Query psy17949
Match_columns 96
No_of_seqs 141 out of 1229
Neff 8.7
Searched_HMMs 46136
Date Fri Aug 16 18:25:45 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17949.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17949hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03134 glycine-rich RNA-bind 99.7 1.5E-16 3.2E-21 99.9 8.9 58 37-94 29-86 (144)
2 KOG0149|consensus 99.7 4.8E-17 1E-21 107.6 5.8 57 38-94 8-64 (247)
3 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.6 4.6E-15 9.9E-20 103.5 9.7 55 40-94 267-321 (352)
4 TIGR01659 sex-lethal sex-letha 99.6 1.1E-14 2.3E-19 102.6 9.7 58 37-94 102-159 (346)
5 KOG0126|consensus 99.6 4.4E-16 9.5E-21 100.0 2.3 63 32-94 25-87 (219)
6 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.6 4.6E-15 9.9E-20 103.5 7.4 54 41-94 2-55 (352)
7 KOG0113|consensus 99.6 1.1E-14 2.4E-19 99.3 6.8 57 38-94 97-153 (335)
8 KOG0122|consensus 99.5 1.1E-13 2.3E-18 92.3 8.9 56 38-93 185-240 (270)
9 TIGR01648 hnRNP-R-Q heterogene 99.5 5.9E-14 1.3E-18 103.9 8.2 59 35-94 51-109 (578)
10 PF00076 RRM_1: RNA recognitio 99.5 5E-14 1.1E-18 77.1 5.9 49 45-94 1-49 (70)
11 TIGR01645 half-pint poly-U bin 99.5 5E-14 1.1E-18 104.7 7.0 55 40-94 105-159 (612)
12 KOG0117|consensus 99.5 6.9E-14 1.5E-18 99.6 7.3 66 28-93 69-134 (506)
13 TIGR01659 sex-lethal sex-letha 99.5 1.2E-13 2.5E-18 97.4 7.2 54 40-93 191-244 (346)
14 TIGR01645 half-pint poly-U bin 99.5 2.1E-13 4.6E-18 101.4 7.5 55 40-94 202-256 (612)
15 KOG0144|consensus 99.4 3.4E-13 7.4E-18 95.9 7.5 58 36-93 28-85 (510)
16 TIGR01622 SF-CC1 splicing fact 99.4 6.1E-13 1.3E-17 95.9 8.0 55 39-93 86-140 (457)
17 PF14259 RRM_6: RNA recognitio 99.4 5.8E-13 1.3E-17 73.4 6.2 49 45-94 1-49 (70)
18 TIGR01628 PABP-1234 polyadenyl 99.4 5E-13 1.1E-17 98.7 6.9 51 44-94 2-52 (562)
19 TIGR01642 U2AF_lg U2 snRNP aux 99.4 2.7E-12 6E-17 93.5 10.4 54 40-93 293-346 (509)
20 PLN03120 nucleic acid binding 99.4 7.7E-13 1.7E-17 89.5 6.7 49 42-93 4-52 (260)
21 KOG0121|consensus 99.4 5.6E-13 1.2E-17 81.6 4.7 55 39-93 33-87 (153)
22 KOG0125|consensus 99.4 2.4E-12 5.2E-17 89.0 8.2 54 38-93 92-145 (376)
23 PLN03121 nucleic acid binding 99.4 1.9E-12 4.1E-17 86.6 6.9 50 41-93 4-53 (243)
24 PLN03213 repressor of silencin 99.4 2E-12 4.3E-17 93.7 6.9 53 38-94 6-58 (759)
25 KOG0127|consensus 99.3 3.6E-12 7.8E-17 92.9 7.3 57 38-94 288-344 (678)
26 TIGR01622 SF-CC1 splicing fact 99.3 3.2E-12 7E-17 92.1 7.1 53 42-94 186-238 (457)
27 COG0724 RNA-binding proteins ( 99.3 3.3E-12 7.2E-17 84.1 6.6 53 42-94 115-167 (306)
28 KOG4205|consensus 99.3 4.4E-12 9.5E-17 88.1 5.7 53 41-93 5-57 (311)
29 TIGR01628 PABP-1234 polyadenyl 99.3 7.4E-12 1.6E-16 92.5 7.1 55 39-94 282-336 (562)
30 KOG0107|consensus 99.3 5.4E-12 1.2E-16 80.7 5.3 50 40-94 8-57 (195)
31 KOG0124|consensus 99.3 2.4E-12 5.1E-17 90.5 3.0 51 42-92 113-163 (544)
32 KOG0148|consensus 99.3 1.2E-11 2.7E-16 83.7 5.9 53 40-92 60-112 (321)
33 smart00362 RRM_2 RNA recogniti 99.3 2.5E-11 5.4E-16 65.6 6.1 49 44-94 1-49 (72)
34 KOG0130|consensus 99.3 1.1E-11 2.4E-16 76.6 4.9 59 36-94 66-124 (170)
35 KOG0144|consensus 99.2 3.7E-12 7.9E-17 90.7 3.0 53 40-93 122-174 (510)
36 KOG0111|consensus 99.2 3.7E-12 8.1E-17 84.3 2.8 58 36-93 4-61 (298)
37 KOG0124|consensus 99.2 2.9E-12 6.2E-17 90.1 1.3 57 38-94 206-262 (544)
38 smart00360 RRM RNA recognition 99.2 3.7E-11 8.1E-16 64.6 5.5 48 47-94 1-48 (71)
39 KOG0108|consensus 99.2 2.5E-11 5.4E-16 87.5 5.3 52 43-94 19-70 (435)
40 KOG0147|consensus 99.2 1E-11 2.2E-16 90.2 3.2 51 43-93 279-329 (549)
41 KOG0145|consensus 99.2 1.1E-10 2.4E-15 79.1 7.7 57 37-93 36-92 (360)
42 KOG0131|consensus 99.2 2.5E-11 5.3E-16 78.2 4.2 57 38-94 5-61 (203)
43 KOG0145|consensus 99.2 1.2E-10 2.6E-15 78.9 6.7 55 40-94 276-330 (360)
44 KOG0148|consensus 99.1 1.3E-10 2.7E-15 78.9 6.3 52 36-93 158-209 (321)
45 KOG0114|consensus 99.1 4.2E-10 9.2E-15 66.8 7.1 53 38-93 14-66 (124)
46 KOG4207|consensus 99.1 1.2E-10 2.6E-15 76.5 5.0 55 39-93 10-64 (256)
47 KOG0105|consensus 99.1 1.6E-10 3.6E-15 74.9 5.3 52 40-94 4-55 (241)
48 KOG0146|consensus 99.1 2.5E-10 5.4E-15 77.7 5.5 61 33-93 276-336 (371)
49 cd00590 RRM RRM (RNA recogniti 99.1 6.5E-10 1.4E-14 60.2 6.3 50 44-94 1-50 (74)
50 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.1 3.2E-10 6.8E-15 82.9 6.3 47 42-94 2-48 (481)
51 KOG4208|consensus 99.1 5.6E-10 1.2E-14 73.0 6.3 60 35-94 42-102 (214)
52 KOG4205|consensus 99.0 1.4E-09 3.1E-14 75.7 7.6 54 41-94 96-149 (311)
53 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.0 1.6E-09 3.6E-14 79.1 8.1 50 39-93 272-322 (481)
54 KOG0127|consensus 99.0 5.3E-10 1.1E-14 81.8 5.2 51 42-92 5-55 (678)
55 KOG0146|consensus 99.0 5.6E-10 1.2E-14 76.0 4.3 55 39-94 16-70 (371)
56 KOG0109|consensus 98.9 1.3E-09 2.8E-14 74.7 3.6 43 43-93 3-45 (346)
57 TIGR01642 U2AF_lg U2 snRNP aux 98.9 1.3E-08 2.7E-13 74.4 8.9 53 36-94 169-233 (509)
58 KOG0131|consensus 98.9 9.7E-10 2.1E-14 70.9 2.6 54 41-94 95-149 (203)
59 KOG4209|consensus 98.9 2.4E-09 5.2E-14 71.9 3.5 60 36-95 95-154 (231)
60 KOG0415|consensus 98.8 3E-09 6.5E-14 74.7 3.6 54 41-94 238-291 (479)
61 TIGR01648 hnRNP-R-Q heterogene 98.8 1.4E-08 2.9E-13 75.8 6.8 46 41-94 232-279 (578)
62 KOG0117|consensus 98.8 7.8E-09 1.7E-13 74.2 4.4 48 38-93 255-302 (506)
63 KOG0116|consensus 98.8 3.6E-08 7.8E-13 71.1 7.2 53 41-93 287-339 (419)
64 KOG4212|consensus 98.7 7.6E-08 1.6E-12 69.4 8.5 55 39-94 41-96 (608)
65 KOG0123|consensus 98.7 2E-08 4.4E-13 71.5 5.1 47 45-94 79-125 (369)
66 smart00361 RRM_1 RNA recogniti 98.7 2.7E-08 5.9E-13 55.0 4.5 39 56-94 2-47 (70)
67 KOG4661|consensus 98.7 7E-08 1.5E-12 71.6 7.8 57 37-93 400-456 (940)
68 KOG0110|consensus 98.7 2E-08 4.4E-13 75.2 3.8 58 36-93 607-664 (725)
69 KOG0153|consensus 98.6 6.6E-08 1.4E-12 67.6 5.6 54 34-93 220-273 (377)
70 KOG0123|consensus 98.5 3.6E-07 7.9E-12 65.2 5.5 55 39-94 267-321 (369)
71 KOG0226|consensus 98.4 3E-07 6.5E-12 62.2 4.4 56 38-93 186-241 (290)
72 PF04059 RRM_2: RNA recognitio 98.4 1.4E-06 3.1E-11 51.3 6.0 51 43-93 2-54 (97)
73 KOG0109|consensus 98.4 3.9E-07 8.5E-12 62.7 3.7 47 39-93 75-121 (346)
74 KOG0132|consensus 98.4 5.3E-07 1.2E-11 68.5 4.5 46 41-92 420-465 (894)
75 KOG4206|consensus 98.3 3.5E-06 7.5E-11 56.0 6.0 49 42-93 9-61 (221)
76 KOG0533|consensus 98.2 2.9E-06 6.4E-11 57.4 5.3 55 38-93 79-133 (243)
77 PF13893 RRM_5: RNA recognitio 98.1 5.4E-06 1.2E-10 43.6 4.1 30 59-93 1-30 (56)
78 KOG4454|consensus 98.1 1.3E-06 2.9E-11 58.1 2.0 54 40-95 7-60 (267)
79 KOG0151|consensus 98.1 1.1E-05 2.4E-10 61.2 6.6 58 36-93 168-228 (877)
80 KOG0147|consensus 98.1 1E-06 2.2E-11 64.7 0.9 57 37-93 174-230 (549)
81 KOG4210|consensus 98.0 3.1E-06 6.7E-11 58.6 2.4 57 37-93 179-236 (285)
82 KOG0120|consensus 98.0 1.6E-05 3.4E-10 58.6 4.9 58 38-95 285-342 (500)
83 KOG0106|consensus 97.9 7.5E-06 1.6E-10 54.5 2.9 44 43-94 2-45 (216)
84 KOG1548|consensus 97.9 9.6E-05 2.1E-09 52.1 7.9 54 37-91 129-190 (382)
85 KOG4212|consensus 97.9 2.5E-05 5.5E-10 56.7 4.9 52 38-94 532-583 (608)
86 KOG0110|consensus 97.9 2E-05 4.4E-10 59.5 4.3 52 42-93 515-569 (725)
87 KOG4211|consensus 97.9 5.7E-05 1.2E-09 55.2 6.5 54 38-94 6-59 (510)
88 KOG4849|consensus 97.9 2E-05 4.4E-10 55.8 3.9 55 39-93 77-133 (498)
89 KOG0129|consensus 97.8 6.1E-05 1.3E-09 55.3 6.2 56 38-94 255-316 (520)
90 KOG0129|consensus 97.8 7.7E-05 1.7E-09 54.8 6.0 58 37-94 365-423 (520)
91 KOG4660|consensus 97.8 5.9E-05 1.3E-09 55.7 5.1 50 39-93 72-121 (549)
92 KOG1457|consensus 97.6 0.00033 7.1E-09 47.1 6.8 57 38-94 30-87 (284)
93 KOG1190|consensus 97.4 0.00026 5.6E-09 51.1 4.7 51 38-94 24-74 (492)
94 KOG1995|consensus 97.3 0.00065 1.4E-08 48.0 5.1 56 39-94 63-126 (351)
95 PF08777 RRM_3: RNA binding mo 97.2 0.00089 1.9E-08 39.9 4.8 46 43-94 2-47 (105)
96 KOG1457|consensus 97.2 0.00033 7.1E-09 47.1 2.7 48 42-93 210-257 (284)
97 KOG4211|consensus 97.0 0.0036 7.9E-08 46.1 6.6 54 40-94 101-155 (510)
98 KOG4206|consensus 96.9 0.0029 6.3E-08 42.3 5.3 52 38-94 142-193 (221)
99 KOG1855|consensus 96.5 0.0038 8.2E-08 45.4 3.8 60 34-93 223-295 (484)
100 PF14605 Nup35_RRM_2: Nup53/35 96.5 0.0094 2E-07 31.2 4.3 44 43-93 2-45 (53)
101 KOG0128|consensus 96.4 0.002 4.2E-08 50.1 2.1 52 42-94 736-787 (881)
102 KOG3152|consensus 96.1 0.0081 1.7E-07 41.1 3.4 40 41-80 73-112 (278)
103 KOG0128|consensus 96.0 0.0012 2.7E-08 51.1 -0.9 54 41-94 666-719 (881)
104 KOG1190|consensus 95.9 0.067 1.5E-06 39.0 7.4 47 42-93 297-344 (492)
105 KOG0115|consensus 95.7 0.0095 2.1E-07 40.7 2.4 50 43-93 32-81 (275)
106 PF08675 RNA_bind: RNA binding 95.5 0.13 2.8E-06 29.6 6.2 36 41-78 8-43 (87)
107 KOG0112|consensus 95.4 0.011 2.5E-07 46.4 2.2 54 38-92 368-421 (975)
108 KOG1365|consensus 95.3 0.14 3E-06 37.3 7.3 53 41-94 160-216 (508)
109 KOG2314|consensus 95.0 0.026 5.6E-07 42.6 3.0 54 40-94 56-115 (698)
110 KOG0106|consensus 94.9 0.02 4.3E-07 38.4 2.1 49 38-94 95-143 (216)
111 KOG4307|consensus 94.2 0.36 7.8E-06 37.7 7.5 53 42-94 867-919 (944)
112 KOG1365|consensus 93.3 0.086 1.9E-06 38.3 2.8 52 42-94 280-334 (508)
113 KOG4676|consensus 93.3 0.16 3.4E-06 37.0 4.0 52 42-93 7-61 (479)
114 KOG0112|consensus 93.2 0.34 7.4E-06 38.5 6.0 50 38-93 451-500 (975)
115 KOG0105|consensus 93.0 0.4 8.6E-06 31.8 5.3 47 40-93 113-159 (241)
116 KOG1456|consensus 92.2 1.5 3.2E-05 32.1 7.7 48 40-93 29-76 (494)
117 PF03467 Smg4_UPF3: Smg-4/UPF3 92.0 0.25 5.5E-06 32.0 3.5 55 40-94 5-65 (176)
118 COG5175 MOT2 Transcriptional r 92.0 0.28 6E-06 35.2 3.9 52 42-93 114-174 (480)
119 KOG4307|consensus 90.9 0.9 1.9E-05 35.6 5.8 56 37-93 429-485 (944)
120 KOG2253|consensus 90.6 0.33 7.2E-06 37.3 3.4 48 37-93 35-82 (668)
121 KOG4410|consensus 87.3 3 6.4E-05 29.5 5.9 47 41-93 329-376 (396)
122 KOG1456|consensus 86.3 8.5 0.00018 28.3 7.9 52 38-94 283-335 (494)
123 PF11608 Limkain-b1: Limkain b 85.4 3.3 7.1E-05 24.0 4.5 42 43-94 3-49 (90)
124 KOG2193|consensus 85.0 0.65 1.4E-05 34.4 1.9 44 43-94 2-47 (584)
125 KOG2416|consensus 84.9 0.56 1.2E-05 36.0 1.5 50 38-93 440-490 (718)
126 KOG4210|consensus 84.5 0.51 1.1E-05 32.9 1.1 54 40-93 86-139 (285)
127 KOG0120|consensus 84.3 1.9 4.1E-05 32.5 4.0 37 57-93 424-463 (500)
128 KOG2068|consensus 83.4 0.88 1.9E-05 32.3 2.0 53 41-93 76-134 (327)
129 KOG2891|consensus 83.0 1.4 3.1E-05 31.0 2.8 38 38-75 145-194 (445)
130 PF15513 DUF4651: Domain of un 82.0 4.5 9.8E-05 21.9 3.9 18 57-74 9-26 (62)
131 KOG4454|consensus 78.3 0.49 1.1E-05 32.1 -0.6 52 39-91 77-132 (267)
132 PF05172 Nup35_RRM: Nup53/35/4 78.3 6.8 0.00015 23.1 4.3 32 41-73 5-36 (100)
133 KOG4676|consensus 75.8 0.45 9.7E-06 34.7 -1.4 34 41-74 150-183 (479)
134 PF03468 XS: XS domain; Inter 73.3 5 0.00011 24.3 2.9 36 55-93 30-65 (116)
135 KOG2591|consensus 73.3 14 0.0003 28.5 5.6 51 37-94 170-222 (684)
136 KOG2135|consensus 72.5 2 4.3E-05 32.2 1.1 37 41-77 371-408 (526)
137 KOG4660|consensus 72.1 4.8 0.0001 30.6 3.0 52 42-93 361-440 (549)
138 PF15063 TC1: Thyroid cancer p 70.3 4.2 9E-05 22.9 1.9 35 35-69 18-52 (79)
139 KOG4483|consensus 66.1 14 0.00031 27.4 4.3 52 37-95 386-438 (528)
140 COG0724 RNA-binding proteins ( 65.4 15 0.00032 23.7 4.1 42 37-78 220-261 (306)
141 PF10309 DUF2414: Protein of u 64.8 20 0.00044 19.3 5.1 37 41-78 4-43 (62)
142 PF10567 Nab6_mRNP_bdg: RNA-re 62.8 8 0.00017 27.3 2.5 40 39-78 12-51 (309)
143 PF04026 SpoVG: SpoVG; InterP 61.7 20 0.00043 20.5 3.6 27 68-94 2-28 (84)
144 PHA03075 glutaredoxin-like pro 58.2 22 0.00048 21.8 3.5 34 59-95 59-92 (123)
145 PF09707 Cas_Cas2CT1978: CRISP 57.0 31 0.00068 19.8 3.9 47 42-91 25-71 (86)
146 COG0030 KsgA Dimethyladenosine 55.5 12 0.00027 25.8 2.4 36 43-78 96-131 (259)
147 KOG1548|consensus 55.2 22 0.00047 25.8 3.6 51 39-93 262-323 (382)
148 PF07292 NID: Nmi/IFP 35 domai 51.6 13 0.00028 21.5 1.7 27 39-65 49-75 (88)
149 KOG4008|consensus 51.3 14 0.0003 25.4 2.1 36 37-72 35-70 (261)
150 PF07576 BRAP2: BRCA1-associat 50.0 55 0.0012 19.6 7.0 52 41-94 11-64 (110)
151 PF08206 OB_RNB: Ribonuclease 49.5 13 0.00028 19.4 1.4 12 82-93 6-17 (58)
152 PF11411 DNA_ligase_IV: DNA li 49.5 13 0.00028 17.9 1.3 16 52-67 19-34 (36)
153 PRK11558 putative ssRNA endonu 49.5 37 0.0008 20.0 3.5 49 42-93 27-75 (97)
154 KOG0862|consensus 47.5 19 0.00041 24.3 2.3 15 80-94 105-119 (216)
155 PF05189 RTC_insert: RNA 3'-te 47.3 31 0.00067 20.0 3.0 47 44-92 12-65 (103)
156 PF15023 DUF4523: Protein of u 44.2 33 0.00073 21.9 2.9 48 39-93 83-134 (166)
157 PRK15464 cold shock-like prote 43.8 13 0.00028 20.4 0.9 10 83-92 15-24 (70)
158 KOG2318|consensus 42.5 51 0.0011 25.7 4.1 37 39-75 171-212 (650)
159 PRK09937 stationary phase/star 42.2 15 0.00033 20.3 1.1 9 83-91 12-20 (74)
160 PRK15463 cold shock-like prote 41.8 15 0.00033 20.1 1.0 10 83-92 15-24 (70)
161 PHA02531 20 portal vertex prot 41.8 20 0.00044 27.2 1.9 43 38-84 277-319 (514)
162 PRK14998 cold shock-like prote 41.1 16 0.00035 20.1 1.0 10 83-92 12-21 (73)
163 PRK09507 cspE cold shock prote 40.9 15 0.00033 19.9 0.9 10 83-92 14-23 (69)
164 PRK10943 cold shock-like prote 39.8 16 0.00035 19.8 0.9 10 83-92 14-23 (69)
165 PRK12280 rplW 50S ribosomal pr 39.8 1E+02 0.0022 19.8 5.0 32 44-75 23-56 (158)
166 PF13046 DUF3906: Protein of u 39.6 49 0.0011 18.0 2.7 35 53-89 29-63 (64)
167 cd00874 RNA_Cyclase_Class_II R 39.5 52 0.0011 23.5 3.6 48 44-93 188-239 (326)
168 TIGR02381 cspD cold shock doma 39.4 18 0.00039 19.5 1.1 10 83-92 12-21 (68)
169 TIGR01873 cas_CT1978 CRISPR-as 39.1 28 0.00061 20.1 1.8 49 42-93 25-74 (87)
170 PRK09890 cold shock protein Cs 37.8 18 0.0004 19.6 0.9 10 83-92 15-24 (70)
171 PF14893 PNMA: PNMA 37.5 35 0.00075 24.5 2.5 52 42-95 18-73 (331)
172 PRK10354 RNA chaperone/anti-te 37.3 19 0.00041 19.5 0.9 9 84-92 16-24 (70)
173 COG5584 Predicted small secret 36.6 45 0.00098 19.7 2.5 31 49-79 29-59 (103)
174 PRK05738 rplW 50S ribosomal pr 36.5 87 0.0019 18.0 4.9 32 44-75 21-54 (92)
175 PF07230 Peptidase_S80: Bacter 35.4 35 0.00075 25.9 2.3 39 42-84 278-316 (501)
176 PRK00274 ksgA 16S ribosomal RN 34.9 44 0.00094 22.9 2.6 35 44-78 107-141 (272)
177 CHL00030 rpl23 ribosomal prote 34.5 97 0.0021 18.0 5.0 33 44-76 20-54 (93)
178 PF00313 CSD: 'Cold-shock' DNA 33.5 35 0.00077 17.8 1.6 11 83-93 11-21 (66)
179 PTZ00338 dimethyladenosine tra 33.0 42 0.00091 23.5 2.3 35 44-78 103-137 (294)
180 PF06613 KorB_C: KorB C-termin 33.0 76 0.0016 17.0 2.7 22 71-93 19-40 (60)
181 cd04458 CSP_CDS Cold-Shock Pro 32.8 28 0.00062 18.1 1.2 10 84-93 12-21 (65)
182 PHA01632 hypothetical protein 32.5 47 0.001 17.6 1.9 20 46-65 20-39 (64)
183 KOG1996|consensus 31.9 92 0.002 22.4 3.8 37 56-92 300-337 (378)
184 COG0481 LepA Membrane GTPase L 31.4 1.2E+02 0.0026 23.5 4.5 48 40-88 295-343 (603)
185 KOG4285|consensus 31.1 2E+02 0.0044 20.7 7.4 45 42-93 197-241 (350)
186 cd00027 BRCT Breast Cancer Sup 30.4 77 0.0017 15.6 2.9 26 43-68 2-27 (72)
187 PF08952 DUF1866: Domain of un 26.8 1.3E+02 0.0028 19.1 3.5 29 57-93 51-79 (146)
188 PF14794 DUF4479: Domain of un 25.9 48 0.001 18.3 1.3 31 62-95 8-38 (73)
189 KOG4574|consensus 25.1 21 0.00046 28.9 -0.3 37 42-78 298-334 (1007)
190 PF11249 DUF3047: Protein of u 25.0 2E+02 0.0044 18.7 4.5 32 57-88 145-177 (183)
191 PF00398 RrnaAD: Ribosomal RNA 24.5 73 0.0016 21.6 2.3 32 41-72 96-129 (262)
192 smart00650 rADc Ribosomal RNA 24.4 1.2E+02 0.0026 18.9 3.1 33 44-76 79-111 (169)
193 COG5638 Uncharacterized conser 24.3 1.5E+02 0.0033 22.4 3.9 37 39-75 143-184 (622)
194 PF15407 Spo7_2_N: Sporulation 23.9 56 0.0012 17.8 1.3 23 39-61 24-46 (67)
195 KOG3424|consensus 23.5 1.3E+02 0.0029 18.5 3.0 37 53-89 34-75 (132)
196 COG1278 CspC Cold shock protei 22.8 38 0.00083 18.5 0.5 11 82-92 11-21 (67)
197 TIGR00755 ksgA dimethyladenosi 21.6 1.6E+02 0.0034 19.8 3.4 33 44-77 96-128 (253)
198 KOG4365|consensus 21.4 57 0.0012 24.7 1.3 50 43-92 4-53 (572)
199 cd00295 RNA_Cyclase RNA 3' pho 20.8 1.5E+02 0.0033 21.2 3.4 49 44-92 192-245 (338)
200 PF03672 UPF0154: Uncharacteri 20.7 91 0.002 16.9 1.7 18 51-68 29-46 (64)
201 KOG0804|consensus 20.4 4E+02 0.0087 20.4 5.5 51 42-94 74-125 (493)
202 cd04489 ExoVII_LU_OBF ExoVII_L 20.1 86 0.0019 16.6 1.6 11 84-94 16-26 (78)
203 KOG3346|consensus 20.1 2.7E+02 0.0059 18.3 5.3 45 40-93 84-130 (185)
No 1
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.70 E-value=1.5e-16 Score=99.89 Aligned_cols=58 Identities=50% Similarity=0.793 Sum_probs=53.8
Q ss_pred CCCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 37 QKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 37 ~~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
......++|||+|||+++++++|+++|.+||.|.++.+++|+.|++++|||||+|++.
T Consensus 29 ~~~~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~ 86 (144)
T PLN03134 29 SLRLMSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDE 86 (144)
T ss_pred cccCCCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCH
Confidence 3455678999999999999999999999999999999999999999999999999874
No 2
>KOG0149|consensus
Probab=99.69 E-value=4.8e-17 Score=107.60 Aligned_cols=57 Identities=56% Similarity=0.911 Sum_probs=53.8
Q ss_pred CCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 38 KDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 38 ~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
.+..-++||||+|+|.++.+.|++.|++||+|.+..++.|+.||++||||||+|.|.
T Consensus 8 ~DT~~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~ 64 (247)
T KOG0149|consen 8 GDTTFTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDA 64 (247)
T ss_pred CCceEEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecH
Confidence 455678999999999999999999999999999999999999999999999999885
No 3
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.62 E-value=4.6e-15 Score=103.54 Aligned_cols=55 Identities=33% Similarity=0.520 Sum_probs=51.7
Q ss_pred CCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 40 TTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 40 ~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
..+.+|||+|||+++++++|+++|++||.|.++++++|+.||++||||||+|++.
T Consensus 267 ~~~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~ 321 (352)
T TIGR01661 267 GAGYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNY 321 (352)
T ss_pred CCCcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCH
Confidence 4556899999999999999999999999999999999999999999999999874
No 4
>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=99.59 E-value=1.1e-14 Score=102.56 Aligned_cols=58 Identities=33% Similarity=0.456 Sum_probs=53.9
Q ss_pred CCCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 37 QKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 37 ~~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
......++|||++||+++++++|+++|+.||.|.+|+|++|+.|++++|||||+|.+.
T Consensus 102 ~~~~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~ 159 (346)
T TIGR01659 102 DTNNSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSE 159 (346)
T ss_pred CCCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccH
Confidence 3455788999999999999999999999999999999999999999999999999873
No 5
>KOG0126|consensus
Probab=99.59 E-value=4.4e-16 Score=100.02 Aligned_cols=63 Identities=30% Similarity=0.545 Sum_probs=58.5
Q ss_pred CCCCCCCCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 32 VGNSQQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 32 ~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
..+..+...+...|||||||+++||.+|.-+|++||+|.+|.+++|+.||+++||||+.|+++
T Consensus 25 ~~SWH~~YkdsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQ 87 (219)
T KOG0126|consen 25 KKSWHQEYKDSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQ 87 (219)
T ss_pred ccchhhhcccceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCc
Confidence 345566778889999999999999999999999999999999999999999999999999986
No 6
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.59 E-value=4.6e-15 Score=103.54 Aligned_cols=54 Identities=37% Similarity=0.576 Sum_probs=51.2
Q ss_pred CccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 41 TWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 41 ~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
...+|||+|||+++++++|+++|.+||.|.+|++++|+.+|+++|||||+|.+.
T Consensus 2 ~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~ 55 (352)
T TIGR01661 2 SKTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRP 55 (352)
T ss_pred CCcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcH
Confidence 467999999999999999999999999999999999999999999999999863
No 7
>KOG0113|consensus
Probab=99.56 E-value=1.1e-14 Score=99.29 Aligned_cols=57 Identities=33% Similarity=0.647 Sum_probs=53.4
Q ss_pred CCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 38 KDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 38 ~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
....-++|||+-|+.+++|..|+..|..||.|+.++|++|+.||+++|||||+|++.
T Consensus 97 ~gDPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~e 153 (335)
T KOG0113|consen 97 IGDPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHE 153 (335)
T ss_pred cCCccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccH
Confidence 345678999999999999999999999999999999999999999999999999863
No 8
>KOG0122|consensus
Probab=99.52 E-value=1.1e-13 Score=92.31 Aligned_cols=56 Identities=27% Similarity=0.420 Sum_probs=52.6
Q ss_pred CCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 38 KDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 38 ~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
.-.+..+|-|.||+.+++|++|+++|.+||.|.++.+.+|+.||.+||||||+|.+
T Consensus 185 ~R~D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~s 240 (270)
T KOG0122|consen 185 ERDDEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFES 240 (270)
T ss_pred cCCccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEec
Confidence 33467789999999999999999999999999999999999999999999999986
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=99.52 E-value=5.9e-14 Score=103.95 Aligned_cols=59 Identities=29% Similarity=0.397 Sum_probs=53.5
Q ss_pred CCCCCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 35 SQQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 35 ~~~~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
........++|||+|||++++|++|+++|++||.|.+++|++| .+|+++|||||+|.+.
T Consensus 51 ~~~~p~~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D-~sG~sRGfaFV~F~~~ 109 (578)
T TIGR01648 51 SGVQPGRGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMD-FSGQNRGYAFVTFCGK 109 (578)
T ss_pred cCCCCCCCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEEC-CCCCccceEEEEeCCH
Confidence 3344556799999999999999999999999999999999999 7999999999999873
No 10
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=99.51 E-value=5e-14 Score=77.13 Aligned_cols=49 Identities=45% Similarity=0.776 Sum_probs=46.6
Q ss_pred EEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 45 l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
|||+|||.++++++|+++|++||.|..+.+..+ .+++++|||||+|++.
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~-~~~~~~~~a~V~F~~~ 49 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRN-SSGKSKGYAFVEFESE 49 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEE-TTSSEEEEEEEEESSH
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhccccccccc-ccccccceEEEEEcCH
Confidence 799999999999999999999999999999998 7899999999999874
No 11
>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=99.50 E-value=5e-14 Score=104.71 Aligned_cols=55 Identities=25% Similarity=0.547 Sum_probs=52.1
Q ss_pred CCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 40 TTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 40 ~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
...++||||||++++++++|+++|.+||.|.+|++++|+.||+++|||||+|++.
T Consensus 105 ~~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~ 159 (612)
T TIGR01645 105 AIMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVP 159 (612)
T ss_pred cCCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcH
Confidence 3568999999999999999999999999999999999999999999999999874
No 12
>KOG0117|consensus
Probab=99.50 E-value=6.9e-14 Score=99.60 Aligned_cols=66 Identities=27% Similarity=0.426 Sum_probs=60.3
Q ss_pred CCCCCCCCCCCCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 28 TTPSVGNSQQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 28 ~~~~~~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
..+++.+..+....++.||||.||.|+.|++|..+|++-|+|-+++||+|+.+|.+||||||+|.+
T Consensus 69 ggPpP~weg~~p~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~ 134 (506)
T KOG0117|consen 69 GGPPPGWEGPPPPRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCT 134 (506)
T ss_pred CCCCCcccCCCCCCCceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeec
Confidence 344555777777899999999999999999999999999999999999999999999999999964
No 13
>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=99.48 E-value=1.2e-13 Score=97.35 Aligned_cols=54 Identities=33% Similarity=0.513 Sum_probs=51.0
Q ss_pred CCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 40 TTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 40 ~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
...++|||+|||+++++++|+++|++||.|.++++++|+.+|++||||||+|++
T Consensus 191 ~~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~ 244 (346)
T TIGR01659 191 IKDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNK 244 (346)
T ss_pred cccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECC
Confidence 346789999999999999999999999999999999999999999999999986
No 14
>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=99.46 E-value=2.1e-13 Score=101.41 Aligned_cols=55 Identities=16% Similarity=0.457 Sum_probs=52.0
Q ss_pred CCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 40 TTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 40 ~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
...++|||+||++++++++|+++|+.||.|.++++++|+.+|++||||||+|++.
T Consensus 202 ~~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~ 256 (612)
T TIGR01645 202 KKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNL 256 (612)
T ss_pred cccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCH
Confidence 4567999999999999999999999999999999999999999999999999874
No 15
>KOG0144|consensus
Probab=99.45 E-value=3.4e-13 Score=95.86 Aligned_cols=58 Identities=38% Similarity=0.631 Sum_probs=53.8
Q ss_pred CCCCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 36 QQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 36 ~~~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
..++.+.-++|||.+|..++|.+|+++|++||.|.+|.+++|+.||.++|||||.|.+
T Consensus 28 d~~d~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~t 85 (510)
T KOG0144|consen 28 DNPDGSAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYT 85 (510)
T ss_pred CCCCchhhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEecc
Confidence 3445778899999999999999999999999999999999999999999999999964
No 16
>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=99.43 E-value=6.1e-13 Score=95.85 Aligned_cols=55 Identities=25% Similarity=0.408 Sum_probs=52.0
Q ss_pred CCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 39 DTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 39 ~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
+...++|||+|||.++++++|+++|.+||.|.+|++++|+.+|+++|||||+|.+
T Consensus 86 ~~~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~ 140 (457)
T TIGR01622 86 ERDDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYD 140 (457)
T ss_pred ccCCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECC
Confidence 3457899999999999999999999999999999999999999999999999986
No 17
>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=99.43 E-value=5.8e-13 Score=73.41 Aligned_cols=49 Identities=39% Similarity=0.725 Sum_probs=44.6
Q ss_pred EEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 45 l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
|||+|||+++++++|+++|..||.|..+.+..++. |+.+|+|||+|.+.
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~-~~~~~~a~v~f~~~ 49 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKD-GQSRGFAFVEFSSE 49 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTT-SSEEEEEEEEESSH
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeec-cccCCEEEEEeCCH
Confidence 79999999999999999999999999999999976 99999999999874
No 18
>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=99.41 E-value=5e-13 Score=98.68 Aligned_cols=51 Identities=33% Similarity=0.488 Sum_probs=49.2
Q ss_pred EEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 44 KLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 44 ~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
+|||+|||++++|++|+++|.+||.|.+|++++|+.|++++|||||+|.+.
T Consensus 2 sl~VgnLp~~vte~~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~ 52 (562)
T TIGR01628 2 SLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNP 52 (562)
T ss_pred eEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCH
Confidence 699999999999999999999999999999999999999999999999873
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=99.41 E-value=2.7e-12 Score=93.48 Aligned_cols=54 Identities=28% Similarity=0.555 Sum_probs=51.4
Q ss_pred CCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 40 TTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 40 ~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
...++|||+|||+.+++++|+++|+.||.|..+.+++|+.+|+++|||||+|.+
T Consensus 293 ~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~ 346 (509)
T TIGR01642 293 DSKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKD 346 (509)
T ss_pred CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECC
Confidence 456899999999999999999999999999999999999999999999999986
No 20
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.41 E-value=7.7e-13 Score=89.49 Aligned_cols=49 Identities=20% Similarity=0.327 Sum_probs=45.4
Q ss_pred ccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 42 WTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 42 ~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
.++|||+||++.+++++|+++|+.||.|.+|.|++|+. ++|||||+|++
T Consensus 4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~---~~GfAFVtF~d 52 (260)
T PLN03120 4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENE---RSQIAYVTFKD 52 (260)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCC---CCCEEEEEeCc
Confidence 57999999999999999999999999999999998863 57999999986
No 21
>KOG0121|consensus
Probab=99.39 E-value=5.6e-13 Score=81.58 Aligned_cols=55 Identities=29% Similarity=0.402 Sum_probs=51.6
Q ss_pred CCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 39 DTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 39 ~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
...+++||||||++.++|++|.++|.++|.|+.|.+-.|+.+-.+.|||||+|-+
T Consensus 33 ~r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~ 87 (153)
T KOG0121|consen 33 LRKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYS 87 (153)
T ss_pred HhhcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEec
Confidence 3568999999999999999999999999999999999999999999999999954
No 22
>KOG0125|consensus
Probab=99.39 E-value=2.4e-12 Score=88.96 Aligned_cols=54 Identities=30% Similarity=0.560 Sum_probs=49.0
Q ss_pred CCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 38 KDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 38 ~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
....+++|+|+|+||...|.||+..|++||+|.+|.|+.+. .-+||||||+|++
T Consensus 92 s~~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNE--RGSKGFGFVTmen 145 (376)
T KOG0125|consen 92 SKDTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNE--RGSKGFGFVTMEN 145 (376)
T ss_pred CCCCCceeEeecCCccccCccHHHHHHhhCceeeEEEEecc--CCCCccceEEecC
Confidence 34568899999999999999999999999999999999983 5689999999985
No 23
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.37 E-value=1.9e-12 Score=86.63 Aligned_cols=50 Identities=22% Similarity=0.183 Sum_probs=45.9
Q ss_pred CccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 41 TWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 41 ~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
.+.+|||+||++.+++++|+++|+.||.|.+|+|++|. +.+|||||+|.+
T Consensus 4 ~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~---et~gfAfVtF~d 53 (243)
T PLN03121 4 GGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSG---EYACTAYVTFKD 53 (243)
T ss_pred CceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCC---CcceEEEEEECC
Confidence 56899999999999999999999999999999999984 556899999987
No 24
>PLN03213 repressor of silencing 3; Provisional
Probab=99.36 E-value=2e-12 Score=93.73 Aligned_cols=53 Identities=23% Similarity=0.369 Sum_probs=47.3
Q ss_pred CCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 38 KDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 38 ~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
......+||||||++++++++|+.+|..||.|.+|.|++ .|| ||||||+|.+-
T Consensus 6 s~~~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpR--ETG--RGFAFVEMssd 58 (759)
T PLN03213 6 SGGGGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVR--TKG--RSFAYIDFSPS 58 (759)
T ss_pred cCCcceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEec--ccC--CceEEEEecCC
Confidence 345568999999999999999999999999999999994 577 99999999863
No 25
>KOG0127|consensus
Probab=99.34 E-value=3.6e-12 Score=92.92 Aligned_cols=57 Identities=39% Similarity=0.690 Sum_probs=53.2
Q ss_pred CCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 38 KDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 38 ~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
......+|||.|||+++++++|.++|.+||.|..+.++.|+.|+.++|.|||.|.+.
T Consensus 288 n~~~~~tVFvRNL~fD~tEEel~~~fskFG~v~ya~iV~~k~T~~skGtAFv~Fkt~ 344 (678)
T KOG0127|consen 288 NITEGKTVFVRNLPFDTTEEELKEHFSKFGEVKYAIIVKDKDTGHSKGTAFVKFKTQ 344 (678)
T ss_pred cccccceEEEecCCccccHHHHHHHHHhhccceeEEEEeccCCCCcccceEEEeccH
Confidence 345578999999999999999999999999999999999999999999999999864
No 26
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=99.34 E-value=3.2e-12 Score=92.13 Aligned_cols=53 Identities=40% Similarity=0.760 Sum_probs=50.9
Q ss_pred ccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 42 WTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 42 ~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
.++|||+|||.++++++|+++|.+||.|..|.+++|+.+|+++|||||+|.+.
T Consensus 186 ~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~ 238 (457)
T TIGR01622 186 FLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDA 238 (457)
T ss_pred CCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCH
Confidence 68999999999999999999999999999999999999999999999999873
No 27
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.34 E-value=3.3e-12 Score=84.12 Aligned_cols=53 Identities=45% Similarity=0.788 Sum_probs=51.0
Q ss_pred ccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 42 WTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 42 ~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
.++|||+|||+++++++|+++|.+||.|..+.+..|+.+|+++|||||+|.+.
T Consensus 115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~ 167 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESE 167 (306)
T ss_pred CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCH
Confidence 69999999999999999999999999999999999999999999999999864
No 28
>KOG4205|consensus
Probab=99.30 E-value=4.4e-12 Score=88.06 Aligned_cols=53 Identities=51% Similarity=0.901 Sum_probs=51.6
Q ss_pred CccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 41 TWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 41 ~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
+.+++|||+|+|+++++.|++.|.+||+|.+|.+++|+.+++++||+||+|++
T Consensus 5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~ 57 (311)
T KOG4205|consen 5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFAT 57 (311)
T ss_pred CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCC
Confidence 78999999999999999999999999999999999999999999999999984
No 29
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=99.30 E-value=7.4e-12 Score=92.53 Aligned_cols=55 Identities=42% Similarity=0.566 Sum_probs=50.9
Q ss_pred CCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 39 DTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 39 ~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
.....+|||+||++++++++|+++|++||.|.+++++.| .+|+++|||||+|++.
T Consensus 282 ~~~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d-~~g~~~g~gfV~f~~~ 336 (562)
T TIGR01628 282 KAQGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLD-EKGVSRGFGFVCFSNP 336 (562)
T ss_pred ccCCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEEC-CCCCcCCeEEEEeCCH
Confidence 345678999999999999999999999999999999999 6899999999999873
No 30
>KOG0107|consensus
Probab=99.30 E-value=5.4e-12 Score=80.75 Aligned_cols=50 Identities=28% Similarity=0.429 Sum_probs=45.3
Q ss_pred CCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 40 TTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 40 ~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
...++||||||+.++++.+|+.+|..||.+.++.+.+++ .|||||+|++-
T Consensus 8 ~~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArnP-----PGfAFVEFed~ 57 (195)
T KOG0107|consen 8 NGNTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARNP-----PGFAFVEFEDP 57 (195)
T ss_pred CCCceEEeccCCCCcchHHHHHHHHhcCcceeEEEeecC-----CCceEEeccCc
Confidence 457899999999999999999999999999999887654 89999999973
No 31
>KOG0124|consensus
Probab=99.27 E-value=2.4e-12 Score=90.50 Aligned_cols=51 Identities=27% Similarity=0.609 Sum_probs=49.6
Q ss_pred ccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEec
Q psy17949 42 WTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPS 92 (96)
Q Consensus 42 ~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~ 92 (96)
-|++|||++.+.+.|+.|+..|.+||.|+++.+..|+.|++|||||||+|+
T Consensus 113 McRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYE 163 (544)
T KOG0124|consen 113 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYE 163 (544)
T ss_pred hHheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEe
Confidence 579999999999999999999999999999999999999999999999997
No 32
>KOG0148|consensus
Probab=99.26 E-value=1.2e-11 Score=83.73 Aligned_cols=53 Identities=45% Similarity=0.759 Sum_probs=49.9
Q ss_pred CCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEec
Q psy17949 40 TTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPS 92 (96)
Q Consensus 40 ~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~ 92 (96)
..-.-+|||-|..+++.+.|++.|.+||+|.++++++|..|+++||||||.|-
T Consensus 60 ~~hfhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~ 112 (321)
T KOG0148|consen 60 NQHFHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFP 112 (321)
T ss_pred ccceeEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEecc
Confidence 34568999999999999999999999999999999999999999999999984
No 33
>smart00362 RRM_2 RNA recognition motif.
Probab=99.26 E-value=2.5e-11 Score=65.58 Aligned_cols=49 Identities=45% Similarity=0.720 Sum_probs=45.6
Q ss_pred EEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 44 KLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 44 ~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
+|||+|||.++++++|+++|.+||.+..+.+..++ +.++|+|||+|.+.
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~--~~~~~~~~v~f~~~ 49 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDT--GKSKGFAFVEFESE 49 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCC--CCCCceEEEEeCCH
Confidence 58999999999999999999999999999998886 88999999999874
No 34
>KOG0130|consensus
Probab=99.25 E-value=1.1e-11 Score=76.64 Aligned_cols=59 Identities=25% Similarity=0.469 Sum_probs=55.3
Q ss_pred CCCCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 36 QQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 36 ~~~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
.+.+..+..|||.+++..++|+++.+.|..||+|+.+++-.|+.||..||||.|+|+++
T Consensus 66 PqrSVEGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~ 124 (170)
T KOG0130|consen 66 PQRSVEGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETL 124 (170)
T ss_pred CccceeeEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhH
Confidence 45667888999999999999999999999999999999999999999999999999875
No 35
>KOG0144|consensus
Probab=99.25 E-value=3.7e-12 Score=90.69 Aligned_cols=53 Identities=43% Similarity=0.619 Sum_probs=50.0
Q ss_pred CCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 40 TTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 40 ~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
.+.++||||.|+..++|.+++++|.+||.|++|+|++|. .|.+||||||.|++
T Consensus 122 ~~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~-~~~sRGcaFV~fst 174 (510)
T KOG0144|consen 122 VEERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDP-DGLSRGCAFVKFST 174 (510)
T ss_pred ccchhhhhhhccccccHHHHHHHHHhhCccchhhheecc-cccccceeEEEEeh
Confidence 457899999999999999999999999999999999995 79999999999985
No 36
>KOG0111|consensus
Probab=99.25 E-value=3.7e-12 Score=84.34 Aligned_cols=58 Identities=38% Similarity=0.576 Sum_probs=53.8
Q ss_pred CCCCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 36 QQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 36 ~~~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
+......++||||+|..+++|.-|...|-+||.|.+++++.|.++++|||||||+|+.
T Consensus 4 ~~~a~~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~ 61 (298)
T KOG0111|consen 4 QQMANQKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEE 61 (298)
T ss_pred ccccccceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeec
Confidence 3455678899999999999999999999999999999999999999999999999974
No 37
>KOG0124|consensus
Probab=99.22 E-value=2.9e-12 Score=90.08 Aligned_cols=57 Identities=16% Similarity=0.446 Sum_probs=52.5
Q ss_pred CCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 38 KDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 38 ~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
+.....+|||.++++++.|+||+.+|+.||+|.+|.+.+++.++.||||||++|+..
T Consensus 206 eAk~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~ 262 (544)
T KOG0124|consen 206 EAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNL 262 (544)
T ss_pred HHHhhheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccc
Confidence 345677999999999999999999999999999999999998899999999999753
No 38
>smart00360 RRM RNA recognition motif.
Probab=99.22 E-value=3.7e-11 Score=64.61 Aligned_cols=48 Identities=46% Similarity=0.748 Sum_probs=44.8
Q ss_pred EcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 47 VGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 47 v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
|+|||.++++++|+++|.+||.|..+.+..++.+++++|||||+|.+.
T Consensus 1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~ 48 (71)
T smart00360 1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESE 48 (71)
T ss_pred CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCH
Confidence 578999999999999999999999999999988899999999999863
No 39
>KOG0108|consensus
Probab=99.20 E-value=2.5e-11 Score=87.53 Aligned_cols=52 Identities=33% Similarity=0.624 Sum_probs=50.6
Q ss_pred cEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 43 TKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 43 ~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
+.+||||+|+++++++|.++|...|.|.+++++.|++||+++||||++|.+.
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~ 70 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDE 70 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCch
Confidence 8999999999999999999999999999999999999999999999999874
No 40
>KOG0147|consensus
Probab=99.20 E-value=1e-11 Score=90.22 Aligned_cols=51 Identities=37% Similarity=0.741 Sum_probs=48.4
Q ss_pred cEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 43 TKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 43 ~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
.+||||||++++++++|+.+|++||.|..+++++|.+||+++||||++|..
T Consensus 279 ~rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~ 329 (549)
T KOG0147|consen 279 RRLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVN 329 (549)
T ss_pred hhhhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEec
Confidence 349999999999999999999999999999999999999999999999964
No 41
>KOG0145|consensus
Probab=99.19 E-value=1.1e-10 Score=79.05 Aligned_cols=57 Identities=39% Similarity=0.599 Sum_probs=53.0
Q ss_pred CCCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 37 QKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 37 ~~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
..++...+|.|.-||..+|+++++.+|..-|+|++|++++|+.+|++-|||||.|.+
T Consensus 36 ~t~~skTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~ 92 (360)
T KOG0145|consen 36 DTDESKTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVR 92 (360)
T ss_pred CcCcccceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecC
Confidence 345667799999999999999999999999999999999999999999999999965
No 42
>KOG0131|consensus
Probab=99.19 E-value=2.5e-11 Score=78.16 Aligned_cols=57 Identities=28% Similarity=0.381 Sum_probs=53.2
Q ss_pred CCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 38 KDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 38 ~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
+.....+||||||+..++++-|.++|-+.|.|.++++++|+.+..++||||++|.+.
T Consensus 5 ~rnqd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~e 61 (203)
T KOG0131|consen 5 ERNQDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTE 61 (203)
T ss_pred ccCCCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEech
Confidence 345678999999999999999999999999999999999999999999999999865
No 43
>KOG0145|consensus
Probab=99.16 E-value=1.2e-10 Score=78.95 Aligned_cols=55 Identities=31% Similarity=0.458 Sum_probs=52.0
Q ss_pred CCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 40 TTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 40 ~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
..+.-|||-||.++++|.-|.++|.+||.|..+++++|..|.++||||||++..|
T Consensus 276 ~~g~ciFvYNLspd~de~~LWQlFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNY 330 (360)
T KOG0145|consen 276 GGGWCIFVYNLSPDADESILWQLFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNY 330 (360)
T ss_pred CCeeEEEEEecCCCchHhHHHHHhCcccceeeEEEEecCCcccccceeEEEecch
Confidence 4467899999999999999999999999999999999999999999999999877
No 44
>KOG0148|consensus
Probab=99.14 E-value=1.3e-10 Score=78.91 Aligned_cols=52 Identities=35% Similarity=0.572 Sum_probs=47.9
Q ss_pred CCCCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 36 QQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 36 ~~~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
++.+.+.++|||||++.-++|+.+++.|.+||.|.+|++.+| +||+||.|++
T Consensus 158 NQssp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~------qGYaFVrF~t 209 (321)
T KOG0148|consen 158 NQSSPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKD------QGYAFVRFET 209 (321)
T ss_pred ccCCCCCceEEeCCcCccccHHHHHHhcccCCcceEEEEecc------cceEEEEecc
Confidence 456678999999999999999999999999999999999888 6799999986
No 45
>KOG0114|consensus
Probab=99.12 E-value=4.2e-10 Score=66.78 Aligned_cols=53 Identities=21% Similarity=0.382 Sum_probs=46.9
Q ss_pred CCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 38 KDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 38 ~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
+.+..+-|||.|||+++|.++..++|++||.|.++++-.. ...+|-|||.|++
T Consensus 14 ppevnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~---k~TrGTAFVVYed 66 (124)
T KOG0114|consen 14 PPEVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNT---KETRGTAFVVYED 66 (124)
T ss_pred ChhhheeEEEecCCccccHHHHHHHhhcccceEEEEecCc---cCcCceEEEEehH
Confidence 4456789999999999999999999999999999999654 4568999999986
No 46
>KOG4207|consensus
Probab=99.11 E-value=1.2e-10 Score=76.48 Aligned_cols=55 Identities=33% Similarity=0.478 Sum_probs=51.0
Q ss_pred CCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 39 DTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 39 ~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
-..-..|-|-||.+.++.++|+.+|++||.|-+|.|++|+.|++++|||||.|-+
T Consensus 10 v~gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~ 64 (256)
T KOG4207|consen 10 VEGMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHD 64 (256)
T ss_pred cccceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeee
Confidence 3455689999999999999999999999999999999999999999999999954
No 47
>KOG0105|consensus
Probab=99.11 E-value=1.6e-10 Score=74.85 Aligned_cols=52 Identities=21% Similarity=0.356 Sum_probs=44.9
Q ss_pred CCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 40 TTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 40 ~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
...++|||||||.++.+.+++++|-+||.|.+|.+... -...+||||+|++-
T Consensus 4 r~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r---~g~ppfafVeFEd~ 55 (241)
T KOG0105|consen 4 RNSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNR---PGPPPFAFVEFEDP 55 (241)
T ss_pred cccceEEecCCCcchhhccHHHHHhhhcceEEEEeccC---CCCCCeeEEEecCc
Confidence 45789999999999999999999999999999987432 34567999999974
No 48
>KOG0146|consensus
Probab=99.08 E-value=2.5e-10 Score=77.66 Aligned_cols=61 Identities=34% Similarity=0.450 Sum_probs=56.4
Q ss_pred CCCCCCCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 33 GNSQQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 33 ~~~~~~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
...+.+..++|+|||-.||.+.++.+|.+.|.+||.|.+.++..|+.|+++|+||||.|+.
T Consensus 276 ~qqqreGPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDN 336 (371)
T KOG0146|consen 276 PQQQREGPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDN 336 (371)
T ss_pred hhhhhcCCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCC
Confidence 3345677899999999999999999999999999999999999999999999999999975
No 49
>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=99.08 E-value=6.5e-10 Score=60.21 Aligned_cols=50 Identities=44% Similarity=0.741 Sum_probs=45.5
Q ss_pred EEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 44 KLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 44 ~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
+|+|++||.++++++|+++|+.+|.|..+.+..++.+ .++|+|||+|.+.
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~-~~~~~~~v~f~s~ 50 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDT-KSKGFAFVEFEDE 50 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCC-CcceEEEEEECCH
Confidence 4899999999999999999999999999999988654 8899999999874
No 50
>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=99.07 E-value=3.2e-10 Score=82.88 Aligned_cols=47 Identities=17% Similarity=0.222 Sum_probs=42.9
Q ss_pred ccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 42 WTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 42 ~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
++.|||+|||+++++++|+++|++||.|.+|.++++ ||||||+|++.
T Consensus 2 s~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~~------k~~afVef~~~ 48 (481)
T TIGR01649 2 SPVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLPG------KRQALVEFEDE 48 (481)
T ss_pred ccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEECC------CCEEEEEeCch
Confidence 578999999999999999999999999999998853 57999999873
No 51
>KOG4208|consensus
Probab=99.06 E-value=5.6e-10 Score=73.03 Aligned_cols=60 Identities=20% Similarity=0.362 Sum_probs=53.2
Q ss_pred CCCCCCCccEEEEcCCCCCCCHHHHHHHhccC-CCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 35 SQQKDTTWTKLFVGGLPYHTTDKSLREHFSVF-GDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 35 ~~~~~~~~~~l~v~~l~~~~~~~~l~~~F~~~-G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
..+......-+|+..+|.-..+.++...|.+| |.++.+++.|++.||.+||||||+|++.
T Consensus 42 ~~p~~~~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~ 102 (214)
T KOG4208|consen 42 EKPEQEIEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESE 102 (214)
T ss_pred cCCccCCccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccH
Confidence 34455667789999999999999999999887 8899999999999999999999999974
No 52
>KOG4205|consensus
Probab=99.02 E-value=1.4e-09 Score=75.65 Aligned_cols=54 Identities=37% Similarity=0.752 Sum_probs=51.6
Q ss_pred CccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 41 TWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 41 ~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
...++|||+|+.+++++++++.|.+||.|..+.++.|..+.+++||+||.|.+.
T Consensus 96 ~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e 149 (311)
T KOG4205|consen 96 RTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSE 149 (311)
T ss_pred ceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccc
Confidence 467999999999999999999999999999999999999999999999999875
No 53
>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=99.02 E-value=1.6e-09 Score=79.15 Aligned_cols=50 Identities=18% Similarity=0.319 Sum_probs=45.2
Q ss_pred CCCccEEEEcCCCC-CCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 39 DTTWTKLFVGGLPY-HTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 39 ~~~~~~l~v~~l~~-~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
....++|||+||++ .+++++|+++|+.||.|.+|++++++ +|||||+|++
T Consensus 272 ~~~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~-----~g~afV~f~~ 322 (481)
T TIGR01649 272 GGPGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNK-----KETALIEMAD 322 (481)
T ss_pred CCCCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCC-----CCEEEEEECC
Confidence 34678999999998 69999999999999999999999873 6999999986
No 54
>KOG0127|consensus
Probab=99.01 E-value=5.3e-10 Score=81.83 Aligned_cols=51 Identities=41% Similarity=0.746 Sum_probs=49.3
Q ss_pred ccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEec
Q psy17949 42 WTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPS 92 (96)
Q Consensus 42 ~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~ 92 (96)
+.+|||++||++++.++|.+.|+.+|.|..|.++.++.++.+||||||+|+
T Consensus 5 g~TlfV~~lp~~~~~~qL~e~FS~vGPik~~~vVt~~gs~~~RGfgfVtFa 55 (678)
T KOG0127|consen 5 GATLFVSRLPFSSTGEQLEEFFSYVGPIKHAVVVTNKGSSEKRGFGFVTFA 55 (678)
T ss_pred CceEEEecCCCccchhHHHHhhhcccCcceeEEecCCCcccccCccceeee
Confidence 489999999999999999999999999999999999999999999999997
No 55
>KOG0146|consensus
Probab=98.99 E-value=5.6e-10 Score=75.97 Aligned_cols=55 Identities=36% Similarity=0.532 Sum_probs=50.7
Q ss_pred CCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 39 DTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 39 ~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
..++++||||-|.+.-.|+|++.+|.+||.|++|.+.+.+ .|.+|||+||.|.+-
T Consensus 16 g~~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~-dg~sKGCAFVKf~s~ 70 (371)
T KOG0146|consen 16 GGDDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGP-DGNSKGCAFVKFSSH 70 (371)
T ss_pred CccchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCC-CCCCCCceEEEeccc
Confidence 3478999999999999999999999999999999999885 799999999999874
No 56
>KOG0109|consensus
Probab=98.90 E-value=1.3e-09 Score=74.70 Aligned_cols=43 Identities=37% Similarity=0.733 Sum_probs=40.3
Q ss_pred cEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 43 TKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 43 ~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
-+|||||||..+++.+|+.+|++||+|..|+|+++ ||||..++
T Consensus 3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIvKN--------YgFVHiEd 45 (346)
T KOG0109|consen 3 VKLFIGNLPREATEQELRSLFEQYGKVLECDIVKN--------YGFVHIED 45 (346)
T ss_pred cchhccCCCcccchHHHHHHHHhhCceEeeeeecc--------cceEEeec
Confidence 47999999999999999999999999999999988 89998876
No 57
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=98.90 E-value=1.3e-08 Score=74.38 Aligned_cols=53 Identities=19% Similarity=0.401 Sum_probs=41.5
Q ss_pred CCCCCCccEEEEcCCCCCCCHHHHHHHhccC------------CCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 36 QQKDTTWTKLFVGGLPYHTTDKSLREHFSVF------------GDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 36 ~~~~~~~~~l~v~~l~~~~~~~~l~~~F~~~------------G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
.......++|||||||+++++++|+++|..+ +.|..+. .++.+|||||+|.+.
T Consensus 169 ~~~~~~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~------~~~~kg~afVeF~~~ 233 (509)
T TIGR01642 169 QQATRQARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVN------INKEKNFAFLEFRTV 233 (509)
T ss_pred ccCCccccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEE------ECCCCCEEEEEeCCH
Confidence 3456678899999999999999999999875 2333333 356689999999863
No 58
>KOG0131|consensus
Probab=98.89 E-value=9.7e-10 Score=70.87 Aligned_cols=54 Identities=31% Similarity=0.614 Sum_probs=49.7
Q ss_pred CccEEEEcCCCCCCCHHHHHHHhccCCCeeE-EEEeecCCCCCcccEEEEEeccC
Q psy17949 41 TWTKLFVGGLPYHTTDKSLREHFSVFGDIEE-AVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 41 ~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~-~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
-+.++||+||.+.++|..|.++|+.||.+.+ ..+++|+.||.++|||||.|+++
T Consensus 95 vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sf 149 (203)
T KOG0131|consen 95 VGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASF 149 (203)
T ss_pred ccccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhH
Confidence 3489999999999999999999999999866 47899999999999999999986
No 59
>KOG4209|consensus
Probab=98.85 E-value=2.4e-09 Score=71.89 Aligned_cols=60 Identities=27% Similarity=0.483 Sum_probs=55.8
Q ss_pred CCCCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccCC
Q psy17949 36 QQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFYL 95 (96)
Q Consensus 36 ~~~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~~ 95 (96)
...+.+.+.+||+|+.+.++.++++.+|+.||.|..+.+..|+.+|.+|||+||+|.++.
T Consensus 95 ~~~~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~ 154 (231)
T KOG4209|consen 95 RQKEVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYE 154 (231)
T ss_pred hhhccCCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHh
Confidence 356678999999999999999999999999999999999999999999999999999875
No 60
>KOG0415|consensus
Probab=98.83 E-value=3e-09 Score=74.74 Aligned_cols=54 Identities=41% Similarity=0.455 Sum_probs=50.8
Q ss_pred CccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 41 TWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 41 ~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
....|||-.|.+.+++++|+-+|+.||.|.+|.+++|..||.+-.||||+|+..
T Consensus 238 PeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~ 291 (479)
T KOG0415|consen 238 PENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENK 291 (479)
T ss_pred CcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecch
Confidence 445899999999999999999999999999999999999999999999999863
No 61
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=98.82 E-value=1.4e-08 Score=75.82 Aligned_cols=46 Identities=33% Similarity=0.441 Sum_probs=41.2
Q ss_pred CccEEEEcCCCCCCCHHHHHHHhccC--CCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 41 TWTKLFVGGLPYHTTDKSLREHFSVF--GDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 41 ~~~~l~v~~l~~~~~~~~l~~~F~~~--G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
..++|||+||++++++++|+++|++| |.|++|.++ ++||||+|++.
T Consensus 232 ~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~--------rgfAFVeF~s~ 279 (578)
T TIGR01648 232 KVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKI--------RDYAFVHFEDR 279 (578)
T ss_pred cccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEee--------cCeEEEEeCCH
Confidence 45789999999999999999999999 999999765 35999999873
No 62
>KOG0117|consensus
Probab=98.78 E-value=7.8e-09 Score=74.18 Aligned_cols=48 Identities=29% Similarity=0.412 Sum_probs=43.3
Q ss_pred CCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 38 KDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 38 ~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
.-.+-+.|||.||+.++|++.|+++|.+||+|++|+.++| ||||.|++
T Consensus 255 ~ms~VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~rD--------YaFVHf~e 302 (506)
T KOG0117|consen 255 TMSKVKVLYVRNLMESTTEETLKKLFNEFGKVERVKKPRD--------YAFVHFAE 302 (506)
T ss_pred hhhheeeeeeeccchhhhHHHHHHHHHhccceEEeecccc--------eeEEeecc
Confidence 3356779999999999999999999999999999988877 99999975
No 63
>KOG0116|consensus
Probab=98.76 E-value=3.6e-08 Score=71.06 Aligned_cols=53 Identities=32% Similarity=0.444 Sum_probs=45.4
Q ss_pred CccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 41 TWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 41 ~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
....|||+|||++++.++|++.|.+||.|+...|..-...++..+||||+|.+
T Consensus 287 ~~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~ 339 (419)
T KOG0116|consen 287 DGLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFEN 339 (419)
T ss_pred cccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEee
Confidence 44569999999999999999999999999999887654446666999999986
No 64
>KOG4212|consensus
Probab=98.75 E-value=7.6e-08 Score=69.37 Aligned_cols=55 Identities=22% Similarity=0.376 Sum_probs=49.6
Q ss_pred CCCccEEEEcCCCCCCCHHHHHHHh-ccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 39 DTTWTKLFVGGLPYHTTDKSLREHF-SVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 39 ~~~~~~l~v~~l~~~~~~~~l~~~F-~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
....+.+||.|+|+++...+|+++| ++-|+|+.|.+..| ++|++||||.|+|++-
T Consensus 41 ~~r~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D-~~GK~rGcavVEFk~~ 96 (608)
T KOG4212|consen 41 AARDRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFD-ESGKARGCAVVEFKDP 96 (608)
T ss_pred ccccceEEEecCcchhhhHhHHHHHHHhcCceEeeeeecc-cCCCcCCceEEEeeCH
Confidence 3456679999999999999999999 56899999999999 6899999999999863
No 65
>KOG0123|consensus
Probab=98.73 E-value=2e-08 Score=71.51 Aligned_cols=47 Identities=40% Similarity=0.600 Sum_probs=44.5
Q ss_pred EEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 45 LFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 45 l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
+||-||+++++..+|.+.|..||.|.+|++++|. .| ++|| ||.|++.
T Consensus 79 ~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~-~g-~kg~-FV~f~~e 125 (369)
T KOG0123|consen 79 VFIKNLDESIDNKSLYDTFSEFGNILSCKVATDE-NG-SKGY-FVQFESE 125 (369)
T ss_pred eeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcC-CC-ceee-EEEeCCH
Confidence 9999999999999999999999999999999995 56 9999 9999974
No 66
>smart00361 RRM_1 RNA recognition motif.
Probab=98.72 E-value=2.7e-08 Score=55.05 Aligned_cols=39 Identities=21% Similarity=0.406 Sum_probs=33.8
Q ss_pred HHHHHHHhc----cCCCeeEEE-EeecCCC--CCcccEEEEEeccC
Q psy17949 56 DKSLREHFS----VFGDIEEAV-VITDRQT--GKSRGYGFVSPSFY 94 (96)
Q Consensus 56 ~~~l~~~F~----~~G~i~~~~-~~~d~~t--g~~~G~~fV~f~s~ 94 (96)
+++|++.|. +||.|.++. +..|+.+ +.++|||||+|++.
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~ 47 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERS 47 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCH
Confidence 578888898 999999995 7777777 99999999999873
No 67
>KOG4661|consensus
Probab=98.72 E-value=7e-08 Score=71.56 Aligned_cols=57 Identities=33% Similarity=0.515 Sum_probs=52.5
Q ss_pred CCCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 37 QKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 37 ~~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
......++|||.+|...+...+|+.+|.+||+|.-.+++++..+--.++|+||++++
T Consensus 400 grs~~gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSt 456 (940)
T KOG4661|consen 400 GRSTLGRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMST 456 (940)
T ss_pred cccccccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecc
Confidence 345678899999999999999999999999999999999998888899999999976
No 68
>KOG0110|consensus
Probab=98.67 E-value=2e-08 Score=75.20 Aligned_cols=58 Identities=28% Similarity=0.557 Sum_probs=50.7
Q ss_pred CCCCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 36 QQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 36 ~~~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
........+|+|.|||+.++-.+++++|..||.+.+|+|+.-...+.++|||||+|-+
T Consensus 607 ~~~kk~~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t 664 (725)
T KOG0110|consen 607 KSKKKKGTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLT 664 (725)
T ss_pred cccccccceeeeeccchHHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccC
Confidence 3344447899999999999999999999999999999998875667789999999975
No 69
>KOG0153|consensus
Probab=98.65 E-value=6.6e-08 Score=67.64 Aligned_cols=54 Identities=26% Similarity=0.575 Sum_probs=47.4
Q ss_pred CCCCCCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 34 NSQQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 34 ~~~~~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
-..+++...++|||++|...++|.+|+++|.+||+|+++.+... +++|||+|.+
T Consensus 220 lepPeD~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~------~~CAFv~ftT 273 (377)
T KOG0153|consen 220 LEPPEDTSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPR------KGCAFVTFTT 273 (377)
T ss_pred cCCCcccceeEEEecccccchhHHHHHHHHhhcCCeeeEEeecc------cccceeeehh
Confidence 45567788899999999999999999999999999999988654 4599999975
No 70
>KOG0123|consensus
Probab=98.47 E-value=3.6e-07 Score=65.16 Aligned_cols=55 Identities=40% Similarity=0.611 Sum_probs=50.7
Q ss_pred CCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 39 DTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 39 ~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
......|||.|++..++++.|+++|..||.|.+++++.+ ..|+++||+||.|++.
T Consensus 267 ~~~~~nl~vknld~~~~~e~L~~~f~~~GeI~s~kv~~~-~~g~skG~gfV~fs~~ 321 (369)
T KOG0123|consen 267 SLQGANLYVKNLDETLSDEKLRKIFSSFGEITSAKVMVD-ENGKSKGFGFVEFSSP 321 (369)
T ss_pred cccccccccccCccccchhHHHHHHhcccceeeEEEEec-cCCCccceEEEEcCCH
Confidence 456779999999999999999999999999999999999 5799999999999863
No 71
>KOG0226|consensus
Probab=98.45 E-value=3e-07 Score=62.21 Aligned_cols=56 Identities=39% Similarity=0.574 Sum_probs=50.9
Q ss_pred CCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 38 KDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 38 ~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
-+..+.+||+|-|--+++++.|-..|.+|-.-...++++|+.||+++||+||.|.+
T Consensus 186 w~~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~ 241 (290)
T KOG0226|consen 186 WDEDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRD 241 (290)
T ss_pred CccccceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecC
Confidence 34567899999999999999999999999877778899999999999999999975
No 72
>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=98.40 E-value=1.4e-06 Score=51.28 Aligned_cols=51 Identities=20% Similarity=0.247 Sum_probs=45.8
Q ss_pred cEEEEcCCCCCCCHHHHHHHhcc--CCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 43 TKLFVGGLPYHTTDKSLREHFSV--FGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 43 ~~l~v~~l~~~~~~~~l~~~F~~--~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
++|.+.|+|...+.++|.+++.. .|....+.++.|..++-+.|||||.|.+
T Consensus 2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~ 54 (97)
T PF04059_consen 2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTS 54 (97)
T ss_pred eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCC
Confidence 58999999999999999998854 4777889999999999999999999976
No 73
>KOG0109|consensus
Probab=98.37 E-value=3.9e-07 Score=62.73 Aligned_cols=47 Identities=32% Similarity=0.525 Sum_probs=43.2
Q ss_pred CCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 39 DTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 39 ~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
+....+++|||+.+.++..+|++.|++||.|..|+|++| |+||.|+-
T Consensus 75 sk~stkl~vgNis~tctn~ElRa~fe~ygpviecdivkd--------y~fvh~d~ 121 (346)
T KOG0109|consen 75 SKASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIVKD--------YAFVHFDR 121 (346)
T ss_pred CCCccccccCCCCccccCHHHhhhhcccCCceeeeeecc--------eeEEEEee
Confidence 456789999999999999999999999999999999987 99999974
No 74
>KOG0132|consensus
Probab=98.36 E-value=5.3e-07 Score=68.54 Aligned_cols=46 Identities=33% Similarity=0.678 Sum_probs=41.2
Q ss_pred CccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEec
Q psy17949 41 TWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPS 92 (96)
Q Consensus 41 ~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~ 92 (96)
.+++||||+|+.++++.+|..+|+.||.|.+|.++- ++|||||.+.
T Consensus 420 ~SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~------~R~cAfI~M~ 465 (894)
T KOG0132|consen 420 CSRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIP------PRGCAFIKMV 465 (894)
T ss_pred eeeeeeeccccchhhHHHHHHHHHhcccceeEeecc------CCceeEEEEe
Confidence 477999999999999999999999999999998754 3789999874
No 75
>KOG4206|consensus
Probab=98.25 E-value=3.5e-06 Score=55.98 Aligned_cols=49 Identities=29% Similarity=0.385 Sum_probs=43.6
Q ss_pred ccEEEEcCCCCCCCHHHHHH----HhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 42 WTKLFVGGLPYHTTDKSLRE----HFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 42 ~~~l~v~~l~~~~~~~~l~~----~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
..+|||.||+..+..++|+. +|++||+|.+|... .|.+.+|-|||.|.+
T Consensus 9 n~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~---kt~KmRGQA~VvFk~ 61 (221)
T KOG4206|consen 9 NGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAF---KTPKMRGQAFVVFKE 61 (221)
T ss_pred CceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEec---CCCCccCceEEEecC
Confidence 34999999999999999987 99999999998763 478999999999986
No 76
>KOG0533|consensus
Probab=98.22 E-value=2.9e-06 Score=57.37 Aligned_cols=55 Identities=36% Similarity=0.512 Sum_probs=49.4
Q ss_pred CCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 38 KDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 38 ~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
.+....+|+|.|||..+.+++|+++|..||.++.+-+-+| .+|.+.|.|-|.|.-
T Consensus 79 ~~~~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~-~~G~s~Gta~v~~~r 133 (243)
T KOG0533|consen 79 NETRSTKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYD-RAGRSLGTADVSFNR 133 (243)
T ss_pred cCCCcceeeeecCCcCcchHHHHHHHHHhccceEEeeccC-CCCCCCccceeeecc
Confidence 4455689999999999999999999999999999988888 589999999999974
No 77
>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=98.13 E-value=5.4e-06 Score=43.57 Aligned_cols=30 Identities=30% Similarity=0.641 Sum_probs=25.1
Q ss_pred HHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 59 LREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 59 l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
|.++|++||.|.++.+..+. +++|||+|++
T Consensus 1 L~~~f~~fG~V~~i~~~~~~-----~~~a~V~f~~ 30 (56)
T PF13893_consen 1 LYKLFSKFGEVKKIKIFKKK-----RGFAFVEFAS 30 (56)
T ss_dssp HHHHHTTTS-EEEEEEETTS-----TTEEEEEESS
T ss_pred ChHHhCCcccEEEEEEEeCC-----CCEEEEEECC
Confidence 67899999999999987653 6899999986
No 78
>KOG4454|consensus
Probab=98.12 E-value=1.3e-06 Score=58.11 Aligned_cols=54 Identities=13% Similarity=0.123 Sum_probs=48.6
Q ss_pred CCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccCC
Q psy17949 40 TTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFYL 95 (96)
Q Consensus 40 ~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~~ 95 (96)
+..++|||+|+-..++|+-|.++|-+.|.|..+.|..++ .++.| ||||.|.+.|
T Consensus 7 e~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~-d~~~k-Fa~v~f~~E~ 60 (267)
T KOG4454|consen 7 EMDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQ-DQEQK-FAYVFFPNEN 60 (267)
T ss_pred chhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCc-cCCCc-eeeeeccccc
Confidence 456899999999999999999999999999999998885 57777 9999999875
No 79
>KOG0151|consensus
Probab=98.11 E-value=1.1e-05 Score=61.23 Aligned_cols=58 Identities=26% Similarity=0.410 Sum_probs=48.5
Q ss_pred CCCCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecC---CCCCcccEEEEEecc
Q psy17949 36 QQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDR---QTGKSRGYGFVSPSF 93 (96)
Q Consensus 36 ~~~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~---~tg~~~G~~fV~f~s 93 (96)
...+...+++||+||++.+++..|...|+.||.|.+++++..+ +..+.+-||||.|.+
T Consensus 168 DdgDP~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmn 228 (877)
T KOG0151|consen 168 DDGDPQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMN 228 (877)
T ss_pred CCCCCcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehh
Confidence 3346678899999999999999999999999999999998654 345567789998864
No 80
>KOG0147|consensus
Probab=98.09 E-value=1e-06 Score=64.69 Aligned_cols=57 Identities=23% Similarity=0.434 Sum_probs=53.4
Q ss_pred CCCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 37 QKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 37 ~~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
.++.+.+++|+-.+...++..+|.++|..+|+|.+|+++.|+.+++++|.+||+|-|
T Consensus 174 ~eERd~Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D 230 (549)
T KOG0147|consen 174 PEERDQRTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCD 230 (549)
T ss_pred chHHhHHHHHHHHHhhcCCchhHHHHHHhhcCcceeEeeccccchhhcceeEEEEec
Confidence 455678899999999999999999999999999999999999999999999999976
No 81
>KOG4210|consensus
Probab=98.03 E-value=3.1e-06 Score=58.56 Aligned_cols=57 Identities=32% Similarity=0.546 Sum_probs=50.8
Q ss_pred CCCCCccEEE-EcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 37 QKDTTWTKLF-VGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 37 ~~~~~~~~l~-v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
.....+.++| |+++++++++++|+..|..+|.|..+++..++.++.++|||||.|..
T Consensus 179 ~~~~~s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~ 236 (285)
T KOG4210|consen 179 LSSGPSDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSA 236 (285)
T ss_pred cccCccccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhh
Confidence 3444556666 99999999999999999999999999999999999999999999875
No 82
>KOG0120|consensus
Probab=97.95 E-value=1.6e-05 Score=58.56 Aligned_cols=58 Identities=29% Similarity=0.514 Sum_probs=53.4
Q ss_pred CCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccCC
Q psy17949 38 KDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFYL 95 (96)
Q Consensus 38 ~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~~ 95 (96)
......++||++||...++..++++...||.++...++.|..+|.++||||.+|-+..
T Consensus 285 ~~~~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dps 342 (500)
T KOG0120|consen 285 VPDSPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPS 342 (500)
T ss_pred cccccchhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCc
Confidence 4456789999999999999999999999999999999999999999999999997653
No 83
>KOG0106|consensus
Probab=97.95 E-value=7.5e-06 Score=54.49 Aligned_cols=44 Identities=27% Similarity=0.655 Sum_probs=39.0
Q ss_pred cEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 43 TKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 43 ~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
.++|||+|++.+.+.+|+.+|..||++.++.+. .||+||+|++.
T Consensus 2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk--------~gf~fv~fed~ 45 (216)
T KOG0106|consen 2 PRVYIGRLPYRARERDVERFFKGYGKIPDADMK--------NGFGFVEFEDP 45 (216)
T ss_pred CceeecccCCccchhHHHHHHhhccccccceee--------cccceeccCch
Confidence 479999999999999999999999999998763 35889999874
No 84
>KOG1548|consensus
Probab=97.90 E-value=9.6e-05 Score=52.10 Aligned_cols=54 Identities=26% Similarity=0.346 Sum_probs=44.2
Q ss_pred CCCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeE--------EEEeecCCCCCcccEEEEEe
Q psy17949 37 QKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEE--------AVVITDRQTGKSRGYGFVSP 91 (96)
Q Consensus 37 ~~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~--------~~~~~d~~tg~~~G~~fV~f 91 (96)
........|||.|||.++|.+++.++|..||-|.+ |++-++. .|+.||=|.+.|
T Consensus 129 ~~~~~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~-~G~lKGDaLc~y 190 (382)
T KOG1548|consen 129 PEPKVNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDN-QGKLKGDALCCY 190 (382)
T ss_pred cccccCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecC-CCCccCceEEEe
Confidence 34456778999999999999999999999998743 6777774 488888777776
No 85
>KOG4212|consensus
Probab=97.89 E-value=2.5e-05 Score=56.68 Aligned_cols=52 Identities=25% Similarity=0.367 Sum_probs=44.9
Q ss_pred CCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 38 KDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 38 ~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
...+.|+|+|.|||++.|...|++-|..||.|..+.|+ +.|+++| .|.|.+.
T Consensus 532 aarKa~qIiirNlP~dfTWqmlrDKfre~G~v~yadim---e~GkskG--VVrF~s~ 583 (608)
T KOG4212|consen 532 AARKACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIM---ENGKSKG--VVRFFSP 583 (608)
T ss_pred ccccccEEEEecCCccccHHHHHHHHHhccceehhhhh---ccCCccc--eEEecCH
Confidence 34578899999999999999999999999999999984 4588888 6777653
No 86
>KOG0110|consensus
Probab=97.87 E-value=2e-05 Score=59.54 Aligned_cols=52 Identities=33% Similarity=0.439 Sum_probs=43.2
Q ss_pred ccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCC---CcccEEEEEecc
Q psy17949 42 WTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTG---KSRGYGFVSPSF 93 (96)
Q Consensus 42 ~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg---~~~G~~fV~f~s 93 (96)
.++|||.||+++.+.++++.+|...|.|.++.|..-+.-. .+.|||||+|.+
T Consensus 515 ~t~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~ 569 (725)
T KOG0110|consen 515 ETKLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAK 569 (725)
T ss_pred chhhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecC
Confidence 3449999999999999999999999999999887554211 245999999986
No 87
>KOG4211|consensus
Probab=97.87 E-value=5.7e-05 Score=55.19 Aligned_cols=54 Identities=26% Similarity=0.433 Sum_probs=45.2
Q ss_pred CCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 38 KDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 38 ~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
......-|-+.+|||++|+++|.++|+.++ |+++.+.+ .+|+..|=|||+|.+.
T Consensus 6 e~~~~~~vr~rGLPwsat~~ei~~Ff~~~~-I~~~~~~r--~~Gr~sGeA~Ve~~se 59 (510)
T KOG4211|consen 6 EGSTAFEVRLRGLPWSATEKEILDFFSNCG-IENLEIPR--RNGRPSGEAYVEFTSE 59 (510)
T ss_pred CCCcceEEEecCCCccccHHHHHHHHhcCc-eeEEEEec--cCCCcCcceEEEeech
Confidence 334567788999999999999999999985 77766655 5799999999999874
No 88
>KOG4849|consensus
Probab=97.85 E-value=2e-05 Score=55.77 Aligned_cols=55 Identities=24% Similarity=0.398 Sum_probs=45.9
Q ss_pred CCCccEEEEcCCCCCCCHHHHHHHhccCC--CeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 39 DTTWTKLFVGGLPYHTTDKSLREHFSVFG--DIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 39 ~~~~~~l~v~~l~~~~~~~~l~~~F~~~G--~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
+.+...+|||||-|++|+++|.+....-| .+.++++..++.+|++||||.|...|
T Consensus 77 ~Grk~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~S 133 (498)
T KOG4849|consen 77 EGRKYCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNS 133 (498)
T ss_pred cCceEEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecc
Confidence 34455799999999999999998887766 56677778888999999999998765
No 89
>KOG0129|consensus
Probab=97.83 E-value=6.1e-05 Score=55.30 Aligned_cols=56 Identities=25% Similarity=0.430 Sum_probs=43.7
Q ss_pred CCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecC-CC--CCccc---EEEEEeccC
Q psy17949 38 KDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDR-QT--GKSRG---YGFVSPSFY 94 (96)
Q Consensus 38 ~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~-~t--g~~~G---~~fV~f~s~ 94 (96)
...-.++||||+||++++|+.|...|..||.+ .+.+.... .. --++| |+|+.|++.
T Consensus 255 ~~~~S~KVFvGGlp~dise~~i~~~F~~FGs~-~VdWP~k~~~~~~~ppkGs~~YvflvFe~E 316 (520)
T KOG0129|consen 255 SPRYSRKVFVGGLPWDITEAQINASFGQFGSV-KVDWPGKANSRGRAPPKGSYGYVFLVFEDE 316 (520)
T ss_pred ccccccceeecCCCccccHHHHHhhcccccce-EeecCCCccccccCCCCCcccEEEEEecch
Confidence 44567899999999999999999999999987 55565311 11 23577 999999875
No 90
>KOG0129|consensus
Probab=97.78 E-value=7.7e-05 Score=54.78 Aligned_cols=58 Identities=29% Similarity=0.323 Sum_probs=52.3
Q ss_pred CCCCCccEEEEcCCCCCCCHHHHHHHhc-cCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 37 QKDTTWTKLFVGGLPYHTTDKSLREHFS-VFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 37 ~~~~~~~~l~v~~l~~~~~~~~l~~~F~-~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
+.-...++||||+||.-++.++|-.+|. -||.|..+.|=.|++-+.++|-|=|+|+.+
T Consensus 365 q~lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnq 423 (520)
T KOG0129|consen 365 QPIDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQ 423 (520)
T ss_pred cccCccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeeccc
Confidence 3445678999999999999999999997 699999999999988999999999999875
No 91
>KOG4660|consensus
Probab=97.75 E-value=5.9e-05 Score=55.73 Aligned_cols=50 Identities=30% Similarity=0.383 Sum_probs=43.6
Q ss_pred CCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 39 DTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 39 ~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
+...++|+|-|||.++++++|+.+|+.||+|+.++ .|-..+|..||+|=|
T Consensus 72 ~~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir-----~t~~~~~~~~v~FyD 121 (549)
T KOG4660|consen 72 DMNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIR-----ETPNKRGIVFVEFYD 121 (549)
T ss_pred cCccceEEEEecCCcCCHHHHHHHHHhhcchhhhh-----cccccCceEEEEEee
Confidence 44577999999999999999999999999999975 466678999999854
No 92
>KOG1457|consensus
Probab=97.63 E-value=0.00033 Score=47.10 Aligned_cols=57 Identities=18% Similarity=0.272 Sum_probs=43.2
Q ss_pred CCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEee-cCCCCCcccEEEEEeccC
Q psy17949 38 KDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVIT-DRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 38 ~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~-d~~tg~~~G~~fV~f~s~ 94 (96)
....-++|||.+||-|+...+|..+|+.|-.-+.+.+-. ++...-.+-+||++|.|.
T Consensus 30 ~~~~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~ 87 (284)
T KOG1457|consen 30 EPGAVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSH 87 (284)
T ss_pred cccccceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecch
Confidence 345688999999999999999999999986666665532 322223457999999874
No 93
>KOG1190|consensus
Probab=97.44 E-value=0.00026 Score=51.07 Aligned_cols=51 Identities=14% Similarity=0.236 Sum_probs=42.5
Q ss_pred CCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 38 KDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 38 ~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
.....+.++++|||++++|+++.+++.+||+|..+.+.+.+ + -||++|+|.
T Consensus 24 ~~~pSkV~HlRnlp~e~tE~elI~Lg~pFG~vtn~~~lkGk----n--QAflem~d~ 74 (492)
T KOG1190|consen 24 MAEPSKVVHLRNLPWEVTEEELISLGLPFGKVTNLLMLKGK----N--QAFLEMADE 74 (492)
T ss_pred ccCCcceeEeccCCccccHHHHHHhcccccceeeeeeeccc----h--hhhhhhcch
Confidence 34467899999999999999999999999999998775542 2 688888775
No 94
>KOG1995|consensus
Probab=97.28 E-value=0.00065 Score=48.04 Aligned_cols=56 Identities=25% Similarity=0.313 Sum_probs=49.6
Q ss_pred CCCccEEEEcCCCCCCCHHHHHHHhccCCCeeE--------EEEeecCCCCCcccEEEEEeccC
Q psy17949 39 DTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEE--------AVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 39 ~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~--------~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
....-++||-+|+..+++.++.+.|.++|.|+. +.+-+|++|+++||=|.|+|+|-
T Consensus 63 ~s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~ 126 (351)
T KOG1995|consen 63 KSDNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDP 126 (351)
T ss_pred ccccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecCh
Confidence 456679999999999999999999999998844 56778999999999999999874
No 95
>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=97.25 E-value=0.00089 Score=39.92 Aligned_cols=46 Identities=24% Similarity=0.293 Sum_probs=28.9
Q ss_pred cEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 43 TKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 43 ~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
+-|.+.+++..++.++|++.|.+||.|..|.+.+... -|||.|.+-
T Consensus 2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~~------~g~VRf~~~ 47 (105)
T PF08777_consen 2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGDT------EGYVRFKTP 47 (105)
T ss_dssp -EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-S------EEEEEESS-
T ss_pred eEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCCCC------EEEEEECCc
Confidence 5688888999999999999999999999998755422 678888763
No 96
>KOG1457|consensus
Probab=97.19 E-value=0.00033 Score=47.10 Aligned_cols=48 Identities=15% Similarity=0.178 Sum_probs=37.0
Q ss_pred ccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 42 WTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 42 ~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
..+|||.||..+++|++|+.+|..|..-..++|- .......||++|++
T Consensus 210 cstlfianl~~~~~ed~l~~~~~~~~gf~~l~~~----~~~g~~vaf~~~~~ 257 (284)
T KOG1457|consen 210 CSTLFIANLGPNCTEDELKQLLSRYPGFHILKIR----ARGGMPVAFADFEE 257 (284)
T ss_pred hhhHhhhccCCCCCHHHHHHHHHhCCCceEEEEe----cCCCcceEeecHHH
Confidence 3489999999999999999999999766555542 22234578998875
No 97
>KOG4211|consensus
Probab=96.97 E-value=0.0036 Score=46.07 Aligned_cols=54 Identities=20% Similarity=0.346 Sum_probs=44.1
Q ss_pred CCccEEEEcCCCCCCCHHHHHHHhccCCCeeE-EEEeecCCCCCcccEEEEEeccC
Q psy17949 40 TTWTKLFVGGLPYHTTDKSLREHFSVFGDIEE-AVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 40 ~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~-~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
.....|-+.+||+.+++++|.++|+.---+.. +-++.|+ .+++.|=|||.|++.
T Consensus 101 ~~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~-rgR~tGEAfVqF~sq 155 (510)
T KOG4211|consen 101 ANDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQ-RGRPTGEAFVQFESQ 155 (510)
T ss_pred CCCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccC-CCCcccceEEEecCH
Confidence 45678999999999999999999987654444 4466664 688999999999985
No 98
>KOG4206|consensus
Probab=96.92 E-value=0.0029 Score=42.27 Aligned_cols=52 Identities=23% Similarity=0.322 Sum_probs=44.9
Q ss_pred CCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 38 KDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 38 ~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
.......+|+.|||..++.+.+..+|.+|..-+.++++... ++.|||+|.+-
T Consensus 142 ~~ppn~ilf~~niP~es~~e~l~~lf~qf~g~keir~i~~~-----~~iAfve~~~d 193 (221)
T KOG4206|consen 142 MAPPNNILFLTNIPSESESEMLSDLFEQFPGFKEIRLIPPR-----SGIAFVEFLSD 193 (221)
T ss_pred CCCCceEEEEecCCcchhHHHHHHHHhhCcccceeEeccCC-----CceeEEecchh
Confidence 35567799999999999999999999999999999887653 67999999864
No 99
>KOG1855|consensus
Probab=96.51 E-value=0.0038 Score=45.41 Aligned_cols=60 Identities=13% Similarity=0.233 Sum_probs=46.6
Q ss_pred CCCCCCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeec---CCC--CCc--------ccEEEEEecc
Q psy17949 34 NSQQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITD---RQT--GKS--------RGYGFVSPSF 93 (96)
Q Consensus 34 ~~~~~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d---~~t--g~~--------~G~~fV~f~s 93 (96)
....++...++|-+-|||.+-.-+.|.++|..+|.|+.|+|... +.. |.. +-+|+|+|+.
T Consensus 223 ~~~~eel~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~ 295 (484)
T KOG1855|consen 223 EFDEEELPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEE 295 (484)
T ss_pred CccccccccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhh
Confidence 33445568999999999999999999999999999999999876 322 223 3367777764
No 100
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=96.46 E-value=0.0094 Score=31.16 Aligned_cols=44 Identities=27% Similarity=0.465 Sum_probs=32.6
Q ss_pred cEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 43 TKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 43 ~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
+.|-|.+.+.+..+. +...|..||+|.+..+. ..+-+.+|.|++
T Consensus 2 ~wI~V~Gf~~~~~~~-vl~~F~~fGeI~~~~~~------~~~~~~~l~y~~ 45 (53)
T PF14605_consen 2 TWISVSGFPPDLAEE-VLEHFASFGEIVDIYVP------ESTNWMYLKYKS 45 (53)
T ss_pred cEEEEEeECchHHHH-HHHHHHhcCCEEEEEcC------CCCcEEEEEECC
Confidence 567788888776655 45588899999998775 223488898876
No 101
>KOG0128|consensus
Probab=96.42 E-value=0.002 Score=50.10 Aligned_cols=52 Identities=23% Similarity=0.332 Sum_probs=47.6
Q ss_pred ccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 42 WTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 42 ~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
...++|.|.|+..|.+.++.++..+|.+++++++..+ .|+++|.+||.|...
T Consensus 736 K~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r-~gkpkg~a~v~y~~e 787 (881)
T KOG0128|consen 736 KISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVR-AGKPKGKARVDYNTE 787 (881)
T ss_pred hhhhheeCCCCCCchHHHHhhccccCCccccchhhhh-ccccccceeccCCCc
Confidence 5689999999999999999999999999999988874 799999999999753
No 102
>KOG3152|consensus
Probab=96.08 E-value=0.0081 Score=41.09 Aligned_cols=40 Identities=15% Similarity=0.326 Sum_probs=35.4
Q ss_pred CccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCC
Q psy17949 41 TWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQT 80 (96)
Q Consensus 41 ~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~t 80 (96)
..-.||++++|+......|+++|..||.|-+|.+.....+
T Consensus 73 k~GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s 112 (278)
T KOG3152|consen 73 KTGVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDS 112 (278)
T ss_pred cceEEEeccCCCccCHHHHHHHHHhccccceEEecchhhH
Confidence 4468999999999999999999999999999998766544
No 103
>KOG0128|consensus
Probab=95.97 E-value=0.0012 Score=51.13 Aligned_cols=54 Identities=26% Similarity=0.377 Sum_probs=47.6
Q ss_pred CccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 41 TWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 41 ~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
+.+++||.||+..+.+++|...|.++|.+..+++.-....++.+|+||+.|.+-
T Consensus 666 ~~~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~ 719 (881)
T KOG0128|consen 666 DLIKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKP 719 (881)
T ss_pred HHHHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecC
Confidence 356899999999999999999999999998888775667899999999999753
No 104
>KOG1190|consensus
Probab=95.87 E-value=0.067 Score=39.03 Aligned_cols=47 Identities=21% Similarity=0.325 Sum_probs=39.2
Q ss_pred ccEEEEcCCCC-CCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 42 WTKLFVGGLPY-HTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 42 ~~~l~v~~l~~-~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
...|-|.||.. .+|.+.|..+|+.||.|.+|+|.+++. --|.|.|+|
T Consensus 297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nkk-----d~ALIQmsd 344 (492)
T KOG1190|consen 297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNKK-----DNALIQMSD 344 (492)
T ss_pred ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecCC-----cceeeeecc
Confidence 67899999987 568899999999999999999998863 356777665
No 105
>KOG0115|consensus
Probab=95.66 E-value=0.0095 Score=40.75 Aligned_cols=50 Identities=32% Similarity=0.430 Sum_probs=44.2
Q ss_pred cEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 43 TKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 43 ~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
..|||.||..-+..+.+.+.|+.||.|....+..| ..+++.+=++|.|+.
T Consensus 32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD-~r~k~t~eg~v~~~~ 81 (275)
T KOG0115|consen 32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVD-DRGKPTREGIVEFAK 81 (275)
T ss_pred ceEEEEecchhhhhHHHHHhhhhcCccchheeeec-ccccccccchhhhhc
Confidence 78999999999999999999999999998877777 468888888888864
No 106
>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=95.47 E-value=0.13 Score=29.63 Aligned_cols=36 Identities=22% Similarity=0.278 Sum_probs=25.0
Q ss_pred CccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecC
Q psy17949 41 TWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDR 78 (96)
Q Consensus 41 ~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~ 78 (96)
..+-.||. .|..+...||.++|.+||.| .|.++.|.
T Consensus 8 RdHVFhlt-FPkeWK~~DI~qlFspfG~I-~VsWi~dT 43 (87)
T PF08675_consen 8 RDHVFHLT-FPKEWKTSDIYQLFSPFGQI-YVSWINDT 43 (87)
T ss_dssp GCCEEEEE---TT--HHHHHHHCCCCCCE-EEEEECTT
T ss_pred cceEEEEe-CchHhhhhhHHHHhccCCcE-EEEEEcCC
Confidence 34566666 99999999999999999998 56666553
No 107
>KOG0112|consensus
Probab=95.35 E-value=0.011 Score=46.38 Aligned_cols=54 Identities=28% Similarity=0.371 Sum_probs=42.5
Q ss_pred CCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEec
Q psy17949 38 KDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPS 92 (96)
Q Consensus 38 ~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~ 92 (96)
.....++||+|||+..+++.+++..|..+|.|.+|.|-+.+. +.-.-|+||.|-
T Consensus 368 D~~atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~~-~~esa~~f~~~~ 421 (975)
T KOG0112|consen 368 DFRATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPHI-KTESAYAFVSLL 421 (975)
T ss_pred chhhhhhhhhcCcccchhhhhhhhhhhhhccccccccccCCC-Ccccchhhhhhh
Confidence 345678999999999999999999999999999999865532 232336777664
No 108
>KOG1365|consensus
Probab=95.29 E-value=0.14 Score=37.28 Aligned_cols=53 Identities=25% Similarity=0.359 Sum_probs=41.3
Q ss_pred CccEEEEcCCCCCCCHHHHHHHhccC----CCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 41 TWTKLFVGGLPYHTTDKSLREHFSVF----GDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 41 ~~~~l~v~~l~~~~~~~~l~~~F~~~----G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
..-.|-+++||+++++.++.++|.+- |..+.+-+++. ..|+..|=|||.|+..
T Consensus 160 ~qvivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~r-pdgrpTGdAFvlfa~e 216 (508)
T KOG1365|consen 160 NQVIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTR-PDGRPTGDAFVLFACE 216 (508)
T ss_pred cceEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEEC-CCCCcccceEEEecCH
Confidence 34578889999999999999999642 34455656655 3799999999999853
No 109
>KOG2314|consensus
Probab=94.98 E-value=0.026 Score=42.62 Aligned_cols=54 Identities=28% Similarity=0.321 Sum_probs=42.8
Q ss_pred CCccEEEEcCCCCCCCH------HHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 40 TTWTKLFVGGLPYHTTD------KSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 40 ~~~~~l~v~~l~~~~~~------~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
....-|+|-|+|.--.. .-|.++|+++|+|....++.+.+ |..+||.|++|++.
T Consensus 56 g~D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~-ggtkG~lf~E~~~~ 115 (698)
T KOG2314|consen 56 GFDSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEE-GGTKGYLFVEYASM 115 (698)
T ss_pred CcceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCcc-CCeeeEEEEEecCh
Confidence 45667889998875432 34568899999999999999865 45999999999975
No 110
>KOG0106|consensus
Probab=94.90 E-value=0.02 Score=38.37 Aligned_cols=49 Identities=24% Similarity=0.354 Sum_probs=41.0
Q ss_pred CCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 38 KDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 38 ~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
.....+.+.|.+++.++...+|.+.|.++|++....+ ..+++||.|+++
T Consensus 95 p~~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~--------~~~~~~v~Fs~~ 143 (216)
T KOG0106|consen 95 PSRTHFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDA--------RRNFAFVEFSEQ 143 (216)
T ss_pred cccccceeeeccchhhhhHHHHhhhhcccCCCchhhh--------hccccceeehhh
Confidence 4566789999999999999999999999999965544 355899999875
No 111
>KOG4307|consensus
Probab=94.18 E-value=0.36 Score=37.66 Aligned_cols=53 Identities=17% Similarity=0.202 Sum_probs=43.1
Q ss_pred ccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 42 WTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 42 ~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
.+.|-+.|+|++++-+|+.++|..|-.+..-.+.+..+.|...|=|-|.|++.
T Consensus 867 p~V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~nd~G~pTGe~mvAfes~ 919 (944)
T KOG4307|consen 867 PRVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRNDDGVPTGECMVAFESQ 919 (944)
T ss_pred CeEEEecCCCccccHHHHHHHhcccccCCCceeEeecCCCCcccceeEeecCH
Confidence 44889999999999999999999997664433344447899999999999874
No 112
>KOG1365|consensus
Probab=93.33 E-value=0.086 Score=38.29 Aligned_cols=52 Identities=19% Similarity=0.329 Sum_probs=42.8
Q ss_pred ccEEEEcCCCCCCCHHHHHHHhccCCC-eeE--EEEeecCCCCCcccEEEEEeccC
Q psy17949 42 WTKLFVGGLPYHTTDKSLREHFSVFGD-IEE--AVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 42 ~~~l~v~~l~~~~~~~~l~~~F~~~G~-i~~--~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
..-|-+++||+.++.++|.++|..|-. |.. ++++.+ ..|++.|=|||.|.+.
T Consensus 280 kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N-~qGrPSGeAFIqm~na 334 (508)
T KOG1365|consen 280 KDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLN-GQGRPSGEAFIQMRNA 334 (508)
T ss_pred CCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEc-CCCCcChhhhhhhhhh
Confidence 456889999999999999999988753 433 778887 4699999999998763
No 113
>KOG4676|consensus
Probab=93.28 E-value=0.16 Score=37.02 Aligned_cols=52 Identities=13% Similarity=0.105 Sum_probs=40.0
Q ss_pred ccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecC---CCCCcccEEEEEecc
Q psy17949 42 WTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDR---QTGKSRGYGFVSPSF 93 (96)
Q Consensus 42 ~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~---~tg~~~G~~fV~f~s 93 (96)
...|.|.||.++++.++++.+|.-.|+|..+.|.-+. .-....-.|||.|.+
T Consensus 7 ~~vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d 61 (479)
T KOG4676|consen 7 LGVIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLD 61 (479)
T ss_pred CceeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccC
Confidence 3479999999999999999999999999998875422 112223378888865
No 114
>KOG0112|consensus
Probab=93.18 E-value=0.34 Score=38.54 Aligned_cols=50 Identities=28% Similarity=0.361 Sum_probs=41.3
Q ss_pred CCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 38 KDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 38 ~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
.....+.+|+++|..|+....|...|..||.|..|.+-. | .-|++|.|++
T Consensus 451 kst~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~h----g--q~yayi~yes 500 (975)
T KOG0112|consen 451 KSTPTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRH----G--QPYAYIQYES 500 (975)
T ss_pred ccccceeeccCCCCCCChHHHHHHHhhccCcceeeeccc----C--Ccceeeeccc
Confidence 455678999999999999999999999999999976522 2 3388888875
No 115
>KOG0105|consensus
Probab=93.01 E-value=0.4 Score=31.77 Aligned_cols=47 Identities=28% Similarity=0.292 Sum_probs=39.5
Q ss_pred CCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 40 TTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 40 ~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
....++.|.+||.+....+|+++...-|.|....+.+|- ++.|+|-.
T Consensus 113 rSe~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rDg-------~GvV~~~r 159 (241)
T KOG0105|consen 113 RSEYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRDG-------VGVVEYLR 159 (241)
T ss_pred ccceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeeccc-------ceeeeeee
Confidence 445689999999999999999999999999998887773 66676654
No 116
>KOG1456|consensus
Probab=92.20 E-value=1.5 Score=32.07 Aligned_cols=48 Identities=21% Similarity=0.235 Sum_probs=38.9
Q ss_pred CCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 40 TTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 40 ~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
.....+.|++|...++|.+|-+.++.||.|..+..+-.+. -+.|+|++
T Consensus 29 ~~spvvhvr~l~~~v~eadl~eal~~fG~i~yvt~~P~~r------~alvefed 76 (494)
T KOG1456|consen 29 NPSPVVHVRGLHQGVVEADLVEALSNFGPIAYVTCMPHKR------QALVEFED 76 (494)
T ss_pred CCCceEEEeccccccchhHHHHHHhcCCceEEEEeccccc------eeeeeecc
Confidence 4566899999999999999999999999998886654322 56777775
No 117
>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=91.97 E-value=0.25 Score=31.98 Aligned_cols=55 Identities=15% Similarity=0.089 Sum_probs=30.5
Q ss_pred CCccEEEEcCCCCCCCHHHHHHHhcc-CCCe---eEEEEeecCCC-CC-cccEEEEEeccC
Q psy17949 40 TTWTKLFVGGLPYHTTDKSLREHFSV-FGDI---EEAVVITDRQT-GK-SRGYGFVSPSFY 94 (96)
Q Consensus 40 ~~~~~l~v~~l~~~~~~~~l~~~F~~-~G~i---~~~~~~~d~~t-g~-~~G~~fV~f~s~ 94 (96)
....+|-|++||+.+|++++.+.+.+ ++.. ..+.-...... .. ...-|||.|.+.
T Consensus 5 ~~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~ 65 (176)
T PF03467_consen 5 KEGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNP 65 (176)
T ss_dssp ----EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSC
T ss_pred ccCceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCH
Confidence 35569999999999999999998877 6665 33332222211 11 234578888763
No 118
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=91.97 E-value=0.28 Score=35.24 Aligned_cols=52 Identities=23% Similarity=0.363 Sum_probs=33.5
Q ss_pred ccEEEEcCCCCCCCHHH----H--HHHhccCCCeeEEEEeecCCCCC-cccE--EEEEecc
Q psy17949 42 WTKLFVGGLPYHTTDKS----L--REHFSVFGDIEEAVVITDRQTGK-SRGY--GFVSPSF 93 (96)
Q Consensus 42 ~~~l~v~~l~~~~~~~~----l--~~~F~~~G~i~~~~~~~d~~tg~-~~G~--~fV~f~s 93 (96)
..-+||-+|++.+..++ | .+.|++||+|..+.+-+...+.. ..+. .||+|.+
T Consensus 114 KNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~ 174 (480)
T COG5175 114 KNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYST 174 (480)
T ss_pred cceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecc
Confidence 34579999998776655 3 48899999999987644321111 1222 3788764
No 119
>KOG4307|consensus
Probab=90.88 E-value=0.9 Score=35.60 Aligned_cols=56 Identities=20% Similarity=0.064 Sum_probs=45.4
Q ss_pred CCCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeE-EEEeecCCCCCcccEEEEEecc
Q psy17949 37 QKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEE-AVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 37 ~~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~-~~~~~d~~tg~~~G~~fV~f~s 93 (96)
........|||-.||+.+++.++.+.|..--.|++ |.|.+- -+++.++-|||.|..
T Consensus 429 ~P~~ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~-P~~~~~~~afv~F~~ 485 (944)
T KOG4307|consen 429 FPGGAGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRL-PTDLLRPAAFVAFIH 485 (944)
T ss_pred CCCCccceEEeccCCccccccchhhhhhhhhhhhheeEeccC-Ccccccchhhheecc
Confidence 34556779999999999999999999977556666 666665 478999999999975
No 120
>KOG2253|consensus
Probab=90.62 E-value=0.33 Score=37.29 Aligned_cols=48 Identities=17% Similarity=0.197 Sum_probs=39.3
Q ss_pred CCCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 37 QKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 37 ~~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
++-....++||+|+...+..+-++.+...||.|.++.... |||..|.+
T Consensus 35 ~~~~~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~~---------fgf~~f~~ 82 (668)
T KOG2253|consen 35 QPLPPRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRDK---------FGFCEFLK 82 (668)
T ss_pred cCCCCCceeEecchhhhhhHHHHHHHHhhCCcchhhhhhh---------hcccchhh
Confidence 3445677899999999999999999999999998875432 88888764
No 121
>KOG4410|consensus
Probab=87.31 E-value=3 Score=29.50 Aligned_cols=47 Identities=13% Similarity=-0.025 Sum_probs=34.9
Q ss_pred CccEEEEcCCCCCCCHHHHHHHhccCCCe-eEEEEeecCCCCCcccEEEEEecc
Q psy17949 41 TWTKLFVGGLPYHTTDKSLREHFSVFGDI-EEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 41 ~~~~l~v~~l~~~~~~~~l~~~F~~~G~i-~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
...-+|++||+.++.-.+|+..+..-|.+ .++.| .-++|-||+.|.+
T Consensus 329 ~~~di~~~nl~rd~rv~dlk~~lr~~~~~pm~isw------kg~~~k~flh~~~ 376 (396)
T KOG4410|consen 329 AKTDIKLTNLSRDIRVKDLKSELRKRECTPMSISW------KGHFGKCFLHFGN 376 (396)
T ss_pred cccceeeccCccccchHHHHHHHHhcCCCceeEee------ecCCcceeEecCC
Confidence 34569999999999999999999876654 23322 2356778888865
No 122
>KOG1456|consensus
Probab=86.34 E-value=8.5 Score=28.30 Aligned_cols=52 Identities=17% Similarity=0.230 Sum_probs=42.2
Q ss_pred CCCCccEEEEcCCCCCC-CHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 38 KDTTWTKLFVGGLPYHT-TDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 38 ~~~~~~~l~v~~l~~~~-~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
....++.+.|-+|+... +-+.|..+|=.||.|+++++++-+ .|-|.|++.|.
T Consensus 283 g~~~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk-----~gtamVemgd~ 335 (494)
T KOG1456|consen 283 GGAPGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTK-----PGTAMVEMGDA 335 (494)
T ss_pred CCCCCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeecc-----cceeEEEcCcH
Confidence 34567899999998854 668899999999999999999875 46678887663
No 123
>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=85.39 E-value=3.3 Score=23.98 Aligned_cols=42 Identities=21% Similarity=0.270 Sum_probs=24.6
Q ss_pred cEEEEcCCCCCCCHHH----HHHHhccCC-CeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 43 TKLFVGGLPYHTTDKS----LREHFSVFG-DIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 43 ~~l~v~~l~~~~~~~~----l~~~F~~~G-~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
.-|+|.|||-+.+... |++++.-|| +|.++. .+-|+|.|.+.
T Consensus 3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v~----------~~tAilrF~~~ 49 (90)
T PF11608_consen 3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSVS----------GGTAILRFPNQ 49 (90)
T ss_dssp EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE------------TT-EEEEESSH
T ss_pred cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEEe----------CCEEEEEeCCH
Confidence 3589999999988755 456666775 555541 25788888753
No 124
>KOG2193|consensus
Probab=84.97 E-value=0.65 Score=34.36 Aligned_cols=44 Identities=25% Similarity=0.395 Sum_probs=31.0
Q ss_pred cEEEEcCCCCCCCHHHHHHHhccC--CCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 43 TKLFVGGLPYHTTDKSLREHFSVF--GDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 43 ~~l~v~~l~~~~~~~~l~~~F~~~--G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
.++|++||.+..+.++|+.+|... +.-.. .++ -.||+||...+.
T Consensus 2 nklyignL~p~~~psdl~svfg~ak~~~~g~-fl~-------k~gyafvd~pdq 47 (584)
T KOG2193|consen 2 NKLYIGNLSPQVTPSDLESVFGDAKIPGSGQ-FLV-------KSGYAFVDCPDQ 47 (584)
T ss_pred CcccccccCCCCChHHHHHHhccccCCCCcc-eee-------ecceeeccCCch
Confidence 368999999999999999999753 11011 111 257999988764
No 125
>KOG2416|consensus
Probab=84.85 E-value=0.56 Score=35.95 Aligned_cols=50 Identities=24% Similarity=0.218 Sum_probs=38.8
Q ss_pred CCCCccEEEEcCCCCCCCHHHHHHHhc-cCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 38 KDTTWTKLFVGGLPYHTTDKSLREHFS-VFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 38 ~~~~~~~l~v~~l~~~~~~~~l~~~F~-~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
.......|||.||-.-.|.-+|+++++ .+|.|... +.|+ -|..|||.|.+
T Consensus 440 R~~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~--WmDk----IKShCyV~yss 490 (718)
T KOG2416|consen 440 RKEPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEF--WMDK----IKSHCYVSYSS 490 (718)
T ss_pred CCCccceEeeecccccchHHHHHHHHhhccCchHHH--HHHH----hhcceeEeccc
Confidence 445677999999999999999999998 47777776 3343 25578888875
No 126
>KOG4210|consensus
Probab=84.54 E-value=0.51 Score=32.92 Aligned_cols=54 Identities=19% Similarity=0.027 Sum_probs=46.5
Q ss_pred CCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 40 TTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 40 ~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
...++.|++++.+.+.+.+...++..+|......+........++|++++.|+.
T Consensus 86 ~~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ 139 (285)
T KOG4210|consen 86 GSSSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAG 139 (285)
T ss_pred cccccccccccccchhhccccccchhhcCcccchhhhhccccccccceeecccc
Confidence 357899999999999999888888889988787777766788999999999874
No 127
>KOG0120|consensus
Probab=84.30 E-value=1.9 Score=32.49 Aligned_cols=37 Identities=16% Similarity=0.189 Sum_probs=27.0
Q ss_pred HHHHHHhccCCCeeEEEEeecCCC---CCcccEEEEEecc
Q psy17949 57 KSLREHFSVFGDIEEAVVITDRQT---GKSRGYGFVSPSF 93 (96)
Q Consensus 57 ~~l~~~F~~~G~i~~~~~~~d~~t---g~~~G~~fV~f~s 93 (96)
++++..+..||.|.+|.+.++-.. .-..|-.||+|+|
T Consensus 424 Edvr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas 463 (500)
T KOG0120|consen 424 EDVRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFAD 463 (500)
T ss_pred HHHHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecC
Confidence 445566778999999999887222 2345678999987
No 128
>KOG2068|consensus
Probab=83.43 E-value=0.88 Score=32.34 Aligned_cols=53 Identities=23% Similarity=0.349 Sum_probs=36.0
Q ss_pred CccEEEEcCCCCCCCHHHH---HHHhccCCCeeEEEEeecCC--CCC-cccEEEEEecc
Q psy17949 41 TWTKLFVGGLPYHTTDKSL---REHFSVFGDIEEAVVITDRQ--TGK-SRGYGFVSPSF 93 (96)
Q Consensus 41 ~~~~l~v~~l~~~~~~~~l---~~~F~~~G~i~~~~~~~d~~--tg~-~~G~~fV~f~s 93 (96)
...-+||-+|+....++.+ .+.|.+||.|..+.+-+++. .+. ...-++|+|+.
T Consensus 76 qknlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~ 134 (327)
T KOG2068|consen 76 QKNLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEE 134 (327)
T ss_pred hhhhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccc
Confidence 3456888899988765544 37889999999998877762 111 11226788765
No 129
>KOG2891|consensus
Probab=83.05 E-value=1.4 Score=30.99 Aligned_cols=38 Identities=21% Similarity=0.498 Sum_probs=28.7
Q ss_pred CCCCccEEEEcCCCCC------------CCHHHHHHHhccCCCeeEEEEe
Q psy17949 38 KDTTWTKLFVGGLPYH------------TTDKSLREHFSVFGDIEEAVVI 75 (96)
Q Consensus 38 ~~~~~~~l~v~~l~~~------------~~~~~l~~~F~~~G~i~~~~~~ 75 (96)
+...+.+||+.++|-. ..+..|+..|+.||.|..|.|+
T Consensus 145 pgerpdti~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir~vdip 194 (445)
T KOG2891|consen 145 PGERPDTIHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIRNVDIP 194 (445)
T ss_pred CCCCCCceeecCCcceeeeecccccccCChHHHHHHHHHHhccceecCCc
Confidence 4455667777777632 3578899999999999998874
No 130
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=81.96 E-value=4.5 Score=21.85 Aligned_cols=18 Identities=33% Similarity=0.576 Sum_probs=15.0
Q ss_pred HHHHHHhccCCCeeEEEE
Q psy17949 57 KSLREHFSVFGDIEEAVV 74 (96)
Q Consensus 57 ~~l~~~F~~~G~i~~~~~ 74 (96)
.+|++.|+..|.|.-+.+
T Consensus 9 ~~iR~~fs~lG~I~vLYv 26 (62)
T PF15513_consen 9 AEIRQFFSQLGEIAVLYV 26 (62)
T ss_pred HHHHHHHHhcCcEEEEEE
Confidence 678999999999976654
No 131
>KOG4454|consensus
Probab=78.32 E-value=0.49 Score=32.08 Aligned_cols=52 Identities=37% Similarity=0.508 Sum_probs=44.2
Q ss_pred CCCccEEEEcC----CCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEe
Q psy17949 39 DTTWTKLFVGG----LPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSP 91 (96)
Q Consensus 39 ~~~~~~l~v~~----l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f 91 (96)
.+...+++.|+ |...++++.+...|..-|.+..+++.++. .|+++-++|+++
T Consensus 77 ~e~q~~~r~G~shapld~r~~~ei~~~v~s~a~p~~~~R~~~~~-d~rnrn~~~~~~ 132 (267)
T KOG4454|consen 77 DEEQRTLRCGNSHAPLDERVTEEILYEVFSQAGPIEGVRIPTDN-DGRNRNFGFVTY 132 (267)
T ss_pred chhhcccccCCCcchhhhhcchhhheeeecccCCCCCccccccc-cCCccCccchhh
Confidence 34567888898 88899999999999999999999998885 488888888765
No 132
>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=78.31 E-value=6.8 Score=23.12 Aligned_cols=32 Identities=34% Similarity=0.427 Sum_probs=21.4
Q ss_pred CccEEEEcCCCCCCCHHHHHHHhccCCCeeEEE
Q psy17949 41 TWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAV 73 (96)
Q Consensus 41 ~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~ 73 (96)
..+.|.|=+.|+. ....+.+.|++||.|.+..
T Consensus 5 ~~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~ 36 (100)
T PF05172_consen 5 SETWVTVFGFPPS-ASNQVLRHFSSFGTILEHF 36 (100)
T ss_dssp GCCEEEEE---GG-GHHHHHHHHHCCS-EECEE
T ss_pred CCeEEEEEccCHH-HHHHHHHHHHhcceEEEee
Confidence 3456778788888 5667888999999997764
No 133
>KOG4676|consensus
Probab=75.83 E-value=0.45 Score=34.74 Aligned_cols=34 Identities=18% Similarity=0.014 Sum_probs=30.4
Q ss_pred CccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEE
Q psy17949 41 TWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVV 74 (96)
Q Consensus 41 ~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~ 74 (96)
--++++|++|+..+...++-+.|..+|.+...++
T Consensus 150 irRt~~v~sl~~~~~l~e~~e~f~r~Gev~ya~~ 183 (479)
T KOG4676|consen 150 IRRTREVQSLISAAILPESGESFERKGEVSYAHT 183 (479)
T ss_pred HHhhhhhhcchhhhcchhhhhhhhhcchhhhhhh
Confidence 3478999999999999999999999999988766
No 134
>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=73.32 E-value=5 Score=24.27 Aligned_cols=36 Identities=11% Similarity=0.284 Sum_probs=23.0
Q ss_pred CHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 55 TDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 55 ~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
..+.|++.|..|..++ ++...++ .-+.|++.|.|..
T Consensus 30 ~~~~l~~~l~~f~p~k-v~~l~~~--~gh~g~aiv~F~~ 65 (116)
T PF03468_consen 30 SNEELLDKLAEFNPLK-VKPLYGK--QGHTGFAIVEFNK 65 (116)
T ss_dssp -SHHHHHHHHH---SE-EEEEEET--TEEEEEEEEE--S
T ss_pred CHHHHHHHHHhcCCce-eEECcCC--CCCcEEEEEEECC
Confidence 4488999998898774 5555664 3789999999975
No 135
>KOG2591|consensus
Probab=73.29 E-value=14 Score=28.55 Aligned_cols=51 Identities=6% Similarity=0.052 Sum_probs=41.2
Q ss_pred CCCCCccEEEEcCCCCCCCHHHHHHHhcc--CCCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 37 QKDTTWTKLFVGGLPYHTTDKSLREHFSV--FGDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 37 ~~~~~~~~l~v~~l~~~~~~~~l~~~F~~--~G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
+...+-|.+.++-|+...-.++++.+|.. |-++.+|.+..+. -.||+|++.
T Consensus 170 rp~~kRcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~-------nWyITfesd 222 (684)
T KOG2591|consen 170 RPNHKRCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHND-------NWYITFESD 222 (684)
T ss_pred ccCcceeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecC-------ceEEEeecc
Confidence 34556788899999999999999999954 7788888876654 478999874
No 136
>KOG2135|consensus
Probab=72.47 E-value=2 Score=32.16 Aligned_cols=37 Identities=30% Similarity=0.411 Sum_probs=27.3
Q ss_pred CccEEEEcCCCCCC-CHHHHHHHhccCCCeeEEEEeec
Q psy17949 41 TWTKLFVGGLPYHT-TDKSLREHFSVFGDIEEAVVITD 77 (96)
Q Consensus 41 ~~~~l~v~~l~~~~-~~~~l~~~F~~~G~i~~~~~~~d 77 (96)
+.+.|-+.-.++.. +.++|...|.+||.|..|++-..
T Consensus 371 dhs~l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~ 408 (526)
T KOG2135|consen 371 DHSPLALEKSPFGLNTIADLNPHFAQFGEIENIQVDYS 408 (526)
T ss_pred ccchhhhhccCCCCchHhhhhhhhhhcCccccccccCc
Confidence 34455555566655 45899999999999999976544
No 137
>KOG4660|consensus
Probab=72.06 E-value=4.8 Score=30.60 Aligned_cols=52 Identities=15% Similarity=0.203 Sum_probs=35.8
Q ss_pred ccEEEEcCCCCCCCHHHHHHHhc----------------------------cCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 42 WTKLFVGGLPYHTTDKSLREHFS----------------------------VFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 42 ~~~l~v~~l~~~~~~~~l~~~F~----------------------------~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
-.++-+++++...+..+|.++.. ..|.-..+.++.|-.+..+.|||||.|.+
T Consensus 361 Rtt~~i~ni~n~~~~~dl~~Ildge~~rtt~~iknipNK~T~~ml~~~d~~~~gtYDFlYLPiDF~nkcNvGYAFINm~s 440 (549)
T KOG4660|consen 361 RTTVMIKNIPNKYGQLDLLRILDGECPRTTLMIKNIPNKYTSKMLLAADEKNKGTYDFLYLPIDFKNKCNVGYAFINMTS 440 (549)
T ss_pred hhhhhhhccccchhHHHHHHHHhCcCchhhhHhhccCchhhHHhhhhhhccccCccceEEeccccccccccceeEEeecC
Confidence 34566667776666666655543 24555667788887777889999999865
No 138
>PF15063 TC1: Thyroid cancer protein 1
Probab=70.30 E-value=4.2 Score=22.90 Aligned_cols=35 Identities=20% Similarity=0.102 Sum_probs=28.9
Q ss_pred CCCCCCCccEEEEcCCCCCCCHHHHHHHhccCCCe
Q psy17949 35 SQQKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDI 69 (96)
Q Consensus 35 ~~~~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i 69 (96)
....+...++--+.|+-.+++...|+.+|..-|..
T Consensus 18 g~~~dt~~RKkasaNIFe~vn~~qlqrLF~~sGD~ 52 (79)
T PF15063_consen 18 GYKFDTASRKKASANIFENVNLDQLQRLFQKSGDK 52 (79)
T ss_pred CCCcchHHhhhhhhhhhhccCHHHHHHHHHHccch
Confidence 34455667788899999999999999999988854
No 139
>KOG4483|consensus
Probab=66.11 E-value=14 Score=27.38 Aligned_cols=52 Identities=12% Similarity=0.020 Sum_probs=41.0
Q ss_pred CCCCCccEEEEcCCCCCCCHHHHHHHhccCC-CeeEEEEeecCCCCCcccEEEEEeccCC
Q psy17949 37 QKDTTWTKLFVGGLPYHTTDKSLREHFSVFG-DIEEAVVITDRQTGKSRGYGFVSPSFYL 95 (96)
Q Consensus 37 ~~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G-~i~~~~~~~d~~tg~~~G~~fV~f~s~~ 95 (96)
....-.+.|-|-++|...-.++|...|..|+ .--+|+|+-|. .+|..|++-+
T Consensus 386 ~e~dlpHVlEIydfp~efkteDll~~f~~yq~kgfdIkWvDdt-------halaVFss~~ 438 (528)
T KOG4483|consen 386 RESDLPHVLEIYDFPDEFKTEDLLKAFETYQNKGFDIKWVDDT-------HALAVFSSVN 438 (528)
T ss_pred CcccccceeEeccCchhhccHHHHHHHHHhhcCCceeEEeecc-------eeEEeecchH
Confidence 3445678899999999999999999999886 34567888775 6788887754
No 140
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=65.37 E-value=15 Score=23.66 Aligned_cols=42 Identities=29% Similarity=0.426 Sum_probs=35.2
Q ss_pred CCCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecC
Q psy17949 37 QKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDR 78 (96)
Q Consensus 37 ~~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~ 78 (96)
........+++++++...+...+...|..+|.+....+....
T Consensus 220 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 261 (306)
T COG0724 220 LLLEKSDNLYVGNLPLKTAEEELADLFKSRGDIVRASLPPSK 261 (306)
T ss_pred ccccccceeeccccccccchhHHHHhccccccceeeeccCCC
Confidence 345677899999999999999999999999999776665544
No 141
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=64.79 E-value=20 Score=19.27 Aligned_cols=37 Identities=14% Similarity=0.150 Sum_probs=27.9
Q ss_pred CccEEEEcCCCCCCCHHHHHHHhccC---CCeeEEEEeecC
Q psy17949 41 TWTKLFVGGLPYHTTDKSLREHFSVF---GDIEEAVVITDR 78 (96)
Q Consensus 41 ~~~~l~v~~l~~~~~~~~l~~~F~~~---G~i~~~~~~~d~ 78 (96)
.+-+|+|.++.. ++.++++..|..| ....++.++-|.
T Consensus 4 rpeavhirGvd~-lsT~dI~~y~~~y~~~~~~~~IEWIdDt 43 (62)
T PF10309_consen 4 RPEAVHIRGVDE-LSTDDIKAYFSEYFDEEGPFRIEWIDDT 43 (62)
T ss_pred eeceEEEEcCCC-CCHHHHHHHHHHhcccCCCceEEEecCC
Confidence 456899999865 6778899999887 134578888774
No 142
>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=62.82 E-value=8 Score=27.32 Aligned_cols=40 Identities=20% Similarity=0.254 Sum_probs=34.7
Q ss_pred CCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecC
Q psy17949 39 DTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDR 78 (96)
Q Consensus 39 ~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~ 78 (96)
.=..|.|...|+..+++--.+...|-+||.|+++.++.+.
T Consensus 12 ~YrTRSLLfeNv~~sidLh~Fl~~fv~~~pIESiYL~~~~ 51 (309)
T PF10567_consen 12 EYRTRSLLFENVNNSIDLHSFLTKFVKFGPIESIYLIKSN 51 (309)
T ss_pred cceeHHHHHhhccccccHHHHHHHhhccCceeEEEEecCC
Confidence 3456788899999999888889999999999999998765
No 143
>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=61.67 E-value=20 Score=20.46 Aligned_cols=27 Identities=15% Similarity=0.158 Sum_probs=19.7
Q ss_pred CeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 68 DIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 68 ~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
+|.++++-.-...|+.+|||-|+|++.
T Consensus 2 ~itdVri~~~~~~~~lka~asV~~dd~ 28 (84)
T PF04026_consen 2 KITDVRIRKIEPEGKLKAFASVTFDDC 28 (84)
T ss_dssp -EEEEEEEETTSSSSEEEEEEEEETTT
T ss_pred ccEEEEEEEecCCCCEEEEEEEEECCE
Confidence 366777755444589999999999873
No 144
>PHA03075 glutaredoxin-like protein; Provisional
Probab=58.23 E-value=22 Score=21.76 Aligned_cols=34 Identities=24% Similarity=0.359 Sum_probs=20.9
Q ss_pred HHHHhccCCCeeEEEEeecCCCCCcccEEEEEeccCC
Q psy17949 59 LREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFYL 95 (96)
Q Consensus 59 l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~~ 95 (96)
+-.+|..+|.---.-+-.|++||+ .|||.|..|+
T Consensus 59 Inn~~~~lgne~v~lfKydp~t~q---mA~V~i~k~~ 92 (123)
T PHA03075 59 INNFFKHLGNEYVSLFKYDPETKQ---MAFVDISKFL 92 (123)
T ss_pred HHHHHHhhcccEEEEEEEcCCCCc---EEEEehhHee
Confidence 344555555332334456777766 9999998775
No 145
>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=57.03 E-value=31 Score=19.78 Aligned_cols=47 Identities=17% Similarity=0.344 Sum_probs=31.6
Q ss_pred ccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEe
Q psy17949 42 WTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSP 91 (96)
Q Consensus 42 ~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f 91 (96)
..-+|||+++..+-|.-++.+-+-.+.-.-+.+-.+ ....||.|-+.
T Consensus 25 ~~GVyVg~~s~rVRe~lW~~v~~~~~~G~a~m~~~~---~neqG~~~~t~ 71 (86)
T PF09707_consen 25 RPGVYVGNVSARVRERLWERVTEWIGDGSAVMVWSD---NNEQGFDFRTL 71 (86)
T ss_pred CCCcEEcCCCHHHHHHHHHHHHhhCCCccEEEEEcc---CCCCCEEEEEe
Confidence 446999999998888777777765554434433332 22788998776
No 146
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=55.51 E-value=12 Score=25.82 Aligned_cols=36 Identities=19% Similarity=0.252 Sum_probs=28.8
Q ss_pred cEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecC
Q psy17949 43 TKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDR 78 (96)
Q Consensus 43 ~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~ 78 (96)
....|+|||+.++..-+..++...-.+....+|.++
T Consensus 96 ~~~vVaNlPY~Isspii~kll~~~~~~~~~v~M~Qk 131 (259)
T COG0030 96 PYKVVANLPYNISSPILFKLLEEKFIIQDMVLMVQK 131 (259)
T ss_pred CCEEEEcCCCcccHHHHHHHHhccCccceEEEEeHH
Confidence 456799999999999999999876666666676654
No 147
>KOG1548|consensus
Probab=55.18 E-value=22 Score=25.84 Aligned_cols=51 Identities=20% Similarity=0.262 Sum_probs=35.6
Q ss_pred CCCccEEEEcCCC----CCCC-------HHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 39 DTTWTKLFVGGLP----YHTT-------DKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 39 ~~~~~~l~v~~l~----~~~~-------~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
....++|.+.|+- +..+ .++|.+--.+||.|.+|.+. | ..+.|-+-|.|.+
T Consensus 262 ~r~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~-d---~hPdGvvtV~f~n 323 (382)
T KOG1548|consen 262 ARADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVY-D---RHPDGVVTVSFRN 323 (382)
T ss_pred ccCCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEe-c---cCCCceeEEEeCC
Confidence 3456788888872 2333 35666777899999998653 2 4568889899875
No 148
>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=51.58 E-value=13 Score=21.49 Aligned_cols=27 Identities=19% Similarity=0.469 Sum_probs=22.8
Q ss_pred CCCccEEEEcCCCCCCCHHHHHHHhcc
Q psy17949 39 DTTWTKLFVGGLPYHTTDKSLREHFSV 65 (96)
Q Consensus 39 ~~~~~~l~v~~l~~~~~~~~l~~~F~~ 65 (96)
....++|-|.|||....+++|++.++-
T Consensus 49 ~vs~rtVlvsgip~~l~ee~l~D~LeI 75 (88)
T PF07292_consen 49 GVSKRTVLVSGIPDVLDEEELRDKLEI 75 (88)
T ss_pred cccCCEEEEeCCCCCCChhhheeeEEE
Confidence 456789999999999999999977653
No 149
>KOG4008|consensus
Probab=51.30 E-value=14 Score=25.40 Aligned_cols=36 Identities=22% Similarity=0.415 Sum_probs=29.6
Q ss_pred CCCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEE
Q psy17949 37 QKDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEA 72 (96)
Q Consensus 37 ~~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~ 72 (96)
........+|+-|+|...+++.|.....++|-+..+
T Consensus 35 s~~~eKd~lfl~Nvp~~~tee~lkr~vsqlg~vq~~ 70 (261)
T KOG4008|consen 35 SNSNEKDCLFLVNVPLLSTEEHLKRFVSQLGHVQEL 70 (261)
T ss_pred cccccccceeeecccccccHHHHHHHHHHhhhhhhe
Confidence 345567789999999999999999999998855443
No 150
>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=49.99 E-value=55 Score=19.59 Aligned_cols=52 Identities=19% Similarity=0.072 Sum_probs=32.1
Q ss_pred CccEEEEcCCCCCC-CHHHHHHHhccC-CCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 41 TWTKLFVGGLPYHT-TDKSLREHFSVF-GDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 41 ~~~~l~v~~l~~~~-~~~~l~~~F~~~-G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
....+.+--+|+.. +.++|..+.+.+ ..|..+++++|. ..++-.+.+.|.+.
T Consensus 11 ~~~~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~--~pnrymVLikF~~~ 64 (110)
T PF07576_consen 11 RRSTLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDG--TPNRYMVLIKFRDQ 64 (110)
T ss_pred CCceEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCC--CCceEEEEEEECCH
Confidence 33444444455544 555665555554 467788998873 34666788898874
No 151
>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=49.52 E-value=13 Score=19.36 Aligned_cols=12 Identities=42% Similarity=0.949 Sum_probs=8.1
Q ss_pred CcccEEEEEecc
Q psy17949 82 KSRGYGFVSPSF 93 (96)
Q Consensus 82 ~~~G~~fV~f~s 93 (96)
..+|||||..++
T Consensus 6 ~~~GfGFv~~~~ 17 (58)
T PF08206_consen 6 HPKGFGFVIPDD 17 (58)
T ss_dssp -SSS-EEEEECT
T ss_pred EcCCCEEEEECC
Confidence 468999998765
No 152
>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=49.51 E-value=13 Score=17.85 Aligned_cols=16 Identities=25% Similarity=0.403 Sum_probs=10.0
Q ss_pred CCCCHHHHHHHhccCC
Q psy17949 52 YHTTDKSLREHFSVFG 67 (96)
Q Consensus 52 ~~~~~~~l~~~F~~~G 67 (96)
.++++++|+++|.+..
T Consensus 19 ~Dtd~~~Lk~vF~~i~ 34 (36)
T PF11411_consen 19 VDTDEDQLKEVFNRIK 34 (36)
T ss_dssp S---HHHHHHHHHCS-
T ss_pred ccCCHHHHHHHHHHhc
Confidence 4678999999998643
No 153
>PRK11558 putative ssRNA endonuclease; Provisional
Probab=49.47 E-value=37 Score=20.00 Aligned_cols=49 Identities=8% Similarity=0.143 Sum_probs=30.1
Q ss_pred ccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 42 WTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 42 ~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
..-+|||+++..+-+.-.+.+-+-++.-.-+.+..+ ....||.|-++.+
T Consensus 27 ~~GVyVg~~S~rVRd~lW~~v~~~~~~G~avmv~~~---~~eqG~~~~t~G~ 75 (97)
T PRK11558 27 RAGVYVGDVSRRIREMIWQQVTQLAEEGNVVMAWAT---NTESGFEFQTFGE 75 (97)
T ss_pred CCCcEEcCCCHHHHHHHHHHHHHhCCCCcEEEEEcC---CCCCCcEEEecCC
Confidence 446999998888877666666665554333333322 2334898876653
No 154
>KOG0862|consensus
Probab=47.49 E-value=19 Score=24.30 Aligned_cols=15 Identities=27% Similarity=0.479 Sum_probs=11.7
Q ss_pred CCCcccEEEEEeccC
Q psy17949 80 TGKSRGYGFVSPSFY 94 (96)
Q Consensus 80 tg~~~G~~fV~f~s~ 94 (96)
+-.+|-|+||+|+.+
T Consensus 105 ~~~~RPY~FieFD~~ 119 (216)
T KOG0862|consen 105 QPASRPYAFIEFDTF 119 (216)
T ss_pred CccCCCeeEEehhHH
Confidence 346677999999875
No 155
>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=47.32 E-value=31 Score=19.98 Aligned_cols=47 Identities=19% Similarity=0.371 Sum_probs=29.8
Q ss_pred EEEEcCCCCCCCHHHHH---HHhccCCCeeEEEEee----cCCCCCcccEEEEEec
Q psy17949 44 KLFVGGLPYHTTDKSLR---EHFSVFGDIEEAVVIT----DRQTGKSRGYGFVSPS 92 (96)
Q Consensus 44 ~l~v~~l~~~~~~~~l~---~~F~~~G~i~~~~~~~----d~~tg~~~G~~fV~f~ 92 (96)
..|+.+||.++.+.++. +.+..++. ++.+.. ....+.+.|++.+.+.
T Consensus 12 ~a~~a~lp~~va~R~~~~a~~~L~~~~~--~v~i~~d~~~~~~~~~~~G~gi~l~a 65 (103)
T PF05189_consen 12 IAFVAGLPSSVAERMANAARKRLNWYGP--DVEIETDYRESDDSAFGPGSGISLVA 65 (103)
T ss_dssp EEEEESS-CHHHHHHHHHHHHHHCTTCS--EEEEEEEEE-CCCCGCSSEEEEEEEE
T ss_pred EEEEcCCCHHHHHHHHHHHHHHhhhhCC--CeEEEEecccCccCCCCCceEEEEEE
Confidence 45889999999886664 55555543 444433 3456778888876554
No 156
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=44.16 E-value=33 Score=21.92 Aligned_cols=48 Identities=23% Similarity=0.323 Sum_probs=31.4
Q ss_pred CCCccEEEEcCCCCCCC-HHHHHH---HhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 39 DTTWTKLFVGGLPYHTT-DKSLRE---HFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 39 ~~~~~~l~v~~l~~~~~-~~~l~~---~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
+..-.+|-|.=|..++. .+|++. -++.||.|.++.+. | +.-|.|.|.|
T Consensus 83 epPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~c-----G--rqsavVvF~d 134 (166)
T PF15023_consen 83 EPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLC-----G--RQSAVVVFKD 134 (166)
T ss_pred CCCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeec-----C--CceEEEEehh
Confidence 34455787887776664 355654 45679999998653 2 2257888876
No 157
>PRK15464 cold shock-like protein CspH; Provisional
Probab=43.82 E-value=13 Score=20.39 Aligned_cols=10 Identities=50% Similarity=0.969 Sum_probs=7.6
Q ss_pred cccEEEEEec
Q psy17949 83 SRGYGFVSPS 92 (96)
Q Consensus 83 ~~G~~fV~f~ 92 (96)
-||||||+=.
T Consensus 15 ~KGfGFI~~~ 24 (70)
T PRK15464 15 KSGKGFIIPS 24 (70)
T ss_pred CCCeEEEccC
Confidence 3899999644
No 158
>KOG2318|consensus
Probab=42.52 E-value=51 Score=25.66 Aligned_cols=37 Identities=22% Similarity=0.287 Sum_probs=29.5
Q ss_pred CCCccEEEEcCCCCC-CCHHHHHHHhccC----CCeeEEEEe
Q psy17949 39 DTTWTKLFVGGLPYH-TTDKSLREHFSVF----GDIEEAVVI 75 (96)
Q Consensus 39 ~~~~~~l~v~~l~~~-~~~~~l~~~F~~~----G~i~~~~~~ 75 (96)
....++|-|-|+.|+ +...+|.-+|..| |.|.+|.|-
T Consensus 171 ~~~T~RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsilSV~IY 212 (650)
T KOG2318|consen 171 GEETKRLAVVNMDWDRVKAKDLFVLFNSFLPKGGSILSVKIY 212 (650)
T ss_pred ccccceeeEeccccccccHHHHHHHHHhhcCCCCceeEEEec
Confidence 556789999999995 5778998888654 588888764
No 159
>PRK09937 stationary phase/starvation inducible regulatory protein CspD; Provisional
Probab=42.19 E-value=15 Score=20.31 Aligned_cols=9 Identities=44% Similarity=1.475 Sum_probs=7.0
Q ss_pred cccEEEEEe
Q psy17949 83 SRGYGFVSP 91 (96)
Q Consensus 83 ~~G~~fV~f 91 (96)
.||||||+=
T Consensus 12 ~KGfGFI~~ 20 (74)
T PRK09937 12 AKGFGFICP 20 (74)
T ss_pred CCCeEEEee
Confidence 389999864
No 160
>PRK15463 cold shock-like protein CspF; Provisional
Probab=41.82 E-value=15 Score=20.05 Aligned_cols=10 Identities=40% Similarity=0.913 Sum_probs=7.5
Q ss_pred cccEEEEEec
Q psy17949 83 SRGYGFVSPS 92 (96)
Q Consensus 83 ~~G~~fV~f~ 92 (96)
.||||||+=.
T Consensus 15 ~kGfGFI~~~ 24 (70)
T PRK15463 15 KSGKGLITPS 24 (70)
T ss_pred CCceEEEecC
Confidence 3899999643
No 161
>PHA02531 20 portal vertex protein; Provisional
Probab=41.80 E-value=20 Score=27.15 Aligned_cols=43 Identities=23% Similarity=0.363 Sum_probs=32.4
Q ss_pred CCCCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcc
Q psy17949 38 KDTTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSR 84 (96)
Q Consensus 38 ~~~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~ 84 (96)
++....-|=|||||..-.++.|+++..+| +-+++.|..||+-+
T Consensus 277 PERRvFYiDVGNlPk~KAeqYlr~vm~~y----kNklvYDa~TGeir 319 (514)
T PHA02531 277 PERRVFYIDVGNLPKRKAEEYLNNVMQRY----KNRVVYDANTGKVK 319 (514)
T ss_pred ccceEEEEEcCCCChhhHHHHHHHHHHHh----hhhEEEeCCCCeec
Confidence 33445556689999999999999999887 44567777777644
No 162
>PRK14998 cold shock-like protein CspD; Provisional
Probab=41.09 E-value=16 Score=20.14 Aligned_cols=10 Identities=40% Similarity=1.335 Sum_probs=7.4
Q ss_pred cccEEEEEec
Q psy17949 83 SRGYGFVSPS 92 (96)
Q Consensus 83 ~~G~~fV~f~ 92 (96)
.||||||+=.
T Consensus 12 ~kGfGFI~~~ 21 (73)
T PRK14998 12 AKGFGFICPE 21 (73)
T ss_pred CCceEEEecC
Confidence 4899998643
No 163
>PRK09507 cspE cold shock protein CspE; Reviewed
Probab=40.86 E-value=15 Score=19.90 Aligned_cols=10 Identities=50% Similarity=1.418 Sum_probs=7.5
Q ss_pred cccEEEEEec
Q psy17949 83 SRGYGFVSPS 92 (96)
Q Consensus 83 ~~G~~fV~f~ 92 (96)
.||||||+=.
T Consensus 14 ~kGyGFI~~~ 23 (69)
T PRK09507 14 SKGFGFITPE 23 (69)
T ss_pred CCCcEEEecC
Confidence 3899998743
No 164
>PRK10943 cold shock-like protein CspC; Provisional
Probab=39.82 E-value=16 Score=19.84 Aligned_cols=10 Identities=50% Similarity=1.447 Sum_probs=7.6
Q ss_pred cccEEEEEec
Q psy17949 83 SRGYGFVSPS 92 (96)
Q Consensus 83 ~~G~~fV~f~ 92 (96)
.||||||+=+
T Consensus 14 ~kGfGFI~~~ 23 (69)
T PRK10943 14 SKGFGFITPA 23 (69)
T ss_pred CCCcEEEecC
Confidence 3899999743
No 165
>PRK12280 rplW 50S ribosomal protein L23; Reviewed
Probab=39.81 E-value=1e+02 Score=19.81 Aligned_cols=32 Identities=3% Similarity=0.181 Sum_probs=24.7
Q ss_pred EEEEcCCCCCCCHHHHHHHhcc-CC-CeeEEEEe
Q psy17949 44 KLFVGGLPYHTTDKSLREHFSV-FG-DIEEAVVI 75 (96)
Q Consensus 44 ~l~v~~l~~~~~~~~l~~~F~~-~G-~i~~~~~~ 75 (96)
+.|+-.++.+++..+++..++. || .|.+|...
T Consensus 23 N~ytF~V~~~anK~eIK~AVE~iF~VkV~~VNT~ 56 (158)
T PRK12280 23 NVYTFKVDRRANKIEIKKAVEFIFKVKVLKVNIF 56 (158)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeE
Confidence 5688889999999999988876 55 55666544
No 166
>PF13046 DUF3906: Protein of unknown function (DUF3906)
Probab=39.57 E-value=49 Score=17.98 Aligned_cols=35 Identities=20% Similarity=0.495 Sum_probs=23.5
Q ss_pred CCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEE
Q psy17949 53 HTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFV 89 (96)
Q Consensus 53 ~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV 89 (96)
..-+.+|+..|-+--.|+++.+.--+.-+ +|-|||
T Consensus 29 ~~~e~eler~fl~~P~v~e~~l~EKKri~--~G~gyV 63 (64)
T PF13046_consen 29 RLVEVELERHFLPLPEVKEVALYEKKRIR--KGAGYV 63 (64)
T ss_pred HHHHHHhhhhccCCCCceEEEEEEEEeee--CCceeE
Confidence 34467788888888889998887655434 444444
No 167
>cd00874 RNA_Cyclase_Class_II RNA 3' phosphate cyclase domain (class II). These proteins function as RNA cyclase to catalyze the ATP-dependent conversion of 3'-phosphate to a 2'.3'-cyclic phosphodiester at the end of RNA molecule. A conserved catalytic histidine residue is found in all members of this subfamily.
Probab=39.49 E-value=52 Score=23.47 Aligned_cols=48 Identities=17% Similarity=0.213 Sum_probs=33.1
Q ss_pred EEEEcCCCCCCCHHHHH---HHhcc-CCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 44 KLFVGGLPYHTTDKSLR---EHFSV-FGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 44 ~l~v~~l~~~~~~~~l~---~~F~~-~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
..|+.+||..+.+.++. +.+.+ ++ .++.+..|...+.+.|++.+-++.
T Consensus 188 ~~~~~~l~~~va~r~~~~a~~~L~~~~~--~dv~i~~~~~~~~s~G~~i~L~ae 239 (326)
T cd00874 188 ISHAANLPPHVAERQAEAAAALLRKALG--LQIEIEPEDQSALGPGSGIVLWAE 239 (326)
T ss_pred EEEEccCCHHHHHHHHHHHHHHHhhccC--CCeEEEEEecCCCCCCEEEEEEEE
Confidence 56788999998876654 55555 43 355566565568999999876653
No 168
>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=39.41 E-value=18 Score=19.50 Aligned_cols=10 Identities=40% Similarity=1.335 Sum_probs=7.6
Q ss_pred cccEEEEEec
Q psy17949 83 SRGYGFVSPS 92 (96)
Q Consensus 83 ~~G~~fV~f~ 92 (96)
.||||||+=.
T Consensus 12 ~kGfGFI~~~ 21 (68)
T TIGR02381 12 AKGFGFICPE 21 (68)
T ss_pred CCCeEEEecC
Confidence 3899999644
No 169
>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=39.11 E-value=28 Score=20.07 Aligned_cols=49 Identities=12% Similarity=0.154 Sum_probs=28.2
Q ss_pred ccEEEEcCCCCCCCHHHHHHHhcc-CCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 42 WTKLFVGGLPYHTTDKSLREHFSV-FGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 42 ~~~l~v~~l~~~~~~~~l~~~F~~-~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
..-+|||+++..+-+.-.+.+-+- .+.- ++.+... +....||.|-++.+
T Consensus 25 ~~GVyVg~~s~rVRe~lW~~v~~~~~~~G-~avm~~~--~~~e~G~~~~t~G~ 74 (87)
T TIGR01873 25 RAGVYVGGVSASVRERIWDYLAQHCPPKG-SLVITWS--SNTCPGFEFFTLGE 74 (87)
T ss_pred CCCcEEcCCCHHHHHHHHHHHHHhCCCCc-cEEEEEe--CCCCCCcEEEecCC
Confidence 446999999888877555544444 2322 2323222 33456788876653
No 170
>PRK09890 cold shock protein CspG; Provisional
Probab=37.80 E-value=18 Score=19.65 Aligned_cols=10 Identities=40% Similarity=1.371 Sum_probs=7.5
Q ss_pred cccEEEEEec
Q psy17949 83 SRGYGFVSPS 92 (96)
Q Consensus 83 ~~G~~fV~f~ 92 (96)
.||||||+=+
T Consensus 15 ~kGfGFI~~~ 24 (70)
T PRK09890 15 DKGFGFITPD 24 (70)
T ss_pred CCCcEEEecC
Confidence 3899999744
No 171
>PF14893 PNMA: PNMA
Probab=37.49 E-value=35 Score=24.54 Aligned_cols=52 Identities=15% Similarity=0.168 Sum_probs=31.5
Q ss_pred ccEEEEcCCCCCCCHHHHHHHhc----cCCCeeEEEEeecCCCCCcccEEEEEeccCC
Q psy17949 42 WTKLFVGGLPYHTTDKSLREHFS----VFGDIEEAVVITDRQTGKSRGYGFVSPSFYL 95 (96)
Q Consensus 42 ~~~l~v~~l~~~~~~~~l~~~F~----~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~~ 95 (96)
-+.|-|.++|.++++.++++.+. +.|...-..-+..++.+ .--++|+|..++
T Consensus 18 ~r~lLv~giP~dc~~~ei~e~l~~~l~plg~yrvl~~~f~~~~~--~~aalve~~e~~ 73 (331)
T PF14893_consen 18 QRALLVLGIPEDCEEAEIEEALQAALSPLGRYRVLGKMFRREEN--AKAALVEFAEDV 73 (331)
T ss_pred hhhheeecCCCCCCHHHHHHHHHHhhcccccceehhhHhhhhcc--cceeeeeccccc
Confidence 45788999999999988887764 44543222112222111 226778877654
No 172
>PRK10354 RNA chaperone/anti-terminator; Provisional
Probab=37.29 E-value=19 Score=19.55 Aligned_cols=9 Identities=44% Similarity=1.505 Sum_probs=7.1
Q ss_pred ccEEEEEec
Q psy17949 84 RGYGFVSPS 92 (96)
Q Consensus 84 ~G~~fV~f~ 92 (96)
||||||+=.
T Consensus 16 kGfGFI~~~ 24 (70)
T PRK10354 16 KGFGFITPD 24 (70)
T ss_pred CCcEEEecC
Confidence 899999743
No 173
>COG5584 Predicted small secreted protein [Function unknown]
Probab=36.60 E-value=45 Score=19.71 Aligned_cols=31 Identities=16% Similarity=0.333 Sum_probs=22.2
Q ss_pred CCCCCCCHHHHHHHhccCCCeeEEEEeecCC
Q psy17949 49 GLPYHTTDKSLREHFSVFGDIEEAVVITDRQ 79 (96)
Q Consensus 49 ~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~ 79 (96)
|+..+..-.-+++.|.++|.|+--.+...|+
T Consensus 29 ~is~e~alk~vk~afk~~mnI~GSwI~~~pe 59 (103)
T COG5584 29 NISRENALKVVKEAFKQFMNIKGSWIVYEPE 59 (103)
T ss_pred ccChhHHHHHHHHHhcccCCcceeEEEEecc
Confidence 3444555567789999999998877766553
No 174
>PRK05738 rplW 50S ribosomal protein L23; Reviewed
Probab=36.45 E-value=87 Score=18.02 Aligned_cols=32 Identities=16% Similarity=0.301 Sum_probs=23.8
Q ss_pred EEEEcCCCCCCCHHHHHHHhcc-CC-CeeEEEEe
Q psy17949 44 KLFVGGLPYHTTDKSLREHFSV-FG-DIEEAVVI 75 (96)
Q Consensus 44 ~l~v~~l~~~~~~~~l~~~F~~-~G-~i~~~~~~ 75 (96)
+.|+-.++..++..++++.++. || .|.+|.-+
T Consensus 21 n~~~F~V~~~a~K~eIK~aie~lf~VkV~~VnT~ 54 (92)
T PRK05738 21 NKYVFEVAPDATKPEIKAAVEKLFGVKVESVNTL 54 (92)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHcCCceeEEEEE
Confidence 4667778999999999999976 55 55565543
No 175
>PF07230 Peptidase_S80: Bacteriophage T4-like capsid assembly protein (Gp20); InterPro: IPR010823 This family of proteins is essential for capsid assembly in the T4-like bacteriophages []. Gp20 forms a unique 12 subunit portal vertex through which DNA enters during packaging and exits during infection. The Gp20 vertex acts as an initiator for the assembly of the major capsid protein and the scaffolding proteins into a prolate icosahedron of precise dimensions. The regulation of portal protein gene expression is an important regulator of prohead assembly in bacteriophage T4 [].
Probab=35.42 E-value=35 Score=25.95 Aligned_cols=39 Identities=26% Similarity=0.438 Sum_probs=30.6
Q ss_pred ccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcc
Q psy17949 42 WTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSR 84 (96)
Q Consensus 42 ~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~ 84 (96)
-.-|=|||||..-.++.|+++-.+| +-+++.|..||.-+
T Consensus 278 vFyIDvGnlpk~KAeqyl~~iM~k~----knklvYDa~TGevr 316 (501)
T PF07230_consen 278 VFYIDVGNLPKQKAEQYLRDIMNKY----KNKLVYDASTGEVR 316 (501)
T ss_pred EEEEECCCCChHhHHHHHHHHHHHh----cceeeecCCCCeec
Confidence 3345589999999999999999887 45677787787644
No 176
>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed
Probab=34.91 E-value=44 Score=22.86 Aligned_cols=35 Identities=26% Similarity=0.336 Sum_probs=25.6
Q ss_pred EEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecC
Q psy17949 44 KLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDR 78 (96)
Q Consensus 44 ~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~ 78 (96)
-+.|+|+|+.++.+-|..++.....+..+.++.++
T Consensus 107 ~~vv~NlPY~iss~ii~~~l~~~~~~~~~~l~~Qk 141 (272)
T PRK00274 107 LKVVANLPYNITTPLLFHLLEERDPIRDMVVMVQK 141 (272)
T ss_pred ceEEEeCCccchHHHHHHHHhcCCCCCeeEEEeHH
Confidence 57799999999998888888643235566666554
No 177
>CHL00030 rpl23 ribosomal protein L23
Probab=34.48 E-value=97 Score=17.98 Aligned_cols=33 Identities=9% Similarity=0.193 Sum_probs=24.7
Q ss_pred EEEEcCCCCCCCHHHHHHHhcc-CC-CeeEEEEee
Q psy17949 44 KLFVGGLPYHTTDKSLREHFSV-FG-DIEEAVVIT 76 (96)
Q Consensus 44 ~l~v~~l~~~~~~~~l~~~F~~-~G-~i~~~~~~~ 76 (96)
+.|+--++.+++..++++.++. || .|..+....
T Consensus 20 n~y~F~V~~~anK~eIK~avE~lf~VkV~~VNt~~ 54 (93)
T CHL00030 20 NQYTFDVDSGSTKTEIKHWIELFFGVKVIAVNSHR 54 (93)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCeEEEEEEEE
Confidence 5677778999999999988876 54 566665443
No 178
>PF00313 CSD: 'Cold-shock' DNA-binding domain; InterPro: IPR002059 When Escherichia coli is exposed to a temperature drop from 37 to 10 degrees centigrade, a 4-5 hour lag phase occurs, after which growth is resumed at a reduced rate []. During the lag phase, the expression of around 13 proteins, which contain specific DNA-binding regions [], is increased 2-10 fold. These so-called 'cold shock' proteins are thought to help the cell to survive in temperatures lower than optimum growth temperature, by contrast with heat shock proteins, which help the cell to survive in temperatures greater than the optimum, possibly by condensation of the chromosome and organisation of the prokaryotic nucleoid []. A conserved domain of about 70 amino acids has been found in prokaryotic and eukaryotic DNA-binding proteins [, , ]. This domain is known as the 'cold-shock domain' (CSD), part of which is highly similar [] to the RNP-1 RNA-binding motif.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1HZC_A 1I5F_A 1HZ9_B 1C9O_B 1HZB_B 1HZA_A 2HAX_B 2L15_A 2LSS_A 3I2Z_B ....
Probab=33.55 E-value=35 Score=17.83 Aligned_cols=11 Identities=36% Similarity=0.966 Sum_probs=8.2
Q ss_pred cccEEEEEecc
Q psy17949 83 SRGYGFVSPSF 93 (96)
Q Consensus 83 ~~G~~fV~f~s 93 (96)
.+|||||+-.+
T Consensus 11 ~kgyGFI~~~~ 21 (66)
T PF00313_consen 11 EKGYGFITSDD 21 (66)
T ss_dssp TTTEEEEEETT
T ss_pred CCCceEEEEcc
Confidence 47899998654
No 179
>PTZ00338 dimethyladenosine transferase-like protein; Provisional
Probab=33.00 E-value=42 Score=23.47 Aligned_cols=35 Identities=14% Similarity=0.221 Sum_probs=26.6
Q ss_pred EEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecC
Q psy17949 44 KLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDR 78 (96)
Q Consensus 44 ~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~ 78 (96)
.+.|+|+|+.++...+..++.....+....+|.++
T Consensus 103 d~VvaNlPY~Istpil~~ll~~~~~~~~~vlm~Qk 137 (294)
T PTZ00338 103 DVCVANVPYQISSPLVFKLLAHRPLFRCAVLMFQK 137 (294)
T ss_pred CEEEecCCcccCcHHHHHHHhcCCCCceeeeeehH
Confidence 47789999999999998888654456666666554
No 180
>PF06613 KorB_C: KorB C-terminal beta-barrel domain; InterPro: IPR010575 This domain is found in several KorB transcriptional repressor proteins. The korB gene is a major regulatory element in the replication and maintenance of broad host-range plasmid RK2. It negatively controls the replication gene trfA, the host-lethal determinants kilA and kilB, and the korA-korB operon []. This family is found in conjunction with IPR003115 from INTERPRO.; GO: 0003677 DNA binding, 0045892 negative regulation of transcription, DNA-dependent; PDB: 1IGQ_B 1IGU_A.
Probab=32.96 E-value=76 Score=17.01 Aligned_cols=22 Identities=18% Similarity=0.267 Sum_probs=14.6
Q ss_pred EEEEeecCCCCCcccEEEEEecc
Q psy17949 71 EAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 71 ~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
.++++.++ ..-+.|++.+.|++
T Consensus 19 ~arllLnr-Rps~~G~~WiKyED 40 (60)
T PF06613_consen 19 PARLLLNR-RPSSEGLAWIKYED 40 (60)
T ss_dssp EEEE-TTB---SSTTEEEEEETT
T ss_pred hhhhhhcc-CCCcCCeEEEEEcc
Confidence 45667664 35668999999986
No 181
>cd04458 CSP_CDS Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein. CSP expression is up-regulated by an abrupt drop in growth temperature. CSP's are also expressed under normal condition at lower level. The function of cold-shock proteins is not fully understood. They preferentially bind poly-pyrimidine region of single-stranded RNA and DNA. CSP's are thought to bind mRNA and regulate ribosomal translation, mRNA degradation, and the rate of transcription termination. The human Y-box protein, which contains a CSD, regulates transcription and translation of genes that contain the Y-box sequence in their promoters. This specific ssDNA-binding properties of CSD are required for the binding of Y-box protein to the promoter's Y-box sequence, thereby regulating transcription.
Probab=32.75 E-value=28 Score=18.15 Aligned_cols=10 Identities=40% Similarity=1.205 Sum_probs=7.7
Q ss_pred ccEEEEEecc
Q psy17949 84 RGYGFVSPSF 93 (96)
Q Consensus 84 ~G~~fV~f~s 93 (96)
+|||||+=.+
T Consensus 12 kGfGFI~~~~ 21 (65)
T cd04458 12 KGFGFITPDD 21 (65)
T ss_pred CCeEEEecCC
Confidence 8899997543
No 182
>PHA01632 hypothetical protein
Probab=32.50 E-value=47 Score=17.62 Aligned_cols=20 Identities=20% Similarity=0.449 Sum_probs=16.2
Q ss_pred EEcCCCCCCCHHHHHHHhcc
Q psy17949 46 FVGGLPYHTTDKSLREHFSV 65 (96)
Q Consensus 46 ~v~~l~~~~~~~~l~~~F~~ 65 (96)
.|-.+|...|+++|+.++.+
T Consensus 20 lieqvp~kpteeelrkvlpk 39 (64)
T PHA01632 20 LIEQVPQKPTEEELRKVLPK 39 (64)
T ss_pred ehhhcCCCCCHHHHHHHHHH
Confidence 34588999999999987753
No 183
>KOG1996|consensus
Probab=31.89 E-value=92 Score=22.37 Aligned_cols=37 Identities=11% Similarity=0.239 Sum_probs=24.3
Q ss_pred HHHHHHHhccCCCeeEEEEeecCCCCCccc-EEEEEec
Q psy17949 56 DKSLREHFSVFGDIEEAVVITDRQTGKSRG-YGFVSPS 92 (96)
Q Consensus 56 ~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G-~~fV~f~ 92 (96)
+.++++..++||+|..|.|..++..-...- --||+|+
T Consensus 300 ede~keEceKyg~V~~viifeip~~p~deavRiFveF~ 337 (378)
T KOG1996|consen 300 EDETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFE 337 (378)
T ss_pred HHHHHHHHHhhcceeeEEEEecCCCccchhheeeeeec
Confidence 355677888999999988776653332222 2577775
No 184
>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]
Probab=31.37 E-value=1.2e+02 Score=23.50 Aligned_cols=48 Identities=23% Similarity=0.516 Sum_probs=39.2
Q ss_pred CCccEEEEcCCCCCCCH-HHHHHHhccCCCeeEEEEeecCCCCCcccEEE
Q psy17949 40 TTWTKLFVGGLPYHTTD-KSLREHFSVFGDIEEAVVITDRQTGKSRGYGF 88 (96)
Q Consensus 40 ~~~~~l~v~~l~~~~~~-~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~f 88 (96)
....-+|.|-.|-+..+ ++|++.+++. .+.+..+...++|...-||||
T Consensus 295 ~~~P~Vf~GlyPid~~dye~LrdAleKL-~LNDasl~~E~EtS~ALGfGf 343 (603)
T COG0481 295 EVKPMVFAGLYPVDSDDYEDLRDALEKL-QLNDASLTYEPETSQALGFGF 343 (603)
T ss_pred cCCceEEEeecccChhHHHHHHHHHHhc-ccccceeeeccccchhccCce
Confidence 34568999988988877 8899998875 466777888889999999887
No 185
>KOG4285|consensus
Probab=31.14 E-value=2e+02 Score=20.72 Aligned_cols=45 Identities=20% Similarity=0.124 Sum_probs=28.8
Q ss_pred ccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 42 WTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 42 ~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
...|-|-+.++.. ...+..+|.+||.|.+... +..-.+=+|.|.+
T Consensus 197 D~WVTVfGFppg~-~s~vL~~F~~cG~Vvkhv~------~~ngNwMhirYss 241 (350)
T KOG4285|consen 197 DTWVTVFGFPPGQ-VSIVLNLFSRCGEVVKHVT------PSNGNWMHIRYSS 241 (350)
T ss_pred cceEEEeccCccc-hhHHHHHHHhhCeeeeeec------CCCCceEEEEecc
Confidence 4456666777653 3567789999999987643 2222366676654
No 186
>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=30.38 E-value=77 Score=15.56 Aligned_cols=26 Identities=15% Similarity=0.216 Sum_probs=20.6
Q ss_pred cEEEEcCCCCCCCHHHHHHHhccCCC
Q psy17949 43 TKLFVGGLPYHTTDKSLREHFSVFGD 68 (96)
Q Consensus 43 ~~l~v~~l~~~~~~~~l~~~F~~~G~ 68 (96)
.++++.+.......+.|+++...+|.
T Consensus 2 ~~~~i~g~~~~~~~~~l~~~i~~~Gg 27 (72)
T cd00027 2 LTFVITGDLPSEERDELKELIEKLGG 27 (72)
T ss_pred CEEEEEecCCCcCHHHHHHHHHHcCC
Confidence 46777777667888999999988875
No 187
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=26.77 E-value=1.3e+02 Score=19.07 Aligned_cols=29 Identities=17% Similarity=0.274 Sum_probs=19.3
Q ss_pred HHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEecc
Q psy17949 57 KSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPSF 93 (96)
Q Consensus 57 ~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s 93 (96)
.+|.+.|..||.+.=++++-+ -=+|+|.+
T Consensus 51 ~~ll~~~~~~GevvLvRfv~~--------~mwVTF~d 79 (146)
T PF08952_consen 51 DELLQKFAQYGEVVLVRFVGD--------TMWVTFRD 79 (146)
T ss_dssp HHHHHHHHCCS-ECEEEEETT--------CEEEEESS
T ss_pred HHHHHHHHhCCceEEEEEeCC--------eEEEEECc
Confidence 367788889999887776654 24566654
No 188
>PF14794 DUF4479: Domain of unknown function (DUF4479); PDB: 3BU2_C.
Probab=25.90 E-value=48 Score=18.35 Aligned_cols=31 Identities=32% Similarity=0.611 Sum_probs=21.4
Q ss_pred HhccCCCeeEEEEeecCCCCCcccEEEEEeccCC
Q psy17949 62 HFSVFGDIEEAVVITDRQTGKSRGYGFVSPSFYL 95 (96)
Q Consensus 62 ~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~s~~ 95 (96)
.+.+.|.|.++. +.++|+--||-|..-++|+
T Consensus 8 ~~e~kgdV~rI~---~~e~~~~vGyNif~~S~~l 38 (73)
T PF14794_consen 8 TYERKGDVVRIF---DEETGETVGYNIFNASSYL 38 (73)
T ss_dssp EEEEETTEEEEE---E--TTEEEEEEEETGGGTS
T ss_pred eEEEeCCEEEEE---ecCCCcEEEEEEEccccce
Confidence 356677777653 5578999999988777763
No 189
>KOG4574|consensus
Probab=25.06 E-value=21 Score=28.92 Aligned_cols=37 Identities=22% Similarity=0.176 Sum_probs=30.6
Q ss_pred ccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecC
Q psy17949 42 WTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDR 78 (96)
Q Consensus 42 ~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~ 78 (96)
..+.++.|.+-..+...|..++..||.+.+.+..+|-
T Consensus 298 qp~~~~~nn~v~~tSssL~~l~s~yg~v~s~wtlr~~ 334 (1007)
T KOG4574|consen 298 QPKQSLENNAVNLTSSSLATLCSDYGSVASAWTLRDL 334 (1007)
T ss_pred cchhhhhcccccchHHHHHHHHHhhcchhhheecccc
Confidence 4466677778888899999999999999999876764
No 190
>PF11249 DUF3047: Protein of unknown function (DUF3047); InterPro: IPR021409 This bacterial family of proteins has no known function.
Probab=25.01 E-value=2e+02 Score=18.68 Aligned_cols=32 Identities=16% Similarity=0.231 Sum_probs=24.3
Q ss_pred HHHHHHhc-cCCCeeEEEEeecCCCCCcccEEE
Q psy17949 57 KSLREHFS-VFGDIEEAVVITDRQTGKSRGYGF 88 (96)
Q Consensus 57 ~~l~~~F~-~~G~i~~~~~~~d~~tg~~~G~~f 88 (96)
+|+++.|. ..+.|..+-|+.|....+.++-|+
T Consensus 145 ~Dy~~~FG~~p~~i~~vai~tDsDnT~~~a~A~ 177 (183)
T PF11249_consen 145 ADYRRAFGEEPPRIVGVAIMTDSDNTGGSARAY 177 (183)
T ss_pred HHHHHHhCCCCCceeEEEEEEEcCCCCCEEEEE
Confidence 77888884 478899999999976666655544
No 191
>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=24.45 E-value=73 Score=21.59 Aligned_cols=32 Identities=31% Similarity=0.553 Sum_probs=24.5
Q ss_pred CccEEEEcCCCCCCCHHHHHHHhc--cCCCeeEE
Q psy17949 41 TWTKLFVGGLPYHTTDKSLREHFS--VFGDIEEA 72 (96)
Q Consensus 41 ~~~~l~v~~l~~~~~~~~l~~~F~--~~G~i~~~ 72 (96)
...-+.|||||+..+..-+.+++. .+|.+.-+
T Consensus 96 ~~~~~vv~NlPy~is~~il~~ll~~~~~g~~~~~ 129 (262)
T PF00398_consen 96 NQPLLVVGNLPYNISSPILRKLLELYRFGRVRMV 129 (262)
T ss_dssp SSEEEEEEEETGTGHHHHHHHHHHHGGGCEEEEE
T ss_pred CCceEEEEEecccchHHHHHHHhhcccccccceE
Confidence 456789999999999999988886 46654443
No 192
>smart00650 rADc Ribosomal RNA adenine dimethylases.
Probab=24.44 E-value=1.2e+02 Score=18.85 Aligned_cols=33 Identities=24% Similarity=0.348 Sum_probs=22.9
Q ss_pred EEEEcCCCCCCCHHHHHHHhccCCCeeEEEEee
Q psy17949 44 KLFVGGLPYHTTDKSLREHFSVFGDIEEAVVIT 76 (96)
Q Consensus 44 ~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~ 76 (96)
-+.++|+|+..+.+.+..++..........++.
T Consensus 79 d~vi~n~Py~~~~~~i~~~l~~~~~~~~~~l~~ 111 (169)
T smart00650 79 YKVVGNLPYNISTPILFKLLEEPPAFRDAVLMV 111 (169)
T ss_pred CEEEECCCcccHHHHHHHHHhcCCCcceEEEEE
Confidence 467899999999998888886533334444433
No 193
>COG5638 Uncharacterized conserved protein [Function unknown]
Probab=24.31 E-value=1.5e+02 Score=22.39 Aligned_cols=37 Identities=22% Similarity=0.355 Sum_probs=27.9
Q ss_pred CCCccEEEEcCCCCC-CCHHHHHHHhccC----CCeeEEEEe
Q psy17949 39 DTTWTKLFVGGLPYH-TTDKSLREHFSVF----GDIEEAVVI 75 (96)
Q Consensus 39 ~~~~~~l~v~~l~~~-~~~~~l~~~F~~~----G~i~~~~~~ 75 (96)
.....+|-|-|+.|+ +...+|..+|..| |++..|.|.
T Consensus 143 G~~tkrLAvVnmDWd~v~a~DLf~~fsSf~P~ggkl~kV~iy 184 (622)
T COG5638 143 GNPTKRLAVVNMDWDRVDAKDLFKIFSSFLPYGGKLSKVKIY 184 (622)
T ss_pred CCcccceeEeecccccchHHHHHHHHHhhCCCCCccceeEec
Confidence 456779999999995 5678898888654 677777653
No 194
>PF15407 Spo7_2_N: Sporulation protein family 7
Probab=23.92 E-value=56 Score=17.80 Aligned_cols=23 Identities=17% Similarity=0.278 Sum_probs=16.5
Q ss_pred CCCccEEEEcCCCCCCCHHHHHH
Q psy17949 39 DTTWTKLFVGGLPYHTTDKSLRE 61 (96)
Q Consensus 39 ~~~~~~l~v~~l~~~~~~~~l~~ 61 (96)
....+.+|+|++|..+-++.=..
T Consensus 24 s~tSr~vflG~IP~~W~~~~~~~ 46 (67)
T PF15407_consen 24 SLTSRRVFLGPIPEIWLQDHRKS 46 (67)
T ss_pred HHcCceEEECCCChHHHHcCcch
Confidence 35678999999999775544333
No 195
>KOG3424|consensus
Probab=23.53 E-value=1.3e+02 Score=18.51 Aligned_cols=37 Identities=22% Similarity=0.477 Sum_probs=22.3
Q ss_pred CCCHHHHHHHhcc-CCCeeEEEEeec----CCCCCcccEEEE
Q psy17949 53 HTTDKSLREHFSV-FGDIEEAVVITD----RQTGKSRGYGFV 89 (96)
Q Consensus 53 ~~~~~~l~~~F~~-~G~i~~~~~~~d----~~tg~~~G~~fV 89 (96)
.+..++|++-+.. |-.-.++.++.+ -.+|++.|||.|
T Consensus 34 ~vsK~EirEKla~mYkt~~d~V~vfgfrt~~GggkstgfalI 75 (132)
T KOG3424|consen 34 NVSKTEIREKLAKMYKTTPDAVFVFGFRTHFGGGKSTGFALI 75 (132)
T ss_pred CCCHHHHHHHHHHHhcCCcceEEEEEeeeccCCcccceeeee
Confidence 4566778776654 443344444333 346788899976
No 196
>COG1278 CspC Cold shock proteins [Transcription]
Probab=22.80 E-value=38 Score=18.53 Aligned_cols=11 Identities=36% Similarity=1.256 Sum_probs=7.5
Q ss_pred CcccEEEEEec
Q psy17949 82 KSRGYGFVSPS 92 (96)
Q Consensus 82 ~~~G~~fV~f~ 92 (96)
..||||||+=+
T Consensus 11 ~~KGfGFI~p~ 21 (67)
T COG1278 11 ATKGFGFITPE 21 (67)
T ss_pred CCCcceEcCCC
Confidence 34889987644
No 197
>TIGR00755 ksgA dimethyladenosine transferase. Alternate name: S-adenosylmethionine--6-N',N'-adenosyl (rRNA) dimethyltransferase
Probab=21.61 E-value=1.6e+02 Score=19.79 Aligned_cols=33 Identities=18% Similarity=0.155 Sum_probs=24.2
Q ss_pred EEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeec
Q psy17949 44 KLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITD 77 (96)
Q Consensus 44 ~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d 77 (96)
-+.|+|+|+.++.+.+.+++..+|.. ...++..
T Consensus 96 ~~vvsNlPy~i~~~il~~ll~~~~~~-~~~~~~q 128 (253)
T TIGR00755 96 LKVVSNLPYNISSPLIFKLLEKPKFR-LAVLMVQ 128 (253)
T ss_pred ceEEEcCChhhHHHHHHHHhccCCCc-eEEEEeh
Confidence 47899999999999999999655433 3444443
No 198
>KOG4365|consensus
Probab=21.45 E-value=57 Score=24.68 Aligned_cols=50 Identities=6% Similarity=-0.217 Sum_probs=37.2
Q ss_pred cEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecCCCCCcccEEEEEec
Q psy17949 43 TKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDRQTGKSRGYGFVSPS 92 (96)
Q Consensus 43 ~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~~tg~~~G~~fV~f~ 92 (96)
.+.|+..++-..++.++.-+|+.||-|..+.+.+.-..|..+-.+|++-.
T Consensus 4 ~~~~l~d~~~~~~~~~~~~~~~d~~~i~~~d~~~~~~~~~~~v~~f~~~~ 53 (572)
T KOG4365|consen 4 MKKSLKDSVASNNKDQNSMKHEDPSIISMEDGSPYVNGSLGEVTPFQHAK 53 (572)
T ss_pred hhhhHhhcccccccchhhhhccCCcceeeccCCccccCCcceeeeeeeee
Confidence 34566778888899999999999999988876555445555666777643
No 199
>cd00295 RNA_Cyclase RNA 3' phosphate cyclase domain - RNA phosphate cyclases are enzymes that catalyze the ATP-dependent conversion of 3'-phosphate at the end of RNA into 2', 3'-cyclic phosphodiester bond. The enzymes are conserved in eucaryotes, bacteria and archaea. The exact biological role of this enzyme is unknown, but it has been proposed that it is likely to function in cellular RNA metabolism and processing. RNA phosphate cyclase has been characterized in human (with at least three isozymes), and E. coli, and it seems to be taxonomically widespread. The crystal structure of RNA phospate cyclase shows that it consists of two domains. The larger domain contains three repeats of a fold originally identified in the bacterial translation initiation factor IF3.
Probab=20.79 E-value=1.5e+02 Score=21.25 Aligned_cols=49 Identities=12% Similarity=0.158 Sum_probs=31.0
Q ss_pred EEEEcCCCCCCCHHHHHHHhccCCC-eeEEEEeecCC----CCCcccEEEEEec
Q psy17949 44 KLFVGGLPYHTTDKSLREHFSVFGD-IEEAVVITDRQ----TGKSRGYGFVSPS 92 (96)
Q Consensus 44 ~l~v~~l~~~~~~~~l~~~F~~~G~-i~~~~~~~d~~----tg~~~G~~fV~f~ 92 (96)
..+..+||..+.+.++...-..... ..++.+..|.. .+.+.|++.+-++
T Consensus 192 ~~~~~~l~~~va~R~~~~a~~~l~~~~~dv~i~~~~~~~~~~~~s~G~gi~L~a 245 (338)
T cd00295 192 IAAGTRVPPAFAEREIASAAGSFNLFEPDIFILPDDQRGDECGNGPGNSISLEA 245 (338)
T ss_pred EEEEccCCHHHHHHHHHHHHHHhcccCCceEEEEeccccccCCCCCCeEEEEEE
Confidence 5677799999988766544332221 33455554433 6788899877665
No 200
>PF03672 UPF0154: Uncharacterised protein family (UPF0154); InterPro: IPR005359 The proteins in this entry are functionally uncharacterised.
Probab=20.73 E-value=91 Score=16.92 Aligned_cols=18 Identities=17% Similarity=0.226 Sum_probs=14.8
Q ss_pred CCCCCHHHHHHHhccCCC
Q psy17949 51 PYHTTDKSLREHFSVFGD 68 (96)
Q Consensus 51 ~~~~~~~~l~~~F~~~G~ 68 (96)
.+-++|+.++..+.+-|.
T Consensus 29 NPpine~mir~M~~QMG~ 46 (64)
T PF03672_consen 29 NPPINEKMIRAMMMQMGR 46 (64)
T ss_pred CCCCCHHHHHHHHHHhCC
Confidence 456799999999998875
No 201
>KOG0804|consensus
Probab=20.36 E-value=4e+02 Score=20.36 Aligned_cols=51 Identities=18% Similarity=0.131 Sum_probs=39.5
Q ss_pred ccEEEEcCCCCCCCHHHHHHHhccC-CCeeEEEEeecCCCCCcccEEEEEeccC
Q psy17949 42 WTKLFVGGLPYHTTDKSLREHFSVF-GDIEEAVVITDRQTGKSRGYGFVSPSFY 94 (96)
Q Consensus 42 ~~~l~v~~l~~~~~~~~l~~~F~~~-G~i~~~~~~~d~~tg~~~G~~fV~f~s~ 94 (96)
...|+|-.+|-.++-.||..+...+ -.|.++++++|. -.++=...|.|.+.
T Consensus 74 ~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~--~pnrymvLIkFr~q 125 (493)
T KOG0804|consen 74 STMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDG--MPNRYMVLIKFRDQ 125 (493)
T ss_pred CcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecC--CCceEEEEEEeccc
Confidence 7889999999999999998888765 468899999964 12233577888765
No 202
>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=20.07 E-value=86 Score=16.58 Aligned_cols=11 Identities=9% Similarity=-0.085 Sum_probs=7.8
Q ss_pred ccEEEEEeccC
Q psy17949 84 RGYGFVSPSFY 94 (96)
Q Consensus 84 ~G~~fV~f~s~ 94 (96)
+|++|++.+|.
T Consensus 16 ~g~~~~~L~D~ 26 (78)
T cd04489 16 SGHLYFTLKDE 26 (78)
T ss_pred CcEEEEEEEeC
Confidence 34888887764
No 203
>KOG3346|consensus
Probab=20.07 E-value=2.7e+02 Score=18.33 Aligned_cols=45 Identities=20% Similarity=0.222 Sum_probs=29.0
Q ss_pred CCccEEEEcCCCCCCCHHHHHHHhccCCCeeEEEEeecC--CCCCcccEEEEEecc
Q psy17949 40 TTWTKLFVGGLPYHTTDKSLREHFSVFGDIEEAVVITDR--QTGKSRGYGFVSPSF 93 (96)
Q Consensus 40 ~~~~~l~v~~l~~~~~~~~l~~~F~~~G~i~~~~~~~d~--~tg~~~G~~fV~f~s 93 (96)
..++--.|.|+|-... -..|++....+.--+ .+|.|| |.|+.|..
T Consensus 84 rE~lHWlV~nIPg~~~--------~~~G~~i~~Y~~P~Pp~~tG~HR-yVfll~rQ 130 (185)
T KOG3346|consen 84 REWLHWLVTNIPGTDG--------ISKGQEISEYLGPGPPKGTGLHR-YVFLLYRQ 130 (185)
T ss_pred eeEEEEEEEeecCCcc--------ccCCeEeeeeeCCCCCCCCCceE-EEEEEEEc
Confidence 4556667788887654 345665555554333 378888 88988864
Done!