNA-binding 89.4 0.09 2E-06 42.0 -0.4 35 104-138 30-64 (219)
160 KOG4410 5-formyltetrahydrofola 89.0 1.3 2.9E-05 37.9 6.2 48 15-68 330-378 (396)
161 PLN03120 nucleic acid binding 88.8 0.38 8.2E-06 41.1 2.9 29 109-137 4-32 (260)
162 PF10567 Nab6_mRNP_bdg: RNA-re 88.7 1.3 2.9E-05 38.2 6.0 63 13-75 13-82 (309)
163 KOG1295 Nonsense-mediated deca 88.7 0.92 2E-05 40.6 5.2 70 14-83 6-78 (376)
164 KOG0121 Nuclear cap-binding pr 88.7 0.5 1.1E-05 35.6 3.1 31 109-139 36-66 (153)
165 PLN03213 repressor of silencin 88.5 0.44 9.4E-06 43.9 3.2 32 106-137 7-38 (759)
166 PF14259 RRM_6: RNA recognitio 88.3 0.42 9.1E-06 31.7 2.3 25 112-136 1-25 (70)
167 KOG0835 Cyclin L [General func 87.3 0.92 2E-05 39.7 4.3 24 58-82 174-197 (367)
168 KOG2295 C2H2 Zn-finger protein 87.0 0.093 2E-06 48.7 -1.9 74 12-85 228-301 (648)
169 PF03468 XS: XS domain; Inter 85.8 1.4 3.1E-05 32.9 4.1 56 17-75 10-75 (116)
170 KOG4454 RNA binding protein (R 85.1 0.23 4.9E-06 40.9 -0.4 69 14-83 79-151 (267)
171 smart00362 RRM_2 RNA recogniti 84.8 0.79 1.7E-05 29.6 2.3 27 111-137 1-27 (72)
172 COG5638 Uncharacterized conser 84.0 3.4 7.3E-05 37.4 6.3 39 11-49 142-185 (622)
173 KOG4019 Calcineurin-mediated s 84.0 0.56 1.2E-05 37.5 1.3 73 16-94 11-89 (193)
174 COG0724 RNA-binding proteins ( 83.9 1.7 3.8E-05 36.5 4.6 69 11-79 221-289 (306)
175 PRK08559 nusG transcription an 82.1 9.7 0.00021 29.9 7.7 33 42-79 36-68 (153)
176 PLN03121 nucleic acid binding 81.6 1.5 3.2E-05 37.0 3.0 29 109-137 5-33 (243)
177 KOG4365 Uncharacterized conser 79.3 0.73 1.6E-05 41.8 0.5 63 16-79 4-66 (572)
178 PF00403 HMA: Heavy-metal-asso 76.6 11 0.00025 24.0 5.6 54 17-76 1-58 (62)
179 cd00590 RRM RRM (RNA recogniti 76.4 2.6 5.7E-05 27.2 2.5 26 111-136 1-26 (74)
180 KOG2888 Putative RNA binding p 75.4 2 4.4E-05 37.6 2.1 7 58-64 161-167 (453)
181 KOG4008 rRNA processing protei 74.7 2.2 4.8E-05 35.6 2.0 36 11-46 36-71 (261)
182 PRK14548 50S ribosomal protein 73.9 13 0.00029 26.0 5.5 58 17-77 22-81 (84)
183 smart00596 PRE_C2HC PRE_C2HC d 73.6 3.8 8.2E-05 27.4 2.6 40 30-69 2-42 (69)
184 TIGR03636 L23_arch archaeal ri 72.9 15 0.00033 25.2 5.6 58 17-77 15-74 (77)
185 PF15513 DUF4651: Domain of un 72.9 9.9 0.00021 24.8 4.3 19 30-48 9-27 (62)
186 PF07530 PRE_C2HC: Associated 71.7 5.3 0.00012 26.7 3.0 43 30-72 2-45 (68)
187 KOG0115 RNA-binding protein p5 69.9 7.1 0.00015 33.2 4.0 55 69-138 6-60 (275)
188 KOG0153 Predicted RNA-binding 67.4 6.1 0.00013 35.0 3.2 34 104-137 223-256 (377)
189 PF09707 Cas_Cas2CT1978: CRISP 67.2 11 0.00023 26.6 3.8 46 17-65 27-72 (86)
190 TIGR00405 L26e_arch ribosomal 66.8 40 0.00087 26.0 7.6 24 56-79 37-60 (145)
191 CHL00123 rps6 ribosomal protei 66.2 33 0.00072 24.6 6.5 57 17-75 10-80 (97)
192 PF03439 Spt5-NGN: Early trans 66.0 11 0.00024 26.2 3.8 35 41-80 33-67 (84)
193 KOG0116 RasGAP SH3 binding pro 65.6 5 0.00011 37.0 2.5 28 111-138 290-317 (419)
194 KOG4213 RNA-binding protein La 64.8 8.7 0.00019 30.8 3.4 49 27-76 118-169 (205)
195 PF14026 DUF4242: Protein of u 63.8 44 0.00096 22.8 7.9 61 18-81 3-70 (77)
196 KOG3702 Nuclear polyadenylated 63.1 4.9 0.00011 38.6 2.0 71 17-88 513-583 (681)
197 KOG0130 RNA-binding protein RB 62.5 7.4 0.00016 29.8 2.5 30 108-137 71-100 (170)
198 PTZ00191 60S ribosomal protein 61.9 26 0.00056 27.2 5.4 56 17-75 83-140 (145)
199 COG0150 PurM Phosphoribosylami 61.9 3.7 8.1E-05 36.4 1.0 48 28-79 274-321 (345)
200 KOG0796 Spliceosome subunit [R 61.8 3.6 7.8E-05 36.0 0.8 14 66-79 146-159 (319)
201 KOG0125 Ataxin 2-binding prote 61.5 6.5 0.00014 34.6 2.3 32 106-137 93-124 (376)
202 COG5193 LHP1 La protein, small 61.5 3.8 8.2E-05 37.0 0.9 60 16-75 175-244 (438)
203 PF08734 GYD: GYD domain; Int 61.3 42 0.00091 23.7 6.2 46 30-79 23-69 (91)
204 PRK01178 rps24e 30S ribosomal 60.6 39 0.00085 24.4 5.9 46 26-72 30-80 (99)
205 KOG0533 RRM motif-containing p 60.4 6.6 0.00014 33.4 2.2 30 106-135 80-109 (243)
206 COG2608 CopZ Copper chaperone 59.9 32 0.00069 23.0 5.1 45 16-66 4-48 (71)
207 KOG0415 Predicted peptidyl pro 59.5 13 0.00029 33.1 3.9 33 104-136 234-266 (479)
208 KOG0132 RNA polymerase II C-te 57.0 7.5 0.00016 38.2 2.1 32 107-138 419-450 (894)
209 PF09902 DUF2129: Uncharacteri 56.3 34 0.00074 23.1 4.7 37 35-80 16-52 (71)
210 PRK10629 EnvZ/OmpR regulon mod 54.8 89 0.0019 23.7 7.3 60 14-81 34-97 (127)
211 KOG0108 mRNA cleavage and poly 54.4 11 0.00024 35.0 2.7 28 110-137 19-46 (435)
212 PTZ00071 40S ribosomal protein 53.7 31 0.00066 26.4 4.5 46 26-72 35-86 (132)
213 PF14893 PNMA: PNMA 53.1 14 0.0003 33.1 3.0 26 12-37 15-40 (331)
214 COG0030 KsgA Dimethyladenosine 52.2 19 0.00041 31.0 3.6 33 16-48 96-128 (259)
215 COG5507 Uncharacterized conser 52.2 24 0.00053 25.3 3.5 24 56-79 65-88 (117)
216 PRK02886 hypothetical protein; 51.8 42 0.00091 23.6 4.6 52 13-80 5-56 (87)
217 cd00027 BRCT Breast Cancer Sup 51.7 50 0.0011 20.7 5.1 27 16-42 2-28 (72)
218 PRK11901 hypothetical protein; 51.7 40 0.00087 29.9 5.6 62 13-79 243-306 (327)
219 PF11411 DNA_ligase_IV: DNA li 51.4 12 0.00026 21.5 1.6 17 25-41 19-35 (36)
220 PRK02302 hypothetical protein; 50.8 45 0.00097 23.6 4.7 52 13-80 7-58 (89)
221 PF01037 AsnC_trans_reg: AsnC 50.6 68 0.0015 20.9 6.5 45 28-76 11-55 (74)
222 KOG1175 Acyl-CoA synthetase [L 50.5 49 0.0011 32.4 6.5 89 27-133 508-599 (626)
223 PF08156 NOP5NT: NOP5NT (NUC12 49.8 5.2 0.00011 26.7 -0.1 39 30-78 27-65 (67)
224 PF07292 NID: Nmi/IFP 35 domai 49.8 8.2 0.00018 27.3 0.9 23 14-36 51-73 (88)
225 cd04904 ACT_AAAH ACT domain of 49.8 76 0.0016 21.2 7.5 49 29-79 14-65 (74)
226 COG3254 Uncharacterized conser 49.6 55 0.0012 23.8 5.0 43 30-75 27-69 (105)
227 PHA03008 hypothetical protein; 49.5 42 0.0009 27.5 4.9 49 1-49 6-55 (234)
228 PF14111 DUF4283: Domain of un 49.2 10 0.00023 29.3 1.5 108 18-136 18-132 (153)
229 CHL00030 rpl23 ribosomal prote 48.8 52 0.0011 23.5 4.9 34 17-50 20-55 (93)
230 PF11061 DUF2862: Protein of u 48.3 35 0.00076 22.5 3.6 39 21-66 10-51 (64)
231 PF01282 Ribosomal_S24e: Ribos 48.3 92 0.002 21.7 6.6 47 25-72 11-62 (84)
232 KOG3152 TBP-binding protein, a 48.1 15 0.00033 31.2 2.3 28 110-137 75-102 (278)
233 KOG3424 40S ribosomal protein 47.3 61 0.0013 24.2 5.1 46 26-72 34-84 (132)
234 PF11823 DUF3343: Protein of u 47.2 24 0.00052 23.7 2.9 30 58-87 2-31 (73)
235 smart00195 DSPc Dual specifici 46.9 58 0.0013 24.5 5.4 27 17-45 7-33 (138)
236 PF08544 GHMP_kinases_C: GHMP 46.4 89 0.0019 21.0 6.1 44 30-79 37-81 (85)
237 PRK11230 glycolate oxidase sub 46.3 64 0.0014 30.7 6.6 50 29-79 203-256 (499)
238 PRK11558 putative ssRNA endonu 45.9 33 0.00071 24.7 3.5 49 16-67 28-76 (97)
239 PRK07868 acyl-CoA synthetase; 45.5 1.7E+02 0.0036 30.6 9.9 83 26-133 868-955 (994)
240 PRK12280 rplW 50S ribosomal pr 45.4 55 0.0012 25.8 5.0 33 17-49 23-57 (158)
241 smart00738 NGN In Spt5p, this 45.3 39 0.00084 24.2 4.0 23 57-79 59-81 (106)
242 PTZ00108 DNA topoisomerase 2-l 45.3 77 0.0017 34.1 7.4 98 16-132 886-987 (1388)
243 PF00398 RrnaAD: Ribosomal RNA 44.2 20 0.00044 30.7 2.7 27 15-41 97-125 (262)
244 cd04905 ACT_CM-PDT C-terminal 44.1 97 0.0021 20.8 5.7 50 29-79 15-68 (80)
245 cd04909 ACT_PDH-BS C-terminal 43.8 87 0.0019 20.2 6.1 48 29-78 15-63 (69)
246 PF05573 NosL: NosL; InterPro 43.3 12 0.00025 29.3 1.0 24 56-79 113-136 (149)
247 cd04879 ACT_3PGDH-like ACT_3PG 42.7 85 0.0018 19.7 5.4 32 18-49 2-34 (71)
248 PF02714 DUF221: Domain of unk 42.2 32 0.00069 30.4 3.7 20 60-79 1-20 (325)
249 cd04880 ACT_AAAH-PDT-like ACT 42.1 1E+02 0.0022 20.4 5.5 50 29-79 13-66 (75)
250 PF08206 OB_RNB: Ribonuclease 42.1 4 8.8E-05 26.2 -1.5 11 56-66 7-17 (58)
251 cd00187 TOP4c DNA Topoisomeras 41.6 1E+02 0.0022 28.9 7.0 96 16-132 226-326 (445)
252 KOG0156 Cytochrome P450 CYP2 s 40.4 62 0.0014 30.7 5.5 60 18-87 35-97 (489)
253 TIGR00587 nfo apurinic endonuc 40.0 35 0.00076 29.5 3.5 59 15-79 137-203 (274)
254 smart00434 TOP4c DNA Topoisome 39.8 1.1E+02 0.0023 28.8 6.8 49 16-65 233-284 (445)
255 COG5584 Predicted small secret 39.2 52 0.0011 23.5 3.5 32 22-53 29-60 (103)
256 PF02829 3H: 3H domain; Inter 39.0 1.3E+02 0.0028 21.7 5.8 50 27-79 9-58 (98)
257 TIGR00387 glcD glycolate oxida 38.9 89 0.0019 28.8 6.2 52 26-78 143-198 (413)
258 PLN03237 DNA topoisomerase 2; 38.8 86 0.0019 33.9 6.6 99 15-132 907-1013(1465)
259 cd04889 ACT_PDH-BS-like C-term 38.4 95 0.0021 19.0 5.9 42 30-74 13-55 (56)
260 TIGR01062 parC_Gneg DNA topois 38.2 1.8E+02 0.0039 29.3 8.4 47 17-64 247-296 (735)
261 PF07876 Dabb: Stress responsi 37.7 1.4E+02 0.003 20.7 6.8 56 18-73 4-70 (97)
262 COG0002 ArgC Acetylglutamate s 37.7 58 0.0013 29.3 4.5 47 22-68 252-304 (349)
263 PF04127 DFP: DNA / pantothena 37.5 86 0.0019 25.5 5.2 59 17-77 20-79 (185)
264 cd04878 ACT_AHAS N-terminal AC 37.2 1.1E+02 0.0023 19.3 7.2 50 28-79 13-64 (72)
265 cd04908 ACT_Bt0572_1 N-termina 36.9 1.1E+02 0.0025 19.5 6.6 45 30-79 16-61 (66)
266 COG0318 CaiC Acyl-CoA syntheta 36.8 2.5E+02 0.0054 26.7 9.1 81 26-130 433-521 (534)
267 KOG1999 RNA polymerase II tran 36.7 65 0.0014 32.9 5.0 34 55-89 208-241 (1024)
268 COG2061 ACT-domain-containing 36.5 2.1E+02 0.0046 22.5 6.8 66 14-80 87-154 (170)
269 TIGR00755 ksgA dimethyladenosi 36.3 39 0.00084 28.7 3.2 24 17-40 96-119 (253)
270 COG0858 RbfA Ribosome-binding 36.3 64 0.0014 24.1 3.9 35 39-79 33-71 (118)
271 PF00276 Ribosomal_L23: Riboso 36.2 28 0.00062 24.6 2.0 51 18-68 22-84 (91)
272 COG0217 Uncharacterized conser 36.1 1.1E+02 0.0023 26.0 5.5 56 15-75 94-157 (241)
273 PRK11863 N-acetyl-gamma-glutam 36.1 1E+02 0.0023 27.3 5.9 33 16-48 210-245 (313)
274 KOG3671 Actin regulatory prote 35.8 72 0.0016 30.0 4.8 49 26-79 89-137 (569)
275 PF05189 RTC_insert: RNA 3'-te 35.7 57 0.0012 23.5 3.6 49 17-65 12-65 (103)
276 PF14270 DUF4358: Domain of un 35.5 80 0.0017 22.8 4.3 53 27-79 15-68 (106)
277 PLN02968 Probable N-acetyl-gam 35.4 58 0.0012 29.8 4.3 32 16-48 279-311 (381)
278 PRK08279 long-chain-acyl-CoA s 35.4 2.3E+02 0.0051 27.2 8.8 41 25-65 470-512 (600)
279 PF09383 NIL: NIL domain; Int 35.4 1.1E+02 0.0024 20.4 4.8 53 25-79 12-68 (76)
280 PF00521 DNA_topoisoIV: DNA gy 35.4 40 0.00086 31.4 3.3 95 16-133 217-315 (426)
281 KOG0111 Cyclophilin-type pepti 35.3 24 0.00051 29.4 1.6 31 107-137 8-38 (298)
282 COG2004 RPS24A Ribosomal prote 35.0 1.8E+02 0.0038 21.4 5.8 47 25-72 30-81 (107)
283 KOG2836 Protein tyrosine phosp 34.5 1.3E+02 0.0027 23.2 5.2 48 1-48 1-49 (173)
284 PTZ00338 dimethyladenosine tra 34.5 42 0.00092 29.5 3.2 24 17-40 103-126 (294)
285 PF14581 SseB_C: SseB protein 34.2 46 0.001 24.1 2.9 53 14-66 4-59 (108)
286 cd06405 PB1_Mekk2_3 The PB1 do 34.1 1.5E+02 0.0033 20.2 6.6 50 22-79 15-65 (79)
287 PF12623 Hen1_L: RNA repair, l 33.9 98 0.0021 26.1 4.9 59 16-75 119-181 (245)
288 PF14111 DUF4283: Domain of un 33.7 44 0.00096 25.6 2.9 33 17-49 106-139 (153)
289 KOG0862 Synaptobrevin/VAMP-lik 33.7 27 0.00059 28.9 1.7 13 55-67 107-119 (216)
290 PF06014 DUF910: Bacterial pro 33.5 27 0.00059 22.8 1.3 16 29-44 4-19 (62)
291 COG5353 Uncharacterized protei 33.3 2E+02 0.0043 22.5 6.1 54 16-69 88-154 (161)
292 KOG3432 Vacuolar H+-ATPase V1 33.3 62 0.0013 23.7 3.2 22 24-45 42-63 (121)
293 PTZ00237 acetyl-CoA synthetase 33.2 1.9E+02 0.0042 28.3 7.9 41 25-65 523-564 (647)
294 KOG4840 Predicted hydrolases o 33.0 60 0.0013 27.4 3.6 68 14-86 36-109 (299)
295 KOG0829 60S ribosomal protein 32.9 78 0.0017 24.8 3.9 78 5-82 7-95 (169)
296 TIGR01873 cas_CT1978 CRISPR-as 32.6 29 0.00063 24.4 1.5 46 17-66 27-74 (87)
297 KOG2187 tRNA uracil-5-methyltr 32.6 50 0.0011 31.3 3.4 35 57-91 63-97 (534)
298 PF12829 Mhr1: Transcriptional 32.5 1.2E+02 0.0025 21.6 4.5 53 23-79 20-73 (91)
299 PF04026 SpoVG: SpoVG; InterP 32.3 79 0.0017 22.1 3.6 26 41-66 2-27 (84)
300 PRK00274 ksgA 16S ribosomal RN 32.1 50 0.0011 28.5 3.2 22 17-38 107-128 (272)
301 PF15063 TC1: Thyroid cancer p 32.0 30 0.00064 23.5 1.4 53 13-77 23-78 (79)
302 PF04059 RRM_2: RNA recognitio 31.9 50 0.0011 23.8 2.6 24 110-133 2-25 (97)
303 PRK12378 hypothetical protein; 31.6 3.2E+02 0.007 23.2 9.6 53 15-72 91-149 (235)
304 PRK09188 serine/threonine prot 31.3 2.3E+02 0.0051 25.7 7.5 51 14-65 223-279 (365)
305 PF11491 DUF3213: Protein of u 31.2 1.3E+02 0.0028 21.0 4.3 64 18-88 3-70 (88)
306 PF07045 DUF1330: Protein of u 29.8 1.2E+02 0.0027 19.6 4.1 42 32-75 11-57 (65)
307 PF13291 ACT_4: ACT domain; PD 29.8 1.7E+02 0.0038 19.5 6.1 63 17-79 8-71 (80)
308 PLN02805 D-lactate dehydrogena 29.7 1.6E+02 0.0035 28.5 6.5 50 28-78 279-332 (555)
309 TIGR01033 DNA-binding regulato 29.6 1.7E+02 0.0037 24.8 5.9 44 15-65 94-143 (238)
310 KOG2287 Galactosyltransferases 29.5 1.2E+02 0.0026 27.3 5.3 57 14-78 128-186 (349)
311 PF01842 ACT: ACT domain; Int 29.4 1.5E+02 0.0032 18.5 5.3 45 30-77 15-61 (66)
312 KOG0122 Translation initiation 29.4 50 0.0011 28.1 2.6 31 107-137 187-217 (270)
313 PRK11634 ATP-dependent RNA hel 29.3 4.8E+02 0.01 25.7 9.7 65 15-88 486-556 (629)
314 PRK05561 DNA topoisomerase IV 29.3 1.1E+02 0.0025 30.7 5.5 50 15-65 258-310 (742)
315 PF13193 AMP-binding_C: AMP-bi 29.2 1.7E+02 0.0036 19.1 5.4 34 31-64 1-35 (73)
316 cd04903 ACT_LSD C-terminal ACT 29.1 1.5E+02 0.0033 18.6 6.6 50 28-79 12-64 (71)
317 PF15407 Spo7_2_N: Sporulation 28.5 23 0.00049 23.6 0.4 24 15-38 27-50 (67)
318 PF13820 Nucleic_acid_bd: Puta 28.5 97 0.0021 24.2 3.9 60 16-79 5-67 (149)
319 smart00650 rADc Ribosomal RNA 28.5 75 0.0016 25.0 3.5 23 16-38 78-100 (169)
320 PF11910 NdhO: Cyanobacterial 28.2 47 0.001 21.8 1.7 22 35-66 31-52 (67)
321 PRK09631 DNA topoisomerase IV 28.1 2.6E+02 0.0057 27.6 7.5 57 15-75 220-280 (635)
322 cd04883 ACT_AcuB C-terminal AC 27.7 1.7E+02 0.0037 18.8 6.8 48 29-79 15-65 (72)
323 PF11215 DUF3010: Protein of u 27.5 1.1E+02 0.0025 23.5 4.0 51 23-79 37-94 (138)
324 PF14401 RLAN: RimK-like ATPgr 27.4 1.2E+02 0.0025 23.9 4.2 60 15-74 87-147 (153)
325 PRK13259 regulatory protein Sp 27.1 1E+02 0.0022 22.1 3.5 26 41-66 2-27 (94)
326 PLN02655 ent-kaurene oxidase 26.7 1.2E+02 0.0026 28.3 5.0 48 19-75 9-59 (466)
327 PRK13817 ribosome-binding fact 26.6 80 0.0017 23.6 3.1 19 40-64 32-50 (119)
328 COG0079 HisC Histidinol-phosph 26.6 71 0.0015 28.9 3.3 48 14-72 145-196 (356)
329 PHA02275 hypothetical protein 26.5 18 0.00038 25.9 -0.5 53 27-79 23-75 (125)
330 cd06404 PB1_aPKC PB1 domain is 26.4 2.3E+02 0.005 19.8 6.6 56 17-79 10-70 (83)
331 PLN03128 DNA topoisomerase 2; 26.4 2.8E+02 0.006 29.5 7.7 56 15-72 881-941 (1135)
332 TIGR01063 gyrA DNA gyrase, A s 25.8 1.6E+02 0.0034 30.0 5.8 97 16-133 249-349 (800)
333 KOG1176 Acyl-CoA synthetase [L 25.6 2.7E+02 0.0058 26.9 7.1 85 25-131 439-527 (537)
334 TIGR01061 parC_Gpos DNA topois 25.6 1.8E+02 0.004 29.2 6.2 97 16-133 249-349 (738)
335 PF10281 Ish1: Putative stress 25.5 63 0.0014 18.5 1.9 17 26-42 3-19 (38)
336 KOG1232 Proteins containing th 25.2 88 0.0019 28.6 3.5 54 21-75 230-287 (511)
337 PF13046 DUF3906: Protein of u 25.1 71 0.0015 21.0 2.2 33 28-62 31-63 (64)
338 cd04931 ACT_PAH ACT domain of 24.9 2.5E+02 0.0055 19.7 7.9 49 29-79 28-80 (90)
339 cd04902 ACT_3PGDH-xct C-termin 24.7 2E+02 0.0043 18.4 4.9 50 28-79 12-64 (73)
340 PF09341 Pcc1: Transcription f 24.7 1.1E+02 0.0024 20.5 3.3 22 58-79 3-24 (76)
341 PF05336 DUF718: Domain of unk 24.5 1.6E+02 0.0034 21.4 4.3 38 29-69 25-62 (106)
342 TIGR00082 rbfA ribosome-bindin 24.4 1.4E+02 0.0031 22.0 4.1 33 41-79 34-69 (114)
343 COG5470 Uncharacterized conser 24.2 1.5E+02 0.0032 21.3 3.8 19 57-75 53-71 (96)
344 COG0445 GidA Flavin-dependent 24.2 1.2E+02 0.0027 29.2 4.4 41 9-49 295-335 (621)
345 PRK04199 rpl10e 50S ribosomal 24.1 2.7E+02 0.0059 22.4 5.7 57 14-76 80-151 (172)
346 TIGR01217 ac_ac_CoA_syn acetoa 24.1 4E+02 0.0086 26.1 8.3 41 26-66 531-572 (652)
347 TIGR00288 conserved hypothetic 24.1 3E+02 0.0064 21.9 5.9 36 15-50 24-64 (160)
348 PRK05560 DNA gyrase subunit A; 24.1 2.1E+02 0.0045 29.2 6.3 98 15-133 251-352 (805)
349 PF02033 RBFA: Ribosome-bindin 23.8 1.7E+02 0.0037 21.0 4.4 34 40-79 29-65 (104)
350 PF07521 RMMBL: RNA-metabolisi 23.6 1.4E+02 0.0031 17.6 3.3 32 16-48 7-38 (43)
351 PRK06545 prephenate dehydrogen 23.5 5.2E+02 0.011 23.2 8.4 64 13-79 288-353 (359)
352 PTZ00380 microtubule-associate 23.5 1.2E+02 0.0026 22.8 3.4 38 16-69 71-109 (121)
353 PF14657 Integrase_AP2: AP2-li 23.3 1.4E+02 0.003 17.8 3.2 31 49-79 9-39 (46)
354 COG0365 Acs Acyl-coenzyme A sy 23.3 6.4E+02 0.014 24.3 9.1 88 26-132 428-518 (528)
355 PRK15464 cold shock-like prote 23.3 55 0.0012 21.9 1.5 10 57-66 16-25 (70)
356 PF06130 PduL: Propanediol uti 23.2 1.6E+02 0.0036 19.8 3.8 30 18-47 4-33 (71)
357 KOG3346 Phosphatidylethanolami 22.8 2.2E+02 0.0048 23.2 5.1 48 12-68 83-132 (185)
358 cd01611 GABARAP Ubiquitin doma 22.6 1.6E+02 0.0036 21.7 4.0 26 14-40 70-95 (112)
359 PF05036 SPOR: Sporulation rel 22.6 25 0.00054 23.2 -0.3 61 15-78 4-65 (76)
360 KOG2996 Rho guanine nucleotide 22.2 53 0.0012 31.5 1.7 62 23-85 490-552 (865)
361 PF09702 Cas_Csa5: CRISPR-asso 21.9 1.1E+02 0.0024 22.2 2.9 23 12-37 61-83 (105)
362 KOG1177 Long chain fatty acid 21.9 4.3E+02 0.0092 25.3 7.3 80 25-125 492-576 (596)
363 cd04882 ACT_Bt0572_2 C-termina 21.9 2.1E+02 0.0046 17.7 5.7 47 30-79 14-61 (65)
364 PRK07787 acyl-CoA synthetase; 21.9 2.9E+02 0.0064 25.4 6.7 39 26-64 383-422 (471)
365 PLN00168 Cytochrome P450; Prov 21.8 2.2E+02 0.0049 26.9 5.9 51 17-76 43-98 (519)
366 KOG2805 tRNA (5-methylaminomet 21.6 1.8E+02 0.004 25.9 4.6 45 14-65 153-208 (377)
367 COG4010 Uncharacterized protei 21.6 4E+02 0.0086 20.8 6.4 48 22-79 118-165 (170)
368 KOG2854 Possible pfkB family c 21.5 1E+02 0.0022 27.5 3.2 65 14-79 159-233 (343)
369 PHA03075 glutaredoxin-like pro 21.5 1.5E+02 0.0032 22.2 3.4 32 31-65 58-89 (123)
370 cd06408 PB1_NoxR The PB1 domai 21.4 2.5E+02 0.0053 19.8 4.5 55 18-78 13-68 (86)
371 PRK09937 stationary phase/star 21.4 71 0.0015 21.6 1.8 9 57-65 13-21 (74)
372 PF01823 MACPF: MAC/Perforin d 21.2 1.4E+02 0.0031 24.1 4.0 29 20-48 53-84 (212)
373 PF12687 DUF3801: Protein of u 21.2 2.3E+02 0.005 23.4 5.1 57 26-84 38-97 (204)
374 KOG2311 NAD/FAD-utilizing prot 21.2 1.5E+02 0.0032 28.3 4.2 70 10-86 325-397 (679)
375 TIGR01851 argC_other N-acetyl- 21.0 1.9E+02 0.004 25.7 4.7 33 16-48 211-246 (310)
376 PF13600 DUF4140: N-terminal d 21.0 35 0.00075 24.6 0.2 32 15-48 23-56 (104)
377 COG0418 PyrC Dihydroorotase [N 20.9 2.2E+02 0.0049 25.2 5.0 57 18-76 73-129 (344)
378 cd04489 ExoVII_LU_OBF ExoVII_L 20.8 70 0.0015 21.3 1.7 23 39-68 5-27 (78)
379 TIGR02316 propion_prpE propion 20.6 7.3E+02 0.016 24.0 9.3 41 26-66 504-545 (628)
380 COG1839 Uncharacterized conser 20.6 3.2E+02 0.007 21.2 5.2 27 12-38 12-38 (162)
381 COG1084 Predicted GTPase [Gene 20.5 4.2E+02 0.0092 23.8 6.7 65 13-82 166-252 (346)
382 KOG0918 Selenium-binding prote 20.4 72 0.0016 29.3 2.0 59 13-71 398-457 (476)
383 PLN00110 flavonoid 3',5'-hydro 20.4 2.2E+02 0.0048 26.9 5.5 49 19-76 41-91 (504)
384 COG0656 ARA1 Aldo/keto reducta 20.4 1.7E+02 0.0037 25.5 4.3 56 16-79 75-131 (280)
385 TIGR02542 B_forsyth_147 Bacter 20.3 77 0.0017 23.5 1.8 45 24-68 83-130 (145)
386 PRK10905 cell division protein 20.3 1.7E+02 0.0037 26.0 4.2 61 14-79 246-308 (328)
387 PRK09274 peptide synthase; Pro 20.2 4.7E+02 0.01 24.7 7.8 41 26-66 452-492 (552)
388 PF02426 MIase: Muconolactone 20.2 3.3E+02 0.0071 19.3 6.5 54 22-79 10-73 (91)
389 KOG1975 mRNA cap methyltransfe 20.1 1.9E+02 0.004 26.0 4.4 41 26-77 180-223 (389)
390 PRK13818 ribosome-binding fact 20.1 2.1E+02 0.0045 21.5 4.2 21 39-65 31-53 (121)
391 KOG3388 Predicted transcriptio 20.0 1.7E+02 0.0037 21.9 3.6 59 7-65 23-98 (136)
392 TIGR02381 cspD cold shock doma 20.0 78 0.0017 20.9 1.7 10 57-66 13-22 (68)
No 1
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.95 E-value=4.8e-27 Score=185.31 Aligned_cols=104 Identities=51% Similarity=0.825 Sum_probs=96.9
Q ss_pred CCCCCCCCCCCCCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCc
Q 022930 1 MSHFGKSGPPDIRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGL 80 (290)
Q Consensus 1 m~~~~~~~~~~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~ 80 (290)
|++++. ||++..+++|.|-||.+.|+.++|..+|++||.|.+|.|+.|+.|++++|||||.|.+..+|+.||++|+|
T Consensus 1 MS~g~~--PPdv~gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG- 77 (256)
T KOG4207|consen 1 MSYGRP--PPDVEGMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDG- 77 (256)
T ss_pred CCCCCC--CCCcccceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcc-
Confidence 888764 89999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccccceehhhhHHhhhccccccCcceeEEEEeccCcccchhHHHHHhhccCCchhhhccccc
Q 022930 81 FLNFNFVHEILKSSLFLRKNLYLCIGFLFFFLIFFILGRVVDGREITVQFAKYGPNAEKIQQGRI 145 (290)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~~~~~~~~~~ 145 (290)
..|+|.+|.|.||.||...+.+....+
T Consensus 78 --------------------------------------~~ldgRelrVq~arygr~~d~~~s~~~ 104 (256)
T KOG4207|consen 78 --------------------------------------AVLDGRELRVQMARYGRPSDLPHSSRV 104 (256)
T ss_pred --------------------------------------eeeccceeeehhhhcCCCccccccccc
Confidence 899999999999999998766555443
No 2
>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=99.91 E-value=7.3e-24 Score=188.06 Aligned_cols=121 Identities=23% Similarity=0.292 Sum_probs=107.5
Q ss_pred CCCCCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccc
Q 022930 9 PPDIRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVH 88 (290)
Q Consensus 9 ~~~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~ 88 (290)
+.+....++|||+|||++||+++|+++|++||+|+.|+|+.|+.|+.++|||||+|.++++|+.||+.||++.|.++.|.
T Consensus 101 ~~~~~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~ 180 (346)
T TIGR01659 101 NDTNNSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLK 180 (346)
T ss_pred cCCCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceee
Confidence 34556778999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eehhhhHHhhhccccccCcceeEEEEeccCcccchhHHHHHhhccCCch
Q 022930 89 EILKSSLFLRKNLYLCIGFLFFFLIFFILGRVVDGREITVQFAKYGPNA 137 (290)
Q Consensus 89 ~~~~~~~~~~~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~~ 137 (290)
|.+..... ......+|||+|||..+++++|...|++||.+.
T Consensus 181 V~~a~p~~--------~~~~~~~lfV~nLp~~vtee~L~~~F~~fG~V~ 221 (346)
T TIGR01659 181 VSYARPGG--------ESIKDTNLYVTNLPRTITDDQLDTIFGKYGQIV 221 (346)
T ss_pred eecccccc--------cccccceeEEeCCCCcccHHHHHHHHHhcCCEE
Confidence 87764321 112356899999999999999999999998753
No 3
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.87 E-value=1.1e-21 Score=176.50 Aligned_cols=114 Identities=25% Similarity=0.333 Sum_probs=103.3
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehhhh
Q 022930 15 TYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILKSS 94 (290)
Q Consensus 15 ~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~~~ 94 (290)
.++|||+|||+.||+++|+++|..||+|..|.|+.++.+|+++|||||+|.+.++|+.||+.|||..|.|+.|.|.+...
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~~i~v~~a~~ 82 (352)
T TIGR01661 3 KTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYARP 82 (352)
T ss_pred CcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEeecc
Confidence 47899999999999999999999999999999999999999999999999999999999999999999999999877644
Q ss_pred HHhhhccccccCcceeEEEEeccCcccchhHHHHHhhccCCc
Q 022930 95 LFLRKNLYLCIGFLFFFLIFFILGRVVDGREITVQFAKYGPN 136 (290)
Q Consensus 95 ~~~~~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~ 136 (290)
.. ......+|||+|||..++.++|...|..||..
T Consensus 83 ~~--------~~~~~~~l~v~~l~~~~~~~~l~~~f~~~G~i 116 (352)
T TIGR01661 83 SS--------DSIKGANLYVSGLPKTMTQHELESIFSPFGQI 116 (352)
T ss_pred cc--------cccccceEEECCccccCCHHHHHHHHhccCCE
Confidence 21 12234579999999999999999999999875
No 4
>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=99.85 E-value=2.9e-21 Score=180.43 Aligned_cols=126 Identities=20% Similarity=0.289 Sum_probs=106.1
Q ss_pred CCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceeh
Q 022930 12 IRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEIL 91 (290)
Q Consensus 12 ~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~ 91 (290)
....++|||+||++.+++++|+++|.+||+|..|.|+.|+.||+++|||||+|.+.++|+.||+.|||..|+|+.|.|..
T Consensus 104 ~~~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~r 183 (612)
T TIGR01645 104 LAIMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGR 183 (612)
T ss_pred hcCCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeecc
Confidence 34568999999999999999999999999999999999999999999999999999999999999999999999998864
Q ss_pred hhhHHhhhc---cccccCcceeEEEEeccCcccchhHHHHHhhccCCch
Q 022930 92 KSSLFLRKN---LYLCIGFLFFFLIFFILGRVVDGREITVQFAKYGPNA 137 (290)
Q Consensus 92 ~~~~~~~~~---~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~~ 137 (290)
......... ..........+|||+||+..+++++|...|..||...
T Consensus 184 p~~~p~a~~~~~~~~~~~~~~~rLfVgnLp~~vteedLk~lFs~FG~I~ 232 (612)
T TIGR01645 184 PSNMPQAQPIIDMVQEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIV 232 (612)
T ss_pred cccccccccccccccccccccceEEeecCCCCCCHHHHHHHHhhcCCee
Confidence 332111100 0111223446899999999999999999999999864
No 5
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.85 E-value=8.5e-21 Score=146.50 Aligned_cols=61 Identities=36% Similarity=0.584 Sum_probs=58.7
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCC
Q 022930 14 DTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 14 ~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
-+++||||||+..+++.||+.+|..||+|..|+|..++ .|||||||+++.+|+.|+..|+|
T Consensus 9 ~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArnP-----PGfAFVEFed~RDA~DAvr~LDG 69 (195)
T KOG0107|consen 9 GNTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARNP-----PGFAFVEFEDPRDAEDAVRYLDG 69 (195)
T ss_pred CCceEEeccCCCCcchHHHHHHHHhcCcceeEEEeecC-----CCceEEeccCcccHHHHHhhcCC
Confidence 46899999999999999999999999999999999876 89999999999999999999999
No 6
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.84 E-value=2.4e-21 Score=150.43 Aligned_cols=121 Identities=23% Similarity=0.271 Sum_probs=106.9
Q ss_pred CCCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcccccccccee
Q 022930 11 DIRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEI 90 (290)
Q Consensus 11 ~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~ 90 (290)
+.++..|||||||+..++++.|+++|-+.|+|+.|.|+.|..+..++|||||+|.++++|+-||+.||.+.|.|++|.|.
T Consensus 5 ~rnqd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~ 84 (203)
T KOG0131|consen 5 ERNQDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVN 84 (203)
T ss_pred ccCCCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEE
Confidence 45667899999999999999999999999999999999999999999999999999999999999999999999999986
Q ss_pred hhhhHHhhhccccccCcceeEEEEeccCcccchhHHHHHhhccCCchh
Q 022930 91 LKSSLFLRKNLYLCIGFLFFFLIFFILGRVVDGREITVQFAKYGPNAE 138 (290)
Q Consensus 91 ~~~~~~~~~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~~~ 138 (290)
.... ... ......+|||+||...+++..|...|+.||....
T Consensus 85 kas~--~~~-----nl~vganlfvgNLd~~vDe~~L~dtFsafG~l~~ 125 (203)
T KOG0131|consen 85 KASA--HQK-----NLDVGANLFVGNLDPEVDEKLLYDTFSAFGVLIS 125 (203)
T ss_pred eccc--ccc-----cccccccccccccCcchhHHHHHHHHHhcccccc
Confidence 5541 111 1222378999999999999999999999998654
No 7
>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=99.84 E-value=1.7e-20 Score=174.62 Aligned_cols=126 Identities=25% Similarity=0.262 Sum_probs=106.1
Q ss_pred CCCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcccccccccee
Q 022930 11 DIRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEI 90 (290)
Q Consensus 11 ~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~ 90 (290)
...+..+|||+|||+.+|+++|+++|++||+|..|.|+.++.++.++|||||+|.+.++|.+||. |+|+.|.|..|.|.
T Consensus 85 ~~~~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~-l~g~~~~g~~i~v~ 163 (457)
T TIGR01622 85 AERDDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALA-LTGQMLLGRPIIVQ 163 (457)
T ss_pred cccCCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHH-hCCCEECCeeeEEe
Confidence 34557899999999999999999999999999999999999999999999999999999999998 89999999999887
Q ss_pred hhhhHHhhhcc----ccccCcceeEEEEeccCcccchhHHHHHhhccCCch
Q 022930 91 LKSSLFLRKNL----YLCIGFLFFFLIFFILGRVVDGREITVQFAKYGPNA 137 (290)
Q Consensus 91 ~~~~~~~~~~~----~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~~ 137 (290)
........... .........+|||+|||..+++++|...|.+||...
T Consensus 164 ~~~~~~~~~~~~~~~~~~~~p~~~~l~v~nl~~~~te~~l~~~f~~~G~i~ 214 (457)
T TIGR01622 164 SSQAEKNRAAKAATHQPGDIPNFLKLYVGNLHFNITEQELRQIFEPFGDIE 214 (457)
T ss_pred ecchhhhhhhhcccccCCCCCCCCEEEEcCCCCCCCHHHHHHHHHhcCCeE
Confidence 66542221111 111112357899999999999999999999999753
No 8
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.84 E-value=1.5e-20 Score=164.05 Aligned_cols=111 Identities=28% Similarity=0.380 Sum_probs=100.4
Q ss_pred CCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceeh
Q 022930 12 IRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEIL 91 (290)
Q Consensus 12 ~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~ 91 (290)
+..++-||||.||.++.|++|..||++.|+|.++.|++|+.+|.++|||||.|.+.++|+.||+.||+..|-
T Consensus 80 p~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir-------- 151 (506)
T KOG0117|consen 80 PPRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIR-------- 151 (506)
T ss_pred CCCCceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCcccc--------
Confidence 356789999999999999999999999999999999999999999999999999999999999999997663
Q ss_pred hhhHHhhhccccccCcceeEEEEeccCcccchhHHHHHhhccCC
Q 022930 92 KSSLFLRKNLYLCIGFLFFFLIFFILGRVVDGREITVQFAKYGP 135 (290)
Q Consensus 92 ~~~~~~~~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~ 135 (290)
..+.+.+|.+..++.|||||||+....++|..++++.++
T Consensus 152 -----~GK~igvc~Svan~RLFiG~IPK~k~keeIlee~~kVte 190 (506)
T KOG0117|consen 152 -----PGKLLGVCVSVANCRLFIGNIPKTKKKEEILEEMKKVTE 190 (506)
T ss_pred -----CCCEeEEEEeeecceeEeccCCccccHHHHHHHHHhhCC
Confidence 233445667788999999999999999999999998665
No 9
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=99.83 E-value=4.3e-20 Score=172.29 Aligned_cols=108 Identities=26% Similarity=0.305 Sum_probs=95.5
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcccc-ccccceeh
Q 022930 13 RDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLN-FNFVHEIL 91 (290)
Q Consensus 13 ~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~-~~~~~~~~ 91 (290)
...++|||+|||++++|++|.++|++||+|..|.|+.| .+|.++|||||+|.+.++|+.||+.||+..|. ++.|.+.
T Consensus 56 ~~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D-~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V~- 133 (578)
T TIGR01648 56 GRGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMD-FSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGVC- 133 (578)
T ss_pred CCCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEEC-CCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCcccccc-
Confidence 45689999999999999999999999999999999999 89999999999999999999999999998774 4544432
Q ss_pred hhhHHhhhccccccCcceeEEEEeccCcccchhHHHHHhhccCC
Q 022930 92 KSSLFLRKNLYLCIGFLFFFLIFFILGRVVDGREITVQFAKYGP 135 (290)
Q Consensus 92 ~~~~~~~~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~ 135 (290)
......+|||+|||..++.++|..+|.++++
T Consensus 134 -------------~S~~~~rLFVgNLP~~~TeeeL~eeFskv~e 164 (578)
T TIGR01648 134 -------------ISVDNCRLFVGGIPKNKKREEILEEFSKVTE 164 (578)
T ss_pred -------------ccccCceeEeecCCcchhhHHHHHHhhcccC
Confidence 2344678999999999999999999998753
No 10
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.82 E-value=1.1e-19 Score=142.02 Aligned_cols=80 Identities=30% Similarity=0.432 Sum_probs=73.0
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehh
Q 022930 13 RDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILK 92 (290)
Q Consensus 13 ~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~ 92 (290)
...++|||+|||+++|+++|+++|++||+|+.|.|+.+..|++++|||||+|.+.++|+.||+.||+..|+++.|.|.+.
T Consensus 32 ~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a 111 (144)
T PLN03134 32 LMSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPA 111 (144)
T ss_pred CCCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeC
Confidence 34678999999999999999999999999999999999999999999999999999999999999997777777666543
No 11
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.81 E-value=5.7e-20 Score=159.76 Aligned_cols=122 Identities=25% Similarity=0.314 Sum_probs=102.6
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccc-cccccceeh
Q 022930 13 RDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFL-NFNFVHEIL 91 (290)
Q Consensus 13 ~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~-~~~~~~~~~ 91 (290)
.+..+||||.||..|+|.||+++|++||.|.+|.|+.|+.|+..+|||||.|.+.++|.+|+.+|+.++. .|...-|..
T Consensus 32 ~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvqv 111 (510)
T KOG0144|consen 32 GSAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQV 111 (510)
T ss_pred chhhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcceee
Confidence 4567899999999999999999999999999999999999999999999999999999999999998554 454433333
Q ss_pred hhhHHhhhccccccCcceeEEEEeccCcccchhHHHHHhhccCCchhh
Q 022930 92 KSSLFLRKNLYLCIGFLFFFLIFFILGRVVDGREITVQFAKYGPNAEK 139 (290)
Q Consensus 92 ~~~~~~~~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~~~~ 139 (290)
+-...+.+++ ....|||||.|++..++.+|.+.|++||.+++.
T Consensus 112 k~Ad~E~er~-----~~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~ 154 (510)
T KOG0144|consen 112 KYADGERERI-----VEERKLFVGMLSKQCTENEVREIFSRFGHIEDC 154 (510)
T ss_pred cccchhhhcc-----ccchhhhhhhccccccHHHHHHHHHhhCccchh
Confidence 3333333333 457899999999999999999999999987643
No 12
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=99.81 E-value=1.6e-19 Score=172.03 Aligned_cols=115 Identities=22% Similarity=0.277 Sum_probs=101.9
Q ss_pred EEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehhhhHH
Q 022930 17 SLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILKSSLF 96 (290)
Q Consensus 17 ~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~~~~~ 96 (290)
+|||+|||++|||++|.++|.+||+|..|.|+.|..|++++|||||+|.+.++|+.||+.||+..|.|+.|.+.+.....
T Consensus 2 sl~VgnLp~~vte~~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s~~~~ 81 (562)
T TIGR01628 2 SLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQRDP 81 (562)
T ss_pred eEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeecccccc
Confidence 69999999999999999999999999999999999999999999999999999999999999999999999987764322
Q ss_pred hhhccccccCcceeEEEEeccCcccchhHHHHHhhccCCch
Q 022930 97 LRKNLYLCIGFLFFFLIFFILGRVVDGREITVQFAKYGPNA 137 (290)
Q Consensus 97 ~~~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~~ 137 (290)
... .....+|||+|||..++.+.|...|..||...
T Consensus 82 ~~~------~~~~~~vfV~nLp~~~~~~~L~~~F~~~G~i~ 116 (562)
T TIGR01628 82 SLR------RSGVGNIFVKNLDKSVDNKALFDTFSKFGNIL 116 (562)
T ss_pred ccc------ccCCCceEEcCCCccCCHHHHHHHHHhcCCcc
Confidence 111 11234699999999999999999999998753
No 13
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.80 E-value=2.7e-19 Score=148.92 Aligned_cols=80 Identities=26% Similarity=0.460 Sum_probs=75.1
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehhh
Q 022930 14 DTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILKS 93 (290)
Q Consensus 14 ~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~~ 93 (290)
.-+||||+-|+++++|..|+..|+.||+|+.|.|+.|+.||+++|||||+|+++.++.+|.+..+|++|+++.|.|.+-.
T Consensus 100 Py~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VDvER 179 (335)
T KOG0113|consen 100 PYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDVER 179 (335)
T ss_pred ccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEEecc
Confidence 34799999999999999999999999999999999999999999999999999999999999999999999888876543
No 14
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.80 E-value=2.2e-19 Score=146.80 Aligned_cols=116 Identities=25% Similarity=0.334 Sum_probs=105.0
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehh
Q 022930 13 RDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILK 92 (290)
Q Consensus 13 ~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~ 92 (290)
...+.|+|..||.++|+++|+.+|...|+|++|+|+.|+.+|++.||+||.|.+++||++||..|||..|..+.|+|.+.
T Consensus 39 ~skTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSyA 118 (360)
T KOG0145|consen 39 ESKTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSYA 118 (360)
T ss_pred cccceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEEec
Confidence 34467999999999999999999999999999999999999999999999999999999999999999999999999887
Q ss_pred hhHHhhhccccccCcceeEEEEeccCcccchhHHHHHhhccCCc
Q 022930 93 SSLFLRKNLYLCIGFLFFFLIFFILGRVVDGREITVQFAKYGPN 136 (290)
Q Consensus 93 ~~~~~~~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~ 136 (290)
.+.. .......|+|.+||+.++..+|...|++||..
T Consensus 119 RPSs--------~~Ik~aNLYvSGlPktMtqkelE~iFs~fGrI 154 (360)
T KOG0145|consen 119 RPSS--------DSIKDANLYVSGLPKTMTQKELEQIFSPFGRI 154 (360)
T ss_pred cCCh--------hhhcccceEEecCCccchHHHHHHHHHHhhhh
Confidence 6632 22334569999999999999999999999975
No 15
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.79 E-value=3.9e-19 Score=146.09 Aligned_cols=128 Identities=20% Similarity=0.308 Sum_probs=108.5
Q ss_pred CCCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcccccccccee
Q 022930 11 DIRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEI 90 (290)
Q Consensus 11 ~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~ 90 (290)
......-|||+.|...|+-++|++.|.+||+|.+++|+.|..|++++|||||-|.+.++|+.||+.|||+.|+.+.|..-
T Consensus 58 t~~~hfhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTN 137 (321)
T KOG0148|consen 58 TSNQHFHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTN 137 (321)
T ss_pred ccccceeEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeecc
Confidence 44445679999999999999999999999999999999999999999999999999999999999999999999999875
Q ss_pred hhhhHHhhhc---c-----ccccCcceeEEEEeccCcccchhHHHHHhhccCCchh
Q 022930 91 LKSSLFLRKN---L-----YLCIGFLFFFLIFFILGRVVDGREITVQFAKYGPNAE 138 (290)
Q Consensus 91 ~~~~~~~~~~---~-----~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~~~ 138 (290)
+..-.....+ + .-.....++.++||||+..++++.|+..|+.||++.+
T Consensus 138 WATRKp~e~n~~~ltfdeV~NQssp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~E 193 (321)
T KOG0148|consen 138 WATRKPSEMNGKPLTFDEVYNQSSPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQE 193 (321)
T ss_pred ccccCccccCCCCccHHHHhccCCCCCceEEeCCcCccccHHHHHHhcccCCcceE
Confidence 5443221111 1 1123455678999999999999999999999999754
No 16
>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=99.76 E-value=3e-18 Score=117.40 Aligned_cols=70 Identities=30% Similarity=0.574 Sum_probs=65.8
Q ss_pred EEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccc
Q 022930 18 LLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVH 88 (290)
Q Consensus 18 l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~ 88 (290)
|||+|||+++|+++|.++|++||.|..+.|+.+ .++..+|||||+|.+.++|+.||+.|||..|++..|+
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~-~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir 70 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRN-SSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR 70 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEE-TTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhccccccccc-ccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence 799999999999999999999999999999987 6889999999999999999999999999888887653
No 17
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.76 E-value=3.4e-18 Score=153.89 Aligned_cols=82 Identities=30% Similarity=0.461 Sum_probs=76.9
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehh
Q 022930 13 RDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILK 92 (290)
Q Consensus 13 ~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~ 92 (290)
..+.+|||+|||+.|++++|.++|++||.|+.|.|+.|..|+.++|||||+|.+.++|..||..|||..|+|+.|.|.|.
T Consensus 267 ~~~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V~~~ 346 (352)
T TIGR01661 267 GAGYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQVSFK 346 (352)
T ss_pred CCCcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEc
Confidence 44557999999999999999999999999999999999999999999999999999999999999999999999998877
Q ss_pred hh
Q 022930 93 SS 94 (290)
Q Consensus 93 ~~ 94 (290)
..
T Consensus 347 ~~ 348 (352)
T TIGR01661 347 TN 348 (352)
T ss_pred cC
Confidence 54
No 18
>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=99.76 E-value=6.5e-18 Score=157.74 Aligned_cols=118 Identities=22% Similarity=0.223 Sum_probs=97.5
Q ss_pred CCCcEEEEcCCCC-CCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceeh
Q 022930 13 RDTYSLLVLNITF-RTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEIL 91 (290)
Q Consensus 13 ~~~~~l~V~nL~~-~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~ 91 (290)
..+++|||+||++ .||+++|.++|++||.|..|+|+.++ +|||||+|.+.++|..||..|||..|.|+.|.|.+
T Consensus 273 ~~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~-----~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~ 347 (481)
T TIGR01649 273 GPGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNK-----KETALIEMADPYQAQLALTHLNGVKLFGKPLRVCP 347 (481)
T ss_pred CCCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEE
Confidence 3568999999998 69999999999999999999998774 69999999999999999999999999999999876
Q ss_pred hhhHHhh-h-------cc-----c-------c---------ccCcceeEEEEeccCcccchhHHHHHhhccCC
Q 022930 92 KSSLFLR-K-------NL-----Y-------L---------CIGFLFFFLIFFILGRVVDGREITVQFAKYGP 135 (290)
Q Consensus 92 ~~~~~~~-~-------~~-----~-------~---------~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~ 135 (290)
....... . .. . . ....+..+|||+|||..+++++|...|+.+|.
T Consensus 348 s~~~~~~~~~~~~~~~~~~~~~d~~~~~~~r~~~~~~~~~~~~~~ps~~L~v~NLp~~~tee~L~~lF~~~G~ 420 (481)
T TIGR01649 348 SKQQNVQPPREGQLDDGLTSYKDYSSSRNHRFKKPGSANKNNIQPPSATLHLSNIPLSVSEEDLKELFAENGV 420 (481)
T ss_pred cccccccCCCCCcCcCCCcccccccCCccccCCCcccccccccCCCCcEEEEecCCCCCCHHHHHHHHHhcCC
Confidence 5432100 0 00 0 0 01124568999999999999999999999997
No 19
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.75 E-value=8.1e-18 Score=158.70 Aligned_cols=126 Identities=23% Similarity=0.259 Sum_probs=98.4
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehh
Q 022930 13 RDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILK 92 (290)
Q Consensus 13 ~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~ 92 (290)
....+|||+|||+.||+++|.++|++||.|..|.|+.+..+|.++|||||+|.+.++|..||+.|||+.|+++.|.|.+.
T Consensus 293 ~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a 372 (509)
T TIGR01642 293 DSKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRA 372 (509)
T ss_pred CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEC
Confidence 34578999999999999999999999999999999999999999999999999999999999999999999998887654
Q ss_pred hhHHhh-----hc-----------cc----cccCcceeEEEEeccCcc--c-c-------hhHHHHHhhccCCchh
Q 022930 93 SSLFLR-----KN-----------LY----LCIGFLFFFLIFFILGRV--V-D-------GREITVQFAKYGPNAE 138 (290)
Q Consensus 93 ~~~~~~-----~~-----------~~----~~~~~~~~~l~v~~l~~~--~-~-------~~~l~~~f~~~g~~~~ 138 (290)
...... .+ +. .....+...|+|.||... + + .++|..+|.+||....
T Consensus 373 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~v~~l~N~~~~~~l~~d~~~~~~~edl~~~f~~~G~v~~ 448 (509)
T TIGR01642 373 CVGANQATIDTSNGMAPVTLLAKALSQSILQIGGKPTKVVQLTNLVTGDDLMDDEEYEEIYEDVKTEFSKYGPLIN 448 (509)
T ss_pred ccCCCCCCccccccccccccccccchhhhccccCCCceEEEeccCCchhHhcCcchHHHHHHHHHHHHHhcCCeeE
Confidence 321100 00 00 011224556888888532 1 1 2468889999998653
No 20
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.75 E-value=3.4e-18 Score=125.41 Aligned_cols=84 Identities=26% Similarity=0.457 Sum_probs=77.9
Q ss_pred CCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceeh
Q 022930 12 IRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEIL 91 (290)
Q Consensus 12 ~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~ 91 (290)
...++||||+||++.|+|++|.+||.++|+|..|.|-.|+.+..+.|||||+|...++|+.||..++|..|++++|.+.+
T Consensus 33 ~r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~ 112 (153)
T KOG0121|consen 33 LRKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDW 112 (153)
T ss_pred HhhcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeec
Confidence 45679999999999999999999999999999999999999999999999999999999999999999999999988776
Q ss_pred hhhH
Q 022930 92 KSSL 95 (290)
Q Consensus 92 ~~~~ 95 (290)
....
T Consensus 113 D~GF 116 (153)
T KOG0121|consen 113 DAGF 116 (153)
T ss_pred cccc
Confidence 6443
No 21
>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=99.75 E-value=8.9e-18 Score=156.82 Aligned_cols=117 Identities=14% Similarity=0.062 Sum_probs=96.4
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHh--CCccccccccceehh
Q 022930 15 TYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRL--DGLFLNFNFVHEILK 92 (290)
Q Consensus 15 ~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l--~g~~~~~~~~~~~~~ 92 (290)
+.+|||+|||+.+|+++|+++|++||+|..|.|+.+ +|||||+|.++++|+.||..| ++..|.|+.|.|.+.
T Consensus 2 s~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~~------k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~s 75 (481)
T TIGR01649 2 SPVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLPG------KRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNYS 75 (481)
T ss_pred ccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEECC------CCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEec
Confidence 578999999999999999999999999999999865 689999999999999999864 789999999999887
Q ss_pred hhHHhhhcc----ccccCcceeEEEEeccCcccchhHHHHHhhccCCch
Q 022930 93 SSLFLRKNL----YLCIGFLFFFLIFFILGRVVDGREITVQFAKYGPNA 137 (290)
Q Consensus 93 ~~~~~~~~~----~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~~ 137 (290)
......... .........+|+|+||+..++.+.|...|+.||...
T Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~~v~v~nl~~~vt~~~L~~~F~~~G~V~ 124 (481)
T TIGR01649 76 TSQEIKRDGNSDFDSAGPNKVLRVIVENPMYPITLDVLYQIFNPYGKVL 124 (481)
T ss_pred CCcccccCCCCcccCCCCCceEEEEEcCCCCCCCHHHHHHHHhccCCEE
Confidence 542111110 011122345789999999999999999999999864
No 22
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.74 E-value=1.6e-18 Score=143.94 Aligned_cols=105 Identities=27% Similarity=0.358 Sum_probs=95.6
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehhhhH
Q 022930 16 YSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILKSSL 95 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~~~~ 95 (290)
.+|||||||.++++.+|+.+|++||+|.+|+|+.+ ||||..++...|+.||..|||..|+|..|.|..++..
T Consensus 3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIvKN--------YgFVHiEdktaaedairNLhgYtLhg~nInVeaSksK 74 (346)
T KOG0109|consen 3 VKLFIGNLPREATEQELRSLFEQYGKVLECDIVKN--------YGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSK 74 (346)
T ss_pred cchhccCCCcccchHHHHHHHHhhCceEeeeeecc--------cceEEeecccccHHHHhhcccceecceEEEEEecccc
Confidence 46999999999999999999999999999999955 9999999999999999999999999999998766543
Q ss_pred HhhhccccccCcceeEEEEeccCcccchhHHHHHhhccCCchh
Q 022930 96 FLRKNLYLCIGFLFFFLIFFILGRVVDGREITVQFAKYGPNAE 138 (290)
Q Consensus 96 ~~~~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~~~ 138 (290)
....+|||||||.......+|+..|.+||+..+
T Consensus 75 ----------sk~stkl~vgNis~tctn~ElRa~fe~ygpvie 107 (346)
T KOG0109|consen 75 ----------SKASTKLHVGNISPTCTNQELRAKFEKYGPVIE 107 (346)
T ss_pred ----------CCCccccccCCCCccccCHHHhhhhcccCCcee
Confidence 445688999999999999999999999998543
No 23
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=99.73 E-value=1.3e-17 Score=158.94 Aligned_cols=118 Identities=25% Similarity=0.351 Sum_probs=100.0
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehhhh
Q 022930 15 TYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILKSS 94 (290)
Q Consensus 15 ~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~~~ 94 (290)
..+|||+|||+++++++|+++|+.||.|..|.|+.+ .+|+++|||||+|.+.++|..||+.|||..+.++.|.+.....
T Consensus 88 ~~~vfV~nLp~~~~~~~L~~~F~~~G~i~~~~i~~~-~~g~skg~afV~F~~~e~A~~Ai~~lng~~~~~~~i~v~~~~~ 166 (562)
T TIGR01628 88 VGNIFVKNLDKSVDNKALFDTFSKFGNILSCKVATD-ENGKSRGYGFVHFEKEESAKAAIQKVNGMLLNDKEVYVGRFIK 166 (562)
T ss_pred CCceEEcCCCccCCHHHHHHHHHhcCCcceeEeeec-CCCCcccEEEEEECCHHHHHHHHHHhcccEecCceEEEecccc
Confidence 457999999999999999999999999999999988 4788999999999999999999999999999999887754332
Q ss_pred HHhhhccccccCcceeEEEEeccCcccchhHHHHHhhccCCc
Q 022930 95 LFLRKNLYLCIGFLFFFLIFFILGRVVDGREITVQFAKYGPN 136 (290)
Q Consensus 95 ~~~~~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~ 136 (290)
..... ........+|||+|||..+++++|...|..||..
T Consensus 167 ~~~~~---~~~~~~~~~l~V~nl~~~~tee~L~~~F~~fG~i 205 (562)
T TIGR01628 167 KHERE---AAPLKKFTNLYVKNLDPSVNEDKLRELFAKFGEI 205 (562)
T ss_pred ccccc---cccccCCCeEEEeCCCCcCCHHHHHHHHHhcCCE
Confidence 21111 1123344679999999999999999999999874
No 24
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.73 E-value=1.5e-17 Score=156.97 Aligned_cols=119 Identities=18% Similarity=0.181 Sum_probs=89.9
Q ss_pred CCCCcEEEEcCCCCCCCHHHHHHHHhcC------------CCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCC
Q 022930 12 IRDTYSLLVLNITFRTTADDLFPLFEKY------------GKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 12 ~~~~~~l~V~nL~~~~t~~~L~~~F~~~------------G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
.....+|||||||+.||+++|.+||.+| +.|..|.+.. .+|||||+|.++++|..||. |||
T Consensus 172 ~~~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~~~------~kg~afVeF~~~e~A~~Al~-l~g 244 (509)
T TIGR01642 172 TRQARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNINK------EKNFAFLEFRTVEEATFAMA-LDS 244 (509)
T ss_pred CccccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEECC------CCCEEEEEeCCHHHHhhhhc-CCC
Confidence 4456899999999999999999999875 3445555543 38999999999999999995 999
Q ss_pred ccccccccceehhhhHH---------hhhc------------cccccCcceeEEEEeccCcccchhHHHHHhhccCCch
Q 022930 80 LFLNFNFVHEILKSSLF---------LRKN------------LYLCIGFLFFFLIFFILGRVVDGREITVQFAKYGPNA 137 (290)
Q Consensus 80 ~~~~~~~~~~~~~~~~~---------~~~~------------~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~~ 137 (290)
+.|.|..|.+....... .... ..........+|||+|||..+++++|...|..||...
T Consensus 245 ~~~~g~~l~v~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~ 323 (509)
T TIGR01642 245 IIYSNVFLKIRRPHDYIPVPQITPEVSQKNPDDNAKNVEKLVNSTTVLDSKDRIYIGNLPLYLGEDQIKELLESFGDLK 323 (509)
T ss_pred eEeeCceeEecCccccCCccccCCCCCCCCCcccccccccccccccCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCee
Confidence 99999888774322100 0000 0001223456899999999999999999999998754
No 25
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.72 E-value=8.9e-18 Score=135.87 Aligned_cols=75 Identities=23% Similarity=0.457 Sum_probs=66.4
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccce
Q 022930 14 DTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHE 89 (290)
Q Consensus 14 ~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~ 89 (290)
.-++||||||+|.++.++|+.+|++||+|+++.|+.|+.||+++||+||+|.+.++|..|++..|- .|+|+...+
T Consensus 11 ~~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~p-iIdGR~aNc 85 (247)
T KOG0149|consen 11 TFTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPNP-IIDGRKANC 85 (247)
T ss_pred eEEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCCCC-ccccccccc
Confidence 347899999999999999999999999999999999999999999999999999999999995443 455555444
No 26
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.72 E-value=7.1e-18 Score=143.99 Aligned_cols=124 Identities=20% Similarity=0.300 Sum_probs=106.7
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehhhh
Q 022930 15 TYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILKSS 94 (290)
Q Consensus 15 ~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~~~ 94 (290)
+|.||||.|.+++.|+.|+..|..||+|++|.|-.|+.|++++|||||+|+-+|.|+-|++.|||..++|+.|+|-....
T Consensus 113 McRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgrPsN 192 (544)
T KOG0124|consen 113 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPSN 192 (544)
T ss_pred hHheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccCCCC
Confidence 68899999999999999999999999999999999999999999999999999999999999999999999999864433
Q ss_pred HHhh---hccccccCcceeEEEEeccCcccchhHHHHHhhccCCchh
Q 022930 95 LFLR---KNLYLCIGFLFFFLIFFILGRVVDGREITVQFAKYGPNAE 138 (290)
Q Consensus 95 ~~~~---~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~~~ 138 (290)
..+. ..........-+.+||..+...+.+.+|+-.|..||+...
T Consensus 193 mpQAQpiID~vqeeAk~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~ 239 (544)
T KOG0124|consen 193 MPQAQPIIDMVQEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVK 239 (544)
T ss_pred CcccchHHHHHHHHHHhhheEEeeecCCCccHHHHHHHHHhhcceee
Confidence 2111 1112233444578999999999999999999999998643
No 27
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.71 E-value=4.7e-19 Score=137.57 Aligned_cols=87 Identities=29% Similarity=0.487 Sum_probs=81.9
Q ss_pred CCCCCCCCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcccccc
Q 022930 6 KSGPPDIRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFN 85 (290)
Q Consensus 6 ~~~~~~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~ 85 (290)
.++..+..++.-|||||||+.+||.||..+|++||+|+.|.|+.|+.||+++||||+.|+++.+..-|+..|||+.|.|+
T Consensus 26 ~SWH~~YkdsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gR 105 (219)
T KOG0126|consen 26 KSWHQEYKDSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGR 105 (219)
T ss_pred cchhhhcccceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecce
Confidence 36677888999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccceehh
Q 022930 86 FVHEILK 92 (290)
Q Consensus 86 ~~~~~~~ 92 (290)
.|.|...
T Consensus 106 tirVDHv 112 (219)
T KOG0126|consen 106 TIRVDHV 112 (219)
T ss_pred eEEeeec
Confidence 9987533
No 28
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.69 E-value=5.3e-17 Score=131.89 Aligned_cols=84 Identities=30% Similarity=0.501 Sum_probs=77.4
Q ss_pred CCCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcccccccccee
Q 022930 11 DIRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEI 90 (290)
Q Consensus 11 ~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~ 90 (290)
.-.++++|-|.||+.++++++|++||..||.|..|.|..|++||.++|||||.|...++|++||..|||.-++..+|.|.
T Consensus 185 ~R~D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvE 264 (270)
T KOG0122|consen 185 ERDDEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVE 264 (270)
T ss_pred cCCccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEE
Confidence 44578899999999999999999999999999999999999999999999999999999999999999988887777776
Q ss_pred hhhh
Q 022930 91 LKSS 94 (290)
Q Consensus 91 ~~~~ 94 (290)
++.+
T Consensus 265 wskP 268 (270)
T KOG0122|consen 265 WSKP 268 (270)
T ss_pred ecCC
Confidence 6543
No 29
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=99.69 E-value=4.8e-17 Score=120.41 Aligned_cols=84 Identities=31% Similarity=0.525 Sum_probs=75.0
Q ss_pred CCCCCCCCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcccccc
Q 022930 6 KSGPPDIRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFN 85 (290)
Q Consensus 6 ~~~~~~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~ 85 (290)
.++|.-..++..|||+++...+|+++|.+.|..||+|+.|.|..|.-||-.+|||+|+|++.++|++||.+|||..|.++
T Consensus 63 ~pgPqrSVEGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q 142 (170)
T KOG0130|consen 63 RPGPQRSVEGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQ 142 (170)
T ss_pred CCCCccceeeEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCC
Confidence 35666777889999999999999999999999999999999999999999999999999999999999999999544444
Q ss_pred ccce
Q 022930 86 FVHE 89 (290)
Q Consensus 86 ~~~~ 89 (290)
.|.|
T Consensus 143 ~v~V 146 (170)
T KOG0130|consen 143 NVSV 146 (170)
T ss_pred ceeE
Confidence 4443
No 30
>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=99.69 E-value=1.2e-16 Score=109.70 Aligned_cols=69 Identities=30% Similarity=0.566 Sum_probs=63.2
Q ss_pred EEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcccccccc
Q 022930 18 LLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFV 87 (290)
Q Consensus 18 l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~ 87 (290)
|||+|||+.+++++|.++|..||.|..|.++.++. +..+|+|||+|.++++|..|++.+++..|+|+.|
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~-~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l 69 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKD-GQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKL 69 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTT-SSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEE
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeec-cccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEc
Confidence 79999999999999999999999999999999876 8999999999999999999999999988888765
No 31
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.68 E-value=3.6e-16 Score=110.58 Aligned_cols=82 Identities=28% Similarity=0.469 Sum_probs=73.7
Q ss_pred CCCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcccccccccee
Q 022930 11 DIRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEI 90 (290)
Q Consensus 11 ~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~ 90 (290)
++..+..|||.|||+.+|.+++.++|++||.|..|.|-. +...+|-|||.|++..+|..|++.|+|.-+.+.++.|.
T Consensus 14 ppevnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~---~k~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vl 90 (124)
T KOG0114|consen 14 PPEVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGN---TKETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVL 90 (124)
T ss_pred ChhhheeEEEecCCccccHHHHHHHhhcccceEEEEecC---ccCcCceEEEEehHhhhHHHHHHHhcccccCCceEEEE
Confidence 344567899999999999999999999999999999964 45668999999999999999999999999999999998
Q ss_pred hhhhH
Q 022930 91 LKSSL 95 (290)
Q Consensus 91 ~~~~~ 95 (290)
+.+..
T Consensus 91 yyq~~ 95 (124)
T KOG0114|consen 91 YYQPE 95 (124)
T ss_pred ecCHH
Confidence 87764
No 32
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=99.67 E-value=4.1e-17 Score=140.40 Aligned_cols=73 Identities=16% Similarity=0.243 Sum_probs=64.5
Q ss_pred EEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCC---CCcceEEEEEEccHHHHHHHHHHhCCccccccccce
Q 022930 17 SLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRT---GDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHE 89 (290)
Q Consensus 17 ~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~t---g~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~ 89 (290)
.|.|.||.+.+|.++|+.||+.+|+|.++.|+.+... ....-.|||.|.+...+..|+.+.|.++|+..+|++
T Consensus 9 vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQhLtntvfvdraliv~ 84 (479)
T KOG4676|consen 9 VIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQHLTNTVFVDRALIVR 84 (479)
T ss_pred eeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhhhccceeeeeeEEEE
Confidence 6999999999999999999999999999999874322 344568999999999999999999999999888875
No 33
>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=99.67 E-value=2e-16 Score=140.61 Aligned_cols=79 Identities=35% Similarity=0.499 Sum_probs=71.2
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccc--cccceeh
Q 022930 14 DTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNF--NFVHEIL 91 (290)
Q Consensus 14 ~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~--~~~~~~~ 91 (290)
..++|||+|||+.||+++|+++|++||+|+.|.|+.++.+++++|||||+|.+.++|++||+.||++.|.+ +.|.|.+
T Consensus 192 ~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V~~ 271 (346)
T TIGR01659 192 KDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNVIPEGGSQPLTVRL 271 (346)
T ss_pred ccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEE
Confidence 45789999999999999999999999999999999999999999999999999999999999999987765 4555443
Q ss_pred h
Q 022930 92 K 92 (290)
Q Consensus 92 ~ 92 (290)
.
T Consensus 272 a 272 (346)
T TIGR01659 272 A 272 (346)
T ss_pred C
Confidence 3
No 34
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.65 E-value=1.7e-16 Score=135.14 Aligned_cols=87 Identities=28% Similarity=0.447 Sum_probs=82.3
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehh
Q 022930 13 RDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILK 92 (290)
Q Consensus 13 ~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~ 92 (290)
.+.+.|||+.|++-||.++|.-+|+.||+|..|.|+.|..||.+..||||+|++.++|++|+-+|+++.|++..|+|.|+
T Consensus 237 PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDFS 316 (479)
T KOG0415|consen 237 PPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDFS 316 (479)
T ss_pred CCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEeehh
Confidence 34578999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHhhh
Q 022930 93 SSLFLRK 99 (290)
Q Consensus 93 ~~~~~~~ 99 (290)
+++.+.+
T Consensus 317 QSVsk~k 323 (479)
T KOG0415|consen 317 QSVSKVK 323 (479)
T ss_pred hhhhhhh
Confidence 9977643
No 35
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.65 E-value=5.3e-16 Score=129.74 Aligned_cols=75 Identities=20% Similarity=0.243 Sum_probs=68.6
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehhh
Q 022930 15 TYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILKS 93 (290)
Q Consensus 15 ~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~~ 93 (290)
.++|||+|||+.+|+++|++||+.||+|+.|.|+.+.. ..|||||+|.++++|+.||. |||..|.|+.|.|....
T Consensus 4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~---~~GfAFVtF~d~eaAe~All-LnG~~l~gr~V~Vt~a~ 78 (260)
T PLN03120 4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENE---RSQIAYVTFKDPQGAETALL-LSGATIVDQSVTITPAE 78 (260)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCC---CCCEEEEEeCcHHHHHHHHH-hcCCeeCCceEEEEecc
Confidence 57899999999999999999999999999999988753 46899999999999999996 99999999999886654
No 36
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.64 E-value=8.4e-16 Score=126.51 Aligned_cols=74 Identities=27% Similarity=0.316 Sum_probs=67.4
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceeh
Q 022930 14 DTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEIL 91 (290)
Q Consensus 14 ~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~ 91 (290)
.+++|||+||++.+|+++|++||+.||+|..|.|+.+ +...|||||+|.++++|+.||. |+|..|.++.|.+..
T Consensus 4 ~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D---~et~gfAfVtF~d~~aaetAll-LnGa~l~d~~I~It~ 77 (243)
T PLN03121 4 GGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRS---GEYACTAYVTFKDAYALETAVL-LSGATIVDQRVCITR 77 (243)
T ss_pred CceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecC---CCcceEEEEEECCHHHHHHHHh-cCCCeeCCceEEEEe
Confidence 4689999999999999999999999999999999987 4455899999999999999996 999999999987744
No 37
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.63 E-value=2.1e-15 Score=130.21 Aligned_cols=122 Identities=29% Similarity=0.286 Sum_probs=103.7
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehhh-
Q 022930 15 TYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILKS- 93 (290)
Q Consensus 15 ~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~~- 93 (290)
.++|||+|||+.+|+++|.++|.+||.|..|.|+.++.++.++|||||+|.++++|..|+..|+|..|.++.|.|....
T Consensus 115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~~ 194 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQP 194 (306)
T ss_pred CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeecccc
Confidence 5899999999999999999999999999999999998899999999999999999999999999999999999988743
Q ss_pred ---hHHhhh------------ccccccCcceeEEEEeccCcccchhHHHHHhhccCCc
Q 022930 94 ---SLFLRK------------NLYLCIGFLFFFLIFFILGRVVDGREITVQFAKYGPN 136 (290)
Q Consensus 94 ---~~~~~~------------~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~ 136 (290)
...... ............+++.+++..+....+...|..++..
T Consensus 195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 252 (306)
T COG0724 195 ASQPRSELSNNLDASFAKKLSRGKALLLEKSDNLYVGNLPLKTAEEELADLFKSRGDI 252 (306)
T ss_pred ccccccccccccchhhhccccccccccccccceeeccccccccchhHHHHhccccccc
Confidence 211111 1111233445568999999999999999999888775
No 38
>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=99.63 E-value=1.7e-15 Score=141.11 Aligned_cols=79 Identities=32% Similarity=0.531 Sum_probs=75.9
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehhh
Q 022930 15 TYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILKS 93 (290)
Q Consensus 15 ~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~~ 93 (290)
..+|||+|||+.+|+++|.++|++||.|..|.|+.+..+|.++|||||+|.+.++|..||..|||+.|.|+.|.|.+..
T Consensus 186 ~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a~ 264 (457)
T TIGR01622 186 FLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQ 264 (457)
T ss_pred CCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEcc
Confidence 6899999999999999999999999999999999999999999999999999999999999999999999999998755
No 39
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=99.62 E-value=2.4e-15 Score=140.71 Aligned_cols=120 Identities=22% Similarity=0.196 Sum_probs=92.9
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhcCCC-eEEEEEc-ccCCCCCcceEEEEEEccHHHHHHHHHHhCC--ccccccccce
Q 022930 14 DTYSLLVLNITFRTTADDLFPLFEKYGK-VVDVFIP-RDRRTGDSRGFAFVRYKYADEAQKAVDRLDG--LFLNFNFVHE 89 (290)
Q Consensus 14 ~~~~l~V~nL~~~~t~~~L~~~F~~~G~-I~~v~i~-~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g--~~~~~~~~~~ 89 (290)
+.++|||+|||+++|+++|.++|.++++ |+.+.|+ ....+++++|||||+|.++++|..|+..|+. +.|.++.|.|
T Consensus 137 ~~~rLFVgNLP~~~TeeeL~eeFskv~egvv~vIv~~~~~~kgKnRGFAFVeF~s~edAa~AirkL~~gki~l~Gr~I~V 216 (578)
T TIGR01648 137 DNCRLFVGGIPKNKKREEILEEFSKVTEGVVDVIVYHSAADKKKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHVIAV 216 (578)
T ss_pred cCceeEeecCCcchhhHHHHHHhhcccCCceEEEEeccccccCccCceEEEEcCCHHHHHHHHHHhhccceEecCceEEE
Confidence 4689999999999999999999999974 4444443 2334578899999999999999999988764 4578888888
Q ss_pred ehhhhHHhhhccccccCcceeEEEEeccCcccchhHHHHHhhcc--CCc
Q 022930 90 ILKSSLFLRKNLYLCIGFLFFFLIFFILGRVVDGREITVQFAKY--GPN 136 (290)
Q Consensus 90 ~~~~~~~~~~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~--g~~ 136 (290)
.+......... .......+|||+||+..+++++|...|.+| |.+
T Consensus 217 dwA~p~~~~d~---~~~~~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I 262 (578)
T TIGR01648 217 DWAEPEEEVDE---DVMAKVKILYVRNLMTTTTEEIIEKSFSEFKPGKV 262 (578)
T ss_pred Eeecccccccc---cccccccEEEEeCCCCCCCHHHHHHHHHhcCCCce
Confidence 76654322211 112234679999999999999999999999 763
No 40
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.61 E-value=2.1e-15 Score=135.04 Aligned_cols=122 Identities=16% Similarity=0.264 Sum_probs=104.3
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehhhh
Q 022930 15 TYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILKSS 94 (290)
Q Consensus 15 ~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~~~ 94 (290)
+.||||++||+.++.++|.++|+.+|+|..|.++.++.++.++|||||.|.-.+|++.||..+++..|.|++|.|.+.+.
T Consensus 5 g~TlfV~~lp~~~~~~qL~e~FS~vGPik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~v~~A~~ 84 (678)
T KOG0127|consen 5 GATLFVSRLPFSSTGEQLEEFFSYVGPIKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEGRILNVDPAKK 84 (678)
T ss_pred CceEEEecCCCccchhHHHHhhhcccCcceeEEecCCCcccccCccceeeehHhHHHHHHHHhhcCcccceecccccccc
Confidence 37999999999999999999999999999999999999999999999999999999999999999999999999877665
Q ss_pred HHhhh------cccc------------ccCcceeEEEEeccCcccchhHHHHHhhccCCc
Q 022930 95 LFLRK------NLYL------------CIGFLFFFLIFFILGRVVDGREITVQFAKYGPN 136 (290)
Q Consensus 95 ~~~~~------~~~~------------~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~ 136 (290)
....+ +..+ ....+.-+|.|-|||+.+....|...|++||..
T Consensus 85 R~r~e~~~~~e~~~veK~~~q~~~~k~~v~~~k~rLIIRNLPf~~k~~dLk~vFs~~G~V 144 (678)
T KOG0127|consen 85 RARSEEVEKGENKAVEKPIEQKRPTKAKVDLPKWRLIIRNLPFKCKKPDLKNVFSNFGKV 144 (678)
T ss_pred cccchhcccccchhhhcccccCCcchhhccCccceEEeecCCcccCcHHHHHHHhhcceE
Confidence 22211 1111 112224579999999999999999999999874
No 41
>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=99.61 E-value=2.1e-15 Score=141.39 Aligned_cols=80 Identities=15% Similarity=0.299 Sum_probs=75.0
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehhh
Q 022930 14 DTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILKS 93 (290)
Q Consensus 14 ~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~~ 93 (290)
..++|||+||++++++++|+++|+.||+|+.|.|+.++.++.++|||||+|.+.++|..||..||+..|+|+.|.|....
T Consensus 203 ~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kAi 282 (612)
T TIGR01645 203 KFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCV 282 (612)
T ss_pred ccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEecC
Confidence 34789999999999999999999999999999999999999999999999999999999999999999999999885433
No 42
>smart00362 RRM_2 RNA recognition motif.
Probab=99.61 E-value=4.2e-15 Score=101.39 Aligned_cols=71 Identities=38% Similarity=0.626 Sum_probs=64.9
Q ss_pred EEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccce
Q 022930 17 SLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHE 89 (290)
Q Consensus 17 ~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~ 89 (290)
+|||+|||..+++++|.++|.+||+|..+.++.+. +.+.|+|||+|.+.++|+.|+..|++..+.+..|.+
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~--~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v 71 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDT--GKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRV 71 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCC--CCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEee
Confidence 59999999999999999999999999999998775 778899999999999999999999998887776653
No 43
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.59 E-value=1.8e-15 Score=118.11 Aligned_cols=81 Identities=26% Similarity=0.434 Sum_probs=72.3
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehh
Q 022930 13 RDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILK 92 (290)
Q Consensus 13 ~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~ 92 (290)
+..++|||+|||.+|.+.+|++||-+||.|..|.|... ....+||||+|+++.+|+.||..-+|
T Consensus 4 r~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r---~g~ppfafVeFEd~RDAeDAiygRdG------------- 67 (241)
T KOG0105|consen 4 RNSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNR---PGPPPFAFVEFEDPRDAEDAIYGRDG------------- 67 (241)
T ss_pred cccceEEecCCCcchhhccHHHHHhhhcceEEEEeccC---CCCCCeeEEEecCccchhhhhhcccc-------------
Confidence 34689999999999999999999999999999998533 34467999999999999999999999
Q ss_pred hhHHhhhccccccCcceeEEEEeccCcccchhHHHHHhhccCC
Q 022930 93 SSLFLRKNLYLCIGFLFFFLIFFILGRVVDGREITVQFAKYGP 135 (290)
Q Consensus 93 ~~~~~~~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~ 135 (290)
..+++..|.|+|+.-+.
T Consensus 68 --------------------------Ydydg~rLRVEfprggr 84 (241)
T KOG0105|consen 68 --------------------------YDYDGCRLRVEFPRGGR 84 (241)
T ss_pred --------------------------cccCcceEEEEeccCCC
Confidence 88999999999988765
No 44
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.58 E-value=6.2e-15 Score=132.04 Aligned_cols=120 Identities=26% Similarity=0.324 Sum_probs=93.3
Q ss_pred CCCCCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHh-----CC-ccc
Q 022930 9 PPDIRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRL-----DG-LFL 82 (290)
Q Consensus 9 ~~~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l-----~g-~~~ 82 (290)
+.++..+.||||.|||+++|+++|.++|.+||+|.++.|+.++.|+.++|.|||.|.++.+|..||.+. .| +.|
T Consensus 286 ~en~~~~~tVFvRNL~fD~tEEel~~~fskFG~v~ya~iV~~k~T~~skGtAFv~Fkt~~~~~~ci~~Aspa~e~g~~ll 365 (678)
T KOG0127|consen 286 RENITEGKTVFVRNLPFDTTEEELKEHFSKFGEVKYAIIVKDKDTGHSKGTAFVKFKTQIAAQNCIEAASPASEDGSVLL 365 (678)
T ss_pred cccccccceEEEecCCccccHHHHHHHHHhhccceeEEEEeccCCCCcccceEEEeccHHHHHHHHHhcCccCCCceEEE
Confidence 456667799999999999999999999999999999999999999999999999999999999999966 34 778
Q ss_pred cccccceehhhhHHhhhccc----cccCcceeEEEEeccCcccchhHHHH
Q 022930 83 NFNFVHEILKSSLFLRKNLY----LCIGFLFFFLIFFILGRVVDGREITV 128 (290)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~l~v~~l~~~~~~~~l~~ 128 (290)
+|+.|.|...........+. .........||+.+-+...+|..+..
T Consensus 366 ~GR~Lkv~~Av~RkeA~dmeqkk~~Kk~~gkrNLyLa~EG~I~~gt~aAe 415 (678)
T KOG0127|consen 366 DGRLLKVTLAVTRKEAADMEQKKKRKKPKGKRNLYLAREGLIRDGTPAAE 415 (678)
T ss_pred eccEEeeeeccchHHHHHHHHHhhhhccCCccceeeeccCccccCChhhc
Confidence 99999886665532222221 12223334678877766665544433
No 45
>smart00360 RRM RNA recognition motif.
Probab=99.58 E-value=7.2e-15 Score=99.87 Aligned_cols=70 Identities=37% Similarity=0.588 Sum_probs=64.8
Q ss_pred EcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccce
Q 022930 20 VLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHE 89 (290)
Q Consensus 20 V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~ 89 (290)
|+|||..+++++|.++|.+||.|..|.|..++.++.++|||||+|.+.++|..|+..|++..++++.|.+
T Consensus 1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v 70 (71)
T smart00360 1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKV 70 (71)
T ss_pred CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEe
Confidence 6899999999999999999999999999988878999999999999999999999999998887776654
No 46
>PLN03213 repressor of silencing 3; Provisional
Probab=99.58 E-value=5.2e-15 Score=131.09 Aligned_cols=77 Identities=21% Similarity=0.258 Sum_probs=70.4
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccH--HHHHHHHHHhCCccccccccceeh
Q 022930 14 DTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYA--DEAQKAVDRLDGLFLNFNFVHEIL 91 (290)
Q Consensus 14 ~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~--~~a~~Al~~l~g~~~~~~~~~~~~ 91 (290)
.+.+||||||++.||+++|..+|..||.|..|.|+ +.|| +|||||+|.+. .++.+||..|||..+.|+.|.|..
T Consensus 9 ~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIp--RETG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNK 84 (759)
T PLN03213 9 GGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFV--RTKG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEK 84 (759)
T ss_pred cceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEe--cccC--CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEee
Confidence 45889999999999999999999999999999999 4577 99999999987 789999999999999999999865
Q ss_pred hhh
Q 022930 92 KSS 94 (290)
Q Consensus 92 ~~~ 94 (290)
.+.
T Consensus 85 AKP 87 (759)
T PLN03213 85 AKE 87 (759)
T ss_pred ccH
Confidence 554
No 47
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=99.58 E-value=2.3e-15 Score=130.30 Aligned_cols=119 Identities=20% Similarity=0.255 Sum_probs=98.3
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehhh
Q 022930 14 DTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILKS 93 (290)
Q Consensus 14 ~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~~ 93 (290)
+.++|||++|+|.++++.|.++|.+||+|.+|.|+.|+.++..+||+||+|++++.+.++|.. ....|+++.|.+....
T Consensus 5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~~-~~h~~dgr~ve~k~av 83 (311)
T KOG4205|consen 5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLNA-RTHKLDGRSVEPKRAV 83 (311)
T ss_pred CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeecc-cccccCCccccceecc
Confidence 678999999999999999999999999999999999999999999999999999999999884 4456677776655444
Q ss_pred hHHhhhccccccCcceeEEEEeccCcccchhHHHHHhhccCC
Q 022930 94 SLFLRKNLYLCIGFLFFFLIFFILGRVVDGREITVQFAKYGP 135 (290)
Q Consensus 94 ~~~~~~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~ 135 (290)
+........ ......+||||.||..++++.+...|.+|+.
T Consensus 84 ~r~~~~~~~--~~~~tkkiFvGG~~~~~~e~~~r~yfe~~g~ 123 (311)
T KOG4205|consen 84 SREDQTKVG--RHLRTKKIFVGGLPPDTTEEDFKDYFEQFGK 123 (311)
T ss_pred Ccccccccc--cccceeEEEecCcCCCCchHHHhhhhhccce
Confidence 422221111 1115678999999999999999999999884
No 48
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.57 E-value=9.6e-15 Score=128.01 Aligned_cols=121 Identities=20% Similarity=0.152 Sum_probs=95.3
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhcCCC-eEEEEEcccC-CCCCcceEEEEEEccHHHHHHHHHHhCC--ccccccccc
Q 022930 13 RDTYSLLVLNITFRTTADDLFPLFEKYGK-VVDVFIPRDR-RTGDSRGFAFVRYKYADEAQKAVDRLDG--LFLNFNFVH 88 (290)
Q Consensus 13 ~~~~~l~V~nL~~~~t~~~L~~~F~~~G~-I~~v~i~~d~-~tg~~~g~afV~F~~~~~a~~Al~~l~g--~~~~~~~~~ 88 (290)
..+|.|||||||.++++++|.+.|++.++ |+.|.|+..+ +..+++|||||+|.+...|..|-.+|-. ++|.|..+.
T Consensus 162 van~RLFiG~IPK~k~keeIlee~~kVteGVvdVivy~~p~dk~KNRGFaFveYe~H~~Aa~aRrKl~~g~~klwgn~~t 241 (506)
T KOG0117|consen 162 VANCRLFIGNIPKTKKKEEILEEMKKVTEGVVDVIVYPSPDDKTKNRGFAFVEYESHRAAAMARRKLMPGKIKLWGNAIT 241 (506)
T ss_pred eecceeEeccCCccccHHHHHHHHHhhCCCeeEEEEecCccccccccceEEEEeecchhHHHHHhhccCCceeecCCcce
Confidence 35689999999999999999999999984 6778777766 3478999999999999999999875543 556777777
Q ss_pred eehhhhHHhhhccccccCcceeEEEEeccCcccchhHHHHHhhccCCc
Q 022930 89 EILKSSLFLRKNLYLCIGFLFFFLIFFILGRVVDGREITVQFAKYGPN 136 (290)
Q Consensus 89 ~~~~~~~~~~~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~ 136 (290)
|.+..+....... ....-..|||.||+..++++.|...|.+||..
T Consensus 242 VdWAep~~e~ded---~ms~VKvLYVRNL~~~tTeE~lk~~F~~~G~v 286 (506)
T KOG0117|consen 242 VDWAEPEEEPDED---TMSKVKVLYVRNLMESTTEETLKKLFNEFGKV 286 (506)
T ss_pred eeccCcccCCChh---hhhheeeeeeeccchhhhHHHHHHHHHhccce
Confidence 7776664333222 11122348999999999999999999998763
No 49
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.56 E-value=6.9e-15 Score=121.26 Aligned_cols=76 Identities=25% Similarity=0.360 Sum_probs=70.8
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehh
Q 022930 13 RDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILK 92 (290)
Q Consensus 13 ~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~ 92 (290)
.++++||||||+..+|+++|++.|..||+|.+|.|..+ +|||||.|.+.|+|..||..||+..|.|.++++.+-
T Consensus 162 p~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~------qGYaFVrF~tkEaAahAIv~mNntei~G~~VkCsWG 235 (321)
T KOG0148|consen 162 PDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKD------QGYAFVRFETKEAAAHAIVQMNNTEIGGQLVRCSWG 235 (321)
T ss_pred CCCceEEeCCcCccccHHHHHHhcccCCcceEEEEecc------cceEEEEecchhhHHHHHHHhcCceeCceEEEEecc
Confidence 45799999999999999999999999999999999988 899999999999999999999999999999988655
Q ss_pred hh
Q 022930 93 SS 94 (290)
Q Consensus 93 ~~ 94 (290)
+.
T Consensus 236 Ke 237 (321)
T KOG0148|consen 236 KE 237 (321)
T ss_pred cc
Confidence 43
No 50
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.56 E-value=2.5e-14 Score=125.00 Aligned_cols=74 Identities=31% Similarity=0.380 Sum_probs=69.5
Q ss_pred CcEEEEcCCCCCCCHHHHHHHH-hcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccce
Q 022930 15 TYSLLVLNITFRTTADDLFPLF-EKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHE 89 (290)
Q Consensus 15 ~~~l~V~nL~~~~t~~~L~~~F-~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~ 89 (290)
.+.+||+|||+++.|++|++|| ++.|+|++|.|+.| ..|+.+|||.|+|+++|.+++|++.||...+.++.|.|
T Consensus 44 ~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D-~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~v 118 (608)
T KOG4212|consen 44 DRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFD-ESGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVV 118 (608)
T ss_pred cceEEEecCcchhhhHhHHHHHHHhcCceEeeeeecc-cCCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEE
Confidence 3569999999999999999999 68999999999998 68999999999999999999999999999999998876
No 51
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.56 E-value=9.6e-15 Score=123.44 Aligned_cols=78 Identities=33% Similarity=0.445 Sum_probs=71.9
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehhhh
Q 022930 15 TYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILKSS 94 (290)
Q Consensus 15 ~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~~~ 94 (290)
...|+|.|||+...+.||..+|++||.|.+|.||.+ ...+|||+||+|++++||+.|-++|||..|.|+.|.|-....
T Consensus 96 pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfN--ERGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~ATa 173 (376)
T KOG0125|consen 96 PKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFN--ERGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNATA 173 (376)
T ss_pred CceeEeecCCccccCccHHHHHHhhCceeeEEEEec--cCCCCccceEEecChhhHHHHHHHhhcceeeceEEEEeccch
Confidence 367999999999999999999999999999999987 466899999999999999999999999999999998865554
No 52
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.54 E-value=1.4e-14 Score=133.48 Aligned_cols=122 Identities=24% Similarity=0.233 Sum_probs=99.1
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCC---CCcceEEEEEEccHHHHHHHHHHhCCccccccccceehh
Q 022930 16 YSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRT---GDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILK 92 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~t---g~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~ 92 (290)
++|||.||++.+|.++|..+|..+|.|..|.|...+.. -.+.|||||+|.++++|+.||.+|+|..|+|..|.+.++
T Consensus 516 t~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S 595 (725)
T KOG0110|consen 516 TKLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKIS 595 (725)
T ss_pred hhhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEec
Confidence 44999999999999999999999999999988765422 235599999999999999999999999999999999887
Q ss_pred hhHHhhhccccc-cCcceeEEEEeccCcccchhHHHHHhhccCCch
Q 022930 93 SSLFLRKNLYLC-IGFLFFFLIFFILGRVVDGREITVQFAKYGPNA 137 (290)
Q Consensus 93 ~~~~~~~~~~~~-~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~~ 137 (290)
........-..+ ....+++|.|.|||.+.+-.+|...|..||...
T Consensus 596 ~~k~~~~~gK~~~~kk~~tKIlVRNipFeAt~rEVr~LF~aFGqlk 641 (725)
T KOG0110|consen 596 ENKPASTVGKKKSKKKKGTKILVRNIPFEATKREVRKLFTAFGQLK 641 (725)
T ss_pred cCccccccccccccccccceeeeeccchHHHHHHHHHHHhccccee
Confidence 721111111111 222268999999999999999999999998753
No 53
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=99.54 E-value=7.5e-14 Score=112.92 Aligned_cols=124 Identities=19% Similarity=0.196 Sum_probs=100.2
Q ss_pred CCCCCcEEEEcCCCCCCCHHHHHH----HHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccc
Q 022930 11 DIRDTYSLLVLNITFRTTADDLFP----LFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNF 86 (290)
Q Consensus 11 ~~~~~~~l~V~nL~~~~t~~~L~~----~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~ 86 (290)
......||||.||+..+..++|+. +|++||+|.+|.+. .|.+.+|-|||.|.+.+.|..|+.+|+|..+.|+.
T Consensus 5 ~~~pn~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~---kt~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~ 81 (221)
T KOG4206|consen 5 SVNPNGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAF---KTPKMRGQAFVVFKETEAASAALRALQGFPFYGKP 81 (221)
T ss_pred ccCCCceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEec---CCCCccCceEEEecChhHHHHHHHHhcCCcccCch
Confidence 344455999999999999999887 99999999998875 47889999999999999999999999999999999
Q ss_pred cceehhhhHHhh--h---------------ccc-------------------------cccCcceeEEEEeccCcccchh
Q 022930 87 VHEILKSSLFLR--K---------------NLY-------------------------LCIGFLFFFLIFFILGRVVDGR 124 (290)
Q Consensus 87 ~~~~~~~~~~~~--~---------------~~~-------------------------~~~~~~~~~l~v~~l~~~~~~~ 124 (290)
+.+++....... . .+. .....++..||+.|||.+.+.+
T Consensus 82 mriqyA~s~sdii~~~~~~~v~~~~k~~~~~~~~~~~~~~~ng~~~~~~~~~~p~p~~~~~~ppn~ilf~~niP~es~~e 161 (221)
T KOG4206|consen 82 MRIQYAKSDSDIIAQAPGTFVEKEKKINGEILARIKQPLDTNGHFYNMNRMNLPPPFLAQMAPPNNILFLTNIPSESESE 161 (221)
T ss_pred hheecccCccchhhccCceeccccCccccccccccCCcccccccccccccccCCCCccccCCCCceEEEEecCCcchhHH
Confidence 988776651110 0 000 1113456779999999999999
Q ss_pred HHHHHhhccCCch
Q 022930 125 EITVQFAKYGPNA 137 (290)
Q Consensus 125 ~l~~~f~~~g~~~ 137 (290)
.+...|.+|..-.
T Consensus 162 ~l~~lf~qf~g~k 174 (221)
T KOG4206|consen 162 MLSDLFEQFPGFK 174 (221)
T ss_pred HHHHHHhhCcccc
Confidence 9999999986643
No 54
>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=99.53 E-value=6e-14 Score=96.16 Aligned_cols=73 Identities=40% Similarity=0.559 Sum_probs=65.9
Q ss_pred EEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcccccccccee
Q 022930 17 SLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEI 90 (290)
Q Consensus 17 ~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~ 90 (290)
+|+|+|||+.+++++|.++|..||.|..+.+..++.+ ...|+|||+|.+.++|..|+..+++..+++..+.+.
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~-~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~ 73 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDT-KSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVE 73 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCC-CcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEe
Confidence 4899999999999999999999999999999987644 778999999999999999999999988887776653
No 55
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.51 E-value=5.4e-14 Score=115.40 Aligned_cols=86 Identities=28% Similarity=0.441 Sum_probs=79.6
Q ss_pred CCCCCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccc
Q 022930 9 PPDIRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVH 88 (290)
Q Consensus 9 ~~~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~ 88 (290)
|..+..+.-|||-||.++++|.-|+++|..||.|..|+|+.|..|.+++|||||.+.+-++|..||..|||..|+++.|.
T Consensus 272 p~~~~~g~ciFvYNLspd~de~~LWQlFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~rvLQ 351 (360)
T KOG0145|consen 272 PGGPGGGWCIFVYNLSPDADESILWQLFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLGDRVLQ 351 (360)
T ss_pred CCCCCCeeEEEEEecCCCchHhHHHHHhCcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcCccccceEEE
Confidence 44555678899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eehhhh
Q 022930 89 EILKSS 94 (290)
Q Consensus 89 ~~~~~~ 94 (290)
|.|+..
T Consensus 352 VsFKtn 357 (360)
T KOG0145|consen 352 VSFKTN 357 (360)
T ss_pred EEEecC
Confidence 887743
No 56
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.51 E-value=6.5e-15 Score=117.93 Aligned_cols=83 Identities=25% Similarity=0.364 Sum_probs=78.8
Q ss_pred CCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceeh
Q 022930 12 IRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEIL 91 (290)
Q Consensus 12 ~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~ 91 (290)
....+|||||+|..+||+.-|...|-.||.|+.|.|+.|.++++++|||||+|...|+|.+||..||+..|.|+.|.|-+
T Consensus 7 a~~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~ 86 (298)
T KOG0111|consen 7 ANQKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNL 86 (298)
T ss_pred cccceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEee
Confidence 44568999999999999999999999999999999999999999999999999999999999999999999999999977
Q ss_pred hhh
Q 022930 92 KSS 94 (290)
Q Consensus 92 ~~~ 94 (290)
..+
T Consensus 87 AkP 89 (298)
T KOG0111|consen 87 AKP 89 (298)
T ss_pred cCC
Confidence 776
No 57
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.51 E-value=6e-14 Score=125.58 Aligned_cols=119 Identities=21% Similarity=0.323 Sum_probs=101.3
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehhhhH
Q 022930 16 YSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILKSSL 95 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~~~~ 95 (290)
..|||.||++.+|..+|.++|+.||+|++|+|..+. .| ++|| ||+|+++++|.+||..|||..+.++.|.|......
T Consensus 77 ~~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~-~g-~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~~ 153 (369)
T KOG0123|consen 77 SLVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDE-NG-SKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFERK 153 (369)
T ss_pred ceeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcC-CC-ceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccch
Confidence 349999999999999999999999999999999984 45 9999 99999999999999999999999999988666654
Q ss_pred HhhhccccccCcceeEEEEeccCcccchhHHHHHhhccCCch
Q 022930 96 FLRKNLYLCIGFLFFFLIFFILGRVVDGREITVQFAKYGPNA 137 (290)
Q Consensus 96 ~~~~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~~ 137 (290)
.............-..++|.+++..+++..|...|..+|...
T Consensus 154 ~er~~~~~~~~~~~t~v~vk~~~~~~~~~~l~~~f~~~g~i~ 195 (369)
T KOG0123|consen 154 EEREAPLGEYKKRFTNVYVKNLEEDSTDEELKDLFSAYGSIT 195 (369)
T ss_pred hhhcccccchhhhhhhhheeccccccchHHHHHhhcccCcce
Confidence 444333333455556789999999999999999999988854
No 58
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.51 E-value=4.9e-14 Score=126.14 Aligned_cols=103 Identities=23% Similarity=0.290 Sum_probs=93.8
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehhhhH
Q 022930 16 YSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILKSSL 95 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~~~~ 95 (290)
..|||| ++||+..|.++|..+|+|..|.|+.|. | +.|||||.|.++++|+.||+.||...|.|+.+.+.+++..
T Consensus 2 ~sl~vg---~~v~e~~l~~~f~~~~~v~s~rvc~d~-t--slgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~rd 75 (369)
T KOG0123|consen 2 ASLYVG---PDVTEAMLFDKFSPAGPVLSIRVCRDA-T--SLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQRD 75 (369)
T ss_pred CceecC---CcCChHHHHHHhcccCCceeEEEeecC-C--ccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhccC
Confidence 469999 999999999999999999999999997 6 9999999999999999999999999999999998776553
Q ss_pred HhhhccccccCcceeEEEEeccCcccchhHHHHHhhccCCch
Q 022930 96 FLRKNLYLCIGFLFFFLIFFILGRVVDGREITVQFAKYGPNA 137 (290)
Q Consensus 96 ~~~~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~~ 137 (290)
... +||.||+..++...|...|..||..-
T Consensus 76 ~~~-------------~~i~nl~~~~~~~~~~d~f~~~g~il 104 (369)
T KOG0123|consen 76 PSL-------------VFIKNLDESIDNKSLYDTFSEFGNIL 104 (369)
T ss_pred Cce-------------eeecCCCcccCcHHHHHHHHhhcCee
Confidence 222 99999999999999999999999853
No 59
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=99.50 E-value=4e-14 Score=127.85 Aligned_cols=79 Identities=27% Similarity=0.463 Sum_probs=76.4
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehhhh
Q 022930 16 YSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILKSS 94 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~~~ 94 (290)
+.|||||||+++++++|..+|+..|.|..++++.|+.||+++|||||+|.++++|..|+..|||..+.|..|.|.+...
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~ 97 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASN 97 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeecccc
Confidence 8899999999999999999999999999999999999999999999999999999999999999999999999877665
No 60
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.48 E-value=4.8e-14 Score=126.73 Aligned_cols=119 Identities=25% Similarity=0.302 Sum_probs=89.3
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehhhhH
Q 022930 16 YSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILKSSL 95 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~~~~ 95 (290)
..||||||.+++|+++|..+|+.||.|+.|+++.|..||.++||+||+|.+.++|..|++.|||..|.|..|+|....-.
T Consensus 279 ~rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~~r 358 (549)
T KOG0147|consen 279 RRLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVTER 358 (549)
T ss_pred hhhhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEeeee
Confidence 33999999999999999999999999999999999889999999999999999999999999999999999987655443
Q ss_pred HhhhccccccCcceeEEEEeccCcccch-hHHHHHhhccCC
Q 022930 96 FLRKNLYLCIGFLFFFLIFFILGRVVDG-REITVQFAKYGP 135 (290)
Q Consensus 96 ~~~~~~~~~~~~~~~~l~v~~l~~~~~~-~~l~~~f~~~g~ 135 (290)
.......+.... .-.+-.++|+....| .+|...|++...
T Consensus 359 ~~~~~a~~~~~d-~D~~d~~gl~~~~~g~~Ql~~kla~~~~ 398 (549)
T KOG0147|consen 359 VDTKEAAVTQFD-FDEDDRQGLSLGSGGRNQLMAKLAEGKG 398 (549)
T ss_pred cccccccccccc-cchhhccccccccccHHHHHHHHhccCC
Confidence 333222111000 001123444444444 666666666543
No 61
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.47 E-value=6.2e-14 Score=115.47 Aligned_cols=83 Identities=22% Similarity=0.397 Sum_probs=78.2
Q ss_pred CCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceeh
Q 022930 12 IRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEIL 91 (290)
Q Consensus 12 ~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~ 91 (290)
-.++|+|||-.||.+..+.||.++|-.||.|++.+|..|+.|.++++|+||.|.++.+|+.||.+|||..|+.+.|+|.+
T Consensus 282 GPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKVQL 361 (371)
T KOG0146|consen 282 GPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKVQL 361 (371)
T ss_pred CCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhhhhh
Confidence 34689999999999999999999999999999999999999999999999999999999999999999999988888887
Q ss_pred hhh
Q 022930 92 KSS 94 (290)
Q Consensus 92 ~~~ 94 (290)
+.+
T Consensus 362 KRP 364 (371)
T KOG0146|consen 362 KRP 364 (371)
T ss_pred cCc
Confidence 755
No 62
>smart00361 RRM_1 RNA recognition motif.
Probab=99.45 E-value=2.8e-13 Score=92.72 Aligned_cols=61 Identities=21% Similarity=0.398 Sum_probs=54.3
Q ss_pred HHHHHHHHh----cCCCeEEEE-EcccCCC--CCcceEEEEEEccHHHHHHHHHHhCCccccccccce
Q 022930 29 ADDLFPLFE----KYGKVVDVF-IPRDRRT--GDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHE 89 (290)
Q Consensus 29 ~~~L~~~F~----~~G~I~~v~-i~~d~~t--g~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~ 89 (290)
+++|.++|. +||+|..|. |+.++.+ +.++|||||+|.+.++|..||..|||..++|+.|.+
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~ 69 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKA 69 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEe
Confidence 578999998 999999995 7676666 899999999999999999999999999998887754
No 63
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.40 E-value=8.9e-14 Score=125.03 Aligned_cols=128 Identities=23% Similarity=0.185 Sum_probs=109.3
Q ss_pred CCCCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccce
Q 022930 10 PDIRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHE 89 (290)
Q Consensus 10 ~~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~ 89 (290)
++.++..|||+-.|+-.+++.+|++||..+|+|..|.||.|..++..+|+|||+|.+.+.+..||. |.|+.+.|.+|.|
T Consensus 174 ~eERd~Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~aia-LsGqrllg~pv~v 252 (549)
T KOG0147|consen 174 PEERDQRTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAIA-LSGQRLLGVPVIV 252 (549)
T ss_pred chHHhHHHHHHHHHhhcCCchhHHHHHHhhcCcceeEeeccccchhhcceeEEEEecccchhhHhh-hcCCcccCceeEe
Confidence 456677899999999999999999999999999999999999999999999999999999999996 9999999999999
Q ss_pred ehhhhHHhhhccccc------cCcceeEEEEeccCcccchhHHHHHhhccCCchh
Q 022930 90 ILKSSLFLRKNLYLC------IGFLFFFLIFFILGRVVDGREITVQFAKYGPNAE 138 (290)
Q Consensus 90 ~~~~~~~~~~~~~~~------~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~~~ 138 (290)
+.............. ...+...|+||||...+++.+|...|..||.+..
T Consensus 253 q~sEaeknr~a~~s~a~~~k~~~~p~~rl~vgnLHfNite~~lr~ifepfg~Ie~ 307 (549)
T KOG0147|consen 253 QLSEAEKNRAANASPALQGKGFTGPMRRLYVGNLHFNITEDMLRGIFEPFGKIEN 307 (549)
T ss_pred cccHHHHHHHHhccccccccccccchhhhhhcccccCchHHHHhhhccCccccee
Confidence 887774333222211 2333444999999999999999999999998653
No 64
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.36 E-value=4.9e-13 Score=116.92 Aligned_cols=81 Identities=25% Similarity=0.410 Sum_probs=71.2
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcc-ccc--cccce
Q 022930 13 RDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLF-LNF--NFVHE 89 (290)
Q Consensus 13 ~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~-~~~--~~~~~ 89 (290)
.+..+|||+-|+..+||.+|.++|.+||.|++|.|+.+ ..+.++|||||+|.+.+.|..||+.|||.. |.| .+|.|
T Consensus 122 ~~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd-~~~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVV 200 (510)
T KOG0144|consen 122 VEERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRD-PDGLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVV 200 (510)
T ss_pred ccchhhhhhhccccccHHHHHHHHHhhCccchhhheec-ccccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEE
Confidence 34688999999999999999999999999999999998 479999999999999999999999999955 444 56777
Q ss_pred ehhhh
Q 022930 90 ILKSS 94 (290)
Q Consensus 90 ~~~~~ 94 (290)
.|...
T Consensus 201 kFADt 205 (510)
T KOG0144|consen 201 KFADT 205 (510)
T ss_pred Eeccc
Confidence 66544
No 65
>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=99.36 E-value=2.2e-12 Score=84.28 Aligned_cols=55 Identities=36% Similarity=0.640 Sum_probs=48.9
Q ss_pred HHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceeh
Q 022930 32 LFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEIL 91 (290)
Q Consensus 32 L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~ 91 (290)
|.++|++||+|..|.+..+. .++|||+|.+.++|..|+..|||..++|+.|.|.+
T Consensus 1 L~~~f~~fG~V~~i~~~~~~-----~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~ 55 (56)
T PF13893_consen 1 LYKLFSKFGEVKKIKIFKKK-----RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSY 55 (56)
T ss_dssp HHHHHTTTS-EEEEEEETTS-----TTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEE
T ss_pred ChHHhCCcccEEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEE
Confidence 68899999999999997663 58999999999999999999999999999888765
No 66
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=99.36 E-value=2.1e-12 Score=102.97 Aligned_cols=85 Identities=20% Similarity=0.374 Sum_probs=75.7
Q ss_pred CCCCCcEEEEcCCCCCCCHHHHHHHHhcC-CCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccce
Q 022930 11 DIRDTYSLLVLNITFRTTADDLFPLFEKY-GKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHE 89 (290)
Q Consensus 11 ~~~~~~~l~V~nL~~~~t~~~L~~~F~~~-G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~ 89 (290)
.......+||..||..+.+.+|..+|.+| |.|..+.+..++-||.++|||||+|++++.|..|.+.||+..|.++.|.+
T Consensus 45 ~~~~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c 124 (214)
T KOG4208|consen 45 EQEIEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLEC 124 (214)
T ss_pred ccCCccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeee
Confidence 33344568999999999999999999988 78888888899999999999999999999999999999999999999988
Q ss_pred ehhhhH
Q 022930 90 ILKSSL 95 (290)
Q Consensus 90 ~~~~~~ 95 (290)
.+-.+.
T Consensus 125 ~vmppe 130 (214)
T KOG4208|consen 125 HVMPPE 130 (214)
T ss_pred EEeCch
Confidence 766654
No 67
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=99.29 E-value=2.9e-12 Score=104.73 Aligned_cols=113 Identities=23% Similarity=0.251 Sum_probs=92.7
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehhhhH
Q 022930 16 YSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILKSSL 95 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~~~~ 95 (290)
..||||+||+.+.+.+|+.||..||+|..|.|. .||+||+|.++.+|..|+..||+..|.+..+.+.+....
T Consensus 2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk--------~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~~ 73 (216)
T KOG0106|consen 2 PRVYIGRLPYRARERDVERFFKGYGKIPDADMK--------NGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARGK 73 (216)
T ss_pred CceeecccCCccchhHHHHHHhhccccccceee--------cccceeccCchhhhhcccchhcCceecceeeeeeccccc
Confidence 469999999999999999999999999999886 579999999999999999999999998877655555431
Q ss_pred -H---h---h-----hccccccCcceeEEEEeccCcccchhHHHHHhhccCCc
Q 022930 96 -F---L---R-----KNLYLCIGFLFFFLIFFILGRVVDGREITVQFAKYGPN 136 (290)
Q Consensus 96 -~---~---~-----~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~ 136 (290)
. . . .............|+|.++...+..+.|...|.++|..
T Consensus 74 ~~~~g~~~~g~r~~~~~~~~~p~~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~ 126 (216)
T KOG0106|consen 74 RRGRGRPRGGDRRSDSRRYRPPSRTHFRLIVRNLSLRVSWQDLKDHFRPAGEV 126 (216)
T ss_pred ccccCCCCCCCccchhhccCCcccccceeeeccchhhhhHHHHhhhhcccCCC
Confidence 0 0 0 11112234556679999999999999999999999987
No 68
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=99.28 E-value=1.4e-12 Score=104.58 Aligned_cols=80 Identities=25% Similarity=0.255 Sum_probs=69.2
Q ss_pred CCCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcccccccccee
Q 022930 11 DIRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEI 90 (290)
Q Consensus 11 ~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~ 90 (290)
.+....||||+||...|+|+.|.++|-+.|+|..|.|..++ .++.+ ||||.|.++-.+.-|+++|||..+.+..+.+.
T Consensus 5 aae~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~-d~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~ 82 (267)
T KOG4454|consen 5 AAEMDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQ-DQEQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQRT 82 (267)
T ss_pred CcchhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCc-cCCCc-eeeeecccccchhhhhhhcccchhccchhhcc
Confidence 33455889999999999999999999999999999998764 55566 99999999999999999999998888777654
Q ss_pred hh
Q 022930 91 LK 92 (290)
Q Consensus 91 ~~ 92 (290)
+-
T Consensus 83 ~r 84 (267)
T KOG4454|consen 83 LR 84 (267)
T ss_pred cc
Confidence 43
No 69
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.27 E-value=6e-12 Score=98.35 Aligned_cols=85 Identities=21% Similarity=0.378 Sum_probs=75.0
Q ss_pred CCCCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEE-EEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccc
Q 022930 10 PDIRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDV-FIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVH 88 (290)
Q Consensus 10 ~~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v-~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~ 88 (290)
.+..-+.+|||+||.+.+++..|.+.|..||.|... +|+.++.||.++|||||.|.+.+.+.+||..|||+.+...++.
T Consensus 91 ~nl~vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~it 170 (203)
T KOG0131|consen 91 KNLDVGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQYLCNRPIT 170 (203)
T ss_pred ccccccccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhccchhcCCceE
Confidence 344455789999999999999999999999988654 7888999999999999999999999999999999999988888
Q ss_pred eehhhh
Q 022930 89 EILKSS 94 (290)
Q Consensus 89 ~~~~~~ 94 (290)
|.+...
T Consensus 171 v~ya~k 176 (203)
T KOG0131|consen 171 VSYAFK 176 (203)
T ss_pred EEEEEe
Confidence 765533
No 70
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.27 E-value=3.3e-12 Score=106.61 Aligned_cols=75 Identities=33% Similarity=0.443 Sum_probs=70.3
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehh
Q 022930 13 RDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILK 92 (290)
Q Consensus 13 ~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~ 92 (290)
...++|+|+||.+.++-++|+..|++||+|.+|+|+.| |+||.|.-.++|..|+..||+..|.|+.++|+++
T Consensus 76 k~stkl~vgNis~tctn~ElRa~fe~ygpviecdivkd--------y~fvh~d~~eda~~air~l~~~~~~gk~m~vq~s 147 (346)
T KOG0109|consen 76 KASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIVKD--------YAFVHFDRAEDAVEAIRGLDNTEFQGKRMHVQLS 147 (346)
T ss_pred CCccccccCCCCccccCHHHhhhhcccCCceeeeeecc--------eeEEEEeeccchHHHHhcccccccccceeeeeee
Confidence 35678999999999999999999999999999999954 9999999999999999999999999999999988
Q ss_pred hhH
Q 022930 93 SSL 95 (290)
Q Consensus 93 ~~~ 95 (290)
.+.
T Consensus 148 tsr 150 (346)
T KOG0109|consen 148 TSR 150 (346)
T ss_pred ccc
Confidence 773
No 71
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=99.27 E-value=1.9e-11 Score=98.49 Aligned_cols=72 Identities=14% Similarity=0.271 Sum_probs=59.7
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEccc-CCCCCcceEEEEEEccHHHHHHHHHHhCCcccccc
Q 022930 14 DTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRD-RRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFN 85 (290)
Q Consensus 14 ~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d-~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~ 85 (290)
+.+||||.+||.+|...+|+.+|..|-..+.+.|... +....++-+|||.|.+..+|++|+.+|||+.++-.
T Consensus 33 ~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE 105 (284)
T KOG1457|consen 33 AVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPE 105 (284)
T ss_pred ccceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccc
Confidence 4689999999999999999999998876776666432 22233457999999999999999999999998753
No 72
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.25 E-value=1.4e-11 Score=105.30 Aligned_cols=85 Identities=21% Similarity=0.310 Sum_probs=74.3
Q ss_pred CCCCCCCCCCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHH-HhCCccc
Q 022930 4 FGKSGPPDIRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVD-RLDGLFL 82 (290)
Q Consensus 4 ~~~~~~~~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~-~l~g~~~ 82 (290)
++.-.||++....+|||+||...+++.+|.++|.+||+|..|.+... +++|||+|.+.++|+.|.+ .+|.+.|
T Consensus 217 ~~~lepPeD~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~------~~CAFv~ftTR~aAE~Aae~~~n~lvI 290 (377)
T KOG0153|consen 217 AGTLEPPEDTSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPR------KGCAFVTFTTREAAEKAAEKSFNKLVI 290 (377)
T ss_pred ccccCCCcccceeEEEecccccchhHHHHHHHHhhcCCeeeEEeecc------cccceeeehhhHHHHHHHHhhcceeee
Confidence 34466788888899999999999999999999999999999999876 6799999999999998876 5666778
Q ss_pred cccccceehhhh
Q 022930 83 NFNFVHEILKSS 94 (290)
Q Consensus 83 ~~~~~~~~~~~~ 94 (290)
+|..|.+.+..+
T Consensus 291 ~G~Rl~i~Wg~~ 302 (377)
T KOG0153|consen 291 NGFRLKIKWGRP 302 (377)
T ss_pred cceEEEEEeCCC
Confidence 999999886655
No 73
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=99.23 E-value=5.3e-11 Score=106.10 Aligned_cols=120 Identities=15% Similarity=0.201 Sum_probs=95.6
Q ss_pred CCCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcccccccccee
Q 022930 11 DIRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEI 90 (290)
Q Consensus 11 ~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~ 90 (290)
+......|-+.+|||.+|++||.+||+.|+ |+.+.+.+ .+|++.|-|||+|.+++++++||+ .+-..|.-++|.|.
T Consensus 6 e~~~~~~vr~rGLPwsat~~ei~~Ff~~~~-I~~~~~~r--~~Gr~sGeA~Ve~~seedv~~Alk-kdR~~mg~RYIEVf 81 (510)
T KOG4211|consen 6 EGSTAFEVRLRGLPWSATEKEILDFFSNCG-IENLEIPR--RNGRPSGEAYVEFTSEEDVEKALK-KDRESMGHRYIEVF 81 (510)
T ss_pred CCCcceEEEecCCCccccHHHHHHHHhcCc-eeEEEEec--cCCCcCcceEEEeechHHHHHHHH-hhHHHhCCceEEEE
Confidence 344556788999999999999999999995 78876664 479999999999999999999999 68888888999887
Q ss_pred hhhhHHhh---hccccccCcceeEEEEeccCcccchhHHHHHhhccC
Q 022930 91 LKSSLFLR---KNLYLCIGFLFFFLIFFILGRVVDGREITVQFAKYG 134 (290)
Q Consensus 91 ~~~~~~~~---~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g 134 (290)
........ .........+...+-+-.||..+++++|...|+-.-
T Consensus 82 ~~~~~e~d~~~~~~g~~s~~~d~vVRLRGLPfscte~dI~~FFaGL~ 128 (510)
T KOG4211|consen 82 TAGGAEADWVMRPGGPNSSANDGVVRLRGLPFSCTEEDIVEFFAGLE 128 (510)
T ss_pred ccCCccccccccCCCCCCCCCCceEEecCCCccCcHHHHHHHhcCCc
Confidence 66543222 222223335667788999999999999999998743
No 74
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=99.22 E-value=1.8e-11 Score=114.13 Aligned_cols=74 Identities=24% Similarity=0.384 Sum_probs=68.5
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehhhh
Q 022930 15 TYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILKSS 94 (290)
Q Consensus 15 ~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~~~ 94 (290)
++|||||+|+.+|+|.||..+|+.||+|.+|.|+.. .|||||++....+|.+||.+|+.+.|.++.|++.+...
T Consensus 421 SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~~------R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~g 494 (894)
T KOG0132|consen 421 SRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPP------RGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAVG 494 (894)
T ss_pred eeeeeeccccchhhHHHHHHHHHhcccceeEeeccC------CceeEEEEeehhHHHHHHHHHhcccccceeeEEeeecc
Confidence 479999999999999999999999999999999877 79999999999999999999999999999997755443
No 75
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.17 E-value=4.8e-11 Score=102.55 Aligned_cols=75 Identities=16% Similarity=0.363 Sum_probs=71.8
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccce
Q 022930 15 TYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHE 89 (290)
Q Consensus 15 ~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~ 89 (290)
-+.|||..+.+++.++||+.+|+.||+|+.|.|..++.++.++||+||+|.+..+...||..||-..|+|++|.|
T Consensus 210 fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFDLGGQyLRV 284 (544)
T KOG0124|consen 210 FNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRV 284 (544)
T ss_pred hheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcchhhcccceEec
Confidence 368999999999999999999999999999999999988999999999999999999999999999999999876
No 76
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=99.12 E-value=2.4e-10 Score=99.71 Aligned_cols=117 Identities=25% Similarity=0.220 Sum_probs=95.5
Q ss_pred CcEEEEcCCCCC-CCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehhh
Q 022930 15 TYSLLVLNITFR-TTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILKS 93 (290)
Q Consensus 15 ~~~l~V~nL~~~-~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~~ 93 (290)
++.|.|.||... ||.+-|..+|+.||+|..|+|..++ +-.|+|+|.+...|+-|+++|+|..|.|+.|.+.+++
T Consensus 297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nk-----kd~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SK 371 (492)
T KOG1190|consen 297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNK-----KDNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSK 371 (492)
T ss_pred ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecC-----CcceeeeecchhHHHHHHHHhhcceecCceEEEeecc
Confidence 678999999766 8999999999999999999999875 4579999999999999999999999999999986655
Q ss_pred h-HHhhh--------------------------ccccccCcceeEEEEeccCcccchhHHHHHhhccCCc
Q 022930 94 S-LFLRK--------------------------NLYLCIGFLFFFLIFFILGRVVDGREITVQFAKYGPN 136 (290)
Q Consensus 94 ~-~~~~~--------------------------~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~ 136 (290)
- ...+. ......-.++.+|++.|||..+.+++|...|...|..
T Consensus 372 H~~vqlp~egq~d~glT~dy~~spLhrfkkpgsKN~~ni~PpsatlHlsnip~svsee~lk~~f~~~g~~ 441 (492)
T KOG1190|consen 372 HTNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNYQNIFPPSATLHLSNIPPSVSEEDLKNLFQEPGGQ 441 (492)
T ss_pred CccccCCCCCCccccccccCCCCchhhccCcccccccccCCchhheeeccCCcccchhHHHHhhhcCCce
Confidence 3 11111 1111223445679999999999999999999987654
No 77
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.12 E-value=1.3e-10 Score=102.09 Aligned_cols=77 Identities=23% Similarity=0.329 Sum_probs=68.5
Q ss_pred CCCCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccce
Q 022930 10 PDIRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHE 89 (290)
Q Consensus 10 ~~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~ 89 (290)
-..+..|+|||.|||+++||+-|++-|..||.|.++.|+ +.|+.+| .|.|.++++|+.|+.+|||..|+++.|.|
T Consensus 531 gaarKa~qIiirNlP~dfTWqmlrDKfre~G~v~yadim---e~GkskG--VVrF~s~edAEra~a~Mngs~l~Gr~I~V 605 (608)
T KOG4212|consen 531 GAARKACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIM---ENGKSKG--VVRFFSPEDAERACALMNGSRLDGRNIKV 605 (608)
T ss_pred cccccccEEEEecCCccccHHHHHHHHHhccceehhhhh---ccCCccc--eEEecCHHHHHHHHHHhccCcccCceeee
Confidence 345677999999999999999999999999999999995 3577776 89999999999999999999999888877
Q ss_pred eh
Q 022930 90 IL 91 (290)
Q Consensus 90 ~~ 91 (290)
.+
T Consensus 606 ~y 607 (608)
T KOG4212|consen 606 TY 607 (608)
T ss_pred ee
Confidence 53
No 78
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=99.11 E-value=2.4e-10 Score=95.51 Aligned_cols=80 Identities=29% Similarity=0.403 Sum_probs=72.8
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehhh
Q 022930 14 DTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILKS 93 (290)
Q Consensus 14 ~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~~ 93 (290)
-..+|+|.||++.|+++||+++|..||+++.+.|..+ .+|.+.|.|-|.|...++|+.||+.|||+.++|..+.+....
T Consensus 82 ~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~-~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i~ 160 (243)
T KOG0533|consen 82 RSTKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYD-RAGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEIIS 160 (243)
T ss_pred CcceeeeecCCcCcchHHHHHHHHHhccceEEeeccC-CCCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEec
Confidence 3478999999999999999999999999999999888 489999999999999999999999999999999988766554
Q ss_pred h
Q 022930 94 S 94 (290)
Q Consensus 94 ~ 94 (290)
.
T Consensus 161 ~ 161 (243)
T KOG0533|consen 161 S 161 (243)
T ss_pred C
Confidence 4
No 79
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.08 E-value=1.3e-10 Score=107.75 Aligned_cols=81 Identities=30% Similarity=0.425 Sum_probs=73.0
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehhh
Q 022930 14 DTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILKS 93 (290)
Q Consensus 14 ~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~~ 93 (290)
.++.|+|.|||+.++..+|+++|..||+|.+|.|+.....+.+.|||||+|-++.+|..|+.+|..+-|.|+.|+..+..
T Consensus 612 ~~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrLVLEwA~ 691 (725)
T KOG0110|consen 612 KGTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRLVLEWAK 691 (725)
T ss_pred ccceeeeeccchHHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhcccceechhhheehhc
Confidence 36899999999999999999999999999999998775667889999999999999999999999988888888776654
Q ss_pred h
Q 022930 94 S 94 (290)
Q Consensus 94 ~ 94 (290)
.
T Consensus 692 ~ 692 (725)
T KOG0110|consen 692 S 692 (725)
T ss_pred c
Confidence 4
No 80
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=99.05 E-value=2.8e-10 Score=103.01 Aligned_cols=78 Identities=29% Similarity=0.373 Sum_probs=72.4
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehh
Q 022930 15 TYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILK 92 (290)
Q Consensus 15 ~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~ 92 (290)
+.+|||.+|...|...+|+.||.+||+|+.++|+.+.-+.-..+|+||++.+.++|.+||..|+-+.|.|++|.|.-.
T Consensus 405 gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEka 482 (940)
T KOG4661|consen 405 GRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKA 482 (940)
T ss_pred ccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeec
Confidence 478999999999999999999999999999999999888888999999999999999999999999999999987433
No 81
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.02 E-value=2.8e-10 Score=94.14 Aligned_cols=67 Identities=31% Similarity=0.527 Sum_probs=62.3
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcc
Q 022930 14 DTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLF 81 (290)
Q Consensus 14 ~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~ 81 (290)
+..+||||-|...-.|+|+..+|..||.|++|.+...+ .|.++|||||+|.+..+|..||..|+|..
T Consensus 18 ~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~-dg~sKGCAFVKf~s~~eAqaAI~aLHgSq 84 (371)
T KOG0146|consen 18 DDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGP-DGNSKGCAFVKFSSHAEAQAAINALHGSQ 84 (371)
T ss_pred cchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCC-CCCCCCceEEEeccchHHHHHHHHhcccc
Confidence 45789999999999999999999999999999998874 78999999999999999999999999954
No 82
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=99.01 E-value=5.5e-10 Score=101.18 Aligned_cols=73 Identities=21% Similarity=0.372 Sum_probs=65.5
Q ss_pred CCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccce
Q 022930 12 IRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHE 89 (290)
Q Consensus 12 ~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~ 89 (290)
...+.+|+|.|||..|++++|..+|+.||+|.+|.+-.. ..|.+||+|.|..+|+.|+++||+..|.++.|..
T Consensus 72 ~~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~~-----~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k~ 144 (549)
T KOG4660|consen 72 DMNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETPN-----KRGIVFVEFYDVRDAERALKALNRREIAGKRIKR 144 (549)
T ss_pred cCccceEEEEecCCcCCHHHHHHHHHhhcchhhhhcccc-----cCceEEEEEeehHhHHHHHHHHHHHHhhhhhhcC
Confidence 445678999999999999999999999999999776544 4899999999999999999999999999988874
No 83
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=98.98 E-value=5.7e-10 Score=93.48 Aligned_cols=78 Identities=28% Similarity=0.404 Sum_probs=69.9
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceeh
Q 022930 13 RDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEIL 91 (290)
Q Consensus 13 ~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~ 91 (290)
.+...|||+|+.+.+|.++|..+|+.||.|..|.|+.++.+|+++|||||+|.+.+.++.||. |||..|.+..+.+..
T Consensus 99 ~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~vt~ 176 (231)
T KOG4209|consen 99 VDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIEVTL 176 (231)
T ss_pred cCCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccccccceeee
Confidence 345789999999999999999999999999999999999999999999999999999999999 999666666665543
No 84
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=98.94 E-value=1.5e-09 Score=97.85 Aligned_cols=81 Identities=21% Similarity=0.274 Sum_probs=63.1
Q ss_pred CCCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcccccccccee
Q 022930 11 DIRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEI 90 (290)
Q Consensus 11 ~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~ 90 (290)
+.....+|||.|||.++++++|+++|.+||+|+...|..-.-.++..+||||+|.+.++++.||++ +-+.|++..|.|.
T Consensus 284 ~~~~~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~A-sp~~ig~~kl~Ve 362 (419)
T KOG0116|consen 284 PRADGLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEA-SPLEIGGRKLNVE 362 (419)
T ss_pred eeecccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhc-CccccCCeeEEEE
Confidence 344456699999999999999999999999999887755332344448999999999999999996 5655565555554
Q ss_pred hh
Q 022930 91 LK 92 (290)
Q Consensus 91 ~~ 92 (290)
.+
T Consensus 363 ek 364 (419)
T KOG0116|consen 363 EK 364 (419)
T ss_pred ec
Confidence 44
No 85
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.91 E-value=1.4e-09 Score=94.61 Aligned_cols=81 Identities=30% Similarity=0.328 Sum_probs=72.0
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehhh
Q 022930 14 DTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILKS 93 (290)
Q Consensus 14 ~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~~ 93 (290)
...+|||++||.++++++|+++|++||.|..+.++.|..+...+||+||.|.+++++.+++. ..-..|.++.+.|....
T Consensus 96 ~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~-~~f~~~~gk~vevkrA~ 174 (311)
T KOG4205|consen 96 RTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTL-QKFHDFNGKKVEVKRAI 174 (311)
T ss_pred ceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceecc-cceeeecCceeeEeecc
Confidence 35689999999999999999999999999999999999999999999999999999999988 56677778777776555
Q ss_pred hH
Q 022930 94 SL 95 (290)
Q Consensus 94 ~~ 95 (290)
+.
T Consensus 175 pk 176 (311)
T KOG4205|consen 175 PK 176 (311)
T ss_pred ch
Confidence 53
No 86
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=98.91 E-value=5e-09 Score=89.81 Aligned_cols=83 Identities=20% Similarity=0.215 Sum_probs=72.8
Q ss_pred CCCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeE--------EEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccc
Q 022930 11 DIRDTYSLLVLNITFRTTADDLFPLFEKYGKVV--------DVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFL 82 (290)
Q Consensus 11 ~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~--------~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~ 82 (290)
.+..++.|||.|||.++|.+++.++|.+||-|. .|+|..+. .|+.+|-|+|.|-..+++.-||..|++..|
T Consensus 130 ~~~~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~-~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~ 208 (382)
T KOG1548|consen 130 EPKVNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDN-QGKLKGDALCCYIKRESVELAIKILDEDEL 208 (382)
T ss_pred ccccCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecC-CCCccCceEEEeecccHHHHHHHHhCcccc
Confidence 345567799999999999999999999999874 47788774 599999999999999999999999999999
Q ss_pred cccccceehhhh
Q 022930 83 NFNFVHEILKSS 94 (290)
Q Consensus 83 ~~~~~~~~~~~~ 94 (290)
.|..|.|...+.
T Consensus 209 rg~~~rVerAkf 220 (382)
T KOG1548|consen 209 RGKKLRVERAKF 220 (382)
T ss_pred cCcEEEEehhhh
Confidence 999998855544
No 87
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=98.88 E-value=1.6e-09 Score=98.84 Aligned_cols=85 Identities=21% Similarity=0.293 Sum_probs=78.2
Q ss_pred CCCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcccccccccee
Q 022930 11 DIRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEI 90 (290)
Q Consensus 11 ~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~ 90 (290)
.......|||++||..++++++.+++..||.+....++.|..+|.++||||.+|.++..+..|+..|||+.++++.|+|+
T Consensus 285 ~~~~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq 364 (500)
T KOG0120|consen 285 VPDSPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQ 364 (500)
T ss_pred cccccchhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEee
Confidence 34455789999999999999999999999999999999999999999999999999999999999999999999999887
Q ss_pred hhhhH
Q 022930 91 LKSSL 95 (290)
Q Consensus 91 ~~~~~ 95 (290)
....-
T Consensus 365 ~A~~g 369 (500)
T KOG0120|consen 365 RAIVG 369 (500)
T ss_pred hhhcc
Confidence 66653
No 88
>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2. It is found C-terminal to the RNA-binding region RNP-1 (IPR000504 from INTERPRO).
Probab=98.86 E-value=1.8e-08 Score=72.47 Aligned_cols=68 Identities=21% Similarity=0.347 Sum_probs=61.7
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhc--CCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcccc
Q 022930 16 YSLLVLNITFRTTADDLFPLFEK--YGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLN 83 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~L~~~F~~--~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~ 83 (290)
+||.|.|||...|.++|.+++.. .|...-+.|+.|..++.+.|||||.|.+++.|....+.++|....
T Consensus 2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~ 71 (97)
T PF04059_consen 2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWP 71 (97)
T ss_pred eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccc
Confidence 68999999999999999999854 478888999999999999999999999999999999999996553
No 89
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=98.81 E-value=1.8e-09 Score=93.80 Aligned_cols=63 Identities=11% Similarity=0.051 Sum_probs=53.3
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcccc
Q 022930 16 YSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLN 83 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~ 83 (290)
.||+|++|+..|...+|.++|..+|+|....+. .+-..-+|.|+|....+...|+. ++|..+.
T Consensus 152 Rt~~v~sl~~~~~l~e~~e~f~r~Gev~ya~~a----sk~~s~~c~~sf~~qts~~halr-~~gre~k 214 (479)
T KOG4676|consen 152 RTREVQSLISAAILPESGESFERKGEVSYAHTA----SKSRSSSCSHSFRKQTSSKHALR-SHGRERK 214 (479)
T ss_pred hhhhhhcchhhhcchhhhhhhhhcchhhhhhhh----ccCCCcchhhhHhhhhhHHHHHH-hcchhhh
Confidence 679999999999999999999999999887765 34445688899999999999999 6775554
No 90
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=98.80 E-value=9e-09 Score=88.91 Aligned_cols=85 Identities=22% Similarity=0.257 Sum_probs=74.0
Q ss_pred CCCCCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeE--------EEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCc
Q 022930 9 PPDIRDTYSLLVLNITFRTTADDLFPLFEKYGKVV--------DVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGL 80 (290)
Q Consensus 9 ~~~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~--------~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~ 80 (290)
........+|||-+||..+++++|.++|.+||.|. .|+|.++++|+..+|-|.|.|.++..|++||.-+++.
T Consensus 60 ~~~~s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agk 139 (351)
T KOG1995|consen 60 MADKSDNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGK 139 (351)
T ss_pred cccccccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhccc
Confidence 33466678999999999999999999999999883 5778899999999999999999999999999999998
Q ss_pred cccccccceehhh
Q 022930 81 FLNFNFVHEILKS 93 (290)
Q Consensus 81 ~~~~~~~~~~~~~ 93 (290)
.+.+..|+|.+..
T Consensus 140 df~gn~ikvs~a~ 152 (351)
T KOG1995|consen 140 DFCGNTIKVSLAE 152 (351)
T ss_pred cccCCCchhhhhh
Confidence 8877666665543
No 91
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=98.80 E-value=7.9e-09 Score=85.11 Aligned_cols=80 Identities=20% Similarity=0.385 Sum_probs=73.5
Q ss_pred CCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceeh
Q 022930 12 IRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEIL 91 (290)
Q Consensus 12 ~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~ 91 (290)
......||.|.|..+++.+.|-..|.+|-.....+++.+.-||+++||+||-|.++.++..||..|||.+++.++|..--
T Consensus 187 ~~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklRk 266 (290)
T KOG0226|consen 187 DEDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLRK 266 (290)
T ss_pred ccccceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhhh
Confidence 34568899999999999999999999999888999999999999999999999999999999999999999888887543
No 92
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=98.78 E-value=8.7e-09 Score=95.66 Aligned_cols=80 Identities=21% Similarity=0.256 Sum_probs=68.1
Q ss_pred CCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCC---CCCcceEEEEEEccHHHHHHHHHHhCCccccccccc
Q 022930 12 IRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRR---TGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVH 88 (290)
Q Consensus 12 ~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~---tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~ 88 (290)
...+++|||+||++.|++++|...|+.||+|..|+|+.... ......||||.|.+..+|+.|++.|+|+.|....++
T Consensus 171 DP~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~K 250 (877)
T KOG0151|consen 171 DPQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEMK 250 (877)
T ss_pred CCcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeeee
Confidence 45668899999999999999999999999999999986542 234567999999999999999999999999876665
Q ss_pred eeh
Q 022930 89 EIL 91 (290)
Q Consensus 89 ~~~ 91 (290)
..+
T Consensus 251 ~gW 253 (877)
T KOG0151|consen 251 LGW 253 (877)
T ss_pred ecc
Confidence 433
No 93
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=98.74 E-value=6.2e-08 Score=87.38 Aligned_cols=124 Identities=13% Similarity=0.081 Sum_probs=80.2
Q ss_pred CCCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCC---CCcce---EEEEEEccHHHHHHHHHHhCCccccc
Q 022930 11 DIRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRT---GDSRG---FAFVRYKYADEAQKAVDRLDGLFLNF 84 (290)
Q Consensus 11 ~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~t---g~~~g---~afV~F~~~~~a~~Al~~l~g~~~~~ 84 (290)
...-.+.||||+||+.|+|++|...|..||.|. |.+....+. -.++| |+|+.|+++..+..-|.++.- .-..
T Consensus 255 ~~~~S~KVFvGGlp~dise~~i~~~F~~FGs~~-VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC~~-~~~~ 332 (520)
T KOG0129|consen 255 SPRYSRKVFVGGLPWDITEAQINASFGQFGSVK-VDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSACSE-GEGN 332 (520)
T ss_pred ccccccceeecCCCccccHHHHHhhcccccceE-eecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHHhh-cccc
Confidence 344567899999999999999999999999863 555532111 23466 999999999998887765433 1111
Q ss_pred cccceehhhh-----HHhhhcc--------ccccCcceeEEEEeccCcccchhHHHHHhh-ccCCc
Q 022930 85 NFVHEILKSS-----LFLRKNL--------YLCIGFLFFFLIFFILGRVVDGREITVQFA-KYGPN 136 (290)
Q Consensus 85 ~~~~~~~~~~-----~~~~~~~--------~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~-~~g~~ 136 (290)
-++++-.... .+..+.+ ....-.+..++|||+||..++-++|...|. -||..
T Consensus 333 ~yf~vss~~~k~k~VQIrPW~laDs~fv~d~sq~lDprrTVFVGgvprpl~A~eLA~imd~lyGgV 398 (520)
T KOG0129|consen 333 YYFKVSSPTIKDKEVQIRPWVLADSDFVLDHNQPIDPRRTVFVGGLPRPLTAEELAMIMEDLFGGV 398 (520)
T ss_pred eEEEEecCcccccceeEEeeEeccchhhhccCcccCccceEEecCCCCcchHHHHHHHHHHhcCce
Confidence 1121110000 0000111 112234456799999999999999999998 45553
No 94
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.60 E-value=4.6e-08 Score=79.21 Aligned_cols=69 Identities=25% Similarity=0.363 Sum_probs=56.6
Q ss_pred CCCCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccc
Q 022930 10 PDIRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFL 82 (290)
Q Consensus 10 ~~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~ 82 (290)
.......||||.||.+++||++|+.+|..|....-++|... .| ...|||+|++.+.|..||..|+|..|
T Consensus 205 ~~~~acstlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~~--~g--~~vaf~~~~~~~~at~am~~lqg~~~ 273 (284)
T KOG1457|consen 205 SGARACSTLFIANLGPNCTEDELKQLLSRYPGFHILKIRAR--GG--MPVAFADFEEIEQATDAMNHLQGNLL 273 (284)
T ss_pred ccchhhhhHhhhccCCCCCHHHHHHHHHhCCCceEEEEecC--CC--cceEeecHHHHHHHHHHHHHhhccee
Confidence 44556789999999999999999999999987666666322 23 34899999999999999999999544
No 95
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.54 E-value=5.4e-08 Score=79.81 Aligned_cols=72 Identities=33% Similarity=0.504 Sum_probs=61.7
Q ss_pred CCCCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccce
Q 022930 10 PDIRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHE 89 (290)
Q Consensus 10 ~~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~ 89 (290)
++....+.|+|.||+..+.+++|.++|.++|++..+.+. .++|||+|.+.++|..||..|+|..|.++.|.+
T Consensus 94 ~p~~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~~--------~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~~ 165 (216)
T KOG0106|consen 94 PPSRTHFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDAR--------RNFAFVEFSEQEDAKRALEKLDGKKLNGRRISV 165 (216)
T ss_pred CcccccceeeeccchhhhhHHHHhhhhcccCCCchhhhh--------ccccceeehhhhhhhhcchhccchhhcCceeee
Confidence 345567889999999999999999999999999655553 569999999999999999999997777776664
No 96
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.48 E-value=5e-08 Score=93.01 Aligned_cols=117 Identities=22% Similarity=0.197 Sum_probs=95.0
Q ss_pred CCCCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccce
Q 022930 10 PDIRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHE 89 (290)
Q Consensus 10 ~~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~ 89 (290)
.+...+.|||+|||+..+++.+|...|..+|.|..|.|.... -+....||||.|.+...+-.|+..|.+..|....+.+
T Consensus 367 DD~~atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~-~~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r~ 445 (975)
T KOG0112|consen 367 DDFRATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPH-IKTESAYAFVSLLNTDMTPSAKFEESGPLIGNGTHRI 445 (975)
T ss_pred cchhhhhhhhhcCcccchhhhhhhhhhhhhccccccccccCC-CCcccchhhhhhhccccCcccchhhcCCccccCcccc
Confidence 345567899999999999999999999999999999986553 3444569999999999999999999997775543333
Q ss_pred ehhhhHHhhhccccccCcceeEEEEeccCcccchhHHHHHhhccCCch
Q 022930 90 ILKSSLFLRKNLYLCIGFLFFFLIFFILGRVVDGREITVQFAKYGPNA 137 (290)
Q Consensus 90 ~~~~~~~~~~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~~ 137 (290)
.+. .......+.|+||+|+.+..-..|...|..||++.
T Consensus 446 glG----------~~kst~ttr~~sgglg~w~p~~~l~r~fd~fGpir 483 (975)
T KOG0112|consen 446 GLG----------QPKSTPTTRLQSGGLGPWSPVSRLNREFDRFGPIR 483 (975)
T ss_pred ccc----------ccccccceeeccCCCCCCChHHHHHHHhhccCcce
Confidence 222 11455677899999999999999999999999854
No 97
>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.
Probab=98.46 E-value=4.3e-07 Score=66.85 Aligned_cols=59 Identities=27% Similarity=0.392 Sum_probs=40.1
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCc
Q 022930 16 YSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGL 80 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~ 80 (290)
+.|+|.+++..++.++|+++|.+||+|..|.+... ...|||-|.++++|+.|+.++...
T Consensus 2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G------~~~g~VRf~~~~~A~~a~~~~~~~ 60 (105)
T PF08777_consen 2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRG------DTEGYVRFKTPEAAQKALEKLKEA 60 (105)
T ss_dssp -EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-------SEEEEEESS---HHHHHHHHHHT
T ss_pred eEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCC------CCEEEEEECCcchHHHHHHHHHhc
Confidence 67999999999999999999999999999998754 347999999999999999977653
No 98
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=98.46 E-value=1.6e-06 Score=75.41 Aligned_cols=119 Identities=20% Similarity=0.150 Sum_probs=92.2
Q ss_pred CCCCcEEEEcCCCCC-CCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcccccccccee
Q 022930 12 IRDTYSLLVLNITFR-TTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEI 90 (290)
Q Consensus 12 ~~~~~~l~V~nL~~~-~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~ 90 (290)
-.+++.+.|-+|... ++-+-|..+|-.||.|+.|+++..+ .|-|.|++.|+.+++.|+..||+..|-|..|.+.
T Consensus 284 ~~~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk-----~gtamVemgd~~aver~v~hLnn~~lfG~kl~v~ 358 (494)
T KOG1456|consen 284 GAPGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTK-----PGTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVC 358 (494)
T ss_pred CCCCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeecc-----cceeEEEcCcHHHHHHHHHHhccCccccceEEEe
Confidence 345688999999776 6778999999999999999998775 6899999999999999999999999999888765
Q ss_pred hhhhHHhhh-c-------------------cc-c--------ccCcceeEEEEeccCcccchhHHHHHhhccCC
Q 022930 91 LKSSLFLRK-N-------------------LY-L--------CIGFLFFFLIFFILGRVVDGREITVQFAKYGP 135 (290)
Q Consensus 91 ~~~~~~~~~-~-------------------~~-~--------~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~ 135 (290)
+++...... + .. . ..-.+...|+.-|.|..++++.|...+.....
T Consensus 359 ~SkQ~~v~~~~pflLpDgSpSfKdys~SkNnRFssp~qAsKNrIq~Ps~vLHffNaP~~vtEe~l~~i~nek~v 432 (494)
T KOG1456|consen 359 VSKQNFVSPVQPFLLPDGSPSFKDYSGSKNNRFSSPEQASKNRIQPPSNVLHFFNAPLGVTEEQLIGICNEKDV 432 (494)
T ss_pred eccccccccCCceecCCCCcchhhcccccccccCChhHhhcccccCCcceeEEecCCCccCHHHHHHHhhhcCC
Confidence 444311100 0 00 0 11223456899999999999999988877544
No 99
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=98.43 E-value=1.1e-06 Score=69.34 Aligned_cols=70 Identities=29% Similarity=0.440 Sum_probs=63.4
Q ss_pred CCCCCCCCCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcc
Q 022930 5 GKSGPPDIRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLF 81 (290)
Q Consensus 5 ~~~~~~~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~ 81 (290)
+..+||.-.....|.|.+||+...|+||++++.+.|.|....+..| |++.|+|...++++-||.+|+...
T Consensus 105 g~rgppsrrSe~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rD-------g~GvV~~~r~eDMkYAvr~ld~~~ 174 (241)
T KOG0105|consen 105 GRRGPPSRRSEYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRD-------GVGVVEYLRKEDMKYAVRKLDDQK 174 (241)
T ss_pred cccCCcccccceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeecc-------cceeeeeeehhhHHHHHHhhcccc
Confidence 3456888888999999999999999999999999999999999877 599999999999999999998843
No 100
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=98.40 E-value=2.1e-07 Score=79.99 Aligned_cols=74 Identities=20% Similarity=0.301 Sum_probs=66.8
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhcCC--CeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccce
Q 022930 16 YSLLVLNITFRTTADDLFPLFEKYG--KVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHE 89 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~L~~~F~~~G--~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~ 89 (290)
..+|||||-|++|++||.+.+...| .|.++++..+..+|+++|||+|......++++.|+.|..+.|.|+.-.|
T Consensus 81 ~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V 156 (498)
T KOG4849|consen 81 YCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTV 156 (498)
T ss_pred EEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCCCee
Confidence 4589999999999999999998777 6778888889999999999999999999999999999999998876555
No 101
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=98.40 E-value=5e-07 Score=73.64 Aligned_cols=67 Identities=24% Similarity=0.360 Sum_probs=60.0
Q ss_pred CCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcccc
Q 022930 12 IRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLN 83 (290)
Q Consensus 12 ~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~ 83 (290)
...+.+||+.|||..++.+.|..+|.+|....+|.++... .+.|||+|.+...|..|+..|+|..|-
T Consensus 143 ~ppn~ilf~~niP~es~~e~l~~lf~qf~g~keir~i~~~-----~~iAfve~~~d~~a~~a~~~lq~~~it 209 (221)
T KOG4206|consen 143 APPNNILFLTNIPSESESEMLSDLFEQFPGFKEIRLIPPR-----SGIAFVEFLSDRQASAAQQALQGFKIT 209 (221)
T ss_pred CCCceEEEEecCCcchhHHHHHHHHhhCcccceeEeccCC-----CceeEEecchhhhhHHHhhhhccceec
Confidence 4567889999999999999999999999999999998765 789999999999999999999995543
No 102
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=98.39 E-value=7e-07 Score=74.03 Aligned_cols=64 Identities=22% Similarity=0.443 Sum_probs=53.6
Q ss_pred HHHHHHHh-cCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehhhh
Q 022930 30 DDLFPLFE-KYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILKSS 94 (290)
Q Consensus 30 ~~L~~~F~-~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~~~ 94 (290)
++|...|+ +||+|+++.|..+ ..-+..|.+||.|...++|++|++.||+.+|.|++|+..+...
T Consensus 83 Ed~f~E~~~kygEiee~~Vc~N-l~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~pv 147 (260)
T KOG2202|consen 83 EDVFTELEDKYGEIEELNVCDN-LGDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSPV 147 (260)
T ss_pred HHHHHHHHHHhhhhhhhhhhcc-cchhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecCc
Confidence 44555555 9999999987655 4567789999999999999999999999999999998876654
No 103
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=98.37 E-value=1.5e-06 Score=74.60 Aligned_cols=105 Identities=12% Similarity=0.291 Sum_probs=74.5
Q ss_pred CCcEEEEcCCCCCCCHHHH------HHHHhcCCCeEEEEEcccCCC-CCcceE--EEEEEccHHHHHHHHHHhCCccccc
Q 022930 14 DTYSLLVLNITFRTTADDL------FPLFEKYGKVVDVFIPRDRRT-GDSRGF--AFVRYKYADEAQKAVDRLDGLFLNF 84 (290)
Q Consensus 14 ~~~~l~V~nL~~~~t~~~L------~~~F~~~G~I~~v~i~~d~~t-g~~~g~--afV~F~~~~~a~~Al~~l~g~~~~~ 84 (290)
+..-|||-+|++.+..+++ .++|++||.|..|.|...... ....+. .||+|.+.++|..||...+|..++|
T Consensus 113 QKNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~DG 192 (480)
T COG5175 113 QKNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLDG 192 (480)
T ss_pred ecceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccccC
Confidence 4466899999998877662 479999999988877543211 112222 3999999999999999999999999
Q ss_pred cccceehhhhHHhhhccccccCcceeEEEEeccC
Q 022930 85 NFVHEILKSSLFLRKNLYLCIGFLFFFLIFFILG 118 (290)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~~l~ 118 (290)
+.|+..+-...+...-+.-..-.+..-+|+..-+
T Consensus 193 r~lkatYGTTKYCtsYLRn~~CpNp~CMyLHEpg 226 (480)
T COG5175 193 RVLKATYGTTKYCTSYLRNAVCPNPDCMYLHEPG 226 (480)
T ss_pred ceEeeecCchHHHHHHHcCCCCCCCCeeeecCCC
Confidence 9999988777666544443333333344444433
No 104
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.35 E-value=1.4e-06 Score=78.36 Aligned_cols=76 Identities=20% Similarity=0.381 Sum_probs=61.2
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhcCCCeEE-EEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceeh
Q 022930 14 DTYSLLVLNITFRTTADDLFPLFEKYGKVVD-VFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEIL 91 (290)
Q Consensus 14 ~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~-v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~ 91 (290)
....|-+.+||+.||++||.+||+.+-.|.. |.|+.+ ..+.+.|-|||+|++++.|++||. -|...|+-+.|.|..
T Consensus 102 ~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d-~rgR~tGEAfVqF~sqe~ae~Al~-rhre~iGhRYIEvF~ 178 (510)
T KOG4211|consen 102 NDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMD-QRGRPTGEAFVQFESQESAEIALG-RHRENIGHRYIEVFR 178 (510)
T ss_pred CCceEEecCCCccCcHHHHHHHhcCCcccccceeeecc-CCCCcccceEEEecCHHHHHHHHH-HHHHhhccceEEeeh
Confidence 3467899999999999999999998755544 455555 467799999999999999999999 466677777776643
No 105
>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes. Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.
Probab=98.34 E-value=3.4e-06 Score=58.07 Aligned_cols=68 Identities=24% Similarity=0.290 Sum_probs=46.2
Q ss_pred cEEEEcCCCCCCCHHHH----HHHHhcCC-CeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcccccccccee
Q 022930 16 YSLLVLNITFRTTADDL----FPLFEKYG-KVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEI 90 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~L----~~~F~~~G-~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~ 90 (290)
..|||.|||.+.+...| .+|+..|| .|..| . .+.|+|.|.+++.|..|++.|+|..+.|..|.|.
T Consensus 3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v--~--------~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~ 72 (90)
T PF11608_consen 3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSV--S--------GGTAILRFPNQEFAERAQKRMEGEDVFGNKISVS 72 (90)
T ss_dssp EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE------------TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEE
T ss_pred cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEE--e--------CCEEEEEeCCHHHHHHHHHhhcccccccceEEEE
Confidence 46999999999988765 56777887 56554 2 3689999999999999999999977777777776
Q ss_pred hhh
Q 022930 91 LKS 93 (290)
Q Consensus 91 ~~~ 93 (290)
|..
T Consensus 73 ~~~ 75 (90)
T PF11608_consen 73 FSP 75 (90)
T ss_dssp SS-
T ss_pred EcC
Confidence 653
No 106
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=98.30 E-value=3.5e-08 Score=93.59 Aligned_cols=102 Identities=23% Similarity=0.218 Sum_probs=86.0
Q ss_pred CCCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcccccccccee
Q 022930 11 DIRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEI 90 (290)
Q Consensus 11 ~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~ 90 (290)
.+++.+++||.||++.+.+.+|...|..+|.|..|.|....+++..+|+|||+|..++.|.+||...++.+++
T Consensus 663 ~~R~~~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~g------- 735 (881)
T KOG0128|consen 663 EIRDLIKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFG------- 735 (881)
T ss_pred HHHHHHHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhhhhhh-------
Confidence 3455678999999999999999999999999988888777788999999999999999999999966664332
Q ss_pred hhhhHHhhhccccccCcceeEEEEeccCcccchhHHHHHhhccCCch
Q 022930 91 LKSSLFLRKNLYLCIGFLFFFLIFFILGRVVDGREITVQFAKYGPNA 137 (290)
Q Consensus 91 ~~~~~~~~~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~~ 137 (290)
..+|||.|+|...+.+.+...+..+|...
T Consensus 736 ------------------K~~v~i~g~pf~gt~e~~k~l~~~~gn~~ 764 (881)
T KOG0128|consen 736 ------------------KISVAISGPPFQGTKEELKSLASKTGNVT 764 (881)
T ss_pred ------------------hhhhheeCCCCCCchHHHHhhccccCCcc
Confidence 45578888888888888888888877653
No 107
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=98.30 E-value=7.9e-07 Score=81.54 Aligned_cols=121 Identities=20% Similarity=0.235 Sum_probs=91.0
Q ss_pred CCCCcEEEEcCCCCCCCHHHHHHHHhcC-----------C-CeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCC
Q 022930 12 IRDTYSLLVLNITFRTTADDLFPLFEKY-----------G-KVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 12 ~~~~~~l~V~nL~~~~t~~~L~~~F~~~-----------G-~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
..+...++|++|++.++++.+..+|..- | .|..|.|... ++||||+|.+.++|..|+. +++
T Consensus 172 t~q~~r~~v~~~~~~~~e~~~~~f~~~~~~~~gl~~~~~g~~~~s~~~n~~------~nfa~ie~~s~~~at~~~~-~~~ 244 (500)
T KOG0120|consen 172 TRQARRLYVGNIPFTSNEESMMSFFNSRMHASGLNQAPDGPSFVSVQLNLE------KNFAFIEFRSISEATEAMA-LDG 244 (500)
T ss_pred hhhhhhhcccccCCccCcHhhhhhhhhhhhhcccccCCCCCceeeeeeccc------ccceeEEecCCCchhhhhc-ccc
Confidence 3455779999999999999999999753 3 3667777655 7899999999999999988 899
Q ss_pred ccccccccceehhhh--------HHh-----hhccc--cccCcceeEEEEeccCcccchhHHHHHhhccCCchhh
Q 022930 80 LFLNFNFVHEILKSS--------LFL-----RKNLY--LCIGFLFFFLIFFILGRVVDGREITVQFAKYGPNAEK 139 (290)
Q Consensus 80 ~~~~~~~~~~~~~~~--------~~~-----~~~~~--~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~~~~ 139 (290)
..+.|..+++..... ... ....+ ......+.++||++||..++..++.+.+..||+....
T Consensus 245 ~~f~g~~~~~~r~~d~~~~p~~~~~~~~~~~~~~~~~~t~~~~~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f 319 (500)
T KOG0120|consen 245 IIFEGRPLKIRRPHDYQPVPGITLSPSQLGKVGLLPASTDVPDSPNKIFVGGLPLYLTEDQVKELLDSFGPLKAF 319 (500)
T ss_pred hhhCCCCceecccccccCCccchhhhccccccCCcccccCcccccchhhhccCcCccCHHHHHHHHHhcccchhh
Confidence 999888777521111 111 11111 1345566789999999999999999999988886544
No 108
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=98.28 E-value=4.3e-07 Score=78.78 Aligned_cols=75 Identities=25% Similarity=0.412 Sum_probs=65.1
Q ss_pred CcEEE-EcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcccccccccee
Q 022930 15 TYSLL-VLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEI 90 (290)
Q Consensus 15 ~~~l~-V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~ 90 (290)
..++| |+||+.++++++|+.+|..+|.|..+.+..++.++.++|||||+|.+...+..|+.. +...+.+..+.+.
T Consensus 184 s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~ 259 (285)
T KOG4210|consen 184 SDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALND-QTRSIGGRPLRLE 259 (285)
T ss_pred cccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhc-ccCcccCcccccc
Confidence 34566 999999999999999999999999999999999999999999999999999999986 7755555544443
No 109
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=98.26 E-value=2.5e-06 Score=54.54 Aligned_cols=52 Identities=21% Similarity=0.542 Sum_probs=43.2
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHH
Q 022930 16 YSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAV 74 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al 74 (290)
+.|-|.|+++...+ +|..+|.+||+|+.+.+... ..++||+|.+..+|+.||
T Consensus 2 ~wI~V~Gf~~~~~~-~vl~~F~~fGeI~~~~~~~~------~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 2 TWISVSGFPPDLAE-EVLEHFASFGEIVDIYVPES------TNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred cEEEEEeECchHHH-HHHHHHHhcCCEEEEEcCCC------CcEEEEEECCHHHHHhhC
Confidence 56889999987664 56669999999999888632 458999999999999986
No 110
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=98.24 E-value=2.5e-06 Score=74.96 Aligned_cols=118 Identities=15% Similarity=0.155 Sum_probs=78.1
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcc--ccccccceeh
Q 022930 14 DTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLF--LNFNFVHEIL 91 (290)
Q Consensus 14 ~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~--~~~~~~~~~~ 91 (290)
.+..|.|+|||++++|+||.+++..||.|+.+.++.. +..|||+|.+.++|...+..+-.+. +-+..|-++|
T Consensus 27 pSkV~HlRnlp~e~tE~elI~Lg~pFG~vtn~~~lkG------knQAflem~d~~sAvtmv~~y~~~~p~lr~~~~yiq~ 100 (492)
T KOG1190|consen 27 PSKVVHLRNLPWEVTEEELISLGLPFGKVTNLLMLKG------KNQAFLEMADEESAVTMVNYYTSVTPVLRGQPIYIQY 100 (492)
T ss_pred CcceeEeccCCccccHHHHHHhcccccceeeeeeecc------chhhhhhhcchhhhhheeecccccCccccCcceeehh
Confidence 5678999999999999999999999999999988755 4489999999999887333211111 1122222222
Q ss_pred hhhH----------------Hh--------h---hccccccC---c--ceeEEEEeccCcccchhHHHHHhhccCCch
Q 022930 92 KSSL----------------FL--------R---KNLYLCIG---F--LFFFLIFFILGRVVDGREITVQFAKYGPNA 137 (290)
Q Consensus 92 ~~~~----------------~~--------~---~~~~~~~~---~--~~~~l~v~~l~~~~~~~~l~~~f~~~g~~~ 137 (290)
+... +. . .......+ . .-..++|+++-..++-+.|.+.|++||...
T Consensus 101 sn~~~lkt~s~p~q~r~~~vy~~~s~~q~~~~~~s~~~~~~G~~~~~n~vLr~iie~m~ypVslDVLHqvFS~fG~Vl 178 (492)
T KOG1190|consen 101 SNHSELKTDSQPNQIRGQAVYQAVSSVQEIVLPLSASAVVVGNEDGPNPVLRTIIENMFYPVSLDVLHQVFSKFGFVL 178 (492)
T ss_pred hhHHHHhccCchhhhhhhhHHhhhhcccccccccccccccccccCCCceeEEEEeccceeeeEHHHHHHHHhhcceeE
Confidence 1110 00 0 00001111 1 223468899989999999999999998753
No 111
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=98.17 E-value=3.5e-06 Score=76.90 Aligned_cols=75 Identities=29% Similarity=0.453 Sum_probs=60.5
Q ss_pred CCCcEEEEcCCCCCCC--HH----HHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccc
Q 022930 13 RDTYSLLVLNITFRTT--AD----DLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNF 86 (290)
Q Consensus 13 ~~~~~l~V~nL~~~~t--~~----~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~ 86 (290)
.....|+|.|+|---. .+ -|..+|+++|+|+.+.++.+..+| ++||+|++|.++.+|+.|++.|||..|+.+.
T Consensus 56 g~D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~gg-tkG~lf~E~~~~~~A~~aVK~l~G~~ldknH 134 (698)
T KOG2314|consen 56 GFDSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGG-TKGYLFVEYASMRDAKKAVKSLNGKRLDKNH 134 (698)
T ss_pred CcceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCC-eeeEEEEEecChhhHHHHHHhcccceecccc
Confidence 3446789999986422 12 345789999999999999886555 9999999999999999999999999998754
Q ss_pred cc
Q 022930 87 VH 88 (290)
Q Consensus 87 ~~ 88 (290)
..
T Consensus 135 tf 136 (698)
T KOG2314|consen 135 TF 136 (698)
T ss_pred eE
Confidence 43
No 112
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=98.17 E-value=1.4e-06 Score=72.20 Aligned_cols=74 Identities=16% Similarity=0.196 Sum_probs=62.6
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCC--------CCcce----EEEEEEccHHHHHHHHHHhCCcc
Q 022930 14 DTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRT--------GDSRG----FAFVRYKYADEAQKAVDRLDGLF 81 (290)
Q Consensus 14 ~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~t--------g~~~g----~afV~F~~~~~a~~Al~~l~g~~ 81 (290)
.+-.|||++||+.+...-|+++|.+||+|-.|.|.....+ |.+.+ -|+|+|.....|..+...||+.+
T Consensus 73 k~GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~ 152 (278)
T KOG3152|consen 73 KTGVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTP 152 (278)
T ss_pred cceEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCc
Confidence 3457999999999999999999999999999999776544 22222 27899999999999999999999
Q ss_pred cccccc
Q 022930 82 LNFNFV 87 (290)
Q Consensus 82 ~~~~~~ 87 (290)
|+|+.-
T Consensus 153 Iggkk~ 158 (278)
T KOG3152|consen 153 IGGKKK 158 (278)
T ss_pred cCCCCC
Confidence 999744
No 113
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=98.08 E-value=3.7e-06 Score=74.28 Aligned_cols=104 Identities=19% Similarity=0.147 Sum_probs=74.8
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhcC--CCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCc-cccccccceehh
Q 022930 16 YSLLVLNITFRTTADDLFPLFEKY--GKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGL-FLNFNFVHEILK 92 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~L~~~F~~~--G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~-~~~~~~~~~~~~ 92 (290)
..|||+||.+.++..+|..+|... |--..+.| . .|||||.+.+...|.+|++.|+|+ .+.|+.+.+...
T Consensus 2 nklyignL~p~~~psdl~svfg~ak~~~~g~fl~--k------~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~s 73 (584)
T KOG2193|consen 2 NKLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLV--K------SGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHS 73 (584)
T ss_pred CcccccccCCCCChHHHHHHhccccCCCCcceee--e------cceeeccCCchhhhhhhHHhhchhhhhcCceeeccch
Confidence 469999999999999999999754 22122222 1 589999999999999999999994 456676665444
Q ss_pred hhHHhhhccccccCcceeEEEEeccCcccchhHHHHHhhccCCch
Q 022930 93 SSLFLRKNLYLCIGFLFFFLIFFILGRVVDGREITVQFAKYGPNA 137 (290)
Q Consensus 93 ~~~~~~~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~~ 137 (290)
...... ..++.|.|||..+..+.|.-.+++|+...
T Consensus 74 v~kkqr----------srk~Qirnippql~wevld~Ll~qyg~ve 108 (584)
T KOG2193|consen 74 VPKKQR----------SRKIQIRNIPPQLQWEVLDSLLAQYGTVE 108 (584)
T ss_pred hhHHHH----------hhhhhHhcCCHHHHHHHHHHHHhccCCHh
Confidence 332211 22356777778888787777777777643
No 114
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=98.06 E-value=4.2e-06 Score=73.02 Aligned_cols=82 Identities=15% Similarity=0.329 Sum_probs=67.7
Q ss_pred CCCCCcEEEEcCCCCCCCHHHHHHHHhcCCC-eE--EEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcccccccc
Q 022930 11 DIRDTYSLLVLNITFRTTADDLFPLFEKYGK-VV--DVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFV 87 (290)
Q Consensus 11 ~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~-I~--~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~ 87 (290)
+......|-+.+||+.+|.++|.+||..|.. |. .|+|+.+ ..|++.|-|||+|.+.++|.+|+...+.+.+..++|
T Consensus 276 ~~~~kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N-~qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk~RYi 354 (508)
T KOG1365|consen 276 PTRSKDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLN-GQGRPSGEAFIQMRNAERARAAAQKCHKKLMKSRYI 354 (508)
T ss_pred CCCCCCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEc-CCCCcChhhhhhhhhhHHHHHHHHHHHHhhcccceE
Confidence 3333456899999999999999999998873 33 3788877 579999999999999999999999999888878888
Q ss_pred ceehhh
Q 022930 88 HEILKS 93 (290)
Q Consensus 88 ~~~~~~ 93 (290)
.|.-..
T Consensus 355 Evfp~S 360 (508)
T KOG1365|consen 355 EVFPCS 360 (508)
T ss_pred EEeecc
Confidence 764433
No 115
>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=98.05 E-value=1.4e-05 Score=57.95 Aligned_cols=73 Identities=12% Similarity=0.254 Sum_probs=50.3
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCC-------CCCcceEEEEEEccHHHHHHHHHHhCCccccccc
Q 022930 14 DTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRR-------TGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNF 86 (290)
Q Consensus 14 ~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~-------tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~ 86 (290)
..+.|.|-++|+. ....|.++|++||+|.+..-+.... .........|.|.++.+|.+||. .||..|.|..
T Consensus 5 ~~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~-~NG~i~~g~~ 82 (100)
T PF05172_consen 5 SETWVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQ-KNGTIFSGSL 82 (100)
T ss_dssp GCCEEEEE---GG-GHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHT-TTTEEETTCE
T ss_pred CCeEEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHH-hCCeEEcCcE
Confidence 3467999999988 4567899999999998775111100 01124588999999999999999 6999998865
Q ss_pred cc
Q 022930 87 VH 88 (290)
Q Consensus 87 ~~ 88 (290)
+.
T Consensus 83 mv 84 (100)
T PF05172_consen 83 MV 84 (100)
T ss_dssp EE
T ss_pred EE
Confidence 54
No 116
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=98.02 E-value=5.6e-06 Score=73.28 Aligned_cols=70 Identities=19% Similarity=0.279 Sum_probs=58.7
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEccc---CCC--CC--------cceEEEEEEccHHHHHHHHHHhCC
Q 022930 13 RDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRD---RRT--GD--------SRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 13 ~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d---~~t--g~--------~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
....||.+.|||.+-.-+-|.+||+.||.|..|.|+.. +.. +. .+-+|||+|+..+.|.+|.++||.
T Consensus 229 l~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~~ 308 (484)
T KOG1855|consen 229 LPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLNP 308 (484)
T ss_pred cccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhch
Confidence 46789999999999888999999999999999999876 322 22 245799999999999999998877
Q ss_pred ccc
Q 022930 80 LFL 82 (290)
Q Consensus 80 ~~~ 82 (290)
...
T Consensus 309 e~~ 311 (484)
T KOG1855|consen 309 EQN 311 (484)
T ss_pred hhh
Confidence 443
No 117
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=98.02 E-value=7e-06 Score=71.28 Aligned_cols=124 Identities=14% Similarity=0.000 Sum_probs=93.3
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehh
Q 022930 13 RDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILK 92 (290)
Q Consensus 13 ~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~ 92 (290)
...+++||+++.+++.+.++..+|..+|.+..+.+.........+|+++|.|...+.+..||.......+.+..+...+.
T Consensus 86 ~~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~~~dl~ 165 (285)
T KOG4210|consen 86 GSSSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNKGEKDLN 165 (285)
T ss_pred cccccccccccccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHHhhhccccccccccCccc
Confidence 46789999999999999999999999998888888776678889999999999999999999954444555555544433
Q ss_pred hhHH---hhhccccccCcceeEEEEeccCcccchhHHHHHhhccCCc
Q 022930 93 SSLF---LRKNLYLCIGFLFFFLIFFILGRVVDGREITVQFAKYGPN 136 (290)
Q Consensus 93 ~~~~---~~~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~ 136 (290)
.... +............+.++|++|+..++..+|.+.|..++..
T Consensus 166 ~~~~~~~~n~~~~~~~~~s~~~~~~~~~~f~~~~d~~~~~~~~~~~i 212 (285)
T KOG4210|consen 166 TRRGLRPKNKLSRLSSGPSDTIFFVGELDFSLTRDDLKEHFVSSGEI 212 (285)
T ss_pred ccccccccchhcccccCccccceeecccccccchHHHhhhccCcCcc
Confidence 3322 1111122333444456699999999999999888886654
No 118
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.92 E-value=3.4e-05 Score=70.04 Aligned_cols=68 Identities=22% Similarity=0.244 Sum_probs=62.2
Q ss_pred CCCCCCCcEEEEcCCCCCCCHHHHHHHHh-cCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHH
Q 022930 9 PPDIRDTYSLLVLNITFRTTADDLFPLFE-KYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDR 76 (290)
Q Consensus 9 ~~~~~~~~~l~V~nL~~~~t~~~L~~~F~-~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~ 76 (290)
...+....|||||+||--+|.++|-.+|+ -||.|..|-|-.|++-+-++|-|=|+|.+..+-.+||.+
T Consensus 364 sq~lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsa 432 (520)
T KOG0129|consen 364 NQPIDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISA 432 (520)
T ss_pred CcccCccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHhh
Confidence 34566778999999999999999999998 899999999999988899999999999999999999883
No 119
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=97.86 E-value=2.7e-05 Score=72.92 Aligned_cols=72 Identities=26% Similarity=0.375 Sum_probs=61.6
Q ss_pred EEEEcCCCCCCCHHHHHHHHhcCCCeE-EEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccce
Q 022930 17 SLLVLNITFRTTADDLFPLFEKYGKVV-DVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHE 89 (290)
Q Consensus 17 ~l~V~nL~~~~t~~~L~~~F~~~G~I~-~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~ 89 (290)
.|-|.|+|+.++-+||.+||..|-.+- +|.|..+ ..|...|-|.|.|++.++|..|..-|+++.|..+.|.+
T Consensus 869 V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~n-d~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V~l 941 (944)
T KOG4307|consen 869 VLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRN-DDGVPTGECMVAFESQEEARRASMDLDGQKIRNRVVSL 941 (944)
T ss_pred EEEecCCCccccHHHHHHHhcccccCCCceeEeec-CCCCcccceeEeecCHHHHHhhhhccccCcccceeEEE
Confidence 688999999999999999999997653 4444443 67999999999999999999999999998888776654
No 120
>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=97.81 E-value=0.0001 Score=50.79 Aligned_cols=56 Identities=21% Similarity=0.326 Sum_probs=43.3
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCC
Q 022930 15 TYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 15 ~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
....+|+ +|..|...||.++|..||.| .|.++.|. -|||...+.+.|..|+..+.-
T Consensus 9 dHVFhlt-FPkeWK~~DI~qlFspfG~I-~VsWi~dT-------SAfV~l~~r~~~~~v~~~~~~ 64 (87)
T PF08675_consen 9 DHVFHLT-FPKEWKTSDIYQLFSPFGQI-YVSWINDT-------SAFVALHNRDQAKVVMNTLKK 64 (87)
T ss_dssp CCEEEEE---TT--HHHHHHHCCCCCCE-EEEEECTT-------EEEEEECCCHHHHHHHHHHTT
T ss_pred ceEEEEe-CchHhhhhhHHHHhccCCcE-EEEEEcCC-------cEEEEeecHHHHHHHHHHhcc
Confidence 3556666 99999999999999999998 46666553 799999999999999998764
No 121
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=97.81 E-value=6.2e-05 Score=57.88 Aligned_cols=56 Identities=30% Similarity=0.408 Sum_probs=46.3
Q ss_pred HHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehhhhH
Q 022930 31 DLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILKSSL 95 (290)
Q Consensus 31 ~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~~~~ 95 (290)
+|.+.|..||+|.-|+++.+ .-+|+|.+-+.|.+|+. |+|+.|+|..|.+.++.+.
T Consensus 52 ~ll~~~~~~GevvLvRfv~~--------~mwVTF~dg~sALaals-~dg~~v~g~~l~i~LKtpd 107 (146)
T PF08952_consen 52 ELLQKFAQYGEVVLVRFVGD--------TMWVTFRDGQSALAALS-LDGIQVNGRTLKIRLKTPD 107 (146)
T ss_dssp HHHHHHHCCS-ECEEEEETT--------CEEEEESSCHHHHHHHH-GCCSEETTEEEEEEE----
T ss_pred HHHHHHHhCCceEEEEEeCC--------eEEEEECccHHHHHHHc-cCCcEECCEEEEEEeCCcc
Confidence 67788999999998888754 68999999999999999 8999999999999888774
No 122
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=97.75 E-value=8.5e-05 Score=65.09 Aligned_cols=118 Identities=15% Similarity=0.112 Sum_probs=80.1
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhcC----CCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceeh
Q 022930 16 YSLLVLNITFRTTADDLFPLFEKY----GKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEIL 91 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~L~~~F~~~----G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~ 91 (290)
-.|-+.+||+++|+.|+.+||..- |.++.|.++.. -.|+..|-|||.|..+++|+.||.+ |...|+.++|.+.-
T Consensus 162 vivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~r-pdgrpTGdAFvlfa~ee~aq~aL~k-hrq~iGqRYIElFR 239 (508)
T KOG1365|consen 162 VIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTR-PDGRPTGDAFVLFACEEDAQFALRK-HRQNIGQRYIELFR 239 (508)
T ss_pred eEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEEC-CCCCcccceEEEecCHHHHHHHHHH-HHHHHhHHHHHHHH
Confidence 346677999999999999999732 24455655554 3688999999999999999999994 66677777776533
Q ss_pred hhhH-Hh-h-h-----cccc---------------ccCcceeEEEEeccCcccchhHHHHHhhccCC
Q 022930 92 KSSL-FL-R-K-----NLYL---------------CIGFLFFFLIFFILGRVVDGREITVQFAKYGP 135 (290)
Q Consensus 92 ~~~~-~~-~-~-----~~~~---------------~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~ 135 (290)
+... ++ . . .+.- ........|-+.+||...+-+.|...|..|..
T Consensus 240 STaaEvqqvlnr~~s~pLi~~~~sp~~p~~p~~~~p~~~~kdcvRLRGLPy~AtvEdIL~FlgdFa~ 306 (508)
T KOG1365|consen 240 STAAEVQQVLNREVSEPLIPGLTSPLLPGGPARLVPPTRSKDCVRLRGLPYEATVEDILDFLGDFAT 306 (508)
T ss_pred HhHHHHHHHHHhhccccccCCCCCCCCCCCccccCCCCCCCCeeEecCCChhhhHHHHHHHHHHHhh
Confidence 3220 00 0 0 0000 01111334788899999999998888776543
No 123
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=97.74 E-value=6.9e-05 Score=64.83 Aligned_cols=77 Identities=19% Similarity=0.366 Sum_probs=60.8
Q ss_pred CCCCCcEEEEcCCCC----CCC-------HHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCC
Q 022930 11 DIRDTYSLLVLNITF----RTT-------ADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 11 ~~~~~~~l~V~nL~~----~~t-------~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
-....+||+|.||=. ..+ +++|.+-..+||.|..|.|.- .++.|.+-|.|.+.++|..||++|+|
T Consensus 261 k~r~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~d----~hPdGvvtV~f~n~eeA~~ciq~m~G 336 (382)
T KOG1548|consen 261 KARADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVYD----RHPDGVVTVSFRNNEEADQCIQTMDG 336 (382)
T ss_pred cccCCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEec----cCCCceeEEEeCChHHHHHHHHHhcC
Confidence 345678999999722 233 234556678999999998862 34589999999999999999999999
Q ss_pred ccccccccceeh
Q 022930 80 LFLNFNFVHEIL 91 (290)
Q Consensus 80 ~~~~~~~~~~~~ 91 (290)
.+|+|+.|...+
T Consensus 337 R~fdgRql~A~i 348 (382)
T KOG1548|consen 337 RWFDGRQLTASI 348 (382)
T ss_pred eeecceEEEEEE
Confidence 999999987543
No 124
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=97.70 E-value=3.1e-05 Score=71.31 Aligned_cols=78 Identities=18% Similarity=0.235 Sum_probs=60.1
Q ss_pred CCCCCCCcEEEEcCCCCCCCHHHHHHHHh-cCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccc---cc
Q 022930 9 PPDIRDTYSLLVLNITFRTTADDLFPLFE-KYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFL---NF 84 (290)
Q Consensus 9 ~~~~~~~~~l~V~nL~~~~t~~~L~~~F~-~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~---~~ 84 (290)
|..-..++.|+|.||---+|.-+|+.|++ .+|.|++++|-. .+..|||.|.+.++|.+.+.+|||+.- +.
T Consensus 438 PsR~~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~WmDk------IKShCyV~yss~eEA~atr~AlhnV~WP~sNP 511 (718)
T KOG2416|consen 438 PSRKEPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEFWMDK------IKSHCYVSYSSVEEAAATREALHNVQWPPSNP 511 (718)
T ss_pred CCCCCccceEeeecccccchHHHHHHHHhhccCchHHHHHHH------hhcceeEecccHHHHHHHHHHHhccccCCCCC
Confidence 33445678899999999999999999998 667777774322 367899999999999999999999654 33
Q ss_pred cccceehh
Q 022930 85 NFVHEILK 92 (290)
Q Consensus 85 ~~~~~~~~ 92 (290)
+.|.+.|.
T Consensus 512 K~L~adf~ 519 (718)
T KOG2416|consen 512 KHLIADFV 519 (718)
T ss_pred ceeEeeec
Confidence 44444444
No 125
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.64 E-value=7.2e-05 Score=72.04 Aligned_cols=78 Identities=18% Similarity=0.189 Sum_probs=66.9
Q ss_pred CCCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccc--cccc
Q 022930 11 DIRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNF--NFVH 88 (290)
Q Consensus 11 ~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~--~~~~ 88 (290)
....++.|||++|.+++....|..+|..||.|..|.+-.. .-||||.|++...|++|+..|.|..|++ +.|.
T Consensus 451 kst~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~hg------q~yayi~yes~~~aq~a~~~~rgap~G~P~~r~r 524 (975)
T KOG0112|consen 451 KSTPTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRHG------QPYAYIQYESPPAAQAATHDMRGAPLGGPPRRLR 524 (975)
T ss_pred ccccceeeccCCCCCCChHHHHHHHhhccCcceeeecccC------CcceeeecccCccchhhHHHHhcCcCCCCCcccc
Confidence 5666788999999999999999999999999999887543 4599999999999999999999999977 5566
Q ss_pred eehhhh
Q 022930 89 EILKSS 94 (290)
Q Consensus 89 ~~~~~~ 94 (290)
|.|...
T Consensus 525 vdla~~ 530 (975)
T KOG0112|consen 525 VDLASP 530 (975)
T ss_pred cccccC
Confidence 655544
No 126
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=97.58 E-value=0.00015 Score=61.46 Aligned_cols=63 Identities=29% Similarity=0.339 Sum_probs=50.7
Q ss_pred HHHHHHHhcCCCeEEEEEcccCCCCCcce-EEEEEEccHHHHHHHHHHhCCccccccccceehh
Q 022930 30 DDLFPLFEKYGKVVDVFIPRDRRTGDSRG-FAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILK 92 (290)
Q Consensus 30 ~~L~~~F~~~G~I~~v~i~~d~~tg~~~g-~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~ 92 (290)
+++.+..++||+|..|.|...+....... -.||+|+..++|.+|+-.|||.+|+|+.+...|-
T Consensus 301 de~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fy 364 (378)
T KOG1996|consen 301 DETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFY 364 (378)
T ss_pred HHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeeheec
Confidence 46778889999999998876654433332 3699999999999999999999999998875443
No 127
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=97.58 E-value=0.00035 Score=61.18 Aligned_cols=79 Identities=13% Similarity=0.131 Sum_probs=63.4
Q ss_pred CCCCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHH--HhCCcccccccc
Q 022930 10 PDIRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVD--RLDGLFLNFNFV 87 (290)
Q Consensus 10 ~~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~--~l~g~~~~~~~~ 87 (290)
-.+..+..|.|.+|-..++|.+|.+.++.||.|..|.++.. +-.|.|+|++.+.|+.|+. +-+...|.++..
T Consensus 26 hk~~~spvvhvr~l~~~v~eadl~eal~~fG~i~yvt~~P~------~r~alvefedi~~akn~Vnfaa~n~i~i~gq~A 99 (494)
T KOG1456|consen 26 HKPNPSPVVHVRGLHQGVVEADLVEALSNFGPIAYVTCMPH------KRQALVEFEDIEGAKNCVNFAADNQIYIAGQQA 99 (494)
T ss_pred CCCCCCceEEEeccccccchhHHHHHHhcCCceEEEEeccc------cceeeeeeccccchhhheehhccCcccccCchh
Confidence 34455678999999999999999999999999999988765 5589999999999999886 345566677766
Q ss_pred ceehhhh
Q 022930 88 HEILKSS 94 (290)
Q Consensus 88 ~~~~~~~ 94 (290)
.+-++..
T Consensus 100 l~NySts 106 (494)
T KOG1456|consen 100 LFNYSTS 106 (494)
T ss_pred hcccchh
Confidence 6555533
No 128
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=97.47 E-value=6.7e-05 Score=64.90 Aligned_cols=102 Identities=15% Similarity=0.271 Sum_probs=71.4
Q ss_pred CcEEEEcCCCCCCCHHHHH---HHHhcCCCeEEEEEcccCC--C--CCcceEEEEEEccHHHHHHHHHHhCCcccccccc
Q 022930 15 TYSLLVLNITFRTTADDLF---PLFEKYGKVVDVFIPRDRR--T--GDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFV 87 (290)
Q Consensus 15 ~~~l~V~nL~~~~t~~~L~---~~F~~~G~I~~v~i~~d~~--t--g~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~ 87 (290)
..-+||-+|+..+..+++. ++|.+||.|..|.+..+.. . +.+. -+||+|...++|..||...+|+.++++.|
T Consensus 77 knlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~-s~yITy~~~eda~rci~~v~g~~~dg~~l 155 (327)
T KOG2068|consen 77 KNLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTC-SVYITYEEEEDADRCIDDVDGFVDDGRAL 155 (327)
T ss_pred hhhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCC-cccccccchHhhhhHHHHhhhHHhhhhhh
Confidence 3568899999887555443 5899999999998887652 1 1112 27999999999999999999999999998
Q ss_pred ceehhhhHHhhhccccccCcceeEEEEecc
Q 022930 88 HEILKSSLFLRKNLYLCIGFLFFFLIFFIL 117 (290)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~~~~~~~l~v~~l 117 (290)
+..+....+....+.........-+|+..+
T Consensus 156 ka~~gttkycs~~l~~~~c~~~~cmylhe~ 185 (327)
T KOG2068|consen 156 KASLGTTKYCSFYLRNDICQNPDCMYLHEI 185 (327)
T ss_pred HHhhCCCcchhHHhhhhcccCccccccccc
Confidence 776666655544444333333333444433
No 129
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=97.34 E-value=0.00015 Score=68.04 Aligned_cols=83 Identities=17% Similarity=0.065 Sum_probs=66.0
Q ss_pred CCCCCCCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEE-EEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcccccc
Q 022930 7 SGPPDIRDTYSLLVLNITFRTTADDLFPLFEKYGKVVD-VFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFN 85 (290)
Q Consensus 7 ~~~~~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~-v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~ 85 (290)
.-+-+-..+..|||..||..+++.++.++|...-.|++ |.|..-+ ++...+.|||+|..++++..|+...+..+++-+
T Consensus 426 ~vp~P~~ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~P-~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~r 504 (944)
T KOG4307|consen 426 NVPFPGGAGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRLP-TDLLRPAAFVAFIHPTAPLTASSVKTKFYPGHR 504 (944)
T ss_pred CCCCCCCccceEEeccCCccccccchhhhhhhhhhhhheeEeccCC-cccccchhhheeccccccchhhhcccccccCce
Confidence 33344556778999999999999999999998877877 5665543 677888999999999999999886666666767
Q ss_pred cccee
Q 022930 86 FVHEI 90 (290)
Q Consensus 86 ~~~~~ 90 (290)
+|.|.
T Consensus 505 ~irv~ 509 (944)
T KOG4307|consen 505 IIRVD 509 (944)
T ss_pred EEEee
Confidence 77764
No 130
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=97.33 E-value=0.0012 Score=43.29 Aligned_cols=54 Identities=19% Similarity=0.237 Sum_probs=44.6
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhcC---CCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHh
Q 022930 16 YSLLVLNITFRTTADDLFPLFEKY---GKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRL 77 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~L~~~F~~~---G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l 77 (290)
..|+|.||. +++.+||+.+|..| .....|.++-|. -|-|.|.+.+.|..||.+|
T Consensus 6 eavhirGvd-~lsT~dI~~y~~~y~~~~~~~~IEWIdDt-------ScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 6 EAVHIRGVD-ELSTDDIKAYFSEYFDEEGPFRIEWIDDT-------SCNVVFKDEETAARALVAL 62 (62)
T ss_pred ceEEEEcCC-CCCHHHHHHHHHHhcccCCCceEEEecCC-------cEEEEECCHHHHHHHHHcC
Confidence 469999995 57888999999988 234688888774 5889999999999999865
No 131
>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=97.30 E-value=0.0028 Score=46.90 Aligned_cols=72 Identities=18% Similarity=0.270 Sum_probs=51.4
Q ss_pred CCCCCCcEEEEcCCCCCCCHHHHHHHHhcCC-CeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcccc
Q 022930 10 PDIRDTYSLLVLNITFRTTADDLFPLFEKYG-KVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLN 83 (290)
Q Consensus 10 ~~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G-~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~ 83 (290)
+.......+.+...|+.++.++|..+.+.+- .|..+.|+.+. ..++-.++|+|.++++|......+||+.++
T Consensus 8 ~~~~~~~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~--~pnrymVLikF~~~~~Ad~Fy~~fNGk~Fn 80 (110)
T PF07576_consen 8 PDERRSTLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDG--TPNRYMVLIKFRDQESADEFYEEFNGKPFN 80 (110)
T ss_pred CCCCCceEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCC--CCceEEEEEEECCHHHHHHHHHHhCCCccC
Confidence 3444445555655666666677766555554 57788888763 235667899999999999999999997664
No 132
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=97.24 E-value=0.0039 Score=49.24 Aligned_cols=29 Identities=31% Similarity=0.308 Sum_probs=26.6
Q ss_pred ceeEEEEeccCcccchhHHHHHhhccCCc
Q 022930 108 LFFFLIFFILGRVVDGREITVQFAKYGPN 136 (290)
Q Consensus 108 ~~~~l~v~~l~~~~~~~~l~~~f~~~g~~ 136 (290)
.+.+||||||+..++..+|...|..||+.
T Consensus 9 ~~~kVYVGnL~~~a~k~eLE~~F~~yG~l 37 (195)
T KOG0107|consen 9 GNTKVYVGNLGSRATKRELERAFSKYGPL 37 (195)
T ss_pred CCceEEeccCCCCcchHHHHHHHHhcCcc
Confidence 36789999999999999999999999974
No 133
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=97.22 E-value=0.00012 Score=70.24 Aligned_cols=79 Identities=23% Similarity=0.231 Sum_probs=69.5
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehhhh
Q 022930 15 TYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILKSS 94 (290)
Q Consensus 15 ~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~~~ 94 (290)
...|||.|+|+..|.++|+.+|.++|.++.+.++..+ .|+++|.|||.|.++.+|..++..++++.+....+.+....+
T Consensus 736 K~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r-~gkpkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~~~v~vsnp 814 (881)
T KOG0128|consen 736 KISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVR-AGKPKGKARVDYNTEADASRKVASVDVAGKRENNGEVQVSNP 814 (881)
T ss_pred hhhhheeCCCCCCchHHHHhhccccCCccccchhhhh-ccccccceeccCCCcchhhhhcccchhhhhhhcCccccccCC
Confidence 3569999999999999999999999999999988774 799999999999999999999998888877777777666443
No 134
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=97.21 E-value=0.015 Score=47.29 Aligned_cols=29 Identities=21% Similarity=0.093 Sum_probs=24.5
Q ss_pred ceeEEEEeccCcccchhHHHHHhhccCCc
Q 022930 108 LFFFLIFFILGRVVDGREITVQFAKYGPN 136 (290)
Q Consensus 108 ~~~~l~v~~l~~~~~~~~l~~~f~~~g~~ 136 (290)
..+.|-|-||-..++.+.|.-.|++||.+
T Consensus 12 gm~SLkVdNLTyRTspd~LrrvFekYG~v 40 (256)
T KOG4207|consen 12 GMTSLKVDNLTYRTSPDDLRRVFEKYGRV 40 (256)
T ss_pred cceeEEecceeccCCHHHHHHHHHHhCcc
Confidence 34568899999999999999999998874
No 135
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=97.16 E-value=0.002 Score=54.89 Aligned_cols=34 Identities=26% Similarity=0.354 Sum_probs=29.9
Q ss_pred ccCcceeEEEEeccCcccchhHHHHHhhccCCch
Q 022930 104 CIGFLFFFLIFFILGRVVDGREITVQFAKYGPNA 137 (290)
Q Consensus 104 ~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~~ 137 (290)
..+.+-.+|||+-|+.++++..|..+|..||++.
T Consensus 96 a~gDPy~TLFv~RLnydT~EskLrreF~~YG~Ik 129 (335)
T KOG0113|consen 96 AIGDPYKTLFVARLNYDTSESKLRREFEKYGPIK 129 (335)
T ss_pred ccCCccceeeeeeccccccHHHHHHHHHhcCcce
Confidence 4566778899999999999999999999999853
No 136
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=97.07 E-value=0.002 Score=49.04 Aligned_cols=61 Identities=20% Similarity=0.219 Sum_probs=47.7
Q ss_pred CCCCcEEEEcCCCCCCCH-HH---HHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCC
Q 022930 12 IRDTYSLLVLNITFRTTA-DD---LFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 12 ~~~~~~l~V~nL~~~~t~-~~---L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
...+.||.|.=|..++.. +| |...+..||+|.+|.++- +.-|.|.|.+..+|..|+.+++.
T Consensus 83 epPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~cG-------rqsavVvF~d~~SAC~Av~Af~s 147 (166)
T PF15023_consen 83 EPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLCG-------RQSAVVVFKDITSACKAVSAFQS 147 (166)
T ss_pred CCCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeecC-------CceEEEEehhhHHHHHHHHhhcC
Confidence 345678999877766532 34 455678999999998863 34799999999999999999887
No 137
>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=97.06 E-value=0.00061 Score=55.02 Aligned_cols=72 Identities=10% Similarity=0.171 Sum_probs=46.0
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhc-CCCe---EEEEEcccCCC--CCcceEEEEEEccHHHHHHHHHHhCCccccc
Q 022930 13 RDTYSLLVLNITFRTTADDLFPLFEK-YGKV---VDVFIPRDRRT--GDSRGFAFVRYKYADEAQKAVDRLDGLFLNF 84 (290)
Q Consensus 13 ~~~~~l~V~nL~~~~t~~~L~~~F~~-~G~I---~~v~i~~d~~t--g~~~g~afV~F~~~~~a~~Al~~l~g~~~~~ 84 (290)
.+...|.|.+||+++|++++.+.+.. ++.. ..+.-...... ...-.-|||.|.+.+++...+..++|..+-+
T Consensus 5 ~~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~D 82 (176)
T PF03467_consen 5 KEGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFVD 82 (176)
T ss_dssp ----EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE-
T ss_pred ccCceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEEC
Confidence 45578999999999999998886665 6655 34431122111 2234568999999999999999999966644
No 138
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=97.00 E-value=0.00057 Score=64.09 Aligned_cols=109 Identities=12% Similarity=-0.013 Sum_probs=76.7
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehhh
Q 022930 14 DTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILKS 93 (290)
Q Consensus 14 ~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~~ 93 (290)
...+|||+||...+..+.+..++..||-|..+..+. |||.+|..+..+..|+..|+-..++++.+.+....
T Consensus 39 ~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~~---------fgf~~f~~~~~~~ra~r~~t~~~~~~~kl~~~~d~ 109 (668)
T KOG2253|consen 39 PRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRDK---------FGFCEFLKHIGDLRASRLLTELNIDDQKLIENVDE 109 (668)
T ss_pred CCceeEecchhhhhhHHHHHHHHhhCCcchhhhhhh---------hcccchhhHHHHHHHHHHhcccCCCcchhhccchh
Confidence 457899999999999999999999999998776642 99999999999999999999999988766654432
Q ss_pred hHHhhhcccc---------ccCc-ceeEEEEeccCcccchhHHHHHhh
Q 022930 94 SLFLRKNLYL---------CIGF-LFFFLIFFILGRVVDGREITVQFA 131 (290)
Q Consensus 94 ~~~~~~~~~~---------~~~~-~~~~l~v~~l~~~~~~~~l~~~f~ 131 (290)
..++....+. +... ....++|+|+|..++.....+.+.
T Consensus 110 q~~~n~~k~~~~~~~~~~~f~p~~srr~e~i~~k~~~l~~~~~~~~~~ 157 (668)
T KOG2253|consen 110 QTIENADKEKSIANKESHKFVPSSSRRQESIQNKPLSLDEQIHKKSLQ 157 (668)
T ss_pred hhhcCccccccchhhhhcccCCchhHHHHHhhccccchhHHHHHHHHh
Confidence 2211111110 0111 122357778777776665554443
No 139
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=96.96 E-value=0.00091 Score=55.79 Aligned_cols=63 Identities=22% Similarity=0.295 Sum_probs=55.9
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCC
Q 022930 16 YSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
..|||.||...+.-+.|...|..||+|....++.| ..+++.+-++|+|...-.|.+|+..++.
T Consensus 32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD-~r~k~t~eg~v~~~~k~~a~~a~rr~~~ 94 (275)
T KOG0115|consen 32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVD-DRGKPTREGIVEFAKKPNARKAARRCRE 94 (275)
T ss_pred ceEEEEecchhhhhHHHHHhhhhcCccchheeeec-ccccccccchhhhhcchhHHHHHHHhcc
Confidence 56999999999999999999999999987777666 4788888999999999999999997743
No 140
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=96.76 E-value=0.0016 Score=54.37 Aligned_cols=119 Identities=18% Similarity=0.115 Sum_probs=87.7
Q ss_pred cEEEEcCCCCCCCHHH-H--HHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehh
Q 022930 16 YSLLVLNITFRTTADD-L--FPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILK 92 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~-L--~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~ 92 (290)
..+|++++-..+..+- | ...|+.|-.++..+++.+. -+...++||+.|.....-.++...-++++++...|.. .
T Consensus 97 f~p~~~~~g~~v~pep~lp~~~~f~~~p~L~ktk~v~~~-p~~~~~~~~~~~k~s~a~~k~~~~~~~Kki~~~~VR~--a 173 (290)
T KOG0226|consen 97 FRPFQSNAGATVNPEPPLPLPVVFSEYPSLVKTKLVRDR-PQPIRPEAFESFKASDALLKAETEKEKKKIGKPPVRL--A 173 (290)
T ss_pred ccccccccccccCCCCCCcchhhhccchhhhhhhhhhcC-CCccCcccccCcchhhhhhhhccccccccccCcceee--c
Confidence 5577888877776655 3 6778888777777777663 5677889999999888888888777777776665332 2
Q ss_pred hhHHhhhccccccCcceeEEEEeccCcccchhHHHHHhhccCCch
Q 022930 93 SSLFLRKNLYLCIGFLFFFLIFFILGRVVDGREITVQFAKYGPNA 137 (290)
Q Consensus 93 ~~~~~~~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~~ 137 (290)
...........++..++.+||.|.|+.+++++.|.-.|.+|..-.
T Consensus 174 ~gtswedPsl~ew~~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~ 218 (290)
T KOG0226|consen 174 AGTSWEDPSLAEWDEDDFRIFCGDLGNEVNDDVLARAFKKFPSFQ 218 (290)
T ss_pred cccccCCcccccCccccceeecccccccccHHHHHHHHHhccchh
Confidence 222223333446777889999999999999999999999986543
No 141
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=96.72 E-value=0.0033 Score=57.89 Aligned_cols=72 Identities=14% Similarity=0.146 Sum_probs=57.8
Q ss_pred CCCCCcEEEEcCCCCCCCHHHHHHHHh--cCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCC--ccccccc
Q 022930 11 DIRDTYSLLVLNITFRTTADDLFPLFE--KYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDG--LFLNFNF 86 (290)
Q Consensus 11 ~~~~~~~l~V~nL~~~~t~~~L~~~F~--~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g--~~~~~~~ 86 (290)
+...-|.|+|.-||.++-.++|+.||. .|-++..|.+..+. -=||+|++..||+.|...|.. +.|.|+.
T Consensus 171 p~~kRcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~-------nWyITfesd~DAQqAykylreevk~fqgKp 243 (684)
T KOG2591|consen 171 PNHKRCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHND-------NWYITFESDTDAQQAYKYLREEVKTFQGKP 243 (684)
T ss_pred cCcceeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecC-------ceEEEeecchhHHHHHHHHHHHHHhhcCcc
Confidence 344558899999999999999999996 58899999987763 469999999999999987665 4455665
Q ss_pred cce
Q 022930 87 VHE 89 (290)
Q Consensus 87 ~~~ 89 (290)
|..
T Consensus 244 ImA 246 (684)
T KOG2591|consen 244 IMA 246 (684)
T ss_pred hhh
Confidence 554
No 142
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=96.48 E-value=0.007 Score=51.76 Aligned_cols=66 Identities=21% Similarity=0.345 Sum_probs=52.2
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccc
Q 022930 15 TYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVH 88 (290)
Q Consensus 15 ~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~ 88 (290)
..-|.|-++|+.-+ .-|..+|.+||+|+...... .-.+-+|.|...-+|.+||. .||+.|++..+.
T Consensus 197 D~WVTVfGFppg~~-s~vL~~F~~cG~Vvkhv~~~------ngNwMhirYssr~~A~KALs-kng~ii~g~vmi 262 (350)
T KOG4285|consen 197 DTWVTVFGFPPGQV-SIVLNLFSRCGEVVKHVTPS------NGNWMHIRYSSRTHAQKALS-KNGTIIDGDVMI 262 (350)
T ss_pred cceEEEeccCccch-hHHHHHHHhhCeeeeeecCC------CCceEEEEecchhHHHHhhh-hcCeeeccceEE
Confidence 35677888887754 56889999999998765542 24588999999999999999 699999886543
No 143
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=96.05 E-value=0.0087 Score=55.27 Aligned_cols=66 Identities=18% Similarity=0.276 Sum_probs=47.6
Q ss_pred cEEEEcCCCCCCCHHHHHHHH-hcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcc
Q 022930 16 YSLLVLNITFRTTADDLFPLF-EKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLF 81 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~L~~~F-~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~ 81 (290)
+++.|.|++...|...|.... ...|....+.|+.|-.+..+.|||||.|.+++++..+.+++||+.
T Consensus 389 tt~~iknipNK~T~~ml~~~d~~~~gtYDFlYLPiDF~nkcNvGYAFINm~sp~ai~~F~kAFnGk~ 455 (549)
T KOG4660|consen 389 TTLMIKNIPNKYTSKMLLAADEKNKGTYDFLYLPIDFKNKCNVGYAFINMTSPEAIIRFYKAFNGKK 455 (549)
T ss_pred hhhHhhccCchhhHHhhhhhhccccCccceEEeccccccccccceeEEeecCHHHHHHHHHHHcCCc
Confidence 344455555444444333332 235666778888888888899999999999999999999999954
No 144
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=95.82 E-value=0.0031 Score=57.00 Aligned_cols=77 Identities=25% Similarity=0.352 Sum_probs=62.7
Q ss_pred CCCCCcEEEEcCCCCCC-CHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccce
Q 022930 11 DIRDTYSLLVLNITFRT-TADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHE 89 (290)
Q Consensus 11 ~~~~~~~l~V~nL~~~~-t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~ 89 (290)
-..+.+.|-|.-+|+.+ |-++|..+|.+||+|..|.|-.. .--|.|+|.+..+|-.|.. .++..|+++.|++
T Consensus 368 ~~~dhs~l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~------~~~a~vTF~t~aeag~a~~-s~~avlnnr~iKl 440 (526)
T KOG2135|consen 368 AVVDHSPLALEKSPFGLNTIADLNPHFAQFGEIENIQVDYS------SLHAVVTFKTRAEAGEAYA-SHGAVLNNRFIKL 440 (526)
T ss_pred hhcccchhhhhccCCCCchHhhhhhhhhhcCccccccccCc------hhhheeeeeccccccchhc-cccceecCceeEE
Confidence 34556778888888876 55899999999999999988544 2369999999999988877 7999999999988
Q ss_pred ehhhh
Q 022930 90 ILKSS 94 (290)
Q Consensus 90 ~~~~~ 94 (290)
.+...
T Consensus 441 ~whnp 445 (526)
T KOG2135|consen 441 FWHNP 445 (526)
T ss_pred EEecC
Confidence 76655
No 145
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=95.67 E-value=0.039 Score=49.90 Aligned_cols=68 Identities=19% Similarity=0.329 Sum_probs=57.7
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhcCC-CeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccc
Q 022930 15 TYSLLVLNITFRTTADDLFPLFEKYG-KVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNF 84 (290)
Q Consensus 15 ~~~l~V~nL~~~~t~~~L~~~F~~~G-~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~ 84 (290)
+..|+|=.+|..+|..||..|+..|- .|..+.|+.|. -.++-.++|+|.+.++|..+.+.+||..|+.
T Consensus 74 ~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~--~pnrymvLIkFr~q~da~~Fy~efNGk~Fn~ 142 (493)
T KOG0804|consen 74 STMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDG--MPNRYMVLIKFRDQADADTFYEEFNGKQFNS 142 (493)
T ss_pred CcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecC--CCceEEEEEEeccchhHHHHHHHcCCCcCCC
Confidence 78899999999999999999987654 78899999863 2223467999999999999999999998865
No 146
>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=95.58 E-value=0.019 Score=46.56 Aligned_cols=61 Identities=20% Similarity=0.160 Sum_probs=45.3
Q ss_pred CHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhC--Cccccccccceehhhh
Q 022930 28 TADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLD--GLFLNFNFVHEILKSS 94 (290)
Q Consensus 28 t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~--g~~~~~~~~~~~~~~~ 94 (290)
..+.|.++|..|+.+..+.++.. -+=..|.|.+.++|..|...|+ +..+.|..+.+.|.+.
T Consensus 8 ~~~~l~~l~~~~~~~~~~~~L~s------FrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~ 70 (184)
T PF04847_consen 8 NLAELEELFSTYDPPVQFSPLKS------FRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQP 70 (184)
T ss_dssp -HHHHHHHHHTT-SS-EEEEETT------TTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----
T ss_pred hHHHHHHHHHhcCCceEEEEcCC------CCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEccc
Confidence 45789999999999988877654 3457999999999999999999 8999999998887754
No 147
>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=95.10 E-value=0.13 Score=35.16 Aligned_cols=65 Identities=18% Similarity=0.161 Sum_probs=38.8
Q ss_pred EEEEc-CCCCCCCHHHHHHHHhcCC-----CeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcccccccccee
Q 022930 17 SLLVL-NITFRTTADDLFPLFEKYG-----KVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEI 90 (290)
Q Consensus 17 ~l~V~-nL~~~~t~~~L~~~F~~~G-----~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~ 90 (290)
+|||. +--..++..+|..+|...+ .|-.|.|..+ |+||+-.. +.|..+|.+|++..+.|+.+.+.
T Consensus 2 rl~in~Gr~dg~~~~~iv~~i~~~~gi~~~~IG~I~I~~~--------~S~vev~~-~~a~~v~~~l~~~~~~gk~v~ve 72 (74)
T PF03880_consen 2 RLFINVGRKDGLTPRDIVGAICNEAGIPGRDIGRIDIFDN--------FSFVEVPE-EVAEKVLEALNGKKIKGKKVRVE 72 (74)
T ss_dssp EEEES-SGGGT--HHHHHHHHHTCTTB-GGGEEEEEE-SS---------EEEEE-T-T-HHHHHHHHTT--SSS----EE
T ss_pred EEEEEcccccCCCHHHHHHHHHhccCCCHHhEEEEEEeee--------EEEEEECH-HHHHHHHHHhcCCCCCCeeEEEE
Confidence 45553 2334688999999997664 4667888644 99998875 47888999999988877776653
No 148
>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=95.01 E-value=0.11 Score=34.67 Aligned_cols=50 Identities=26% Similarity=0.403 Sum_probs=38.7
Q ss_pred CCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccc
Q 022930 26 RTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNF 84 (290)
Q Consensus 26 ~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~ 84 (290)
.++.++|+..|..|+-. .|..|+ .|| ||.|.+..+|+.|+...+|..+..
T Consensus 11 ~~~v~d~K~~Lr~y~~~---~I~~d~-----tGf-YIvF~~~~Ea~rC~~~~~~~~~f~ 60 (66)
T PF11767_consen 11 GVTVEDFKKRLRKYRWD---RIRDDR-----TGF-YIVFNDSKEAERCFRAEDGTLFFT 60 (66)
T ss_pred CccHHHHHHHHhcCCcc---eEEecC-----CEE-EEEECChHHHHHHHHhcCCCEEEE
Confidence 46789999999999742 334443 454 899999999999999999965543
No 149
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=94.91 E-value=0.013 Score=56.62 Aligned_cols=71 Identities=23% Similarity=0.251 Sum_probs=58.2
Q ss_pred EEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccc--cccccceehhhh
Q 022930 18 LLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFL--NFNFVHEILKSS 94 (290)
Q Consensus 18 l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~--~~~~~~~~~~~~ 94 (290)
.++.|.+-.++-.-|..+|.+||.|..++.+.+ ...|.|+|...+.|..|+++|+|+.+ -|.+..|.|...
T Consensus 301 ~~~~nn~v~~tSssL~~l~s~yg~v~s~wtlr~------~N~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~~ak~ 373 (1007)
T KOG4574|consen 301 QSLENNAVNLTSSSLATLCSDYGSVASAWTLRD------LNMALVSFSSVESAILALDALQGKEVSVTGAPSRVSFAKT 373 (1007)
T ss_pred hhhhcccccchHHHHHHHHHhhcchhhheeccc------ccchhhhhHHHHHHHHhhhhhcCCcccccCCceeEEeccc
Confidence 344555556677788899999999999998877 56899999999999999999999765 567777776665
No 150
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=94.56 E-value=0.024 Score=46.99 Aligned_cols=33 Identities=15% Similarity=0.174 Sum_probs=28.9
Q ss_pred eeEEEEeccCcccchhHHHHHhhccCCchhhhc
Q 022930 109 FFFLIFFILGRVVDGREITVQFAKYGPNAEKIQ 141 (290)
Q Consensus 109 ~~~l~v~~l~~~~~~~~l~~~f~~~g~~~~~~~ 141 (290)
-+|||||+|+++...+.|...|.+||++.+...
T Consensus 12 ~TKifVggL~w~T~~~~l~~yFeqfGeI~eavv 44 (247)
T KOG0149|consen 12 FTKIFVGGLAWETHKETLRRYFEQFGEIVEAVV 44 (247)
T ss_pred EEEEEEcCcccccchHHHHHHHHHhCceEEEEE
Confidence 368999999999999999999999999765543
No 151
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.16 E-value=0.37 Score=45.19 Aligned_cols=73 Identities=26% Similarity=0.399 Sum_probs=57.0
Q ss_pred CCCCcEEEEcCCCCC-CCHHHHHHHHhcC----CCeEEEEEcccC----------CCCC---------------------
Q 022930 12 IRDTYSLLVLNITFR-TTADDLFPLFEKY----GKVVDVFIPRDR----------RTGD--------------------- 55 (290)
Q Consensus 12 ~~~~~~l~V~nL~~~-~t~~~L~~~F~~~----G~I~~v~i~~d~----------~tg~--------------------- 55 (290)
...+..|-|.||.|. |...+|..+|..| |.|..|.|+.-- .+|.
T Consensus 171 ~~~T~RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsilSV~IYpSeFGkeRM~eEeV~GP~~el~~~~e~~~~s~sD~ee~ 250 (650)
T KOG2318|consen 171 GEETKRLAVVNMDWDRVKAKDLFVLFNSFLPKGGSILSVKIYPSEFGKERMKEEEVHGPPKELFKPVEEYKESESDDEEE 250 (650)
T ss_pred ccccceeeEeccccccccHHHHHHHHHhhcCCCCceeEEEechhhhhHHHhhhhcccCChhhhccccccCcccccchhhh
Confidence 456788999999998 7889999999866 589999887411 1111
Q ss_pred ----------------cceEEEEEEccHHHHHHHHHHhCCccccc
Q 022930 56 ----------------SRGFAFVRYKYADEAQKAVDRLDGLFLNF 84 (290)
Q Consensus 56 ----------------~~g~afV~F~~~~~a~~Al~~l~g~~~~~ 84 (290)
---||.|+|.+++.|.+.+..++|+.|..
T Consensus 251 ~~~~~~kLR~Yq~~rLkYYyAVvecDsi~tA~~vYe~CDG~EfEs 295 (650)
T KOG2318|consen 251 EDVDREKLRQYQLNRLKYYYAVVECDSIETAKAVYEECDGIEFES 295 (650)
T ss_pred hhHHHHHHHHHHhhhheeEEEEEEecCchHHHHHHHhcCcceecc
Confidence 01379999999999999999999987754
No 152
>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=94.09 E-value=0.048 Score=36.09 Aligned_cols=26 Identities=23% Similarity=0.202 Sum_probs=24.4
Q ss_pred EEEeccCcccchhHHHHHhhccCCch
Q 022930 112 LIFFILGRVVDGREITVQFAKYGPNA 137 (290)
Q Consensus 112 l~v~~l~~~~~~~~l~~~f~~~g~~~ 137 (290)
|||+|||..++..+|...|.++|...
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~~g~i~ 26 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQFGKIE 26 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEE
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhcc
Confidence 79999999999999999999999873
No 153
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.94 E-value=0.22 Score=44.51 Aligned_cols=80 Identities=18% Similarity=0.184 Sum_probs=57.9
Q ss_pred CCCCCCCCCCCCCCcEEEEcCCCCCCCHHHHHHHHhcCCCe-EEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCc
Q 022930 2 SHFGKSGPPDIRDTYSLLVLNITFRTTADDLFPLFEKYGKV-VDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGL 80 (290)
Q Consensus 2 ~~~~~~~~~~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I-~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~ 80 (290)
+.+......+..-...|-|-++|.....+||..+|+.||.- -.|+++-|. .||..|.....|..||- |..-
T Consensus 378 s~~p~~ll~e~dlpHVlEIydfp~efkteDll~~f~~yq~kgfdIkWvDdt-------halaVFss~~~AaeaLt-~kh~ 449 (528)
T KOG4483|consen 378 SKAPPPLLRESDLPHVLEIYDFPDEFKTEDLLKAFETYQNKGFDIKWVDDT-------HALAVFSSVNRAAEALT-LKHD 449 (528)
T ss_pred ccCCCCCCCcccccceeEeccCchhhccHHHHHHHHHhhcCCceeEEeecc-------eeEEeecchHHHHHHhh-ccCc
Confidence 33333333334445789999999999999999999999853 456666663 79999999999999998 4555
Q ss_pred cccccccce
Q 022930 81 FLNFNFVHE 89 (290)
Q Consensus 81 ~~~~~~~~~ 89 (290)
+|.-+.|..
T Consensus 450 ~lKiRpLaq 458 (528)
T KOG4483|consen 450 WLKIRPLAQ 458 (528)
T ss_pred eEEeeehhh
Confidence 555555543
No 154
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=93.17 E-value=0.083 Score=41.21 Aligned_cols=31 Identities=19% Similarity=0.164 Sum_probs=27.3
Q ss_pred cceeEEEEeccCcccchhHHHHHhhccCCch
Q 022930 107 FLFFFLIFFILGRVVDGREITVQFAKYGPNA 137 (290)
Q Consensus 107 ~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~~ 137 (290)
....+|||+|||..+++++|...|.+||...
T Consensus 32 ~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~ 62 (144)
T PLN03134 32 LMSTKLFIGGLSWGTDDASLRDAFAHFGDVV 62 (144)
T ss_pred CCCCEEEEeCCCCCCCHHHHHHHHhcCCCeE
Confidence 3467899999999999999999999998753
No 155
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=93.05 E-value=0.04 Score=46.76 Aligned_cols=67 Identities=30% Similarity=0.480 Sum_probs=46.5
Q ss_pred cEEEEcCCCCCC------------CHHHHHHHHhcCCCeEEEEEcc-cC----CCCCc-----ceE---------EEEEE
Q 022930 16 YSLLVLNITFRT------------TADDLFPLFEKYGKVVDVFIPR-DR----RTGDS-----RGF---------AFVRY 64 (290)
Q Consensus 16 ~~l~V~nL~~~~------------t~~~L~~~F~~~G~I~~v~i~~-d~----~tg~~-----~g~---------afV~F 64 (290)
-||++.+||-.| +++-|...|+.||+|..|.|+. |+ .+|+. .|| |||+|
T Consensus 150 dti~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir~vdipicdplr~~mn~kisgiq~~gfg~g~dlffeayvqf 229 (445)
T KOG2891|consen 150 DTIHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIRNVDIPICDPLREEMNGKISGIQFHGFGFGGDLFFEAYVQF 229 (445)
T ss_pred CceeecCCcceeeeecccccccCChHHHHHHHHHHhccceecCCcccchhHHHhcCccccceeeccccCcchhHHHHHHH
Confidence 468888888643 4567899999999999888753 32 23433 333 45666
Q ss_pred ccHHHHHHHHHHhCCccc
Q 022930 65 KYADEAQKAVDRLDGLFL 82 (290)
Q Consensus 65 ~~~~~a~~Al~~l~g~~~ 82 (290)
........||.+|.|+.+
T Consensus 230 meykgfa~amdalr~~k~ 247 (445)
T KOG2891|consen 230 MEYKGFAQAMDALRGMKL 247 (445)
T ss_pred HHHHhHHHHHHHHhcchH
Confidence 666667778888888665
No 156
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=92.41 E-value=0.0082 Score=53.66 Aligned_cols=73 Identities=19% Similarity=0.234 Sum_probs=59.4
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEc-ccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceeh
Q 022930 15 TYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIP-RDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEIL 91 (290)
Q Consensus 15 ~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~-~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~ 91 (290)
.+.|.|.|||+...|+-|..|+.+||.|+.|..+ .+.+ ....-|+|...+.+..||.+|||..|....+.+.|
T Consensus 80 srk~Qirnippql~wevld~Ll~qyg~ve~~eqvnt~~e----tavvnvty~~~~~~~~ai~kl~g~Q~en~~~k~~Y 153 (584)
T KOG2193|consen 80 SRKIQIRNIPPQLQWEVLDSLLAQYGTVENCEQVNTDSE----TAVVNVTYSAQQQHRQAIHKLNGPQLENQHLKVGY 153 (584)
T ss_pred hhhhhHhcCCHHHHHHHHHHHHhccCCHhHhhhhccchH----HHHHHHHHHHHHHHHHHHHhhcchHhhhhhhhccc
Confidence 4668999999999999999999999999988653 2322 23446789999999999999999988887776633
No 157
>PF07292 NID: Nmi/IFP 35 domain (NID); InterPro: IPR009909 This entry represents a domain of approximately 90 residues that is tandemly repeated within interferon-induced 35 kDa protein (IFP 35) and the homologous N-myc-interactor (Nmi). This domain mediates Nmi-Nmi protein interactions and subcellular localisation [].
Probab=91.67 E-value=0.11 Score=36.67 Aligned_cols=70 Identities=14% Similarity=0.096 Sum_probs=46.6
Q ss_pred EEEEEccHHHHHHHHHHhCC--ccccccccceehhhh-HHhhhccccccCcceeEEEEeccCcccchhHHHHHh
Q 022930 60 AFVRYKYADEAQKAVDRLDG--LFLNFNFVHEILKSS-LFLRKNLYLCIGFLFFFLIFFILGRVVDGREITVQF 130 (290)
Q Consensus 60 afV~F~~~~~a~~Al~~l~g--~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f 130 (290)
|+|+|.++.-|+..+. +.. +.+++..+.+..... ........+.......++.|.|||..++++.|...+
T Consensus 1 AlITF~e~~VA~~i~~-~~~~~v~l~~~~~~V~v~P~~~~~~~k~qv~~~vs~rtVlvsgip~~l~ee~l~D~L 73 (88)
T PF07292_consen 1 ALITFEEEGVAQRILK-KKKHPVPLEDCCVRVKVSPVTLGHLQKFQVFSGVSKRTVLVSGIPDVLDEEELRDKL 73 (88)
T ss_pred CEEEeCcHHHHHHHHh-CCEEEEEECCEEEEEEEEeEecCCceEEEEEEcccCCEEEEeCCCCCCChhhheeeE
Confidence 7899999999998877 333 333444444433332 333444455566677889999999988888776543
No 158
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=90.32 E-value=0.28 Score=35.51 Aligned_cols=30 Identities=23% Similarity=0.198 Sum_probs=26.7
Q ss_pred ceeEEEEeccCcccchhHHHHHhhccCCch
Q 022930 108 LFFFLIFFILGRVVDGREITVQFAKYGPNA 137 (290)
Q Consensus 108 ~~~~l~v~~l~~~~~~~~l~~~f~~~g~~~ 137 (290)
.+..|||.|||..|+.+++...|.+||+..
T Consensus 17 vnriLyirNLp~~ITseemydlFGkyg~Ir 46 (124)
T KOG0114|consen 17 VNRILYIRNLPFKITSEEMYDLFGKYGTIR 46 (124)
T ss_pred hheeEEEecCCccccHHHHHHHhhcccceE
Confidence 356799999999999999999999999864
No 159
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=89.41 E-value=0.09 Score=41.96 Aligned_cols=35 Identities=14% Similarity=0.032 Sum_probs=29.7
Q ss_pred ccCcceeEEEEeccCcccchhHHHHHhhccCCchh
Q 022930 104 CIGFLFFFLIFFILGRVVDGREITVQFAKYGPNAE 138 (290)
Q Consensus 104 ~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~~~ 138 (290)
.......-|||||||..+++-+|...|++||++-.
T Consensus 30 ~~YkdsA~Iyiggl~~~LtEgDil~VFSqyGe~vd 64 (219)
T KOG0126|consen 30 QEYKDSAYIYIGGLPYELTEGDILCVFSQYGEIVD 64 (219)
T ss_pred hhcccceEEEECCCcccccCCcEEEEeeccCceEE
Confidence 34455677999999999999999999999998643
No 160
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=89.05 E-value=1.3 Score=37.89 Aligned_cols=48 Identities=13% Similarity=0.133 Sum_probs=36.4
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhcCCCe-EEEEEcccCCCCCcceEEEEEEccHH
Q 022930 15 TYSLLVLNITFRTTADDLFPLFEKYGKV-VDVFIPRDRRTGDSRGFAFVRYKYAD 68 (290)
Q Consensus 15 ~~~l~V~nL~~~~t~~~L~~~F~~~G~I-~~v~i~~d~~tg~~~g~afV~F~~~~ 68 (290)
.+-|+|+||+.++...||+..+.+.|-+ ..+.+.- +.|-||+.|-+..
T Consensus 330 ~~di~~~nl~rd~rv~dlk~~lr~~~~~pm~iswkg------~~~k~flh~~~~~ 378 (396)
T KOG4410|consen 330 KTDIKLTNLSRDIRVKDLKSELRKRECTPMSISWKG------HFGKCFLHFGNRK 378 (396)
T ss_pred ccceeeccCccccchHHHHHHHHhcCCCceeEeeec------CCcceeEecCCcc
Confidence 3559999999999999999999887743 3444432 2578999998753
No 161
>PLN03120 nucleic acid binding protein; Provisional
Probab=88.83 E-value=0.38 Score=41.08 Aligned_cols=29 Identities=14% Similarity=-0.003 Sum_probs=26.4
Q ss_pred eeEEEEeccCcccchhHHHHHhhccCCch
Q 022930 109 FFFLIFFILGRVVDGREITVQFAKYGPNA 137 (290)
Q Consensus 109 ~~~l~v~~l~~~~~~~~l~~~f~~~g~~~ 137 (290)
..+|||+||+..+++.+|...|..+|.+.
T Consensus 4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~ 32 (260)
T PLN03120 4 VRTVKVSNVSLKATERDIKEFFSFSGDIE 32 (260)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHhcCCeE
Confidence 35899999999999999999999999864
No 162
>PF10567 Nab6_mRNP_bdg: RNA-recognition motif; InterPro: IPR018885 This conserved domain is found in fungal proteins and appears to be involved in RNA-processing. It binds to poly-adenylated RNA, interacts genetically with mRNA 3'-end processing factors, co-purifies with the nuclear cap-binding protein Cbp20p, and is found in complexes containing other translation factors, such as EIF4G as in P39935 from SWISSPROT and P39936 from SWISSPROT.
Probab=88.73 E-value=1.3 Score=38.18 Aligned_cols=63 Identities=13% Similarity=0.235 Sum_probs=49.5
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccC-------CCCCcceEEEEEEccHHHHHHHHH
Q 022930 13 RDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDR-------RTGDSRGFAFVRYKYADEAQKAVD 75 (290)
Q Consensus 13 ~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~-------~tg~~~g~afV~F~~~~~a~~Al~ 75 (290)
-.++.|.+.||...++-..+...|.+||+|++|.|+.+. ........+.+-|-+.+.|.....
T Consensus 13 YrTRSLLfeNv~~sidLh~Fl~~fv~~~pIESiYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~CLdFYN 82 (309)
T PF10567_consen 13 YRTRSLLFENVNNSIDLHSFLTKFVKFGPIESIYLIKSNDKPSDDYNDDKNNQSILLSFLSREICLDFYN 82 (309)
T ss_pred ceeHHHHHhhccccccHHHHHHHhhccCceeEEEEecCCCcccccccccccceEEEEeeechHHHHHHHH
Confidence 345779999999999999999999999999999998764 112334567899999888776543
No 163
>KOG1295 consensus Nonsense-mediated decay protein Upf3 [RNA processing and modification]
Probab=88.69 E-value=0.92 Score=40.56 Aligned_cols=70 Identities=14% Similarity=0.302 Sum_probs=49.9
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhcCCC-eEEEEEcccCCC--CCcceEEEEEEccHHHHHHHHHHhCCcccc
Q 022930 14 DTYSLLVLNITFRTTADDLFPLFEKYGK-VVDVFIPRDRRT--GDSRGFAFVRYKYADEAQKAVDRLDGLFLN 83 (290)
Q Consensus 14 ~~~~l~V~nL~~~~t~~~L~~~F~~~G~-I~~v~i~~d~~t--g~~~g~afV~F~~~~~a~~Al~~l~g~~~~ 83 (290)
.-+.|.|.+||+.+++++|.+.+..|-. |....+...... ..-.+.|||.|..++++......++|.++-
T Consensus 6 ~~~Kvv~rrlpp~l~~~~~~eqi~p~~~~v~~~~F~~a~~s~~~~~ysrayinFk~~~dv~ef~~~f~g~ifl 78 (376)
T KOG1295|consen 6 AKVKVVVRRLPPKLTEEQLLEQINPFPEHVNWEFFAKADESLRNHKYSRAYINFKNPEDVEEFRRRFDGYIFL 78 (376)
T ss_pred cceeeeeecCCCcccHHHHhhhcCCCccccchheeccccccchhhhhhhhhhccccHHHHHHHHhhCCceEEe
Confidence 3467999999999999999887777653 333333322111 123567899999999999999999996553
No 164
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=88.66 E-value=0.5 Score=35.63 Aligned_cols=31 Identities=16% Similarity=-0.008 Sum_probs=26.9
Q ss_pred eeEEEEeccCcccchhHHHHHhhccCCchhh
Q 022930 109 FFFLIFFILGRVVDGREITVQFAKYGPNAEK 139 (290)
Q Consensus 109 ~~~l~v~~l~~~~~~~~l~~~f~~~g~~~~~ 139 (290)
..+||||||...+++++|.+.|.+.|++...
T Consensus 36 S~tvyVgNlSfyttEEqiyELFs~cG~irri 66 (153)
T KOG0121|consen 36 SCTVYVGNLSFYTTEEQIYELFSKCGDIRRI 66 (153)
T ss_pred cceEEEeeeeeeecHHHHHHHHHhccchhee
Confidence 4579999999999999999999998886443
No 165
>PLN03213 repressor of silencing 3; Provisional
Probab=88.51 E-value=0.44 Score=43.90 Aligned_cols=32 Identities=22% Similarity=0.056 Sum_probs=28.5
Q ss_pred CcceeEEEEeccCcccchhHHHHHhhccCCch
Q 022930 106 GFLFFFLIFFILGRVVDGREITVQFAKYGPNA 137 (290)
Q Consensus 106 ~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~~ 137 (290)
+...+.||||||+..++..+|...|+.||...
T Consensus 7 ~~~gMRIYVGNLSydVTEDDLravFSeFGsVk 38 (759)
T PLN03213 7 GGGGVRLHVGGLGESVGRDDLLKIFSPMGTVD 38 (759)
T ss_pred CCcceEEEEeCCCCCCCHHHHHHHHHhcCCee
Confidence 34568899999999999999999999999864
No 166
>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=88.27 E-value=0.42 Score=31.69 Aligned_cols=25 Identities=16% Similarity=0.335 Sum_probs=21.2
Q ss_pred EEEeccCcccchhHHHHHhhccCCc
Q 022930 112 LIFFILGRVVDGREITVQFAKYGPN 136 (290)
Q Consensus 112 l~v~~l~~~~~~~~l~~~f~~~g~~ 136 (290)
|||+|||..++.++|...|..+|..
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v 25 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPV 25 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBE
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCc
Confidence 7999999999999999999999864
No 167
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=87.32 E-value=0.92 Score=39.72 Aligned_cols=24 Identities=29% Similarity=0.217 Sum_probs=12.2
Q ss_pred eEEEEEEccHHHHHHHHHHhCCccc
Q 022930 58 GFAFVRYKYADEAQKAVDRLDGLFL 82 (290)
Q Consensus 58 g~afV~F~~~~~a~~Al~~l~g~~~ 82 (290)
--.||-|.-..-|.++|. |-+..+
T Consensus 174 T~v~vry~pe~iACaciy-LaAR~~ 197 (367)
T KOG0835|consen 174 TDVFVRYSPESIACACIY-LAARNL 197 (367)
T ss_pred cceeeecCHHHHHHHHHH-HHHhhh
Confidence 346777775444444433 444333
No 168
>KOG2295 consensus C2H2 Zn-finger protein [General function prediction only]
Probab=87.04 E-value=0.093 Score=48.70 Aligned_cols=74 Identities=19% Similarity=0.173 Sum_probs=56.4
Q ss_pred CCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcccccc
Q 022930 12 IRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFN 85 (290)
Q Consensus 12 ~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~ 85 (290)
...+|+|||.||+++++.++|..++..+--+..+.+-.........-+++|.|.-.-....|+.+||+..+...
T Consensus 228 ~hke~sll~rni~Pnis~aeIe~~ck~i~~~lrfals~~~aek~~~r~lwv~fk~~~ni~~a~~aLn~irl~s~ 301 (648)
T KOG2295|consen 228 THKECSLLVRNILPNISVAEIENLCKGIPGFLRFALSTINAEKNFERRLWVTFKRGTNIKEACWALNGIRLRSN 301 (648)
T ss_pred hhHHHHHHHhccCCcccHHHHHHHhccCchheeeeccCchHHHHHHHHhhHhhccccchHHHHHHhhhcccccc
Confidence 34568899999999999999999999887666666644433344456789999977777778888888776543
No 169
>PF03468 XS: XS domain; InterPro: IPR005380 The XS (rice gene X and SGS3) domain is found in a family of plant proteins including gene X Q9SBW2 from SWISSPROT and SGS3 Q9LDX1 from SWISSPROT. SGS3 is thought to be involved in post-transcriptional gene silencing (PTGS). This domain contains a conserved aspartate residue that may be functionally important. The XS domain containing proteins contain coiled-coils, which suggests that they will oligomerise. Most coiled-coil proteins form either a dimeric or a trimeric structure. It is possible that different members of the XS domain family could oligomerise via their coiled-coils forming a variety of complexes [].; PDB: 4E8U_C.
Probab=85.81 E-value=1.4 Score=32.92 Aligned_cols=56 Identities=16% Similarity=0.264 Sum_probs=30.4
Q ss_pred EEEEcCCCCCC---------CHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHH-HHHHHH
Q 022930 17 SLLVLNITFRT---------TADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADE-AQKAVD 75 (290)
Q Consensus 17 ~l~V~nL~~~~---------t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~-a~~Al~ 75 (290)
+++|.|++... +-++|.+.|..|..+. |..+.+. ..+.|+|+|+|..-.. -..|+.
T Consensus 10 mgIi~N~~~~~~~~g~~~g~~~~~l~~~l~~f~p~k-v~~l~~~--~gh~g~aiv~F~~~w~Gf~~A~~ 75 (116)
T PF03468_consen 10 MGIIVNIPTEKDDDGRWVGMSNEELLDKLAEFNPLK-VKPLYGK--QGHTGFAIVEFNKDWSGFKNAMR 75 (116)
T ss_dssp EEEEE----EE-TTS-EE---SHHHHHHHHH---SE-EEEEEET--TEEEEEEEEE--SSHHHHHHHHH
T ss_pred EEEEEcCccccCCCCceeccCHHHHHHHHHhcCCce-eEECcCC--CCCcEEEEEEECCChHHHHHHHH
Confidence 47778886543 4578999999998875 4444443 3567999999996544 344444
No 170
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=85.14 E-value=0.23 Score=40.92 Aligned_cols=69 Identities=32% Similarity=0.456 Sum_probs=58.0
Q ss_pred CCcEEEEcC----CCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcccc
Q 022930 14 DTYSLLVLN----ITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLN 83 (290)
Q Consensus 14 ~~~~l~V~n----L~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~ 83 (290)
...+++.|+ |...++++.++..|.+.|.|..+.+..+. .|.+..++||.+.-..+.-.|+....++.+.
T Consensus 79 ~q~~~r~G~shapld~r~~~ei~~~v~s~a~p~~~~R~~~~~-d~rnrn~~~~~~qr~~~~P~~~~~y~~l~~~ 151 (267)
T KOG4454|consen 79 EQRTLRCGNSHAPLDERVTEEILYEVFSQAGPIEGVRIPTDN-DGRNRNFGFVTYQRLCAVPFALDLYQGLELF 151 (267)
T ss_pred hhcccccCCCcchhhhhcchhhheeeecccCCCCCccccccc-cCCccCccchhhhhhhcCcHHhhhhcccCcC
Confidence 346778888 88889999999999999999999988774 4888899999999888888899888875443
No 171
>smart00362 RRM_2 RNA recognition motif.
Probab=84.83 E-value=0.79 Score=29.64 Aligned_cols=27 Identities=26% Similarity=0.327 Sum_probs=24.3
Q ss_pred EEEEeccCcccchhHHHHHhhccCCch
Q 022930 111 FLIFFILGRVVDGREITVQFAKYGPNA 137 (290)
Q Consensus 111 ~l~v~~l~~~~~~~~l~~~f~~~g~~~ 137 (290)
+|+|+|||..++..+|...|.++|+..
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~ 27 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFGPIE 27 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcCCEE
Confidence 489999999999999999999999754
No 172
>COG5638 Uncharacterized conserved protein [Function unknown]
Probab=84.00 E-value=3.4 Score=37.36 Aligned_cols=39 Identities=33% Similarity=0.514 Sum_probs=30.1
Q ss_pred CCCCCcEEEEcCCCCC-CCHHHHHHHHhcC----CCeEEEEEcc
Q 022930 11 DIRDTYSLLVLNITFR-TTADDLFPLFEKY----GKVVDVFIPR 49 (290)
Q Consensus 11 ~~~~~~~l~V~nL~~~-~t~~~L~~~F~~~----G~I~~v~i~~ 49 (290)
.-..+..|-|-||.|. +...+|..+|..| |.|..|.|+.
T Consensus 142 ~G~~tkrLAvVnmDWd~v~a~DLf~~fsSf~P~ggkl~kV~iyp 185 (622)
T COG5638 142 EGNPTKRLAVVNMDWDRVDAKDLFKIFSSFLPYGGKLSKVKIYP 185 (622)
T ss_pred CCCcccceeEeecccccchHHHHHHHHHhhCCCCCccceeEech
Confidence 3456678999999997 7788999998865 5777777653
No 173
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=83.96 E-value=0.56 Score=37.47 Aligned_cols=73 Identities=11% Similarity=0.068 Sum_probs=54.4
Q ss_pred cEEEEcCCCCCCCHH-----HHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcccccc-ccce
Q 022930 16 YSLLVLNITFRTTAD-----DLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFN-FVHE 89 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~-----~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~-~~~~ 89 (290)
++|++++|+..+-.+ ....+|-+|-+...++++.- .++.-|.|.+++.|..|...+++..|.++ .+..
T Consensus 11 ~~~~~c~i~~~VF~~~~~k~~~~~lFrq~n~~~~fq~lrs------frrvRi~f~~p~~a~~a~i~~~~~~f~~~~~~k~ 84 (193)
T KOG4019|consen 11 TAIIACDIHEEVFVNREDKALFENLFRQINEDATFQLLRS------FRRVRINFSNPEAAADARIKLHSTSFNGKNELKL 84 (193)
T ss_pred ceeeeecccHHhhccHHHHHHHHhHHhhhCcchHHHHHHh------hceeEEeccChhHHHHHHHHhhhcccCCCceEEE
Confidence 568899998875332 33466777777666666644 56778899999999999999999999887 6665
Q ss_pred ehhhh
Q 022930 90 ILKSS 94 (290)
Q Consensus 90 ~~~~~ 94 (290)
+|.+.
T Consensus 85 yfaQ~ 89 (193)
T KOG4019|consen 85 YFAQP 89 (193)
T ss_pred EEccC
Confidence 55554
No 174
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=83.92 E-value=1.7 Score=36.52 Aligned_cols=69 Identities=20% Similarity=0.321 Sum_probs=49.2
Q ss_pred CCCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCC
Q 022930 11 DIRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 11 ~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
.......+++.+++..++..++..+|..+|.|..+.+...........+.++.+.....+..++.....
T Consensus 221 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 289 (306)
T COG0724 221 LLEKSDNLYVGNLPLKTAEEELADLFKSRGDIVRASLPPSKDGKIPKSRSFVGNEASKDALESNSRGNK 289 (306)
T ss_pred cccccceeeccccccccchhHHHHhccccccceeeeccCCCCCcccccccccchhHHHhhhhhhccccc
Confidence 445567899999999999999999999999997777766544444555555555555555555544333
No 175
>PRK08559 nusG transcription antitermination protein NusG; Validated
Probab=82.10 E-value=9.7 Score=29.89 Aligned_cols=33 Identities=12% Similarity=0.388 Sum_probs=26.7
Q ss_pred eEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCC
Q 022930 42 VVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 42 I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
|.+|.++.. .+||.||+....+++..|+..+.+
T Consensus 36 i~~i~vp~~-----fpGYVfVe~~~~~~~~~~i~~v~~ 68 (153)
T PRK08559 36 IYAILAPPE-----LKGYVLVEAESKGAVEEAIRGIPH 68 (153)
T ss_pred EEEEEccCC-----CCcEEEEEEEChHHHHHHHhcCCC
Confidence 667766544 489999999988888888887776
No 176
>PLN03121 nucleic acid binding protein; Provisional
Probab=81.58 E-value=1.5 Score=37.04 Aligned_cols=29 Identities=10% Similarity=0.041 Sum_probs=26.4
Q ss_pred eeEEEEeccCcccchhHHHHHhhccCCch
Q 022930 109 FFFLIFFILGRVVDGREITVQFAKYGPNA 137 (290)
Q Consensus 109 ~~~l~v~~l~~~~~~~~l~~~f~~~g~~~ 137 (290)
..+|||+||+..+++++|...|+.+|.+.
T Consensus 5 g~TV~V~NLS~~tTE~dLrefFS~~G~I~ 33 (243)
T PLN03121 5 GYTAEVTNLSPKATEKDVYDFFSHCGAIE 33 (243)
T ss_pred ceEEEEecCCCCCCHHHHHHHHHhcCCeE
Confidence 36799999999999999999999999864
No 177
>KOG4365 consensus Uncharacterized conserved protein [Function unknown]
Probab=79.30 E-value=0.73 Score=41.82 Aligned_cols=63 Identities=6% Similarity=-0.166 Sum_probs=47.9
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCC
Q 022930 16 YSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
+..|+..||..+.+++|.-+|+.||-|..+.+..--+.+...-.+||...+ .+|..||.-+.-
T Consensus 4 ~~~~l~d~~~~~~~~~~~~~~~d~~~i~~~d~~~~~~~~~~~v~~f~~~~~-~~~~~~i~~~k~ 66 (572)
T KOG4365|consen 4 MKKSLKDSVASNNKDQNSMKHEDPSIISMEDGSPYVNGSLGEVTPFQHAKK-ANGPNYIQPQKR 66 (572)
T ss_pred hhhhHhhcccccccchhhhhccCCcceeeccCCccccCCcceeeeeeeeec-cCcccccCHHHH
Confidence 457888999999999999999999999988886655556666778887664 345555554444
No 178
>PF00403 HMA: Heavy-metal-associated domain; InterPro: IPR006121 Proteins that transport heavy metals in micro-organisms and mammals share similarities in their sequences and structures. These proteins provide an important focus for research, some being involved in bacterial resistance to toxic metals, such as lead and cadmium, while others are involved in inherited human syndromes, such as Wilson's and Menke's diseases []. A conserved domain has been found in a number of these heavy metal transport or detoxification proteins []. The domain, which has been termed Heavy-Metal-Associated (HMA), contains two conserved cysteines that are probably involved in metal binding. Structure solution of the fourth HMA domain of the Menke's copper transporting ATPase shows a well-defined structure comprising a four-stranded antiparallel beta-sheet and two alpha helices packed in an alpha-beta sandwich fold []. This fold is common to other domains and is classified as "ferredoxin-like".; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2VOY_A 1P6T_A 1KQK_A 2RML_A 1JWW_A 3K7R_F 1FES_A 1CC8_A 1FD8_A 2GGP_A ....
Probab=76.63 E-value=11 Score=24.05 Aligned_cols=54 Identities=17% Similarity=0.182 Sum_probs=41.2
Q ss_pred EEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccH----HHHHHHHHH
Q 022930 17 SLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYA----DEAQKAVDR 76 (290)
Q Consensus 17 ~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~----~~a~~Al~~ 76 (290)
||.|.||.-.--...|...+...-.|..+.+-.. .+-+-|.|... ++..++|+.
T Consensus 1 t~~v~~m~C~~C~~~v~~~l~~~~GV~~v~vd~~------~~~v~v~~~~~~~~~~~i~~~i~~ 58 (62)
T PF00403_consen 1 TFKVPGMTCEGCAKKVEKALSKLPGVKSVKVDLE------TKTVTVTYDPDKTSIEKIIEAIEK 58 (62)
T ss_dssp EEEEESTTSHHHHHHHHHHHHTSTTEEEEEEETT------TTEEEEEESTTTSCHHHHHHHHHH
T ss_pred CEEECCcccHHHHHHHHHHHhcCCCCcEEEEECC------CCEEEEEEecCCCCHHHHHHHHHH
Confidence 5788888777778889999999988988888655 46788888754 555555554
No 179
>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=76.41 E-value=2.6 Score=27.20 Aligned_cols=26 Identities=23% Similarity=0.239 Sum_probs=23.4
Q ss_pred EEEEeccCcccchhHHHHHhhccCCc
Q 022930 111 FLIFFILGRVVDGREITVQFAKYGPN 136 (290)
Q Consensus 111 ~l~v~~l~~~~~~~~l~~~f~~~g~~ 136 (290)
.|+|++||..++..+|...|..+|..
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~g~i 26 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKFGKV 26 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhcCCE
Confidence 37899999999999999999998764
No 180
>KOG2888 consensus Putative RNA binding protein [General function prediction only]
Probab=75.39 E-value=2 Score=37.63 Aligned_cols=7 Identities=57% Similarity=1.597 Sum_probs=2.7
Q ss_pred eEEEEEE
Q 022930 58 GFAFVRY 64 (290)
Q Consensus 58 g~afV~F 64 (290)
||-||-|
T Consensus 161 GFmYiRY 167 (453)
T KOG2888|consen 161 GFMYIRY 167 (453)
T ss_pred eeeEEee
Confidence 3333433
No 181
>KOG4008 consensus rRNA processing protein RRP7 [RNA processing and modification]
Probab=74.73 E-value=2.2 Score=35.63 Aligned_cols=36 Identities=17% Similarity=0.404 Sum_probs=29.7
Q ss_pred CCCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEE
Q 022930 11 DIRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVF 46 (290)
Q Consensus 11 ~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~ 46 (290)
+..+..+||+-|||..+|++.|..+..++|-+..+.
T Consensus 36 ~~~eKd~lfl~Nvp~~~tee~lkr~vsqlg~vq~~~ 71 (261)
T KOG4008|consen 36 NSNEKDCLFLVNVPLLSTEEHLKRFVSQLGHVQELL 71 (261)
T ss_pred ccccccceeeecccccccHHHHHHHHHHhhhhhhee
Confidence 344567799999999999999999999999655443
No 182
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=73.91 E-value=13 Score=25.96 Aligned_cols=58 Identities=22% Similarity=0.239 Sum_probs=41.1
Q ss_pred EEEEcCCCCCCCHHHHHHHHhc-CC-CeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHh
Q 022930 17 SLLVLNITFRTTADDLFPLFEK-YG-KVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRL 77 (290)
Q Consensus 17 ~l~V~nL~~~~t~~~L~~~F~~-~G-~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l 77 (290)
..|+--++..++..+|++.+++ || +|..|..+.-+ ...-=|||.|...++|......+
T Consensus 22 n~y~F~V~~~anK~eIK~AvE~lf~VkV~~VnT~~~~---~~~KKA~V~L~~g~~A~~va~ki 81 (84)
T PRK14548 22 NKLTFIVDRRATKPDIKRAVEELFDVKVEKVNTLITP---KGEKKAYVKLAEEYDAEEIASRL 81 (84)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcC---CCcEEEEEEeCCCCcHHHHHHhh
Confidence 3555567889999999999976 56 67777665443 12235999999988887765543
No 183
>smart00596 PRE_C2HC PRE_C2HC domain.
Probab=73.60 E-value=3.8 Score=27.39 Aligned_cols=40 Identities=15% Similarity=0.117 Sum_probs=32.3
Q ss_pred HHHHHHHhcCC-CeEEEEEcccCCCCCcceEEEEEEccHHH
Q 022930 30 DDLFPLFEKYG-KVVDVFIPRDRRTGDSRGFAFVRYKYADE 69 (290)
Q Consensus 30 ~~L~~~F~~~G-~I~~v~i~~d~~tg~~~g~afV~F~~~~~ 69 (290)
.+|.+.|..+| ++..|..+....++.+..+-||+.....+
T Consensus 2 ~~I~~~L~~~G~~v~~i~~m~~~~~r~P~nmf~vel~~~~~ 42 (69)
T smart00596 2 SQIEEALKDIGFPVLFIHNMLNRDTKNPQNMFEVELVPAAN 42 (69)
T ss_pred HHHHHHHHHcCCceeEEEcccccCCCCcceeEEEEeeecCC
Confidence 47888999999 78888888888778888888998876543
No 184
>TIGR03636 L23_arch archaeal ribosomal protein L23. This model describes the archaeal ribosomal protein L23P and rigorously excludes the bacterial counterpart L23. In order to capture every known instance of archaeal L23P, the trusted cutoff is set lower than a few of the highest scoring eukaryotic cytosolic ribosomal counterparts.
Probab=72.93 E-value=15 Score=25.17 Aligned_cols=58 Identities=22% Similarity=0.223 Sum_probs=40.7
Q ss_pred EEEEcCCCCCCCHHHHHHHHhc-CC-CeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHh
Q 022930 17 SLLVLNITFRTTADDLFPLFEK-YG-KVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRL 77 (290)
Q Consensus 17 ~l~V~nL~~~~t~~~L~~~F~~-~G-~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l 77 (290)
.-|+-.++..++..+|+..+++ || +|..|..+.-+ ...-=|||.+...+.|...-..+
T Consensus 15 n~y~F~V~~~anK~eIK~avE~lf~VkV~~Vnt~~~~---~~~KKA~VtL~~g~~a~~va~k~ 74 (77)
T TIGR03636 15 NKLTFIVDRKATKGDIKRAVEKLFDVKVEKVNTLITP---RGEKKAYVKLAEEYAAEEIASRL 74 (77)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcC---CCceEEEEEECCCCcHHHHHHhh
Confidence 3566678889999999999976 56 66777654432 12235999999888777655433
No 185
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=72.93 E-value=9.9 Score=24.83 Aligned_cols=19 Identities=11% Similarity=0.522 Sum_probs=15.6
Q ss_pred HHHHHHHhcCCCeEEEEEc
Q 022930 30 DDLFPLFEKYGKVVDVFIP 48 (290)
Q Consensus 30 ~~L~~~F~~~G~I~~v~i~ 48 (290)
++|+++|+.+|+|.-+.|.
T Consensus 9 ~~iR~~fs~lG~I~vLYvn 27 (62)
T PF15513_consen 9 AEIRQFFSQLGEIAVLYVN 27 (62)
T ss_pred HHHHHHHHhcCcEEEEEEc
Confidence 5799999999999766553
No 186
>PF07530 PRE_C2HC: Associated with zinc fingers; InterPro: IPR006579 This domain is present in proteins found exclusively in the arthropods, including a number of Drosophila species, the silk moth and the gypsy moth. These proteins are possibly involved in RNA binding or single strand DNA binding.
Probab=71.68 E-value=5.3 Score=26.71 Aligned_cols=43 Identities=14% Similarity=0.219 Sum_probs=33.7
Q ss_pred HHHHHHHhcCC-CeEEEEEcccCCCCCcceEEEEEEccHHHHHH
Q 022930 30 DDLFPLFEKYG-KVVDVFIPRDRRTGDSRGFAFVRYKYADEAQK 72 (290)
Q Consensus 30 ~~L~~~F~~~G-~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~ 72 (290)
++|.+.|...| +|..|.-+....++.+....||+++...+...
T Consensus 2 ~~I~~~L~~~G~~v~~i~~~~~~~~k~pl~mf~veL~p~~~~k~ 45 (68)
T PF07530_consen 2 EEIKEELKDQGHPVRNIHNMHSRNTKKPLNMFFVELEPKPNNKE 45 (68)
T ss_pred HHHHHHHHHcCCceEEEEccccCCCCCCceEEEEeeccCccccc
Confidence 57888888888 78888888887778888899999887655333
No 187
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=69.93 E-value=7.1 Score=33.15 Aligned_cols=55 Identities=20% Similarity=0.166 Sum_probs=45.8
Q ss_pred HHHHHHHHhCCccccccccceehhhhHHhhhccccccCcceeEEEEeccCcccchhHHHHHhhccCCchh
Q 022930 69 EAQKAVDRLDGLFLNFNFVHEILKSSLFLRKNLYLCIGFLFFFLIFFILGRVVDGREITVQFAKYGPNAE 138 (290)
Q Consensus 69 ~a~~Al~~l~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~~~ 138 (290)
-|+.|...|++.+..++.+.|.|... ..|+|-||...+..+.+...|..|++...
T Consensus 6 ~ae~ak~eLd~~~~~~~~lr~rfa~~---------------a~l~V~nl~~~~sndll~~~f~~fg~~e~ 60 (275)
T KOG0115|consen 6 LAEIAKRELDGRFPKGRSLRVRFAMH---------------AELYVVNLMQGASNDLLEQAFRRFGPIER 60 (275)
T ss_pred HHHHHHHhcCCCCCCCCceEEEeecc---------------ceEEEEecchhhhhHHHHHhhhhcCccch
Confidence 46777788999999999988877622 46899999999999999999999998653
No 188
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=67.43 E-value=6.1 Score=35.02 Aligned_cols=34 Identities=21% Similarity=0.041 Sum_probs=28.7
Q ss_pred ccCcceeEEEEeccCcccchhHHHHHhhccCCch
Q 022930 104 CIGFLFFFLIFFILGRVVDGREITVQFAKYGPNA 137 (290)
Q Consensus 104 ~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~~ 137 (290)
.....-.+|||++|...+.+.+|...|.+||+..
T Consensus 223 PeD~~I~tLyIg~l~d~v~e~dIrdhFyqyGeir 256 (377)
T KOG0153|consen 223 PEDTSIKTLYIGGLNDEVLEQDIRDHFYQYGEIR 256 (377)
T ss_pred CcccceeEEEecccccchhHHHHHHHHhhcCCee
Confidence 3444556799999999999999999999999853
No 189
>PF09707 Cas_Cas2CT1978: CRISPR-associated protein (Cas_Cas2CT1978); InterPro: IPR010152 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a minor branch of the Cas2 family of CRISPR-associated protein which are found in IPR003799 from INTERPRO. Cas2 is one of four protein families (Cas1 to Cas4) that are associated with CRISPR elements and always occur near a repeat cluster, usually in the order cas3-cas4-cas1-cas2. The function of Cas2 (and Cas1) is unknown. Cas3 proteins appear to be helicases while Cas4 proteins resemble RecB-type exonucleases, suggesting that these genes are involved in DNA metabolism or gene expression [].
Probab=67.18 E-value=11 Score=26.60 Aligned_cols=46 Identities=22% Similarity=0.237 Sum_probs=29.9
Q ss_pred EEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEc
Q 022930 17 SLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYK 65 (290)
Q Consensus 17 ~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~ 65 (290)
-|||||++..+-+.-...+.+..++-..+.+..+ ....||+|-.+-
T Consensus 27 GVyVg~~s~rVRe~lW~~v~~~~~~G~a~m~~~~---~neqG~~~~t~G 72 (86)
T PF09707_consen 27 GVYVGNVSARVRERLWERVTEWIGDGSAVMVWSD---NNEQGFDFRTLG 72 (86)
T ss_pred CcEEcCCCHHHHHHHHHHHHhhCCCccEEEEEcc---CCCCCEEEEEeC
Confidence 4999999988887655555555554443434333 226899998873
No 190
>TIGR00405 L26e_arch ribosomal protein L24p/L26e, archaeal. This protein contains a KOW domain, shared by bacterial NusG and the L24p/L26e family of ribosomal proteins. Although called archaeal NusG in several publications, it is the only close homolog of eukaryotic L26e in archaeal genomes, shares an operon with L11 in many genomes, and has been sequenced from purified ribosomes. It is here designated as a ribosomal protein for these reasons.
Probab=66.83 E-value=40 Score=25.98 Aligned_cols=24 Identities=8% Similarity=0.180 Sum_probs=20.9
Q ss_pred cceEEEEEEccHHHHHHHHHHhCC
Q 022930 56 SRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 56 ~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
.+||-||++....+...++..+.|
T Consensus 37 fpGYvFV~~~~~~~~~~~i~~~~g 60 (145)
T TIGR00405 37 LKGYILVEAETKIDMRNPIIGVPH 60 (145)
T ss_pred CCcEEEEEEECcHHHHHHHhCCCC
Confidence 689999999988888888887777
No 191
>CHL00123 rps6 ribosomal protein S6; Validated
Probab=66.17 E-value=33 Score=24.58 Aligned_cols=57 Identities=12% Similarity=0.221 Sum_probs=34.1
Q ss_pred EEEEcCCCCCCCHHHHHHHHh-------cC-CCeEEEEEccc-----CCCCCcce-EEEEEEccHHHHHHHHH
Q 022930 17 SLLVLNITFRTTADDLFPLFE-------KY-GKVVDVFIPRD-----RRTGDSRG-FAFVRYKYADEAQKAVD 75 (290)
Q Consensus 17 ~l~V~nL~~~~t~~~L~~~F~-------~~-G~I~~v~i~~d-----~~tg~~~g-~afV~F~~~~~a~~Al~ 75 (290)
++|| |.++++++++..+++ .. |+|..+...-. +..+...| |.++.|.-..++.+.|+
T Consensus 10 ~~~I--l~p~l~e~~~~~~~~~~~~~i~~~gg~i~~~~~wG~r~LAY~I~k~~~G~Yv~~~f~~~~~~i~ele 80 (97)
T CHL00123 10 TMYL--LKPDLNEEELLKWIENYKKLLRKRGAKNISVQNRGKRKLSYKINKYEDGIYIQMNYSGNGKLVNSLE 80 (97)
T ss_pred EEEE--ECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEeecCeeeeEEcCCCCEEEEEEEEEEECHHHHHHHH
Confidence 3555 567777777665544 33 46666542211 12344566 57889997777777666
No 192
>PF03439 Spt5-NGN: Early transcription elongation factor of RNA pol II, NGN section; InterPro: IPR005100 Spt5p and prokaryotic NusG are shown to contain a novel 'NGN' domain. The combined NGN and KOW motif regions of Spt5 form the binding domain with Spt4 []. Spt5 complexes with Spt4 as a 1:1 heterodimer snf this Spt5-Spt4 complex regulates early transcription elongation by RNA polymerase II and has an imputed role in pre-mRNA processing via its physical association with mRNA capping enzymes. The Schizosaccharomyces pombe core Spt5-Spt4 complex is a heterodimer bearing a trypsin-resistant Spt4-binding domain within the Spt5 subunit []. ; PDB: 3H7H_B 3QQC_D 3P8B_B 2EXU_A.
Probab=66.01 E-value=11 Score=26.24 Aligned_cols=35 Identities=14% Similarity=0.497 Sum_probs=25.0
Q ss_pred CeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCc
Q 022930 41 KVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGL 80 (290)
Q Consensus 41 ~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~ 80 (290)
.|.++....+ .+||-|||=.++.++..|+..+.+.
T Consensus 33 ~I~Si~~~~~-----lkGyIyVEA~~~~~V~~ai~gi~~i 67 (84)
T PF03439_consen 33 NIYSIFAPDS-----LKGYIYVEAERESDVKEAIRGIRHI 67 (84)
T ss_dssp ---EEEE-TT-----STSEEEEEESSHHHHHHHHTT-TTE
T ss_pred ceEEEEEeCC-----CceEEEEEeCCHHHHHHHHhcccce
Confidence 5666666533 5899999999999999999887773
No 193
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=65.63 E-value=5 Score=37.00 Aligned_cols=28 Identities=21% Similarity=0.237 Sum_probs=25.5
Q ss_pred EEEEeccCcccchhHHHHHhhccCCchh
Q 022930 111 FLIFFILGRVVDGREITVQFAKYGPNAE 138 (290)
Q Consensus 111 ~l~v~~l~~~~~~~~l~~~f~~~g~~~~ 138 (290)
.|||+|||..++..+|...|..||++.+
T Consensus 290 ~i~V~nlP~da~~~~l~~~Fk~FG~Ik~ 317 (419)
T KOG0116|consen 290 GIFVKNLPPDATPAELEEVFKQFGPIKE 317 (419)
T ss_pred ceEeecCCCCCCHHHHHHHHhhcccccc
Confidence 3999999999999999999999998753
No 194
>KOG4213 consensus RNA-binding protein La [RNA processing and modification]
Probab=64.81 E-value=8.7 Score=30.81 Aligned_cols=49 Identities=24% Similarity=0.187 Sum_probs=34.4
Q ss_pred CCHHHHHHHHhcC-CCeEEEEEcccCCCC--CcceEEEEEEccHHHHHHHHHH
Q 022930 27 TTADDLFPLFEKY-GKVVDVFIPRDRRTG--DSRGFAFVRYKYADEAQKAVDR 76 (290)
Q Consensus 27 ~t~~~L~~~F~~~-G~I~~v~i~~d~~tg--~~~g~afV~F~~~~~a~~Al~~ 76 (290)
+|+++|..+..-. |++..|.+-... .+ ..+|-.||+|.+.+.|.++++.
T Consensus 118 ~td~ql~~l~qw~~~k~~nv~mr~~~-~k~~~fkGsvkv~f~tk~qa~a~~~~ 169 (205)
T KOG4213|consen 118 ITDDQLDDLNQWASGKGHNVKMRRHG-NKAHPFKGSVKVTFQTKEQAFANDDT 169 (205)
T ss_pred CCHHHHHHHHHHhcccceEeeccccC-CCCCCCCCceEEEeecHHHHHhhhhh
Confidence 5666665554322 688888775432 23 4578899999999999998884
No 195
>PF14026 DUF4242: Protein of unknown function (DUF4242)
Probab=63.78 E-value=44 Score=22.82 Aligned_cols=61 Identities=16% Similarity=0.117 Sum_probs=41.0
Q ss_pred EEEcCCCCCCCHHHHHHHHh-------cCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcc
Q 022930 18 LLVLNITFRTTADDLFPLFE-------KYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLF 81 (290)
Q Consensus 18 l~V~nL~~~~t~~~L~~~F~-------~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~ 81 (290)
|...+||..+|.++|..+.. ++..|..+.-..+...+ +-||+.+=.+++.+.++-+. .|..
T Consensus 3 mver~~p~~it~e~l~~~~~~~~~~~~~~~~V~w~~s~v~~d~~--k~~Cly~Ap~~eaV~~~~~~-aG~p 70 (77)
T PF14026_consen 3 MVERDFPGGITAEDLAAAHAKSCAVQAEMPGVQWLRSYVSEDDG--KIFCLYEAPDEEAVREHARR-AGLP 70 (77)
T ss_pred EEEEeCCCCCCHHHHHHHHHHhHHHHhhcCCeEEEEEEEecCCC--eEEEEEECCCHHHHHHHHHH-cCCC
Confidence 66788999899999877654 34455555444332223 66888888888888887774 4643
No 196
>KOG3702 consensus Nuclear polyadenylated RNA binding protein [RNA processing and modification]
Probab=63.12 E-value=4.9 Score=38.59 Aligned_cols=71 Identities=17% Similarity=0.086 Sum_probs=57.8
Q ss_pred EEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccc
Q 022930 17 SLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVH 88 (290)
Q Consensus 17 ~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~ 88 (290)
+||+.|--..-+..-+..+|..+++++.+.++.....+...+-||++|..+..|..|.. |.+..+....+.
T Consensus 513 ~i~~~~~~~~s~~~s~s~~s~~~~~ltk~k~l~~Cky~~~Ct~a~Ce~~HPtaa~~~~s-~p~k~fa~~~~k 583 (681)
T KOG3702|consen 513 TIFVANGHGGSNPDSLSRHSEKKNELTKAKILTRCKYGPACTSAECEFAHPTAAENAKS-LPNKKFASKCLK 583 (681)
T ss_pred ceecccccccCCCcchhhCcccccccccceeeccccCCCcCCchhhhhcCCcchhhhhc-ccccccccccee
Confidence 78999888888888899999999999998888887777777789999999999877766 566555555444
No 197
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=62.54 E-value=7.4 Score=29.77 Aligned_cols=30 Identities=17% Similarity=0.202 Sum_probs=26.4
Q ss_pred ceeEEEEeccCcccchhHHHHHhhccCCch
Q 022930 108 LFFFLIFFILGRVVDGREITVQFAKYGPNA 137 (290)
Q Consensus 108 ~~~~l~v~~l~~~~~~~~l~~~f~~~g~~~ 137 (290)
..-.|||.++..+.++++|...|+.||++.
T Consensus 71 EGwIi~VtgvHeEatEedi~d~F~dyGeiK 100 (170)
T KOG0130|consen 71 EGWIIFVTGVHEEATEEDIHDKFADYGEIK 100 (170)
T ss_pred eeEEEEEeccCcchhHHHHHHHHhhccccc
Confidence 345689999999999999999999999854
No 198
>PTZ00191 60S ribosomal protein L23a; Provisional
Probab=61.93 E-value=26 Score=27.25 Aligned_cols=56 Identities=23% Similarity=0.234 Sum_probs=36.9
Q ss_pred EEEEcCCCCCCCHHHHHHHHhc-CC-CeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHH
Q 022930 17 SLLVLNITFRTTADDLFPLFEK-YG-KVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVD 75 (290)
Q Consensus 17 ~l~V~nL~~~~t~~~L~~~F~~-~G-~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~ 75 (290)
..||..+...++..+|.+.+++ |+ .|..|..+.-+. ..-=|||.+....+|.....
T Consensus 83 N~yvF~Vd~kAnK~qIK~AVEklf~VkV~kVNTli~p~---g~KKA~V~L~~~~~aidva~ 140 (145)
T PTZ00191 83 NTLVFIVDQRANKTQIKKAVEKLYDVKVVKVNTLITPD---GLKKAYIRLSPDVDALDVAN 140 (145)
T ss_pred CEEEEEEcCCCCHHHHHHHHHHHhCCeeEEEEeEEcCC---CceEEEEEECCCCcHHHHHH
Confidence 3555567779999999999986 55 566665544321 12259999987777554433
No 199
>COG0150 PurM Phosphoribosylaminoimidazole (AIR) synthetase [Nucleotide transport and metabolism]
Probab=61.90 E-value=3.7 Score=36.41 Aligned_cols=48 Identities=23% Similarity=0.254 Sum_probs=38.3
Q ss_pred CHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCC
Q 022930 28 TADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 28 t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
+...|.+++.+.|.|..-.|..- -+.|.+||.+-.++++++|++.|.+
T Consensus 274 ~~p~iF~~i~~~G~v~~~EM~rt----FNmGvG~v~iv~~e~~~~~~~~l~~ 321 (345)
T COG0150 274 PPPPIFKWLQKAGNVEREEMYRT----FNMGVGMVLIVPEEDAEKALALLKE 321 (345)
T ss_pred CCcHHHHHHHHhcCCCHHHHHHH----hcCccceEEEEcHHHHHHHHHHHHh
Confidence 35678899999998866555432 2368899999999999999999987
No 200
>KOG0796 consensus Spliceosome subunit [RNA processing and modification]
Probab=61.79 E-value=3.6 Score=36.04 Aligned_cols=14 Identities=36% Similarity=0.522 Sum_probs=7.4
Q ss_pred cHHHHHHHHHHhCC
Q 022930 66 YADEAQKAVDRLDG 79 (290)
Q Consensus 66 ~~~~a~~Al~~l~g 79 (290)
+.++|++|+..+..
T Consensus 146 ~Veeaq~~~~e~E~ 159 (319)
T KOG0796|consen 146 NVEEAQKAMKEVEE 159 (319)
T ss_pred CHHHHHHHHHHHHH
Confidence 34556666555444
No 201
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=61.53 E-value=6.5 Score=34.61 Aligned_cols=32 Identities=13% Similarity=-0.035 Sum_probs=28.2
Q ss_pred CcceeEEEEeccCcccchhHHHHHhhccCCch
Q 022930 106 GFLFFFLIFFILGRVVDGREITVQFAKYGPNA 137 (290)
Q Consensus 106 ~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~~ 137 (290)
......|+|.|||..+-+-+|...|.+||.+-
T Consensus 93 ~~~pkRLhVSNIPFrFRdpDL~aMF~kfG~Vl 124 (376)
T KOG0125|consen 93 KDTPKRLHVSNIPFRFRDPDLRAMFEKFGKVL 124 (376)
T ss_pred CCCCceeEeecCCccccCccHHHHHHhhCcee
Confidence 44567899999999999999999999999863
No 202
>COG5193 LHP1 La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]
Probab=61.47 E-value=3.8 Score=37.00 Aligned_cols=60 Identities=23% Similarity=0.225 Sum_probs=47.9
Q ss_pred cEEEEcCCCCCCCHH--------HHHHHHhc--CCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHH
Q 022930 16 YSLLVLNITFRTTAD--------DLFPLFEK--YGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVD 75 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~--------~L~~~F~~--~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~ 75 (290)
..+|+.++..+.+.+ +|..+|.. .+.+..+.+-.+.......|-.||+|...+.|+.++.
T Consensus 175 r~~y~n~fG~e~~~~a~~~e~~~d~~~~~p~h~h~~~~~i~~rrd~~nkn~~gSv~~efk~~~~~q~~nn 244 (438)
T COG5193 175 RDVYQNGFGKEDVNNASRPEQQEDLEIQFPPHYHAPPSQIRNRRDWLNKNFRGSVFVEFKYFREAQRFNN 244 (438)
T ss_pred hhHHhhcCCcccccccccchhhhhHHhhCCCcccCChhhccchhhhhhccccCcccccccChHHHHHHhc
Confidence 346777776665444 88899987 6788888888887678888999999999999998873
No 203
>PF08734 GYD: GYD domain; InterPro: IPR014845 These proteins of unknown function are usually less than 100 amino acids in length. They may belong to the dimeric alpha/beta barrel superfamily.
Probab=61.25 E-value=42 Score=23.72 Aligned_cols=46 Identities=17% Similarity=0.192 Sum_probs=33.7
Q ss_pred HHHHHHHhcCC-CeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCC
Q 022930 30 DDLFPLFEKYG-KVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 30 ~~L~~~F~~~G-~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
+.+.++++++| +++.+.+.. |..-.++.+++.|.+.|.++.-.+..
T Consensus 23 ~a~~~~~e~~Gg~l~~~y~t~----G~yD~v~i~eaPD~~~a~~~~l~i~~ 69 (91)
T PF08734_consen 23 EAVRALIEALGGKLKSFYWTL----GEYDFVVIVEAPDDETAAAASLAIRS 69 (91)
T ss_pred HHHHHHHHHcCCEEEEEEEec----CCCCEEEEEEcCCHHHHHHHHHHHHc
Confidence 45677887776 788887763 44455788999999988887765555
No 204
>PRK01178 rps24e 30S ribosomal protein S24e; Reviewed
Probab=60.65 E-value=39 Score=24.44 Aligned_cols=46 Identities=22% Similarity=0.359 Sum_probs=26.2
Q ss_pred CCCHHHHHHHH-hcCCCeEEEEEcc----cCCCCCcceEEEEEEccHHHHHH
Q 022930 26 RTTADDLFPLF-EKYGKVVDVFIPR----DRRTGDSRGFAFVRYKYADEAQK 72 (290)
Q Consensus 26 ~~t~~~L~~~F-~~~G~I~~v~i~~----d~~tg~~~g~afV~F~~~~~a~~ 72 (290)
+.+..+|.+-+ +.|+.=..+.++. .-..|.+.|||.| |.+.+.|..
T Consensus 30 tpsr~eirekLa~~~~~~~~~vvv~~~~t~fG~g~s~G~a~I-Yds~e~~kk 80 (99)
T PRK01178 30 TPSRKDVRKKLAAMLNADKELVVVRKIKTEYGMGKSKGYAKV-YDDKERARK 80 (99)
T ss_pred CCCHHHHHHHHHHHHCcCCCEEEEEccCccCCCceEEEEEEE-ECCHHHHHh
Confidence 56677887665 4566322332222 2233577788877 777666554
No 205
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=60.39 E-value=6.6 Score=33.36 Aligned_cols=30 Identities=17% Similarity=0.006 Sum_probs=26.1
Q ss_pred CcceeEEEEeccCcccchhHHHHHhhccCC
Q 022930 106 GFLFFFLIFFILGRVVDGREITVQFAKYGP 135 (290)
Q Consensus 106 ~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~ 135 (290)
....++|.|.|||..+...+|.+.|+.|+.
T Consensus 80 ~~~~~~v~v~NL~~~V~~~Dl~eLF~~~~~ 109 (243)
T KOG0533|consen 80 ETRSTKVNVSNLPYGVIDADLKELFAEFGE 109 (243)
T ss_pred CCCcceeeeecCCcCcchHHHHHHHHHhcc
Confidence 334578999999999999999999999964
No 206
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=59.90 E-value=32 Score=22.97 Aligned_cols=45 Identities=20% Similarity=0.197 Sum_probs=36.6
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEcc
Q 022930 16 YSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKY 66 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~ 66 (290)
.+|+|-++.-.-=...+...+.....|..+.+-.. .|-++|.|.+
T Consensus 4 ~~l~v~~MtC~~C~~~V~~al~~v~gv~~v~v~l~------~~~~~V~~d~ 48 (71)
T COG2608 4 TTLKVEGMTCGHCVKTVEKALEEVDGVASVDVDLE------KGTATVTFDS 48 (71)
T ss_pred EEEEECCcCcHHHHHHHHHHHhcCCCeeEEEEEcc------cCeEEEEEcC
Confidence 56888888766667789999999888988888766 5679999998
No 207
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=59.52 E-value=13 Score=33.06 Aligned_cols=33 Identities=15% Similarity=0.215 Sum_probs=28.8
Q ss_pred ccCcceeEEEEeccCcccchhHHHHHhhccCCc
Q 022930 104 CIGFLFFFLIFFILGRVVDGREITVQFAKYGPN 136 (290)
Q Consensus 104 ~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~ 136 (290)
....+.+-|||.-|.+..++++|.+.|+.||..
T Consensus 234 d~~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i 266 (479)
T KOG0415|consen 234 DVKPPENVLFVCKLNPVTTDEDLEIIFSRFGKI 266 (479)
T ss_pred ccCCCcceEEEEecCCcccccchhhHHhhcccc
Confidence 345567789999999999999999999999884
No 208
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=56.96 E-value=7.5 Score=38.16 Aligned_cols=32 Identities=13% Similarity=0.082 Sum_probs=27.6
Q ss_pred cceeEEEEeccCcccchhHHHHHhhccCCchh
Q 022930 107 FLFFFLIFFILGRVVDGREITVQFAKYGPNAE 138 (290)
Q Consensus 107 ~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~~~ 138 (290)
....+||||.|++.+.+.+|...|..||++..
T Consensus 419 V~SrTLwvG~i~k~v~e~dL~~~feefGeiqS 450 (894)
T KOG0132|consen 419 VCSRTLWVGGIPKNVTEQDLANLFEEFGEIQS 450 (894)
T ss_pred EeeeeeeeccccchhhHHHHHHHHHhccccee
Confidence 34567999999999999999999999998543
No 209
>PF09902 DUF2129: Uncharacterized protein conserved in bacteria (DUF2129); InterPro: IPR016979 This is a group of uncharacterised conserved proteins.
Probab=56.33 E-value=34 Score=23.07 Aligned_cols=37 Identities=16% Similarity=0.370 Sum_probs=27.3
Q ss_pred HHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCc
Q 022930 35 LFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGL 80 (290)
Q Consensus 35 ~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~ 80 (290)
-+.+||.|..+-=- ..||. .|.+.++|+..++.|...
T Consensus 16 ~L~kfG~i~Y~Skk--------~kYvv-lYvn~~~~e~~~~kl~~l 52 (71)
T PF09902_consen 16 QLRKFGDIHYVSKK--------MKYVV-LYVNEEDVEEIIEKLKKL 52 (71)
T ss_pred hHhhcccEEEEECC--------ccEEE-EEECHHHHHHHHHHHhcC
Confidence 46789999876432 23664 488899999999988873
No 210
>PRK10629 EnvZ/OmpR regulon moderator; Provisional
Probab=54.85 E-value=89 Score=23.70 Aligned_cols=60 Identities=10% Similarity=0.201 Sum_probs=43.6
Q ss_pred CCcEEEEcCCCCC---CCHHHHHHHHhcCC-CeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcc
Q 022930 14 DTYSLLVLNITFR---TTADDLFPLFEKYG-KVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLF 81 (290)
Q Consensus 14 ~~~~l~V~nL~~~---~t~~~L~~~F~~~G-~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~ 81 (290)
+...|.|.+.... .+...|++++++-| .++.+..-. +-..|.|.+.++-.+|.+.|....
T Consensus 34 edpavQIs~~~~g~~~~~~~~v~~~L~~~gI~~ksi~~~~--------~~~~irf~~~~~Ql~Ak~vL~~~L 97 (127)
T PRK10629 34 QESTLAIRAVHQGASLPDGFYVYQHLDANGIHIKSITPEN--------DSLLIRFDSPEQSAAAKEVLDRTL 97 (127)
T ss_pred CCceEEEecCCCCCccchHHHHHHHHHHCCCCcceEEeeC--------CEEEEEECCHHHHHHHHHHHHHHc
Confidence 4456888876433 56678888998887 455555532 368899999999999999887743
No 211
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=54.36 E-value=11 Score=35.02 Aligned_cols=28 Identities=11% Similarity=0.010 Sum_probs=25.7
Q ss_pred eEEEEeccCcccchhHHHHHhhccCCch
Q 022930 110 FFLIFFILGRVVDGREITVQFAKYGPNA 137 (290)
Q Consensus 110 ~~l~v~~l~~~~~~~~l~~~f~~~g~~~ 137 (290)
..+||||||.++.+++|...|+..|...
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~g~v~ 46 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGVGPVL 46 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhccCccc
Confidence 6799999999999999999999988764
No 212
>PTZ00071 40S ribosomal protein S24; Provisional
Probab=53.65 E-value=31 Score=26.37 Aligned_cols=46 Identities=15% Similarity=0.325 Sum_probs=26.0
Q ss_pred CCCHHHHHHHHh-cCC-CeEEEEE----cccCCCCCcceEEEEEEccHHHHHH
Q 022930 26 RTTADDLFPLFE-KYG-KVVDVFI----PRDRRTGDSRGFAFVRYKYADEAQK 72 (290)
Q Consensus 26 ~~t~~~L~~~F~-~~G-~I~~v~i----~~d~~tg~~~g~afV~F~~~~~a~~ 72 (290)
+.+..+|.+-+. .|+ .=.++.+ ...-..|.+.|||.| |.+.+.|..
T Consensus 35 TpSr~eirekLA~~~~v~d~~~Vvv~~~~T~fG~g~StG~a~I-Yds~e~~kk 86 (132)
T PTZ00071 35 TVSKKDIKEKLAKQYKVADARTIVLFGFKTKFGGGKTTGFGLI-YDNLAALKK 86 (132)
T ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEEccEecCCCceEEEEEEE-ECCHHHHHh
Confidence 567788887664 455 2122222 222234677788877 666665543
No 213
>PF14893 PNMA: PNMA
Probab=53.10 E-value=14 Score=33.05 Aligned_cols=26 Identities=19% Similarity=0.255 Sum_probs=21.8
Q ss_pred CCCCcEEEEcCCCCCCCHHHHHHHHh
Q 022930 12 IRDTYSLLVLNITFRTTADDLFPLFE 37 (290)
Q Consensus 12 ~~~~~~l~V~nL~~~~t~~~L~~~F~ 37 (290)
++....|.|.+||.++++++|++.+.
T Consensus 15 ~~~~r~lLv~giP~dc~~~ei~e~l~ 40 (331)
T PF14893_consen 15 VDPQRALLVLGIPEDCEEAEIEEALQ 40 (331)
T ss_pred cChhhhheeecCCCCCCHHHHHHHHH
Confidence 44556799999999999999998765
No 214
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=52.20 E-value=19 Score=30.98 Aligned_cols=33 Identities=21% Similarity=0.271 Sum_probs=25.3
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEc
Q 022930 16 YSLLVLNITFRTTADDLFPLFEKYGKVVDVFIP 48 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~ 48 (290)
....|+|||++++..-|..+++..-.+..+.++
T Consensus 96 ~~~vVaNlPY~Isspii~kll~~~~~~~~~v~M 128 (259)
T COG0030 96 PYKVVANLPYNISSPILFKLLEEKFIIQDMVLM 128 (259)
T ss_pred CCEEEEcCCCcccHHHHHHHHhccCccceEEEE
Confidence 457899999999999999998876555344333
No 215
>COG5507 Uncharacterized conserved protein [Function unknown]
Probab=52.15 E-value=24 Score=25.25 Aligned_cols=24 Identities=13% Similarity=0.234 Sum_probs=18.9
Q ss_pred cceEEEEEEccHHHHHHHHHHhCC
Q 022930 56 SRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 56 ~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
.--|++++|.+.+.+.+|+.++-.
T Consensus 65 ~VvFsW~~Y~skq~rDA~~~kmMs 88 (117)
T COG5507 65 EVVFSWIEYPSKQVRDAANAKMMS 88 (117)
T ss_pred EEEEEEEEcCchhHHHHHHHHhhc
Confidence 345899999999999988876543
No 216
>PRK02886 hypothetical protein; Provisional
Probab=51.84 E-value=42 Score=23.61 Aligned_cols=52 Identities=19% Similarity=0.302 Sum_probs=34.4
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCc
Q 022930 13 RDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGL 80 (290)
Q Consensus 13 ~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~ 80 (290)
+.+-.||+.+|- ++ ..+.+||.|..+-=- ..|| |.|.+.++|+..++.|...
T Consensus 5 R~glIVyl~~~k------~~-r~LrkyG~I~Y~Skr--------~kYv-vlYvn~~~~e~~~~kl~~l 56 (87)
T PRK02886 5 RQGIIVWLHSLK------QA-KQLRKFGNVHYVSKR--------LKYA-VLYCDMEQVEDIMNKLSSL 56 (87)
T ss_pred eeEEEEEEeecH------hH-HHHhhcCcEEEEecc--------ccEE-EEEECHHHHHHHHHHHhcC
Confidence 344567776552 12 235789999876432 2366 4488999999999988873
No 217
>cd00027 BRCT Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo/hetero BRCT multimers, BRCT-non-BRCT interactions, and interactions within DNA strand breaks.
Probab=51.70 E-value=50 Score=20.71 Aligned_cols=27 Identities=22% Similarity=0.258 Sum_probs=22.6
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhcCCCe
Q 022930 16 YSLLVLNITFRTTADDLFPLFEKYGKV 42 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~L~~~F~~~G~I 42 (290)
..++|.+.....+.++|.+++..+|..
T Consensus 2 ~~~~i~g~~~~~~~~~l~~~i~~~Gg~ 28 (72)
T cd00027 2 LTFVITGDLPSEERDELKELIEKLGGK 28 (72)
T ss_pred CEEEEEecCCCcCHHHHHHHHHHcCCE
Confidence 468888887688899999999999864
No 218
>PRK11901 hypothetical protein; Reviewed
Probab=51.69 E-value=40 Score=29.87 Aligned_cols=62 Identities=19% Similarity=0.304 Sum_probs=41.3
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEE--EEEEccHHHHHHHHHHhCC
Q 022930 13 RDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFA--FVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 13 ~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~a--fV~F~~~~~a~~Al~~l~g 79 (290)
...++|.|-.+ ..++.|..|..+++ +..+.|+.-...|+. -|. |-.|.+.++|..||..|..
T Consensus 243 ~~~YTLQL~Aa---s~~~~L~~f~~~~~-L~~~~VYqT~RnGkp-WYVVvyG~Y~Sr~eAk~Ai~sLPa 306 (327)
T PRK11901 243 ASHYTLQLSSA---SRSDTLNAYAKKQN-LSHYHVYETKRDGKP-WYVLVSGNYASSAEAKRAIATLPA 306 (327)
T ss_pred CCCeEEEeecC---CCHHHHHHHHHHcC-cCceEEEEEEECCce-EEEEEecCcCCHHHHHHHHHhCCH
Confidence 34577777665 35778888888776 344555443333333 244 4479999999999998876
No 219
>PF11411 DNA_ligase_IV: DNA ligase IV; InterPro: IPR021536 DNA ligase IV along with Xrcc4 functions in DNA non-homologous end joining. This process is required to mend double-strand breaks. Upon ligase binding to an Xrcc4 dimer, the helical tails unwind leading to a flat interaction surface []. ; GO: 0003910 DNA ligase (ATP) activity; PDB: 3II6_Y 2E2W_A 1IK9_C.
Probab=51.37 E-value=12 Score=21.51 Aligned_cols=17 Identities=29% Similarity=0.430 Sum_probs=10.6
Q ss_pred CCCCHHHHHHHHhcCCC
Q 022930 25 FRTTADDLFPLFEKYGK 41 (290)
Q Consensus 25 ~~~t~~~L~~~F~~~G~ 41 (290)
.++++++|+++|.+.+.
T Consensus 19 ~Dtd~~~Lk~vF~~i~~ 35 (36)
T PF11411_consen 19 VDTDEDQLKEVFNRIKK 35 (36)
T ss_dssp S---HHHHHHHHHCS--
T ss_pred ccCCHHHHHHHHHHhcc
Confidence 46899999999998754
No 220
>PRK02302 hypothetical protein; Provisional
Probab=50.76 E-value=45 Score=23.60 Aligned_cols=52 Identities=19% Similarity=0.275 Sum_probs=34.3
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCc
Q 022930 13 RDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGL 80 (290)
Q Consensus 13 ~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~ 80 (290)
+.+-.||+.+|- ++ ..+.+||.|..+-=- ..|| |-|.+.++|++.++.|...
T Consensus 7 R~glIVyl~~~k------~~-r~LrkfG~I~Y~Skk--------~kYv-vlYvn~~~~e~~~~kl~~l 58 (89)
T PRK02302 7 RIGLIVYLYYNR------DA-RKLSKYGDIVYHSKR--------SRYL-VLYVNKEDVEQKLEELSKL 58 (89)
T ss_pred eeEEEEEEeecH------hH-HHHhhcCcEEEEecc--------ccEE-EEEECHHHHHHHHHHHhcC
Confidence 344566775542 12 235789999876432 2366 4488999999999988873
No 221
>PF01037 AsnC_trans_reg: AsnC family; InterPro: IPR019887 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities. One such family is the AsnC/Lrp subfamily []. The Lrp family of transcriptional regulators appears to be widely distributed among bacteria and archaea, as an important regulatory system of the amino acid metabolism and related processes []. Members of the Lrp family are small DNA-binding proteins with molecular masses of around 15 kDa. Target promoters often contain a number of binding sites that typically lack obvious inverted repeat elements, and to which binding is usually co-operative. LrpA from Pyrococcus furiosus is the first Lrp-like protein to date of which a three-dimensional structure has been solved. In the crystal structure LrpA forms an octamer consisting of four dimers. The structure revealed that the N-terminal part of the protein consists of a helix-turn-helix (HTH) domain, a fold generally involved in DNA binding. The C terminus of Lrp-like proteins has a beta-fold, where the two alpha-helices are located at one side of the four-stranded antiparallel beta-sheet. LrpA forms a homodimer mainly through interactions between the beta-strands of this C-terminal domain, and an octamer through further interactions between the second alpha-helix and fourth beta-strand of the motif. Hence, the C-terminal domain of Lrp-like proteins appears to be involved in ligand-response and activation [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2DJW_F 2GQQ_A 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2CG4_B 2DBB_B 1I1G_A ....
Probab=50.58 E-value=68 Score=20.89 Aligned_cols=45 Identities=18% Similarity=0.243 Sum_probs=36.8
Q ss_pred CHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHH
Q 022930 28 TADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDR 76 (290)
Q Consensus 28 t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~ 76 (290)
..+++.+.+..+-+|.+|..+ +|..-=++.|.+.+.++....+..
T Consensus 11 ~~~~~~~~l~~~p~V~~~~~v----tG~~d~~~~v~~~d~~~l~~~i~~ 55 (74)
T PF01037_consen 11 AYDEFAEALAEIPEVVECYSV----TGEYDLILKVRARDMEELEEFIRE 55 (74)
T ss_dssp HHHHHHHHHHTSTTEEEEEEE----SSSSSEEEEEEESSHHHHHHHHHH
T ss_pred hHHHHHHHHHcCCCEEEEEEE----eCCCCEEEEEEECCHHHHHHHHHH
Confidence 357788888999999999886 566666889999999999998554
No 222
>KOG1175 consensus Acyl-CoA synthetase [Lipid transport and metabolism]
Probab=50.52 E-value=49 Score=32.36 Aligned_cols=89 Identities=12% Similarity=0.092 Sum_probs=57.3
Q ss_pred CCHHHHHHHHhcCCCeEEEEEcc--cCCCCCcceEEEEEEccHHHHHHHHHH-hCCccccccccceehhhhHHhhhcccc
Q 022930 27 TTADDLFPLFEKYGKVVDVFIPR--DRRTGDSRGFAFVRYKYADEAQKAVDR-LDGLFLNFNFVHEILKSSLFLRKNLYL 103 (290)
Q Consensus 27 ~t~~~L~~~F~~~G~I~~v~i~~--d~~tg~~~g~afV~F~~~~~a~~Al~~-l~g~~~~~~~~~~~~~~~~~~~~~~~~ 103 (290)
+...||+..+..+..|.++-++- ++.+|+. -+|||.+.+.......|.+ |. ........
T Consensus 508 igtaEIE~al~~hp~VaEsAvVg~p~~~~ge~-v~aFvvl~~g~~~~~~L~kel~-----------------~~VR~~ig 569 (626)
T KOG1175|consen 508 IGTAEIESALVEHPAVAESAVVGSPDPIKGEV-VLAFVVLKSGSHDPEQLTKELV-----------------KHVRSVIG 569 (626)
T ss_pred ecHHHHHHHHhhCcchhheeeecCCCCCCCeE-EEEEEEEcCCCCChHHHHHHHH-----------------HHHHhhcC
Confidence 56789999999999998877654 3343433 4899999876333332221 11 01111112
Q ss_pred ccCcceeEEEEeccCcccchhHHHHHhhcc
Q 022930 104 CIGFLFFFLIFFILGRVVDGREITVQFAKY 133 (290)
Q Consensus 104 ~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~ 133 (290)
....+...+||.+||++.+|..++..+.+.
T Consensus 570 p~a~P~~I~~v~~LPkTrSGKimRr~lrki 599 (626)
T KOG1175|consen 570 PYAVPRLIVFVPGLPKTRSGKIMRRALRKI 599 (626)
T ss_pred cccccceeEecCCCCccccchhHHHHHHHH
Confidence 234456678999999999999988887764
No 223
>PF08156 NOP5NT: NOP5NT (NUC127) domain; InterPro: IPR012974 This N-terminal domain is found in RNA-binding proteins of the NOP5 family [].
Probab=49.84 E-value=5.2 Score=26.65 Aligned_cols=39 Identities=21% Similarity=0.293 Sum_probs=26.0
Q ss_pred HHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhC
Q 022930 30 DDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLD 78 (290)
Q Consensus 30 ~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~ 78 (290)
++|.+.|..++....+ + +=.||..|.+.++|..++..+.
T Consensus 27 ~~v~~~~~~~~~f~k~--v--------kL~aF~pF~s~~~ALe~~~ais 65 (67)
T PF08156_consen 27 EEVQKSFSDPEKFSKI--V--------KLKAFSPFKSAEEALENANAIS 65 (67)
T ss_pred HHHHHHHcCHHHHhhh--h--------hhhhccCCCCHHHHHHHHHHhh
Confidence 5787777655433221 1 1158999999999888877653
No 224
>PF07292 NID: Nmi/IFP 35 domain (NID); InterPro: IPR009909 This entry represents a domain of approximately 90 residues that is tandemly repeated within interferon-induced 35 kDa protein (IFP 35) and the homologous N-myc-interactor (Nmi). This domain mediates Nmi-Nmi protein interactions and subcellular localisation [].
Probab=49.76 E-value=8.2 Score=27.26 Aligned_cols=23 Identities=17% Similarity=0.140 Sum_probs=19.3
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHH
Q 022930 14 DTYSLLVLNITFRTTADDLFPLF 36 (290)
Q Consensus 14 ~~~~l~V~nL~~~~t~~~L~~~F 36 (290)
...+|.|.|||..+.+++|++.+
T Consensus 51 s~rtVlvsgip~~l~ee~l~D~L 73 (88)
T PF07292_consen 51 SKRTVLVSGIPDVLDEEELRDKL 73 (88)
T ss_pred cCCEEEEeCCCCCCChhhheeeE
Confidence 34789999999999999988654
No 225
>cd04904 ACT_AAAH ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH). ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH): Phenylalanine hydroxylases (PAH), tyrosine hydroxylases (TH) and tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. This family of enzymes shares a common catalytic mechanism, in which dioxygen is used by an active site containing a single, reduced iron atom to hydroxylate an unactivated aromatic substrate, concomitant with a two-electron oxidation of tetrahydropterin (BH4) cofactor to its quinonoid dihydropterin form. PAH catalyzes the hydroxylation of L-Phe to L-Tyr, the first step in the catabolic degradation of L-Phe; TH catalyses the hydroxylation of L-Tyr to 3,4-dihydroxyphenylalanine, the rate limiting step in the biosynthesis of catecholamines; and TPH catalyses the hydroxylation of L-Trp to 5-hydroxytryptophan, the rate limiting step in the biosynthesis of 5-hydroxy
Probab=49.75 E-value=76 Score=21.19 Aligned_cols=49 Identities=14% Similarity=0.225 Sum_probs=28.9
Q ss_pred HHHHHHHHhcCC-CeEEEEEcccCCCCCc-ceEEEEEEc-cHHHHHHHHHHhCC
Q 022930 29 ADDLFPLFEKYG-KVVDVFIPRDRRTGDS-RGFAFVRYK-YADEAQKAVDRLDG 79 (290)
Q Consensus 29 ~~~L~~~F~~~G-~I~~v~i~~d~~tg~~-~g~afV~F~-~~~~a~~Al~~l~g 79 (290)
-.++.+.|..+| .+..|.- -|..+.. .-+-||+|+ ..+..++||+.|..
T Consensus 14 L~~vL~~f~~~~iNlt~IeS--RP~~~~~~~y~Ffvd~~~~~~~~~~~l~~L~~ 65 (74)
T cd04904 14 LARALKLFEEFGVNLTHIES--RPSRRNGSEYEFFVDCEVDRGDLDQLISSLRR 65 (74)
T ss_pred HHHHHHHHHHCCCcEEEEEC--CCCCCCCceEEEEEEEEcChHHHHHHHHHHHH
Confidence 456778888887 4444433 3323322 224578888 55566777777765
No 226
>COG3254 Uncharacterized conserved protein [Function unknown]
Probab=49.57 E-value=55 Score=23.84 Aligned_cols=43 Identities=16% Similarity=0.250 Sum_probs=26.4
Q ss_pred HHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHH
Q 022930 30 DDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVD 75 (290)
Q Consensus 30 ~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~ 75 (290)
.+|..++..+|- ..-.|..+.. .+.=|||+++.|.+...++|.
T Consensus 27 PE~~a~lk~agi-~nYSIfLde~--~n~lFgy~E~~d~~a~m~~~a 69 (105)
T COG3254 27 PELLALLKEAGI-RNYSIFLDEE--ENLLFGYWEYEDFEADMAKMA 69 (105)
T ss_pred HHHHHHHHHcCC-ceeEEEecCC--cccEEEEEEEcChHHHHHHHh
Confidence 467888999984 3333333322 235599999996665555544
No 227
>PHA03008 hypothetical protein; Provisional
Probab=49.54 E-value=42 Score=27.50 Aligned_cols=49 Identities=16% Similarity=0.183 Sum_probs=35.3
Q ss_pred CCCCCCCCCCCCC-CCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcc
Q 022930 1 MSHFGKSGPPDIR-DTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPR 49 (290)
Q Consensus 1 m~~~~~~~~~~~~-~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~ 49 (290)
||+..-+...... .+-.+||.|+..--+..-|..+|.+|-.+.+|-++.
T Consensus 6 msn~n~p~~~~~~~~~d~~~~snit~~h~~n~i~~ff~~~d~~~~~ifvp 55 (234)
T PHA03008 6 MSNINLPRNNKIDEICDIAFISNITHIHDHNIIKIFFDKFDDFDEIIFVP 55 (234)
T ss_pred ecccCCccccCCcccccEEEEecccccccccHHHHHHhhccccceEEEcc
Confidence 5555433332222 334689999999889999999999999998887663
No 228
>PF14111 DUF4283: Domain of unknown function (DUF4283)
Probab=49.18 E-value=10 Score=29.26 Aligned_cols=108 Identities=13% Similarity=0.031 Sum_probs=57.3
Q ss_pred EEEcCCC--CCCCHHHHHHHHhc----CCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceeh
Q 022930 18 LLVLNIT--FRTTADDLFPLFEK----YGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEIL 91 (290)
Q Consensus 18 l~V~nL~--~~~t~~~L~~~F~~----~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~ 91 (290)
..|+.+. ..++...|...+.+ .|.+.-..|- .++..+.|.+.+++..++. .....+++..+.+..
T Consensus 18 ~lVg~~l~~~~~~~~~l~~~l~~~W~~~~~~~i~~l~--------~~~fl~~F~~~~d~~~vl~-~~p~~~~~~~~~l~~ 88 (153)
T PF14111_consen 18 CLVGRVLSPKPISLSALEQELAKIWKLKGGVKIRDLG--------DNLFLFQFESEEDRQRVLK-GGPWNFNGHFLILQR 88 (153)
T ss_pred EEEEEECCCCCCCHHHHHHHHHHHhCCCCcEEEEEeC--------CCeEEEEEEeccceeEEEe-cccccccccchhhhh
Confidence 4555552 23556666666643 3444333332 4699999999999999887 344445554444332
Q ss_pred hhhHHhhhccccccCcceeEEEEeccCcccch-hHHHHHhhccCCc
Q 022930 92 KSSLFLRKNLYLCIGFLFFFLIFFILGRVVDG-REITVQFAKYGPN 136 (290)
Q Consensus 92 ~~~~~~~~~~~~~~~~~~~~l~v~~l~~~~~~-~~l~~~f~~~g~~ 136 (290)
..+...... ........-+-|.+||..+-. +.|....+..|..
T Consensus 89 W~~~~~~~~--~~~~~~~vWVri~glP~~~~~~~~~~~i~~~iG~~ 132 (153)
T PF14111_consen 89 WSPDFNPSE--VKFEHIPVWVRIYGLPLHLWSEEILKAIGSKIGEP 132 (153)
T ss_pred hcccccccc--cceeccchhhhhccCCHHHhhhHHHHHHHHhcCCe
Confidence 221111110 111122334677888877654 4444444555553
No 229
>CHL00030 rpl23 ribosomal protein L23
Probab=48.76 E-value=52 Score=23.47 Aligned_cols=34 Identities=21% Similarity=0.281 Sum_probs=25.2
Q ss_pred EEEEcCCCCCCCHHHHHHHHhc-CC-CeEEEEEccc
Q 022930 17 SLLVLNITFRTTADDLFPLFEK-YG-KVVDVFIPRD 50 (290)
Q Consensus 17 ~l~V~nL~~~~t~~~L~~~F~~-~G-~I~~v~i~~d 50 (290)
..|+--++..++..+|++.|+. || .|..|..+.-
T Consensus 20 n~y~F~V~~~anK~eIK~avE~lf~VkV~~VNt~~~ 55 (93)
T CHL00030 20 NQYTFDVDSGSTKTEIKHWIELFFGVKVIAVNSHRL 55 (93)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCeEEEEEEEEc
Confidence 3566677889999999999976 56 6667765443
No 230
>PF11061 DUF2862: Protein of unknown function (DUF2862); InterPro: IPR021291 This family of proteins has no known function.
Probab=48.33 E-value=35 Score=22.47 Aligned_cols=39 Identities=18% Similarity=0.283 Sum_probs=25.5
Q ss_pred cCCCCCCCHHHHHHHHhc--CCCeEEEEEcccCCCCCcceEE-EEEEcc
Q 022930 21 LNITFRTTADDLFPLFEK--YGKVVDVFIPRDRRTGDSRGFA-FVRYKY 66 (290)
Q Consensus 21 ~nL~~~~t~~~L~~~F~~--~G~I~~v~i~~d~~tg~~~g~a-fV~F~~ 66 (290)
.-|-..+. ++|.+.+.+ .|.|...+|.-. .|++ +|+|.+
T Consensus 10 ~~irDRi~-~~l~~~l~~~~~g~I~~fKmtDG------~giG~vv~~~n 51 (64)
T PF11061_consen 10 SRIRDRIP-KELVDKLGKNPIGTIKGFKMTDG------SGIGVVVEFSN 51 (64)
T ss_pred hhhhhhcc-HHHHHHhccCCcEEEEEEEEecC------CcEEEEEEecC
Confidence 44444444 456677777 899999999644 4665 567765
No 231
>PF01282 Ribosomal_S24e: Ribosomal protein S24e; InterPro: IPR001976 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family contains the S24e ribosomal proteins from eukaryotes and archaebacteria. These proteins have 101 to 148 amino acids.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2V94_B 1YWX_A 2G1D_A 3IZ6_U 1XN9_A 2XZM_P 2XZN_P 3U5G_Y 3J16_D 3IZB_U ....
Probab=48.32 E-value=92 Score=21.70 Aligned_cols=47 Identities=21% Similarity=0.251 Sum_probs=25.8
Q ss_pred CCCCHHHHHHHHh-cCC----CeEEEEEcccCCCCCcceEEEEEEccHHHHHH
Q 022930 25 FRTTADDLFPLFE-KYG----KVVDVFIPRDRRTGDSRGFAFVRYKYADEAQK 72 (290)
Q Consensus 25 ~~~t~~~L~~~F~-~~G----~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~ 72 (290)
.+.+..+|++.+. .|+ .|.=..|...-..+.+.|||+| |.+.+.+..
T Consensus 11 ~Tpsr~ei~~klA~~~~~~~~~ivv~~~~t~fG~~~s~g~a~I-Yd~~e~~kk 62 (84)
T PF01282_consen 11 PTPSRKEIREKLAAMLNVDPDLIVVFGIKTEFGGGKSTGFAKI-YDSAEALKK 62 (84)
T ss_dssp SS--HHHHHHHHHHHHTSTGCCEEEEEEEESSSSSEEEEEEEE-ESSHHHHHH
T ss_pred CCCCHHHHHHHHHHHhCCCCCeEEEeccEecCCCceEEEEEEE-eCCHHHHHH
Confidence 4556778877664 444 2222234444344667788877 777666553
No 232
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=48.11 E-value=15 Score=31.23 Aligned_cols=28 Identities=11% Similarity=0.125 Sum_probs=25.2
Q ss_pred eEEEEeccCcccchhHHHHHhhccCCch
Q 022930 110 FFLIFFILGRVVDGREITVQFAKYGPNA 137 (290)
Q Consensus 110 ~~l~v~~l~~~~~~~~l~~~f~~~g~~~ 137 (290)
-.||+++||+.++...|...|+.||...
T Consensus 75 GVvylS~IPp~m~~~rlReil~~yGeVG 102 (278)
T KOG3152|consen 75 GVVYLSNIPPYMDPVRLREILSQYGEVG 102 (278)
T ss_pred eEEEeccCCCccCHHHHHHHHHhccccc
Confidence 3589999999999999999999999853
No 233
>KOG3424 consensus 40S ribosomal protein S24 [Translation, ribosomal structure and biogenesis]
Probab=47.33 E-value=61 Score=24.15 Aligned_cols=46 Identities=24% Similarity=0.345 Sum_probs=28.2
Q ss_pred CCCHHHHHHHHhc-CCC----eEEEEEcccCCCCCcceEEEEEEccHHHHHH
Q 022930 26 RTTADDLFPLFEK-YGK----VVDVFIPRDRRTGDSRGFAFVRYKYADEAQK 72 (290)
Q Consensus 26 ~~t~~~L~~~F~~-~G~----I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~ 72 (290)
++..+||++-+.+ |-. |.-+.+-..-.+|++.|||.| |.+.+.|..
T Consensus 34 ~vsK~EirEKla~mYkt~~d~V~vfgfrt~~GggkstgfalI-Ydsve~akk 84 (132)
T KOG3424|consen 34 NVSKTEIREKLAKMYKTTPDAVFVFGFRTHFGGGKSTGFALI-YDSVEYAKK 84 (132)
T ss_pred CCCHHHHHHHHHHHhcCCcceEEEEEeeeccCCcccceeeee-eehHHHHHh
Confidence 5778888876653 321 222233334456788999988 777666554
No 234
>PF11823 DUF3343: Protein of unknown function (DUF3343); InterPro: IPR021778 This family of proteins are functionally uncharacterised. This protein is found in bacteria and archaea. Proteins in this family are typically between 78 to 102 amino acids in length.
Probab=47.24 E-value=24 Score=23.68 Aligned_cols=30 Identities=13% Similarity=0.213 Sum_probs=24.4
Q ss_pred eEEEEEEccHHHHHHHHHHhCCcccccccc
Q 022930 58 GFAFVRYKYADEAQKAVDRLDGLFLNFNFV 87 (290)
Q Consensus 58 g~afV~F~~~~~a~~Al~~l~g~~~~~~~~ 87 (290)
.+++|.|.+..+|.+|-..|...-|..+.+
T Consensus 2 ~~~~i~F~st~~a~~~ek~lk~~gi~~~li 31 (73)
T PF11823_consen 2 KYYLITFPSTHDAMKAEKLLKKNGIPVRLI 31 (73)
T ss_pred ceEEEEECCHHHHHHHHHHHHHCCCcEEEe
Confidence 378999999999999999888866655544
No 235
>smart00195 DSPc Dual specificity phosphatase, catalytic domain.
Probab=46.95 E-value=58 Score=24.46 Aligned_cols=27 Identities=19% Similarity=0.090 Sum_probs=16.3
Q ss_pred EEEEcCCCCCCCHHHHHHHHhcCCCeEEE
Q 022930 17 SLLVLNITFRTTADDLFPLFEKYGKVVDV 45 (290)
Q Consensus 17 ~l~V~nL~~~~t~~~L~~~F~~~G~I~~v 45 (290)
.||||++|.....+.|.+. .+..|..+
T Consensus 7 ~l~~G~~~~~~~~~~l~~~--gi~~Vi~l 33 (138)
T smart00195 7 HLYLGSYSSALNLALLKKL--GITHVINV 33 (138)
T ss_pred CeEECChhHcCCHHHHHHc--CCCEEEEc
Confidence 3999999877654444332 33445444
No 236
>PF08544 GHMP_kinases_C: GHMP kinases C terminal ; InterPro: IPR013750 This domain is found in homoserine kinases (2.7.1.39 from EC), galactokinases (2.7.1.6 from EC) and mevalonate kinases (2.7.1.36 from EC). These kinases make up the GHMP kinase superfamily of ATP-dependent enzymes []. These enzymes are involved in the biosynthesis of isoprenes and amino acids as well as in carbohydrate metabolism. The C-terminal domain of homoserine kinase has a central alpha-beta plait fold and an insertion of four helices, which, together with the N-terminal fold, create a novel nucleotide binding fold [].; PDB: 2R3V_C 4EMD_A 4DXL_A 4ED4_A 2GS8_A 1K47_E 3GON_A 3K17_B 1PIE_A 2AJ4_A ....
Probab=46.45 E-value=89 Score=21.01 Aligned_cols=44 Identities=23% Similarity=0.326 Sum_probs=30.1
Q ss_pred HHHHHHHhcCCCeEEEEEcccCCCCC-cceEEEEEEccHHHHHHHHHHhCC
Q 022930 30 DDLFPLFEKYGKVVDVFIPRDRRTGD-SRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 30 ~~L~~~F~~~G~I~~v~i~~d~~tg~-~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
.+|.+++.++| +..+.|. |. .-++.|+.|.+.+.++.+++.|..
T Consensus 37 ~~~~~~~~~~G-a~~~~~s-----GsG~G~~v~~l~~~~~~~~~v~~~l~~ 81 (85)
T PF08544_consen 37 DELKEAAEENG-ALGAKMS-----GSGGGPTVFALCKDEDDAERVAEALRE 81 (85)
T ss_dssp HHHHHHHHHTT-ESEEEEE-----TTSSSSEEEEEESSHHHHHHHHHHHHH
T ss_pred HHHHHHHHHCC-CCceecC-----CCCCCCeEEEEECCHHHHHHHHHHHHH
Confidence 45677778888 5555553 22 134778888899998888887653
No 237
>PRK11230 glycolate oxidase subunit GlcD; Provisional
Probab=46.26 E-value=64 Score=30.69 Aligned_cols=50 Identities=20% Similarity=0.234 Sum_probs=35.7
Q ss_pred HHHHHHHHh----cCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCC
Q 022930 29 ADDLFPLFE----KYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 29 ~~~L~~~F~----~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
--+|..+|. .+|-|+++.|...+. .......++.|.+.++|..|+..+..
T Consensus 203 g~dl~~l~~Gs~GtlGIIt~atlkl~p~-p~~~~~~~~~f~~~~~a~~~~~~~~~ 256 (499)
T PRK11230 203 GFDLLALFTGSEGMLGVVTEVTVKLLPK-PPVARVLLASFDSVEKAGLAVGDIIA 256 (499)
T ss_pred ccchHhhhccCCCccEEEEEEEEEEEcC-CcceEEEEEECCCHHHHHHHHHHHHh
Confidence 346777764 678888887765543 23345778899999999999887643
No 238
>PRK11558 putative ssRNA endonuclease; Provisional
Probab=45.86 E-value=33 Score=24.70 Aligned_cols=49 Identities=12% Similarity=0.030 Sum_probs=27.7
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccH
Q 022930 16 YSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYA 67 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~ 67 (290)
.-||||+++..+-+.--..+-+.++.-..+-+..+ ....||+|-.+-+.
T Consensus 28 ~GVyVg~~S~rVRd~lW~~v~~~~~~G~avmv~~~---~~eqG~~~~t~G~~ 76 (97)
T PRK11558 28 AGVYVGDVSRRIREMIWQQVTQLAEEGNVVMAWAT---NTESGFEFQTFGEN 76 (97)
T ss_pred CCcEEcCCCHHHHHHHHHHHHHhCCCCcEEEEEcC---CCCCCcEEEecCCC
Confidence 34999999888766533333344443222222222 23349999887754
No 239
>PRK07868 acyl-CoA synthetase; Validated
Probab=45.53 E-value=1.7e+02 Score=30.60 Aligned_cols=83 Identities=11% Similarity=-0.081 Sum_probs=51.6
Q ss_pred CCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEcc-----HHHHHHHHHHhCCccccccccceehhhhHHhhhc
Q 022930 26 RTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKY-----ADEAQKAVDRLDGLFLNFNFVHEILKSSLFLRKN 100 (290)
Q Consensus 26 ~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~-----~~~a~~Al~~l~g~~~~~~~~~~~~~~~~~~~~~ 100 (290)
+|...+|+.++.++..|..+-++..+..+...-.|||.... .++...++..|..
T Consensus 868 ~I~p~EIE~~L~~hp~V~~aaVvg~~d~~~~~~~a~Vv~~~~~~~~~~~L~~~l~~l~~--------------------- 926 (994)
T PRK07868 868 PVYTEPVTDALGRIGGVDLAVTYGVEVGGRQLAVAAVTLRPGAAITAADLTEALASLPV--------------------- 926 (994)
T ss_pred eEcHHHHHHHHhcCCCeeEEEEEeecCCCCceEEEEEEeCCCCcCCHHHHHHHHHhCCC---------------------
Confidence 47789999999999999887765443333334578887643 2222222222211
Q ss_pred cccccCcceeEEEEeccCcccchhHHHHHhhcc
Q 022930 101 LYLCIGFLFFFLIFFILGRVVDGREITVQFAKY 133 (290)
Q Consensus 101 ~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~ 133 (290)
...+...+||..||...+|+.++..+...
T Consensus 927 ----y~vP~~i~~v~~lP~T~sGKi~r~~L~~~ 955 (994)
T PRK07868 927 ----GLGPDIVHVVPEIPLSATYRPTVSALRAA 955 (994)
T ss_pred ----CcCCeEEEEeCCCCCCccccEehHHHHhc
Confidence 22345567888899888887766666543
No 240
>PRK12280 rplW 50S ribosomal protein L23; Reviewed
Probab=45.42 E-value=55 Score=25.84 Aligned_cols=33 Identities=18% Similarity=0.219 Sum_probs=25.6
Q ss_pred EEEEcCCCCCCCHHHHHHHHhc-CC-CeEEEEEcc
Q 022930 17 SLLVLNITFRTTADDLFPLFEK-YG-KVVDVFIPR 49 (290)
Q Consensus 17 ~l~V~nL~~~~t~~~L~~~F~~-~G-~I~~v~i~~ 49 (290)
..|+..++..++..+|...|+. || .|..|..+.
T Consensus 23 N~ytF~V~~~anK~eIK~AVE~iF~VkV~~VNT~~ 57 (158)
T PRK12280 23 NVYTFKVDRRANKIEIKKAVEFIFKVKVLKVNIFN 57 (158)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEe
Confidence 4677788999999999999976 56 666776543
No 241
>smart00738 NGN In Spt5p, this domain may confer affinity for Spt4p. It possesses a RNP-like fold. In Spt5p, this domain may confer affinity for Spt4p.Spt4p
Probab=45.34 E-value=39 Score=24.18 Aligned_cols=23 Identities=30% Similarity=0.489 Sum_probs=18.1
Q ss_pred ceEEEEEEccHHHHHHHHHHhCC
Q 022930 57 RGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 57 ~g~afV~F~~~~~a~~Al~~l~g 79 (290)
.||.||++.-.+++..+|..+.|
T Consensus 59 pGYvFv~~~~~~~~~~~i~~~~~ 81 (106)
T smart00738 59 PGYIFVEADLEDEVWTAIRGTPG 81 (106)
T ss_pred CCEEEEEEEeCCcHHHHHhcCCC
Confidence 39999999876666777777776
No 242
>PTZ00108 DNA topoisomerase 2-like protein; Provisional
Probab=45.26 E-value=77 Score=34.13 Aligned_cols=98 Identities=13% Similarity=0.045 Sum_probs=50.7
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhc--CCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccceehhh
Q 022930 16 YSLLVLNITFRTTADDLFPLFEK--YGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEILKS 93 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~L~~~F~~--~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~~~ 93 (290)
.+|.|+-||+.+..+.+.+++.. -..+..|.=+.|..+. .|+.||.--..+....++. ++
T Consensus 886 ~~i~ITELP~~~~t~~y~e~l~~~~~~~~~~I~d~~d~s~~--~~v~~~I~l~~~~~~~~~~--~~-------------- 947 (1388)
T PTZ00108 886 GTVEITELPIGKWTEDYKEFLESETLKEKDVIVDYRDYSTA--NTVHFTVKLNDGVLEQWEE--EG-------------- 947 (1388)
T ss_pred CeEEEEeCCCcccHHHHHHHHHHHHhcCCCcceeeeeccCC--CceEEEEEECCCcCHHHHH--HH--------------
Confidence 47999999999988888888765 2222222222332121 4577665443332222211 11
Q ss_pred hHHhhhccccccCcceeEEEEec--cCcccchhHHHHHhhc
Q 022930 94 SLFLRKNLYLCIGFLFFFLIFFI--LGRVVDGREITVQFAK 132 (290)
Q Consensus 94 ~~~~~~~~~~~~~~~~~~l~v~~--l~~~~~~~~l~~~f~~ 132 (290)
.++.-.+.......++.||-.+ ||...+-.+|...|-.
T Consensus 948 -L~k~~kL~~s~~~~Nm~~~d~~g~i~~~~~~~~Il~~f~~ 987 (1388)
T PTZ00108 948 -IEKVFKLKSTISTTNMVLFDENGKIKKYSDALDILKEFYL 987 (1388)
T ss_pred -HHHhcCCceeecceeEEEEeCCCCcceeCCHHHHHHHHHH
Confidence 1122223333334455566554 6777666666665543
No 243
>PF00398 RrnaAD: Ribosomal RNA adenine dimethylase; InterPro: IPR001737 This family of proteins include rRNA adenine dimethylases (e.g. KsgA) and the Erythromycin resistance methylases (Erm). The bacterial enzyme KsgA catalyses the transfer of a total of four methyl groups from S-adenosyl-l-methionine (S-AdoMet) to two adjacent adenosine bases in 16S rRNA. This enzyme and the resulting modified adenosine bases appear to be conserved in all species of eubacteria, eukaryotes, and archaea, and in eukaryotic organelles. Bacterial resistance to the aminoglycoside antibiotic kasugamycin involves inactivation of KsgA and resulting loss of the dimethylations, with modest consequences to the overall fitness of the organism. In contrast, the yeast ortholog, Dim1, is essential. In Saccharomyces cerevisiae (Baker's yeast), and presumably in other eukaryotes, the enzyme performs a vital role in pre-rRNA processing in addition to its methylating activity. The best conserved region in these enzymes is located in the N-terminal section and corresponds to a region that is probably involved in S-adenosyl methionine (SAM) binding domain. The crystal structure of KsgA from Escherichia coli has been solved to a resolution of 2.1A. It bears a strong similarity to the crystal structure of ErmC' from Bacillus stearothermophilus and a lesser similarity to the yeast mitochondrial transcription factor, sc-mtTFB []. The Erm family of RNA methyltransferases, which methylate a single adenosine base in 23S rRNA confer resistance to the MLS-B group of antibiotics. Despite their sequence similarity, the two enzyme families have strikingly different levels of regulation that remain to be elucidated. Other orthologs, of this family include the yeast and Homo sapiens (Human) mitochondrial transcription factors (MTF1 and h-mtTFB respectively), which are nuclear encoded []. Human-mtTFB is able to stimulate transcription in vitro independently of its S-adenosylmethionine binding and rRNA methyltransferase activity [].; GO: 0000179 rRNA (adenine-N6,N6-)-dimethyltransferase activity, 0008649 rRNA methyltransferase activity, 0000154 rRNA modification; PDB: 3FTF_A 3R9X_B 3FTE_A 3FTC_A 3FTD_A 3GRY_A 3FYC_A 3GRU_A 3FYD_A 3GRV_A ....
Probab=44.24 E-value=20 Score=30.75 Aligned_cols=27 Identities=26% Similarity=0.447 Sum_probs=22.2
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHh--cCCC
Q 022930 15 TYSLLVLNITFRTTADDLFPLFE--KYGK 41 (290)
Q Consensus 15 ~~~l~V~nL~~~~t~~~L~~~F~--~~G~ 41 (290)
...++|+|||+.++..-|..++. .||.
T Consensus 97 ~~~~vv~NlPy~is~~il~~ll~~~~~g~ 125 (262)
T PF00398_consen 97 QPLLVVGNLPYNISSPILRKLLELYRFGR 125 (262)
T ss_dssp SEEEEEEEETGTGHHHHHHHHHHHGGGCE
T ss_pred CceEEEEEecccchHHHHHHHhhcccccc
Confidence 45689999999999999999887 4443
No 244
>cd04905 ACT_CM-PDT C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme. The C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme, found in plants, fungi, bacteria, and archaea. The P-protein of E. coli (CM-PDT, PheA) catalyzes the conversion of chorismate to prephenate and then the decarboxylation and dehydration to form phenylpyruvate. These are the first two steps in the biosynthesis of L-Phe and L-Tyr via the shikimate pathway in microorganisms and plants. The E. coli P-protein (CM-PDT) has three domains with an N-terminal domain with chorismate mutase activity, a middle domain with prephenate dehydratase activity, and an ACT regulatory C-terminal domain. The prephenate dehydratase enzyme has a PDT and ACT domain. The ACT domain is essential to bring about the negative allosteric regulation by L-Phe bindi
Probab=44.07 E-value=97 Score=20.83 Aligned_cols=50 Identities=14% Similarity=0.241 Sum_probs=30.7
Q ss_pred HHHHHHHHhcCC-CeEEEEEcccCCCCCcceEEEEEEcc---HHHHHHHHHHhCC
Q 022930 29 ADDLFPLFEKYG-KVVDVFIPRDRRTGDSRGFAFVRYKY---ADEAQKAVDRLDG 79 (290)
Q Consensus 29 ~~~L~~~F~~~G-~I~~v~i~~d~~tg~~~g~afV~F~~---~~~a~~Al~~l~g 79 (290)
-.+|.++|.++| .|..+...... .+...-.-||+++. .++...++..|..
T Consensus 15 L~~il~~f~~~~ini~~i~s~p~~-~~~~~~~f~vd~~~~~~~~~~~~~l~~l~~ 68 (80)
T cd04905 15 LYDVLGVFAERGINLTKIESRPSK-GGLWEYVFFIDFEGHIEDPNVAEALEELKR 68 (80)
T ss_pred HHHHHHHHHHCCcCEEEEEEEEcC-CCCceEEEEEEEECCCCCHHHHHHHHHHHH
Confidence 467788898887 67777554332 22222345677773 5666777777665
No 245
>cd04909 ACT_PDH-BS C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH). The C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate, found in Bacillus subtilis (BS) and other Firmicutes, Deinococci, and Bacteroidetes. PDH is the first enzyme in the aromatic amino acid pathway specific for the biosynthesis of tyrosine. This enzyme is feedback-inhibited by tyrosine in B. subtilis and other microorganisms. Both phenylalanine and tryptophan have been shown to be inhibitors of this activity in B. subtilis. Bifunctional chorismate mutase-PDH (TyrA) enzymes such as those seen in Escherichia coli do not contain an ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=43.77 E-value=87 Score=20.15 Aligned_cols=48 Identities=17% Similarity=0.328 Sum_probs=28.2
Q ss_pred HHHHHHHHhcCC-CeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhC
Q 022930 29 ADDLFPLFEKYG-KVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLD 78 (290)
Q Consensus 29 ~~~L~~~F~~~G-~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~ 78 (290)
-.+|..+|.++| .|..+....... + ..+...|.+...++++.+++.|.
T Consensus 15 L~~l~~~l~~~~i~i~~~~~~~~~~-~-~~~~~~i~v~~~~~~~~~~~~L~ 63 (69)
T cd04909 15 IAEVTQILGDAGISIKNIEILEIRE-G-IGGILRISFKTQEDRERAKEILK 63 (69)
T ss_pred HHHHHHHHHHcCCCceeeEeEEeec-C-CcEEEEEEECCHHHHHHHHHHHH
Confidence 457888898887 666665443211 1 24556677765555555555543
No 246
>PF05573 NosL: NosL; InterPro: IPR008719 NosL is one of the accessory proteins of the nos (nitrous oxide reductase) gene cluster. NosL is a monomeric protein of 18,540 MW that specifically and stoichiometrically binds Cu(I). The copper ion in NosL is ligated by a Cys residue, and one Met and one His are thought to serve as the other ligands. It is possible that NosL is a copper chaperone involved in metallocentre assembly []. This entry also contains HTH-type transcriptional repressors, including YcnK. YcnK may act as a negative transcriptional regulator of YcnJ in the presence of copper and may use copper as a corepressor. The gene, ycnK, is significantly induced under copper-limiting conditions.; PDB: 2HQ3_A 2HPU_A.
Probab=43.29 E-value=12 Score=29.30 Aligned_cols=24 Identities=13% Similarity=0.289 Sum_probs=17.9
Q ss_pred cceEEEEEEccHHHHHHHHHHhCC
Q 022930 56 SRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 56 ~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
+-|..+|-|.+.++|++++....|
T Consensus 113 pMg~~~~aF~~~~~A~~F~~~~GG 136 (149)
T PF05573_consen 113 PMGPDLIAFASKEDAEAFAKEHGG 136 (149)
T ss_dssp TTS--EEEES-HHHHHHHHHHTEE
T ss_pred CCCCcccccCCHHHHHHHHHHcCC
Confidence 357889999999999999997655
No 247
>cd04879 ACT_3PGDH-like ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH). ACT_3PGDH-like: The ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH), with or without an extended C-terminal (xct) region found in various bacteria, archaea, fungi, and plants. 3PGDH is an enzyme that belongs to the D-isomer specific, 2-hydroxyacid dehydrogenase family and catalyzes the oxidation of D-3-phosphoglycerate to 3- phosphohydroxypyruvate, which is the first step in the biosynthesis of L-serine, using NAD+ as the oxidizing agent. In bacteria, 3PGDH is feedback controlled by the end product L-serine in an allosteric manner. In the Escherichia coli homotetrameric enzyme, the interface at adjacent ACT (regulatory) domains couples to create an extended beta-sheet. Each regulatory interface forms two serine-binding sites. The mechanism by which serine transmits inhibition to the active
Probab=42.74 E-value=85 Score=19.74 Aligned_cols=32 Identities=13% Similarity=0.263 Sum_probs=19.7
Q ss_pred EEEcCCCCCCCHHHHHHHHhcCC-CeEEEEEcc
Q 022930 18 LLVLNITFRTTADDLFPLFEKYG-KVVDVFIPR 49 (290)
Q Consensus 18 l~V~nL~~~~t~~~L~~~F~~~G-~I~~v~i~~ 49 (290)
|+|..-...-.-.+|..+|.++| .|..+.+..
T Consensus 2 l~v~~~d~~g~l~~i~~~l~~~~~nI~~~~~~~ 34 (71)
T cd04879 2 LLIVHKDVPGVIGKVGTILGEHGINIAAMQVGR 34 (71)
T ss_pred EEEEecCCCCHHHHHHHHHHhcCCCeeeEEEec
Confidence 33433333334567888998887 677776643
No 248
>PF02714 DUF221: Domain of unknown function DUF221; InterPro: IPR003864 This domain is found in a family of hypothetical transmembrane proteins none of which have any known function, the aligned region is at 538 residues at maximum length.; GO: 0016020 membrane
Probab=42.17 E-value=32 Score=30.43 Aligned_cols=20 Identities=35% Similarity=0.391 Sum_probs=18.0
Q ss_pred EEEEEccHHHHHHHHHHhCC
Q 022930 60 AFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 60 afV~F~~~~~a~~Al~~l~g 79 (290)
|||.|++..+|..|++.+..
T Consensus 1 aFVtF~~~~~a~~~~q~~~~ 20 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLLLS 20 (325)
T ss_pred CEEEECCHHHHHHHHHHHhc
Confidence 79999999999999996655
No 249
>cd04880 ACT_AAAH-PDT-like ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH). ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH): Phenylalanine hydroxylases (PAH), tyrosine hydroxylases (TH) and tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. This family of enzymes shares a common catalytic mechanism, in which dioxygen is used by an active site containing a single, reduced iron atom to hydroxylate an unactivated aromatic substrate, concomitant with a two-electron oxidation of tetrahydropterin (BH4) cofactor to its quinonoid dihydropterin form. Eukaryotic AAAHs have an N-terminal ACT (regulatory) domain, a middle catalytic domain and a C-terminal domain which is responsible for the oligomeric state of the enzyme forming a domain-swapped tetrameric coiled-coil. The PAH, TH, and TPH enzymes contain highly conserved catalytic domains but distinct N-terminal ACT domains and differ in their mech
Probab=42.10 E-value=1e+02 Score=20.39 Aligned_cols=50 Identities=16% Similarity=0.236 Sum_probs=30.2
Q ss_pred HHHHHHHHhcCC-CeEEEEEcccCCCCCcceEEEEEEcc---HHHHHHHHHHhCC
Q 022930 29 ADDLFPLFEKYG-KVVDVFIPRDRRTGDSRGFAFVRYKY---ADEAQKAVDRLDG 79 (290)
Q Consensus 29 ~~~L~~~F~~~G-~I~~v~i~~d~~tg~~~g~afV~F~~---~~~a~~Al~~l~g 79 (290)
-.+|.+.|..+| .|..|.-...+ .....-.-||++.. ....+.+++.|..
T Consensus 13 L~~vL~~f~~~~vni~~I~Srp~~-~~~~~~~f~id~~~~~~~~~~~~~l~~l~~ 66 (75)
T cd04880 13 LAKALKVFAERGINLTKIESRPSR-KGLWEYEFFVDFEGHIDDPDVKEALEELKR 66 (75)
T ss_pred HHHHHHHHHHCCCCEEEEEeeecC-CCCceEEEEEEEECCCCCHHHHHHHHHHHH
Confidence 467888898887 56666433221 11223356888874 5566667776654
No 250
>PF08206 OB_RNB: Ribonuclease B OB domain; InterPro: IPR013223 This domain includes the N-terminal OB domain found in ribonuclease B proteins in one or two copies.; PDB: 2ID0_D 2IX1_A 2IX0_A.
Probab=42.09 E-value=4 Score=26.22 Aligned_cols=11 Identities=36% Similarity=0.600 Sum_probs=8.5
Q ss_pred cceEEEEEEcc
Q 022930 56 SRGFAFVRYKY 66 (290)
Q Consensus 56 ~~g~afV~F~~ 66 (290)
.+|||||...+
T Consensus 7 ~~GfGFv~~~~ 17 (58)
T PF08206_consen 7 PKGFGFVIPDD 17 (58)
T ss_dssp SSS-EEEEECT
T ss_pred cCCCEEEEECC
Confidence 37999999987
No 251
>cd00187 TOP4c DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA topology by catalysing the concerted breakage and rejoining of DNA strands during normal cellular growth.
Probab=41.59 E-value=1e+02 Score=28.89 Aligned_cols=96 Identities=16% Similarity=0.163 Sum_probs=51.4
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhc---CCCeEEEEEcccCCCCCcceEEEEE-EccHHHHHHHHHHhCCccccccccceeh
Q 022930 16 YSLLVLNITFRTTADDLFPLFEK---YGKVVDVFIPRDRRTGDSRGFAFVR-YKYADEAQKAVDRLDGLFLNFNFVHEIL 91 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~L~~~F~~---~G~I~~v~i~~d~~tg~~~g~afV~-F~~~~~a~~Al~~l~g~~~~~~~~~~~~ 91 (290)
.+|.|+-||+.++.+.|.+.+.. -++|..|.=+.|- +.. .|+.||. +.....++..+..|-.
T Consensus 226 ~~i~ItElP~~~~~~~~~e~i~~l~~~~k~~~I~~~~D~-s~~-~~vrivI~lk~~~~~~~~~~~L~k------------ 291 (445)
T cd00187 226 NTIEITELPYQVNKAKLKEKIAELVKDKKIEGISDVRDE-SDR-EGIRFVIELKRGAMAEVVLNGLYK------------ 291 (445)
T ss_pred ceEEEEeCCCcccHHHHHHHHHHHHhcCCCcccceeeec-cCC-CceEEEEEECCCccHHHHHHHHHH------------
Confidence 67999999999998888876542 2333333333342 222 3677664 4443334333322211
Q ss_pred hhhHHhhhccccccCcceeEEEE-eccCcccchhHHHHHhhc
Q 022930 92 KSSLFLRKNLYLCIGFLFFFLIF-FILGRVVDGREITVQFAK 132 (290)
Q Consensus 92 ~~~~~~~~~~~~~~~~~~~~l~v-~~l~~~~~~~~l~~~f~~ 132 (290)
...+...... ++.+|+ .+.|..++-.+|...|-.
T Consensus 292 ------~t~L~~s~~~-Nm~~~~~~g~p~~~~l~~iL~~f~~ 326 (445)
T cd00187 292 ------VTKLQTTFGI-NMVAFDPNGRPKKLNLKEILQEFLD 326 (445)
T ss_pred ------hcCCceeeee-eEEEEecCCeeEEeCHHHHHHHHHH
Confidence 1111111112 455566 667777776666666654
No 252
>KOG0156 consensus Cytochrome P450 CYP2 subfamily [Secondary metabolites biosynthesis, transport and catabolism]
Probab=40.44 E-value=62 Score=30.69 Aligned_cols=60 Identities=15% Similarity=0.083 Sum_probs=43.6
Q ss_pred EEEcCCCCCCCH---HHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcccccccc
Q 022930 18 LLVLNITFRTTA---DDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFV 87 (290)
Q Consensus 18 l~V~nL~~~~t~---~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~ 87 (290)
=+||||+.-... ..|..+=++||.|-.++|-. .-.|...+.+.|.+|+. .|+..+.++..
T Consensus 35 PiIGnl~~l~~~~~h~~~~~ls~~yGpi~tl~lG~---------~~~Vviss~~~akE~l~-~~d~~fa~Rp~ 97 (489)
T KOG0156|consen 35 PIIGNLHQLGSLPPHRSFRKLSKKYGPVFTLRLGS---------VPVVVISSYEAAKEVLV-KQDLEFADRPD 97 (489)
T ss_pred CccccHHHcCCCchhHHHHHHHHHhCCeEEEEecC---------ceEEEECCHHHHHHHHH-hCCccccCCCC
Confidence 468888765443 34445556899999888732 24788889999999999 57877777765
No 253
>TIGR00587 nfo apurinic endonuclease (APN1). All proteins in this family for which functions are known are 5' AP endonculeases that are used in base excision repair and the repair of abasic sites in DNA.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=40.00 E-value=35 Score=29.46 Aligned_cols=59 Identities=10% Similarity=0.006 Sum_probs=39.8
Q ss_pred CcEEEEcCCCCC-----CCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEc---cHHHHHHHHHHhCC
Q 022930 15 TYSLLVLNITFR-----TTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYK---YADEAQKAVDRLDG 79 (290)
Q Consensus 15 ~~~l~V~nL~~~-----~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~---~~~~a~~Al~~l~g 79 (290)
..+|.|-|++.. .+.++|..++..++....+.++.| .|.+|+.-. +.+....++..+..
T Consensus 137 ~v~l~lEN~~~~~~~l~~~~~el~~ll~~~~~~~~lg~~lD------t~H~~~~g~~~~~~~~~~~~~~~~~~ 203 (274)
T TIGR00587 137 IVTILLENMAGQGSELGRSFEELAYIIKVIVDKRRIGVCLD------TCHFFAAGYDITTKAYFEVVKNEFDV 203 (274)
T ss_pred CCEEEEEeCCCCCCccCCCHHHHHHHHHhcCCCCceEEEEE------hhhHHhcCCCcCCHHHHHHHHHHHHH
Confidence 367999998743 488999999999886556777877 334443333 35566666665543
No 254
>smart00434 TOP4c DNA Topoisomerase IV. Bacterial DNA topoisomerase IV, GyrA, ParC
Probab=39.77 E-value=1.1e+02 Score=28.79 Aligned_cols=49 Identities=14% Similarity=0.263 Sum_probs=31.0
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhc---CCCeEEEEEcccCCCCCcceEEEEEEc
Q 022930 16 YSLLVLNITFRTTADDLFPLFEK---YGKVVDVFIPRDRRTGDSRGFAFVRYK 65 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~L~~~F~~---~G~I~~v~i~~d~~tg~~~g~afV~F~ 65 (290)
.+|.|+-||+.++.+.|.+.+.. -+.|..+.-+.| ++..-.|+.||.--
T Consensus 233 ~~ivItElP~~~~~~~~~e~I~~lv~~~ki~~i~~~~d-es~~~~~vrivI~l 284 (445)
T smart00434 233 NTIVITELPYQVNKAKLIEKIAELVKDKKIEGIIDVRD-ESHDRTGVRIVIEL 284 (445)
T ss_pred ceEEEEeCCCcccHHHHHHHHHHHHhcCCCCcceehhh-ccCCCCceEEEEEE
Confidence 67999999999998888876543 345554444444 22122567766433
No 255
>COG5584 Predicted small secreted protein [Function unknown]
Probab=39.17 E-value=52 Score=23.52 Aligned_cols=32 Identities=13% Similarity=0.206 Sum_probs=24.5
Q ss_pred CCCCCCCHHHHHHHHhcCCCeEEEEEcccCCC
Q 022930 22 NITFRTTADDLFPLFEKYGKVVDVFIPRDRRT 53 (290)
Q Consensus 22 nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~t 53 (290)
||..+.--.-+++.|.++|.|+.-.|...|+.
T Consensus 29 ~is~e~alk~vk~afk~~mnI~GSwI~~~pe~ 60 (103)
T COG5584 29 NISRENALKVVKEAFKQFMNIKGSWIVYEPEV 60 (103)
T ss_pred ccChhHHHHHHHHHhcccCCcceeEEEEeccc
Confidence 45666666678899999999998887776644
No 256
>PF02829 3H: 3H domain; InterPro: IPR004173 The 3H domain is named after its three highly conserved histidine residues. The 3H domain appears to be a small molecule-binding domain, based on its occurrence with other domains []. Several proteins carrying this domain are transcriptional regulators from the biotin repressor family. The transcription regulator TM1602 from Thermotoga maritima is a DNA-binding protein thought to belong to a family of de novo NAD synthesis pathway regulators. TM1602 has an N-terminal DNA-binding domain and a C-terminal 3H regulatory domain. The N-terminal domain appears to bind to the NAD promoter region and repress the de novo NAD biosynthesis operon, while the C-terminal 3H domain may bind to nicotinamide, nicotinic acid, or other substrate/products []. The 3H domain has a 2-layer alpha/beta sandwich fold.; GO: 0005488 binding; PDB: 1J5Y_A.
Probab=39.00 E-value=1.3e+02 Score=21.66 Aligned_cols=50 Identities=18% Similarity=0.294 Sum_probs=35.2
Q ss_pred CCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCC
Q 022930 27 TTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 27 ~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
-++++|..+...-|.|..|.+... .-| .=-|.+...+..++..+|+.|+.
T Consensus 9 ~~~~EL~~IVd~Gg~V~DV~veHp-~YG--~i~~~L~i~sr~Dv~~Fi~~l~~ 58 (98)
T PF02829_consen 9 EIEDELEIIVDNGGRVLDVIVEHP-VYG--EITGNLNISSRRDVDKFIEKLEK 58 (98)
T ss_dssp GHHHHHHHHHHTT-EEEEEEEEET-TTE--EEEEEEEE-SHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHCCCEEEEEEEeCC-CCc--EEEEEEecCCHHHHHHHHHHHhc
Confidence 345677777777778888887654 333 22467788999999999998876
No 257
>TIGR00387 glcD glycolate oxidase, subunit GlcD. This protein, the glycolate oxidase GlcD subunit, is similar in sequence to that of several D-lactate dehydrogenases, including that of E. coli. The glycolate oxidase has been found to have some D-lactate dehydrogenase activity.
Probab=38.91 E-value=89 Score=28.81 Aligned_cols=52 Identities=19% Similarity=0.178 Sum_probs=36.1
Q ss_pred CCCHHHHHHHHh----cCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhC
Q 022930 26 RTTADDLFPLFE----KYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLD 78 (290)
Q Consensus 26 ~~t~~~L~~~F~----~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~ 78 (290)
+..--+|..+|. .+|-|+++.|...+. .....+.++.|.+.++|..|+..+.
T Consensus 143 ~~~g~dl~~l~~Gs~GtlGiit~~~lkl~p~-p~~~~~~~~~f~~~~~~~~~~~~~~ 198 (413)
T TIGR00387 143 DVAGYDLTGLFVGSEGTLGIVTEATLKLLPK-PENIVVALAFFDSIEKAMQAVYDII 198 (413)
T ss_pred CCCCCChhhhcccCCccceEEEEEEEEeecC-CCccEEEEEECCCHHHHHHHHHHHH
Confidence 333446777774 378888887766543 3344567889999999999986554
No 258
>PLN03237 DNA topoisomerase 2; Provisional
Probab=38.85 E-value=86 Score=33.87 Aligned_cols=99 Identities=15% Similarity=0.084 Sum_probs=48.6
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhcCC------CeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccc
Q 022930 15 TYSLLVLNITFRTTADDLFPLFEKYG------KVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVH 88 (290)
Q Consensus 15 ~~~l~V~nL~~~~t~~~L~~~F~~~G------~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~ 88 (290)
..+|.|+-||+.+..++..+++++.. .+..|.=+.+..+ ..|+.||.--..+....++ +++
T Consensus 907 ~~~i~ITElP~~~~t~~y~~~le~i~~~~~~~k~~~I~d~~d~s~--~~~vr~vI~lk~~~~~~~~--~~~--------- 973 (1465)
T PLN03237 907 ETTLRITELPIRRWTDDYKEFLESLKTDNNKNKDPFIKDVKAYND--DTTVHFEVILSEENMLAAK--QEG--------- 973 (1465)
T ss_pred CCeEEEEeCCCeecchHHHHHHHHHHHHHhccCcCceeechhccC--CceEEEEEEeccchhHHHH--HHH---------
Confidence 46799999999976543333333321 1222222233211 2567776544444333332 222
Q ss_pred eehhhhHHhhhccccccCcceeEEEEec--cCcccchhHHHHHhhc
Q 022930 89 EILKSSLFLRKNLYLCIGFLFFFLIFFI--LGRVVDGREITVQFAK 132 (290)
Q Consensus 89 ~~~~~~~~~~~~~~~~~~~~~~~l~v~~--l~~~~~~~~l~~~f~~ 132 (290)
.++.-.+.......++.||-.+ ||...+-.+|...|-.
T Consensus 974 ------L~k~~kL~~s~~~~nm~l~d~~G~i~k~~~~~~Il~~F~~ 1013 (1465)
T PLN03237 974 ------LLKKFKLTTTISTSNMHLFDSKGVIKKYDTPEQILEEFFH 1013 (1465)
T ss_pred ------HHHhhcCcceeceeEEEEEcCCCCcceeCCHHHHHHHHHH
Confidence 1122222233333455566544 7887777776666654
No 259
>cd04889 ACT_PDH-BS-like C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate. Included in this CD is the C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate, found in Bacillus subtilis (BS) and other Firmicutes, Deinococci, and Bacteroidetes. PDH is the first enzyme in the aromatic amino acid pathway specific for the biosynthesis of tyrosine. This enzyme is feedback inhibited by tyrosine in B. subtilis and other microorganisms. Both phenylalanine and tryptophan have been shown to be inhibitors of this activity in B. subtilis. Bifunctional chorismate mutase-PDH (TyrA) enzymes such as those seen in Escherichia coli do not contain an ACT domain. Also included in this CD is the N-terminal ACT domain of a novel protein composed almost entirely of two tandem A
Probab=38.35 E-value=95 Score=19.04 Aligned_cols=42 Identities=10% Similarity=0.242 Sum_probs=28.4
Q ss_pred HHHHHHHhcCC-CeEEEEEcccCCCCCcceEEEEEEccHHHHHHHH
Q 022930 30 DDLFPLFEKYG-KVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAV 74 (290)
Q Consensus 30 ~~L~~~F~~~G-~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al 74 (290)
.+|..+|.+.| .|..+.+... ....++..+.+.+.+.|.+++
T Consensus 13 ~~i~~~l~~~~inI~~~~~~~~---~~~~~~~~~~v~~~~~a~~~l 55 (56)
T cd04889 13 AEVTEILAEAGINIKAISIAET---RGEFGILRLIFSDPERAKEVL 55 (56)
T ss_pred HHHHHHHHHcCCCEeeEEEEEc---cCCcEEEEEEECCHHHHHHHh
Confidence 45667787776 7777766533 234567788888877777665
No 260
>TIGR01062 parC_Gneg DNA topoisomerase IV, A subunit, proteobacterial. Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason.
Probab=38.25 E-value=1.8e+02 Score=29.27 Aligned_cols=47 Identities=9% Similarity=0.096 Sum_probs=28.6
Q ss_pred EEEEcCCCCCCCHHHHHHHHhcC---CCeEEEEEcccCCCCCcceEEEEEE
Q 022930 17 SLLVLNITFRTTADDLFPLFEKY---GKVVDVFIPRDRRTGDSRGFAFVRY 64 (290)
Q Consensus 17 ~l~V~nL~~~~t~~~L~~~F~~~---G~I~~v~i~~d~~tg~~~g~afV~F 64 (290)
+|.|+-||+.++.+.|.+..... +.+..|.=+.| ++....|+.||..
T Consensus 247 ~ivItelP~~v~~~~~~e~i~~~~~~kk~~~i~d~~D-es~~~~~vr~vi~ 296 (735)
T TIGR01062 247 QIVISALPHQISKSKVIEQIAIQMKDKKLPMISDIRD-ESDHENPIRVVIV 296 (735)
T ss_pred eEEEEeCCCcccHHHHHHHHHHHHhcCCCcceeehhh-cCCCcCcEEEEEE
Confidence 69999999999988876654322 22222322334 3444456777754
No 261
>PF07876 Dabb: Stress responsive A/B Barrel Domain; InterPro: IPR013097 The stress-response A/B barrel domain is found in a class of stress-response proteins in plants. It is also found in some bacterial fructose-bisphosphate aldolase such as at the C terminus of a fructose 1,6-bisphosphate aldolase from Hydrogenophilus thermoluteolus (Q9ZA13 from SWISSPROT) []. Q93NG5 from SWISSPROT is found in the pA01 plasmid, which encodes genes for molybdopterin uptake and degradation of plant alkaloid nicotine. The stress-response A/B barrel domain forms a very stable dimer. This dimer belongs to the superfamily of dimeric alpha+beta barrels in which the two beta-sheets form a beta-barrel. The two molecules in the dimer are related by a 2-fold axis parallel to helix H1 and beta-strands B3 and B4. C-terminal residues extending from the beta4 strand of each monomer wrap around and connect with the beta2 strand and alpha1 helix of the opposing monomer to form the dimer interface [, , ].The outer surface of the beta-sheets of the two molecules forms a beta-barrel-like structure defining a central pore. The function of the stress-response A/B barrel domain is unknown [, , ], but it is upregulated in response to salt stress in Populus balsamifera (balsam poplar) []. Some proteins known to contain a stress response A/B barrel domain are listed below: - Arabidopsis thaliana At3g17210 - Arabidopsis thaliana At5g22580 -Populus tremula stable protein 1 (SP-1)(Populus species), a thermostable stress-responsive protein. - Pseudomonas hydrogenothermophila fructose 1,6-bisphosphate aldolase (cbbA). The structure of one of these proteins has been solved (Q9LUV2 from SWISSPROT) and the domain forms an alpha-beta barrel dimer [].; PDB: 3BB5_E 3FMB_A 3BDE_B 2QYC_A 1Q53_B 2Q3P_A 1Q4R_A 3BN7_A 3BGU_B 1RJJ_B ....
Probab=37.75 E-value=1.4e+02 Score=20.71 Aligned_cols=56 Identities=9% Similarity=0.216 Sum_probs=33.5
Q ss_pred EEEcCCCCCCCHHHHHHHH-------hcCCCeEEEEEcccCCCC---CcceEE-EEEEccHHHHHHH
Q 022930 18 LLVLNITFRTTADDLFPLF-------EKYGKVVDVFIPRDRRTG---DSRGFA-FVRYKYADEAQKA 73 (290)
Q Consensus 18 l~V~nL~~~~t~~~L~~~F-------~~~G~I~~v~i~~d~~tg---~~~g~a-fV~F~~~~~a~~A 73 (290)
|.+-.|.+.++++++.+++ .++..|..+.+-.+-... +.--+| +++|.+.++.+.-
T Consensus 4 ivlfklk~~~~~~~~~~~~~~l~~l~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~~~l~~Y 70 (97)
T PF07876_consen 4 IVLFKLKPDATEEEIEEVLEALRALKDKIPGIVSFEVGRNFSPEDLAKGYDHALVSTFESEEDLDAY 70 (97)
T ss_dssp EEEEEESTTTCHHHHHHHHHHHHHHHHHSTTECEEEEEEESSTSSTSTT-SEEEEEEESSHHHHHHH
T ss_pred EEEEEECCCCCHHHHHHHHHHHHhcccCCCceEEEEEEcccCcccccCCCcEEEEEEECCHHHHHHH
Confidence 4555788889988885544 345567777765543222 122344 6688888776543
No 262
>COG0002 ArgC Acetylglutamate semialdehyde dehydrogenase [Amino acid transport and metabolism]
Probab=37.74 E-value=58 Score=29.26 Aligned_cols=47 Identities=15% Similarity=0.218 Sum_probs=28.3
Q ss_pred CCCCCCCHHHHHHHHhc-CCCeEEEEEccc---CCCC--CcceEEEEEEccHH
Q 022930 22 NITFRTTADDLFPLFEK-YGKVVDVFIPRD---RRTG--DSRGFAFVRYKYAD 68 (290)
Q Consensus 22 nL~~~~t~~~L~~~F~~-~G~I~~v~i~~d---~~tg--~~~g~afV~F~~~~ 68 (290)
.|...++.++|.++|.+ |..-.-|+|+.. +.+. ....||.|-|...+
T Consensus 252 ~l~~~~t~~~i~~~y~~~Y~~epfVrv~~~~~~P~~k~V~GsN~cdIgf~~d~ 304 (349)
T COG0002 252 KLKDLVTLEELHAAYEEFYAGEPFVRVVPEGGYPDTKAVAGSNFCDIGFAVDE 304 (349)
T ss_pred ecCCCCCHHHHHHHHHHHhCCCCeEEEecCCCCCChhhhcCCcceEEEEEEcC
Confidence 34555899999999965 444345555542 2222 23457877777654
No 263
>PF04127 DFP: DNA / pantothenate metabolism flavoprotein; InterPro: IPR007085 This entry represents the C-terminal domain found in DNA/pantothenate metabolism flavoproteins, which affects synthesis of DNA and pantothenate metabolism. These proteins contain ATP, phosphopantothenate, and cysteine binding sites. The structure of this domain has been determined in human phosphopantothenoylcysteine (PPC) synthetase [] and as the PPC synthase domain (CoaB) from the Escherichia coli coenzyme A bifunctional protein CoaBC []. This domain adopts a 3-layer alpha/beta/alpha fold with mixed beta-sheets, which topologically resembles a combination of Rossmann-like and ribokinase-like folds. The structure of these proteins predicts a ping pong mechanism with initial formation of an acyladenylate intermediate, followed by release of pyrophosphate and attack by cysteine to form the final products PPC and AMP. ; PDB: 1U7W_A 1U7U_A 1U80_C 1U7Z_A 1P9O_B 2GK4_A.
Probab=37.45 E-value=86 Score=25.45 Aligned_cols=59 Identities=19% Similarity=0.202 Sum_probs=39.7
Q ss_pred EEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCC-CCcceEEEEEEccHHHHHHHHHHh
Q 022930 17 SLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRT-GDSRGFAFVRYKYADEAQKAVDRL 77 (290)
Q Consensus 17 ~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~t-g~~~g~afV~F~~~~~a~~Al~~l 77 (290)
.=||+|.+...+-..|-+.|...|- .|.++..+.+ ..+.++-+|.|.+.++...|+..+
T Consensus 20 VR~ItN~SSG~~G~~lA~~~~~~Ga--~V~li~g~~~~~~p~~~~~i~v~sa~em~~~~~~~ 79 (185)
T PF04127_consen 20 VRFITNRSSGKMGAALAEEAARRGA--EVTLIHGPSSLPPPPGVKVIRVESAEEMLEAVKEL 79 (185)
T ss_dssp SEEEEES--SHHHHHHHHHHHHTT---EEEEEE-TTS----TTEEEEE-SSHHHHHHHHHHH
T ss_pred ceEecCCCcCHHHHHHHHHHHHCCC--EEEEEecCccccccccceEEEecchhhhhhhhccc
Confidence 3589999999888899999988884 3444444322 225688999999999999888754
No 264
>cd04878 ACT_AHAS N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS). ACT_AHAS: N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS). AHAS catalyses the first common step in the biosynthesis of the three branched-chain amino acids. The first step involves the condensation of either pyruvate or 2-ketobutyrate with the two-carbon hydroxyethyl fragment derived from another pyruvate molecule, covalently bound to the coenzyme thiamine diphosphate. Bacterial AHASs generally consist of regulatory and catalytic subunits. The effector (valine) binding sites are proposed to be located in two symmetrically related positions in the interface between a pair of N-terminal ACT domains with the C-terminal domain of IlvH contacting the catalytic dimer. Plants Arabidopsis and Oryza have tandem IlvH subunits; both the first and second ACT domain sequences are present in this CD. Members of
Probab=37.22 E-value=1.1e+02 Score=19.34 Aligned_cols=50 Identities=12% Similarity=0.163 Sum_probs=25.8
Q ss_pred CHHHHHHHHhcCC-CeEEEEEcccCCCCCcceEEEEEEccH-HHHHHHHHHhCC
Q 022930 28 TADDLFPLFEKYG-KVVDVFIPRDRRTGDSRGFAFVRYKYA-DEAQKAVDRLDG 79 (290)
Q Consensus 28 t~~~L~~~F~~~G-~I~~v~i~~d~~tg~~~g~afV~F~~~-~~a~~Al~~l~g 79 (290)
.-.+|..+|.++| .|..+...... +......++.+... +....++..|..
T Consensus 13 ~l~~i~~~l~~~~~~i~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~l~~~l~~ 64 (72)
T cd04878 13 VLNRISGLFARRGFNIESLTVGPTE--DPGISRITIVVEGDDDVIEQIVKQLNK 64 (72)
T ss_pred HHHHHHHHHHhCCCCEEEEEeeecC--CCCeEEEEEEEECCHHHHHHHHHHHhC
Confidence 3457888898886 66666654321 11122234344322 445555555544
No 265
>cd04908 ACT_Bt0572_1 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains. Included in this CD is the N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains as seen in the uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related ACT domains. These tandem ACT domain proteins belong to the superfamily of ACT regulatory domains.
Probab=36.95 E-value=1.1e+02 Score=19.55 Aligned_cols=45 Identities=16% Similarity=0.262 Sum_probs=29.8
Q ss_pred HHHHHHHhcCC-CeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCC
Q 022930 30 DDLFPLFEKYG-KVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 30 ~~L~~~F~~~G-~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
.+|-++|.+.| .|.++.+... +. +++.-|.+.+.+.|.++|.. +|
T Consensus 16 a~v~~~l~~~~inI~~i~~~~~---~~-~~~~rl~~~~~~~~~~~L~~-~G 61 (66)
T cd04908 16 AAVTEILSEAGINIRALSIADT---SE-FGILRLIVSDPDKAKEALKE-AG 61 (66)
T ss_pred HHHHHHHHHCCCCEEEEEEEec---CC-CCEEEEEECCHHHHHHHHHH-CC
Confidence 57888888877 6777766432 22 46666677777777777763 45
No 266
>COG0318 CaiC Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]
Probab=36.84 E-value=2.5e+02 Score=26.71 Aligned_cols=81 Identities=12% Similarity=0.042 Sum_probs=52.3
Q ss_pred CCCHHHHHHHHhcCCCeEEEEEcccCCC-CCcceEEEEEEc-------cHHHHHHHHHHhCCccccccccceehhhhHHh
Q 022930 26 RTTADDLFPLFEKYGKVVDVFIPRDRRT-GDSRGFAFVRYK-------YADEAQKAVDRLDGLFLNFNFVHEILKSSLFL 97 (290)
Q Consensus 26 ~~t~~~L~~~F~~~G~I~~v~i~~d~~t-g~~~g~afV~F~-------~~~~a~~Al~~l~g~~~~~~~~~~~~~~~~~~ 97 (290)
++...+|+.++..+..|.++.++--+.. ......|||+-. +.++...++...-.
T Consensus 433 ni~p~eiE~~l~~~~~V~~aavvgvpd~~~Ge~~~a~v~~~~~~~~~~~~~~i~~~~~~~l~------------------ 494 (534)
T COG0318 433 NIYPEEIEAVLAEHPAVAEAAVVGVPDERWGERVVAVVVLKPGGDAELTAEELRAFLRKRLA------------------ 494 (534)
T ss_pred EECHHHHHHHHHhCCCcceEEEEeCCCCccCceEEEEEEEcCCCCCCCCHHHHHHHHHhhhh------------------
Confidence 6788999999999998888876654432 344568899886 44555555553111
Q ss_pred hhccccccCcceeEEEEeccCcccchhHHHHHh
Q 022930 98 RKNLYLCIGFLFFFLIFFILGRVVDGREITVQF 130 (290)
Q Consensus 98 ~~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f 130 (290)
....+...+||..||..-.|..++..+
T Consensus 495 ------~~~~P~~v~~v~~lP~t~sGKi~r~~l 521 (534)
T COG0318 495 ------LYKVPRIVVFVDELPRTASGKIDRRAL 521 (534)
T ss_pred ------cccCCeEEEEeCCCCCCCchhhhHHHH
Confidence 112234456778888887776655544
No 267
>KOG1999 consensus RNA polymerase II transcription elongation factor DSIF/SUPT5H/SPT5 [Transcription]
Probab=36.71 E-value=65 Score=32.88 Aligned_cols=34 Identities=9% Similarity=0.385 Sum_probs=28.3
Q ss_pred CcceEEEEEEccHHHHHHHHHHhCCccccccccce
Q 022930 55 DSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHE 89 (290)
Q Consensus 55 ~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~ 89 (290)
.-+||-|||-..+..+..||+-|-++.+. +++.|
T Consensus 208 ~lkGyIYIEA~KqshV~~Ai~gv~niy~~-~~~lV 241 (1024)
T KOG1999|consen 208 HLKGYIYIEADKQSHVKEAIEGVRNIYAN-RILLV 241 (1024)
T ss_pred ccceeEEEEechhHHHHHHHhhhhhheec-cEEEE
Confidence 34899999999999999999999998887 44433
No 268
>COG2061 ACT-domain-containing protein, predicted allosteric regulator of homoserine dehydrogenase [Amino acid transport and metabolism]
Probab=36.54 E-value=2.1e+02 Score=22.52 Aligned_cols=66 Identities=20% Similarity=0.224 Sum_probs=41.1
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhcCC--CeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCc
Q 022930 14 DTYSLLVLNITFRTTADDLFPLFEKYG--KVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGL 80 (290)
Q Consensus 14 ~~~~l~V~nL~~~~t~~~L~~~F~~~G--~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~ 80 (290)
...+|.||.|-.. +-+|-.+-....| .|.++.+.+.--.+.+...--+.+...+..++|+..|+..
T Consensus 87 ~~~vvLIGhiv~t-diqDTId~In~ig~A~vvDl~L~Mp~~e~~SsA~iti~a~~~e~l~ea~~~l~ev 154 (170)
T COG2061 87 KTDVVLIGHIVHT-DIQDTIDRINSIGGAEVVDLSLSMPGIEGESSARITIIAVGKEKLDEALRRLKEV 154 (170)
T ss_pred eEeEEEEEeeecC-cHHHHHHHhhccCCEEEEEEEeecCCCCCCcceeEEEEEcChhHHHHHHHHHHHH
Confidence 3457888887543 3333334444555 7888877655445555433444556788999999988773
No 269
>TIGR00755 ksgA dimethyladenosine transferase. Alternate name: S-adenosylmethionine--6-N',N'-adenosyl (rRNA) dimethyltransferase
Probab=36.29 E-value=39 Score=28.75 Aligned_cols=24 Identities=25% Similarity=0.364 Sum_probs=20.4
Q ss_pred EEEEcCCCCCCCHHHHHHHHhcCC
Q 022930 17 SLLVLNITFRTTADDLFPLFEKYG 40 (290)
Q Consensus 17 ~l~V~nL~~~~t~~~L~~~F~~~G 40 (290)
-++|+|||+.++...|..++..+|
T Consensus 96 ~~vvsNlPy~i~~~il~~ll~~~~ 119 (253)
T TIGR00755 96 LKVVSNLPYNISSPLIFKLLEKPK 119 (253)
T ss_pred ceEEEcCChhhHHHHHHHHhccCC
Confidence 388999999999999999987444
No 270
>COG0858 RbfA Ribosome-binding factor A [Translation, ribosomal structure and biogenesis]
Probab=36.25 E-value=64 Score=24.13 Aligned_cols=35 Identities=20% Similarity=0.237 Sum_probs=19.7
Q ss_pred CCCeEEEEEcccCCCCCcceEE--EEEEc--cHHHHHHHHHHhCC
Q 022930 39 YGKVVDVFIPRDRRTGDSRGFA--FVRYK--YADEAQKAVDRLDG 79 (290)
Q Consensus 39 ~G~I~~v~i~~d~~tg~~~g~a--fV~F~--~~~~a~~Al~~l~g 79 (290)
.+.|+.|.|-.| ..+| ||.+- +..+.+.++.+|+.
T Consensus 33 ~~~Vt~V~vS~D------l~~A~Vyvt~l~~~~~~~~~~~~~L~~ 71 (118)
T COG0858 33 LVTVTDVEVSKD------LSHAKVYVTVLGDEESSKAEILAALNK 71 (118)
T ss_pred ceEEEEEEEcCC------CceEEEEEEecCCchhhHHHHHHHHHH
Confidence 344788888776 4455 55542 33345555555554
No 271
>PF00276 Ribosomal_L23: Ribosomal protein L23; InterPro: IPR013025 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This domain is found in both eukaryotic L25 and prokaryotic and eukaryotic L23 proteins.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3DF4_T 3DF2_T 4A1E_R 4A1A_R 4A1C_R 4A17_R 2HGU_W 2HGQ_W 1N88_A 2HGJ_W ....
Probab=36.20 E-value=28 Score=24.63 Aligned_cols=51 Identities=27% Similarity=0.260 Sum_probs=32.6
Q ss_pred EEEcCCCCCCCHHHHHHHHhc-CC-CeEEEEEcccCC----CCCc------ceEEEEEEccHH
Q 022930 18 LLVLNITFRTTADDLFPLFEK-YG-KVVDVFIPRDRR----TGDS------RGFAFVRYKYAD 68 (290)
Q Consensus 18 l~V~nL~~~~t~~~L~~~F~~-~G-~I~~v~i~~d~~----tg~~------~g~afV~F~~~~ 68 (290)
.|+-.++..+|..||+++|++ || +|..|..+.-+. .|.. .--|||++...+
T Consensus 22 ~~tF~V~~~atK~~Ik~aie~iy~V~V~~Vnt~~~~gk~kR~g~~~g~~~~~KKaiVtL~~~~ 84 (91)
T PF00276_consen 22 QYTFEVDPRATKTEIKEAIEKIYGVKVKKVNTMNYPGKKKRKGKFVGKTKDYKKAIVTLKEGD 84 (91)
T ss_dssp EEEEEETTTSTHHHHHHHHHHHHTSEEEEEEEEEETSEEEESSSCEEEE-EEEEEEEEESTTS
T ss_pred EEEEEEeCCCCHHHHHHHHHhhcCCCeeEEEEeEeCCCceEeCCccccCCCcEEEEEEeCCCC
Confidence 556667889999999999975 66 566665443220 1211 125899988763
No 272
>COG0217 Uncharacterized conserved protein [Function unknown]
Probab=36.13 E-value=1.1e+02 Score=26.03 Aligned_cols=56 Identities=27% Similarity=0.235 Sum_probs=36.8
Q ss_pred CcEEEEcCCCCCC--CHHHHHHHHhcCCC----eEEEEEcccCCCCCcceEEEEEEc--cHHHHHHHHH
Q 022930 15 TYSLLVLNITFRT--TADDLFPLFEKYGK----VVDVFIPRDRRTGDSRGFAFVRYK--YADEAQKAVD 75 (290)
Q Consensus 15 ~~~l~V~nL~~~~--t~~~L~~~F~~~G~----I~~v~i~~d~~tg~~~g~afV~F~--~~~~a~~Al~ 75 (290)
+.-|+|--|..+. |..+|+..|.++|- --+|.++.+. +|+..|.=. +.++...|+-
T Consensus 94 GvaiiVe~LTDN~NRTas~vR~~F~K~GG~lg~~GSV~~mF~~-----kGvi~~~~~~~~ed~l~e~~i 157 (241)
T COG0217 94 GVAIIVEALTDNRNRTASNVRSAFNKNGGNLGEPGSVSYMFDR-----KGVIVVEKNEIDEDELLEAAI 157 (241)
T ss_pred ceEEEEEeccCCcchhHHHHHHHHHhcCCccCCCceEEEEEec-----cEEEEECCCCCCHHHHHHHHH
Confidence 3558888887664 67899999998763 2357777775 555555443 5555555443
No 273
>PRK11863 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional
Probab=36.07 E-value=1e+02 Score=27.34 Aligned_cols=33 Identities=18% Similarity=0.163 Sum_probs=23.3
Q ss_pred cEEEEcC--CCCCCCHHHHHHHHh-cCCCeEEEEEc
Q 022930 16 YSLLVLN--ITFRTTADDLFPLFE-KYGKVVDVFIP 48 (290)
Q Consensus 16 ~~l~V~n--L~~~~t~~~L~~~F~-~~G~I~~v~i~ 48 (290)
.||||.- |...++.++|.++|. .|+.=..|.|.
T Consensus 210 ~Ti~~~~~~~~~~~~~~~i~~~~~~~Y~~epfV~v~ 245 (313)
T PRK11863 210 VTVPLHLRLLPGGPTAEDLHAALADHYAGEAFVRVA 245 (313)
T ss_pred EEEEEEecccCCCCCHHHHHHHHHHHcCCCCeEEEe
Confidence 5678765 678899999999996 45544445553
No 274
>KOG3671 consensus Actin regulatory protein (Wiskott-Aldrich syndrome protein) [Signal transduction mechanisms; Cytoskeleton]
Probab=35.81 E-value=72 Score=30.03 Aligned_cols=49 Identities=18% Similarity=0.125 Sum_probs=32.4
Q ss_pred CCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCC
Q 022930 26 RTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 26 ~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
-|.+++|++-|..+-.-..++-.. | ..|+|=+.|.++++|+++++++..
T Consensus 89 liWdqELY~nf~y~q~r~ffhtFe----g-ddc~aGLnF~~E~EA~~F~k~V~~ 137 (569)
T KOG3671|consen 89 LIWDQELYQNFEYRQPRTFFHTFE----G-DDCQAGLNFASEEEAQKFRKKVQD 137 (569)
T ss_pred eeehHHhhhhceeccCccceeeec----c-ccceeeecccCHHHHHHHHHHHHH
Confidence 366788888887665333222111 1 145777889999999999887665
No 275
>PF05189 RTC_insert: RNA 3'-terminal phosphate cyclase (RTC), insert domain; InterPro: IPR013796 RNA cyclases are a family of RNA-modifying enzymes that are conserved in eukaryotes, bacteria and archaea. RNA 3'-terminal phosphate cyclase (6.5.1.4 from EC) [, ] catalyses the conversion of 3'-phosphate to a 2',3'-cyclic phosphodiester at the end of RNA. ATP + RNA 3'-terminal-phosphate = AMP + diphosphate + RNA terminal-2',3'-cyclic-phosphate These enzymes might be responsible for production of the cyclic phosphate RNA ends that are known to be required by many RNA ligases in both prokaryotes and eukaryotes. RNA cyclase is a protein of from 36 to 42 kDa. The best conserved region is a glycine-rich stretch of residues located in the central part of the sequence and which is reminiscent of various ATP, GTP or AMP glycine-rich loops. The crystal structure of RNA 3'-terminal phosphate cyclase shows that each molecule consists of two domains. The larger domain contains three repeats of a folding unit comprising two parallel alpha helices and a four-stranded beta sheet; this fold was previously identified in translation initiation factor 3 (IF3). The large domain is similar to one of the two domains of 5-enolpyruvylshikimate-3-phosphate synthase and UDP-N-acetylglucosamine enolpyruvyl transferase. The smaller domain uses a similar secondary structure element with different topology, observed in many other proteins such as thioredoxin []. Although the active site of this enzyme could not be unambiguously assigned, it can be mapped to a region surrounding His309, an adenylate acceptor, in which a number of amino acids are highly conserved in the enzyme from different sources []. This entry contains the insert-domain of approximately 100 amino acids.; PDB: 3TV1_B 3KGD_D 1QMI_D 1QMH_B 3TUX_A 3TUT_A 3TW3_A 3PQV_A.
Probab=35.68 E-value=57 Score=23.47 Aligned_cols=49 Identities=10% Similarity=0.028 Sum_probs=29.2
Q ss_pred EEEEcCCCCCCCHHHHH---HHHhcCCCeEEEEE--cccCCCCCcceEEEEEEc
Q 022930 17 SLLVLNITFRTTADDLF---PLFEKYGKVVDVFI--PRDRRTGDSRGFAFVRYK 65 (290)
Q Consensus 17 ~l~V~nL~~~~t~~~L~---~~F~~~G~I~~v~i--~~d~~tg~~~g~afV~F~ 65 (290)
..|+.|||..+-+.++. .+|..++.-..|.+ ......+...|++.+.+.
T Consensus 12 ~a~~a~lp~~va~R~~~~a~~~L~~~~~~v~i~~d~~~~~~~~~~~G~gi~l~a 65 (103)
T PF05189_consen 12 IAFVAGLPSSVAERMANAARKRLNWYGPDVEIETDYRESDDSAFGPGSGISLVA 65 (103)
T ss_dssp EEEEESS-CHHHHHHHHHHHHHHCTTCSEEEEEEEEE-CCCCGCSSEEEEEEEE
T ss_pred EEEEcCCCHHHHHHHHHHHHHHhhhhCCCeEEEEecccCccCCCCCceEEEEEE
Confidence 36899999999887665 55666664444443 222345666777755444
No 276
>PF14270 DUF4358: Domain of unknown function (DUF4358)
Probab=35.53 E-value=80 Score=22.84 Aligned_cols=53 Identities=17% Similarity=0.102 Sum_probs=31.3
Q ss_pred CCHHHHHHHHhc-CCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCC
Q 022930 27 TTADDLFPLFEK-YGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 27 ~t~~~L~~~F~~-~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
++.++|..+|.- -..+..+.+.........--++.|+..+..+++.+..+|+.
T Consensus 15 ~d~~~l~~~ygi~~~~~~~~~~~~s~~~~~~~ei~v~k~kd~~~~e~Vk~~l~~ 68 (106)
T PF14270_consen 15 FDDDMLKKLYGIDSDDYEDYVIYMSMSNMSADEIAVFKAKDGKQAEDVKKALEK 68 (106)
T ss_pred ccHHHHHHHhCCCHHHhceEEEEeccccCCccEEEEEEECCcCcHHHHHHHHHH
Confidence 455666666531 22556665555443455667899999877755555554444
No 277
>PLN02968 Probable N-acetyl-gamma-glutamyl-phosphate reductase
Probab=35.44 E-value=58 Score=29.82 Aligned_cols=32 Identities=22% Similarity=0.190 Sum_probs=23.4
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhc-CCCeEEEEEc
Q 022930 16 YSLLVLNITFRTTADDLFPLFEK-YGKVVDVFIP 48 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~L~~~F~~-~G~I~~v~i~ 48 (290)
.+||| .|...++.++|.++|.+ |..+..|.+.
T Consensus 279 ~tv~v-~~~~~~~~~~v~~~~~~~y~~~~fV~~~ 311 (381)
T PLN02968 279 STVYV-HYAPGVTAEDLHQHLKERYEGEEFVKVL 311 (381)
T ss_pred EEEEE-EeCCCCCHHHHHHHHHHhCCCCCEEEeC
Confidence 34555 35667899999999988 6777677664
No 278
>PRK08279 long-chain-acyl-CoA synthetase; Validated
Probab=35.40 E-value=2.3e+02 Score=27.17 Aligned_cols=41 Identities=10% Similarity=0.076 Sum_probs=27.1
Q ss_pred CCCCHHHHHHHHhcCCCeEEEEEcc--cCCCCCcceEEEEEEc
Q 022930 25 FRTTADDLFPLFEKYGKVVDVFIPR--DRRTGDSRGFAFVRYK 65 (290)
Q Consensus 25 ~~~t~~~L~~~F~~~G~I~~v~i~~--d~~tg~~~g~afV~F~ 65 (290)
..+...+|++.+.++..|..+.++. +...+...+.++|.+.
T Consensus 470 ~~i~p~eIE~~l~~~p~V~~a~v~gv~~~~~~~~~~~~~vv~~ 512 (600)
T PRK08279 470 ENVATTEVENALSGFPGVEEAVVYGVEVPGTDGRAGMAAIVLA 512 (600)
T ss_pred cccCHHHHHHHHhcCCCcceEEEEEeecCCCCCccceeEEEec
Confidence 3678899999999998898876642 2222233456666654
No 279
>PF09383 NIL: NIL domain; InterPro: IPR018449 This domain is found at the C terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins. This domain is likely to act as a substrate binding domain. The domain has been named after a conserved sequence in some members of the family. ; PDB: 2QRR_A 3CED_A 2QSW_A 3TUZ_D 3TUJ_D 3DHX_B 3TUI_H 3DHW_D.
Probab=35.39 E-value=1.1e+02 Score=20.35 Aligned_cols=53 Identities=17% Similarity=0.211 Sum_probs=33.2
Q ss_pred CCCCHHHHHHHHhcCCCe---EEEEEcccCCCCCcceEEEEEEc-cHHHHHHHHHHhCC
Q 022930 25 FRTTADDLFPLFEKYGKV---VDVFIPRDRRTGDSRGFAFVRYK-YADEAQKAVDRLDG 79 (290)
Q Consensus 25 ~~~t~~~L~~~F~~~G~I---~~v~i~~d~~tg~~~g~afV~F~-~~~~a~~Al~~l~g 79 (290)
..+++..|.++...||-- ..-.| +...+..-|.-+|++. +.++.++|+..|..
T Consensus 12 ~~~~~piis~l~~~~~v~~nIl~g~i--~~i~~~~~G~l~l~l~g~~~~~~~a~~~L~~ 68 (76)
T PF09383_consen 12 NSAQEPIISQLIREFGVDVNILHGNI--EEIQGTPFGILILELPGDDEEIEKAIAYLRE 68 (76)
T ss_dssp CSSSSCHHHHHHHHHT-EEEEEEEEE--EEETTEEEEEEEEEEES-HHHHHHHHHHHHH
T ss_pred CCcCchHHHHHHHHhCCCEEEEEEEe--EEcCCeeEEEEEEEEECCHHHHHHHHHHHHH
Confidence 356667778888888733 22222 2234666788899995 44556788887765
No 280
>PF00521 DNA_topoisoIV: DNA gyrase/topoisomerase IV, subunit A; InterPro: IPR002205 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils []. Type IIA topoisomerases together manage chromosome integrity and topology in cells. Topoisomerase II (called gyrase in bacteria) primarily introduces negative supercoils into DNA. In bacteria, topoisomerase II consists of two polypeptide subunits, gyrA and gyrB, which form a heterotetramer: (BA)2. In most eukaryotes, topoisomerase II consists of a single polypeptide, where the N- and C-terminal regions correspond to gyrB and gyrA, respectively; this topoisomerase II forms a homodimer that is equivalent to the bacterial heterotetramer. There are four functional domains in topoisomerase II: domain 1 (N-terminal of gyrB) is an ATPase, domain 2 (C-terminal of gyrB) is responsible for subunit interactions (differs between eukaryotic and bacterial enzymes), domain 3 (N-terminal of gyrA) is responsible for the breaking-rejoining function through its capacity to form protein-DNA bridges, and domain 4 (C-terminal of gyrA) is able to non-specifically bind DNA []. Topoisomerase IV primarily decatenates DNA and relaxes positive supercoils, which is important in bacteria, where the circular chromosome becomes catenated, or linked, during replication []. Topoisomerase IV consists of two polypeptide subunits, parE and parC, where parC is homologous to gyrA and parE is homologous to gyrB. This entry represents subunit A (gyrA and parC) of bacterial gyrase and topoisomerase IV, and the equivalent C-terminal region in eukaryotic topoisomerase II composed of a single polypeptide. This subunit has DNA-binding capacity. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0005524 ATP binding, 0006265 DNA topological change, 0005694 chromosome; PDB: 1ZVU_A 1AB4_A 1X75_A 3NUH_A 1BJT_A 1BGW_A 2RGR_A 3KSB_B 3FOE_B 2NOV_C ....
Probab=35.36 E-value=40 Score=31.35 Aligned_cols=95 Identities=16% Similarity=0.181 Sum_probs=48.4
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhc---CCCeEEEEEcccCCCCCcceEEEE-EEccHHHHHHHHHHhCCccccccccceeh
Q 022930 16 YSLLVLNITFRTTADDLFPLFEK---YGKVVDVFIPRDRRTGDSRGFAFV-RYKYADEAQKAVDRLDGLFLNFNFVHEIL 91 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~L~~~F~~---~G~I~~v~i~~d~~tg~~~g~afV-~F~~~~~a~~Al~~l~g~~~~~~~~~~~~ 91 (290)
.+|.|+-||+.++.+++.+.+.. -|.|. |.=+.|. +.. |+.|| ++....+++..++.|-.
T Consensus 217 ~~i~ITELP~~~~t~~~~e~i~~l~~~~~i~-I~d~~D~-Sd~--~v~ivI~lk~~~~~~~~~~~L~k------------ 280 (426)
T PF00521_consen 217 NTIVITELPYGVWTEKYKEKIEELVEDKKIK-ISDYRDE-SDR--GVRIVIELKRGADPEKILEGLYK------------ 280 (426)
T ss_dssp EEEEEEE--TT--HHHHHHHHHHHHHTTSST-EEEEEE--BBT--BS-EEEEESTTSHHHHHHHHHHH------------
T ss_pred cEEEEEeCCccccHHHHHHHHHHHhccCcch-hhHHHhc-CCC--ceeEEEEecCCccHHHHHHHHHH------------
Confidence 68999999999988887776643 36666 5445553 444 67765 44443344444443222
Q ss_pred hhhHHhhhccccccCcceeEEEEeccCcccchhHHHHHhhcc
Q 022930 92 KSSLFLRKNLYLCIGFLFFFLIFFILGRVVDGREITVQFAKY 133 (290)
Q Consensus 92 ~~~~~~~~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~ 133 (290)
.-.+......+.+.||-++ |...+-.+|...|..+
T Consensus 281 ------~t~Lq~s~~~n~~~l~~~~-p~~~~~~eIL~~f~~~ 315 (426)
T PF00521_consen 281 ------KTKLQSSISTNNMVLFDNG-PKYDSLKEILKEFYEF 315 (426)
T ss_dssp ------HSTTEEEEEEETEEEETTE-EEESSHHHHHHHHHHH
T ss_pred ------HhhhhccccchheEEecCc-ceeCCHHHHHHHHHHH
Confidence 1112222233333344442 6666667777776553
No 281
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=35.30 E-value=24 Score=29.41 Aligned_cols=31 Identities=16% Similarity=0.022 Sum_probs=27.1
Q ss_pred cceeEEEEeccCcccchhHHHHHhhccCCch
Q 022930 107 FLFFFLIFFILGRVVDGREITVQFAKYGPNA 137 (290)
Q Consensus 107 ~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~~ 137 (290)
....+||||+|-.++++..|...|-+||.+.
T Consensus 8 ~~KrtlYVGGladeVtekvLhaAFIPFGDI~ 38 (298)
T KOG0111|consen 8 NQKRTLYVGGLADEVTEKVLHAAFIPFGDIK 38 (298)
T ss_pred ccceeEEeccchHHHHHHHHHhccccccchh
Confidence 3456799999999999999999999998754
No 282
>COG2004 RPS24A Ribosomal protein S24E [Translation, ribosomal structure and biogenesis]
Probab=35.00 E-value=1.8e+02 Score=21.40 Aligned_cols=47 Identities=17% Similarity=0.283 Sum_probs=26.4
Q ss_pred CCCCHHHHHHHH-hcCCCeEEEEEcccC----CCCCcceEEEEEEccHHHHHH
Q 022930 25 FRTTADDLFPLF-EKYGKVVDVFIPRDR----RTGDSRGFAFVRYKYADEAQK 72 (290)
Q Consensus 25 ~~~t~~~L~~~F-~~~G~I~~v~i~~d~----~tg~~~g~afV~F~~~~~a~~ 72 (290)
.+.+..+|++.+ +.+|.=.++.++..- ..+.++|||-| |.+.+.|..
T Consensus 30 ~TPSr~evrekla~~l~~d~e~VvV~~ikt~fG~~~s~g~akI-Y~s~e~~~~ 81 (107)
T COG2004 30 PTPSRKEVREKLAAMLGADKELVVVDYIKTEFGKGRSKGYAKI-YDSVERAKK 81 (107)
T ss_pred CCCCHHHHHHHHHHHHCCCcceEEEEehhhhcCCcceeEEEEE-ECCHHHHHh
Confidence 455677888766 456633333333222 23567777777 666665543
No 283
>KOG2836 consensus Protein tyrosine phosphatase IVA1 [Signal transduction mechanisms]
Probab=34.46 E-value=1.3e+02 Score=23.25 Aligned_cols=48 Identities=17% Similarity=0.306 Sum_probs=34.8
Q ss_pred CCCCCCCCCCCCC-CCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEc
Q 022930 1 MSHFGKSGPPDIR-DTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIP 48 (290)
Q Consensus 1 m~~~~~~~~~~~~-~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~ 48 (290)
|+.+.++.|.++. .+....|+.-|.++|-....+.+++||.-+-|.++
T Consensus 1 ~a~mnrPAPveIsy~~MrFLIThnPtnaTln~fieELkKygvttvVRVC 49 (173)
T KOG2836|consen 1 SARMNRPAPVEISYKNMRFLITHNPTNATLNKFIEELKKYGVTTVVRVC 49 (173)
T ss_pred CCcccCCCCeeeeccceEEEEecCCCchhHHHHHHHHHhcCCeEEEEec
Confidence 5566655554432 45678899999999999999999999965555553
No 284
>PTZ00338 dimethyladenosine transferase-like protein; Provisional
Probab=34.46 E-value=42 Score=29.46 Aligned_cols=24 Identities=17% Similarity=0.353 Sum_probs=19.9
Q ss_pred EEEEcCCCCCCCHHHHHHHHhcCC
Q 022930 17 SLLVLNITFRTTADDLFPLFEKYG 40 (290)
Q Consensus 17 ~l~V~nL~~~~t~~~L~~~F~~~G 40 (290)
.+.|+|||++++...|..++....
T Consensus 103 d~VvaNlPY~Istpil~~ll~~~~ 126 (294)
T PTZ00338 103 DVCVANVPYQISSPLVFKLLAHRP 126 (294)
T ss_pred CEEEecCCcccCcHHHHHHHhcCC
Confidence 478999999999999888886533
No 285
>PF14581 SseB_C: SseB protein C-terminal domain
Probab=34.23 E-value=46 Score=24.11 Aligned_cols=53 Identities=11% Similarity=0.075 Sum_probs=31.5
Q ss_pred CCcEEEEcCCCCCCC--HHHHHHHHhcCCCeEEEEEcccCCCCCcceEE-EEEEcc
Q 022930 14 DTYSLLVLNITFRTT--ADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFA-FVRYKY 66 (290)
Q Consensus 14 ~~~~l~V~nL~~~~t--~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~a-fV~F~~ 66 (290)
.+..|.|+-.....+ .+.|.++|.+.+.|..+.|..-...+....|. -|+|..
T Consensus 4 ~g~~v~l~~P~~~p~~l~~aL~~~~~~~~~V~~Ayl~~~~~~~~~~~~li~vd~~~ 59 (108)
T PF14581_consen 4 KGEKVLLGEPEEEPTDLLAALSEYFKQHKNVRAAYLALMQDEDEQPSLLIGVDFDG 59 (108)
T ss_pred CCCEEEecCCccCHHHHHHHHHHHHhhCccHHHhHHHHhhccCCCceEEEEEeccC
Confidence 345677764433333 36788899999999877665443333334444 456655
No 286
>cd06405 PB1_Mekk2_3 The PB1 domain is present in the two mitogen-activated protein kinase kinases MEKK2 and MEKK3 which are two members of the signaling kinase cascade involved in angiogenesis and early cardiovascular development. The PB1 domain of MEKK2 (and/or MEKK3) interacts with the PB1 domain of another member of the kinase cascade Map2k5. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, f
Probab=34.11 E-value=1.5e+02 Score=20.18 Aligned_cols=50 Identities=16% Similarity=0.288 Sum_probs=38.0
Q ss_pred CCCCCCCHHHHHHHH-hcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCC
Q 022930 22 NITFRTTADDLFPLF-EKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 22 nL~~~~t~~~L~~~F-~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
.+|--+.-+||..-. ..||.-..+....+ --.|-..+.+|...|++.++.
T Consensus 15 ~f~RPvkf~dl~~kv~~afGq~mdl~ytn~--------eL~iPl~~Q~DLDkAie~ld~ 65 (79)
T cd06405 15 QFPRPVKFKDLQQKVTTAFGQPMDLHYTNN--------ELLIPLKNQEDLDRAIELLDR 65 (79)
T ss_pred ecCCCccHHHHHHHHHHHhCCeeeEEEecc--------cEEEeccCHHHHHHHHHHHcc
Confidence 456667777776555 67898777766543 267889999999999998876
No 287
>PF12623 Hen1_L: RNA repair, ligase-Pnkp-associating, region of Hen1; InterPro: IPR024740 This entry represents the N-terminal domain of the bacterial Hen1 protein, which is a 3' terminal RNA ribose 2'-O-methyltransferase that is involved in bacterial RNA repair []. Hen1 forms a heterotetramer with Pnkp. The heterotetramer has been shown to repair transfer RNAs cleaved by ribotoxins in vitro []. The N-terminal domain of Hen1 contributes to the ligase activity of the heterotetramer.
Probab=33.93 E-value=98 Score=26.08 Aligned_cols=59 Identities=22% Similarity=0.283 Sum_probs=40.8
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhcCC-CeEEEEEcccCC---CCCcceEEEEEEccHHHHHHHHH
Q 022930 16 YSLLVLNITFRTTADDLFPLFEKYG-KVVDVFIPRDRR---TGDSRGFAFVRYKYADEAQKAVD 75 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~L~~~F~~~G-~I~~v~i~~d~~---tg~~~g~afV~F~~~~~a~~Al~ 75 (290)
-+|-|.-||-.-.++-++.+|+..| +|.-..+..|.. -|.+. |..|...-..-...||.
T Consensus 119 L~v~~p~lp~rGg~~l~~rLFePLGw~V~a~~~~Ld~~fP~WG~S~-y~~l~L~g~~rl~daL~ 181 (245)
T PF12623_consen 119 LEVRLPALPCRGGEELVRRLFEPLGWTVTAEPVPLDEQFPEWGDSR-YVDLTLTGTVRLADALN 181 (245)
T ss_pred eEEEeeeeecCCcHHHHHHhhcCcCceEEeEeccCCccCccccCCc-ceEEEEeeeEEHHHHHh
Confidence 4688888998889999999999999 444444554432 24444 77787776555555544
No 288
>PF14111 DUF4283: Domain of unknown function (DUF4283)
Probab=33.68 E-value=44 Score=25.64 Aligned_cols=33 Identities=12% Similarity=0.107 Sum_probs=27.7
Q ss_pred EEEEcCCCCC-CCHHHHHHHHhcCCCeEEEEEcc
Q 022930 17 SLLVLNITFR-TTADDLFPLFEKYGKVVDVFIPR 49 (290)
Q Consensus 17 ~l~V~nL~~~-~t~~~L~~~F~~~G~I~~v~i~~ 49 (290)
-|.|.|||.. ++++-|..+.+.+|++..++...
T Consensus 106 WVri~glP~~~~~~~~~~~i~~~iG~~i~vD~~t 139 (153)
T PF14111_consen 106 WVRIYGLPLHLWSEEILKAIGSKIGEPIEVDENT 139 (153)
T ss_pred hhhhccCCHHHhhhHHHHHHHHhcCCeEEEEcCC
Confidence 3667799998 68888899999999999988754
No 289
>KOG0862 consensus Synaptobrevin/VAMP-like protein SEC22 [Intracellular trafficking, secretion, and vesicular transport]
Probab=33.67 E-value=27 Score=28.95 Aligned_cols=13 Identities=31% Similarity=0.626 Sum_probs=10.2
Q ss_pred CcceEEEEEEccH
Q 022930 55 DSRGFAFVRYKYA 67 (290)
Q Consensus 55 ~~~g~afV~F~~~ 67 (290)
..+.||||+|.+-
T Consensus 107 ~~RPY~FieFD~~ 119 (216)
T KOG0862|consen 107 ASRPYAFIEFDTF 119 (216)
T ss_pred cCCCeeEEehhHH
Confidence 3466999999975
No 290
>PF06014 DUF910: Bacterial protein of unknown function (DUF910); InterPro: IPR009256 This family consists of several short bacterial proteins of unknown function.; PDB: 2NN4_A.
Probab=33.45 E-value=27 Score=22.83 Aligned_cols=16 Identities=25% Similarity=0.482 Sum_probs=10.2
Q ss_pred HHHHHHHHhcCCCeEE
Q 022930 29 ADDLFPLFEKYGKVVD 44 (290)
Q Consensus 29 ~~~L~~~F~~~G~I~~ 44 (290)
--||.+++.+||.|..
T Consensus 4 lyDVqQLLK~fG~~IY 19 (62)
T PF06014_consen 4 LYDVQQLLKKFGIIIY 19 (62)
T ss_dssp HHHHHHHHHTTS----
T ss_pred HHHHHHHHHHCCEEEE
Confidence 3578999999997654
No 291
>COG5353 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.32 E-value=2e+02 Score=22.51 Aligned_cols=54 Identities=15% Similarity=0.259 Sum_probs=38.3
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhcC---CCeEEEEEcccCCC---------CCcce-EEEEEEccHHH
Q 022930 16 YSLLVLNITFRTTADDLFPLFEKY---GKVVDVFIPRDRRT---------GDSRG-FAFVRYKYADE 69 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~L~~~F~~~---G~I~~v~i~~d~~t---------g~~~g-~afV~F~~~~~ 69 (290)
..|++..+...+++++..+...+- ++|..|.|-...++ ...+. |-+|.|++-..
T Consensus 88 ~KI~~k~asqGISe~~a~~~i~kE~~~~e~~~V~Lg~e~~~PiWEV~y~dkeg~~s~~~vdFetG~~ 154 (161)
T COG5353 88 GKIYSKKASQGISEEDARAIISKEKAVKEIKSVTLGREKEKPIWEVTYLDKEGRLSFYYVDFETGKE 154 (161)
T ss_pred CeEEEEehhcCCCHHHHHHHHhhhccccceeEEEEEeeCCceeEEEeecCccCcceEEEEEeccchh
Confidence 679999999999999998888653 56777776543322 12233 88999987543
No 292
>KOG3432 consensus Vacuolar H+-ATPase V1 sector, subunit F [Energy production and conversion]
Probab=33.26 E-value=62 Score=23.75 Aligned_cols=22 Identities=18% Similarity=0.338 Sum_probs=17.0
Q ss_pred CCCCCHHHHHHHHhcCCCeEEE
Q 022930 24 TFRTTADDLFPLFEKYGKVVDV 45 (290)
Q Consensus 24 ~~~~t~~~L~~~F~~~G~I~~v 45 (290)
...+|.++|.+.|..|-.=..+
T Consensus 42 ~~~Tt~~eiedaF~~f~~RdDI 63 (121)
T KOG3432|consen 42 DSKTTVEEIEDAFKSFTARDDI 63 (121)
T ss_pred eccCCHHHHHHHHHhhccccCe
Confidence 3489999999999999654333
No 293
>PTZ00237 acetyl-CoA synthetase; Provisional
Probab=33.16 E-value=1.9e+02 Score=28.27 Aligned_cols=41 Identities=7% Similarity=-0.096 Sum_probs=28.9
Q ss_pred CCCCHHHHHHHHhcCCCeEEEEEcccCCC-CCcceEEEEEEc
Q 022930 25 FRTTADDLFPLFEKYGKVVDVFIPRDRRT-GDSRGFAFVRYK 65 (290)
Q Consensus 25 ~~~t~~~L~~~F~~~G~I~~v~i~~d~~t-g~~~g~afV~F~ 65 (290)
..+...+|++.+..+..|.++.++-.+.. ....-.|||...
T Consensus 523 ~rI~p~eIE~~l~~~p~V~eaavvg~~~~~~g~~~~a~Vv~~ 564 (647)
T PTZ00237 523 NKVQLNTIETSILKHPLVLECCSIGIYDPDCYNVPIGLLVLK 564 (647)
T ss_pred EEeCHHHHHHHHHhCCCceeeEEEeeEcCCCCCEEEEEEEec
Confidence 36788999999999999988877643322 122346788876
No 294
>KOG4840 consensus Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]
Probab=33.00 E-value=60 Score=27.43 Aligned_cols=68 Identities=4% Similarity=0.026 Sum_probs=35.1
Q ss_pred CCcEEEEcCCCCCCC----HHHHHHHHhcCC-CeEEEEEcccCCCCCcceEEEE-EEccHHHHHHHHHHhCCccccccc
Q 022930 14 DTYSLLVLNITFRTT----ADDLFPLFEKYG-KVVDVFIPRDRRTGDSRGFAFV-RYKYADEAQKAVDRLDGLFLNFNF 86 (290)
Q Consensus 14 ~~~~l~V~nL~~~~t----~~~L~~~F~~~G-~I~~v~i~~d~~tg~~~g~afV-~F~~~~~a~~Al~~l~g~~~~~~~ 86 (290)
....||||+|...+- .+.|-..+.+.+ .|+.+.+-. ...||+.- .=.+.++...+|+.+.+..+....
T Consensus 36 ~~~vvfiGGLgdgLl~~~y~~~L~~~lde~~wslVq~q~~S-----sy~G~Gt~slk~D~edl~~l~~Hi~~~~fSt~v 109 (299)
T KOG4840|consen 36 SVKVVFIGGLGDGLLICLYTTMLNRYLDENSWSLVQPQLRS-----SYNGYGTFSLKDDVEDLKCLLEHIQLCGFSTDV 109 (299)
T ss_pred EEEEEEEcccCCCccccccHHHHHHHHhhccceeeeeeccc-----cccccccccccccHHHHHHHHHHhhccCcccce
Confidence 346799999876532 234444444433 333333322 22455532 233667777777766654443333
No 295
>KOG0829 consensus 60S ribosomal protein L18A [Translation, ribosomal structure and biogenesis]
Probab=32.91 E-value=78 Score=24.77 Aligned_cols=78 Identities=14% Similarity=0.204 Sum_probs=47.2
Q ss_pred CCCCCCCCCCCcEEEEcCC--CCC-CCHHH-------HHHHHhcCCCeEEEEEcccCCCCCcceEE-EEEEccHHHHHHH
Q 022930 5 GKSGPPDIRDTYSLLVLNI--TFR-TTADD-------LFPLFEKYGKVVDVFIPRDRRTGDSRGFA-FVRYKYADEAQKA 73 (290)
Q Consensus 5 ~~~~~~~~~~~~~l~V~nL--~~~-~t~~~-------L~~~F~~~G~I~~v~i~~d~~tg~~~g~a-fV~F~~~~~a~~A 73 (290)
|...|.+..+...||+..| +.+ +...- |..+=..-|+|..|.-+..+.-..-+.|| ++.|.+......+
T Consensus 7 Gr~lPTe~~p~p~l~~m~ifa~N~V~AKsrfwyfl~~l~KvKks~Geiv~i~qi~E~~p~~vkNfGIwlrYdSRsG~HNm 86 (169)
T KOG0829|consen 7 GRALPTEKEPTPKLYRMRIFAPNHVVAKSRFWYFLSKLKKVKKSSGEIVAINQIFEKSPLKVKNFGIWLRYDSRSGTHNM 86 (169)
T ss_pred eeecCCCCCCCCceEEEEEeccceeehhHHHHHHHHHHHHHhhcCceEEEeceecCCCCceeeeeEEEEEEccCCcchHH
Confidence 4445666666667887766 112 22222 22233346999999888777667778888 6778776665555
Q ss_pred HHHhCCccc
Q 022930 74 VDRLDGLFL 82 (290)
Q Consensus 74 l~~l~g~~~ 82 (290)
...+.....
T Consensus 87 YkEyRd~t~ 95 (169)
T KOG0829|consen 87 YKEYRDTTR 95 (169)
T ss_pred HHHHHHhhh
Confidence 554444333
No 296
>TIGR01873 cas_CT1978 CRISPR-associated endoribonuclease Cas2, E. coli subfamily. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This model represents a minor branch of the Cas2 family of CRISPR-associated endonuclease, whereas most Cas2 proteins are modeled instead by TIGR01573. This form of Cas2 is characteristic for the Ecoli subtype of CRISPR/Cas locus.
Probab=32.62 E-value=29 Score=24.42 Aligned_cols=46 Identities=13% Similarity=0.231 Sum_probs=25.3
Q ss_pred EEEEcCCCCCCCHHHHHHHHhcC--CCeEEEEEcccCCCCCcceEEEEEEcc
Q 022930 17 SLLVLNITFRTTADDLFPLFEKY--GKVVDVFIPRDRRTGDSRGFAFVRYKY 66 (290)
Q Consensus 17 ~l~V~nL~~~~t~~~L~~~F~~~--G~I~~v~i~~d~~tg~~~g~afV~F~~ 66 (290)
-||||+++..+-+. |.+...+. ++- .+.|+.. +....||+|-.+-+
T Consensus 27 GVyVg~~s~rVRe~-lW~~v~~~~~~~G-~avm~~~--~~~e~G~~~~t~G~ 74 (87)
T TIGR01873 27 GVYVGGVSASVRER-IWDYLAQHCPPKG-SLVITWS--SNTCPGFEFFTLGE 74 (87)
T ss_pred CcEEcCCCHHHHHH-HHHHHHHhCCCCc-cEEEEEe--CCCCCCcEEEecCC
Confidence 49999998887654 33333332 322 2222221 22346899887765
No 297
>KOG2187 consensus tRNA uracil-5-methyltransferase and related tRNA-modifying enzymes [Translation, ribosomal structure and biogenesis]
Probab=32.59 E-value=50 Score=31.30 Aligned_cols=35 Identities=26% Similarity=0.449 Sum_probs=29.9
Q ss_pred ceEEEEEEccHHHHHHHHHHhCCccccccccceeh
Q 022930 57 RGFAFVRYKYADEAQKAVDRLDGLFLNFNFVHEIL 91 (290)
Q Consensus 57 ~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~~~~ 91 (290)
..||++.|+++..+.+|+..++|....+..+.++.
T Consensus 63 ~~~~~~~~et~~~~~ka~~~v~g~~~k~~~~~~~~ 97 (534)
T KOG2187|consen 63 PKYAYVTFETPSDAGKAINLVDGLLYKGFILRVQL 97 (534)
T ss_pred CCceEEEEeccchhhhHHHHHhhhhhhcchhhhhh
Confidence 46999999999999999999999888777666543
No 298
>PF12829 Mhr1: Transcriptional regulation of mitochondrial recombination; InterPro: IPR024629 These proteins are involved in regulation of RNA polymerase II-dependent transcription. They are also involved in regulation of mitochondrial DNA recombination, maintenance, repair, and generation of homoplasmic cells [, , , ].
Probab=32.50 E-value=1.2e+02 Score=21.62 Aligned_cols=53 Identities=17% Similarity=0.148 Sum_probs=33.9
Q ss_pred CCCCCCHHHHHHHHhcCCCe-EEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCC
Q 022930 23 ITFRTTADDLFPLFEKYGKV-VDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 23 L~~~~t~~~L~~~F~~~G~I-~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
+.+.++...|...|-.-|.- +-..+-.| .=+.+|.|.|.+.+.+..|.+.|-.
T Consensus 20 ~~p~l~~~~i~~Q~~~~gkk~~pp~lRkD----~W~pm~vv~f~~~~~g~~~yq~Lre 73 (91)
T PF12829_consen 20 QTPNLDNNQILKQFPFPGKKNKPPSLRKD----YWRPMCVVNFPNYEVGVSAYQKLRE 73 (91)
T ss_pred cCcccChhHHHHhccCCCcccCCchhccc----cceEeEEEECCChHHHHHHHHHHHH
Confidence 45667777777666655531 11111111 1145999999999999999887665
No 299
>PF04026 SpoVG: SpoVG; InterPro: IPR007170 This is a stage V sporulation protein G. It is essential for sporulation and specific to stage V sporulation in Bacillus megaterium and Bacillus subtilis []. In B. subtilis, expression decreases after 30-60 minutes of cold shock [].; GO: 0030435 sporulation resulting in formation of a cellular spore; PDB: 2IA9_F 2I9X_B 2I9Z_A.
Probab=32.33 E-value=79 Score=22.07 Aligned_cols=26 Identities=31% Similarity=0.429 Sum_probs=20.0
Q ss_pred CeEEEEEcccCCCCCcceEEEEEEcc
Q 022930 41 KVVDVFIPRDRRTGDSRGFAFVRYKY 66 (290)
Q Consensus 41 ~I~~v~i~~d~~tg~~~g~afV~F~~ 66 (290)
+|++|.|..-...|..+|||=|.|.+
T Consensus 2 ~itdVri~~~~~~~~lka~asV~~dd 27 (84)
T PF04026_consen 2 KITDVRIRKIEPEGKLKAFASVTFDD 27 (84)
T ss_dssp -EEEEEEEETTSSSSEEEEEEEEETT
T ss_pred ccEEEEEEEecCCCCEEEEEEEEECC
Confidence 47778776655558999999999986
No 300
>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed
Probab=32.13 E-value=50 Score=28.49 Aligned_cols=22 Identities=32% Similarity=0.462 Sum_probs=18.6
Q ss_pred EEEEcCCCCCCCHHHHHHHHhc
Q 022930 17 SLLVLNITFRTTADDLFPLFEK 38 (290)
Q Consensus 17 ~l~V~nL~~~~t~~~L~~~F~~ 38 (290)
.++|+|||+.++..-|..++..
T Consensus 107 ~~vv~NlPY~iss~ii~~~l~~ 128 (272)
T PRK00274 107 LKVVANLPYNITTPLLFHLLEE 128 (272)
T ss_pred ceEEEeCCccchHHHHHHHHhc
Confidence 5789999999998888888754
No 301
>PF15063 TC1: Thyroid cancer protein 1
Probab=32.01 E-value=30 Score=23.54 Aligned_cols=53 Identities=23% Similarity=0.134 Sum_probs=35.8
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhcCCCeE---EEEEcccCCCCCcceEEEEEEccHHHHHHHHHHh
Q 022930 13 RDTYSLLVLNITFRTTADDLFPLFEKYGKVV---DVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRL 77 (290)
Q Consensus 13 ~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~---~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l 77 (290)
....+--+.||=.+++..+|..||..-|... .++|+. -...++++...||..|
T Consensus 23 t~~RKkasaNIFe~vn~~qlqrLF~~sGD~kAEeRA~iI~------------~~~~d~ee~a~AL~~L 78 (79)
T PF15063_consen 23 TASRKKASANIFENVNLDQLQRLFQKSGDKKAEERARIIW------------ECAQDPEEKARALMAL 78 (79)
T ss_pred hHHhhhhhhhhhhccCHHHHHHHHHHccchhHHHHHHHHH------------hhCCCHHHHHHHHHhc
Confidence 3445566789989999999999999999753 233332 2234666666666654
No 302
>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=31.90 E-value=50 Score=23.79 Aligned_cols=24 Identities=0% Similarity=-0.129 Sum_probs=21.1
Q ss_pred eEEEEeccCcccchhHHHHHhhcc
Q 022930 110 FFLIFFILGRVVDGREITVQFAKY 133 (290)
Q Consensus 110 ~~l~v~~l~~~~~~~~l~~~f~~~ 133 (290)
++|.|.|||..++..+|..++...
T Consensus 2 TTvMirNIPn~~t~~~L~~~l~~~ 25 (97)
T PF04059_consen 2 TTVMIRNIPNKYTQEMLIQILDEH 25 (97)
T ss_pred eeEEEecCCCCCCHHHHHHHHHHh
Confidence 579999999999999998888764
No 303
>PRK12378 hypothetical protein; Provisional
Probab=31.64 E-value=3.2e+02 Score=23.15 Aligned_cols=53 Identities=21% Similarity=0.174 Sum_probs=33.7
Q ss_pred CcEEEEcCCCCCC--CHHHHHHHHhcCCC-e---EEEEEcccCCCCCcceEEEEEEccHHHHHH
Q 022930 15 TYSLLVLNITFRT--TADDLFPLFEKYGK-V---VDVFIPRDRRTGDSRGFAFVRYKYADEAQK 72 (290)
Q Consensus 15 ~~~l~V~nL~~~~--t~~~L~~~F~~~G~-I---~~v~i~~d~~tg~~~g~afV~F~~~~~a~~ 72 (290)
+..|+|--|..+. |..+|+.+|.++|- + -.|.++.+. +|+..|...+.+++..
T Consensus 91 GvaiiVe~lTDN~nRt~~~vr~~f~K~gg~l~~~gsv~~~Fe~-----kG~i~i~~~~~d~~~e 149 (235)
T PRK12378 91 GVMVIVECLTDNVNRTVANVRSAFNKNGGNLGTSGSVAFMFDH-----KGVFVFEGDDEDELLE 149 (235)
T ss_pred CcEEEEEECCCCHHHHHHHHHHHHhhcCCeECCCCceeeeeec-----ceEEEeCCCCHHHHHH
Confidence 4567888787765 66899999999864 2 246666654 5554444345455444
No 304
>PRK09188 serine/threonine protein kinase; Provisional
Probab=31.28 E-value=2.3e+02 Score=25.71 Aligned_cols=51 Identities=14% Similarity=-0.037 Sum_probs=31.4
Q ss_pred CCcEEEEcCCC-----CCCCHHHHHHHHhcCCCeEEEEEcccC-CCCCcceEEEEEEc
Q 022930 14 DTYSLLVLNIT-----FRTTADDLFPLFEKYGKVVDVFIPRDR-RTGDSRGFAFVRYK 65 (290)
Q Consensus 14 ~~~~l~V~nL~-----~~~t~~~L~~~F~~~G~I~~v~i~~d~-~tg~~~g~afV~F~ 65 (290)
++.-.|++-+. .++... |+.++.++..|.+|-++.-+ ......-.|||...
T Consensus 223 dG~l~~~gR~~~G~~i~nV~p~-IE~~L~~hp~V~eaaVvgvpd~~~ge~v~A~Vv~~ 279 (365)
T PRK09188 223 RGLFSWSDGEGTGDRIDNEAPA-IQAALKSDPAVSDVAIALFSLPAKGVGLYAFVEAE 279 (365)
T ss_pred CCeEEEEecCcCCcCceeeCHH-HHHHHHhCCCccEEEEEEEEcCCCCeEEEEEEEEC
Confidence 34444445444 356777 99999999989877665322 12223457888765
No 305
>PF11491 DUF3213: Protein of unknown function (DUF3213) ; InterPro: IPR021583 The backbone structure of this family of proteins has been determined however the function remains unknown. The protein has an alpha and beta structure with a ferredoxin-like fold []. ; PDB: 2F40_A.
Probab=31.19 E-value=1.3e+02 Score=20.96 Aligned_cols=64 Identities=22% Similarity=0.176 Sum_probs=23.8
Q ss_pred EEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccH----HHHHHHHHHhCCccccccccc
Q 022930 18 LLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYA----DEAQKAVDRLDGLFLNFNFVH 88 (290)
Q Consensus 18 l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~----~~a~~Al~~l~g~~~~~~~~~ 88 (290)
|-+|+|.+.-.. .++-.+.+-..|..|.|. |-.+ .|||.|... +....+++.|....+..+.|.
T Consensus 3 lkfg~It~eeA~-~~QYeLsk~~~vyRvFiN-----gYar-~g~VifDe~kl~~e~lL~~le~~kpEVi~ek~lT 70 (88)
T PF11491_consen 3 LKFGNITPEEAM-VKQYELSKNEAVYRVFIN-----GYAR-NGFVIFDESKLSKEELLEMLEEFKPEVIEEKELT 70 (88)
T ss_dssp EE--S-TTTTTH-HHHHTTTTTTTB-----------TTSS---EEE--B-S-SHHHH---HHHTTT-SS------
T ss_pred cccCCCCHHHHH-HHHHHhhcccceeeeeec-----cccc-ceEEEECcccCCHHHHHHHHHhcChhheeecccc
Confidence 455777655322 233335666777777763 2222 689999854 778888888888555554444
No 306
>PF07045 DUF1330: Protein of unknown function (DUF1330); InterPro: IPR010753 This family consists of several hypothetical bacterial proteins of around 90 residues in length. The function of this family is unknown.; PDB: 2FIU_B 3HHL_A 3DCA_D 3LO3_I.
Probab=29.79 E-value=1.2e+02 Score=19.59 Aligned_cols=42 Identities=19% Similarity=0.358 Sum_probs=24.7
Q ss_pred HHHHHhcCC-CeEE----EEEcccCCCCCcceEEEEEEccHHHHHHHHH
Q 022930 32 LFPLFEKYG-KVVD----VFIPRDRRTGDSRGFAFVRYKYADEAQKAVD 75 (290)
Q Consensus 32 L~~~F~~~G-~I~~----v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~ 75 (290)
+..++.+|| +|.. ..++.. .....-...|+|.+.+.|..++.
T Consensus 11 ~~~~l~~~GG~~l~~~~~~~~leG--~~~~~~~viieFPs~~aa~~~~~ 57 (65)
T PF07045_consen 11 VPPILEKYGGRVLARGGEPEVLEG--DWDPDRVVIIEFPSMEAAKAWYN 57 (65)
T ss_dssp HHHHHHHTT-EEEEECEEEEEEES--T-SSSEEEEEEESSHHHHHHHHC
T ss_pred HHHHHHHcCCEEEEECCceeEEec--CCCCCeEEEEECCCHHHHHHHHC
Confidence 456677777 3321 222222 12335578999999998887653
No 307
>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A.
Probab=29.79 E-value=1.7e+02 Score=19.46 Aligned_cols=63 Identities=13% Similarity=0.144 Sum_probs=39.7
Q ss_pred EEEEcCCCCCCCHHHHHHHHhcCC-CeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCC
Q 022930 17 SLLVLNITFRTTADDLFPLFEKYG-KVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 17 ~l~V~nL~~~~t~~~L~~~F~~~G-~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
+|.|......---.+|...|...| .|..+.+......+......-|+..+.+.....|..|..
T Consensus 8 ~l~i~~~dr~GlL~dI~~~i~~~~~nI~~i~~~~~~~~~~~~~~l~v~V~d~~~L~~ii~~L~~ 71 (80)
T PF13291_consen 8 RLRIEAEDRPGLLADITSVISENGVNIRSINARTNKDDGTARITLTVEVKDLEHLNQIIRKLRQ 71 (80)
T ss_dssp EEEEEEE--TTHHHHHHHHHHCSSSEEEEEEEEE--ETTEEEEEEEEEESSHHHHHHHHHHHCT
T ss_pred EEEEEEEcCCCHHHHHHHHHHHCCCCeEEEEeEEeccCCEEEEEEEEEECCHHHHHHHHHHHHC
Confidence 344444333334567888888776 788887765422344445556677788888888888776
No 308
>PLN02805 D-lactate dehydrogenase [cytochrome]
Probab=29.74 E-value=1.6e+02 Score=28.47 Aligned_cols=50 Identities=14% Similarity=0.131 Sum_probs=35.7
Q ss_pred CHHHHHHHH----hcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhC
Q 022930 28 TADDLFPLF----EKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLD 78 (290)
Q Consensus 28 t~~~L~~~F----~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~ 78 (290)
+--+|..+| ..||-|+++.|...+. .....++++.|.+.++|..|+..+.
T Consensus 279 ~g~dL~~l~~GseGtLGIIT~~tlrl~p~-P~~~~~~~~~f~~~~~a~~av~~i~ 332 (555)
T PLN02805 279 AGYDLTRLVIGSEGTLGVITEVTLRLQKI-PQHSVVAMCNFPTIKDAADVAIATM 332 (555)
T ss_pred CCccHHHHhccCCCceEEEEEEEEEeecC-CcceEEEEEEcCCHHHHHHHHHHHH
Confidence 335777777 3578888888765432 3345578999999999999887654
No 309
>TIGR01033 DNA-binding regulatory protein, YebC/PmpR family. This model describes a minimally characterized protein family, restricted to bacteria excepting for some eukaryotic sequences that have possible transit peptides. YebC from E. coli is crystallized, and PA0964 from Pseudomonas aeruginosa has been shown to be a sequence-specific DNA-binding regulatory protein.
Probab=29.56 E-value=1.7e+02 Score=24.82 Aligned_cols=44 Identities=20% Similarity=0.157 Sum_probs=29.9
Q ss_pred CcEEEEcCCCCCC--CHHHHHHHHhcCCCe----EEEEEcccCCCCCcceEEEEEEc
Q 022930 15 TYSLLVLNITFRT--TADDLFPLFEKYGKV----VDVFIPRDRRTGDSRGFAFVRYK 65 (290)
Q Consensus 15 ~~~l~V~nL~~~~--t~~~L~~~F~~~G~I----~~v~i~~d~~tg~~~g~afV~F~ 65 (290)
+..|+|--|..+. |..+|+.+|.++|-. -.|.++.+. .|+|.|.
T Consensus 94 GvaiiVe~lTDN~nRt~~~ir~~f~K~gg~l~~~gsv~~~Fe~-------kG~i~~~ 143 (238)
T TIGR01033 94 GVAIIVECLTDNKNRTASEVRSAFNKNGGSLGEPGSVSYLFSR-------KGVIEVP 143 (238)
T ss_pred ceEEEEEEecCCHHhHHHHHHHHHHHcCCeeCCCCceeeeeec-------ceEEEEC
Confidence 4567777777664 668999999998743 235555553 5667774
No 310
>KOG2287 consensus Galactosyltransferases [Carbohydrate transport and metabolism]
Probab=29.53 E-value=1.2e+02 Score=27.33 Aligned_cols=57 Identities=12% Similarity=0.094 Sum_probs=39.1
Q ss_pred CCcEEEEcCCCCCCC--HHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhC
Q 022930 14 DTYSLLVLNITFRTT--ADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLD 78 (290)
Q Consensus 14 ~~~~l~V~nL~~~~t--~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~ 78 (290)
....+|+-+++.... ..+|.+.-..||.|..+.++-. |--+.|++..-..-+.....
T Consensus 128 ~v~~~FLvG~~~~~~~~~~~l~~Ea~~ygDIi~~df~Dt--------y~nltlKtl~~l~w~~~~cp 186 (349)
T KOG2287|consen 128 RVRVLFLVGLPSNEDKLNKLLADEARLYGDIIQVDFEDT--------YFNLTLKTLAILLWGVSKCP 186 (349)
T ss_pred cEEEEEEecCCCcHHHHHHHHHHHHHHhCCEEEEecccc--------hhchHHHHHHHHHHHHhcCC
Confidence 457789988887765 5777888889999988887643 55566665555555444333
No 311
>PF01842 ACT: ACT domain; InterPro: IPR002912 The ACT domain is found in a variety of contexts and is proposed to be a conserved regulatory binding fold. ACT domains are linked to a wide range of metabolic enzymes that are regulated by amino acid concentration. The archetypical ACT domain is the C-terminal regulatory domain of 3-phosphoglycerate dehydrogenase (3PGDH), which folds with a ferredoxin-like topology. A pair of ACT domains form an eight-stranded antiparallel sheet with two molecules of allosteric inhibitor serine bound in the interface. Biochemical exploration of a few other proteins containing ACT domains supports the suggestions that these domains contain the archetypical ACT structure [].; GO: 0016597 amino acid binding, 0008152 metabolic process; PDB: 3L76_B 2F06_B 3NRB_C 1Y7P_C 2QMX_A 2DT9_A 2ZHO_D 3K5P_A 3TVI_K 3C1M_C ....
Probab=29.44 E-value=1.5e+02 Score=18.51 Aligned_cols=45 Identities=16% Similarity=0.333 Sum_probs=25.5
Q ss_pred HHHHHHHhcCC-CeEEEEEcccCCCCCcceEEEEEEc-cHHHHHHHHHHh
Q 022930 30 DDLFPLFEKYG-KVVDVFIPRDRRTGDSRGFAFVRYK-YADEAQKAVDRL 77 (290)
Q Consensus 30 ~~L~~~F~~~G-~I~~v~i~~d~~tg~~~g~afV~F~-~~~~a~~Al~~l 77 (290)
.+|..+|...| .|..+.+...... .+++|+.+. +..++..+++.|
T Consensus 15 ~~v~~~la~~~inI~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~l 61 (66)
T PF01842_consen 15 ADVTEILADHGINIDSISQSSDKDG---VGIVFIVIVVDEEDLEKLLEEL 61 (66)
T ss_dssp HHHHHHHHHTTEEEEEEEEEEESST---TEEEEEEEEEEGHGHHHHHHHH
T ss_pred HHHHHHHHHcCCCHHHeEEEecCCC---ceEEEEEEECCCCCHHHHHHHH
Confidence 56778888887 6677766555321 344544443 444555555544
No 312
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=29.42 E-value=50 Score=28.06 Aligned_cols=31 Identities=13% Similarity=0.051 Sum_probs=27.6
Q ss_pred cceeEEEEeccCcccchhHHHHHhhccCCch
Q 022930 107 FLFFFLIFFILGRVVDGREITVQFAKYGPNA 137 (290)
Q Consensus 107 ~~~~~l~v~~l~~~~~~~~l~~~f~~~g~~~ 137 (290)
....+|-|.||+..+.+.+|.++|-+||+..
T Consensus 187 ~D~~tvRvtNLsed~~E~dL~eLf~~fg~i~ 217 (270)
T KOG0122|consen 187 DDEATVRVTNLSEDMREDDLEELFRPFGPIT 217 (270)
T ss_pred CccceeEEecCccccChhHHHHHhhccCccc
Confidence 3567799999999999999999999999864
No 313
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=29.29 E-value=4.8e+02 Score=25.71 Aligned_cols=65 Identities=2% Similarity=-0.060 Sum_probs=43.4
Q ss_pred CcEEEEc-CCCCCCCHHHHHHHHhcCCCe-----EEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccccccc
Q 022930 15 TYSLLVL-NITFRTTADDLFPLFEKYGKV-----VDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFNFVH 88 (290)
Q Consensus 15 ~~~l~V~-nL~~~~t~~~L~~~F~~~G~I-----~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~~~~ 88 (290)
+.++||. +=...++..+|..++..-+.| -.|.|.. .|.||+... ..|...+..|++..+.++.|.
T Consensus 486 ~~~~~~~~g~~~~~~~~~~~~~i~~~~~~~~~~ig~i~i~~--------~~s~v~~~~-~~~~~~~~~~~~~~~~~~~~~ 556 (629)
T PRK11634 486 MQLYRIEVGRDDGVEVRHIVGAIANEGDISSRYIGNIKLFA--------SHSTIELPK-GMPGEVLQHFTRTRILNKPMN 556 (629)
T ss_pred CEEEEEecccccCCCHHHHHHHHHhhcCCChhhCCcEEEeC--------CceEEEcCh-hhHHHHHHHhccccccCCceE
Confidence 3445553 334568899999888765544 4566653 389999875 457888888999555555544
No 314
>PRK05561 DNA topoisomerase IV subunit A; Validated
Probab=29.28 E-value=1.1e+02 Score=30.67 Aligned_cols=50 Identities=10% Similarity=0.207 Sum_probs=30.9
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhc---CCCeEEEEEcccCCCCCcceEEEEEEc
Q 022930 15 TYSLLVLNITFRTTADDLFPLFEK---YGKVVDVFIPRDRRTGDSRGFAFVRYK 65 (290)
Q Consensus 15 ~~~l~V~nL~~~~t~~~L~~~F~~---~G~I~~v~i~~d~~tg~~~g~afV~F~ 65 (290)
..+|.|+-||+.++.+.|.+.+.. -+.|..|.=+.| ++....|+.||..-
T Consensus 258 ~~~i~itEiP~~~~~~~~~~~i~~l~~~~~~~~i~~~~d-~s~~~~~~r~~i~~ 310 (742)
T PRK05561 258 RWQIVITELPYQVSKAKLIEQIAELMNAKKLPGIADVRD-ESDRENPVRIVIEP 310 (742)
T ss_pred CceEEEEeCCCcccHHHHHHHHHHHHhcCCcccccccee-ccCCCCCEEEEEEE
Confidence 357999999999998888776543 234444443444 23333337776543
No 315
>PF13193 AMP-binding_C: AMP-binding enzyme C-terminal domain; PDB: 3L8C_B 2VSQ_A 3R44_A 3RG2_B 3A9U_A 3A9V_A 3NI2_A 1V26_B 1ULT_B 1V25_B ....
Probab=29.24 E-value=1.7e+02 Score=19.13 Aligned_cols=34 Identities=15% Similarity=0.104 Sum_probs=23.6
Q ss_pred HHHHHHhcCCCeEEEEEcccCCC-CCcceEEEEEE
Q 022930 31 DLFPLFEKYGKVVDVFIPRDRRT-GDSRGFAFVRY 64 (290)
Q Consensus 31 ~L~~~F~~~G~I~~v~i~~d~~t-g~~~g~afV~F 64 (290)
+|+..+.++..|.+|.++..+.. ....-+|||..
T Consensus 1 EIE~~l~~~~~V~~~~V~~~~d~~~g~~l~a~vv~ 35 (73)
T PF13193_consen 1 EIESVLRQHPGVAEAAVVGVPDEDWGERLVAFVVL 35 (73)
T ss_dssp HHHHHHHTSTTEEEEEEEEEEETTTEEEEEEEEEE
T ss_pred CHHHHHhcCCCccEEEEEEEEcccccccceeEEEe
Confidence 57888899988988876544322 22455889988
No 316
>cd04903 ACT_LSD C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit. The C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit, found in various bacterial anaerobes such as Clostridium, Bacillis, and Treponema species. These enzymes catalyze the deamination of L-serine, producing pyruvate and ammonia. Unlike the eukaryotic L-serine dehydratase, which requires the pyridoxal-5'-phosphate (PLP) cofactor, the prokaryotic L-serine dehydratase contains an [4Fe-4S] cluster instead of a PLP active site. The LSD alpha and beta subunits of the 'clostridial' enzyme are encoded by the sdhA and sdhB genes. The single subunit bacterial homologs of L-serine dehydratase (LSD1, LSD2, TdcG) present in Escherichia coli, and other enterobacterials, lack the ACT domain described here. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=29.12 E-value=1.5e+02 Score=18.57 Aligned_cols=50 Identities=4% Similarity=0.180 Sum_probs=25.9
Q ss_pred CHHHHHHHHhcCC-CeEEEEEcccCCCCCcceEEEEEEccH--HHHHHHHHHhCC
Q 022930 28 TADDLFPLFEKYG-KVVDVFIPRDRRTGDSRGFAFVRYKYA--DEAQKAVDRLDG 79 (290)
Q Consensus 28 t~~~L~~~F~~~G-~I~~v~i~~d~~tg~~~g~afV~F~~~--~~a~~Al~~l~g 79 (290)
.-.+|..+|.++| .|..+.+... .+...++..|...+. +++..+|..+.|
T Consensus 12 ~l~~i~~~l~~~~~~I~~~~~~~~--~~~~~~~i~i~v~~~~~~~~i~~l~~~~~ 64 (71)
T cd04903 12 AIAKVTSVLADHEINIAFMRVSRK--EKGDQALMVIEVDQPIDEEVIEEIKKIPN 64 (71)
T ss_pred hHHHHHHHHHHcCcCeeeeEEEec--cCCCeEEEEEEeCCCCCHHHHHHHHcCCC
Confidence 4567888888876 6666655321 122233444555543 334444444444
No 317
>PF15407 Spo7_2_N: Sporulation protein family 7
Probab=28.51 E-value=23 Score=23.62 Aligned_cols=24 Identities=8% Similarity=-0.021 Sum_probs=17.6
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhc
Q 022930 15 TYSLLVLNITFRTTADDLFPLFEK 38 (290)
Q Consensus 15 ~~~l~V~nL~~~~t~~~L~~~F~~ 38 (290)
+..||||+||..|-.+.=..++..
T Consensus 27 Sr~vflG~IP~~W~~~~~~~~~k~ 50 (67)
T PF15407_consen 27 SRRVFLGPIPEIWLQDHRKSWYKS 50 (67)
T ss_pred CceEEECCCChHHHHcCcchHHHH
Confidence 578999999998877655444443
No 318
>PF13820 Nucleic_acid_bd: Putative nucleic acid-binding region
Probab=28.47 E-value=97 Score=24.25 Aligned_cols=60 Identities=13% Similarity=0.174 Sum_probs=34.5
Q ss_pred cEEEEcCCCCC-CCHHHHHHHHhc-CCCe-EEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCC
Q 022930 16 YSLLVLNITFR-TTADDLFPLFEK-YGKV-VDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 16 ~~l~V~nL~~~-~t~~~L~~~F~~-~G~I-~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
..+|+|+|... .+-++|+..+.. |+.. ..+.+-. -..-+-+.|+|.-+.+|..-|..|-.
T Consensus 5 fla~~G~l~~~~~~ld~i~~~l~~L~~~~~~~l~~~~----~~~~~sv~V~f~ipreaa~~Lr~LA~ 67 (149)
T PF13820_consen 5 FLAYIGGLRMFQYKLDDIKNWLASLYKPRISDLKVRK----VEPWNSVRVTFSIPREAATRLRQLAQ 67 (149)
T ss_pred EEEEECChhhhHHHHHHHHHHHHHHHhcccccceeec----cccCceEEEEEechHHHHHHHHHHhh
Confidence 34677888611 233455555543 3322 2232211 12245799999999999888876654
No 319
>smart00650 rADc Ribosomal RNA adenine dimethylases.
Probab=28.46 E-value=75 Score=24.98 Aligned_cols=23 Identities=26% Similarity=0.349 Sum_probs=19.0
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhc
Q 022930 16 YSLLVLNITFRTTADDLFPLFEK 38 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~L~~~F~~ 38 (290)
.-++|+|+|++++.+.|..++..
T Consensus 78 ~d~vi~n~Py~~~~~~i~~~l~~ 100 (169)
T smart00650 78 PYKVVGNLPYNISTPILFKLLEE 100 (169)
T ss_pred CCEEEECCCcccHHHHHHHHHhc
Confidence 45789999999998888888764
No 320
>PF11910 NdhO: Cyanobacterial and plant NDH-1 subunit O; InterPro: IPR020905 NAD(P)H-quinone oxidoreductase (NDH-1) shuttles electrons from an unknown electron donor, via FMN and iron-sulphur (Fe-S) centres, to quinones in the respiratory and/or the photosynthetic chain. The immediate electron acceptor for the enzyme in this species is believed to be plastoquinone. It couples the redox reaction to proton translocation, and thus conserves the redox energy in a proton gradient. Cyanobacterial NDH-1 also plays a role in inorganic carbon-concentration. NDH-1 can be composed of about 15 different subunits, although different subcomplexes with different compositions have been identified which probably have different functions. This entry represents subunit O. ; GO: 0016655 oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor, 0055114 oxidation-reduction process, 0005886 plasma membrane
Probab=28.15 E-value=47 Score=21.85 Aligned_cols=22 Identities=36% Similarity=0.690 Sum_probs=16.1
Q ss_pred HHhcCCCeEEEEEcccCCCCCcceEEEEEEcc
Q 022930 35 LFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKY 66 (290)
Q Consensus 35 ~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~ 66 (290)
+|+.-|+|..++ - -||+|.|.-
T Consensus 31 ife~~GEvl~ik--g--------dYa~vr~~~ 52 (67)
T PF11910_consen 31 IFEGPGEVLDIK--G--------DYAQVRFRV 52 (67)
T ss_pred eecCCCeEEEec--C--------CEEEEEecC
Confidence 578889887654 2 299999954
No 321
>PRK09631 DNA topoisomerase IV subunit A; Provisional
Probab=28.05 E-value=2.6e+02 Score=27.56 Aligned_cols=57 Identities=19% Similarity=0.314 Sum_probs=34.3
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHh---cCCCeEEEEEcccCCCCCcceEEEE-EEccHHHHHHHHH
Q 022930 15 TYSLLVLNITFRTTADDLFPLFE---KYGKVVDVFIPRDRRTGDSRGFAFV-RYKYADEAQKAVD 75 (290)
Q Consensus 15 ~~~l~V~nL~~~~t~~~L~~~F~---~~G~I~~v~i~~d~~tg~~~g~afV-~F~~~~~a~~Al~ 75 (290)
..+|.|+-||+.++.+.|.+.+. .-|.|. |.-+.| .+.. ++.|| ++.....++..+.
T Consensus 220 ~~~ivItEiP~~~~~~~li~~i~~~~~~~ki~-I~~i~D-~s~~--~v~i~i~l~~~~~~~~~~~ 280 (635)
T PRK09631 220 EKTIVIREIPFGTTTESLIASIEKAARKGKIK-ISSIND-YTAE--NVEIEIKLPRGVYASEVIE 280 (635)
T ss_pred CCEEEEEeCCCcccHHHHHHHHHHHHHcCCCc-cceeEe-CCCC--cEEEEEEECCCCCHHHHHH
Confidence 36899999999999988887644 345554 444445 3443 45544 4444444444433
No 322
>cd04883 ACT_AcuB C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. This CD includes the C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. AcuB is putatively involved in the anaerobic catabolism of acetoin, and related proteins. Studies report the induction of AcuB by nitrate respiration and also by fermentation. Since acetoin can be secreted and later serve as a source of carbon, it has been proposed that, during anaerobic growth when other carbon sources are exhausted, the induction of the AcuB protein results in acetoin catabolism. AcuB-like proteins have two N-terminal tandem CBS domains and a single C-terminal ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=27.65 E-value=1.7e+02 Score=18.76 Aligned_cols=48 Identities=17% Similarity=0.340 Sum_probs=27.1
Q ss_pred HHHHHHHHhcCC-CeEEEEEcccCCCCCcceEEEEEEc--cHHHHHHHHHHhCC
Q 022930 29 ADDLFPLFEKYG-KVVDVFIPRDRRTGDSRGFAFVRYK--YADEAQKAVDRLDG 79 (290)
Q Consensus 29 ~~~L~~~F~~~G-~I~~v~i~~d~~tg~~~g~afV~F~--~~~~a~~Al~~l~g 79 (290)
-..|.++|.++| .|..+..... .+...+..+|.+. +.+++.++|.. +|
T Consensus 15 l~~i~~~l~~~~inI~~i~~~~~--~~~~~~~v~i~v~~~~~~~~~~~L~~-~G 65 (72)
T cd04883 15 LADIAAIFKDRGVNIVSVLVYPS--KEEDNKILVFRVQTMNPRPIIEDLRR-AG 65 (72)
T ss_pred HHHHHHHHHHcCCCEEEEEEecc--CCCCeEEEEEEEecCCHHHHHHHHHH-CC
Confidence 356778888887 6776654432 2222334455554 55566666653 44
No 323
>PF11215 DUF3010: Protein of unknown function (DUF3010); InterPro: IPR021378 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=27.53 E-value=1.1e+02 Score=23.50 Aligned_cols=51 Identities=24% Similarity=0.414 Sum_probs=31.9
Q ss_pred CCCCCCHHHHHHH-------HhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCC
Q 022930 23 ITFRTTADDLFPL-------FEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 23 L~~~~t~~~L~~~-------F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
|+.+.+.++|++| ++.| .|..|.|..-...|+..| +-|.|. .+.||+++.+
T Consensus 37 l~~~~~~~~vr~Fq~~f~kl~~dy-~Vd~VvIk~R~~KGKfAG-ga~~FK----mEaaIQL~~~ 94 (138)
T PF11215_consen 37 LSDDNSTEEVRKFQFTFAKLMEDY-KVDKVVIKERATKGKFAG-GAVGFK----MEAAIQLIDD 94 (138)
T ss_pred cCCCccHHHHHHHHHHHHHHHHHc-CCCEEEEEecccCCCccC-CchhHH----HHHHHHhcCC
Confidence 4445556666654 3444 578888877666787776 346665 5666776655
No 324
>PF14401 RLAN: RimK-like ATPgrasp N-terminal domain
Probab=27.44 E-value=1.2e+02 Score=23.90 Aligned_cols=60 Identities=13% Similarity=0.081 Sum_probs=39.3
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhcCC-CeEEEEEcccCCCCCcceEEEEEEccHHHHHHHH
Q 022930 15 TYSLLVLNITFRTTADDLFPLFEKYG-KVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAV 74 (290)
Q Consensus 15 ~~~l~V~nL~~~~t~~~L~~~F~~~G-~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al 74 (290)
..+||.|.-+..--+.--..+|+.|- +|..|.+...........++.|.+.+..+.++++
T Consensus 87 ~l~iyFG~~~~~~~~~lAr~lFe~F~~PlL~v~~~~~~~~w~i~~i~~~~~~~l~~~e~~~ 147 (153)
T PF14401_consen 87 ELSIYFGQTPDPRLERLARQLFERFPCPLLEVEFVRDDGKWRISSIKPLSLSELSEEEQDF 147 (153)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHhCCCceEEEEEEecCCcEEEeeEeecChhhCCHHHHHH
Confidence 45688887654444455568899886 7788888766433455667777777666655544
No 325
>PRK13259 regulatory protein SpoVG; Reviewed
Probab=27.08 E-value=1e+02 Score=22.06 Aligned_cols=26 Identities=15% Similarity=0.318 Sum_probs=19.3
Q ss_pred CeEEEEEcccCCCCCcceEEEEEEcc
Q 022930 41 KVVDVFIPRDRRTGDSRGFAFVRYKY 66 (290)
Q Consensus 41 ~I~~v~i~~d~~tg~~~g~afV~F~~ 66 (290)
+|+.|.|..-...|+.++||=|+|.+
T Consensus 2 ~ITdVri~~~~~~g~lka~asit~dd 27 (94)
T PRK13259 2 EVTDVRLRKVNTEGRMKAIVSITFDN 27 (94)
T ss_pred eEEEEEEEEeCCCCcEEEEEEEEECC
Confidence 47777775544457889999999886
No 326
>PLN02655 ent-kaurene oxidase
Probab=26.74 E-value=1.2e+02 Score=28.25 Aligned_cols=48 Identities=15% Similarity=0.124 Sum_probs=33.2
Q ss_pred EEcCCCCCC---CHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHH
Q 022930 19 LVLNITFRT---TADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVD 75 (290)
Q Consensus 19 ~V~nL~~~~---t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~ 75 (290)
+||||..-. -...|.+++.+||.|..+.+. +.-+|...+++.|+..+.
T Consensus 9 ~iG~l~~~~~~~~~~~~~~~~~~yG~i~~~~~g---------~~~~vvv~~pe~~k~il~ 59 (466)
T PLN02655 9 VIGNLLQLKEKKPHRTFTKWSEIYGPIYTIRTG---------ASSVVVLNSTEVAKEAMV 59 (466)
T ss_pred ccccHHHcCCCchhHHHHHHHHHhCCeEEEEEC---------CEeEEEeCCHHHHHHHHH
Confidence 567763321 235788888999998777663 245677788888888775
No 327
>PRK13817 ribosome-binding factor A; Provisional
Probab=26.63 E-value=80 Score=23.60 Aligned_cols=19 Identities=32% Similarity=0.127 Sum_probs=12.7
Q ss_pred CCeEEEEEcccCCCCCcceEEEEEE
Q 022930 40 GKVVDVFIPRDRRTGDSRGFAFVRY 64 (290)
Q Consensus 40 G~I~~v~i~~d~~tg~~~g~afV~F 64 (290)
-.|+.|.|-.| ..+|.|-|
T Consensus 32 vtVt~V~vS~D------l~~AkVyv 50 (119)
T PRK13817 32 ISLTAVSISPD------LKQAKVFY 50 (119)
T ss_pred eEEeEEEECCC------CCEEEEEE
Confidence 46788888777 55665544
No 328
>COG0079 HisC Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]
Probab=26.62 E-value=71 Score=28.89 Aligned_cols=48 Identities=15% Similarity=0.196 Sum_probs=33.0
Q ss_pred CCcEEEEcCCCC----CCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHH
Q 022930 14 DTYSLLVLNITF----RTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQK 72 (290)
Q Consensus 14 ~~~~l~V~nL~~----~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~ 72 (290)
...-|||+|=+- .++.++|..+.+.... .+.|+.| -||++|.. +++..
T Consensus 145 ~~~lv~i~nPNNPTG~~~~~~~l~~l~~~~~~--~~~vVvD--------EAY~eF~~-~~~~~ 196 (356)
T COG0079 145 KTKLVFLCNPNNPTGTLLPREELRALLEALPE--GGLVVID--------EAYIEFSP-ESSLE 196 (356)
T ss_pred CCCEEEEeCCCCCCCCCCCHHHHHHHHHhCCC--CcEEEEe--------CchhhcCC-chhhh
Confidence 356688885321 3688999999998876 4445556 49999998 44443
No 329
>PHA02275 hypothetical protein
Probab=26.49 E-value=18 Score=25.95 Aligned_cols=53 Identities=11% Similarity=0.097 Sum_probs=31.9
Q ss_pred CCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCC
Q 022930 27 TTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 27 ~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
++++++..|...-.+|..+.|..-....--+..|.++|.+.+.....|-...|
T Consensus 23 ~~~d~~~~f~~~~~kin~ldis~v~~~~~d~~~~ilqfqd~~~~i~nicnve~ 75 (125)
T PHA02275 23 VTEDLWKVFKDMKPKINTLDISNVVSKDLDKSKPILQFQDSDGVIENICNVEG 75 (125)
T ss_pred hhHHHHHHHHHhCccccccchhhhhhhhhccccceeeeecCCchhhhcccccc
Confidence 56666666666666776666543222222345789999987776665544444
No 330
>cd06404 PB1_aPKC PB1 domain is an essential modular domain of the atypical protein kinase C (aPKC) which in complex with Par6 and Par3 proteins is crucial for establishment of apical-basal polarity of animal cells. PB1 domain is a modular domain mediating specific protein-protein interaction which play roles in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi,
Probab=26.44 E-value=2.3e+02 Score=19.77 Aligned_cols=56 Identities=11% Similarity=0.063 Sum_probs=35.5
Q ss_pred EEEEcCCCCCCCHHHHHHHH----hcCC-CeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCC
Q 022930 17 SLLVLNITFRTTADDLFPLF----EKYG-KVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 17 ~l~V~nL~~~~t~~~L~~~F----~~~G-~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
-|+|..++..++-++|.+.+ ...- ..-.++++-+ .|. .|.|.+.++.+.|+.++.-
T Consensus 10 di~it~~d~~~s~e~L~~~v~~~c~~~~~q~ft~kw~DE--EGD-----p~tiSS~~EL~EA~rl~~~ 70 (83)
T cd06404 10 DIMITSIDPSISLEELCNEVRDMCRFHNDQPFTLKWIDE--EGD-----PCTISSQMELEEAFRLYEL 70 (83)
T ss_pred cEEEEEcCCCcCHHHHHHHHHHHhCCCCCCcEEEEEECC--CCC-----ceeecCHHHHHHHHHHHHh
Confidence 38888999999887765544 3221 1223344322 232 4788999999999986654
No 331
>PLN03128 DNA topoisomerase 2; Provisional
Probab=26.38 E-value=2.8e+02 Score=29.55 Aligned_cols=56 Identities=11% Similarity=0.132 Sum_probs=31.4
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhcC-----CCeEEEEEcccCCCCCcceEEEEEEccHHHHHH
Q 022930 15 TYSLLVLNITFRTTADDLFPLFEKY-----GKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQK 72 (290)
Q Consensus 15 ~~~l~V~nL~~~~t~~~L~~~F~~~-----G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~ 72 (290)
..+|.|+-||+.+..+++.++++.. .++..|.=+.|..+. .|+.||.--..+....
T Consensus 881 ~~~i~ItElP~~~~~~~y~~~l~~l~~~~~k~~~~I~d~~d~s~~--~~v~~~i~l~~~~~~~ 941 (1135)
T PLN03128 881 DTTIRITELPVRKWTQDYKEFLEALLTGTKKKEPEIKDFKENHTD--TTVHFTVTLSEEKMAR 941 (1135)
T ss_pred CcEEEEEecCCccchHHHHHHHHHHHhhhccCCcceeeeeeccCC--CceEEEEEECcchhHH
Confidence 4679999999998776655555544 222223222332222 4677776555444333
No 332
>TIGR01063 gyrA DNA gyrase, A subunit. This model describes the common type II DNA topoisomerase (DNA gyrase). Two apparently independently arising families, one in the Proteobacteria and one in Gram-positive lineages, are both designated toposisomerase IV.
Probab=25.75 E-value=1.6e+02 Score=30.02 Aligned_cols=97 Identities=16% Similarity=0.236 Sum_probs=51.9
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhcC---CCeEEEEEcccCCCCCcceEEEEEEcc-HHHHHHHHHHhCCccccccccceeh
Q 022930 16 YSLLVLNITFRTTADDLFPLFEKY---GKVVDVFIPRDRRTGDSRGFAFVRYKY-ADEAQKAVDRLDGLFLNFNFVHEIL 91 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~L~~~F~~~---G~I~~v~i~~d~~tg~~~g~afV~F~~-~~~a~~Al~~l~g~~~~~~~~~~~~ 91 (290)
.+|.|+-||+.+..+.|.+..... +.+..|.=+.|- +.. .|+.||..-. ...++..+..|-.
T Consensus 249 ~~i~IteiP~~~~~~~~~~~i~~~~~~~~~~~i~~~~d~-s~~-~~~~~~i~~k~~~~~~~~~~~l~k------------ 314 (800)
T TIGR01063 249 EAIIVTEIPYQVNKARLIEKIAELVREKKIEGISDIRDE-SDR-EGIRIVIELKRDAVAEVVLNNLYK------------ 314 (800)
T ss_pred cEEEEEecCCcccHHHHHHHHHHHHhcCCCCccccceec-CCC-CceEEEEEeCCCCCHHHHHHHHHH------------
Confidence 579999999999887766655432 234333333342 222 4677765433 2233333332211
Q ss_pred hhhHHhhhccccccCcceeEEEEeccCcccchhHHHHHhhcc
Q 022930 92 KSSLFLRKNLYLCIGFLFFFLIFFILGRVVDGREITVQFAKY 133 (290)
Q Consensus 92 ~~~~~~~~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~ 133 (290)
...+..... .++.+|+.++|..++-.+|...|-.+
T Consensus 315 ------~t~l~~~~~-~n~~~~~~~~~~~~~~~~il~~~~~~ 349 (800)
T TIGR01063 315 ------QTQLQVSFG-INMLALVKGLPKVLNLKELLEAFVEH 349 (800)
T ss_pred ------hcccceeee-eeEEEEECCEeeECCHHHHHHHHHHH
Confidence 111111111 14556777788888877777777654
No 333
>KOG1176 consensus Acyl-CoA synthetase [Lipid transport and metabolism]
Probab=25.62 E-value=2.7e+02 Score=26.86 Aligned_cols=85 Identities=12% Similarity=0.090 Sum_probs=53.3
Q ss_pred CCCCHHHHHHHHhcCCCeEEEEEcc--cCCCCCcceEEEEEEcc--HHHHHHHHHHhCCccccccccceehhhhHHhhhc
Q 022930 25 FRTTADDLFPLFEKYGKVVDVFIPR--DRRTGDSRGFAFVRYKY--ADEAQKAVDRLDGLFLNFNFVHEILKSSLFLRKN 100 (290)
Q Consensus 25 ~~~t~~~L~~~F~~~G~I~~v~i~~--d~~tg~~~g~afV~F~~--~~~a~~Al~~l~g~~~~~~~~~~~~~~~~~~~~~ 100 (290)
+.+...||+.++-..-.|.++-++. |...|+.. .|||.-.. ...++..++.+...
T Consensus 439 ~qv~P~EiE~vL~~hP~V~eaaVvgipDe~~Ge~p-~A~VV~k~g~~lte~di~~~v~k~-------------------- 497 (537)
T KOG1176|consen 439 EQVSPAEIEAVLLTHPDVLEAAVVGIPDEVWGETP-AAFVVLKKGSTLTEKDIIEYVRKK-------------------- 497 (537)
T ss_pred EEeCHHHHHHHHHhCCCccEEEEEcccccccCCcc-eEEEEecCCCcCCHHHHHHHHHhh--------------------
Confidence 3677889999999999998887653 44456655 68888763 22222233322221
Q ss_pred cccccCcceeEEEEeccCcccchhHHHHHhh
Q 022930 101 LYLCIGFLFFFLIFFILGRVVDGREITVQFA 131 (290)
Q Consensus 101 ~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~ 131 (290)
+.. .-....-+||..||+..+|..++-...
T Consensus 498 l~~-y~~~~~V~Fvd~lPKs~~GKi~R~~lr 527 (537)
T KOG1176|consen 498 LPA-YKLPGGVVFVDELPKTPNGKILRRKLR 527 (537)
T ss_pred CCh-hhccCeEEEeccCCCCCcchHHHHHHH
Confidence 000 223344578999999999887766543
No 334
>TIGR01061 parC_Gpos DNA topoisomerase IV, A subunit, Gram-positive. Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason.
Probab=25.59 E-value=1.8e+02 Score=29.23 Aligned_cols=97 Identities=16% Similarity=0.135 Sum_probs=52.5
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhcC---CCeEEEEEcccCCCCCcceEEEEE-EccHHHHHHHHHHhCCccccccccceeh
Q 022930 16 YSLLVLNITFRTTADDLFPLFEKY---GKVVDVFIPRDRRTGDSRGFAFVR-YKYADEAQKAVDRLDGLFLNFNFVHEIL 91 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~L~~~F~~~---G~I~~v~i~~d~~tg~~~g~afV~-F~~~~~a~~Al~~l~g~~~~~~~~~~~~ 91 (290)
.+|.|..||+.++.+.|.+.+... +.+..|.=+.|- +.. .|+.||. +.....++..+..|=
T Consensus 249 ~~i~ItEiP~~~~~~~~~~~i~~l~~~~~~~~i~~~~De-s~~-~~vrivi~lk~~~~~~~~~~~l~------------- 313 (738)
T TIGR01061 249 NQIVITEIPYETNKANIVKKIEEIIFDNKVAGIEEVRDE-SDR-NGIRIIIELKKDANAEKILNFLF------------- 313 (738)
T ss_pred cEEEEEecCCccCHHHHHHHHHHHHhcCCccccceeeec-cCC-CceEEEEEECCCCCHHHHHHHHH-------------
Confidence 469999999999998888765432 334333333442 332 4677664 443333443332111
Q ss_pred hhhHHhhhccccccCcceeEEEEeccCcccchhHHHHHhhcc
Q 022930 92 KSSLFLRKNLYLCIGFLFFFLIFFILGRVVDGREITVQFAKY 133 (290)
Q Consensus 92 ~~~~~~~~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~ 133 (290)
+...+... -..++.+|+.+.|..++-.+|...|-.+
T Consensus 314 -----k~t~l~~~-~~~n~~~~~~~~p~~~~l~~il~~~~~~ 349 (738)
T TIGR01061 314 -----KHTDLQIN-YNFNMVAIANRTPIQVGLLSYLDAYIKH 349 (738)
T ss_pred -----HhccCcce-eeeeEEEEECCcceECCHHHHHHHHHHH
Confidence 11111111 1145556777778777767766666553
No 335
>PF10281 Ish1: Putative stress-responsive nuclear envelope protein; InterPro: IPR018803 This group of proteins, found primarily in fungi, consists of putative stress-responsive nuclear envelope protein Ish1 and homologues [].
Probab=25.48 E-value=63 Score=18.54 Aligned_cols=17 Identities=18% Similarity=0.137 Sum_probs=14.6
Q ss_pred CCCHHHHHHHHhcCCCe
Q 022930 26 RTTADDLFPLFEKYGKV 42 (290)
Q Consensus 26 ~~t~~~L~~~F~~~G~I 42 (290)
.++.++|++++..+|-+
T Consensus 3 tWs~~~L~~wL~~~gi~ 19 (38)
T PF10281_consen 3 TWSDSDLKSWLKSHGIP 19 (38)
T ss_pred CCCHHHHHHHHHHcCCC
Confidence 57889999999999854
No 336
>KOG1232 consensus Proteins containing the FAD binding domain [Energy production and conversion]
Probab=25.18 E-value=88 Score=28.58 Aligned_cols=54 Identities=28% Similarity=0.250 Sum_probs=39.7
Q ss_pred cCCCCCCCHHHHHHHH----hcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHH
Q 022930 21 LNITFRTTADDLFPLF----EKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVD 75 (290)
Q Consensus 21 ~nL~~~~t~~~L~~~F----~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~ 75 (290)
.+|-.+-|--+|+++| ...|-|+.|.|+..+ ..+.-..||+-.++-+++++++.
T Consensus 230 ~slRKDNTgydlkhLFIGSEGtlGVvT~vSil~~~-kpksvn~af~gi~sf~~v~k~fv 287 (511)
T KOG1232|consen 230 SSLRKDNTGYDLKHLFIGSEGTLGVVTKVSILAPP-KPKSVNVAFIGIESFDDVQKVFV 287 (511)
T ss_pred hhhcccCccccchhheecCCceeeEEeeEEEeecC-CCcceeEEEEccccHHHHHHHHH
Confidence 3455556667889999 357888999887664 44556689999999888887654
No 337
>PF13046 DUF3906: Protein of unknown function (DUF3906)
Probab=25.13 E-value=71 Score=21.00 Aligned_cols=33 Identities=21% Similarity=0.286 Sum_probs=22.4
Q ss_pred CHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEE
Q 022930 28 TADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFV 62 (290)
Q Consensus 28 t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV 62 (290)
-+.+|..+|-+..+|+++.|...+.-+ +|-|||
T Consensus 31 ~e~eler~fl~~P~v~e~~l~EKKri~--~G~gyV 63 (64)
T PF13046_consen 31 VEVELERHFLPLPEVKEVALYEKKRIR--KGAGYV 63 (64)
T ss_pred HHHHhhhhccCCCCceEEEEEEEEeee--CCceeE
Confidence 345677788888899999887654333 445555
No 338
>cd04931 ACT_PAH ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, phenylalanine hydroxylases (PAH). ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, phenylalanine hydroxylases (PAH). PAH catalyzes the hydroxylation of L-Phe to L-Tyr, the first step in the catabolic degradation of L-Phe. In PAH, an autoregulatory sequence, N-terminal of the ACT domain, extends across the catalytic domain active site and regulates the enzyme by intrasteric regulation. It appears that the activation by L-Phe induces a conformational change that converts the enzyme to a high-affinity and high-activity state. Modulation of activity is achieved through inhibition by BH4 and activation by phosphorylation of serine residues of the autoregulatory region. The molecular basis for the cooperative activation process is not fully understood yet. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=24.88 E-value=2.5e+02 Score=19.72 Aligned_cols=49 Identities=12% Similarity=0.126 Sum_probs=26.7
Q ss_pred HHHHHHHHhcCC-CeEEEEEcccCCCCCcc-eEEEEEEcc--HHHHHHHHHHhCC
Q 022930 29 ADDLFPLFEKYG-KVVDVFIPRDRRTGDSR-GFAFVRYKY--ADEAQKAVDRLDG 79 (290)
Q Consensus 29 ~~~L~~~F~~~G-~I~~v~i~~d~~tg~~~-g~afV~F~~--~~~a~~Al~~l~g 79 (290)
-.++...|..+| .+..|.- -|..+..- -+-||+|+- .+.+..||..|..
T Consensus 28 L~~vL~~Fa~~~INLt~IeS--RP~~~~~~~Y~FfVDieg~~~~~~~~~l~~L~~ 80 (90)
T cd04931 28 LAKVLRLFEEKDINLTHIES--RPSRLNKDEYEFFINLDKKSAPALDPIIKSLRN 80 (90)
T ss_pred HHHHHHHHHHCCCCEEEEEe--ccCCCCCceEEEEEEEEcCCCHHHHHHHHHHHH
Confidence 356777888887 4444433 23222222 244788874 3445566666544
No 339
>cd04902 ACT_3PGDH-xct C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH). The C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH), with an extended C-terminal (xct) region from bacteria, archaea, fungi, and plants. 3PGDH is an enzyme that belongs to the D-isomer specific, 2-hydroxyacid dehydrogenase family and catalyzes the oxidation of D-3-phosphoglycerate to 3- phosphohydroxypyruvate, which is the first step in the biosynthesis of L-serine, using NAD+ as the oxidizing agent. In bacteria, 3PGDH is feedback-controlled by the end product L-serine in an allosteric manner. Some 3PGDH enzymes have an additional domain formed by an extended C-terminal region. This additional domain introduces significant asymmetry to the homotetramer. Adjacent ACT (regulatory) domains interact, creating two serine-binding sites, however, this asymmetric arrangement results in the formation of two different and distinct domain interfaces between iden
Probab=24.71 E-value=2e+02 Score=18.42 Aligned_cols=50 Identities=14% Similarity=0.259 Sum_probs=26.4
Q ss_pred CHHHHHHHHhcCC-CeEEEEEcccCCCCCcceEEEEEEcc--HHHHHHHHHHhCC
Q 022930 28 TADDLFPLFEKYG-KVVDVFIPRDRRTGDSRGFAFVRYKY--ADEAQKAVDRLDG 79 (290)
Q Consensus 28 t~~~L~~~F~~~G-~I~~v~i~~d~~tg~~~g~afV~F~~--~~~a~~Al~~l~g 79 (290)
.-.+|.++|.++| .|.++.+... ......+..+...+ +.++.++|..+.|
T Consensus 12 ~l~~i~~~l~~~~inI~~~~~~~~--~~~~~~~~~i~v~~~~~~~~~~~l~~~~~ 64 (73)
T cd04902 12 VIGKVGTILGEAGINIAGMQVGRD--EPGGEALMVLSVDEPVPDEVLEELRALPG 64 (73)
T ss_pred HHHHHHHHHHHcCcChhheEeecc--CCCCEEEEEEEeCCCCCHHHHHHHHcCCC
Confidence 4466888898887 6666655332 12223344444443 2344455555555
No 340
>PF09341 Pcc1: Transcription factor Pcc1; InterPro: IPR015419 Pcc1 is a proposed transcription factor involved in the expression of genes regulated by alpha-factor and galactose; component of the EKC/KEOPS protein complex with Kae1, Gon7, Bud32, and Cgi121; related to human cancer-testis antigens [].; PDB: 2BNR_C 2P5W_C 3KLA_C 2F54_C 2P5E_C 2F53_C 3ENO_E 3ENC_B.
Probab=24.71 E-value=1.1e+02 Score=20.52 Aligned_cols=22 Identities=9% Similarity=0.010 Sum_probs=17.0
Q ss_pred eEEEEEEccHHHHHHHHHHhCC
Q 022930 58 GFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 58 g~afV~F~~~~~a~~Al~~l~g 79 (290)
..+-|.|.+++.|+.|+..|.-
T Consensus 3 ~~l~i~f~s~~~A~ii~~sL~~ 24 (76)
T PF09341_consen 3 FTLEIPFESEEKAEIIYRSLKP 24 (76)
T ss_dssp EEEEEE-SSHHHHHHHHHHHHH
T ss_pred EEEEEEeCCHHHHHHHHHHhCC
Confidence 4678999999999999886554
No 341
>PF05336 DUF718: Domain of unknown function (DUF718); InterPro: IPR008000 Mutarotases are enzymes which interconvert the alpha and beta stereoisomers of monosaccharides, enhancing the rate of their metabolism. Proteins in this entry are homologues of the rhamnose mutarotase YiiL (P32156 from SWISSPROT) from Escherichia coli, and are often encoded in rhamnose utilisation operons. YiiL is an enzyme which interconverts the alpha and beta stereoisomers of the pyranose form of L-rhamnose []. It is not required for growth on rhamnose, but allows cells to utilise this carbon source more efficiently [].The structure of YiiL is distinct from other mutarotases, forming an asymmetric dimmer stabilised by an intermolecular beta-sheet, hydrophobic interactions and a salt bridge [].; GO: 0016857 racemase and epimerase activity, acting on carbohydrates and derivatives, 0019299 rhamnose metabolic process, 0005737 cytoplasm; PDB: 2QLX_A 2QLW_B 1X8D_B.
Probab=24.51 E-value=1.6e+02 Score=21.41 Aligned_cols=38 Identities=24% Similarity=0.335 Sum_probs=24.0
Q ss_pred HHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHH
Q 022930 29 ADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADE 69 (290)
Q Consensus 29 ~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~ 69 (290)
..+|.+.+...| |....|..+..++ .=|+++++.+.+.
T Consensus 25 WPEv~~~l~~~G-i~~ysIf~~g~~~--~LF~~~E~~~~~~ 62 (106)
T PF05336_consen 25 WPEVLAALREAG-IRNYSIFRDGDTG--RLFMYMETDDFDA 62 (106)
T ss_dssp -HHHHHHHHHCT-EEEEEEEEETTTT--EEEEEEEECT-CH
T ss_pred CHHHHHHHHHCC-CeEEEEEEeCCCC--EEEEEEEecChhh
Confidence 346777788887 6666666553333 4588899888333
No 342
>TIGR00082 rbfA ribosome-binding factor A. Associates with free 30S ribosomal subunits (but not with 30S subunits that are part of 70S ribosomes or polysomes). Essential for efficient processing of 16S rRNA. May interact with the 5'terminal helix region of 16S rRNA. Mutants lacking rbfA have a cold-sensitive phenotype.
Probab=24.37 E-value=1.4e+02 Score=22.03 Aligned_cols=33 Identities=24% Similarity=0.327 Sum_probs=19.4
Q ss_pred CeEEEEEcccCCCCCcceEE--EEEEc-cHHHHHHHHHHhCC
Q 022930 41 KVVDVFIPRDRRTGDSRGFA--FVRYK-YADEAQKAVDRLDG 79 (290)
Q Consensus 41 ~I~~v~i~~d~~tg~~~g~a--fV~F~-~~~~a~~Al~~l~g 79 (290)
.|+.|.|..| ..+| ||.+- +.+..+.++++|+.
T Consensus 34 tVt~V~lS~D------l~~AkVyvs~~~~~~~~~~~l~~L~~ 69 (114)
T TIGR00082 34 TVTKVEVSKD------LQHAKVFVDCYGDEEAIDRVVKALNK 69 (114)
T ss_pred EEeEEEECCC------CCEEEEEEEECCChhhHHHHHHHHHH
Confidence 5677888766 4455 45444 44444566666655
No 343
>COG5470 Uncharacterized conserved protein [Function unknown]
Probab=24.24 E-value=1.5e+02 Score=21.30 Aligned_cols=19 Identities=5% Similarity=0.169 Sum_probs=15.2
Q ss_pred ceEEEEEEccHHHHHHHHH
Q 022930 57 RGFAFVRYKYADEAQKAVD 75 (290)
Q Consensus 57 ~g~afV~F~~~~~a~~Al~ 75 (290)
.....|+|.+.+.|..+..
T Consensus 53 tr~vviEFps~~~ar~~y~ 71 (96)
T COG5470 53 TRNVVIEFPSLEAARDCYN 71 (96)
T ss_pred ccEEEEEcCCHHHHHHHhc
Confidence 4578999999998877643
No 344
>COG0445 GidA Flavin-dependent tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Cell cycle control, cell division, chromosome partitioning]
Probab=24.16 E-value=1.2e+02 Score=29.20 Aligned_cols=41 Identities=15% Similarity=0.063 Sum_probs=31.6
Q ss_pred CCCCCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcc
Q 022930 9 PPDIRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPR 49 (290)
Q Consensus 9 ~~~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~ 49 (290)
.|+-.++..||+.+|+..+.++-=.++....--.+.+.|+.
T Consensus 295 EPEGl~~~evY~nGlSTSlP~dVQ~~~irsipGlEna~i~r 335 (621)
T COG0445 295 EPEGLDTDEVYPNGLSTSLPEDVQEQIIRSIPGLENAEILR 335 (621)
T ss_pred cCCCCCCceEecCcccccCCHHHHHHHHHhCcccccceeec
Confidence 45566678899999999998876667777776777887764
No 345
>PRK04199 rpl10e 50S ribosomal protein L10e; Reviewed
Probab=24.15 E-value=2.7e+02 Score=22.38 Aligned_cols=57 Identities=16% Similarity=0.220 Sum_probs=32.9
Q ss_pred CCcEEEEcCCCCC-CCHHHHHHHHh------c----CCCeEEEEEcccCCCCCcceEEEEEEc----cHHHHHHHHHH
Q 022930 14 DTYSLLVLNITFR-TTADDLFPLFE------K----YGKVVDVFIPRDRRTGDSRGFAFVRYK----YADEAQKAVDR 76 (290)
Q Consensus 14 ~~~~l~V~nL~~~-~t~~~L~~~F~------~----~G~I~~v~i~~d~~tg~~~g~afV~F~----~~~~a~~Al~~ 76 (290)
++..|+|.=+|.. +|+.-+..-.+ . ||.++....... .|-.++++. +.+.|.+||..
T Consensus 80 ~~~k~wIrvfP~~~lt~kp~~~rmGAdRmg~GMr~akG~p~~wva~Vk------~G~ilfei~~~~~~~~~akeAlr~ 151 (172)
T PRK04199 80 SNYHLKIRVYPHHVLRENKMATGAGADRVSDGMRLAFGKPVGTAARVE------KGQKIFTVRVNPEHLEAAKEALRR 151 (172)
T ss_pred cccEEEEEeCCCcceecChhHhhcchhhhccCcccCCCCccEEEEEEC------cCCEEEEEEecCCCHHHHHHHHHH
Confidence 3456777777766 34554443222 2 777665544333 345556665 66778888874
No 346
>TIGR01217 ac_ac_CoA_syn acetoacetyl-CoA synthase. This enzyme catalyzes the first step of the mevalonate pathway of IPP biosynthesis. Most bacteria do not use this pathway, but rather the deoxyxylulose pathway.
Probab=24.13 E-value=4e+02 Score=26.09 Aligned_cols=41 Identities=17% Similarity=0.293 Sum_probs=28.1
Q ss_pred CCCHHHHHHHHhcCCCeEEEEEcccCC-CCCcceEEEEEEcc
Q 022930 26 RTTADDLFPLFEKYGKVVDVFIPRDRR-TGDSRGFAFVRYKY 66 (290)
Q Consensus 26 ~~t~~~L~~~F~~~G~I~~v~i~~d~~-tg~~~g~afV~F~~ 66 (290)
.+...+|+..+.++..|.++-++.-+. .+...-.|||....
T Consensus 531 ri~p~EIE~~l~~~p~V~eaavvg~~~~~~ge~~~afVv~~~ 572 (652)
T TIGR01217 531 RMGSAEIYNAVERLDEVRESLCIGQEQPDGGYRVVLFVHLAP 572 (652)
T ss_pred EcCHHHHHHHHHhCCCcceEEEEeeecCCCCEEEEEEEEECC
Confidence 567889999999999888776653321 22334578888753
No 347
>TIGR00288 conserved hypothetical protein TIGR00288. This family of orthologs is restricted to but universal among the completed archaeal genomes so far. Eubacterial proteins showing at least local homology include slr1870 from Synechocystis PCC6803 and two proteins from Aquifex aeolicusr, none of which is characterized.
Probab=24.08 E-value=3e+02 Score=21.86 Aligned_cols=36 Identities=19% Similarity=0.277 Sum_probs=24.4
Q ss_pred CcEEEEc--CCCCCC---CHHHHHHHHhcCCCeEEEEEccc
Q 022930 15 TYSLLVL--NITFRT---TADDLFPLFEKYGKVVDVFIPRD 50 (290)
Q Consensus 15 ~~~l~V~--nL~~~~---t~~~L~~~F~~~G~I~~v~i~~d 50 (290)
.--|||- |++... +-+.|.+++.++|.|..-.+..+
T Consensus 24 riAvfID~~Nv~~~~~~~d~~~i~~~ls~~G~i~~~R~Y~~ 64 (160)
T TIGR00288 24 KIGLLVDGPNMLRKEFNIDLDEIREILSEYGDIKIGKVLLN 64 (160)
T ss_pred cEEEEEeCCccChhhhccCHHHHHHHHHhcCCeEEEEEEec
Confidence 3456665 665432 35788899999999877666554
No 348
>PRK05560 DNA gyrase subunit A; Validated
Probab=24.05 E-value=2.1e+02 Score=29.21 Aligned_cols=98 Identities=15% Similarity=0.213 Sum_probs=51.9
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhcC---CCeEEEEEcccCCCCCcceEEEEE-EccHHHHHHHHHHhCCcccccccccee
Q 022930 15 TYSLLVLNITFRTTADDLFPLFEKY---GKVVDVFIPRDRRTGDSRGFAFVR-YKYADEAQKAVDRLDGLFLNFNFVHEI 90 (290)
Q Consensus 15 ~~~l~V~nL~~~~t~~~L~~~F~~~---G~I~~v~i~~d~~tg~~~g~afV~-F~~~~~a~~Al~~l~g~~~~~~~~~~~ 90 (290)
..+|.|+-||+.++.+.|.+.+... +.|..+.=+.|- +. ..|+.||. +....+++..+..|-.
T Consensus 251 ~~~i~iteiP~~~~~~~~~~~i~~~~~~~~~~~i~~~~d~-s~-~~~~~~~i~~~~~~~~~~~~~~l~~----------- 317 (805)
T PRK05560 251 REAIIVTEIPYQVNKARLIEKIAELVKEKKIEGISDLRDE-SD-RDGMRIVIELKRDAVPEVVLNNLYK----------- 317 (805)
T ss_pred CcEEEEEeCCCccCHHHHHHHHHHHHhcCCCCccccchhc-CC-CCceEEEEEECCCCCHHHHHHHHHH-----------
Confidence 3579999999999988776655322 344433333442 22 35677664 4433344443332221
Q ss_pred hhhhHHhhhccccccCcceeEEEEeccCcccchhHHHHHhhcc
Q 022930 91 LKSSLFLRKNLYLCIGFLFFFLIFFILGRVVDGREITVQFAKY 133 (290)
Q Consensus 91 ~~~~~~~~~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~ 133 (290)
...+..... .++.+++.++|..++-.+|...|-.+
T Consensus 318 -------~~~l~~~~~-~n~~~~~~~~~~~~~~~~il~~~~~~ 352 (805)
T PRK05560 318 -------HTQLQTSFG-INMLALVDGQPKLLNLKEILEAFLEH 352 (805)
T ss_pred -------hcCCeeeee-eeEEEEECCEeEECCHHHHHHHHHHH
Confidence 111111111 13445556677777777777666553
No 349
>PF02033 RBFA: Ribosome-binding factor A; InterPro: IPR000238 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosome-binding factor A [] (gene rbfA) is a bacterial protein that associates with free 30S ribosomal subunits. It does not associate with 30S subunits that are part of 70S ribosomes or polysomes. It is essential for efficient processing of 16S rRNA. Ribosome-binding factor A is a protein of from 13 to 15 Kd which is found in most bacteria. A putative chloroplastic form seems to exist in plants.; GO: 0006364 rRNA processing; PDB: 2R1C_A 2DYJ_B 2KZF_A 2E7G_A 1JOS_A 1KKG_A 1PA4_A.
Probab=23.84 E-value=1.7e+02 Score=20.97 Aligned_cols=34 Identities=18% Similarity=0.270 Sum_probs=23.0
Q ss_pred CCeEEEEEcccCCCCCcceEE--EEEEc-cHHHHHHHHHHhCC
Q 022930 40 GKVVDVFIPRDRRTGDSRGFA--FVRYK-YADEAQKAVDRLDG 79 (290)
Q Consensus 40 G~I~~v~i~~d~~tg~~~g~a--fV~F~-~~~~a~~Al~~l~g 79 (290)
-.|..|.|..| ..+| ||.+. +.++.+.+++.|+.
T Consensus 29 vtIt~V~ls~D------l~~a~Vy~~~~~~~~~~~~~~~~L~~ 65 (104)
T PF02033_consen 29 VTITRVELSPD------LSHAKVYVSILGDEEEQEEVLEALNK 65 (104)
T ss_dssp EEEEEEEECTT------SSEEEEEEEESSSHHHHHHHHHHHHH
T ss_pred EEEEEEEECCC------CCEEEEEEEEecCchhHHHHHHHHHH
Confidence 36788888776 3455 55554 66777777777776
No 350
>PF07521 RMMBL: RNA-metabolising metallo-beta-lactamase; InterPro: IPR011108 The metallo-beta-lactamase fold contains five sequence motifs. The first four motifs are found in IPR001279 from INTERPRO and are common to all metallo-beta-lactamases. The fifth motif appears to be specific to function. This entry represents the fifth motif from metallo-beta-lactamases involved in RNA metabolism [].; PDB: 3ZQ4_D 2I7T_A 2I7V_A 2YCB_B 3BK1_A 3T3N_A 3BK2_A 3T3O_A 3AF5_A 3AF6_A ....
Probab=23.57 E-value=1.4e+02 Score=17.55 Aligned_cols=32 Identities=9% Similarity=0.217 Sum_probs=23.4
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEc
Q 022930 16 YSLLVLNITFRTTADDLFPLFEKYGKVVDVFIP 48 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~ 48 (290)
+.|..-++.-.++.++|.+++..+.+ ..|.++
T Consensus 7 a~v~~~~fSgHad~~~L~~~i~~~~p-~~vilV 38 (43)
T PF07521_consen 7 ARVEQIDFSGHADREELLEFIEQLNP-RKVILV 38 (43)
T ss_dssp SEEEESGCSSS-BHHHHHHHHHHHCS-SEEEEE
T ss_pred EEEEEEeecCCCCHHHHHHHHHhcCC-CEEEEe
Confidence 45555558889999999999999865 666554
No 351
>PRK06545 prephenate dehydrogenase; Validated
Probab=23.55 E-value=5.2e+02 Score=23.23 Aligned_cols=64 Identities=17% Similarity=0.305 Sum_probs=45.8
Q ss_pred CCCcEEEEcCCCCCCC-HHHHHHHHhcCC-CeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCC
Q 022930 13 RDTYSLLVLNITFRTT-ADDLFPLFEKYG-KVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 13 ~~~~~l~V~nL~~~~t-~~~L~~~F~~~G-~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
..-+.||| .||..-- -..|..++...| .|+.+.|...+ +...|..-+.|.+.+++..|...|..
T Consensus 288 ~~~~~~~v-~v~d~pg~~~~~~~~~~~~~i~i~~~~i~~~~--~~~~g~~~~~~~~~~~~~~~~~~~~~ 353 (359)
T PRK06545 288 PSFYDLYV-DVPDEPGVIARVTAILGEEGISIENLRILEAR--EDIHGVLQISFKNEEDRERAKALLEE 353 (359)
T ss_pred CcceEEEE-eCCCCCCHHHHHHHHHHHcCCCeecceeeecc--CCcCceEEEEeCCHHHHHHHHHHHHh
Confidence 34466777 4554432 245666666666 68889987663 56678899999999999999987765
No 352
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=23.47 E-value=1.2e+02 Score=22.82 Aligned_cols=38 Identities=11% Similarity=0.183 Sum_probs=21.2
Q ss_pred cEEEEcC-CCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHH
Q 022930 16 YSLLVLN-ITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADE 69 (290)
Q Consensus 16 ~~l~V~n-L~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~ 69 (290)
.-|||.| ||.. ...|-++++++-. .-||-||.|..++.
T Consensus 71 ~flfVnn~lp~~--s~~mg~lYe~~KD--------------eDGFLYi~Ys~e~t 109 (121)
T PTZ00380 71 VTLAIEGSTPAV--TATVGDIADACKR--------------DDGFLYVSVRTEQA 109 (121)
T ss_pred EEEEECCccCCc--cchHHHHHHHhcC--------------CCCeEEEEEccccc
Confidence 4577777 4432 2345555555422 13688888877654
No 353
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=23.31 E-value=1.4e+02 Score=17.82 Aligned_cols=31 Identities=26% Similarity=0.379 Sum_probs=21.7
Q ss_pred ccCCCCCcceEEEEEEccHHHHHHHHHHhCC
Q 022930 49 RDRRTGDSRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 49 ~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
.++.+|+.+-.----|.+..+|+.|+..+..
T Consensus 9 ~~~~~Gkrk~~~k~GF~TkkeA~~~~~~~~~ 39 (46)
T PF14657_consen 9 YDDETGKRKQKTKRGFKTKKEAEKALAKIEA 39 (46)
T ss_pred EECCCCCEEEEEcCCCCcHHHHHHHHHHHHH
Confidence 4556776664444449999999998876544
No 354
>COG0365 Acs Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]
Probab=23.30 E-value=6.4e+02 Score=24.30 Aligned_cols=88 Identities=13% Similarity=0.052 Sum_probs=52.9
Q ss_pred CCCHHHHHHHHhcCCCeEEEEEccc--CCCCCcceEEEEEEccHHHHHHHHH-HhCCccccccccceehhhhHHhhhccc
Q 022930 26 RTTADDLFPLFEKYGKVVDVFIPRD--RRTGDSRGFAFVRYKYADEAQKAVD-RLDGLFLNFNFVHEILKSSLFLRKNLY 102 (290)
Q Consensus 26 ~~t~~~L~~~F~~~G~I~~v~i~~d--~~tg~~~g~afV~F~~~~~a~~Al~-~l~g~~~~~~~~~~~~~~~~~~~~~~~ 102 (290)
.+...||++.+..+-.|.++-++-- ...|+. -+|||....--+.. .|. .+.. .......
T Consensus 428 Rig~~EvE~~l~~hP~VaEaAvVg~pd~~kg~~-v~afVvL~~g~~~~-~L~~ei~~----------------~vr~~~~ 489 (528)
T COG0365 428 RIGPLEIESVLLAHPAVAEAAVVGVPDPGKGQI-VLAFVVLAAGVEPN-ELAEEIRR----------------HVARNIG 489 (528)
T ss_pred eccHHHHHHHHHhCcceeeeEEEeccCCCCCcE-EEEEEEecCCCChH-HHHHHHHH----------------HHHhccC
Confidence 3567899999999988887766544 334444 57899988533211 111 0100 0000011
Q ss_pred cccCcceeEEEEeccCcccchhHHHHHhhc
Q 022930 103 LCIGFLFFFLIFFILGRVVDGREITVQFAK 132 (290)
Q Consensus 103 ~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~ 132 (290)
....+....||..||++.+|..++..+.+
T Consensus 490 -~~~~p~~i~fv~~LPkT~sGKI~R~~lr~ 518 (528)
T COG0365 490 -PHAIPRKIRFVDELPKTASGKIQRRLLRK 518 (528)
T ss_pred -cccCCceEEEecCCCCCCcccHHHHHHHH
Confidence 12334556799999999999988877654
No 355
>PRK15464 cold shock-like protein CspH; Provisional
Probab=23.30 E-value=55 Score=21.93 Aligned_cols=10 Identities=20% Similarity=0.185 Sum_probs=7.7
Q ss_pred ceEEEEEEcc
Q 022930 57 RGFAFVRYKY 66 (290)
Q Consensus 57 ~g~afV~F~~ 66 (290)
+||+||+=.+
T Consensus 16 KGfGFI~~~~ 25 (70)
T PRK15464 16 SGKGFIIPSD 25 (70)
T ss_pred CCeEEEccCC
Confidence 8999996554
No 356
>PF06130 PduL: Propanediol utilisation protein PduL; InterPro: IPR008300 Salmonella enterica subsp. enterica serovar Typhimurium degrades 1,2-propanediol by a pathway that requires coenzyme B12, adenosylcobalamin (AdoCbl). Proteins required for 1,2-propanediol degradation are encoded by the pdu operon []. PduL functions in this pathway, but its exact role is not yet determined. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilization of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilization (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and coregulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR010254 from INTERPRO and IPR009204 from INTERPRO for more details on the propanediol utilization pathway and the pdu operon.; GO: 0016747 transferase activity, transferring acyl groups other than amino-acyl groups
Probab=23.18 E-value=1.6e+02 Score=19.78 Aligned_cols=30 Identities=23% Similarity=0.356 Sum_probs=25.6
Q ss_pred EEEcCCCCCCCHHHHHHHHhcCCCeEEEEE
Q 022930 18 LLVLNITFRTTADDLFPLFEKYGKVVDVFI 47 (290)
Q Consensus 18 l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i 47 (290)
|.|.+=.-.++++++..||.+-|+...+.+
T Consensus 4 viva~RHIHms~~da~~l~~~dg~~v~ve~ 33 (71)
T PF06130_consen 4 VIVAARHIHMSPEDAEKLFGQDGQFVSVEV 33 (71)
T ss_pred EEEEccccCCCHHHHHHhCCCCCCEEEEEE
Confidence 566666668999999999999999988887
No 357
>KOG3346 consensus Phosphatidylethanolamine binding protein [General function prediction only]
Probab=22.78 E-value=2.2e+02 Score=23.17 Aligned_cols=48 Identities=23% Similarity=0.341 Sum_probs=31.4
Q ss_pred CCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccC--CCCCcceEEEEEEccHH
Q 022930 12 IRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDR--RTGDSRGFAFVRYKYAD 68 (290)
Q Consensus 12 ~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~--~tg~~~g~afV~F~~~~ 68 (290)
..+-+--+|.|||-... -.+|.+....+..-+ .+|.++ |.|+.|.-..
T Consensus 83 ~rE~lHWlV~nIPg~~~--------~~~G~~i~~Y~~P~Pp~~tG~HR-yVfll~rQ~~ 132 (185)
T KOG3346|consen 83 FREWLHWLVTNIPGTDG--------ISKGQEISEYLGPGPPKGTGLHR-YVFLLYRQPG 132 (185)
T ss_pred ceeEEEEEEEeecCCcc--------ccCCeEeeeeeCCCCCCCCCceE-EEEEEEEcCC
Confidence 34445677889987764 346766655555444 377776 9999998543
No 358
>cd01611 GABARAP Ubiquitin domain of GABA-receptor-associated protein. GABARAP (GABA-receptor-associated protein) belongs ot a large family of proteins that mediate intracellular membrane trafficking and/or fusion. GABARAP binds not only to GABA, type A but also to tubulin, gephrin, and ULK1. Orthologues of GABARAP include Gate-16 (golgi-associated ATPase enhancer), LC3 (microtubule-associated protein light chain 3), and ATG8 (autophagy protein 8). ATG8 is a ubiquitin-like protein that is conjugated to the membrane phospholipid, phosphatidylethanolamine as part of a ubiquitin-like conjugation system essential for autophagosome-formation.
Probab=22.61 E-value=1.6e+02 Score=21.70 Aligned_cols=26 Identities=23% Similarity=0.199 Sum_probs=13.5
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhcCC
Q 022930 14 DTYSLLVLNITFRTTADDLFPLFEKYG 40 (290)
Q Consensus 14 ~~~~l~V~nL~~~~t~~~L~~~F~~~G 40 (290)
++--|||+|.-+ .+.+.|.++++.|+
T Consensus 70 ~slfl~Vn~~~p-~~~~~~~~lY~~~k 95 (112)
T cd01611 70 KALFLFVNNSLP-PTSATMSQLYEEHK 95 (112)
T ss_pred ceEEEEECCccC-CchhHHHHHHHHhC
Confidence 344566666211 23355666666665
No 359
>PF05036 SPOR: Sporulation related domain; InterPro: IPR007730 This 70 residue domain is composed of two 35 residue repeats that are found in bacterial proteins involved in sporulation and cell division, such as FtsN, CwlM and RlpA. This repeat might be involved in binding peptidoglycan. FtsN is an essential cell division protein with a simple bitopic topology: a short N-terminal cytoplasmic segment fused to a large carboxy periplasmic domain through a single transmembrane domain. The repeats lie at the periplasmic C terminus, which has an RNP-like fold []. FtsN localises to the septum ring complex. The CwlM protein is a cell wall hydrolase, where the C-terminal region, including the repeats, determines substrate specificity []. RlpA is a rare lipoprotein A protein that may be important for cell division. Its N-terminal cysteine may be attached to thioglyceride and N-fatty acyl residues [].; PDB: 1X60_A 1UTA_A.
Probab=22.60 E-value=25 Score=23.17 Aligned_cols=61 Identities=20% Similarity=0.249 Sum_probs=31.8
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhcCCCeEE-EEEcccCCCCCcceEEEEEEccHHHHHHHHHHhC
Q 022930 15 TYSLLVLNITFRTTADDLFPLFEKYGKVVD-VFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLD 78 (290)
Q Consensus 15 ~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~-v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~ 78 (290)
...|.|+.+...-..+.+..-+...|.-.. +.+... +..--+-+-.|.+.++|..++..|.
T Consensus 4 ~y~vQv~s~~~~~~A~~~~~~l~~~g~~~~~~~~~~~---~~~yrV~~G~f~~~~~A~~~~~~l~ 65 (76)
T PF05036_consen 4 GYYVQVGSFSSEENAERLLAKLKKKGPDAYVVQVSKG---GPWYRVRVGPFSSREEAEAALRKLK 65 (76)
T ss_dssp EEEEEEEEES-HHHHHHHHHHHHHHT-----EEEEEE---TTCEEEEECCECTCCHHHHHHHHHH
T ss_pred cEEEEEEEcCCHHHHHHHHHHHHhcCCCcceEEEecC---CceEEEEECCCCCHHHHHHHHHHHh
Confidence 356788776644444444555554454322 222211 1111123347899999999998877
No 360
>KOG2996 consensus Rho guanine nucleotide exchange factor VAV3 [Signal transduction mechanisms]
Probab=22.21 E-value=53 Score=31.54 Aligned_cols=62 Identities=18% Similarity=0.281 Sum_probs=40.5
Q ss_pred CCCCCCHHHH-HHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCcccccc
Q 022930 23 ITFRTTADDL-FPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNFN 85 (290)
Q Consensus 23 L~~~~t~~~L-~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~~ 85 (290)
|.+.+..++| ..++++|- +.--.|..|..+..+-.|+|-.|+.+..|..|..+|.|.++.|-
T Consensus 490 l~fy~Kte~~kkkWmeqfe-ma~SNi~Pdya~an~H~fqmhtF~~~tsCkvC~mllrGtfYQGY 552 (865)
T KOG2996|consen 490 LEFYCKTEDLKKKWMEQFE-MAKSNISPDYARANNHDFQMHTFKNTTSCKVCQMLLRGTFYQGY 552 (865)
T ss_pred eEEEEecHHHHHHHHHHHH-HHHhcCCcccccccCcceEEEeccCCcchHHHHHHhhhhhhcce
Confidence 3333333344 34555652 22223344555555566999999999999999999999888774
No 361
>PF09702 Cas_Csa5: CRISPR-associated protein (Cas_Csa5); InterPro: IPR010157 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a minor family of Cas protein found in various species of Sulfolobus and Pyrococcus (all archaeal). It is found with two different CRISPR loci in Sulfolobus solfataricus.
Probab=21.95 E-value=1.1e+02 Score=22.18 Aligned_cols=23 Identities=4% Similarity=0.164 Sum_probs=16.4
Q ss_pred CCCCcEEEEcCCCCCCCHHHHHHHHh
Q 022930 12 IRDTYSLLVLNITFRTTADDLFPLFE 37 (290)
Q Consensus 12 ~~~~~~l~V~nL~~~~t~~~L~~~F~ 37 (290)
..++..++++.||. .+|+.+|+.
T Consensus 61 ekeg~~i~~g~lPt---~~eVe~Fl~ 83 (105)
T PF09702_consen 61 EKEGNYIIVGYLPT---DEEVEDFLD 83 (105)
T ss_pred cCCCCEEecCCCCC---hHHHHHHHH
Confidence 45668899999994 456666654
No 362
>KOG1177 consensus Long chain fatty acid acyl-CoA ligase [Lipid transport and metabolism]
Probab=21.91 E-value=4.3e+02 Score=25.31 Aligned_cols=80 Identities=13% Similarity=0.070 Sum_probs=48.2
Q ss_pred CCCCHHHHHHHHhcCCCeEEEEEcccCCCCC-cceEEEEEEccHHH---HHHHHHH-hCCccccccccceehhhhHHhhh
Q 022930 25 FRTTADDLFPLFEKYGKVVDVFIPRDRRTGD-SRGFAFVRYKYADE---AQKAVDR-LDGLFLNFNFVHEILKSSLFLRK 99 (290)
Q Consensus 25 ~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~-~~g~afV~F~~~~~---a~~Al~~-l~g~~~~~~~~~~~~~~~~~~~~ 99 (290)
.+|-..+|++||.+.-.|+++.|+--+.+.- ..-+|+|-....++ ...-|++ ..|+
T Consensus 492 ENVyP~ElE~fL~~hp~V~~a~VVGV~D~R~GE~VCA~vRLqe~~e~~~t~E~lKa~Ck~k------------------- 552 (596)
T KOG1177|consen 492 ENVYPTELEDFLNKHPLVKEAHVVGVPDERLGEEVCACVRLQEGAEGKTTAETLKAMCKGK------------------- 552 (596)
T ss_pred cccChHHHHHHHhhCCCeeeEEEEccCCCcccceEEEEEEeeccccccccHHHHHHHHhcc-------------------
Confidence 4678889999999999999999876543321 12367776654443 1112221 1221
Q ss_pred ccccccCcceeEEEEeccCcccchhH
Q 022930 100 NLYLCIGFLFFFLIFFILGRVVDGRE 125 (290)
Q Consensus 100 ~~~~~~~~~~~~l~v~~l~~~~~~~~ 125 (290)
......+...+|+.++|..++|..
T Consensus 553 --laHFKiPky~vf~~~FPlT~tGKI 576 (596)
T KOG1177|consen 553 --LAHFKIPKYFVFVDEFPLTTTGKI 576 (596)
T ss_pred --cccccCCcEEEEeccCcccccccc
Confidence 111234556688888888887653
No 363
>cd04882 ACT_Bt0572_2 C-terminal ACT domain of a novel protein composed of just two ACT domains. Included in this CD is the C-terminal ACT domain of a novel protein composed of just two ACT domains, as seen in the yet uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related proteins. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=21.89 E-value=2.1e+02 Score=17.73 Aligned_cols=47 Identities=9% Similarity=0.285 Sum_probs=26.6
Q ss_pred HHHHHHHhcCC-CeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCC
Q 022930 30 DDLFPLFEKYG-KVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 30 ~~L~~~F~~~G-~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
.+|.++|.++| .|..+..... ........+|..++.+.+.++|+. +|
T Consensus 14 ~~i~~~l~~~~~nI~~i~~~~~--~~~~~~~v~~~ve~~~~~~~~L~~-~G 61 (65)
T cd04882 14 HEILQILSEEGINIEYMYAFVE--KKGGKALLIFRTEDIEKAIEVLQE-RG 61 (65)
T ss_pred HHHHHHHHHCCCChhheEEEcc--CCCCeEEEEEEeCCHHHHHHHHHH-CC
Confidence 46777887776 6666654322 112234455666676666666663 44
No 364
>PRK07787 acyl-CoA synthetase; Validated
Probab=21.87 E-value=2.9e+02 Score=25.42 Aligned_cols=39 Identities=15% Similarity=0.027 Sum_probs=24.8
Q ss_pred CCCHHHHHHHHhcCCCeEEEEEcccCCCC-CcceEEEEEE
Q 022930 26 RTTADDLFPLFEKYGKVVDVFIPRDRRTG-DSRGFAFVRY 64 (290)
Q Consensus 26 ~~t~~~L~~~F~~~G~I~~v~i~~d~~tg-~~~g~afV~F 64 (290)
.+...+|+..+..+..|.++.++..+... ...-.|||..
T Consensus 383 ~v~~~eIE~~l~~~~~v~~~~v~~~~~~~~~~~~~a~v~~ 422 (471)
T PRK07787 383 RIGAGEIETALLGHPGVREAAVVGVPDDDLGQRIVAYVVG 422 (471)
T ss_pred EECHHHHHHHHHhCCCcceEEEEcccccccCeEEEEEEEe
Confidence 45678889988888888777666543222 1233566665
No 365
>PLN00168 Cytochrome P450; Provisional
Probab=21.78 E-value=2.2e+02 Score=26.90 Aligned_cols=51 Identities=22% Similarity=0.133 Sum_probs=35.1
Q ss_pred EEEEcCCCCCC-----CHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHH
Q 022930 17 SLLVLNITFRT-----TADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDR 76 (290)
Q Consensus 17 ~l~V~nL~~~~-----t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~ 76 (290)
.-+||||..-. -...+.++..+||.|..+.+- +.-+|...+++.++.++..
T Consensus 43 ~pl~G~l~~~~~~~~~~~~~~~~~~~~yG~i~~~~~g---------~~~~vvv~dpe~~~~il~~ 98 (519)
T PLN00168 43 VPLLGSLVWLTNSSADVEPLLRRLIARYGPVVSLRVG---------SRLSVFVADRRLAHAALVE 98 (519)
T ss_pred CcccccHHhhccccccHHHHHHHHHHHhCCeEEEEcC---------CccEEEECCHHHHHHHHHh
Confidence 45688875321 123466778899998777652 2457778899999988863
No 366
>KOG2805 consensus tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase [Translation, ribosomal structure and biogenesis]
Probab=21.64 E-value=1.8e+02 Score=25.87 Aligned_cols=45 Identities=18% Similarity=0.209 Sum_probs=29.3
Q ss_pred CCcEEEEcCCCC-----------CCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEc
Q 022930 14 DTYSLLVLNITF-----------RTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYK 65 (290)
Q Consensus 14 ~~~~l~V~nL~~-----------~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~ 65 (290)
..-|+|+..|+. .+|.++++++-+++|-- ..+...+.|+|||-=.
T Consensus 153 KDQt~FL~~in~~~L~r~lfPlg~~~K~eVk~lA~~~gf~-------~aeK~eSqGICFvgk~ 208 (377)
T KOG2805|consen 153 KDQTYFLSTINQTQLKRLLFPLGCLTKSEVKKLAKQAGFP-------NAEKPESQGICFVGKI 208 (377)
T ss_pred CCceeEeecccHHHHHhhhccCcccCHHHHHHHHHhcCCc-------cccCcccceeEEeccc
Confidence 345678765543 46778888888887732 1234567899999643
No 367
>COG4010 Uncharacterized protein conserved in archaea [Function unknown]
Probab=21.56 E-value=4e+02 Score=20.78 Aligned_cols=48 Identities=17% Similarity=0.234 Sum_probs=37.6
Q ss_pred CCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCC
Q 022930 22 NITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 22 nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
.|+..+.++-|.++.+..|-|.+..- .| -.+.|-+.+.+..||..+.-
T Consensus 118 ~L~epl~~eRlqDi~E~hgvIiE~~E-~D---------~V~i~Gd~drVk~aLke~~~ 165 (170)
T COG4010 118 HLREPLAEERLQDIAETHGVIIEFEE-YD---------LVAIYGDSDRVKKALKEIGS 165 (170)
T ss_pred ecCchhHHHHHHHHHHhhheeEEeee-cc---------EEEEeccHHHHHHHHHHHHH
Confidence 57888889999999999998877652 22 35668899999999986643
No 368
>KOG2854 consensus Possible pfkB family carbohydrate kinase [Carbohydrate transport and metabolism]
Probab=21.54 E-value=1e+02 Score=27.48 Aligned_cols=65 Identities=12% Similarity=0.106 Sum_probs=37.6
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhcCCCeE-----EEEEcccC-----CCCCcceEEEEEEccHHHHHHHHHHhCC
Q 022930 14 DTYSLLVLNITFRTTADDLFPLFEKYGKVV-----DVFIPRDR-----RTGDSRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 14 ~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~-----~v~i~~d~-----~tg~~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
....+||+++-..+..+-|..+-+-+-+.. .+..+... .-.+...||+|.|.++++|.+..+. +|
T Consensus 159 ka~v~yv~Gffltv~p~ai~~v~qh~~e~~r~~~lnlsapfI~q~~~~~l~~v~~y~DiifgNe~EA~af~~~-~~ 233 (343)
T KOG2854|consen 159 KAKVFYVAGFFLTVSPDAIRKVAQHAAENNRVFTLNLSAPFISQFFKDALDKVLPYADIIFGNEDEAAAFARA-HG 233 (343)
T ss_pred heeEEEEEEEEEEeChHHHHHHHHHHHHhcchhheeccchhHHHHHHHHHHhhcCcceEEEcCHHHHHHHHHh-hC
Confidence 445688888888887776654433222211 11111000 0012345999999999999988774 44
No 369
>PHA03075 glutaredoxin-like protein; Provisional
Probab=21.45 E-value=1.5e+02 Score=22.20 Aligned_cols=32 Identities=22% Similarity=0.260 Sum_probs=18.1
Q ss_pred HHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEc
Q 022930 31 DLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYK 65 (290)
Q Consensus 31 ~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~ 65 (290)
-|-++|+.+|.-.-+-+..|+.+| ..|||.|.
T Consensus 58 lInn~~~~lgne~v~lfKydp~t~---qmA~V~i~ 89 (123)
T PHA03075 58 LINNFFKHLGNEYVSLFKYDPETK---QMAFVDIS 89 (123)
T ss_pred hHHHHHHhhcccEEEEEEEcCCCC---cEEEEehh
Confidence 456677777733223344454444 46888765
No 370
>cd06408 PB1_NoxR The PB1 domain is present in the Epichloe festucae NoxR protein (NADPH oxidase regulator), a key regulator of NADPH oxidase isoform, NoxA. NoxA is essential for growth control of the fungal endophyte in plant tissue in the process of symbiotic interaction between a fungi and its plant host. The Epichloe festucae p67(phox)-like regulator, NoxR, dispensable in culture but essential in plants for the symbiotic interaction. Plants infected with a noxR deletion mutant show severe stunting and premature senescence, whereas hyphae in the meristematic tissues show increased branching leading to increased fungal colonization of pseudostem and leaf blade tissue. The PB1 domain is a modular domain mediating specific protein-protein interactions which a play role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is
Probab=21.41 E-value=2.5e+02 Score=19.75 Aligned_cols=55 Identities=18% Similarity=0.158 Sum_probs=35.3
Q ss_pred EEEcCCCCCCCHHHHHHHH-hcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhC
Q 022930 18 LLVLNITFRTTADDLFPLF-EKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLD 78 (290)
Q Consensus 18 l~V~nL~~~~t~~~L~~~F-~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~ 78 (290)
|.+--||+.++-++|.+-+ ..||--..+.|..-.+ | -+|+..+.++.+.||....
T Consensus 13 v~~i~v~~~i~f~dL~~kIrdkf~~~~~~~iKykDE-G-----D~iti~sq~DLd~Ai~~a~ 68 (86)
T cd06408 13 TRYIMIGPDTGFADFEDKIRDKFGFKRRLKIKMKDD-G-----DMITMGDQDDLDMAIDTAR 68 (86)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHhCCCCceEEEEEcC-C-----CCccccCHHHHHHHHHHHH
Confidence 4455688999988876554 4555323333322222 2 6788999999999988543
No 371
>PRK09937 stationary phase/starvation inducible regulatory protein CspD; Provisional
Probab=21.36 E-value=71 Score=21.64 Aligned_cols=9 Identities=33% Similarity=0.844 Sum_probs=7.0
Q ss_pred ceEEEEEEc
Q 022930 57 RGFAFVRYK 65 (290)
Q Consensus 57 ~g~afV~F~ 65 (290)
+||+||+=.
T Consensus 13 KGfGFI~~~ 21 (74)
T PRK09937 13 KGFGFICPE 21 (74)
T ss_pred CCeEEEeeC
Confidence 889999644
No 372
>PF01823 MACPF: MAC/Perforin domain; InterPro: IPR020864 The membrane attack complex/perforin (MACPF) domain is conserved in bacteria, fungi, mammals and plants. It was originally identified and named as being common to five complement components (C6, C7, C8-alpha, C8-beta, and C9) and perforin. These molecules perform critical functions in innate and adaptive immunity. The MAC family proteins and perforin are known to participate in lytic pore formation. In response to pathogen infection, a sequential and highly specific interaction between the constituent elements occurs to form transmembrane channels which are known as the membrane-attack complex (MAC).Only a few other MACPF proteins have been characterised and several are thought to form pores for invasion or protection [, , ]. Examples are proteins from malarial parasites [], the cytolytic toxins from sea anemones [], and proteins that provide plant immunity [, ]. Functionally uncharacterised MACPF proteins are also evident in pathogenic bacteria such as Chlamydia spp [] and Photorhabdus luminescens (Xenorhabdus luminescens) []. The MACPF domain is commonly found to be associated with other N- and C-terminal domains, such as TSP1 (see PDOC50092 from PROSITEDOC), LDLRA (see PDOC00929 from PROSITEDOC), EGF-like (see PDOC00021 from PROSITEDOC),Sushi/CCP/SCR (see PDOC50923 from PROSITEDOC), FIMAC or C2 (see PDOC00380 from PROSITEDOC). They probably control or target MACPF function [, ]. The MACPF domain oligomerizes, undergoes conformational change, and is required for lytic activity. The MACPF domain consists of a central kinked four-stranded antiparallel beta sheet surrounded by alpha helices and beta strands, forming two structural segments. Overall, the MACPF domain has a thin L-shaped appearance. MACPF domains exhibit limited sequence similarity but contain a signature [YW]-G-[TS]-H-[FY]-x(6)-G-G motif [, , ]. Some proteins known to contain a MACPF domain are listed below: Vertebrate complement proteins C6 to C9. Complement factors C6 to C9 assemble to form a scaffold, the membrane attack complex (MAC), that permits C9 polymerisation into pores that lyse Gram-negative pathogens [, ]. Vertebrate perforin. It is delivered by natural killer cells and cytotoxic T lymphocytes and forms oligomeric pores (12 to 18 monomers) in the plasma membrane of either virus-infected or transformed cells. Arabidopsis thaliana (Mouse-ear cress) constitutively activated cell death 1 (CAD1) protein. It is likely to act as a mediator that recognises plant signals for pathogen infection []. Arabidopsis thaliana (Mouse-ear cress) necrotic spotted lesions 1 (NSL1) protein []. Venomous sea anemone Phyllodiscus semoni (Night anemone) toxins PsTX-60A and PsTX-60B []. Venomous sea anemone Actineria villosa (Okinawan sea anemone) toxin AvTX-60A []. Plasmodium sporozoite microneme protein essential for cell traversal 2 (SPECT2). It is essential for the membrane-wounding activity of the sporozoite and is involved in its traversal of the sinusoidal cell layer prior to hepatocyte-infection []. P. luminescens Plu-MACPF. Although nonlytic, it was shown to bind to cell membranes []. Chlamydial putative uncharacterised protein CT153 []. ; PDB: 2QP2_A 3OJY_B 3NSJ_A 4E0S_B 3T5O_A 4A5W_B 2QQH_A 2RD7_A.
Probab=21.24 E-value=1.4e+02 Score=24.06 Aligned_cols=29 Identities=17% Similarity=0.393 Sum_probs=19.3
Q ss_pred EcCCCCCCCHHH---HHHHHhcCCCeEEEEEc
Q 022930 20 VLNITFRTTADD---LFPLFEKYGKVVDVFIP 48 (290)
Q Consensus 20 V~nL~~~~t~~~---L~~~F~~~G~I~~v~i~ 48 (290)
|.+||...+..+ +.+||..||.-.-+.+.
T Consensus 53 l~~L~~~~~~~~~~~y~~f~~~yGTH~v~~~~ 84 (212)
T PF01823_consen 53 LNALPAEYNSDNTDEYYRFFDKYGTHYVTSVT 84 (212)
T ss_dssp HHTSHSS--HHHHHHHHHHHHHH-SEEEEEEE
T ss_pred HHhhCcccCccchHHHHHHHHHhCcEEEEEEE
Confidence 567888888877 78899999976544443
No 373
>PF12687 DUF3801: Protein of unknown function (DUF3801); InterPro: IPR024234 This functionally uncharacterised protein family is found in bacteria. Proteins found in this family are typically between 158 and 187 amino acids in length and include the PcfB protein.
Probab=21.19 E-value=2.3e+02 Score=23.41 Aligned_cols=57 Identities=26% Similarity=0.292 Sum_probs=36.4
Q ss_pred CCCHHHHH---HHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCCccccc
Q 022930 26 RTTADDLF---PLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDGLFLNF 84 (290)
Q Consensus 26 ~~t~~~L~---~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g~~~~~ 84 (290)
.|++++|. .+..+||- .++ |+.|..++...-+.|+.=.+.+.+..|+..+....+..
T Consensus 38 ~i~~~~lk~F~k~AkKyGV-~ya-v~kdk~~~~~~~~V~FkA~Da~~i~~af~~~~~~~~~~ 97 (204)
T PF12687_consen 38 EITDEDLKEFKKEAKKYGV-DYA-VKKDKSTGPGKYDVFFKAKDADVINRAFKEFSAKKLKK 97 (204)
T ss_pred ecCHhhHHHHHHHHHHcCC-ceE-EeeccCCCCCcEEEEEEcCcHHHHHHHHHHHHHHhhhh
Confidence 34555555 45678884 333 34555555445566666678888889998888765544
No 374
>KOG2311 consensus NAD/FAD-utilizing protein possibly involved in translation [Translation, ribosomal structure and biogenesis]
Probab=21.17 E-value=1.5e+02 Score=28.30 Aligned_cols=70 Identities=13% Similarity=0.215 Sum_probs=48.5
Q ss_pred CCCCCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEE-EEEEccHHHHHHHHH--HhCCccccccc
Q 022930 10 PDIRDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFA-FVRYKYADEAQKAVD--RLDGLFLNFNF 86 (290)
Q Consensus 10 ~~~~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~a-fV~F~~~~~a~~Al~--~l~g~~~~~~~ 86 (290)
|+-.+..-||..+|...+.++.-.+++...-.++.|.|+.. ||| --.|-++.+....|+ +..|.+|.|++
T Consensus 325 pEGlDs~~iYpqG~S~tlpee~Q~~lir~IpGLEn~~i~qP-------~YgVeYDyv~prQlk~sLeTkkV~GLF~AGQI 397 (679)
T KOG2311|consen 325 PEGLDSDLIYPQGLSNTLPEELQLQLIRSIPGLENAEILQP-------GYGVEYDYVDPRQLKPSLETKKVQGLFFAGQI 397 (679)
T ss_pred CcCCCCCcccccccccCCCHHHHHHHHHhccCcccceeecc-------cccceecccChHHcchhhhhhhccceEEeeee
Confidence 44455677999999998888877778887777888888753 565 234556777666665 45666665543
No 375
>TIGR01851 argC_other N-acetyl-gamma-glutamyl-phosphate reductase, uncommon form. This model represents the less common of two related families of N-acetyl-gamma-glutamyl-phosphate reductase, an enzyme catalyzing the third step or Arg biosynthesis from Glu. The two families differ by phylogeny, similarity clustering, and gap architecture in a multiple sequence alignment.
Probab=20.99 E-value=1.9e+02 Score=25.73 Aligned_cols=33 Identities=9% Similarity=0.142 Sum_probs=21.1
Q ss_pred cEEEEc--CCCCCCCHHHHHHHHh-cCCCeEEEEEc
Q 022930 16 YSLLVL--NITFRTTADDLFPLFE-KYGKVVDVFIP 48 (290)
Q Consensus 16 ~~l~V~--nL~~~~t~~~L~~~F~-~~G~I~~v~i~ 48 (290)
.|||+. -|...+++++|.++|. .|..=..|+|.
T Consensus 211 ~Ti~~~l~~~~~~~~~~~~~~~~~~~Y~~epfVrv~ 246 (310)
T TIGR01851 211 VTIPLHLQTLASKVSPADIHAALADYYQGEQFVRVA 246 (310)
T ss_pred EEEEEEeccCCCCCCHHHHHHHHHHHHCCCCcEEEe
Confidence 345554 2477889999999996 45544445443
No 376
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=20.95 E-value=35 Score=24.59 Aligned_cols=32 Identities=13% Similarity=0.136 Sum_probs=21.8
Q ss_pred CcEEEEcCCCCCCCHHHHHHHHhcCC--CeEEEEEc
Q 022930 15 TYSLLVLNITFRTTADDLFPLFEKYG--KVVDVFIP 48 (290)
Q Consensus 15 ~~~l~V~nL~~~~t~~~L~~~F~~~G--~I~~v~i~ 48 (290)
...|+|.+||..+.++-|.- ...| .|..|.+.
T Consensus 23 ~~~i~~~~Lp~~~d~~Sl~V--~~~g~~~i~~v~~~ 56 (104)
T PF13600_consen 23 ENEIIFEGLPPSLDPDSLRV--SGEGGVTILSVRFR 56 (104)
T ss_pred ceEEEEeCCCcccCCCcEEE--EecCCEEEEEEEEE
Confidence 46899999999999887743 2333 45555443
No 377
>COG0418 PyrC Dihydroorotase [Nucleotide transport and metabolism]
Probab=20.92 E-value=2.2e+02 Score=25.21 Aligned_cols=57 Identities=21% Similarity=0.156 Sum_probs=35.4
Q ss_pred EEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHH
Q 022930 18 LLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDR 76 (290)
Q Consensus 18 l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~ 76 (290)
|..-.|..++|.++|+.-|.+ |-|..+++...-.|..+. .|.-.+...-.+.+||+.
T Consensus 73 LMtlYLtd~~~peel~~a~~~-g~i~a~KlYPaGaTTNS~-~GV~~~~~~~pvle~Mq~ 129 (344)
T COG0418 73 LMTLYLTDSTTPEELEEAKAK-GVIRAVKLYPAGATTNSD-SGVTDIEKIYPVLEAMQK 129 (344)
T ss_pred eEEEEecCCCCHHHHHHHHhc-CcEEEEEeccCCccccCc-CCcCcHHHHHHHHHHHHH
Confidence 333345568899999999887 568899987654443332 233335555555666664
No 378
>cd04489 ExoVII_LU_OBF ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a single-strand-specific exonuclease which degrades ssDNA from both 3-prime and 5-prime ends. ExoVII plays a role in methyl-directed mismatch repair in vivo. ExoVII may also guard the genome from mutagenesis by removing excess ssDNA, since the build up of ssDNA would lead to SOS induction and PolIV-dependent mutagenesis.
Probab=20.78 E-value=70 Score=21.25 Aligned_cols=23 Identities=17% Similarity=0.296 Sum_probs=14.4
Q ss_pred CCCeEEEEEcccCCCCCcceEEEEEEccHH
Q 022930 39 YGKVVDVFIPRDRRTGDSRGFAFVRYKYAD 68 (290)
Q Consensus 39 ~G~I~~v~i~~d~~tg~~~g~afV~F~~~~ 68 (290)
.|.|..+++ .. +|+||+++.|..
T Consensus 5 ~g~v~~i~~-tk------~g~~~~~L~D~~ 27 (78)
T cd04489 5 EGEISNLKR-PS------SGHLYFTLKDED 27 (78)
T ss_pred EEEEecCEE-CC------CcEEEEEEEeCC
Confidence 356666665 21 458888888754
No 379
>TIGR02316 propion_prpE propionate--CoA ligase. This family contains one of three readily separable clades of proteins in the group of acetate and propionate--CoA ligases. Characterized members of this family act on propionate. From propionyl-CoA, there is a cyclic degradation pathway: it is ligated by PrpC to the TCA cycle intermediate oxaloacetate, acted upon further by PrpD and an aconitase, then cleaved by PrpB to pyruvate and the TCA cycle intermediate succinate.
Probab=20.56 E-value=7.3e+02 Score=24.01 Aligned_cols=41 Identities=12% Similarity=0.044 Sum_probs=28.4
Q ss_pred CCCHHHHHHHHhcCCCeEEEEEcccCC-CCCcceEEEEEEcc
Q 022930 26 RTTADDLFPLFEKYGKVVDVFIPRDRR-TGDSRGFAFVRYKY 66 (290)
Q Consensus 26 ~~t~~~L~~~F~~~G~I~~v~i~~d~~-tg~~~g~afV~F~~ 66 (290)
.+...+|+.++..+..|.++.++.-+. .....-.|||....
T Consensus 504 rv~~~eIE~~l~~~p~V~ea~Vvg~~d~~~g~~~~~~vv~~~ 545 (628)
T TIGR02316 504 RLGTREIEESVSSHPSVAEVAVVGVHDELKGQVAVVFAILKE 545 (628)
T ss_pred EeCHHHHHHHHHhCCCcceEEEEeeecCCCCeEEEEEEEEcC
Confidence 577889999999999898776653322 12234578888763
No 380
>COG1839 Uncharacterized conserved protein [Function unknown]
Probab=20.55 E-value=3.2e+02 Score=21.21 Aligned_cols=27 Identities=19% Similarity=0.356 Sum_probs=21.6
Q ss_pred CCCCcEEEEcCCCCCCCHHHHHHHHhc
Q 022930 12 IRDTYSLLVLNITFRTTADDLFPLFEK 38 (290)
Q Consensus 12 ~~~~~~l~V~nL~~~~t~~~L~~~F~~ 38 (290)
..+..+|.||.-.+--|.+||.+.+-.
T Consensus 12 ~Pe~~nvIiGqshFIkTVeDL~ealvt 38 (162)
T COG1839 12 IPEGVNVIIGQSHFIKTVEDLYEALVT 38 (162)
T ss_pred CcCCceEEEeechhheeHHHHHHHHHh
Confidence 345578999999998899999987743
No 381
>COG1084 Predicted GTPase [General function prediction only]
Probab=20.49 E-value=4.2e+02 Score=23.81 Aligned_cols=65 Identities=15% Similarity=0.127 Sum_probs=38.0
Q ss_pred CCCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEcc----------------------HHHH
Q 022930 13 RDTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKY----------------------ADEA 70 (290)
Q Consensus 13 ~~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~----------------------~~~a 70 (290)
.+..||.|.|.| +|-...|..-+... ...|..-+.|.++-..|++++.. +..|
T Consensus 166 p~~pTivVaG~P-NVGKSSlv~~lT~A----kpEvA~YPFTTK~i~vGhfe~~~~R~QvIDTPGlLDRPl~ErN~IE~qA 240 (346)
T COG1084 166 PDLPTIVVAGYP-NVGKSSLVRKLTTA----KPEVAPYPFTTKGIHVGHFERGYLRIQVIDTPGLLDRPLEERNEIERQA 240 (346)
T ss_pred CCCCeEEEecCC-CCcHHHHHHHHhcC----CCccCCCCccccceeEeeeecCCceEEEecCCcccCCChHHhcHHHHHH
Confidence 367899999987 56655554444321 12223334454444444444333 3578
Q ss_pred HHHHHHhCCccc
Q 022930 71 QKAVDRLDGLFL 82 (290)
Q Consensus 71 ~~Al~~l~g~~~ 82 (290)
..||.+|.|..|
T Consensus 241 i~AL~hl~~~Il 252 (346)
T COG1084 241 ILALRHLAGVIL 252 (346)
T ss_pred HHHHHHhcCeEE
Confidence 889999999543
No 382
>KOG0918 consensus Selenium-binding protein [Inorganic ion transport and metabolism]
Probab=20.38 E-value=72 Score=29.26 Aligned_cols=59 Identities=12% Similarity=0.107 Sum_probs=37.7
Q ss_pred CCCcEEEEcCCCCCCCHHHHH-HHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHH
Q 022930 13 RDTYSLLVLNITFRTTADDLF-PLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQ 71 (290)
Q Consensus 13 ~~~~~l~V~nL~~~~t~~~L~-~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~ 71 (290)
.+++.|||+|-=+..-+++++ ++.++-|.|..|.|-..+..-...--.||.|.++.+--
T Consensus 398 LDGKRLYVt~SLys~WD~QFYPE~v~~G~~miqidvdt~~g~~~lN~~flvDf~~ep~gP 457 (476)
T KOG0918|consen 398 LDGKRLYVTNSLYSAWDRQFYPELVSKGSHMIQIDVDTVKGGLSLNPDFLVDFGKEPDGP 457 (476)
T ss_pred cCCcEEEEEchhhhhhHhhhCHHHHhcCceEEEEeeeccCCceeeCccceEEccCCCCCc
Confidence 467899999866665555554 56677788888887444211122235799999855433
No 383
>PLN00110 flavonoid 3',5'-hydroxylase (F3'5'H); Provisional
Probab=20.37 E-value=2.2e+02 Score=26.86 Aligned_cols=49 Identities=14% Similarity=0.148 Sum_probs=33.1
Q ss_pred EEcCCCCCCC--HHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHH
Q 022930 19 LVLNITFRTT--ADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDR 76 (290)
Q Consensus 19 ~V~nL~~~~t--~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~ 76 (290)
+||||..-.. ...+.++..+||.|..+.+.. .-+|...+++.++.++..
T Consensus 41 l~G~l~~~~~~~~~~~~~~~~~yG~i~~~~~g~---------~~~vvv~dpe~~~~vl~~ 91 (504)
T PLN00110 41 LLGALPLLGNMPHVALAKMAKRYGPVMFLKMGT---------NSMVVASTPEAARAFLKT 91 (504)
T ss_pred eeechhhcCCchHHHHHHHHHHhCCeEEEEcCC---------ccEEEECCHHHHHHHHHh
Confidence 5677654322 355667778899987666521 246788899999988763
No 384
>COG0656 ARA1 Aldo/keto reductases, related to diketogulonate reductase [General function prediction only]
Probab=20.36 E-value=1.7e+02 Score=25.54 Aligned_cols=56 Identities=18% Similarity=0.264 Sum_probs=34.1
Q ss_pred cEEEEcCCCCCCCHHHHHHHHhcCCC-eEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCC
Q 022930 16 YSLLVLNITFRTTADDLFPLFEKYGK-VVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 16 ~~l~V~nL~~~~t~~~L~~~F~~~G~-I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
++|++.++.++-+...+++-+..+|. -.++.+++.+... .|...+++-+||+.+-.
T Consensus 75 tKvw~~~~~~~~~~~a~e~Sl~rLg~dyvDLyLiHwP~~~--------~~~~~~etw~alE~l~~ 131 (280)
T COG0656 75 TKVWPSDLGYDETLKALEASLKRLGLDYVDLYLIHWPVPN--------KYVVIEETWKALEELVD 131 (280)
T ss_pred eecCCccCCcchHHHHHHHHHHHhCCCceeEEEECCCCCc--------cCccHHHHHHHHHHHHh
Confidence 44555566666666777777788885 4566676665221 22225677777776554
No 385
>TIGR02542 B_forsyth_147 Bacteroides forsythus 147-residue repeat. The longest predicted protein in Bacteroides forsythus ATCC 43037 is over 3000 residues long and lacks homology to other known proteins. Immediately after the signal sequence are four tandem repeats, approximately 147 residues long. This model describes that repeat. This model describes that repeat.
Probab=20.31 E-value=77 Score=23.55 Aligned_cols=45 Identities=18% Similarity=0.315 Sum_probs=28.6
Q ss_pred CCCCCHHHHHHHHhc---CCCeEEEEEcccCCCCCcceEEEEEEccHH
Q 022930 24 TFRTTADDLFPLFEK---YGKVVDVFIPRDRRTGDSRGFAFVRYKYAD 68 (290)
Q Consensus 24 ~~~~t~~~L~~~F~~---~G~I~~v~i~~d~~tg~~~g~afV~F~~~~ 68 (290)
|+.+|-.+|+++|.. |-.|+.-.+..|-.-..+--.||+.|....
T Consensus 83 PYTlT~~e~r~iF~Epm~YQGITReQV~rdGLP~GsYRiCFrL~~~~~ 130 (145)
T TIGR02542 83 PYTLTYNELRQIFREPMVYQGITREQVQRDGLPEGSYRICFRLFNATQ 130 (145)
T ss_pred ceeeeHHHHHHHHhhhhhhccccHHHHhhcCCCCCceEEEEEEeccch
Confidence 557899999999964 445554444444222233347999887653
No 386
>PRK10905 cell division protein DamX; Validated
Probab=20.29 E-value=1.7e+02 Score=26.01 Aligned_cols=61 Identities=21% Similarity=0.261 Sum_probs=38.8
Q ss_pred CCcEEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEE--EEEEccHHHHHHHHHHhCC
Q 022930 14 DTYSLLVLNITFRTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFA--FVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 14 ~~~~l~V~nL~~~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~a--fV~F~~~~~a~~Al~~l~g 79 (290)
..++|.|+.+. +++.|..|..++|- ....++.....|+. -|. |-.|.+.++|..||..|-.
T Consensus 246 ~~YTLQL~A~S---s~~~l~~fakKlgL-~~y~vy~TtRnGkp-WYVV~yG~YaSraeAk~AiakLPa 308 (328)
T PRK10905 246 SHYTLQLSSSS---NYDNLNGWAKKENL-KNYVVYETTRNGQP-WYVLVSGVYASKEEAKRAVSTLPA 308 (328)
T ss_pred CceEEEEEecC---CHHHHHHHHHHcCC-CceEEEEeccCCce-EEEEEecCCCCHHHHHHHHHHCCH
Confidence 44777777665 55778888877753 32223322223332 233 4479999999999998876
No 387
>PRK09274 peptide synthase; Provisional
Probab=20.22 E-value=4.7e+02 Score=24.66 Aligned_cols=41 Identities=12% Similarity=-0.045 Sum_probs=28.5
Q ss_pred CCCHHHHHHHHhcCCCeEEEEEcccCCCCCcceEEEEEEcc
Q 022930 26 RTTADDLFPLFEKYGKVVDVFIPRDRRTGDSRGFAFVRYKY 66 (290)
Q Consensus 26 ~~t~~~L~~~F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~ 66 (290)
.+..++|+.++.++..|..+.++.-+..+...-.+||+...
T Consensus 452 ~v~p~eIE~~l~~~p~V~~~~v~~~~~~~~~~~~~~v~~~~ 492 (552)
T PRK09274 452 TLYTIPCERIFNTHPGVKRSALVGVGVPGAQRPVLCVELEP 492 (552)
T ss_pred EECcHHHHHHHHhCcccceeEEEEeCCCCCceEEEEEEccC
Confidence 56778999999999888877665433333334577887664
No 388
>PF02426 MIase: Muconolactone delta-isomerase; InterPro: IPR003464 This small enzyme forms a homodecameric complex, that catalyses the third step in the catabolism of catechol to succinate- and acetyl-coa in the beta-ketoadipate pathway (5.3.3.4 from EC). The protein has a ferredoxin-like fold according to SCOP.; GO: 0006725 cellular aromatic compound metabolic process
Probab=20.21 E-value=3.3e+02 Score=19.32 Aligned_cols=54 Identities=15% Similarity=0.202 Sum_probs=38.1
Q ss_pred CCCCCCCHHHHHHH----------HhcCCCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHhCC
Q 022930 22 NITFRTTADDLFPL----------FEKYGKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRLDG 79 (290)
Q Consensus 22 nL~~~~t~~~L~~~----------F~~~G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l~g 79 (290)
+||..++.+++.++ +..-|.+..+.-+ .|...+++.+.-.+.++....|..|.=
T Consensus 10 ~~P~~~~~~~~~~~~a~E~~~a~eLq~~G~~~~lWr~----~G~~~n~~Ifdv~d~~eLh~lL~sLPL 73 (91)
T PF02426_consen 10 NVPPDMPPEEVDRLKAREKARAQELQRQGKWRHLWRV----VGRYANVSIFDVEDNDELHELLSSLPL 73 (91)
T ss_pred eCCCCCCHHHHHHHHHHHHHHHHHHHHCCeeeEEEEe----cCCcceEEEEECCCHHHHHHHHHhCCC
Confidence 78999988876543 4456888887654 456677888888888887766655443
No 389
>KOG1975 consensus mRNA cap methyltransferase [RNA processing and modification]
Probab=20.14 E-value=1.9e+02 Score=26.04 Aligned_cols=41 Identities=20% Similarity=0.275 Sum_probs=25.2
Q ss_pred CCCHHHHHHHHh--cC-CCeEEEEEcccCCCCCcceEEEEEEccHHHHHHHHHHh
Q 022930 26 RTTADDLFPLFE--KY-GKVVDVFIPRDRRTGDSRGFAFVRYKYADEAQKAVDRL 77 (290)
Q Consensus 26 ~~t~~~L~~~F~--~~-G~I~~v~i~~d~~tg~~~g~afV~F~~~~~a~~Al~~l 77 (290)
+++...|.++++ .. =.|++|+++.+ ||| ++.+.|..||...
T Consensus 180 Dc~~~~l~d~~e~~dp~fDivScQF~~H--------YaF---etee~ar~~l~Nv 223 (389)
T KOG1975|consen 180 DCFKERLMDLLEFKDPRFDIVSCQFAFH--------YAF---ETEESARIALRNV 223 (389)
T ss_pred ccchhHHHHhccCCCCCcceeeeeeeEe--------eee---ccHHHHHHHHHHH
Confidence 566677777773 22 25777777654 665 5666777766643
No 390
>PRK13818 ribosome-binding factor A; Provisional
Probab=20.08 E-value=2.1e+02 Score=21.47 Aligned_cols=21 Identities=14% Similarity=0.124 Sum_probs=13.6
Q ss_pred CCCeEEEEEcccCCCCCcceEE--EEEEc
Q 022930 39 YGKVVDVFIPRDRRTGDSRGFA--FVRYK 65 (290)
Q Consensus 39 ~G~I~~v~i~~d~~tg~~~g~a--fV~F~ 65 (290)
+-.|+.|.|-.| ..+| ||.+.
T Consensus 31 ~vtVt~V~lS~D------l~~AkVyvs~~ 53 (121)
T PRK13818 31 DVTITAVECTND------LSYATVYYSLL 53 (121)
T ss_pred ceEEeEEEECCC------CCEEEEEEEeC
Confidence 456788888777 4566 44443
No 391
>KOG3388 consensus Predicted transcription regulator/nuclease, contains ParB domain [Replication, recombination and repair]
Probab=20.01 E-value=1.7e+02 Score=21.91 Aligned_cols=59 Identities=20% Similarity=0.244 Sum_probs=34.9
Q ss_pred CCCCCCCCCcEEEEcCCCCCCCHHHHHHHHh-----------------cCCCeEEEEEcccCCCCCcceEEEEEEc
Q 022930 7 SGPPDIRDTYSLLVLNITFRTTADDLFPLFE-----------------KYGKVVDVFIPRDRRTGDSRGFAFVRYK 65 (290)
Q Consensus 7 ~~~~~~~~~~~l~V~nL~~~~t~~~L~~~F~-----------------~~G~I~~v~i~~d~~tg~~~g~afV~F~ 65 (290)
.+.+++.-.....|+-||+.++.+.|..+.+ +.|++.-|+|+.-...|+..-|||--..
T Consensus 23 s~~~pv~~~mSei~rPi~pvLd~qKi~slm~Tmkn~~~c~les~d~~~~aGelpPiDvl~v~~~G~~~YyaFgGCH 98 (136)
T KOG3388|consen 23 SGSPPVEGPMSEIVRPIPPVLDLQKIRSLMETMKNDQNCVLESEDSIRQAGELPPIDVLEVDSEGGDYYYAFGGCH 98 (136)
T ss_pred CCCCceecchhhcccCCCcccCHHHHHHHHHHhcCCCccchhhHHHHHhcCCCCCceEEEEecCCceEEEeeCcch
Confidence 3344555556677888888888877665443 4565544444433344555556765443
No 392
>TIGR02381 cspD cold shock domain protein CspD. This model represents what appears to be a phylogenetically distinct clade, containing E. coli CspD and related proteobacterial proteins within the larger family of cold shock domain proteins described by pfam model pfam00313. The gene symbol cspD may have been used idependently for other subfamilies of cold shock domain proteins, such as for B. subtilis CspD. These proteins typically are shorter than 70 amino acids. In E. coli, CspD is a stress response protein induced in stationary phase. This homodimer binds single-stranded DNA and appears to inhibit DNA replication.
Probab=20.00 E-value=78 Score=20.93 Aligned_cols=10 Identities=30% Similarity=0.627 Sum_probs=8.0
Q ss_pred ceEEEEEEcc
Q 022930 57 RGFAFVRYKY 66 (290)
Q Consensus 57 ~g~afV~F~~ 66 (290)
+||+||+=.+
T Consensus 13 kGfGFI~~~~ 22 (68)
T TIGR02381 13 KGFGFICPEG 22 (68)
T ss_pred CCeEEEecCC
Confidence 8899997654
Done!