Query 028130
Match_columns 213
No_of_seqs 303 out of 2686
Neff 8.4
Searched_HMMs 46136
Date Fri Mar 29 06:43:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028130.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028130hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4207 Predicted splicing fac 99.9 9.2E-23 2E-27 158.7 14.3 89 43-131 7-95 (256)
2 KOG0107 Alternative splicing f 99.9 1.3E-21 2.9E-26 148.6 15.6 80 47-131 8-87 (195)
3 PLN03134 glycine-rich RNA-bind 99.9 1.5E-21 3.2E-26 148.4 15.8 92 40-131 25-116 (144)
4 KOG0113 U1 small nuclear ribon 99.8 7.8E-19 1.7E-23 143.4 14.8 99 46-144 98-196 (335)
5 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.8 3.4E-18 7.3E-23 147.5 12.9 85 46-130 266-350 (352)
6 TIGR01659 sex-lethal sex-letha 99.8 2.5E-18 5.5E-23 147.9 11.2 85 44-128 102-186 (346)
7 PF00076 RRM_1: RNA recognitio 99.8 6.8E-18 1.5E-22 111.9 9.3 70 52-122 1-70 (70)
8 KOG0130 RNA-binding protein RB 99.8 3.8E-18 8.2E-23 124.8 8.0 89 42-130 65-153 (170)
9 KOG0122 Translation initiation 99.8 1.3E-17 2.7E-22 133.1 11.6 83 47-129 187-269 (270)
10 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.7 6.5E-18 1.4E-22 145.7 10.9 83 48-130 2-84 (352)
11 TIGR01659 sex-lethal sex-letha 99.7 2.5E-17 5.5E-22 141.7 13.2 84 48-131 192-277 (346)
12 KOG0121 Nuclear cap-binding pr 99.7 9.4E-18 2E-22 121.6 7.4 83 45-127 32-114 (153)
13 TIGR01622 SF-CC1 splicing fact 99.7 2.6E-16 5.7E-21 140.3 14.2 84 45-129 85-168 (457)
14 KOG0105 Alternative splicing f 99.7 1.7E-16 3.6E-21 122.0 9.5 81 47-130 4-84 (241)
15 PF14259 RRM_6: RNA recognitio 99.7 4.8E-16 1E-20 103.5 9.7 70 52-122 1-70 (70)
16 TIGR01645 half-pint poly-U bin 99.7 9.2E-16 2E-20 139.3 13.8 85 47-131 202-286 (612)
17 KOG0149 Predicted RNA-binding 99.7 2.2E-16 4.7E-21 125.5 7.0 82 46-128 9-90 (247)
18 TIGR01642 U2AF_lg U2 snRNP aux 99.7 1.1E-15 2.4E-20 137.9 12.4 84 46-129 292-375 (509)
19 KOG0125 Ataxin 2-binding prote 99.6 6.4E-16 1.4E-20 127.9 8.9 88 40-129 87-174 (376)
20 PLN03120 nucleic acid binding 99.6 1.3E-15 2.9E-20 124.3 10.5 77 49-129 4-80 (260)
21 TIGR01622 SF-CC1 splicing fact 99.6 1.6E-15 3.4E-20 135.3 11.6 82 48-129 185-266 (457)
22 KOG0126 Predicted RNA-binding 99.6 3.5E-17 7.5E-22 125.4 0.6 82 46-127 32-113 (219)
23 TIGR01645 half-pint poly-U bin 99.6 1.4E-15 3E-20 138.2 10.5 82 46-127 104-185 (612)
24 smart00362 RRM_2 RNA recogniti 99.6 3.2E-15 6.9E-20 98.2 9.2 72 51-124 1-72 (72)
25 PLN03213 repressor of silencin 99.6 1.9E-15 4.2E-20 131.0 9.8 81 45-129 6-88 (759)
26 TIGR01628 PABP-1234 polyadenyl 99.6 3.1E-15 6.8E-20 136.8 10.8 80 50-129 1-80 (562)
27 KOG0131 Splicing factor 3b, su 99.6 1.2E-15 2.7E-20 116.9 6.4 83 45-127 5-87 (203)
28 TIGR01648 hnRNP-R-Q heterogene 99.6 4.2E-15 9E-20 134.7 10.6 80 46-126 55-135 (578)
29 TIGR01648 hnRNP-R-Q heterogene 99.6 2E-14 4.4E-19 130.3 14.6 77 46-130 230-308 (578)
30 PLN03121 nucleic acid binding 99.6 6.6E-15 1.4E-19 118.6 10.2 78 47-128 3-80 (243)
31 KOG0111 Cyclophilin-type pepti 99.6 7.8E-16 1.7E-20 121.3 4.7 85 46-130 7-91 (298)
32 KOG0148 Apoptosis-promoting RN 99.6 7.5E-15 1.6E-19 118.8 10.3 81 45-131 160-240 (321)
33 KOG0117 Heterogeneous nuclear 99.6 6.1E-15 1.3E-19 126.4 9.8 86 44-129 78-164 (506)
34 TIGR01628 PABP-1234 polyadenyl 99.6 7.3E-15 1.6E-19 134.4 11.0 83 46-129 282-364 (562)
35 smart00360 RRM RNA recognition 99.6 9E-15 2E-19 95.6 8.3 71 54-124 1-71 (71)
36 KOG0415 Predicted peptidyl pro 99.6 2.7E-15 5.9E-20 125.4 7.0 90 40-129 230-319 (479)
37 KOG0114 Predicted RNA-binding 99.6 3E-14 6.6E-19 99.8 9.6 83 44-129 13-95 (124)
38 COG0724 RNA-binding proteins ( 99.6 1.9E-14 4.1E-19 117.6 10.1 80 49-128 115-194 (306)
39 cd00590 RRM RRM (RNA recogniti 99.6 5.3E-14 1.2E-18 92.8 9.9 74 51-125 1-74 (74)
40 KOG0148 Apoptosis-promoting RN 99.6 1.4E-14 3E-19 117.3 8.1 84 47-130 60-143 (321)
41 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.5 3.4E-14 7.5E-19 127.7 11.5 80 46-130 272-352 (481)
42 KOG0145 RNA-binding protein EL 99.5 4.6E-14 9.9E-19 113.9 9.1 89 42-130 34-122 (360)
43 KOG0109 RNA-binding protein LA 99.5 2E-14 4.4E-19 117.4 6.7 73 50-130 3-75 (346)
44 KOG0144 RNA-binding protein CU 99.5 3.2E-14 6.9E-19 121.6 8.1 93 40-132 25-120 (510)
45 KOG0108 mRNA cleavage and poly 99.5 3.2E-14 7E-19 124.7 8.3 82 50-131 19-100 (435)
46 KOG0145 RNA-binding protein EL 99.5 1.2E-13 2.6E-18 111.5 10.5 84 46-129 275-358 (360)
47 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.5 1E-13 2.2E-18 124.8 10.4 76 48-129 1-78 (481)
48 KOG0117 Heterogeneous nuclear 99.5 4.6E-14 9.9E-19 121.1 7.5 79 45-131 255-333 (506)
49 KOG0144 RNA-binding protein CU 99.5 4.3E-14 9.2E-19 120.8 6.0 85 47-132 122-209 (510)
50 KOG0127 Nucleolar protein fibr 99.5 1.7E-13 3.7E-18 120.1 9.4 87 43-129 286-378 (678)
51 PF13893 RRM_5: RNA recognitio 99.5 4.7E-13 1E-17 85.3 8.2 56 66-126 1-56 (56)
52 KOG0146 RNA-binding protein ET 99.5 9.6E-14 2.1E-18 112.4 5.9 87 45-131 281-367 (371)
53 KOG0127 Nucleolar protein fibr 99.4 3.4E-13 7.3E-18 118.3 9.3 85 46-131 114-198 (678)
54 smart00361 RRM_1 RNA recogniti 99.4 5E-13 1.1E-17 89.2 7.8 62 63-124 2-70 (70)
55 KOG4212 RNA-binding protein hn 99.4 5.4E-13 1.2E-17 114.4 9.1 88 40-128 35-123 (608)
56 KOG0109 RNA-binding protein LA 99.4 2.7E-13 5.9E-18 110.9 6.8 82 47-136 76-157 (346)
57 KOG0124 Polypyrimidine tract-b 99.4 2.6E-13 5.7E-18 114.0 4.9 76 50-125 114-189 (544)
58 KOG0147 Transcriptional coacti 99.4 5.7E-13 1.2E-17 117.0 6.8 81 50-130 279-359 (549)
59 KOG0131 Splicing factor 3b, su 99.4 1.9E-12 4.2E-17 99.4 6.8 88 45-132 92-180 (203)
60 KOG4206 Spliceosomal protein s 99.3 5E-12 1.1E-16 100.3 7.9 83 45-130 5-91 (221)
61 KOG0132 RNA polymerase II C-te 99.3 1.2E-11 2.6E-16 112.4 11.3 76 49-130 421-496 (894)
62 TIGR01642 U2AF_lg U2 snRNP aux 99.3 6.2E-12 1.3E-16 113.7 8.7 73 48-127 174-258 (509)
63 KOG4208 Nucleolar RNA-binding 99.3 2.4E-11 5.3E-16 95.1 8.3 88 42-129 42-130 (214)
64 KOG0116 RasGAP SH3 binding pro 99.3 9.2E-11 2E-15 102.6 12.7 89 41-130 280-368 (419)
65 KOG0123 Polyadenylate-binding 99.2 3E-11 6.5E-16 104.9 8.2 78 52-132 79-156 (369)
66 KOG0153 Predicted RNA-binding 99.2 7.3E-11 1.6E-15 98.8 9.3 82 41-128 220-302 (377)
67 KOG4661 Hsp27-ERE-TATA-binding 99.2 6.1E-11 1.3E-15 104.8 8.4 83 48-130 404-486 (940)
68 KOG0106 Alternative splicing f 99.2 2.9E-11 6.3E-16 96.6 5.0 74 50-131 2-75 (216)
69 KOG4212 RNA-binding protein hn 99.2 6.1E-11 1.3E-15 101.9 7.2 80 42-126 529-608 (608)
70 KOG0124 Polypyrimidine tract-b 99.2 7.6E-11 1.6E-15 99.4 7.2 82 48-129 209-290 (544)
71 KOG0110 RNA-binding protein (R 99.2 8.7E-11 1.9E-15 106.0 8.0 79 49-127 515-596 (725)
72 KOG0533 RRM motif-containing p 99.1 1.7E-10 3.7E-15 94.0 8.6 84 45-129 79-162 (243)
73 KOG4205 RNA-binding protein mu 99.1 1.5E-10 3.3E-15 97.7 7.6 86 47-133 95-180 (311)
74 KOG0110 RNA-binding protein (R 99.1 8.4E-11 1.8E-15 106.1 5.1 84 47-130 611-694 (725)
75 PF04059 RRM_2: RNA recognitio 99.1 7.4E-10 1.6E-14 78.1 8.7 80 50-129 2-87 (97)
76 KOG4205 RNA-binding protein mu 99.1 2E-10 4.3E-15 97.1 5.7 82 48-130 5-86 (311)
77 KOG0123 Polyadenylate-binding 99.0 7.2E-10 1.6E-14 96.3 8.1 75 50-130 2-76 (369)
78 KOG0146 RNA-binding protein ET 99.0 3.1E-10 6.7E-15 92.2 5.4 83 48-131 18-103 (371)
79 KOG1548 Transcription elongati 99.0 1.1E-09 2.4E-14 91.7 8.4 84 46-130 131-222 (382)
80 KOG4209 Splicing factor RNPS1, 99.0 7.5E-10 1.6E-14 90.2 6.0 84 45-129 97-180 (231)
81 KOG4454 RNA binding protein (R 99.0 2E-10 4.3E-15 90.8 2.5 82 44-127 4-85 (267)
82 KOG0105 Alternative splicing f 98.9 2.8E-08 6E-13 77.0 12.5 109 2-117 66-176 (241)
83 KOG1457 RNA binding protein (c 98.9 8.4E-09 1.8E-13 82.0 9.7 86 47-132 32-121 (284)
84 KOG1995 Conserved Zn-finger pr 98.9 3.7E-09 7.9E-14 89.2 5.6 86 45-130 62-155 (351)
85 KOG0151 Predicted splicing reg 98.9 6E-09 1.3E-13 94.3 7.2 84 46-129 171-257 (877)
86 KOG4660 Protein Mei2, essentia 98.8 3.5E-09 7.5E-14 93.6 4.7 72 46-122 72-143 (549)
87 KOG0120 Splicing factor U2AF, 98.7 1E-08 2.2E-13 91.1 4.7 90 41-130 281-370 (500)
88 KOG0106 Alternative splicing f 98.7 3.5E-08 7.6E-13 79.0 6.2 73 43-123 93-165 (216)
89 KOG0226 RNA-binding proteins [ 98.6 3.1E-08 6.7E-13 80.1 4.7 82 45-126 186-267 (290)
90 KOG4211 Splicing factor hnRNP- 98.6 1.3E-07 2.8E-12 82.8 8.6 78 46-127 7-84 (510)
91 PF08777 RRM_3: RNA binding mo 98.6 1.5E-07 3.3E-12 67.6 6.1 71 49-125 1-76 (105)
92 KOG1190 Polypyrimidine tract-b 98.6 5.1E-07 1.1E-11 77.5 9.8 77 49-130 297-374 (492)
93 PF11608 Limkain-b1: Limkain b 98.5 4.7E-07 1E-11 61.5 5.9 70 50-129 3-77 (90)
94 KOG4206 Spliceosomal protein s 98.4 9.6E-07 2.1E-11 70.4 8.1 77 46-127 143-220 (221)
95 KOG1457 RNA binding protein (c 98.4 2.6E-07 5.7E-12 73.6 4.6 66 47-116 208-273 (284)
96 KOG1456 Heterogeneous nuclear 98.4 1.9E-06 4.2E-11 73.3 9.4 86 40-130 278-364 (494)
97 KOG4211 Splicing factor hnRNP- 98.4 1.6E-06 3.5E-11 76.0 8.0 78 47-126 101-179 (510)
98 KOG0147 Transcriptional coacti 98.3 1.6E-07 3.4E-12 83.2 1.6 80 49-129 179-258 (549)
99 KOG4210 Nuclear localization s 98.3 6.3E-07 1.4E-11 75.4 4.9 85 47-132 182-267 (285)
100 KOG2314 Translation initiation 98.3 3.6E-06 7.7E-11 75.0 8.1 80 47-127 56-142 (698)
101 KOG4849 mRNA cleavage factor I 98.2 8.9E-07 1.9E-11 74.7 3.5 76 49-124 80-157 (498)
102 COG5175 MOT2 Transcriptional r 98.2 3.3E-06 7.1E-11 71.1 6.5 85 43-127 108-201 (480)
103 KOG1456 Heterogeneous nuclear 98.2 1E-05 2.3E-10 68.9 8.9 83 43-130 114-200 (494)
104 PF14605 Nup35_RRM_2: Nup53/35 98.2 4.6E-06 1E-10 52.3 5.1 52 50-108 2-53 (53)
105 PF05172 Nup35_RRM: Nup53/35/4 98.1 1.4E-05 2.9E-10 56.8 7.5 79 47-127 4-90 (100)
106 KOG2416 Acinus (induces apopto 98.1 3.4E-06 7.3E-11 75.6 4.5 84 39-128 434-521 (718)
107 KOG4307 RNA binding protein RB 98.1 1.2E-05 2.6E-10 73.4 7.6 76 50-125 868-943 (944)
108 KOG1855 Predicted RNA-binding 98.1 4.9E-06 1.1E-10 72.0 5.0 73 43-115 225-310 (484)
109 KOG0129 Predicted RNA-binding 98.0 1.6E-05 3.4E-10 70.3 7.0 67 44-110 365-432 (520)
110 KOG3152 TBP-binding protein, a 98.0 5.8E-06 1.2E-10 67.2 3.7 72 49-120 74-157 (278)
111 KOG1190 Polypyrimidine tract-b 98.0 1.6E-05 3.5E-10 68.5 6.5 78 47-128 412-490 (492)
112 PF08952 DUF1866: Domain of un 98.0 4.6E-05 9.9E-10 57.4 7.9 73 47-128 25-106 (146)
113 KOG2202 U2 snRNP splicing fact 97.9 3.7E-06 8.1E-11 68.3 1.7 66 64-130 83-149 (260)
114 KOG1548 Transcription elongati 97.9 4.1E-05 8.9E-10 64.7 7.5 80 47-130 263-353 (382)
115 KOG0120 Splicing factor U2AF, 97.9 3.7E-05 8E-10 68.8 7.5 63 66-128 426-491 (500)
116 KOG1365 RNA-binding protein Fu 97.7 4.5E-05 9.8E-10 65.3 4.9 77 49-126 280-359 (508)
117 KOG1996 mRNA splicing factor [ 97.7 0.0001 2.2E-09 61.1 6.6 65 63-127 300-365 (378)
118 KOG4676 Splicing factor, argin 97.7 5.4E-05 1.2E-09 65.0 5.0 73 51-124 9-84 (479)
119 KOG0129 Predicted RNA-binding 97.7 0.0002 4.4E-09 63.5 8.4 68 44-112 254-327 (520)
120 KOG0112 Large RNA-binding prot 97.6 9.9E-05 2.1E-09 69.2 4.9 79 45-129 451-531 (975)
121 KOG4307 RNA binding protein RB 97.5 8.8E-05 1.9E-09 67.9 4.3 87 39-126 424-511 (944)
122 KOG2193 IGF-II mRNA-binding pr 97.3 0.00018 3.9E-09 62.5 3.5 75 50-130 2-77 (584)
123 KOG4660 Protein Mei2, essentia 97.3 0.00041 8.9E-09 62.0 5.1 83 47-129 359-473 (549)
124 KOG0128 RNA-binding protein SA 97.3 0.00015 3.3E-09 67.6 2.5 79 49-128 736-814 (881)
125 PF08675 RNA_bind: RNA binding 97.2 0.0017 3.6E-08 44.3 6.5 56 49-113 9-64 (87)
126 KOG0128 RNA-binding protein SA 97.2 1.9E-05 4.1E-10 73.4 -3.9 69 49-117 667-735 (881)
127 PF10309 DUF2414: Protein of u 97.2 0.0021 4.5E-08 41.5 6.4 56 48-111 4-62 (62)
128 PF03467 Smg4_UPF3: Smg-4/UPF3 97.2 0.001 2.3E-08 52.1 6.0 84 46-129 4-98 (176)
129 KOG4676 Splicing factor, argin 97.1 5.7E-05 1.2E-09 64.9 -1.8 65 50-119 152-216 (479)
130 KOG1365 RNA-binding protein Fu 97.0 0.002 4.4E-08 55.5 6.7 67 51-119 163-233 (508)
131 KOG0112 Large RNA-binding prot 97.0 0.0002 4.3E-09 67.2 0.5 81 45-126 368-448 (975)
132 KOG2068 MOT2 transcription fac 96.9 0.00039 8.5E-09 58.8 1.3 84 46-129 74-163 (327)
133 KOG0115 RNA-binding protein p5 96.9 0.0013 2.8E-08 53.7 4.0 76 50-126 32-111 (275)
134 PF07576 BRAP2: BRCA1-associat 96.8 0.013 2.9E-07 42.3 8.7 81 43-125 6-91 (110)
135 KOG4285 Mitotic phosphoprotein 96.8 0.0056 1.2E-07 51.2 7.3 69 49-125 197-266 (350)
136 KOG2591 c-Mpl binding protein, 96.7 0.0027 6E-08 57.0 5.0 69 49-124 175-247 (684)
137 PF03880 DbpA: DbpA RNA bindin 96.7 0.012 2.6E-07 39.3 7.1 67 51-126 2-74 (74)
138 PF15023 DUF4523: Protein of u 96.5 0.014 3E-07 43.9 7.1 74 46-127 83-160 (166)
139 PF04847 Calcipressin: Calcipr 96.5 0.0091 2E-07 47.2 6.5 62 62-129 8-71 (184)
140 KOG2135 Proteins containing th 96.5 0.0023 5E-08 56.4 3.1 82 40-128 363-445 (526)
141 KOG2253 U1 snRNP complex, subu 96.1 0.01 2.2E-07 54.5 5.2 77 40-125 31-107 (668)
142 KOG0804 Cytoplasmic Zn-finger 96.0 0.028 6.2E-07 49.5 7.3 71 46-118 71-142 (493)
143 KOG4574 RNA-binding protein (c 95.8 0.0068 1.5E-07 57.0 3.0 72 57-134 306-379 (1007)
144 KOG2193 IGF-II mRNA-binding pr 94.8 0.003 6.6E-08 55.1 -2.5 80 49-131 80-159 (584)
145 PF11767 SET_assoc: Histone ly 94.8 0.23 4.9E-06 32.5 6.8 56 59-123 10-65 (66)
146 KOG4210 Nuclear localization s 94.7 0.021 4.5E-07 48.3 2.3 80 48-127 87-166 (285)
147 PRK11634 ATP-dependent RNA hel 93.9 1.2 2.6E-05 41.9 12.3 69 51-129 488-563 (629)
148 KOG4207 Predicted splicing fac 93.1 1.1 2.4E-05 35.9 9.0 62 56-117 23-86 (256)
149 KOG4410 5-formyltetrahydrofola 92.8 0.35 7.7E-06 40.5 6.2 67 40-112 321-395 (396)
150 KOG2318 Uncharacterized conser 92.2 0.86 1.9E-05 41.7 8.2 82 46-127 171-306 (650)
151 KOG4019 Calcineurin-mediated s 91.0 0.2 4.4E-06 39.1 2.6 77 47-129 8-90 (193)
152 PF03468 XS: XS domain; Inter 89.1 0.87 1.9E-05 33.2 4.6 57 50-109 9-75 (116)
153 KOG4483 Uncharacterized conser 88.8 0.84 1.8E-05 40.0 4.9 57 47-110 389-446 (528)
154 PF10567 Nab6_mRNP_bdg: RNA-re 87.0 1.9 4.1E-05 36.4 5.8 85 43-127 9-106 (309)
155 smart00596 PRE_C2HC PRE_C2HC d 86.8 1.1 2.4E-05 29.4 3.5 62 64-128 2-64 (69)
156 KOG2295 C2H2 Zn-finger protein 84.3 0.16 3.6E-06 46.0 -1.7 74 48-121 230-303 (648)
157 PF07530 PRE_C2HC: Associated 83.9 2.5 5.3E-05 27.7 4.2 63 64-129 2-65 (68)
158 COG0724 RNA-binding proteins ( 82.4 1.9 4.1E-05 34.4 4.0 68 42-109 218-285 (306)
159 PF00403 HMA: Heavy-metal-asso 81.8 10 0.00022 23.6 6.4 54 51-110 1-58 (62)
160 KOG0835 Cyclin L [General func 80.8 7.5 0.00016 33.4 6.9 8 61-68 213-220 (367)
161 KOG1295 Nonsense-mediated deca 79.9 2.3 5E-05 37.0 3.7 70 48-117 6-78 (376)
162 PF15513 DUF4651: Domain of un 78.9 4.8 0.0001 25.8 4.0 20 64-83 9-28 (62)
163 KOG2891 Surface glycoprotein [ 78.6 0.92 2E-05 38.0 0.9 68 48-115 148-246 (445)
164 COG5638 Uncharacterized conser 78.2 7.7 0.00017 34.4 6.3 85 42-126 139-295 (622)
165 PRK11901 hypothetical protein; 78.2 6.8 0.00015 33.6 5.9 64 47-115 243-308 (327)
166 KOG4454 RNA binding protein (R 73.9 0.82 1.8E-05 37.0 -0.6 71 48-119 79-153 (267)
167 KOG0107 Alternative splicing f 73.5 40 0.00087 26.5 8.5 9 100-108 59-67 (195)
168 KOG4365 Uncharacterized conser 72.9 0.65 1.4E-05 41.2 -1.5 78 50-128 4-81 (572)
169 COG2608 CopZ Copper chaperone 69.2 26 0.00055 22.8 5.9 45 50-100 4-48 (71)
170 PF02714 DUF221: Domain of unk 65.8 7.9 0.00017 32.9 3.7 35 94-130 1-35 (325)
171 PF14893 PNMA: PNMA 64.9 8.5 0.00018 33.3 3.7 77 47-128 16-96 (331)
172 KOG4008 rRNA processing protei 62.8 4.9 0.00011 32.9 1.7 36 45-80 36-71 (261)
173 KOG3702 Nuclear polyadenylated 61.7 6.5 0.00014 36.7 2.5 72 51-123 513-584 (681)
174 KOG4213 RNA-binding protein La 60.9 14 0.00029 29.1 3.8 49 61-109 118-168 (205)
175 COG5193 LHP1 La protein, small 57.7 5.1 0.00011 35.3 1.1 61 49-109 174-244 (438)
176 PF08544 GHMP_kinases_C: GHMP 55.4 43 0.00093 21.9 5.2 44 64-112 37-80 (85)
177 KOG2187 tRNA uracil-5-methyltr 55.1 12 0.00025 34.3 2.9 38 92-129 64-101 (534)
178 TIGR03636 L23_arch archaeal ri 54.4 41 0.00088 22.6 4.8 58 51-111 15-74 (77)
179 PRK10629 EnvZ/OmpR regulon mod 54.0 87 0.0019 23.1 7.7 72 48-127 34-109 (127)
180 cd00027 BRCT Breast Cancer Sup 53.6 48 0.001 20.0 5.4 27 50-76 2-28 (72)
181 KOG0151 Predicted splicing reg 51.9 13 0.00028 35.3 2.7 20 194-213 855-874 (877)
182 PRK11230 glycolate oxidase sub 51.8 61 0.0013 29.7 7.1 49 63-112 203-255 (499)
183 PF09707 Cas_Cas2CT1978: CRISP 51.3 42 0.00092 23.0 4.6 48 48-98 24-71 (86)
184 KOG0156 Cytochrome P450 CYP2 s 50.8 24 0.00051 32.3 4.3 61 51-121 34-97 (489)
185 COG0150 PurM Phosphoribosylami 50.2 6.5 0.00014 34.0 0.5 48 63-114 275-322 (345)
186 PF07292 NID: Nmi/IFP 35 domai 49.9 11 0.00024 26.0 1.6 24 47-70 50-73 (88)
187 smart00195 DSPc Dual specifici 49.7 56 0.0012 23.6 5.5 71 51-125 7-85 (138)
188 PRK14548 50S ribosomal protein 49.5 49 0.0011 22.6 4.7 58 51-111 22-81 (84)
189 cd06405 PB1_Mekk2_3 The PB1 do 48.1 82 0.0018 21.1 7.2 61 56-125 15-76 (79)
190 KOG4840 Predicted hydrolases o 47.8 32 0.00068 28.4 4.0 70 49-123 37-112 (299)
191 cd06404 PB1_aPKC PB1 domain is 47.4 89 0.0019 21.3 7.3 66 51-123 10-80 (83)
192 PF05189 RTC_insert: RNA 3'-te 47.1 64 0.0014 22.5 5.2 49 51-99 12-65 (103)
193 COG5507 Uncharacterized conser 46.2 23 0.0005 25.0 2.6 21 91-111 66-86 (117)
194 PF14581 SseB_C: SseB protein 45.6 47 0.001 23.3 4.4 81 47-127 3-89 (108)
195 KOG3424 40S ribosomal protein 44.8 65 0.0014 23.6 4.8 46 59-105 33-83 (132)
196 PF08206 OB_RNB: Ribonuclease 44.5 11 0.00023 23.6 0.8 37 90-127 7-44 (58)
197 PRK08559 nusG transcription an 44.3 78 0.0017 24.0 5.6 35 76-115 36-70 (153)
198 PF11823 DUF3343: Protein of u 44.0 31 0.00066 22.5 3.0 27 92-118 2-28 (73)
199 PF08734 GYD: GYD domain; Int 43.2 99 0.0021 21.2 5.6 45 64-112 23-68 (91)
200 PF01282 Ribosomal_S24e: Ribos 43.1 91 0.002 21.2 5.3 46 59-105 11-61 (84)
201 PF05036 SPOR: Sporulation rel 42.6 4.4 9.6E-05 26.1 -1.3 61 49-112 4-65 (76)
202 PF04127 DFP: DNA / pantothena 42.2 81 0.0018 24.8 5.6 59 51-111 20-79 (185)
203 TIGR00387 glcD glycolate oxida 41.9 73 0.0016 28.2 5.9 52 60-112 143-198 (413)
204 PF14026 DUF4242: Protein of u 41.9 1E+02 0.0022 20.4 7.6 61 52-115 3-70 (77)
205 PF09902 DUF2129: Uncharacteri 40.0 72 0.0016 21.0 4.2 38 69-115 16-53 (71)
206 PF11411 DNA_ligase_IV: DNA li 39.4 22 0.00049 20.2 1.5 18 58-75 18-35 (36)
207 PF08156 NOP5NT: NOP5NT (NUC12 39.3 9.6 0.00021 24.8 -0.1 39 64-112 27-65 (67)
208 PF11491 DUF3213: Protein of u 38.7 60 0.0013 22.2 3.6 67 52-125 3-73 (88)
209 KOG2548 SWAP mRNA splicing reg 38.6 19 0.0004 33.0 1.6 9 49-57 320-328 (653)
210 PF05573 NosL: NosL; InterPro 38.6 10 0.00022 28.7 -0.1 25 90-114 113-137 (149)
211 PTZ00191 60S ribosomal protein 38.4 86 0.0019 23.8 4.9 56 51-109 83-140 (145)
212 COG3254 Uncharacterized conser 38.1 1E+02 0.0022 22.0 4.9 41 64-107 27-67 (105)
213 PF03439 Spt5-NGN: Early trans 37.6 52 0.0011 22.2 3.4 26 90-115 43-68 (84)
214 smart00666 PB1 PB1 domain. Pho 37.2 1.2E+02 0.0025 19.8 6.3 56 52-112 12-69 (81)
215 COG5584 Predicted small secret 36.9 83 0.0018 22.1 4.2 31 56-86 29-59 (103)
216 PF14111 DUF4283: Domain of un 36.2 15 0.00033 27.3 0.6 69 51-128 17-91 (153)
217 PF00585 Thr_dehydrat_C: C-ter 36.1 1.1E+02 0.0025 20.9 5.0 62 51-114 11-74 (91)
218 PF09869 DUF2096: Uncharacteri 36.1 2E+02 0.0044 22.3 6.6 46 56-111 118-163 (169)
219 COG0030 KsgA Dimethyladenosine 35.4 46 0.001 27.8 3.4 34 49-82 95-128 (259)
220 PF12623 Hen1_L: RNA repair, l 35.1 1.1E+02 0.0025 25.0 5.4 62 49-111 118-183 (245)
221 PRK10905 cell division protein 34.5 79 0.0017 27.2 4.6 62 48-114 246-309 (328)
222 TIGR01033 DNA-binding regulato 33.6 1.5E+02 0.0032 24.4 6.0 46 47-99 92-143 (238)
223 COG5470 Uncharacterized conser 33.6 71 0.0015 22.4 3.5 18 91-108 53-70 (96)
224 PF02426 MIase: Muconolactone 33.5 1.6E+02 0.0036 20.3 6.9 57 56-116 10-76 (91)
225 TIGR01873 cas_CT1978 CRISPR-as 33.1 39 0.00084 23.3 2.1 49 48-100 24-74 (87)
226 PHA01632 hypothetical protein 32.9 37 0.00079 21.3 1.8 20 53-72 20-39 (64)
227 COG5236 Uncharacterized conser 32.7 1.1E+02 0.0023 26.8 5.1 51 63-121 264-314 (493)
228 smart00738 NGN In Spt5p, this 31.5 1.1E+02 0.0023 21.0 4.4 23 92-114 60-82 (106)
229 PRK04199 rpl10e 50S ribosomal 31.3 2.6E+02 0.0055 21.9 7.6 39 73-118 116-158 (172)
230 PF12687 DUF3801: Protein of u 31.2 1.2E+02 0.0026 24.3 5.0 54 64-119 45-98 (204)
231 PRK11558 putative ssRNA endonu 31.2 96 0.0021 21.8 3.9 50 48-100 26-75 (97)
232 KOG3671 Actin regulatory prote 31.2 97 0.0021 28.4 4.8 49 61-114 90-138 (569)
233 KOG3346 Phosphatidylethanolami 31.1 1.6E+02 0.0034 23.4 5.5 47 46-101 83-131 (185)
234 COG1207 GlmU N-acetylglucosami 30.6 1.7E+02 0.0036 26.5 6.1 67 48-114 96-174 (460)
235 KOG2854 Possible pfkB family c 30.1 58 0.0012 28.2 3.1 63 47-109 158-230 (343)
236 KOG2135 Proteins containing th 29.8 81 0.0017 28.7 4.1 53 58-117 206-258 (526)
237 PF01037 AsnC_trans_reg: AsnC 29.2 1.5E+02 0.0032 18.5 7.0 45 62-110 11-55 (74)
238 PRK13011 formyltetrahydrofolat 28.7 1.4E+02 0.0031 25.2 5.3 62 56-118 56-117 (286)
239 PTZ00071 40S ribosomal protein 28.6 1.6E+02 0.0034 22.0 4.8 44 60-104 35-84 (132)
240 TIGR00587 nfo apurinic endonuc 28.6 1.1E+02 0.0023 25.5 4.5 58 49-112 137-202 (274)
241 PRK00274 ksgA 16S ribosomal RN 28.5 65 0.0014 26.7 3.2 22 51-72 107-128 (272)
242 KOG1999 RNA polymerase II tran 28.5 1.3E+02 0.0029 29.8 5.5 34 90-124 209-242 (1024)
243 PF00398 RrnaAD: Ribosomal RNA 28.0 60 0.0013 26.8 2.9 23 49-71 97-119 (262)
244 PF07237 DUF1428: Protein of u 27.3 2.3E+02 0.0049 20.2 5.3 46 66-111 25-85 (103)
245 cd00495 Ribosomal_L25_TL5_CTC 27.2 1.6E+02 0.0034 20.0 4.5 60 51-126 28-90 (91)
246 COG0217 Uncharacterized conser 27.1 2.4E+02 0.0053 23.3 6.1 39 47-85 92-136 (241)
247 PF01762 Galactosyl_T: Galacto 26.9 85 0.0019 24.4 3.5 36 48-83 20-58 (195)
248 smart00650 rADc Ribosomal RNA 26.7 96 0.0021 23.5 3.7 23 50-72 78-100 (169)
249 cd06396 PB1_NBR1 The PB1 domai 26.6 2.1E+02 0.0045 19.4 6.2 63 55-125 14-78 (81)
250 PTZ00338 dimethyladenosine tra 26.5 64 0.0014 27.3 2.8 22 51-72 103-124 (294)
251 PF01071 GARS_A: Phosphoribosy 26.2 1.5E+02 0.0033 23.6 4.7 46 62-111 25-70 (194)
252 TIGR00755 ksgA dimethyladenosi 26.1 90 0.002 25.5 3.6 25 51-75 96-120 (253)
253 cd04904 ACT_AAAH ACT domain of 25.9 1.9E+02 0.0041 18.6 7.6 50 62-113 13-65 (74)
254 COG4010 Uncharacterized protei 25.9 2.1E+02 0.0045 21.8 5.0 46 56-111 118-163 (170)
255 COG0225 MsrA Peptide methionin 25.8 1.8E+02 0.004 22.7 5.0 74 51-128 59-137 (174)
256 KOG0829 60S ribosomal protein 25.6 2.1E+02 0.0045 22.0 5.0 67 43-109 11-88 (169)
257 PF13820 Nucleic_acid_bd: Puta 25.6 1.2E+02 0.0026 23.1 3.9 59 51-113 6-67 (149)
258 KOG3432 Vacuolar H+-ATPase V1 25.4 1E+02 0.0022 22.3 3.2 25 58-82 42-66 (121)
259 PRK00110 hypothetical protein; 25.2 2.7E+02 0.0059 23.0 6.2 46 47-99 92-143 (245)
260 PF14401 RLAN: RimK-like ATPgr 24.7 1.7E+02 0.0038 22.2 4.7 61 47-107 85-146 (153)
261 PF14111 DUF4283: Domain of un 24.6 69 0.0015 23.6 2.5 36 49-84 104-140 (153)
262 COG0079 HisC Histidinol-phosph 24.5 1E+02 0.0022 26.9 3.8 50 48-108 145-198 (356)
263 KOG2888 Putative RNA binding p 24.2 40 0.00086 29.2 1.1 7 65-71 173-179 (453)
264 PLN02805 D-lactate dehydrogena 24.2 3E+02 0.0064 25.7 6.9 50 62-112 279-332 (555)
265 PF02829 3H: 3H domain; Inter 24.2 2.6E+02 0.0056 19.6 6.0 52 60-114 8-59 (98)
266 TIGR00405 L26e_arch ribosomal 24.2 72 0.0016 23.7 2.5 26 90-115 37-62 (145)
267 KOG0635 Adenosine 5'-phosphosu 23.8 1.4E+02 0.003 23.2 3.9 33 47-79 29-64 (207)
268 PF15063 TC1: Thyroid cancer p 23.8 43 0.00093 22.4 1.0 26 51-76 27-52 (79)
269 PF05727 UPF0228: Uncharacteri 23.7 1.7E+02 0.0037 21.5 4.2 58 56-125 58-122 (127)
270 TIGR00110 ilvD dihydroxy-acid 23.7 3.8E+02 0.0082 25.0 7.3 35 92-129 384-418 (535)
271 cd00127 DSPc Dual specificity 23.6 2.3E+02 0.005 20.1 5.1 18 50-67 7-24 (139)
272 PF08442 ATP-grasp_2: ATP-gras 23.5 1.5E+02 0.0033 23.6 4.3 54 61-117 25-81 (202)
273 PF13291 ACT_4: ACT domain; PD 23.4 2.1E+02 0.0046 18.4 6.5 64 51-114 8-72 (80)
274 PRK11633 cell division protein 23.3 3E+02 0.0066 22.4 6.1 73 47-121 147-221 (226)
275 PF13046 DUF3906: Protein of u 23.2 1E+02 0.0022 20.0 2.6 34 61-96 30-63 (64)
276 cd01611 GABARAP Ubiquitin doma 23.0 1.1E+02 0.0024 22.0 3.1 16 57-72 47-62 (112)
277 PRK02886 hypothetical protein; 22.9 1.9E+02 0.0042 19.9 4.1 38 69-115 20-57 (87)
278 COG1098 VacB Predicted RNA bin 22.6 1.7E+02 0.0037 21.6 4.0 33 93-125 20-60 (129)
279 cd05992 PB1 The PB1 domain is 22.2 2.3E+02 0.0049 18.2 6.0 52 56-112 15-69 (81)
280 COG0002 ArgC Acetylglutamate s 21.8 2E+02 0.0043 25.2 4.9 27 57-83 253-280 (349)
281 PF11004 Kdo_hydroxy: 3-deoxy- 21.8 1.6E+02 0.0034 24.9 4.2 46 46-92 18-64 (281)
282 PF06014 DUF910: Bacterial pro 21.8 67 0.0014 20.6 1.6 18 62-79 3-20 (62)
283 PRK02302 hypothetical protein; 21.7 2.1E+02 0.0045 19.8 4.1 38 69-115 22-59 (89)
284 TIGR02045 P_fruct_ADP ADP-spec 21.1 2.4E+02 0.0052 25.6 5.5 70 49-128 179-260 (446)
285 cd04917 ACT_AKiii-LysC-EC_2 AC 20.9 2.2E+02 0.0047 17.5 4.1 17 99-115 46-62 (64)
286 PF12829 Mhr1: Transcriptional 20.8 1.1E+02 0.0024 21.2 2.6 52 57-112 20-72 (91)
287 PF12007 DUF3501: Protein of u 20.7 1.1E+02 0.0024 24.3 2.9 46 62-114 65-110 (192)
288 PLN02655 ent-kaurene oxidase 20.6 1.8E+02 0.0038 25.9 4.7 48 53-109 9-59 (466)
289 PRK12450 foldase protein PrsA; 20.5 1.8E+02 0.0038 24.8 4.4 39 60-112 132-170 (309)
290 KOG2671 Putative RNA methylase 20.3 1.1E+02 0.0025 26.8 3.1 49 56-108 9-57 (421)
No 1
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.90 E-value=9.2e-23 Score=158.69 Aligned_cols=89 Identities=30% Similarity=0.475 Sum_probs=83.3
Q ss_pred CCCCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeE
Q 028130 43 PDAANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLIT 122 (213)
Q Consensus 43 ~~~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~ 122 (213)
|...+.-++|.|-||...|+.++|..+|++||.|-+|.|+.+..|++++|||||.|.+..+|++|+++|+|.+|+|..|.
T Consensus 7 PPdv~gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelr 86 (256)
T KOG4207|consen 7 PPDVEGMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELR 86 (256)
T ss_pred CCCcccceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceee
Confidence 55566678999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEecccCCC
Q 028130 123 VEKAKRSRG 131 (213)
Q Consensus 123 V~~a~~~~~ 131 (213)
|++|+-...
T Consensus 87 Vq~arygr~ 95 (256)
T KOG4207|consen 87 VQMARYGRP 95 (256)
T ss_pred ehhhhcCCC
Confidence 999975543
No 2
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.88 E-value=1.3e-21 Score=148.63 Aligned_cols=80 Identities=30% Similarity=0.517 Sum_probs=74.3
Q ss_pred CCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEec
Q 028130 47 NPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKA 126 (213)
Q Consensus 47 ~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a 126 (213)
+-.++|||+||+..+++.||+.+|.+||.|..|+|..++. |||||||++..+|++|+..|+|..|.|..|.|+++
T Consensus 8 ~~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArnPP-----GfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S 82 (195)
T KOG0107|consen 8 NGNTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARNPP-----GFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELS 82 (195)
T ss_pred CCCceEEeccCCCCcchHHHHHHHHhcCcceeEEEeecCC-----CceEEeccCcccHHHHHhhcCCccccCceEEEEee
Confidence 4588999999999999999999999999999999988653 89999999999999999999999999999999998
Q ss_pred ccCCC
Q 028130 127 KRSRG 131 (213)
Q Consensus 127 ~~~~~ 131 (213)
.....
T Consensus 83 ~G~~r 87 (195)
T KOG0107|consen 83 TGRPR 87 (195)
T ss_pred cCCcc
Confidence 76653
No 3
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.88 E-value=1.5e-21 Score=148.42 Aligned_cols=92 Identities=27% Similarity=0.369 Sum_probs=84.3
Q ss_pred CCCCCCCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCe
Q 028130 40 SRSPDAANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGR 119 (213)
Q Consensus 40 ~~~~~~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~ 119 (213)
+.........++|||+|||+.+++++|+++|.+||.|+.|.|+.+..+++++|||||+|++.++|++||+.||+.+|+|+
T Consensus 25 ~~~~~~~~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr 104 (144)
T PLN03134 25 SMLGSLRLMSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGR 104 (144)
T ss_pred cccccccCCCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCE
Confidence 33444556788999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeEEEecccCCC
Q 028130 120 LITVEKAKRSRG 131 (213)
Q Consensus 120 ~i~V~~a~~~~~ 131 (213)
.|+|+++..+..
T Consensus 105 ~l~V~~a~~~~~ 116 (144)
T PLN03134 105 HIRVNPANDRPS 116 (144)
T ss_pred EEEEEeCCcCCC
Confidence 999999986653
No 4
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.81 E-value=7.8e-19 Score=143.42 Aligned_cols=99 Identities=23% Similarity=0.319 Sum_probs=89.9
Q ss_pred CCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEe
Q 028130 46 ANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEK 125 (213)
Q Consensus 46 ~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~ 125 (213)
.+|-+||||+-|+.+|+|.+|+..|++||+|+.|.|+.++.||+++|||||+|+++.++++|++..+|.+|+|+.|.|.+
T Consensus 98 gDPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VDv 177 (335)
T KOG0113|consen 98 GDPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDV 177 (335)
T ss_pred CCccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEEe
Confidence 35678999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccCCCCCCCCCCCCCCCC
Q 028130 126 AKRSRGRTPTPGHYHGLRE 144 (213)
Q Consensus 126 a~~~~~~~~~~~~~~~~~~ 144 (213)
-....-+.+.+...+|+-+
T Consensus 178 ERgRTvkgW~PRRLGGGLG 196 (335)
T KOG0113|consen 178 ERGRTVKGWLPRRLGGGLG 196 (335)
T ss_pred cccccccccccccccCCcC
Confidence 8888777766665555443
No 5
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.77 E-value=3.4e-18 Score=147.46 Aligned_cols=85 Identities=26% Similarity=0.387 Sum_probs=80.1
Q ss_pred CCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEe
Q 028130 46 ANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEK 125 (213)
Q Consensus 46 ~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~ 125 (213)
...+.+|||+|||..+++++|.++|++||.|+.|.|+.+..|+.++|||||+|.+.++|..||..|||..|+|+.|.|.|
T Consensus 266 ~~~~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V~~ 345 (352)
T TIGR01661 266 DGAGYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQVSF 345 (352)
T ss_pred CCCCcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEEEEEE
Confidence 34456899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccCC
Q 028130 126 AKRSR 130 (213)
Q Consensus 126 a~~~~ 130 (213)
+..+.
T Consensus 346 ~~~~~ 350 (352)
T TIGR01661 346 KTNKA 350 (352)
T ss_pred ccCCC
Confidence 88764
No 6
>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=99.77 E-value=2.5e-18 Score=147.87 Aligned_cols=85 Identities=31% Similarity=0.495 Sum_probs=80.4
Q ss_pred CCCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEE
Q 028130 44 DAANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITV 123 (213)
Q Consensus 44 ~~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V 123 (213)
......++|||+|||+++++++|+++|++||+|+.|.|+.+..+++++|||||+|.++++|++||+.||+.+|.+++|+|
T Consensus 102 ~~~~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V 181 (346)
T TIGR01659 102 DTNNSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKV 181 (346)
T ss_pred CCCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeee
Confidence 45567889999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred Eeccc
Q 028130 124 EKAKR 128 (213)
Q Consensus 124 ~~a~~ 128 (213)
.++++
T Consensus 182 ~~a~p 186 (346)
T TIGR01659 182 SYARP 186 (346)
T ss_pred ecccc
Confidence 98764
No 7
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=99.76 E-value=6.8e-18 Score=111.86 Aligned_cols=70 Identities=34% Similarity=0.600 Sum_probs=66.8
Q ss_pred EEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeE
Q 028130 52 LYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLIT 122 (213)
Q Consensus 52 v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~ 122 (213)
|||+|||..+++++|+++|.+||.|..+.++.+ .++...+||||+|.+.++|++||+.|||..|+|+.|+
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~-~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir 70 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRN-SSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR 70 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEE-TTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhccccccccc-ccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence 799999999999999999999999999999887 5788999999999999999999999999999999885
No 8
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=99.75 E-value=3.8e-18 Score=124.76 Aligned_cols=89 Identities=29% Similarity=0.414 Sum_probs=83.3
Q ss_pred CCCCCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeee
Q 028130 42 SPDAANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLI 121 (213)
Q Consensus 42 ~~~~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i 121 (213)
.|.-...++.|||.+++.++++++|.+.|..||+|++|.+.++..||..+|||+|+|++.++|++||.+|||..|.|+.|
T Consensus 65 gPqrSVEGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v 144 (170)
T KOG0130|consen 65 GPQRSVEGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNV 144 (170)
T ss_pred CCccceeeEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCce
Confidence 34555778999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEecccCC
Q 028130 122 TVEKAKRSR 130 (213)
Q Consensus 122 ~V~~a~~~~ 130 (213)
.|.|+-.+.
T Consensus 145 ~VDw~Fv~g 153 (170)
T KOG0130|consen 145 SVDWCFVKG 153 (170)
T ss_pred eEEEEEecC
Confidence 999987653
No 9
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.75 E-value=1.3e-17 Score=133.06 Aligned_cols=83 Identities=36% Similarity=0.438 Sum_probs=80.0
Q ss_pred CCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEec
Q 028130 47 NPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKA 126 (213)
Q Consensus 47 ~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a 126 (213)
...++|-|.||+.++++.+|+++|.+||.|..|.|..++.||.++|||||.|.+.++|++||+.|||.-++.-.|.|+|+
T Consensus 187 ~D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEws 266 (270)
T KOG0122|consen 187 DDEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEWS 266 (270)
T ss_pred CccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEec
Confidence 36779999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccC
Q 028130 127 KRS 129 (213)
Q Consensus 127 ~~~ 129 (213)
+++
T Consensus 267 kP~ 269 (270)
T KOG0122|consen 267 KPS 269 (270)
T ss_pred CCC
Confidence 875
No 10
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.75 E-value=6.5e-18 Score=145.67 Aligned_cols=83 Identities=30% Similarity=0.478 Sum_probs=78.9
Q ss_pred CCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEecc
Q 028130 48 PGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKAK 127 (213)
Q Consensus 48 ~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a~ 127 (213)
+.++|||+|||..+++++|+++|.+||+|..|.|+.++.+++++|||||+|.+.++|++||+.|||..|.|+.|.|++++
T Consensus 2 ~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a~ 81 (352)
T TIGR01661 2 SKTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYAR 81 (352)
T ss_pred CCcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEeec
Confidence 46799999999999999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred cCC
Q 028130 128 RSR 130 (213)
Q Consensus 128 ~~~ 130 (213)
+..
T Consensus 82 ~~~ 84 (352)
T TIGR01661 82 PSS 84 (352)
T ss_pred ccc
Confidence 554
No 11
>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=99.74 E-value=2.5e-17 Score=141.70 Aligned_cols=84 Identities=32% Similarity=0.493 Sum_probs=77.6
Q ss_pred CCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCC--eeeEEEe
Q 028130 48 PGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEG--RLITVEK 125 (213)
Q Consensus 48 ~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g--~~i~V~~ 125 (213)
..++|||+|||..+++++|+++|++||+|+.|.|+.++.+++++|||||+|++.++|++||+.||+..|.+ .+|+|.+
T Consensus 192 ~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V~~ 271 (346)
T TIGR01659 192 KDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNVIPEGGSQPLTVRL 271 (346)
T ss_pred ccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEE
Confidence 45689999999999999999999999999999999999999999999999999999999999999999876 6899999
Q ss_pred cccCCC
Q 028130 126 AKRSRG 131 (213)
Q Consensus 126 a~~~~~ 131 (213)
+.....
T Consensus 272 a~~~~~ 277 (346)
T TIGR01659 272 AEEHGK 277 (346)
T ss_pred CCcccc
Confidence 876543
No 12
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.73 E-value=9.4e-18 Score=121.64 Aligned_cols=83 Identities=23% Similarity=0.423 Sum_probs=78.6
Q ss_pred CCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEE
Q 028130 45 AANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVE 124 (213)
Q Consensus 45 ~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~ 124 (213)
+....++|||+||...++|++|.++|.++|+|..|.|-+++.+..++|||||+|.+.++|+.||+.++|+.|+.++|.|.
T Consensus 32 a~r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D 111 (153)
T KOG0121|consen 32 ALRKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRID 111 (153)
T ss_pred HHhhcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeee
Confidence 34567899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecc
Q 028130 125 KAK 127 (213)
Q Consensus 125 ~a~ 127 (213)
|..
T Consensus 112 ~D~ 114 (153)
T KOG0121|consen 112 WDA 114 (153)
T ss_pred ccc
Confidence 854
No 13
>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=99.70 E-value=2.6e-16 Score=140.33 Aligned_cols=84 Identities=29% Similarity=0.465 Sum_probs=77.8
Q ss_pred CCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEE
Q 028130 45 AANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVE 124 (213)
Q Consensus 45 ~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~ 124 (213)
...+..+|||+|||..+++++|+++|.+||.|..|.|+.++.+++++|||||+|.+.++|++||. |+|..|.|.+|.|+
T Consensus 85 ~~~~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~-l~g~~~~g~~i~v~ 163 (457)
T TIGR01622 85 AERDDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALA-LTGQMLLGRPIIVQ 163 (457)
T ss_pred cccCCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHH-hCCCEECCeeeEEe
Confidence 34457899999999999999999999999999999999999999999999999999999999998 99999999999998
Q ss_pred ecccC
Q 028130 125 KAKRS 129 (213)
Q Consensus 125 ~a~~~ 129 (213)
++...
T Consensus 164 ~~~~~ 168 (457)
T TIGR01622 164 SSQAE 168 (457)
T ss_pred ecchh
Confidence 86543
No 14
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.69 E-value=1.7e-16 Score=122.05 Aligned_cols=81 Identities=25% Similarity=0.373 Sum_probs=72.1
Q ss_pred CCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEec
Q 028130 47 NPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKA 126 (213)
Q Consensus 47 ~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a 126 (213)
...++|||+|||.++.+.+|+++|.+||.|..|.|...+ ....||||+|++..+|+.||..-+|..++|..|.|+|+
T Consensus 4 r~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~---g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfp 80 (241)
T KOG0105|consen 4 RNSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRP---GPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFP 80 (241)
T ss_pred cccceEEecCCCcchhhccHHHHHhhhcceEEEEeccCC---CCCCeeEEEecCccchhhhhhcccccccCcceEEEEec
Confidence 345799999999999999999999999999999986543 23469999999999999999999999999999999998
Q ss_pred ccCC
Q 028130 127 KRSR 130 (213)
Q Consensus 127 ~~~~ 130 (213)
..-.
T Consensus 81 rggr 84 (241)
T KOG0105|consen 81 RGGR 84 (241)
T ss_pred cCCC
Confidence 7654
No 15
>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=99.68 E-value=4.8e-16 Score=103.47 Aligned_cols=70 Identities=33% Similarity=0.609 Sum_probs=64.6
Q ss_pred EEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeE
Q 028130 52 LYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLIT 122 (213)
Q Consensus 52 v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~ 122 (213)
|||+|||+.+++++|.++|..||.|..+.+..++. +..+++|||+|.+.++|+.|++.+++..|+|+.|.
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~-~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~ 70 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKD-GQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR 70 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTT-SSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeec-cccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence 79999999999999999999999999999999876 88999999999999999999999999999999874
No 16
>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=99.67 E-value=9.2e-16 Score=139.34 Aligned_cols=85 Identities=21% Similarity=0.450 Sum_probs=79.7
Q ss_pred CCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEec
Q 028130 47 NPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKA 126 (213)
Q Consensus 47 ~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a 126 (213)
...++|||+||+..+++++|+++|+.||.|+.|.|+.+..+++.+|||||+|.+.++|.+||+.||+..|+|+.|.|.++
T Consensus 202 ~~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kA 281 (612)
T TIGR01645 202 KKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKC 281 (612)
T ss_pred cccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEec
Confidence 34579999999999999999999999999999999999989999999999999999999999999999999999999998
Q ss_pred ccCCC
Q 028130 127 KRSRG 131 (213)
Q Consensus 127 ~~~~~ 131 (213)
...+.
T Consensus 282 i~pP~ 286 (612)
T TIGR01645 282 VTPPD 286 (612)
T ss_pred CCCcc
Confidence 86543
No 17
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.65 E-value=2.2e-16 Score=125.47 Aligned_cols=82 Identities=27% Similarity=0.448 Sum_probs=74.2
Q ss_pred CCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEe
Q 028130 46 ANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEK 125 (213)
Q Consensus 46 ~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~ 125 (213)
+..-++|||+||++++..++|+.+|++||+|++..|+.|+.|++++||+||+|.+.+.|..|++. .+-.|+|++..|.+
T Consensus 9 DT~~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~d-p~piIdGR~aNcnl 87 (247)
T KOG0149|consen 9 DTTFTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKD-PNPIIDGRKANCNL 87 (247)
T ss_pred CceEEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcC-CCCcccccccccch
Confidence 34567999999999999999999999999999999999999999999999999999999999984 34569999998888
Q ss_pred ccc
Q 028130 126 AKR 128 (213)
Q Consensus 126 a~~ 128 (213)
|--
T Consensus 88 A~l 90 (247)
T KOG0149|consen 88 ASL 90 (247)
T ss_pred hhh
Confidence 754
No 18
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.65 E-value=1.1e-15 Score=137.94 Aligned_cols=84 Identities=19% Similarity=0.284 Sum_probs=79.0
Q ss_pred CCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEe
Q 028130 46 ANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEK 125 (213)
Q Consensus 46 ~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~ 125 (213)
....++|||+|||..+++++|+++|++||.|..|.|+.+..++.++|||||+|.+.++|+.||+.|||..|+|..|.|.+
T Consensus 292 ~~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~ 371 (509)
T TIGR01642 292 LDSKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQR 371 (509)
T ss_pred CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEE
Confidence 34567999999999999999999999999999999999988999999999999999999999999999999999999999
Q ss_pred cccC
Q 028130 126 AKRS 129 (213)
Q Consensus 126 a~~~ 129 (213)
+...
T Consensus 372 a~~~ 375 (509)
T TIGR01642 372 ACVG 375 (509)
T ss_pred CccC
Confidence 8654
No 19
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.64 E-value=6.4e-16 Score=127.88 Aligned_cols=88 Identities=34% Similarity=0.499 Sum_probs=77.8
Q ss_pred CCCCCCCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCe
Q 028130 40 SRSPDAANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGR 119 (213)
Q Consensus 40 ~~~~~~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~ 119 (213)
+.+.+.....+.|+|.|||+...+.||..+|++||+|.+|+|+.+. .-+|||+||+|++.++|++|-++|||..|.|+
T Consensus 87 st~s~s~~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNE--RGSKGFGFVTmen~~dadRARa~LHgt~VEGR 164 (376)
T KOG0125|consen 87 STNSSSKDTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNE--RGSKGFGFVTMENPADADRARAELHGTVVEGR 164 (376)
T ss_pred CCcCCCCCCCceeEeecCCccccCccHHHHHHhhCceeeEEEEecc--CCCCccceEEecChhhHHHHHHHhhcceeece
Confidence 3334445566799999999999999999999999999999999874 34679999999999999999999999999999
Q ss_pred eeEEEecccC
Q 028130 120 LITVEKAKRS 129 (213)
Q Consensus 120 ~i~V~~a~~~ 129 (213)
+|.|..|...
T Consensus 165 kIEVn~ATar 174 (376)
T KOG0125|consen 165 KIEVNNATAR 174 (376)
T ss_pred EEEEeccchh
Confidence 9999988654
No 20
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.64 E-value=1.3e-15 Score=124.31 Aligned_cols=77 Identities=19% Similarity=0.375 Sum_probs=70.9
Q ss_pred CCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEeccc
Q 028130 49 GNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKAKR 128 (213)
Q Consensus 49 ~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a~~ 128 (213)
.++|||+||++.+++++|+++|+.||+|+.|.|+.+.. .+|||||+|++.++|+.||. |||..|.|+.|.|.++..
T Consensus 4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~---~~GfAFVtF~d~eaAe~All-LnG~~l~gr~V~Vt~a~~ 79 (260)
T PLN03120 4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENE---RSQIAYVTFKDPQGAETALL-LSGATIVDQSVTITPAED 79 (260)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCC---CCCEEEEEeCcHHHHHHHHH-hcCCeeCCceEEEEeccC
Confidence 57999999999999999999999999999999988753 45899999999999999996 999999999999999864
Q ss_pred C
Q 028130 129 S 129 (213)
Q Consensus 129 ~ 129 (213)
-
T Consensus 80 ~ 80 (260)
T PLN03120 80 Y 80 (260)
T ss_pred C
Confidence 3
No 21
>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=99.64 E-value=1.6e-15 Score=135.33 Aligned_cols=82 Identities=32% Similarity=0.467 Sum_probs=77.7
Q ss_pred CCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEecc
Q 028130 48 PGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKAK 127 (213)
Q Consensus 48 ~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a~ 127 (213)
..++|||+|||..+++++|+++|.+||.|..|.|+.+..+++++|||||+|.+.++|++||+.|||..|.|+.|.|.++.
T Consensus 185 ~~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a~ 264 (457)
T TIGR01622 185 NFLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQ 264 (457)
T ss_pred CCCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEcc
Confidence 36899999999999999999999999999999999999889999999999999999999999999999999999999976
Q ss_pred cC
Q 028130 128 RS 129 (213)
Q Consensus 128 ~~ 129 (213)
..
T Consensus 265 ~~ 266 (457)
T TIGR01622 265 DS 266 (457)
T ss_pred CC
Confidence 43
No 22
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.64 E-value=3.5e-17 Score=125.37 Aligned_cols=82 Identities=27% Similarity=0.440 Sum_probs=77.7
Q ss_pred CCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEe
Q 028130 46 ANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEK 125 (213)
Q Consensus 46 ~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~ 125 (213)
-..+..|||+|||.++||.||..+|++||+|++|.++.++.||+++||||+.|++.....-|+..|||..|.|+.|.|..
T Consensus 32 YkdsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDH 111 (219)
T KOG0126|consen 32 YKDSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDH 111 (219)
T ss_pred cccceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeee
Confidence 35567899999999999999999999999999999999999999999999999999999999999999999999999986
Q ss_pred cc
Q 028130 126 AK 127 (213)
Q Consensus 126 a~ 127 (213)
..
T Consensus 112 v~ 113 (219)
T KOG0126|consen 112 VS 113 (219)
T ss_pred cc
Confidence 54
No 23
>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=99.63 E-value=1.4e-15 Score=138.20 Aligned_cols=82 Identities=27% Similarity=0.398 Sum_probs=77.4
Q ss_pred CCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEe
Q 028130 46 ANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEK 125 (213)
Q Consensus 46 ~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~ 125 (213)
....++|||+||++.+++++|+++|.+||.|..|.|+.++.+++++|||||+|.+.++|+.||+.|||..|+|+.|.|.+
T Consensus 104 ~~~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~r 183 (612)
T TIGR01645 104 LAIMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGR 183 (612)
T ss_pred hcCCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeecc
Confidence 34568999999999999999999999999999999999999999999999999999999999999999999999999986
Q ss_pred cc
Q 028130 126 AK 127 (213)
Q Consensus 126 a~ 127 (213)
..
T Consensus 184 p~ 185 (612)
T TIGR01645 184 PS 185 (612)
T ss_pred cc
Confidence 43
No 24
>smart00362 RRM_2 RNA recognition motif.
Probab=99.63 E-value=3.2e-15 Score=98.24 Aligned_cols=72 Identities=38% Similarity=0.596 Sum_probs=66.8
Q ss_pred eEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEE
Q 028130 51 NLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVE 124 (213)
Q Consensus 51 ~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~ 124 (213)
+|||.|||..+++++|+++|.+||.|..+.+..+. +.+.++|||+|.+.++|+.|+..|++..|.|..|.|.
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~--~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v~ 72 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDT--GKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRVE 72 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCC--CCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEeeC
Confidence 58999999999999999999999999999988765 6778999999999999999999999999999998873
No 25
>PLN03213 repressor of silencing 3; Provisional
Probab=99.62 E-value=1.9e-15 Score=130.99 Aligned_cols=81 Identities=27% Similarity=0.390 Sum_probs=73.1
Q ss_pred CCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecH--HHHHHHHHHhCCceeCCeeeE
Q 028130 45 AANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETV--EGADRCIKYLNRSVLEGRLIT 122 (213)
Q Consensus 45 ~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~--~~a~~Ai~~l~g~~i~g~~i~ 122 (213)
....+.+||||||++.+++++|..+|..||.|..|.|+ ..+| +|||||+|.+. .++.+||..|||..|+|..|+
T Consensus 6 s~~~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIp--RETG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LK 81 (759)
T PLN03213 6 SGGGGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFV--RTKG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLR 81 (759)
T ss_pred cCCcceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEe--cccC--CceEEEEecCCcHHHHHHHHHHhcCCeecCceeE
Confidence 34556899999999999999999999999999999999 4466 89999999987 789999999999999999999
Q ss_pred EEecccC
Q 028130 123 VEKAKRS 129 (213)
Q Consensus 123 V~~a~~~ 129 (213)
|..|++.
T Consensus 82 VNKAKP~ 88 (759)
T PLN03213 82 LEKAKEH 88 (759)
T ss_pred EeeccHH
Confidence 9988643
No 26
>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=99.61 E-value=3.1e-15 Score=136.80 Aligned_cols=80 Identities=30% Similarity=0.466 Sum_probs=76.1
Q ss_pred CeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEecccC
Q 028130 50 NNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKAKRS 129 (213)
Q Consensus 50 ~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a~~~ 129 (213)
.+|||+|||.++|+++|.++|.+||.|..|.|+.+..|++++|||||+|.+.++|++||+.||+..|.|+.|.|.|+...
T Consensus 1 ~sl~VgnLp~~vte~~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s~~~ 80 (562)
T TIGR01628 1 ASLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQRD 80 (562)
T ss_pred CeEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeeccccc
Confidence 37999999999999999999999999999999999999999999999999999999999999999999999999997543
No 27
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.60 E-value=1.2e-15 Score=116.87 Aligned_cols=83 Identities=36% Similarity=0.476 Sum_probs=79.4
Q ss_pred CCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEE
Q 028130 45 AANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVE 124 (213)
Q Consensus 45 ~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~ 124 (213)
+.+...+|||+||+..++++.|.++|-+.|+|..+.|+.++.+.+.+|||||+|.++++|+-||+.||...|.|++|+|.
T Consensus 5 ~rnqd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~ 84 (203)
T KOG0131|consen 5 ERNQDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVN 84 (203)
T ss_pred ccCCCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEE
Confidence 45678899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecc
Q 028130 125 KAK 127 (213)
Q Consensus 125 ~a~ 127 (213)
.+.
T Consensus 85 kas 87 (203)
T KOG0131|consen 85 KAS 87 (203)
T ss_pred ecc
Confidence 876
No 28
>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=99.60 E-value=4.2e-15 Score=134.73 Aligned_cols=80 Identities=28% Similarity=0.439 Sum_probs=72.5
Q ss_pred CCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeC-CeeeEEE
Q 028130 46 ANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLE-GRLITVE 124 (213)
Q Consensus 46 ~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~-g~~i~V~ 124 (213)
...+++|||+|||.++++++|.++|++||.|..|.|+.+ .+++++|||||+|.+.++|++||+.||+.+|. |+.|.|.
T Consensus 55 p~~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D-~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V~ 133 (578)
T TIGR01648 55 PGRGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMD-FSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGVC 133 (578)
T ss_pred CCCCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEEC-CCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCcccccc
Confidence 445789999999999999999999999999999999999 68999999999999999999999999999885 6666665
Q ss_pred ec
Q 028130 125 KA 126 (213)
Q Consensus 125 ~a 126 (213)
++
T Consensus 134 ~S 135 (578)
T TIGR01648 134 IS 135 (578)
T ss_pred cc
Confidence 44
No 29
>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=99.60 E-value=2e-14 Score=130.30 Aligned_cols=77 Identities=35% Similarity=0.390 Sum_probs=70.6
Q ss_pred CCCCCeEEEeCCCCCCcHHHHHHHHccC--CCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEE
Q 028130 46 ANPGNNLYVTGLSTRVTNADLEKFFGGE--GKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITV 123 (213)
Q Consensus 46 ~~~~~~v~V~nLp~~~t~~~L~~~F~~~--G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V 123 (213)
....++|||+||+..+++++|+++|++| |+|+.|.++. +||||+|++.++|++||+.||+.+|+|+.|+|
T Consensus 230 ~~~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~r--------gfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V 301 (578)
T TIGR01648 230 MAKVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKIR--------DYAFVHFEDREDAVKAMDELNGKELEGSEIEV 301 (578)
T ss_pred cccccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEeec--------CeEEEEeCCHHHHHHHHHHhCCCEECCEEEEE
Confidence 3446789999999999999999999999 9999998764 59999999999999999999999999999999
Q ss_pred EecccCC
Q 028130 124 EKAKRSR 130 (213)
Q Consensus 124 ~~a~~~~ 130 (213)
.|+++..
T Consensus 302 ~~Akp~~ 308 (578)
T TIGR01648 302 TLAKPVD 308 (578)
T ss_pred EEccCCC
Confidence 9998754
No 30
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.60 E-value=6.6e-15 Score=118.59 Aligned_cols=78 Identities=18% Similarity=0.295 Sum_probs=70.6
Q ss_pred CCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEec
Q 028130 47 NPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKA 126 (213)
Q Consensus 47 ~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a 126 (213)
..+.+|||+||++.+|+++|++||+.||+|..|.|+.+..+ .+||||+|++.++|+.||. |+|..|.++.|.|..+
T Consensus 3 ~~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~et---~gfAfVtF~d~~aaetAll-LnGa~l~d~~I~It~~ 78 (243)
T PLN03121 3 PGGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSGEY---ACTAYVTFKDAYALETAVL-LSGATIVDQRVCITRW 78 (243)
T ss_pred CCceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCCCc---ceEEEEEECCHHHHHHHHh-cCCCeeCCceEEEEeC
Confidence 35689999999999999999999999999999999987543 4799999999999999996 9999999999999876
Q ss_pred cc
Q 028130 127 KR 128 (213)
Q Consensus 127 ~~ 128 (213)
..
T Consensus 79 ~~ 80 (243)
T PLN03121 79 GQ 80 (243)
T ss_pred cc
Confidence 53
No 31
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.60 E-value=7.8e-16 Score=121.26 Aligned_cols=85 Identities=35% Similarity=0.472 Sum_probs=81.2
Q ss_pred CCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEe
Q 028130 46 ANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEK 125 (213)
Q Consensus 46 ~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~ 125 (213)
.....+|||++|..++++..|...|-.||.|..|.|+.+..+++.+|||||+|+..++|.+||..||+.+|.|+.|.|.+
T Consensus 7 a~~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~ 86 (298)
T KOG0111|consen 7 ANQKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNL 86 (298)
T ss_pred cccceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEee
Confidence 35567999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccCC
Q 028130 126 AKRSR 130 (213)
Q Consensus 126 a~~~~ 130 (213)
|++..
T Consensus 87 AkP~k 91 (298)
T KOG0111|consen 87 AKPEK 91 (298)
T ss_pred cCCcc
Confidence 98775
No 32
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.59 E-value=7.5e-15 Score=118.85 Aligned_cols=81 Identities=25% Similarity=0.441 Sum_probs=75.5
Q ss_pred CCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEE
Q 028130 45 AANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVE 124 (213)
Q Consensus 45 ~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~ 124 (213)
..+.+|+|||+||+..+++++|++.|..||.|.+|.|..++ |||||.|++.|.|..||..||+++|.|+.|++.
T Consensus 160 ssp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~q------GYaFVrF~tkEaAahAIv~mNntei~G~~VkCs 233 (321)
T KOG0148|consen 160 SSPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKDQ------GYAFVRFETKEAAAHAIVQMNNTEIGGQLVRCS 233 (321)
T ss_pred CCCCCceEEeCCcCccccHHHHHHhcccCCcceEEEEeccc------ceEEEEecchhhHHHHHHHhcCceeCceEEEEe
Confidence 34678999999999999999999999999999999999876 899999999999999999999999999999999
Q ss_pred ecccCCC
Q 028130 125 KAKRSRG 131 (213)
Q Consensus 125 ~a~~~~~ 131 (213)
|-+....
T Consensus 234 WGKe~~~ 240 (321)
T KOG0148|consen 234 WGKEGDD 240 (321)
T ss_pred ccccCCC
Confidence 9887654
No 33
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.59 E-value=6.1e-15 Score=126.38 Aligned_cols=86 Identities=30% Similarity=0.437 Sum_probs=79.2
Q ss_pred CCCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCcee-CCeeeE
Q 028130 44 DAANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVL-EGRLIT 122 (213)
Q Consensus 44 ~~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i-~g~~i~ 122 (213)
.....++-|||+.||.++.|++|.-+|++.|+|-.+.|++++.+|.++|||||.|.+.++|+.||+.||+++| .|+.|.
T Consensus 78 ~~p~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~ig 157 (506)
T KOG0117|consen 78 PPPPRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLG 157 (506)
T ss_pred CCCCCCceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeE
Confidence 3347789999999999999999999999999999999999999999999999999999999999999999998 688888
Q ss_pred EEecccC
Q 028130 123 VEKAKRS 129 (213)
Q Consensus 123 V~~a~~~ 129 (213)
|+.+..+
T Consensus 158 vc~Svan 164 (506)
T KOG0117|consen 158 VCVSVAN 164 (506)
T ss_pred EEEeeec
Confidence 8876543
No 34
>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=99.59 E-value=7.3e-15 Score=134.36 Aligned_cols=83 Identities=31% Similarity=0.520 Sum_probs=77.9
Q ss_pred CCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEe
Q 028130 46 ANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEK 125 (213)
Q Consensus 46 ~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~ 125 (213)
....++|||+||+..+++++|+++|++||.|+.|.|+.+ .++.++|||||+|.+.++|++||..|||..|+|+.|.|.+
T Consensus 282 ~~~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d-~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V~~ 360 (562)
T TIGR01628 282 KAQGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLD-EKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYVAL 360 (562)
T ss_pred ccCCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEEC-CCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEEEe
Confidence 345678999999999999999999999999999999998 5899999999999999999999999999999999999999
Q ss_pred cccC
Q 028130 126 AKRS 129 (213)
Q Consensus 126 a~~~ 129 (213)
+..+
T Consensus 361 a~~k 364 (562)
T TIGR01628 361 AQRK 364 (562)
T ss_pred ccCc
Confidence 8764
No 35
>smart00360 RRM RNA recognition motif.
Probab=99.59 E-value=9e-15 Score=95.64 Aligned_cols=71 Identities=38% Similarity=0.593 Sum_probs=66.7
Q ss_pred EeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEE
Q 028130 54 VTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVE 124 (213)
Q Consensus 54 V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~ 124 (213)
|+|||..+++++|+++|.+||.|..+.+..++.++.++++|||+|.+.++|+.|+..|++..+.|..|.|+
T Consensus 1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v~ 71 (71)
T smart00360 1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKVK 71 (71)
T ss_pred CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEeC
Confidence 67999999999999999999999999999888778899999999999999999999999999999998873
No 36
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.58 E-value=2.7e-15 Score=125.37 Aligned_cols=90 Identities=27% Similarity=0.478 Sum_probs=84.2
Q ss_pred CCCCCCCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCe
Q 028130 40 SRSPDAANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGR 119 (213)
Q Consensus 40 ~~~~~~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~ 119 (213)
-+..+..+|.+.|||+.|.+-|+.++|+-+|+.||.|..|.|+.+..||.+..||||+|++.++|++|+-+|++..|++.
T Consensus 230 lpdAd~~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDr 309 (479)
T KOG0415|consen 230 LPDADVKPPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDR 309 (479)
T ss_pred CcccccCCCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccc
Confidence 34556778899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeEEEecccC
Q 028130 120 LITVEKAKRS 129 (213)
Q Consensus 120 ~i~V~~a~~~ 129 (213)
.|+|.|++..
T Consensus 310 RIHVDFSQSV 319 (479)
T KOG0415|consen 310 RIHVDFSQSV 319 (479)
T ss_pred eEEeehhhhh
Confidence 9999997644
No 37
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.56 E-value=3e-14 Score=99.84 Aligned_cols=83 Identities=19% Similarity=0.313 Sum_probs=74.1
Q ss_pred CCCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEE
Q 028130 44 DAANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITV 123 (213)
Q Consensus 44 ~~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V 123 (213)
-+++.+..|||.|||..+|.+++.++|.+||.|..|.|-..+. .+|.|||.|++..+|.+|+++|+|..+.+..|.|
T Consensus 13 lppevnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~---TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~v 89 (124)
T KOG0114|consen 13 LPPEVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKE---TRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVV 89 (124)
T ss_pred CChhhheeEEEecCCccccHHHHHHHhhcccceEEEEecCccC---cCceEEEEehHhhhHHHHHHHhcccccCCceEEE
Confidence 3456678999999999999999999999999999999976554 4599999999999999999999999999999999
Q ss_pred EecccC
Q 028130 124 EKAKRS 129 (213)
Q Consensus 124 ~~a~~~ 129 (213)
-+..+.
T Consensus 90 lyyq~~ 95 (124)
T KOG0114|consen 90 LYYQPE 95 (124)
T ss_pred EecCHH
Confidence 886543
No 38
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.56 E-value=1.9e-14 Score=117.62 Aligned_cols=80 Identities=43% Similarity=0.603 Sum_probs=77.1
Q ss_pred CCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEeccc
Q 028130 49 GNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKAKR 128 (213)
Q Consensus 49 ~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a~~ 128 (213)
.++|||+|||..+++++|.++|.+||.|..+.|+.++.++..+|||||+|.+.++|+.||+.|++..|.|..|.|.++..
T Consensus 115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~~ 194 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQP 194 (306)
T ss_pred CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeecccc
Confidence 68999999999999999999999999999999999988999999999999999999999999999999999999999753
No 39
>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=99.55 E-value=5.3e-14 Score=92.80 Aligned_cols=74 Identities=41% Similarity=0.594 Sum_probs=68.2
Q ss_pred eEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEe
Q 028130 51 NLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEK 125 (213)
Q Consensus 51 ~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~ 125 (213)
+|+|+|||..+++++|+++|..||.|..+.+..+..+ ...++|||+|.+.++|+.|++.+++..+.|..|.|.+
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~-~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~~ 74 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDT-KSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVEF 74 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCC-CcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEeC
Confidence 5899999999999999999999999999999887644 6678999999999999999999999999999999864
No 40
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.55 E-value=1.4e-14 Score=117.29 Aligned_cols=84 Identities=29% Similarity=0.432 Sum_probs=80.3
Q ss_pred CCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEec
Q 028130 47 NPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKA 126 (213)
Q Consensus 47 ~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a 126 (213)
.....|||+-|..+++-++|++.|.+||+|.+++|+.|..|++++||+||.|.+.++|+.||..|||..|+++.|...||
T Consensus 60 ~~hfhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWA 139 (321)
T KOG0148|consen 60 NQHFHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWA 139 (321)
T ss_pred ccceeEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeecccc
Confidence 33678999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCC
Q 028130 127 KRSR 130 (213)
Q Consensus 127 ~~~~ 130 (213)
..++
T Consensus 140 TRKp 143 (321)
T KOG0148|consen 140 TRKP 143 (321)
T ss_pred ccCc
Confidence 8776
No 41
>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=99.55 E-value=3.4e-14 Score=127.73 Aligned_cols=80 Identities=25% Similarity=0.329 Sum_probs=73.4
Q ss_pred CCCCCeEEEeCCCC-CCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEE
Q 028130 46 ANPGNNLYVTGLST-RVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVE 124 (213)
Q Consensus 46 ~~~~~~v~V~nLp~-~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~ 124 (213)
..++++|||+||++ .+++++|+++|++||.|..|.|+.++ +|||||+|.+.++|+.||..|||..|.|+.|.|.
T Consensus 272 ~~~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~-----~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~ 346 (481)
T TIGR01649 272 GGPGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNK-----KETALIEMADPYQAQLALTHLNGVKLFGKPLRVC 346 (481)
T ss_pred CCCCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEECCceEEEE
Confidence 45788999999997 69999999999999999999998763 3899999999999999999999999999999999
Q ss_pred ecccCC
Q 028130 125 KAKRSR 130 (213)
Q Consensus 125 ~a~~~~ 130 (213)
+++...
T Consensus 347 ~s~~~~ 352 (481)
T TIGR01649 347 PSKQQN 352 (481)
T ss_pred Eccccc
Confidence 987654
No 42
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.53 E-value=4.6e-14 Score=113.88 Aligned_cols=89 Identities=31% Similarity=0.493 Sum_probs=83.1
Q ss_pred CCCCCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeee
Q 028130 42 SPDAANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLI 121 (213)
Q Consensus 42 ~~~~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i 121 (213)
+.+..+..+.|.|.-||..+|++||+.+|...|+|+.|+++.|+.+|++.||+||.|-++++|++||..|||..|..+.|
T Consensus 34 ~~~t~~skTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTI 113 (360)
T KOG0145|consen 34 GNDTDESKTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTI 113 (360)
T ss_pred CCCcCcccceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceE
Confidence 44456677889999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEecccCC
Q 028130 122 TVEKAKRSR 130 (213)
Q Consensus 122 ~V~~a~~~~ 130 (213)
+|.+|.+..
T Consensus 114 KVSyARPSs 122 (360)
T KOG0145|consen 114 KVSYARPSS 122 (360)
T ss_pred EEEeccCCh
Confidence 999997653
No 43
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.52 E-value=2e-14 Score=117.43 Aligned_cols=73 Identities=32% Similarity=0.549 Sum_probs=69.6
Q ss_pred CeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEecccC
Q 028130 50 NNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKAKRS 129 (213)
Q Consensus 50 ~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a~~~ 129 (213)
.+|||+|||.++++.+|+.+|++||+|++|+|+++ |+||..++...|+.||..||+..|+|..|+|+.++.+
T Consensus 3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIvKN--------YgFVHiEdktaaedairNLhgYtLhg~nInVeaSksK 74 (346)
T KOG0109|consen 3 VKLFIGNLPREATEQELRSLFEQYGKVLECDIVKN--------YGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSK 74 (346)
T ss_pred cchhccCCCcccchHHHHHHHHhhCceEeeeeecc--------cceEEeecccccHHHHhhcccceecceEEEEEecccc
Confidence 47999999999999999999999999999999975 9999999999999999999999999999999999887
Q ss_pred C
Q 028130 130 R 130 (213)
Q Consensus 130 ~ 130 (213)
.
T Consensus 75 s 75 (346)
T KOG0109|consen 75 S 75 (346)
T ss_pred C
Confidence 3
No 44
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.52 E-value=3.2e-14 Score=121.58 Aligned_cols=93 Identities=28% Similarity=0.411 Sum_probs=81.5
Q ss_pred CCCCCCCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCce-eCC
Q 028130 40 SRSPDAANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSV-LEG 118 (213)
Q Consensus 40 ~~~~~~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~-i~g 118 (213)
.+...++....+|||+-||..++|.||+++|++||.|..|.|++|+.|+..+|||||.|.+.++|.+||.+||+.. |-|
T Consensus 25 ~~~d~~d~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG 104 (510)
T KOG0144|consen 25 DHTDNPDGSAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPG 104 (510)
T ss_pred CCCCCCCchhhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCC
Confidence 4444555667799999999999999999999999999999999999999999999999999999999999999875 444
Q ss_pred --eeeEEEecccCCCC
Q 028130 119 --RLITVEKAKRSRGR 132 (213)
Q Consensus 119 --~~i~V~~a~~~~~~ 132 (213)
.+|.|.+|.....+
T Consensus 105 ~~~pvqvk~Ad~E~er 120 (510)
T KOG0144|consen 105 MHHPVQVKYADGERER 120 (510)
T ss_pred CCcceeecccchhhhc
Confidence 68889888766543
No 45
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=99.52 E-value=3.2e-14 Score=124.72 Aligned_cols=82 Identities=28% Similarity=0.460 Sum_probs=79.3
Q ss_pred CeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEecccC
Q 028130 50 NNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKAKRS 129 (213)
Q Consensus 50 ~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a~~~ 129 (213)
+.|||+|||+++++++|..+|++.|.|..+.++.|+.||+++||||++|.+.++|+.||+.|||.++.|.+|+|.|+...
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~~ 98 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASNR 98 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeeccccc
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999998766
Q ss_pred CC
Q 028130 130 RG 131 (213)
Q Consensus 130 ~~ 131 (213)
+.
T Consensus 99 ~~ 100 (435)
T KOG0108|consen 99 KN 100 (435)
T ss_pred ch
Confidence 53
No 46
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.51 E-value=1.2e-13 Score=111.47 Aligned_cols=84 Identities=30% Similarity=0.386 Sum_probs=79.5
Q ss_pred CCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEe
Q 028130 46 ANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEK 125 (213)
Q Consensus 46 ~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~ 125 (213)
...+++|||-||.++++|..|+++|..||.|..|+|+.|..|.+.+||+||.+.+.++|..||..|||..+.++.|.|.|
T Consensus 275 ~~~g~ciFvYNLspd~de~~LWQlFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~rvLQVsF 354 (360)
T KOG0145|consen 275 PGGGWCIFVYNLSPDADESILWQLFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLGDRVLQVSF 354 (360)
T ss_pred CCCeeEEEEEecCCCchHhHHHHHhCcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcCccccceEEEEEE
Confidence 34578999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccC
Q 028130 126 AKRS 129 (213)
Q Consensus 126 a~~~ 129 (213)
...+
T Consensus 355 Ktnk 358 (360)
T KOG0145|consen 355 KTNK 358 (360)
T ss_pred ecCC
Confidence 7654
No 47
>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=99.50 E-value=1e-13 Score=124.76 Aligned_cols=76 Identities=21% Similarity=0.268 Sum_probs=68.9
Q ss_pred CCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHh--CCceeCCeeeEEEe
Q 028130 48 PGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYL--NRSVLEGRLITVEK 125 (213)
Q Consensus 48 ~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l--~g~~i~g~~i~V~~ 125 (213)
|..+|||+|||..+++++|.++|++||.|..|.|+.++ +||||+|++.++|++||+.| ++..|.|+.|.|++
T Consensus 1 ps~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~~k------~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~ 74 (481)
T TIGR01649 1 PSPVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLPGK------RQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNY 74 (481)
T ss_pred CccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEECCC------CEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEe
Confidence 46799999999999999999999999999999988543 79999999999999999875 77899999999999
Q ss_pred cccC
Q 028130 126 AKRS 129 (213)
Q Consensus 126 a~~~ 129 (213)
+..+
T Consensus 75 s~~~ 78 (481)
T TIGR01649 75 STSQ 78 (481)
T ss_pred cCCc
Confidence 8644
No 48
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.50 E-value=4.6e-14 Score=121.08 Aligned_cols=79 Identities=32% Similarity=0.376 Sum_probs=72.2
Q ss_pred CCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEE
Q 028130 45 AANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVE 124 (213)
Q Consensus 45 ~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~ 124 (213)
....-..|||.||+.+||++.|+++|++||.|+.|+.+.| ||||.|.+.++|.+|++.|||++|+|..|.|.
T Consensus 255 ~ms~VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~rD--------YaFVHf~eR~davkAm~~~ngkeldG~~iEvt 326 (506)
T KOG0117|consen 255 TMSKVKVLYVRNLMESTTEETLKKLFNEFGKVERVKKPRD--------YAFVHFAEREDAVKAMKETNGKELDGSPIEVT 326 (506)
T ss_pred hhhheeeeeeeccchhhhHHHHHHHHHhccceEEeecccc--------eeEEeecchHHHHHHHHHhcCceecCceEEEE
Confidence 3444568999999999999999999999999999988754 99999999999999999999999999999999
Q ss_pred ecccCCC
Q 028130 125 KAKRSRG 131 (213)
Q Consensus 125 ~a~~~~~ 131 (213)
+|++...
T Consensus 327 LAKP~~k 333 (506)
T KOG0117|consen 327 LAKPVDK 333 (506)
T ss_pred ecCChhh
Confidence 9997754
No 49
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.48 E-value=4.3e-14 Score=120.83 Aligned_cols=85 Identities=31% Similarity=0.465 Sum_probs=77.3
Q ss_pred CCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCce-eCC--eeeEE
Q 028130 47 NPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSV-LEG--RLITV 123 (213)
Q Consensus 47 ~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~-i~g--~~i~V 123 (213)
....+|||+.|+..++|.+|+++|.+||.|++|.|+.+. .+.++|||||.|.+.+.|..||+.|||.. +.| .+|.|
T Consensus 122 ~~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~-~~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVV 200 (510)
T KOG0144|consen 122 VEERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDP-DGLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVV 200 (510)
T ss_pred ccchhhhhhhccccccHHHHHHHHHhhCccchhhheecc-cccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEE
Confidence 457899999999999999999999999999999999986 78899999999999999999999999986 555 58999
Q ss_pred EecccCCCC
Q 028130 124 EKAKRSRGR 132 (213)
Q Consensus 124 ~~a~~~~~~ 132 (213)
.||..++.+
T Consensus 201 kFADtqkdk 209 (510)
T KOG0144|consen 201 KFADTQKDK 209 (510)
T ss_pred EecccCCCc
Confidence 999887654
No 50
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.48 E-value=1.7e-13 Score=120.14 Aligned_cols=87 Identities=30% Similarity=0.454 Sum_probs=79.6
Q ss_pred CCCCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHh-----CC-cee
Q 028130 43 PDAANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYL-----NR-SVL 116 (213)
Q Consensus 43 ~~~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l-----~g-~~i 116 (213)
+++...+.+|||.|||+++|+++|.+.|.+||+|.++.|+.++.|+.++|+|||.|.+..+|+.||... .| ..|
T Consensus 286 ~en~~~~~tVFvRNL~fD~tEEel~~~fskFG~v~ya~iV~~k~T~~skGtAFv~Fkt~~~~~~ci~~Aspa~e~g~~ll 365 (678)
T KOG0127|consen 286 RENITEGKTVFVRNLPFDTTEEELKEHFSKFGEVKYAIIVKDKDTGHSKGTAFVKFKTQIAAQNCIEAASPASEDGSVLL 365 (678)
T ss_pred cccccccceEEEecCCccccHHHHHHHHHhhccceeEEEEeccCCCCcccceEEEeccHHHHHHHHHhcCccCCCceEEE
Confidence 566777899999999999999999999999999999999999999999999999999999999999866 33 568
Q ss_pred CCeeeEEEecccC
Q 028130 117 EGRLITVEKAKRS 129 (213)
Q Consensus 117 ~g~~i~V~~a~~~ 129 (213)
+|+.|.|..|..+
T Consensus 366 ~GR~Lkv~~Av~R 378 (678)
T KOG0127|consen 366 DGRLLKVTLAVTR 378 (678)
T ss_pred eccEEeeeeccch
Confidence 9999999988654
No 51
>PF13893 RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....
Probab=99.46 E-value=4.7e-13 Score=85.28 Aligned_cols=56 Identities=36% Similarity=0.548 Sum_probs=50.6
Q ss_pred HHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEec
Q 028130 66 LEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKA 126 (213)
Q Consensus 66 L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a 126 (213)
|.++|++||+|..+.+..+. .++|||+|.+.++|+.|++.|||..|.|++|+|+|+
T Consensus 1 L~~~f~~fG~V~~i~~~~~~-----~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a 56 (56)
T PF13893_consen 1 LYKLFSKFGEVKKIKIFKKK-----RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA 56 (56)
T ss_dssp HHHHHTTTS-EEEEEEETTS-----TTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred ChHHhCCcccEEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence 67899999999999987654 479999999999999999999999999999999985
No 52
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.45 E-value=9.6e-14 Score=112.41 Aligned_cols=87 Identities=21% Similarity=0.327 Sum_probs=82.5
Q ss_pred CCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEE
Q 028130 45 AANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVE 124 (213)
Q Consensus 45 ~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~ 124 (213)
+.+++|.|||-.||.+..+.||..+|-.||.|+..++..|..|..+++|+||.|++...|++||.+|||..|+-+.|+|+
T Consensus 281 eGPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKVQ 360 (371)
T KOG0146|consen 281 EGPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKVQ 360 (371)
T ss_pred cCCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhhhh
Confidence 45779999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecccCCC
Q 028130 125 KAKRSRG 131 (213)
Q Consensus 125 ~a~~~~~ 131 (213)
+..++..
T Consensus 361 LKRPkda 367 (371)
T KOG0146|consen 361 LKRPKDA 367 (371)
T ss_pred hcCcccc
Confidence 9887753
No 53
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.45 E-value=3.4e-13 Score=118.30 Aligned_cols=85 Identities=26% Similarity=0.475 Sum_probs=77.3
Q ss_pred CCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEe
Q 028130 46 ANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEK 125 (213)
Q Consensus 46 ~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~ 125 (213)
..+...|+|.|||+.+...+|+.+|+.||.|..|.|+.... ++-+|||||.|....+|..||+.||++.|+|++|-|.|
T Consensus 114 ~~~k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~d-gklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDW 192 (678)
T KOG0127|consen 114 DLPKWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKD-GKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDW 192 (678)
T ss_pred cCccceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCC-CCccceEEEEEeeHHHHHHHHHhccCceecCceeEEee
Confidence 44578999999999999999999999999999999997664 55559999999999999999999999999999999999
Q ss_pred cccCCC
Q 028130 126 AKRSRG 131 (213)
Q Consensus 126 a~~~~~ 131 (213)
|-.+..
T Consensus 193 AV~Kd~ 198 (678)
T KOG0127|consen 193 AVDKDT 198 (678)
T ss_pred eccccc
Confidence 987753
No 54
>smart00361 RRM_1 RNA recognition motif.
Probab=99.44 E-value=5e-13 Score=89.21 Aligned_cols=62 Identities=29% Similarity=0.423 Sum_probs=55.2
Q ss_pred HHHHHHHHc----cCCCeEEEE-EeeCCCC--CCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEE
Q 028130 63 NADLEKFFG----GEGKVTECH-LVTDPRT--RESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVE 124 (213)
Q Consensus 63 ~~~L~~~F~----~~G~i~~~~-i~~~~~t--~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~ 124 (213)
+++|+++|. +||.|..|. |+.++.+ +.++|||||+|.+.++|++||..|||..|.|+.|.+.
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~~ 70 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKAE 70 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEeC
Confidence 567888888 999999985 7677666 8899999999999999999999999999999999863
No 55
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.43 E-value=5.4e-13 Score=114.39 Aligned_cols=88 Identities=20% Similarity=0.346 Sum_probs=77.4
Q ss_pred CCCCCCCCCCCeEEEeCCCCCCcHHHHHHHHc-cCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCC
Q 028130 40 SRSPDAANPGNNLYVTGLSTRVTNADLEKFFG-GEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEG 118 (213)
Q Consensus 40 ~~~~~~~~~~~~v~V~nLp~~~t~~~L~~~F~-~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g 118 (213)
+...........|||+|||+++.|++|+++|. +.|+|++|.++.|. .+|++|||.|||+++|.+++|++.||.++|.|
T Consensus 35 s~~gn~~~r~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~-~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~G 113 (608)
T KOG4212|consen 35 SQGGNVAARDRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDE-SGKARGCAVVEFKDPENVQKALEKLNKYEVNG 113 (608)
T ss_pred CCCCCcccccceEEEecCcchhhhHhHHHHHHHhcCceEeeeeeccc-CCCcCCceEEEeeCHHHHHHHHHHhhhccccC
Confidence 33344444555699999999999999999996 58999999999886 89999999999999999999999999999999
Q ss_pred eeeEEEeccc
Q 028130 119 RLITVEKAKR 128 (213)
Q Consensus 119 ~~i~V~~a~~ 128 (213)
++|.|.....
T Consensus 114 R~l~vKEd~d 123 (608)
T KOG4212|consen 114 RELVVKEDHD 123 (608)
T ss_pred ceEEEeccCc
Confidence 9999987654
No 56
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.43 E-value=2.7e-13 Score=110.88 Aligned_cols=82 Identities=28% Similarity=0.457 Sum_probs=75.3
Q ss_pred CCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEec
Q 028130 47 NPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKA 126 (213)
Q Consensus 47 ~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a 126 (213)
...++|+|+||.+.++.++|++.|++||.|.+|+|+.+ |+||.|+-.++|..||..||+++|+|+.|+|+++
T Consensus 76 k~stkl~vgNis~tctn~ElRa~fe~ygpviecdivkd--------y~fvh~d~~eda~~air~l~~~~~~gk~m~vq~s 147 (346)
T KOG0109|consen 76 KASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIVKD--------YAFVHFDRAEDAVEAIRGLDNTEFQGKRMHVQLS 147 (346)
T ss_pred CCccccccCCCCccccCHHHhhhhcccCCceeeeeecc--------eeEEEEeeccchHHHHhcccccccccceeeeeee
Confidence 57789999999999999999999999999999999874 9999999999999999999999999999999999
Q ss_pred ccCCCCCCCC
Q 028130 127 KRSRGRTPTP 136 (213)
Q Consensus 127 ~~~~~~~~~~ 136 (213)
...-...+..
T Consensus 148 tsrlrtapgm 157 (346)
T KOG0109|consen 148 TSRLRTAPGM 157 (346)
T ss_pred ccccccCCCC
Confidence 8776555543
No 57
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.40 E-value=2.6e-13 Score=114.05 Aligned_cols=76 Identities=29% Similarity=0.461 Sum_probs=74.0
Q ss_pred CeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEe
Q 028130 50 NNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEK 125 (213)
Q Consensus 50 ~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~ 125 (213)
|.|||+.|.+++.|+.|+..|..||+|+.|.|.||..|++.+|||||||+-.|.|+-|++.|||..++|+.|+|..
T Consensus 114 cRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgr 189 (544)
T KOG0124|consen 114 CRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGR 189 (544)
T ss_pred HheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccC
Confidence 6899999999999999999999999999999999999999999999999999999999999999999999999974
No 58
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.39 E-value=5.7e-13 Score=116.98 Aligned_cols=81 Identities=33% Similarity=0.467 Sum_probs=76.1
Q ss_pred CeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEecccC
Q 028130 50 NNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKAKRS 129 (213)
Q Consensus 50 ~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a~~~ 129 (213)
..|||+||+.++++++|..+|+.||.|+.|.++++..||.++||+||+|.+.++|.+|++.|||.+|.|..|+|......
T Consensus 279 ~rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~~r 358 (549)
T KOG0147|consen 279 RRLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVTER 358 (549)
T ss_pred hhhhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEeeee
Confidence 34999999999999999999999999999999999889999999999999999999999999999999999999876654
Q ss_pred C
Q 028130 130 R 130 (213)
Q Consensus 130 ~ 130 (213)
.
T Consensus 359 ~ 359 (549)
T KOG0147|consen 359 V 359 (549)
T ss_pred c
Confidence 3
No 59
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.35 E-value=1.9e-12 Score=99.42 Aligned_cols=88 Identities=28% Similarity=0.402 Sum_probs=79.5
Q ss_pred CCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEE-EEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEE
Q 028130 45 AANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTE-CHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITV 123 (213)
Q Consensus 45 ~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~-~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V 123 (213)
....+..|||+||.+.+++..|.++|++||.|.. -.|+.+..|+.+++||||.|.+.+.+.+||+.|||+.+...+|.|
T Consensus 92 nl~vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~itv 171 (203)
T KOG0131|consen 92 NLDVGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQYLCNRPITV 171 (203)
T ss_pred cccccccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhccchhcCCceEE
Confidence 3455689999999999999999999999999866 378888889999999999999999999999999999999999999
Q ss_pred EecccCCCC
Q 028130 124 EKAKRSRGR 132 (213)
Q Consensus 124 ~~a~~~~~~ 132 (213)
.++..+...
T Consensus 172 ~ya~k~~~k 180 (203)
T KOG0131|consen 172 SYAFKKDTK 180 (203)
T ss_pred EEEEecCCC
Confidence 999877543
No 60
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=99.32 E-value=5e-12 Score=100.31 Aligned_cols=83 Identities=24% Similarity=0.455 Sum_probs=75.1
Q ss_pred CCCCCCeEEEeCCCCCCcHHHHHH----HHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCee
Q 028130 45 AANPGNNLYVTGLSTRVTNADLEK----FFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRL 120 (213)
Q Consensus 45 ~~~~~~~v~V~nLp~~~t~~~L~~----~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~ 120 (213)
..+++.||||.||+..+..++|+. +|++||+|..|.+.. +.+.+|-|||.|.+.+.|-.|+.+|+|..|.|+.
T Consensus 5 ~~~pn~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~k---t~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~ 81 (221)
T KOG4206|consen 5 SVNPNGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFK---TPKMRGQAFVVFKETEAASAALRALQGFPFYGKP 81 (221)
T ss_pred ccCCCceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecC---CCCccCceEEEecChhHHHHHHHHhcCCcccCch
Confidence 455666999999999999999877 999999999888765 6778899999999999999999999999999999
Q ss_pred eEEEecccCC
Q 028130 121 ITVEKAKRSR 130 (213)
Q Consensus 121 i~V~~a~~~~ 130 (213)
+.|++|+.+.
T Consensus 82 mriqyA~s~s 91 (221)
T KOG4206|consen 82 MRIQYAKSDS 91 (221)
T ss_pred hheecccCcc
Confidence 9999998764
No 61
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=99.32 E-value=1.2e-11 Score=112.40 Aligned_cols=76 Identities=24% Similarity=0.413 Sum_probs=71.0
Q ss_pred CCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEeccc
Q 028130 49 GNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKAKR 128 (213)
Q Consensus 49 ~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a~~ 128 (213)
.+||||++|+..+++.||..+|+.||+|..|.++... +||||.+....+|++||.+|.+..|.++.|+|.|+..
T Consensus 421 SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~~R------~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~g 494 (894)
T KOG0132|consen 421 SRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPPR------GCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAVG 494 (894)
T ss_pred eeeeeeccccchhhHHHHHHHHHhcccceeEeeccCC------ceeEEEEeehhHHHHHHHHHhcccccceeeEEeeecc
Confidence 4799999999999999999999999999999988754 8999999999999999999999999999999999976
Q ss_pred CC
Q 028130 129 SR 130 (213)
Q Consensus 129 ~~ 130 (213)
+.
T Consensus 495 ~G 496 (894)
T KOG0132|consen 495 KG 496 (894)
T ss_pred CC
Confidence 54
No 62
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.31 E-value=6.2e-12 Score=113.65 Aligned_cols=73 Identities=21% Similarity=0.421 Sum_probs=60.0
Q ss_pred CCCeEEEeCCCCCCcHHHHHHHHccC------------CCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCce
Q 028130 48 PGNNLYVTGLSTRVTNADLEKFFGGE------------GKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSV 115 (213)
Q Consensus 48 ~~~~v~V~nLp~~~t~~~L~~~F~~~------------G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~ 115 (213)
...+|||+|||..+|+++|+++|.+| +.|..+.+. +.+|||||+|.+.++|+.||. |+|..
T Consensus 174 ~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~~------~~kg~afVeF~~~e~A~~Al~-l~g~~ 246 (509)
T TIGR01642 174 QARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNIN------KEKNFAFLEFRTVEEATFAMA-LDSII 246 (509)
T ss_pred cccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEEC------CCCCEEEEEeCCHHHHhhhhc-CCCeE
Confidence 45689999999999999999999975 233444443 245899999999999999995 99999
Q ss_pred eCCeeeEEEecc
Q 028130 116 LEGRLITVEKAK 127 (213)
Q Consensus 116 i~g~~i~V~~a~ 127 (213)
|.|..|.|....
T Consensus 247 ~~g~~l~v~r~~ 258 (509)
T TIGR01642 247 YSNVFLKIRRPH 258 (509)
T ss_pred eeCceeEecCcc
Confidence 999999987543
No 63
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=99.26 E-value=2.4e-11 Score=95.13 Aligned_cols=88 Identities=23% Similarity=0.311 Sum_probs=78.7
Q ss_pred CCCCCCCCCeEEEeCCCCCCcHHHHHHHHccC-CCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCee
Q 028130 42 SPDAANPGNNLYVTGLSTRVTNADLEKFFGGE-GKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRL 120 (213)
Q Consensus 42 ~~~~~~~~~~v~V~nLp~~~t~~~L~~~F~~~-G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~ 120 (213)
.....+....+||..+|..+.+.+|..+|.+| |.|..+.+..++.||.++|||||+|++.+.|+-|.+.||+..|.++.
T Consensus 42 ~~p~~~~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~l 121 (214)
T KOG4208|consen 42 EKPEQEIEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHL 121 (214)
T ss_pred cCCccCCccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhhe
Confidence 34455666789999999999999999999998 77788888899999999999999999999999999999999999999
Q ss_pred eEEEecccC
Q 028130 121 ITVEKAKRS 129 (213)
Q Consensus 121 i~V~~a~~~ 129 (213)
|.|.+..+.
T Consensus 122 L~c~vmppe 130 (214)
T KOG4208|consen 122 LECHVMPPE 130 (214)
T ss_pred eeeEEeCch
Confidence 999887655
No 64
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=99.25 E-value=9.2e-11 Score=102.56 Aligned_cols=89 Identities=21% Similarity=0.339 Sum_probs=73.4
Q ss_pred CCCCCCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCee
Q 028130 41 RSPDAANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRL 120 (213)
Q Consensus 41 ~~~~~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~ 120 (213)
.+-++.....+|||.|||.+++..+|+++|.+||.|+...|..-...++..+||||+|++.++++.||++ +-..|++++
T Consensus 280 ~~~~~~~~~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~A-sp~~ig~~k 358 (419)
T KOG0116|consen 280 NNQEPRADGLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEA-SPLEIGGRK 358 (419)
T ss_pred CCcceeecccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhc-CccccCCee
Confidence 3444555566799999999999999999999999999887766443444448999999999999999995 477799999
Q ss_pred eEEEecccCC
Q 028130 121 ITVEKAKRSR 130 (213)
Q Consensus 121 i~V~~a~~~~ 130 (213)
|.|+..+...
T Consensus 359 l~Veek~~~~ 368 (419)
T KOG0116|consen 359 LNVEEKRPGF 368 (419)
T ss_pred EEEEeccccc
Confidence 9999877654
No 65
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.23 E-value=3e-11 Score=104.88 Aligned_cols=78 Identities=31% Similarity=0.526 Sum_probs=72.1
Q ss_pred EEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEecccCCC
Q 028130 52 LYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKAKRSRG 131 (213)
Q Consensus 52 v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a~~~~~ 131 (213)
|||.||++.++..+|.++|+.||+|+.|++..+.. | .+|| ||+|++++.|++||+.|||..+.|+.|.|.....+..
T Consensus 79 ~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~-g-~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~~~e 155 (369)
T KOG0123|consen 79 VFIKNLDESIDNKSLYDTFSEFGNILSCKVATDEN-G-SKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFERKEE 155 (369)
T ss_pred eeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCC-C-ceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccchhh
Confidence 99999999999999999999999999999999864 4 8899 9999999999999999999999999999988776654
Q ss_pred C
Q 028130 132 R 132 (213)
Q Consensus 132 ~ 132 (213)
+
T Consensus 156 r 156 (369)
T KOG0123|consen 156 R 156 (369)
T ss_pred h
Confidence 3
No 66
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.21 E-value=7.3e-11 Score=98.80 Aligned_cols=82 Identities=24% Similarity=0.420 Sum_probs=72.0
Q ss_pred CCCCCCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHh-CCceeCCe
Q 028130 41 RSPDAANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYL-NRSVLEGR 119 (213)
Q Consensus 41 ~~~~~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l-~g~~i~g~ 119 (213)
..|.++..-++|||++|...+++.+|.++|.+||+|..|.++... ++|||+|.+.+.|+.|.+.+ +...|+|.
T Consensus 220 lepPeD~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~~------~CAFv~ftTR~aAE~Aae~~~n~lvI~G~ 293 (377)
T KOG0153|consen 220 LEPPEDTSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPRK------GCAFVTFTTREAAEKAAEKSFNKLVINGF 293 (377)
T ss_pred cCCCcccceeEEEecccccchhHHHHHHHHhhcCCeeeEEeeccc------ccceeeehhhHHHHHHHHhhcceeeecce
Confidence 556666777899999999999999999999999999999888654 69999999999999888655 55568999
Q ss_pred eeEEEeccc
Q 028130 120 LITVEKAKR 128 (213)
Q Consensus 120 ~i~V~~a~~ 128 (213)
.|+|.|..+
T Consensus 294 Rl~i~Wg~~ 302 (377)
T KOG0153|consen 294 RLKIKWGRP 302 (377)
T ss_pred EEEEEeCCC
Confidence 999999887
No 67
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=99.19 E-value=6.1e-11 Score=104.82 Aligned_cols=83 Identities=42% Similarity=0.680 Sum_probs=77.0
Q ss_pred CCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEecc
Q 028130 48 PGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKAK 127 (213)
Q Consensus 48 ~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a~ 127 (213)
-+..|||.+|...|...+|+.+|++||+|+..+|+.+..+.-.++|+||++.+.++|.+||..||-++|.|+.|.|+.++
T Consensus 404 ~gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEkaK 483 (940)
T KOG4661|consen 404 LGRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKAK 483 (940)
T ss_pred cccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeecc
Confidence 35689999999999999999999999999999999887777788999999999999999999999999999999999987
Q ss_pred cCC
Q 028130 128 RSR 130 (213)
Q Consensus 128 ~~~ 130 (213)
..+
T Consensus 484 NEp 486 (940)
T KOG4661|consen 484 NEP 486 (940)
T ss_pred cCc
Confidence 654
No 68
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=99.17 E-value=2.9e-11 Score=96.59 Aligned_cols=74 Identities=32% Similarity=0.583 Sum_probs=68.0
Q ss_pred CeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEecccC
Q 028130 50 NNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKAKRS 129 (213)
Q Consensus 50 ~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a~~~ 129 (213)
..|||++||+.+.+.+|+.||.+||+|..|.|.. ||+||+|++..+|..||..||+.+|.|..+.|+++...
T Consensus 2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk~--------gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~~ 73 (216)
T KOG0106|consen 2 PRVYIGRLPYRARERDVERFFKGYGKIPDADMKN--------GFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARGK 73 (216)
T ss_pred CceeecccCCccchhHHHHHHhhccccccceeec--------ccceeccCchhhhhcccchhcCceecceeeeeeccccc
Confidence 4799999999999999999999999999988864 69999999999999999999999999999999998865
Q ss_pred CC
Q 028130 130 RG 131 (213)
Q Consensus 130 ~~ 131 (213)
..
T Consensus 74 ~~ 75 (216)
T KOG0106|consen 74 RR 75 (216)
T ss_pred cc
Confidence 43
No 69
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.17 E-value=6.1e-11 Score=101.93 Aligned_cols=80 Identities=26% Similarity=0.277 Sum_probs=71.1
Q ss_pred CCCCCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeee
Q 028130 42 SPDAANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLI 121 (213)
Q Consensus 42 ~~~~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i 121 (213)
-+......|+|||.|||.++||+.|++-|..||.|++.+|+. .++.+| .|.|.++++|+.|+..|+|..|+|+.|
T Consensus 529 a~gaarKa~qIiirNlP~dfTWqmlrDKfre~G~v~yadime---~GkskG--VVrF~s~edAEra~a~Mngs~l~Gr~I 603 (608)
T KOG4212|consen 529 AVGAARKACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIME---NGKSKG--VVRFFSPEDAERACALMNGSRLDGRNI 603 (608)
T ss_pred cccccccccEEEEecCCccccHHHHHHHHHhccceehhhhhc---cCCccc--eEEecCHHHHHHHHHHhccCcccCcee
Confidence 344556788999999999999999999999999999999854 566655 899999999999999999999999999
Q ss_pred EEEec
Q 028130 122 TVEKA 126 (213)
Q Consensus 122 ~V~~a 126 (213)
+|.++
T Consensus 604 ~V~y~ 608 (608)
T KOG4212|consen 604 KVTYF 608 (608)
T ss_pred eeeeC
Confidence 99874
No 70
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.16 E-value=7.6e-11 Score=99.41 Aligned_cols=82 Identities=22% Similarity=0.466 Sum_probs=76.3
Q ss_pred CCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEecc
Q 028130 48 PGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKAK 127 (213)
Q Consensus 48 ~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a~ 127 (213)
.-+.|||..++++++++||+.+|+.||+|..|.+.....++..+||+||||.+......||..||-..|+|+-|.|-.+.
T Consensus 209 ~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFDLGGQyLRVGk~v 288 (544)
T KOG0124|consen 209 KFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCV 288 (544)
T ss_pred hhheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcchhhcccceEeccccc
Confidence 34689999999999999999999999999999999999889999999999999999999999999999999999997665
Q ss_pred cC
Q 028130 128 RS 129 (213)
Q Consensus 128 ~~ 129 (213)
..
T Consensus 289 TP 290 (544)
T KOG0124|consen 289 TP 290 (544)
T ss_pred CC
Confidence 44
No 71
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.16 E-value=8.7e-11 Score=106.02 Aligned_cols=79 Identities=28% Similarity=0.455 Sum_probs=70.6
Q ss_pred CCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCC---CcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEe
Q 028130 49 GNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTR---ESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEK 125 (213)
Q Consensus 49 ~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~---~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~ 125 (213)
.++|||.||++.++.++|...|.++|.|+.|.|...+... .+.|||||+|.+.++|+.|++.|+|+.|+|+.|.|.+
T Consensus 515 ~t~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~ 594 (725)
T KOG0110|consen 515 ETKLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKI 594 (725)
T ss_pred chhhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEe
Confidence 4459999999999999999999999999999887655321 2459999999999999999999999999999999999
Q ss_pred cc
Q 028130 126 AK 127 (213)
Q Consensus 126 a~ 127 (213)
+.
T Consensus 595 S~ 596 (725)
T KOG0110|consen 595 SE 596 (725)
T ss_pred cc
Confidence 88
No 72
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=99.15 E-value=1.7e-10 Score=94.03 Aligned_cols=84 Identities=25% Similarity=0.368 Sum_probs=75.2
Q ss_pred CCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEE
Q 028130 45 AANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVE 124 (213)
Q Consensus 45 ~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~ 124 (213)
.+...++|+|.|||..|+++||+++|..||.++.+.|..++ .|.+.|.|-|.|...++|++||+.|||..|+|..|++.
T Consensus 79 ~~~~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~-~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~ 157 (243)
T KOG0533|consen 79 NETRSTKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDR-AGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIE 157 (243)
T ss_pred cCCCcceeeeecCCcCcchHHHHHHHHHhccceEEeeccCC-CCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeE
Confidence 34445889999999999999999999999988888887765 88899999999999999999999999999999999998
Q ss_pred ecccC
Q 028130 125 KAKRS 129 (213)
Q Consensus 125 ~a~~~ 129 (213)
.....
T Consensus 158 ~i~~~ 162 (243)
T KOG0533|consen 158 IISSP 162 (243)
T ss_pred EecCc
Confidence 76544
No 73
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=99.13 E-value=1.5e-10 Score=97.73 Aligned_cols=86 Identities=23% Similarity=0.407 Sum_probs=79.1
Q ss_pred CCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEec
Q 028130 47 NPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKA 126 (213)
Q Consensus 47 ~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a 126 (213)
....+|||++||..+++++|+++|.+||.|..+.++.+..+...+||+||.|.+++.+++++. +.-+.|+++.|.|..|
T Consensus 95 ~~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~-~~f~~~~gk~vevkrA 173 (311)
T KOG4205|consen 95 LRTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTL-QKFHDFNGKKVEVKRA 173 (311)
T ss_pred cceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceecc-cceeeecCceeeEeec
Confidence 356799999999999999999999999999999999999999999999999999999999988 7888999999999999
Q ss_pred ccCCCCC
Q 028130 127 KRSRGRT 133 (213)
Q Consensus 127 ~~~~~~~ 133 (213)
.++....
T Consensus 174 ~pk~~~~ 180 (311)
T KOG4205|consen 174 IPKEVMQ 180 (311)
T ss_pred cchhhcc
Confidence 8776433
No 74
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.10 E-value=8.4e-11 Score=106.12 Aligned_cols=84 Identities=24% Similarity=0.357 Sum_probs=77.4
Q ss_pred CCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEec
Q 028130 47 NPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKA 126 (213)
Q Consensus 47 ~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a 126 (213)
...+.|+|.|||..++..+|+++|..||.|..|.|+.....+..+|||||+|-+..+|..|+.+|..+.|.|+.|.++||
T Consensus 611 k~~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrLVLEwA 690 (725)
T KOG0110|consen 611 KKGTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRLVLEWA 690 (725)
T ss_pred cccceeeeeccchHHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhcccceechhhheehh
Confidence 33789999999999999999999999999999999987566777899999999999999999999999999999999999
Q ss_pred ccCC
Q 028130 127 KRSR 130 (213)
Q Consensus 127 ~~~~ 130 (213)
+...
T Consensus 691 ~~d~ 694 (725)
T KOG0110|consen 691 KSDN 694 (725)
T ss_pred ccch
Confidence 8654
No 75
>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=99.09 E-value=7.4e-10 Score=78.14 Aligned_cols=80 Identities=19% Similarity=0.267 Sum_probs=71.1
Q ss_pred CeEEEeCCCCCCcHHHHHHHHcc--CCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeC----CeeeEE
Q 028130 50 NNLYVTGLSTRVTNADLEKFFGG--EGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLE----GRLITV 123 (213)
Q Consensus 50 ~~v~V~nLp~~~t~~~L~~~F~~--~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~----g~~i~V 123 (213)
+||.|.|||...+.++|.+++.. .|....+.++.|..++.+.|||||.|.+.+.|....+.++|..|. .+.+.|
T Consensus 2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kvc~i 81 (97)
T PF04059_consen 2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKVCEI 81 (97)
T ss_pred eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcEEEE
Confidence 79999999999999999988875 377888999999999999999999999999999999999999885 467788
Q ss_pred EecccC
Q 028130 124 EKAKRS 129 (213)
Q Consensus 124 ~~a~~~ 129 (213)
.+|.-+
T Consensus 82 ~yAriQ 87 (97)
T PF04059_consen 82 SYARIQ 87 (97)
T ss_pred ehhHhh
Confidence 887644
No 76
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=99.06 E-value=2e-10 Score=97.07 Aligned_cols=82 Identities=34% Similarity=0.603 Sum_probs=74.3
Q ss_pred CCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEecc
Q 028130 48 PGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKAK 127 (213)
Q Consensus 48 ~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a~ 127 (213)
..++|||++|.++++++.|++.|.+||+|..|.++.++.++..+||+||+|++.+.+.++|. ...+.|+|..|.+..|.
T Consensus 5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~-~~~h~~dgr~ve~k~av 83 (311)
T KOG4205|consen 5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLN-ARTHKLDGRSVEPKRAV 83 (311)
T ss_pred CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeec-ccccccCCccccceecc
Confidence 77899999999999999999999999999999999999999999999999999999998887 44567899988888776
Q ss_pred cCC
Q 028130 128 RSR 130 (213)
Q Consensus 128 ~~~ 130 (213)
+..
T Consensus 84 ~r~ 86 (311)
T KOG4205|consen 84 SRE 86 (311)
T ss_pred Ccc
Confidence 554
No 77
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.03 E-value=7.2e-10 Score=96.32 Aligned_cols=75 Identities=32% Similarity=0.470 Sum_probs=70.4
Q ss_pred CeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEecccC
Q 028130 50 NNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKAKRS 129 (213)
Q Consensus 50 ~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a~~~ 129 (213)
..|||+ +++|+..|.++|+.+|.|..+.++.+. | +.|||||.|.+.++|++||+.||...|.|++|.|.|+...
T Consensus 2 ~sl~vg---~~v~e~~l~~~f~~~~~v~s~rvc~d~-t--slgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~rd 75 (369)
T KOG0123|consen 2 ASLYVG---PDVTEAMLFDKFSPAGPVLSIRVCRDA-T--SLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQRD 75 (369)
T ss_pred CceecC---CcCChHHHHHHhcccCCceeEEEeecC-C--ccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhccC
Confidence 468998 899999999999999999999999998 6 9999999999999999999999999999999999998765
Q ss_pred C
Q 028130 130 R 130 (213)
Q Consensus 130 ~ 130 (213)
+
T Consensus 76 ~ 76 (369)
T KOG0123|consen 76 P 76 (369)
T ss_pred C
Confidence 4
No 78
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.03 E-value=3.1e-10 Score=92.23 Aligned_cols=83 Identities=25% Similarity=0.422 Sum_probs=73.5
Q ss_pred CCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCcee-CC--eeeEEE
Q 028130 48 PGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVL-EG--RLITVE 124 (213)
Q Consensus 48 ~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i-~g--~~i~V~ 124 (213)
...+|||+.|...-.|+|+..+|..||.|++|.+.... .|.++|||||.|.+..+|+.||..|||... -| ..|.|.
T Consensus 18 ~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~-dg~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK 96 (371)
T KOG0146|consen 18 DDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGP-DGNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVK 96 (371)
T ss_pred cchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCC-CCCCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEE
Confidence 56799999999999999999999999999999998765 688999999999999999999999999863 34 578899
Q ss_pred ecccCCC
Q 028130 125 KAKRSRG 131 (213)
Q Consensus 125 ~a~~~~~ 131 (213)
++...+.
T Consensus 97 ~ADTdkE 103 (371)
T KOG0146|consen 97 FADTDKE 103 (371)
T ss_pred eccchHH
Confidence 9876653
No 79
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=99.02 E-value=1.1e-09 Score=91.73 Aligned_cols=84 Identities=24% Similarity=0.337 Sum_probs=74.7
Q ss_pred CCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEE--------EEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeC
Q 028130 46 ANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTE--------CHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLE 117 (213)
Q Consensus 46 ~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~--------~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~ 117 (213)
+..++.|||.|||.++|.+++.++|.+||.|.. |.|..+. .|+.+|=|+|.|...++++-||+.|++..|.
T Consensus 131 ~~~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~-~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~r 209 (382)
T KOG1548|consen 131 PKVNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDN-QGKLKGDALCCYIKRESVELAIKILDEDELR 209 (382)
T ss_pred cccCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecC-CCCccCceEEEeecccHHHHHHHHhCccccc
Confidence 455778999999999999999999999998753 6666665 5999999999999999999999999999999
Q ss_pred CeeeEEEecccCC
Q 028130 118 GRLITVEKAKRSR 130 (213)
Q Consensus 118 g~~i~V~~a~~~~ 130 (213)
|+.|+|+.|+-..
T Consensus 210 g~~~rVerAkfq~ 222 (382)
T KOG1548|consen 210 GKKLRVERAKFQM 222 (382)
T ss_pred CcEEEEehhhhhh
Confidence 9999999987654
No 80
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=98.99 E-value=7.5e-10 Score=90.21 Aligned_cols=84 Identities=21% Similarity=0.299 Sum_probs=78.2
Q ss_pred CCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEE
Q 028130 45 AANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVE 124 (213)
Q Consensus 45 ~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~ 124 (213)
...+...|||+|+...+|.++|+..|+.||.|..+.|+.++.+++++|||||+|.+.+.++.||. ||+..|.+..|.|.
T Consensus 97 ~~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~vt 175 (231)
T KOG4209|consen 97 KEVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIEVT 175 (231)
T ss_pred hccCCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccccccceee
Confidence 44567799999999999999999999999999999999999999999999999999999999999 99999999999999
Q ss_pred ecccC
Q 028130 125 KAKRS 129 (213)
Q Consensus 125 ~a~~~ 129 (213)
+.+-.
T Consensus 176 ~~r~~ 180 (231)
T KOG4209|consen 176 LKRTN 180 (231)
T ss_pred eeeee
Confidence 87765
No 81
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=98.99 E-value=2e-10 Score=90.84 Aligned_cols=82 Identities=20% Similarity=0.165 Sum_probs=72.3
Q ss_pred CCCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEE
Q 028130 44 DAANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITV 123 (213)
Q Consensus 44 ~~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V 123 (213)
.+.+...+|||+||-..++++.|.++|-+.|+|..|.|...+ .++.+ ||||+|+++..+.-|++.|||..+.+..|.|
T Consensus 4 aaae~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~-d~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~ 81 (267)
T KOG4454|consen 4 AAAEMDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQ-DQEQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQR 81 (267)
T ss_pred CCcchhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCc-cCCCc-eeeeecccccchhhhhhhcccchhccchhhc
Confidence 345667799999999999999999999999999999998876 44455 9999999999999999999999999988888
Q ss_pred Eecc
Q 028130 124 EKAK 127 (213)
Q Consensus 124 ~~a~ 127 (213)
++-.
T Consensus 82 ~~r~ 85 (267)
T KOG4454|consen 82 TLRC 85 (267)
T ss_pred cccc
Confidence 7643
No 82
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=98.94 E-value=2.8e-08 Score=77.00 Aligned_cols=109 Identities=19% Similarity=0.254 Sum_probs=78.9
Q ss_pred CCcccCCCCCCCCCCCCCCC-CCCCCCCCCCCC-CCCCCCCCCCCCCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEE
Q 028130 2 SSYSREGRAASPHNSVSPRR-GQRSRSLSRSRR-SRSRSRSRSPDAANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTEC 79 (213)
Q Consensus 2 ~~~~~~~r~~~~~~~~~~~~-~~~~~~~s~~~~-~~~r~~~~~~~~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~ 79 (213)
++|.+++-.+.+..+..-.. .....+.+...+ --.......+........|.|.+||...+|++|++++.+.|.|+..
T Consensus 66 dGYdydg~rLRVEfprggr~s~~~~G~y~gggrgGgg~gg~rgppsrrSe~RVvVsGLp~SgSWQDLKDHmReaGdvCfa 145 (241)
T KOG0105|consen 66 DGYDYDGCRLRVEFPRGGRSSSDRRGSYSGGGRGGGGGGGRRGPPSRRSEYRVVVSGLPPSGSWQDLKDHMREAGDVCFA 145 (241)
T ss_pred cccccCcceEEEEeccCCCcccccccccCCCCCCCCCCCcccCCcccccceeEEEecCCCCCchHHHHHHHHhhCCeeee
Confidence 68899999998854432221 111111121111 1112233445556667899999999999999999999999999999
Q ss_pred EEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeC
Q 028130 80 HLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLE 117 (213)
Q Consensus 80 ~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~ 117 (213)
.+..+ |++.|+|...++++-||..|+.+.+.
T Consensus 146 dv~rD-------g~GvV~~~r~eDMkYAvr~ld~~~~~ 176 (241)
T KOG0105|consen 146 DVQRD-------GVGVVEYLRKEDMKYAVRKLDDQKFR 176 (241)
T ss_pred eeecc-------cceeeeeeehhhHHHHHHhhcccccc
Confidence 98876 69999999999999999999888764
No 83
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.93 E-value=8.4e-09 Score=81.99 Aligned_cols=86 Identities=21% Similarity=0.246 Sum_probs=70.5
Q ss_pred CCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCC-CCcccEEEEEeecHHHHHHHHHHhCCceeC---CeeeE
Q 028130 47 NPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRT-RESCGFAFVTMETVEGADRCIKYLNRSVLE---GRLIT 122 (213)
Q Consensus 47 ~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t-~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~---g~~i~ 122 (213)
..-.||||.+||.++...+|..+|..|-..+.+.|...... ...+-+|||+|.+.++|++|+++|||..|+ +..|+
T Consensus 32 ~~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stLh 111 (284)
T KOG1457|consen 32 GAVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTLH 111 (284)
T ss_pred cccceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCceeE
Confidence 34579999999999999999999999977777666543222 223469999999999999999999999985 78999
Q ss_pred EEecccCCCC
Q 028130 123 VEKAKRSRGR 132 (213)
Q Consensus 123 V~~a~~~~~~ 132 (213)
|++|+.....
T Consensus 112 iElAKSNtK~ 121 (284)
T KOG1457|consen 112 IELAKSNTKR 121 (284)
T ss_pred eeehhcCccc
Confidence 9999877643
No 84
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=98.85 E-value=3.7e-09 Score=89.17 Aligned_cols=86 Identities=24% Similarity=0.311 Sum_probs=77.9
Q ss_pred CCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeE--------EEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCcee
Q 028130 45 AANPGNNLYVTGLSTRVTNADLEKFFGGEGKVT--------ECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVL 116 (213)
Q Consensus 45 ~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~--------~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i 116 (213)
......+|||.+||..+++++|.++|.++|.|. .|+|-++++|+++++-|.|.|++...|++||..++++.|
T Consensus 62 ~~s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf 141 (351)
T KOG1995|consen 62 DKSDNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDF 141 (351)
T ss_pred cccccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhccccc
Confidence 355677999999999999999999999999874 367778889999999999999999999999999999999
Q ss_pred CCeeeEEEecccCC
Q 028130 117 EGRLITVEKAKRSR 130 (213)
Q Consensus 117 ~g~~i~V~~a~~~~ 130 (213)
.+.+|+|.+|..++
T Consensus 142 ~gn~ikvs~a~~r~ 155 (351)
T KOG1995|consen 142 CGNTIKVSLAERRT 155 (351)
T ss_pred cCCCchhhhhhhcc
Confidence 99999999987665
No 85
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=98.85 E-value=6e-09 Score=94.33 Aligned_cols=84 Identities=21% Similarity=0.267 Sum_probs=74.2
Q ss_pred CCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCC---CCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeE
Q 028130 46 ANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRT---RESCGFAFVTMETVEGADRCIKYLNRSVLEGRLIT 122 (213)
Q Consensus 46 ~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t---~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~ 122 (213)
.+..+.|||+||++.++++.|...|..||+|..|.|++.... .....|+||.|.+..+|++|++.|+|..|.+..|+
T Consensus 171 DP~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~K 250 (877)
T KOG0151|consen 171 DPQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEMK 250 (877)
T ss_pred CCcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeeee
Confidence 456778999999999999999999999999999999986522 23446999999999999999999999999999999
Q ss_pred EEecccC
Q 028130 123 VEKAKRS 129 (213)
Q Consensus 123 V~~a~~~ 129 (213)
+-|++..
T Consensus 251 ~gWgk~V 257 (877)
T KOG0151|consen 251 LGWGKAV 257 (877)
T ss_pred ecccccc
Confidence 9998644
No 86
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=98.83 E-value=3.5e-09 Score=93.62 Aligned_cols=72 Identities=31% Similarity=0.465 Sum_probs=64.0
Q ss_pred CCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeE
Q 028130 46 ANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLIT 122 (213)
Q Consensus 46 ~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~ 122 (213)
.-+..+|+|.|||..+++++|..+|+.||+|..|..-.. ..|.+||+|.|.-+|+.|+++|++.+|.|+.|+
T Consensus 72 ~~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~~-----~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k 143 (549)
T KOG4660|consen 72 DMNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETPN-----KRGIVFVEFYDVRDAERALKALNRREIAGKRIK 143 (549)
T ss_pred cCccceEEEEecCCcCCHHHHHHHHHhhcchhhhhcccc-----cCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence 445569999999999999999999999999998765443 348999999999999999999999999999887
No 87
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=98.73 E-value=1e-08 Score=91.09 Aligned_cols=90 Identities=27% Similarity=0.375 Sum_probs=81.8
Q ss_pred CCCCCCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCee
Q 028130 41 RSPDAANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRL 120 (213)
Q Consensus 41 ~~~~~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~ 120 (213)
..+........|||++||..+++.++.+++..||.+..+.++.+..++-++||||.+|.+......||..|||..+++.+
T Consensus 281 ~~t~~~~~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~ 360 (500)
T KOG0120|consen 281 ASTDVPDSPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKK 360 (500)
T ss_pred cccCcccccchhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCce
Confidence 34445566779999999999999999999999999999999999989999999999999999999999999999999999
Q ss_pred eEEEecccCC
Q 028130 121 ITVEKAKRSR 130 (213)
Q Consensus 121 i~V~~a~~~~ 130 (213)
|.|+.|....
T Consensus 361 lvvq~A~~g~ 370 (500)
T KOG0120|consen 361 LVVQRAIVGA 370 (500)
T ss_pred eEeehhhccc
Confidence 9999886554
No 88
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.69 E-value=3.5e-08 Score=78.99 Aligned_cols=73 Identities=34% Similarity=0.443 Sum_probs=64.5
Q ss_pred CCCCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeE
Q 028130 43 PDAANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLIT 122 (213)
Q Consensus 43 ~~~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~ 122 (213)
..+....+.|+|.||+..+.|++|.++|..+|++....+.. +++||+|++.++|..||..|++..|.++.|+
T Consensus 93 ~~p~~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~~~--------~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~ 164 (216)
T KOG0106|consen 93 RPPSRTHFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDARR--------NFAFVEFSEQEDAKRALEKLDGKKLNGRRIS 164 (216)
T ss_pred CCcccccceeeeccchhhhhHHHHhhhhcccCCCchhhhhc--------cccceeehhhhhhhhcchhccchhhcCceee
Confidence 34456678999999999999999999999999995554422 5999999999999999999999999999999
Q ss_pred E
Q 028130 123 V 123 (213)
Q Consensus 123 V 123 (213)
|
T Consensus 165 ~ 165 (216)
T KOG0106|consen 165 V 165 (216)
T ss_pred e
Confidence 9
No 89
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=98.65 E-value=3.1e-08 Score=80.13 Aligned_cols=82 Identities=20% Similarity=0.312 Sum_probs=74.3
Q ss_pred CCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEE
Q 028130 45 AANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVE 124 (213)
Q Consensus 45 ~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~ 124 (213)
-......||.+-|-.+++.+.|-..|.+|-......++.++.|++++||+||.|.+..++..|+..|+|+.++.++|++.
T Consensus 186 w~~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklR 265 (290)
T KOG0226|consen 186 WDEDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLR 265 (290)
T ss_pred CccccceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhh
Confidence 34456799999999999999999999999888888899999999999999999999999999999999999999998875
Q ss_pred ec
Q 028130 125 KA 126 (213)
Q Consensus 125 ~a 126 (213)
..
T Consensus 266 kS 267 (290)
T KOG0226|consen 266 KS 267 (290)
T ss_pred hh
Confidence 43
No 90
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.64 E-value=1.3e-07 Score=82.78 Aligned_cols=78 Identities=22% Similarity=0.371 Sum_probs=65.0
Q ss_pred CCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEe
Q 028130 46 ANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEK 125 (213)
Q Consensus 46 ~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~ 125 (213)
......|-+.+||+.+|++||.+||+.++ |+.+.+.. .+|++.|-|||||++++++++||+ +|-..+..+-|.|-.
T Consensus 7 ~~~~~~vr~rGLPwsat~~ei~~Ff~~~~-I~~~~~~r--~~Gr~sGeA~Ve~~seedv~~Alk-kdR~~mg~RYIEVf~ 82 (510)
T KOG4211|consen 7 GSTAFEVRLRGLPWSATEKEILDFFSNCG-IENLEIPR--RNGRPSGEAYVEFTSEEDVEKALK-KDRESMGHRYIEVFT 82 (510)
T ss_pred CCcceEEEecCCCccccHHHHHHHHhcCc-eeEEEEec--cCCCcCcceEEEeechHHHHHHHH-hhHHHhCCceEEEEc
Confidence 34566788899999999999999999986 66665554 479999999999999999999999 677777888888876
Q ss_pred cc
Q 028130 126 AK 127 (213)
Q Consensus 126 a~ 127 (213)
+.
T Consensus 83 ~~ 84 (510)
T KOG4211|consen 83 AG 84 (510)
T ss_pred cC
Confidence 53
No 91
>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.
Probab=98.57 E-value=1.5e-07 Score=67.60 Aligned_cols=71 Identities=23% Similarity=0.383 Sum_probs=45.6
Q ss_pred CCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCc-----eeCCeeeEE
Q 028130 49 GNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRS-----VLEGRLITV 123 (213)
Q Consensus 49 ~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~-----~i~g~~i~V 123 (213)
++.|+|.+++..++.++|+++|.+||.|..|.+.... ..|||-|.+.+.|+.|+..+... .|.+..+++
T Consensus 1 G~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~------~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~ 74 (105)
T PF08777_consen 1 GCILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGD------TEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTL 74 (105)
T ss_dssp --EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-------SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEE
T ss_pred CeEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCCC------CEEEEEECCcchHHHHHHHHHhccCCceEEcCceEEE
Confidence 4679999999999999999999999999999987643 38999999999999999877443 566766666
Q ss_pred Ee
Q 028130 124 EK 125 (213)
Q Consensus 124 ~~ 125 (213)
..
T Consensus 75 ~v 76 (105)
T PF08777_consen 75 EV 76 (105)
T ss_dssp E-
T ss_pred EE
Confidence 54
No 92
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=98.56 E-value=5.1e-07 Score=77.51 Aligned_cols=77 Identities=23% Similarity=0.305 Sum_probs=70.2
Q ss_pred CCeEEEeCCC-CCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEecc
Q 028130 49 GNNLYVTGLS-TRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKAK 127 (213)
Q Consensus 49 ~~~v~V~nLp-~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a~ 127 (213)
++.|.|.||. ..+|.+.|..+|..||+|..|+|+.++. .-|+|.|.+...|+-|+++|+|..|.|+.|+|.+++
T Consensus 297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nkk-----d~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SK 371 (492)
T KOG1190|consen 297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNKK-----DNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSK 371 (492)
T ss_pred ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecCC-----cceeeeecchhHHHHHHHHhhcceecCceEEEeecc
Confidence 6789999997 5789999999999999999999998754 479999999999999999999999999999999988
Q ss_pred cCC
Q 028130 128 RSR 130 (213)
Q Consensus 128 ~~~ 130 (213)
-..
T Consensus 372 H~~ 374 (492)
T KOG1190|consen 372 HTN 374 (492)
T ss_pred Ccc
Confidence 654
No 93
>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes. Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.
Probab=98.47 E-value=4.7e-07 Score=61.50 Aligned_cols=70 Identities=26% Similarity=0.311 Sum_probs=47.5
Q ss_pred CeEEEeCCCCCCcHHH----HHHHHccCC-CeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEE
Q 028130 50 NNLYVTGLSTRVTNAD----LEKFFGGEG-KVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVE 124 (213)
Q Consensus 50 ~~v~V~nLp~~~t~~~----L~~~F~~~G-~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~ 124 (213)
+.|||.|||...+... |+.++..+| .|..|. + +.|+|.|.+.+.|+.|.+.|+|..+.|..|.|.
T Consensus 3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v~-------~---~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~ 72 (90)
T PF11608_consen 3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSVS-------G---GTAILRFPNQEFAERAQKRMEGEDVFGNKISVS 72 (90)
T ss_dssp EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE---------T---T-EEEEESSHHHHHHHHHHHTT--SSSS--EEE
T ss_pred cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEEe-------C---CEEEEEeCCHHHHHHHHHhhcccccccceEEEE
Confidence 4699999999888765 556666774 555441 1 689999999999999999999999999999999
Q ss_pred ecccC
Q 028130 125 KAKRS 129 (213)
Q Consensus 125 ~a~~~ 129 (213)
+....
T Consensus 73 ~~~~~ 77 (90)
T PF11608_consen 73 FSPKN 77 (90)
T ss_dssp SS--S
T ss_pred EcCCc
Confidence 98544
No 94
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=98.45 E-value=9.6e-07 Score=70.44 Aligned_cols=77 Identities=22% Similarity=0.283 Sum_probs=68.1
Q ss_pred CCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeC-CeeeEEE
Q 028130 46 ANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLE-GRLITVE 124 (213)
Q Consensus 46 ~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~-g~~i~V~ 124 (213)
.+++..+|+.|||.+++.+.|..+|.+|.....+.++.... +.|||+|.+...|..|...|++..|- ..+|.|.
T Consensus 143 ~ppn~ilf~~niP~es~~e~l~~lf~qf~g~keir~i~~~~-----~iAfve~~~d~~a~~a~~~lq~~~it~~~~m~i~ 217 (221)
T KOG4206|consen 143 APPNNILFLTNIPSESESEMLSDLFEQFPGFKEIRLIPPRS-----GIAFVEFLSDRQASAAQQALQGFKITKKNTMQIT 217 (221)
T ss_pred CCCceEEEEecCCcchhHHHHHHHHhhCcccceeEeccCCC-----ceeEEecchhhhhHHHhhhhccceeccCceEEec
Confidence 67788999999999999999999999999888888876432 79999999999999999999999886 8888888
Q ss_pred ecc
Q 028130 125 KAK 127 (213)
Q Consensus 125 ~a~ 127 (213)
+++
T Consensus 218 ~a~ 220 (221)
T KOG4206|consen 218 FAK 220 (221)
T ss_pred ccC
Confidence 875
No 95
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.43 E-value=2.6e-07 Score=73.60 Aligned_cols=66 Identities=17% Similarity=0.277 Sum_probs=54.8
Q ss_pred CCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCcee
Q 028130 47 NPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVL 116 (213)
Q Consensus 47 ~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i 116 (213)
....+|||.||..+++|++|+.+|+.|-....+.|... .|. .+|||+|++.+.|..|+..|+|..|
T Consensus 208 ~acstlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~~--~g~--~vaf~~~~~~~~at~am~~lqg~~~ 273 (284)
T KOG1457|consen 208 RACSTLFIANLGPNCTEDELKQLLSRYPGFHILKIRAR--GGM--PVAFADFEEIEQATDAMNHLQGNLL 273 (284)
T ss_pred hhhhhHhhhccCCCCCHHHHHHHHHhCCCceEEEEecC--CCc--ceEeecHHHHHHHHHHHHHhhccee
Confidence 34568999999999999999999999977666665432 332 4899999999999999999999876
No 96
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=98.41 E-value=1.9e-06 Score=73.33 Aligned_cols=86 Identities=26% Similarity=0.335 Sum_probs=74.8
Q ss_pred CCCCCCCCCCCeEEEeCCCC-CCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCC
Q 028130 40 SRSPDAANPGNNLYVTGLST-RVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEG 118 (213)
Q Consensus 40 ~~~~~~~~~~~~v~V~nLp~-~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g 118 (213)
..++....+++.+.|-+|.. .++-+.|..+|..||.|+.|++++.+. |.|+||+.+..+.+.||.+||+..+-|
T Consensus 278 ~a~p~g~~~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk~-----gtamVemgd~~aver~v~hLnn~~lfG 352 (494)
T KOG1456|consen 278 YASPGGGAPGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTKP-----GTAMVEMGDAYAVERAVTHLNNIPLFG 352 (494)
T ss_pred CCCCCCCCCCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeeccc-----ceeEEEcCcHHHHHHHHHHhccCcccc
Confidence 34446667889999999985 566677999999999999999998764 799999999999999999999999999
Q ss_pred eeeEEEecccCC
Q 028130 119 RLITVEKAKRSR 130 (213)
Q Consensus 119 ~~i~V~~a~~~~ 130 (213)
.+|.|.+++...
T Consensus 353 ~kl~v~~SkQ~~ 364 (494)
T KOG1456|consen 353 GKLNVCVSKQNF 364 (494)
T ss_pred ceEEEeeccccc
Confidence 999999987654
No 97
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.35 E-value=1.6e-06 Score=76.02 Aligned_cols=78 Identities=27% Similarity=0.365 Sum_probs=63.8
Q ss_pred CCCCeEEEeCCCCCCcHHHHHHHHccCCCeEE-EEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEe
Q 028130 47 NPGNNLYVTGLSTRVTNADLEKFFGGEGKVTE-CHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEK 125 (213)
Q Consensus 47 ~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~-~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~ 125 (213)
....+|-+.+||+.||++||.+||+..-.|.. |.++.++ .+.+.|-|||.|++.+.|++||. -|...|+.+-|.|-.
T Consensus 101 ~~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~-rgR~tGEAfVqF~sqe~ae~Al~-rhre~iGhRYIEvF~ 178 (510)
T KOG4211|consen 101 ANDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQ-RGRPTGEAFVQFESQESAEIALG-RHRENIGHRYIEVFR 178 (510)
T ss_pred CCCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccC-CCCcccceEEEecCHHHHHHHHH-HHHHhhccceEEeeh
Confidence 56678999999999999999999998765554 4455554 56688999999999999999998 566678888888765
Q ss_pred c
Q 028130 126 A 126 (213)
Q Consensus 126 a 126 (213)
+
T Consensus 179 S 179 (510)
T KOG4211|consen 179 S 179 (510)
T ss_pred h
Confidence 4
No 98
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=98.34 E-value=1.6e-07 Score=83.16 Aligned_cols=80 Identities=26% Similarity=0.398 Sum_probs=73.8
Q ss_pred CCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEeccc
Q 028130 49 GNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKAKR 128 (213)
Q Consensus 49 ~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a~~ 128 (213)
..+||+..|...++..+|.+||+.+|.|..|.|+.+..++.++|.|||+|.+.+.+..||. |.|+.+.|.+|.|+....
T Consensus 179 ~Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~aia-LsGqrllg~pv~vq~sEa 257 (549)
T KOG0147|consen 179 QRTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAIA-LSGQRLLGVPVIVQLSEA 257 (549)
T ss_pred HHHHHHHHHhhcCCchhHHHHHHhhcCcceeEeeccccchhhcceeEEEEecccchhhHhh-hcCCcccCceeEecccHH
Confidence 4578888899899999999999999999999999999999999999999999999999996 999999999999987654
Q ss_pred C
Q 028130 129 S 129 (213)
Q Consensus 129 ~ 129 (213)
.
T Consensus 258 e 258 (549)
T KOG0147|consen 258 E 258 (549)
T ss_pred H
Confidence 4
No 99
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=98.34 E-value=6.3e-07 Score=75.43 Aligned_cols=85 Identities=24% Similarity=0.431 Sum_probs=75.9
Q ss_pred CCCCeEE-EeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEe
Q 028130 47 NPGNNLY-VTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEK 125 (213)
Q Consensus 47 ~~~~~v~-V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~ 125 (213)
.+..++| |+||+..+++++|+.+|..+|.|..+.++....++..+|||||+|.+...+..|+.. +...+.+..|.|..
T Consensus 182 ~~s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~ 260 (285)
T KOG4210|consen 182 GPSDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALND-QTRSIGGRPLRLEE 260 (285)
T ss_pred CccccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhc-ccCcccCccccccc
Confidence 4445666 999999999999999999999999999999999999999999999999999999987 78889999999998
Q ss_pred cccCCCC
Q 028130 126 AKRSRGR 132 (213)
Q Consensus 126 a~~~~~~ 132 (213)
.......
T Consensus 261 ~~~~~~~ 267 (285)
T KOG4210|consen 261 DEPRPKS 267 (285)
T ss_pred CCCCccc
Confidence 8766533
No 100
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=98.26 E-value=3.6e-06 Score=75.03 Aligned_cols=80 Identities=23% Similarity=0.285 Sum_probs=64.7
Q ss_pred CCCCeEEEeCCCCCCc------HHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeC-Ce
Q 028130 47 NPGNNLYVTGLSTRVT------NADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLE-GR 119 (213)
Q Consensus 47 ~~~~~v~V~nLp~~~t------~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~-g~ 119 (213)
.-.+.|+|.|+|.--. ..-|.++|+++|+|..+.++.+..+| .+||+|++|++..+|+.|++.|||+.|+ .+
T Consensus 56 g~D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~gg-tkG~lf~E~~~~~~A~~aVK~l~G~~ldknH 134 (698)
T KOG2314|consen 56 GFDSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGG-TKGYLFVEYASMRDAKKAVKSLNGKRLDKNH 134 (698)
T ss_pred CcceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCC-eeeEEEEEecChhhHHHHHHhcccceecccc
Confidence 4567899999985322 23366789999999999999887555 8899999999999999999999999985 56
Q ss_pred eeEEEecc
Q 028130 120 LITVEKAK 127 (213)
Q Consensus 120 ~i~V~~a~ 127 (213)
++.|...+
T Consensus 135 tf~v~~f~ 142 (698)
T KOG2314|consen 135 TFFVRLFK 142 (698)
T ss_pred eEEeehhh
Confidence 77776543
No 101
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=98.23 E-value=8.9e-07 Score=74.74 Aligned_cols=76 Identities=21% Similarity=0.306 Sum_probs=66.5
Q ss_pred CCeEEEeCCCCCCcHHHHHHHHccCC--CeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEE
Q 028130 49 GNNLYVTGLSTRVTNADLEKFFGGEG--KVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVE 124 (213)
Q Consensus 49 ~~~v~V~nLp~~~t~~~L~~~F~~~G--~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~ 124 (213)
...+||+||-|.+|++||.+.+...| .|.++++..+..+|+++|||+|...+....++.++.|..++|.|+.-.|.
T Consensus 80 k~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V~ 157 (498)
T KOG4849|consen 80 KYCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTVL 157 (498)
T ss_pred eEEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCCCeee
Confidence 45799999999999999998888765 56778888888899999999999999999999999999999999765554
No 102
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=98.21 E-value=3.3e-06 Score=71.10 Aligned_cols=85 Identities=25% Similarity=0.490 Sum_probs=64.7
Q ss_pred CCCCCCCCeEEEeCCCCCCcHHH----H--HHHHccCCCeEEEEEeeCCCC-CCcccE--EEEEeecHHHHHHHHHHhCC
Q 028130 43 PDAANPGNNLYVTGLSTRVTNAD----L--EKFFGGEGKVTECHLVTDPRT-RESCGF--AFVTMETVEGADRCIKYLNR 113 (213)
Q Consensus 43 ~~~~~~~~~v~V~nLp~~~t~~~----L--~~~F~~~G~i~~~~i~~~~~t-~~~~g~--afV~f~~~~~a~~Ai~~l~g 113 (213)
.--.....-|||-+|++.+..++ | .++|.+||.|..|.|...... ....+. .||+|.+.++|..||.+++|
T Consensus 108 niRVvQKNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDg 187 (480)
T COG5175 108 NIRVVQKNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDG 187 (480)
T ss_pred cceeeecceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhcc
Confidence 33344566789999998777665 3 589999999998887653211 111122 39999999999999999999
Q ss_pred ceeCCeeeEEEecc
Q 028130 114 SVLEGRLITVEKAK 127 (213)
Q Consensus 114 ~~i~g~~i~V~~a~ 127 (213)
..++|+.|+..+..
T Consensus 188 s~~DGr~lkatYGT 201 (480)
T COG5175 188 SLLDGRVLKATYGT 201 (480)
T ss_pred ccccCceEeeecCc
Confidence 99999999998764
No 103
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=98.18 E-value=1e-05 Score=68.94 Aligned_cols=83 Identities=28% Similarity=0.293 Sum_probs=68.9
Q ss_pred CCCCCCCCeEEEeCCC--CCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeC-C-
Q 028130 43 PDAANPGNNLYVTGLS--TRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLE-G- 118 (213)
Q Consensus 43 ~~~~~~~~~v~V~nLp--~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~-g- 118 (213)
++...++..|.+.=|. ..+|.+.|..++...|+|..|.|+.. ++ --|.|||++.+.|++|.+.|||..|. |
T Consensus 114 ~es~~pN~VLl~TIlNp~YpItvDVly~Icnp~GkVlRIvIfkk--ng---VQAmVEFdsv~~AqrAk~alNGADIYsGC 188 (494)
T KOG1456|consen 114 DESATPNKVLLFTILNPQYPITVDVLYTICNPQGKVLRIVIFKK--NG---VQAMVEFDSVEVAQRAKAALNGADIYSGC 188 (494)
T ss_pred CCCCCCCeEEEEEeecCccccchhhhhhhcCCCCceEEEEEEec--cc---eeeEEeechhHHHHHHHhhcccccccccc
Confidence 5666777777776554 57889999999999999999988764 33 36999999999999999999999874 3
Q ss_pred eeeEEEecccCC
Q 028130 119 RLITVEKAKRSR 130 (213)
Q Consensus 119 ~~i~V~~a~~~~ 130 (213)
.+|+|++|++..
T Consensus 189 CTLKIeyAkP~r 200 (494)
T KOG1456|consen 189 CTLKIEYAKPTR 200 (494)
T ss_pred eeEEEEecCcce
Confidence 689999998764
No 104
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=98.17 E-value=4.6e-06 Score=52.34 Aligned_cols=52 Identities=10% Similarity=0.340 Sum_probs=42.5
Q ss_pred CeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHH
Q 028130 50 NNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCI 108 (213)
Q Consensus 50 ~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai 108 (213)
+.|-|.+++....+. |..+|..||+|..+.+.... .+++|.|.+..+|++||
T Consensus 2 ~wI~V~Gf~~~~~~~-vl~~F~~fGeI~~~~~~~~~------~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 2 TWISVSGFPPDLAEE-VLEHFASFGEIVDIYVPEST------NWMYLKYKSRKDAEKAL 53 (53)
T ss_pred cEEEEEeECchHHHH-HHHHHHhcCCEEEEEcCCCC------cEEEEEECCHHHHHhhC
Confidence 578899999876655 45588899999998886322 49999999999999985
No 105
>PF05172 Nup35_RRM: Nup53/35/40-type RNA recognition motif; InterPro: IPR007846 The MPPN (Mitotic PhosphoProtein N end) family is uncharacterised however it probably plays a role in the cell cycle because the family includes mitotic phosphoproteins O13026 from SWISSPROT []. This family also includes Q05166 from SWISSPROT a suppressor of thermosensitive mutations in the DNA polymerase delta gene, Pol III []. The conserved central region appears to be distantly related to the RNA-binding region RNP-1 (RNA recognition motif, IPR000504 from INTERPRO), suggesting an RNA binding function for this protein.; PDB: 1WWH_C 3P3D_A.
Probab=98.14 E-value=1.4e-05 Score=56.85 Aligned_cols=79 Identities=15% Similarity=0.306 Sum_probs=52.4
Q ss_pred CCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEE-EeeCC------CCCCcccEEEEEeecHHHHHHHHHHhCCceeCCe
Q 028130 47 NPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECH-LVTDP------RTRESCGFAFVTMETVEGADRCIKYLNRSVLEGR 119 (213)
Q Consensus 47 ~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~-i~~~~------~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~ 119 (213)
...+.|.|.++|+.. ...|.+.|++||.|+... +..+. .......|..|.|.+..+|++||. .||..|.|.
T Consensus 4 ~~~~wVtVFGfp~~~-~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~-~NG~i~~g~ 81 (100)
T PF05172_consen 4 DSETWVTVFGFPPSA-SNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQ-KNGTIFSGS 81 (100)
T ss_dssp GGCCEEEEE---GGG-HHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHT-TTTEEETTC
T ss_pred cCCeEEEEEccCHHH-HHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHH-hCCeEEcCc
Confidence 345679999999984 466788999999997764 10000 001122599999999999999999 899999886
Q ss_pred e-eEEEecc
Q 028130 120 L-ITVEKAK 127 (213)
Q Consensus 120 ~-i~V~~a~ 127 (213)
. |-|.+.+
T Consensus 82 ~mvGV~~~~ 90 (100)
T PF05172_consen 82 LMVGVKPCD 90 (100)
T ss_dssp EEEEEEE-H
T ss_pred EEEEEEEcH
Confidence 4 4566653
No 106
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=98.09 E-value=3.4e-06 Score=75.55 Aligned_cols=84 Identities=21% Similarity=0.297 Sum_probs=69.1
Q ss_pred CCCCCCCCCCCCeEEEeCCCCCCcHHHHHHHHcc-CCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCcee-
Q 028130 39 RSRSPDAANPGNNLYVTGLSTRVTNADLEKFFGG-EGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVL- 116 (213)
Q Consensus 39 ~~~~~~~~~~~~~v~V~nLp~~~t~~~L~~~F~~-~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i- 116 (213)
+-.+|......+.|||.||-.-+|..+|+++|.. .|.|+.++|-.- +..|||.|.+.++|.+.+.+|||..|
T Consensus 434 RvpSPsR~~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~WmDkI------KShCyV~yss~eEA~atr~AlhnV~WP 507 (718)
T KOG2416|consen 434 RVPSPSRKEPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEFWMDKI------KSHCYVSYSSVEEAAATREALHNVQWP 507 (718)
T ss_pred cCCCCCCCCccceEeeecccccchHHHHHHHHhhccCchHHHHHHHh------hcceeEecccHHHHHHHHHHHhccccC
Confidence 4555666788899999999999999999999994 667777755332 35899999999999999999999987
Q ss_pred --CCeeeEEEeccc
Q 028130 117 --EGRLITVEKAKR 128 (213)
Q Consensus 117 --~g~~i~V~~a~~ 128 (213)
+.+.|.|.|+..
T Consensus 508 ~sNPK~L~adf~~~ 521 (718)
T KOG2416|consen 508 PSNPKHLIADFVRA 521 (718)
T ss_pred CCCCceeEeeecch
Confidence 567888888753
No 107
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=98.08 E-value=1.2e-05 Score=73.36 Aligned_cols=76 Identities=18% Similarity=0.221 Sum_probs=66.3
Q ss_pred CeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEe
Q 028130 50 NNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEK 125 (213)
Q Consensus 50 ~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~ 125 (213)
+.|-+.|+|++++.+||.+||..|-.+-.-.++.-.+.|+..|-|.|.|++.++|..|...|+++.|..+.|.|.+
T Consensus 868 ~V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~nd~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V~l~i 943 (944)
T KOG4307|consen 868 RVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRNDDGVPTGECMVAFESQEEARRASMDLDGQKIRNRVVSLRI 943 (944)
T ss_pred eEEEecCCCccccHHHHHHHhcccccCCCceeEeecCCCCcccceeEeecCHHHHHhhhhccccCcccceeEEEEe
Confidence 3788899999999999999999997765544444456899999999999999999999999999999999998865
No 108
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=98.07 E-value=4.9e-06 Score=71.98 Aligned_cols=73 Identities=22% Similarity=0.331 Sum_probs=59.8
Q ss_pred CCCCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeC---CCC--CC--------cccEEEEEeecHHHHHHHHH
Q 028130 43 PDAANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTD---PRT--RE--------SCGFAFVTMETVEGADRCIK 109 (213)
Q Consensus 43 ~~~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~---~~t--~~--------~~g~afV~f~~~~~a~~Ai~ 109 (213)
++++.+..+|.+.|||.+-.-+.|.++|..+|.|+.|.|+.. ... +. .+-+|||+|+..+.|.+|.+
T Consensus 225 ~~eel~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e 304 (484)
T KOG1855|consen 225 DEEELPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARE 304 (484)
T ss_pred cccccccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHH
Confidence 344568899999999998888999999999999999999876 221 11 24589999999999999999
Q ss_pred HhCCce
Q 028130 110 YLNRSV 115 (213)
Q Consensus 110 ~l~g~~ 115 (213)
.|+...
T Consensus 305 ~~~~e~ 310 (484)
T KOG1855|consen 305 LLNPEQ 310 (484)
T ss_pred hhchhh
Confidence 886554
No 109
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=98.01 E-value=1.6e-05 Score=70.32 Aligned_cols=67 Identities=22% Similarity=0.294 Sum_probs=61.4
Q ss_pred CCCCCCCeEEEeCCCCCCcHHHHHHHHc-cCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHH
Q 028130 44 DAANPGNNLYVTGLSTRVTNADLEKFFG-GEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKY 110 (213)
Q Consensus 44 ~~~~~~~~v~V~nLp~~~t~~~L~~~F~-~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~ 110 (213)
...++..|||||+||.-++.++|..+|. .||.|+.+-|-.|++-+-++|-|=|+|.+..+..+||.+
T Consensus 365 q~lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsa 432 (520)
T KOG0129|consen 365 QPIDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISA 432 (520)
T ss_pred cccCccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHhh
Confidence 3467788999999999999999999999 699999999999987888999999999999999999973
No 110
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=98.00 E-value=5.8e-06 Score=67.17 Aligned_cols=72 Identities=15% Similarity=0.245 Sum_probs=60.4
Q ss_pred CCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCC--------CCccc----EEEEEeecHHHHHHHHHHhCCcee
Q 028130 49 GNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRT--------RESCG----FAFVTMETVEGADRCIKYLNRSVL 116 (213)
Q Consensus 49 ~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t--------~~~~g----~afV~f~~~~~a~~Ai~~l~g~~i 116 (213)
.-.|||++||+.+...-|+++|.+||+|-.|.|.....+ +.+.. -++|+|.+...|..+...||++.|
T Consensus 74 ~GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~I 153 (278)
T KOG3152|consen 74 TGVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTPI 153 (278)
T ss_pred ceEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCcc
Confidence 348999999999999999999999999999988665433 22222 367999999999999999999999
Q ss_pred CCee
Q 028130 117 EGRL 120 (213)
Q Consensus 117 ~g~~ 120 (213)
+|..
T Consensus 154 ggkk 157 (278)
T KOG3152|consen 154 GGKK 157 (278)
T ss_pred CCCC
Confidence 9863
No 111
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=97.99 E-value=1.6e-05 Score=68.50 Aligned_cols=78 Identities=21% Similarity=0.295 Sum_probs=64.1
Q ss_pred CCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCe-eeEEEe
Q 028130 47 NPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGR-LITVEK 125 (213)
Q Consensus 47 ~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~-~i~V~~ 125 (213)
+|..+|++.|||..++|++|+.+|..-|.......... +...+|++.+++.|+|..|+..+|++.+++. .|.|.|
T Consensus 412 PpsatlHlsnip~svsee~lk~~f~~~g~~vkafkff~----kd~kmal~q~~sveeA~~ali~~hnh~lgen~hlRvSF 487 (492)
T KOG1190|consen 412 PPSATLHLSNIPPSVSEEDLKNLFQEPGGQVKAFKFFQ----KDRKMALPQLESVEEAIQALIDLHNHYLGENHHLRVSF 487 (492)
T ss_pred CchhheeeccCCcccchhHHHHhhhcCCceEEeeeecC----CCcceeecccCChhHhhhhccccccccCCCCceEEEEe
Confidence 67789999999999999999999999876644333222 1224999999999999999999999998765 889999
Q ss_pred ccc
Q 028130 126 AKR 128 (213)
Q Consensus 126 a~~ 128 (213)
++.
T Consensus 488 Sks 490 (492)
T KOG1190|consen 488 SKS 490 (492)
T ss_pred ecc
Confidence 875
No 112
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=97.97 E-value=4.6e-05 Score=57.42 Aligned_cols=73 Identities=19% Similarity=0.259 Sum_probs=52.5
Q ss_pred CCCCeEEEeCCC------CCCcH---HHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeC
Q 028130 47 NPGNNLYVTGLS------TRVTN---ADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLE 117 (213)
Q Consensus 47 ~~~~~v~V~nLp------~~~t~---~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~ 117 (213)
++..||.|.-+. ..+.+ .+|.+.|..||+|.-+.++. +.-+|+|.+-+.|.+|+. |+|.+|+
T Consensus 25 PpDaTVvVsv~~~~~~e~~~Fdd~l~~~ll~~~~~~GevvLvRfv~--------~~mwVTF~dg~sALaals-~dg~~v~ 95 (146)
T PF08952_consen 25 PPDATVVVSVDSPSEDEDSSFDDNLMDELLQKFAQYGEVVLVRFVG--------DTMWVTFRDGQSALAALS-LDGIQVN 95 (146)
T ss_dssp -TT-EEEEEECS-SCCCCHS--HHHHHHHHHHHHCCS-ECEEEEET--------TCEEEEESSCHHHHHHHH-GCCSEET
T ss_pred CCCceEEEEecCCCccccCcCCHHHHHHHHHHHHhCCceEEEEEeC--------CeEEEEECccHHHHHHHc-cCCcEEC
Confidence 455566665444 12222 35778899999998888875 368999999999999999 9999999
Q ss_pred CeeeEEEeccc
Q 028130 118 GRLITVEKAKR 128 (213)
Q Consensus 118 g~~i~V~~a~~ 128 (213)
|+.|+|.+..+
T Consensus 96 g~~l~i~LKtp 106 (146)
T PF08952_consen 96 GRTLKIRLKTP 106 (146)
T ss_dssp TEEEEEEE---
T ss_pred CEEEEEEeCCc
Confidence 99999998643
No 113
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=97.94 E-value=3.7e-06 Score=68.29 Aligned_cols=66 Identities=20% Similarity=0.268 Sum_probs=53.8
Q ss_pred HHHHHHHc-cCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEecccCC
Q 028130 64 ADLEKFFG-GEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKAKRSR 130 (213)
Q Consensus 64 ~~L~~~F~-~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a~~~~ 130 (213)
++|...|+ +||+|+.+.|..+. .-+-.|-++|.|..+++|++|++.||+..|.|++|+.++..-..
T Consensus 83 Ed~f~E~~~kygEiee~~Vc~Nl-~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~pvT~ 149 (260)
T KOG2202|consen 83 EDVFTELEDKYGEIEELNVCDNL-GDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSPVTD 149 (260)
T ss_pred HHHHHHHHHHhhhhhhhhhhccc-chhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecCcCc
Confidence 34555555 89999998776543 44566899999999999999999999999999999999876544
No 114
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=97.91 E-value=4.1e-05 Score=64.72 Aligned_cols=80 Identities=18% Similarity=0.259 Sum_probs=63.2
Q ss_pred CCCCeEEEeCCC----CCCc-------HHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCce
Q 028130 47 NPGNNLYVTGLS----TRVT-------NADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSV 115 (213)
Q Consensus 47 ~~~~~v~V~nLp----~~~t-------~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~ 115 (213)
.-.++|.|.||= ...+ +++|.+-+.+||.|..|.|.-. ++.|.+-|.|.+.++|+.||+.|+|..
T Consensus 263 r~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~d~----hPdGvvtV~f~n~eeA~~ciq~m~GR~ 338 (382)
T KOG1548|consen 263 RADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVYDR----HPDGVVTVSFRNNEEADQCIQTMDGRW 338 (382)
T ss_pred cCCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEecc----CCCceeEEEeCChHHHHHHHHHhcCee
Confidence 445688888872 2233 3456667889999999887633 355899999999999999999999999
Q ss_pred eCCeeeEEEecccCC
Q 028130 116 LEGRLITVEKAKRSR 130 (213)
Q Consensus 116 i~g~~i~V~~a~~~~ 130 (213)
|+|++|+.++.....
T Consensus 339 fdgRql~A~i~DG~t 353 (382)
T KOG1548|consen 339 FDGRQLTASIWDGKT 353 (382)
T ss_pred ecceEEEEEEeCCcc
Confidence 999999998876543
No 115
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=97.91 E-value=3.7e-05 Score=68.75 Aligned_cols=63 Identities=14% Similarity=0.167 Sum_probs=52.1
Q ss_pred HHHHHccCCCeEEEEEeeCCCC---CCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEeccc
Q 028130 66 LEKFFGGEGKVTECHLVTDPRT---RESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKAKR 128 (213)
Q Consensus 66 L~~~F~~~G~i~~~~i~~~~~t---~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a~~ 128 (213)
|+..+.+||.|..|.|+.+... .-..|..||+|.+.++|+.|.++|+|.+|.|++|.+.|...
T Consensus 426 vr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVvtsYyde 491 (500)
T KOG0120|consen 426 VRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRTVVASYYDE 491 (500)
T ss_pred HHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCcEEEEEecCH
Confidence 4556779999999999877222 23457899999999999999999999999999999888643
No 116
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=97.73 E-value=4.5e-05 Score=65.34 Aligned_cols=77 Identities=22% Similarity=0.344 Sum_probs=65.0
Q ss_pred CCeEEEeCCCCCCcHHHHHHHHccCCC-eEE--EEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEe
Q 028130 49 GNNLYVTGLSTRVTNADLEKFFGGEGK-VTE--CHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEK 125 (213)
Q Consensus 49 ~~~v~V~nLp~~~t~~~L~~~F~~~G~-i~~--~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~ 125 (213)
..+|-+.+||.+.+.++|.+||..|.. |.. |.|+.+. .|.+.|-|||+|.++++|.+|....|++..+.+-|.|-.
T Consensus 280 kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~-qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk~RYiEvfp 358 (508)
T KOG1365|consen 280 KDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNG-QGRPSGEAFIQMRNAERARAAAQKCHKKLMKSRYIEVFP 358 (508)
T ss_pred CCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcC-CCCcChhhhhhhhhhHHHHHHHHHHHHhhcccceEEEee
Confidence 558999999999999999999998854 333 6777664 688889999999999999999999998888788888765
Q ss_pred c
Q 028130 126 A 126 (213)
Q Consensus 126 a 126 (213)
+
T Consensus 359 ~ 359 (508)
T KOG1365|consen 359 C 359 (508)
T ss_pred c
Confidence 4
No 117
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=97.71 E-value=0.0001 Score=61.14 Aligned_cols=65 Identities=23% Similarity=0.251 Sum_probs=52.3
Q ss_pred HHHHHHHHccCCCeEEEEEeeCCCCCCc-ccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEecc
Q 028130 63 NADLEKFFGGEGKVTECHLVTDPRTRES-CGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKAK 127 (213)
Q Consensus 63 ~~~L~~~F~~~G~i~~~~i~~~~~t~~~-~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a~ 127 (213)
++++++.+++||.|..|.|...+..-.. .--.||+|+..++|.+|+-.|||..|+|+.+..+|..
T Consensus 300 ede~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fyn 365 (378)
T KOG1996|consen 300 EDETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFYN 365 (378)
T ss_pred HHHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeeheecc
Confidence 3567788999999999888776432222 1247999999999999999999999999999888754
No 118
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=97.70 E-value=5.4e-05 Score=65.01 Aligned_cols=73 Identities=19% Similarity=0.307 Sum_probs=58.8
Q ss_pred eEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCC---CCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEE
Q 028130 51 NLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRT---RESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVE 124 (213)
Q Consensus 51 ~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t---~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~ 124 (213)
.|.|.||.+.++.++++.+|...|+|..+.|+.+... ....-.|||.|.+...+..|.. |.+++|-+..|.|-
T Consensus 9 vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQh-Ltntvfvdraliv~ 84 (479)
T KOG4676|consen 9 VIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQH-LTNTVFVDRALIVR 84 (479)
T ss_pred eeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhh-hccceeeeeeEEEE
Confidence 8999999999999999999999999999877653221 2234589999999999988877 77777777666654
No 119
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.68 E-value=0.0002 Score=63.47 Aligned_cols=68 Identities=18% Similarity=0.313 Sum_probs=51.6
Q ss_pred CCCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCC---CCCCccc---EEEEEeecHHHHHHHHHHhC
Q 028130 44 DAANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDP---RTRESCG---FAFVTMETVEGADRCIKYLN 112 (213)
Q Consensus 44 ~~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~---~t~~~~g---~afV~f~~~~~a~~Ai~~l~ 112 (213)
....-..+|||++||+.++|++|...|..||.+ .|+++... ..-.++| |+|+.|+++..+++.|.++.
T Consensus 254 ~~~~~S~KVFvGGlp~dise~~i~~~F~~FGs~-~VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC~ 327 (520)
T KOG0129|consen 254 RSPRYSRKVFVGGLPWDITEAQINASFGQFGSV-KVDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSACS 327 (520)
T ss_pred CccccccceeecCCCccccHHHHHhhcccccce-EeecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHHh
Confidence 334556799999999999999999999999986 34444211 1122456 99999999999988887654
No 120
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.55 E-value=9.9e-05 Score=69.19 Aligned_cols=79 Identities=19% Similarity=0.275 Sum_probs=69.2
Q ss_pred CCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCC--eeeE
Q 028130 45 AANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEG--RLIT 122 (213)
Q Consensus 45 ~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g--~~i~ 122 (213)
...+.+.++|++|...+....|..+|..||.|..|.+-... -||+|.|++...|++|++.|-|..|++ +.|.
T Consensus 451 kst~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~hgq------~yayi~yes~~~aq~a~~~~rgap~G~P~~r~r 524 (975)
T KOG0112|consen 451 KSTPTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRHGQ------PYAYIQYESPPAAQAATHDMRGAPLGGPPRRLR 524 (975)
T ss_pred ccccceeeccCCCCCCChHHHHHHHhhccCcceeeecccCC------cceeeecccCccchhhHHHHhcCcCCCCCcccc
Confidence 45677899999999999999999999999999998875432 499999999999999999999999976 5788
Q ss_pred EEecccC
Q 028130 123 VEKAKRS 129 (213)
Q Consensus 123 V~~a~~~ 129 (213)
|.|+...
T Consensus 525 vdla~~~ 531 (975)
T KOG0112|consen 525 VDLASPP 531 (975)
T ss_pred cccccCC
Confidence 9988654
No 121
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=97.54 E-value=8.8e-05 Score=67.87 Aligned_cols=87 Identities=20% Similarity=0.138 Sum_probs=70.0
Q ss_pred CCCCCCCCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEE-EEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeC
Q 028130 39 RSRSPDAANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTE-CHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLE 117 (213)
Q Consensus 39 ~~~~~~~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~-~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~ 117 (213)
....+-+...+..|||..||..+++.++.++|.+.-.|++ |.|.. -.+++..+.|||+|..++++..|+..-+.+.++
T Consensus 424 gq~vp~P~~ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~-~P~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G 502 (944)
T KOG4307|consen 424 GQNVPFPGGAGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTR-LPTDLLRPAAFVAFIHPTAPLTASSVKTKFYPG 502 (944)
T ss_pred CCCCCCCCCccceEEeccCCccccccchhhhhhhhhhhhheeEecc-CCcccccchhhheeccccccchhhhcccccccC
Confidence 3335566677899999999999999999999999888877 44443 347778889999999988888888767777778
Q ss_pred CeeeEEEec
Q 028130 118 GRLITVEKA 126 (213)
Q Consensus 118 g~~i~V~~a 126 (213)
.+.|.|.-.
T Consensus 503 ~r~irv~si 511 (944)
T KOG4307|consen 503 HRIIRVDSI 511 (944)
T ss_pred ceEEEeech
Confidence 888888743
No 122
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=97.34 E-value=0.00018 Score=62.51 Aligned_cols=75 Identities=32% Similarity=0.509 Sum_probs=58.1
Q ss_pred CeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCce-eCCeeeEEEeccc
Q 028130 50 NNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSV-LEGRLITVEKAKR 128 (213)
Q Consensus 50 ~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~-i~g~~i~V~~a~~ 128 (213)
..+||+||.+.++..+|..+|...---..-.++... |||||.+.+...|.+|++.++|+. +.|..+.|+..-+
T Consensus 2 nklyignL~p~~~psdl~svfg~ak~~~~g~fl~k~------gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~sv~ 75 (584)
T KOG2193|consen 2 NKLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLVKS------GYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSVP 75 (584)
T ss_pred CcccccccCCCCChHHHHHHhccccCCCCcceeeec------ceeeccCCchhhhhhhHHhhchhhhhcCceeeccchhh
Confidence 478999999999999999999754111111222221 799999999999999999999874 8999999987655
Q ss_pred CC
Q 028130 129 SR 130 (213)
Q Consensus 129 ~~ 130 (213)
+.
T Consensus 76 kk 77 (584)
T KOG2193|consen 76 KK 77 (584)
T ss_pred HH
Confidence 43
No 123
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=97.27 E-value=0.00041 Score=62.05 Aligned_cols=83 Identities=19% Similarity=0.329 Sum_probs=61.2
Q ss_pred CCCCeEEEeCCCCCCcHHHHHHHHcc----------------------------CCCeEEEEEeeCCCCCCcccEEEEEe
Q 028130 47 NPGNNLYVTGLSTRVTNADLEKFFGG----------------------------EGKVTECHLVTDPRTRESCGFAFVTM 98 (213)
Q Consensus 47 ~~~~~v~V~nLp~~~t~~~L~~~F~~----------------------------~G~i~~~~i~~~~~t~~~~g~afV~f 98 (213)
+.-+++-|.||+...+..+|..++.. .|.-..+.++.|..+.++.|||||.|
T Consensus 359 ~~Rtt~~i~ni~n~~~~~dl~~Ildge~~rtt~~iknipNK~T~~ml~~~d~~~~gtYDFlYLPiDF~nkcNvGYAFINm 438 (549)
T KOG4660|consen 359 DRRTTVMIKNIPNKYGQLDLLRILDGECPRTTLMIKNIPNKYTSKMLLAADEKNKGTYDFLYLPIDFKNKCNVGYAFINM 438 (549)
T ss_pred cchhhhhhhccccchhHHHHHHHHhCcCchhhhHhhccCchhhHHhhhhhhccccCccceEEeccccccccccceeEEee
Confidence 44556667777766666665555432 45556677888888889999999999
Q ss_pred ecHHHHHHHHHHhCCceeC----CeeeEEEecccC
Q 028130 99 ETVEGADRCIKYLNRSVLE----GRLITVEKAKRS 129 (213)
Q Consensus 99 ~~~~~a~~Ai~~l~g~~i~----g~~i~V~~a~~~ 129 (213)
.+.+++..+.+++||+.|. .+.+.|.||.-+
T Consensus 439 ~sp~ai~~F~kAFnGk~W~~FnS~Kia~itYArIQ 473 (549)
T KOG4660|consen 439 TSPEAIIRFYKAFNGKKWEKFNSEKIASITYARIQ 473 (549)
T ss_pred cCHHHHHHHHHHHcCCchhhhcceeeeeeehhhhh
Confidence 9999999999999999753 345677776543
No 124
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=97.27 E-value=0.00015 Score=67.60 Aligned_cols=79 Identities=20% Similarity=0.156 Sum_probs=69.9
Q ss_pred CCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEeccc
Q 028130 49 GNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKAKR 128 (213)
Q Consensus 49 ~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a~~ 128 (213)
...|+|.|+|+..|.++|+.+|.++|.++.+.++..+ .|+++|-|||.|.++.+|..++..++...+.-..+.|+...+
T Consensus 736 K~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r-~gkpkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~~~v~vsnp 814 (881)
T KOG0128|consen 736 KISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVR-AGKPKGKARVDYNTEADASRKVASVDVAGKRENNGEVQVSNP 814 (881)
T ss_pred hhhhheeCCCCCCchHHHHhhccccCCccccchhhhh-ccccccceeccCCCcchhhhhcccchhhhhhhcCccccccCC
Confidence 4579999999999999999999999999999877765 789999999999999999999998888888777777777544
No 125
>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN). ; GO: 0003723 RNA binding, 0004535 poly(A)-specific ribonuclease activity, 0046872 metal ion binding, 0006402 mRNA catabolic process, 0005634 nucleus, 0005737 cytoplasm; PDB: 3CTR_A 2ROK_A 3D45_B 1WHV_A.
Probab=97.22 E-value=0.0017 Score=44.26 Aligned_cols=56 Identities=18% Similarity=0.316 Sum_probs=41.7
Q ss_pred CCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCC
Q 028130 49 GNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNR 113 (213)
Q Consensus 49 ~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g 113 (213)
....||+ +|.++-..||.++|..||.|.--.| .+ .-|||...+.+.|..|+..+.-
T Consensus 9 dHVFhlt-FPkeWK~~DI~qlFspfG~I~VsWi-~d-------TSAfV~l~~r~~~~~v~~~~~~ 64 (87)
T PF08675_consen 9 DHVFHLT-FPKEWKTSDIYQLFSPFGQIYVSWI-ND-------TSAFVALHNRDQAKVVMNTLKK 64 (87)
T ss_dssp CCEEEEE---TT--HHHHHHHCCCCCCEEEEEE-CT-------TEEEEEECCCHHHHHHHHHHTT
T ss_pred ceEEEEe-CchHhhhhhHHHHhccCCcEEEEEE-cC-------CcEEEEeecHHHHHHHHHHhcc
Confidence 3455565 9999999999999999999854444 33 3799999999999999998763
No 126
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=97.22 E-value=1.9e-05 Score=73.42 Aligned_cols=69 Identities=19% Similarity=0.340 Sum_probs=60.2
Q ss_pred CCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeC
Q 028130 49 GNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLE 117 (213)
Q Consensus 49 ~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~ 117 (213)
.+++||.||+..+.+.+|...|..+|.|..+.+.....++..+|+|||+|...+++.+||...+...++
T Consensus 667 ~~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~g 735 (881)
T KOG0128|consen 667 LIKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFG 735 (881)
T ss_pred HHHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhhhhhh
Confidence 357899999999999999999999999988877766778899999999999999999999966555444
No 127
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=97.19 E-value=0.0021 Score=41.46 Aligned_cols=56 Identities=16% Similarity=0.256 Sum_probs=44.6
Q ss_pred CCCeEEEeCCCCCCcHHHHHHHHccC---CCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHh
Q 028130 48 PGNNLYVTGLSTRVTNADLEKFFGGE---GKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYL 111 (213)
Q Consensus 48 ~~~~v~V~nLp~~~t~~~L~~~F~~~---G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l 111 (213)
....|+|.||.. ++.++|+.+|..| .....|.++-+. -|-|.|.+.+.|..||.+|
T Consensus 4 rpeavhirGvd~-lsT~dI~~y~~~y~~~~~~~~IEWIdDt-------ScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 4 RPEAVHIRGVDE-LSTDDIKAYFSEYFDEEGPFRIEWIDDT-------SCNVVFKDEETAARALVAL 62 (62)
T ss_pred eeceEEEEcCCC-CCHHHHHHHHHHhcccCCCceEEEecCC-------cEEEEECCHHHHHHHHHcC
Confidence 345899999965 6668899999988 234578777663 6889999999999999865
No 128
>PF03467 Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120 Nonsense-mediated mRNA decay (NMD) is a surveillance mechanism by which eukaryotic cells detect and degrade transcripts containing premature termination codons. Three 'up-frameshift' proteins, UPF1, UPF2 and UPF3, are essential for this process in organisms ranging from yeast, human to plants []. Exon junction complexes (EJCs) are deposited ~24 nucleotides upstream of exon-exon junctions after splicing. Translation causes displacement of the EJCs, however, premature translation termination upstream of one or more EJCs triggers the recruitment of UPF1, UPF2 and UPF3 and activates the NMD pathway [, ]. This family contains UPF3. The crystal structure of the complex between human UPF2 and UPF3b, which are, respectively, a MIF4G (middle portion of eIF4G) domain and an RNP domain (ribonucleoprotein-type RNA-binding domain) has been determined to 1.95A. The protein-protein interface is mediated by highly conserved charged residues in UPF2 and UPF3b and involves the beta-sheet surface of the UPF3b ribonucleoprotein (RNP) domain, which is generally used by these domains to bind nucleic acids. In UPF3b the RNP domain does not bind RNA, whereas the UPF2 construct and the complex do. It is clear that some RNP domains have evolved for specific protein-protein interactions rather than as nucleic acid binding modules [].; PDB: 1UW4_A 2L08_A.
Probab=97.17 E-value=0.001 Score=52.14 Aligned_cols=84 Identities=11% Similarity=0.032 Sum_probs=51.8
Q ss_pred CCCCCeEEEeCCCCCCcHHHHHHHHcc-CCCe---EEEEEeeCC--CCCCcccEEEEEeecHHHHHHHHHHhCCceeCC-
Q 028130 46 ANPGNNLYVTGLSTRVTNADLEKFFGG-EGKV---TECHLVTDP--RTRESCGFAFVTMETVEGADRCIKYLNRSVLEG- 118 (213)
Q Consensus 46 ~~~~~~v~V~nLp~~~t~~~L~~~F~~-~G~i---~~~~i~~~~--~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g- 118 (213)
....++|.|.+||+.+|++++.+.+.. ++.. ..+...... .......-|||.|.+.+++...+..++|+.|.+
T Consensus 4 ~~~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~D~ 83 (176)
T PF03467_consen 4 EKEGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFVDS 83 (176)
T ss_dssp -----EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE-T
T ss_pred cccCceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEECC
Confidence 356679999999999999999987776 6655 233311111 111123469999999999999999999988743
Q ss_pred ----eeeEEEecccC
Q 028130 119 ----RLITVEKAKRS 129 (213)
Q Consensus 119 ----~~i~V~~a~~~ 129 (213)
....|++|.-+
T Consensus 84 kg~~~~~~VE~Apyq 98 (176)
T PF03467_consen 84 KGNEYPAVVEFAPYQ 98 (176)
T ss_dssp TS-EEEEEEEE-SS-
T ss_pred CCCCcceeEEEcchh
Confidence 34567777653
No 129
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=97.11 E-value=5.7e-05 Score=64.87 Aligned_cols=65 Identities=9% Similarity=0.110 Sum_probs=53.2
Q ss_pred CeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCe
Q 028130 50 NNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGR 119 (213)
Q Consensus 50 ~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~ 119 (213)
.+|+|++|+..+...+|.++|..+|+|....+... ...-+|.|+|........|+. ++|.++.-+
T Consensus 152 Rt~~v~sl~~~~~l~e~~e~f~r~Gev~ya~~ask----~~s~~c~~sf~~qts~~halr-~~gre~k~q 216 (479)
T KOG4676|consen 152 RTREVQSLISAAILPESGESFERKGEVSYAHTASK----SRSSSCSHSFRKQTSSKHALR-SHGRERKRQ 216 (479)
T ss_pred hhhhhhcchhhhcchhhhhhhhhcchhhhhhhhcc----CCCcchhhhHhhhhhHHHHHH-hcchhhhhh
Confidence 57999999999999999999999999988766532 233478899999999999998 778876643
No 130
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=97.03 E-value=0.002 Score=55.47 Aligned_cols=67 Identities=27% Similarity=0.356 Sum_probs=50.0
Q ss_pred eEEEeCCCCCCcHHHHHHHHccC----CCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCe
Q 028130 51 NLYVTGLSTRVTNADLEKFFGGE----GKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGR 119 (213)
Q Consensus 51 ~v~V~nLp~~~t~~~L~~~F~~~----G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~ 119 (213)
.|-+.+||+++++.++.+||..- |..+.|.++.. ..|+..|-|||.|..+++|+.||.+ |...|+-+
T Consensus 163 ivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~r-pdgrpTGdAFvlfa~ee~aq~aL~k-hrq~iGqR 233 (508)
T KOG1365|consen 163 IVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTR-PDGRPTGDAFVLFACEEDAQFALRK-HRQNIGQR 233 (508)
T ss_pred EEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEEC-CCCCcccceEEEecCHHHHHHHHHH-HHHHHhHH
Confidence 45567999999999999999632 24445555543 3788889999999999999999973 43334433
No 131
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.00 E-value=0.0002 Score=67.21 Aligned_cols=81 Identities=15% Similarity=0.254 Sum_probs=67.0
Q ss_pred CCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEE
Q 028130 45 AANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVE 124 (213)
Q Consensus 45 ~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~ 124 (213)
....+.+||++||+..+++.+|...|..+|.|..|.|...+. +....||||.|.+...+..|+..+.+..|....+.+.
T Consensus 368 D~~atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~~-~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r~g 446 (975)
T KOG0112|consen 368 DFRATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPHI-KTESAYAFVSLLNTDMTPSAKFEESGPLIGNGTHRIG 446 (975)
T ss_pred chhhhhhhhhcCcccchhhhhhhhhhhhhccccccccccCCC-CcccchhhhhhhccccCcccchhhcCCccccCccccc
Confidence 344567999999999999999999999999999999877643 2233599999999999999999999988866666665
Q ss_pred ec
Q 028130 125 KA 126 (213)
Q Consensus 125 ~a 126 (213)
+.
T Consensus 447 lG 448 (975)
T KOG0112|consen 447 LG 448 (975)
T ss_pred cc
Confidence 55
No 132
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=96.89 E-value=0.00039 Score=58.79 Aligned_cols=84 Identities=27% Similarity=0.467 Sum_probs=62.4
Q ss_pred CCCCCeEEEeCCCCCCcHHHH-H--HHHccCCCeEEEEEeeCCC--CCC-cccEEEEEeecHHHHHHHHHHhCCceeCCe
Q 028130 46 ANPGNNLYVTGLSTRVTNADL-E--KFFGGEGKVTECHLVTDPR--TRE-SCGFAFVTMETVEGADRCIKYLNRSVLEGR 119 (213)
Q Consensus 46 ~~~~~~v~V~nLp~~~t~~~L-~--~~F~~~G~i~~~~i~~~~~--t~~-~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~ 119 (213)
.....-+||-+|+..+..+++ + +.|.+||.|..|.+..+.. ... ...-++|+|+..++|..||...+|..++|+
T Consensus 74 vVqknlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~ 153 (327)
T KOG2068|consen 74 VVQKNLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGR 153 (327)
T ss_pred hhhhhhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHhhhh
Confidence 344567889999876655444 3 5799999999998877541 111 112389999999999999999999999999
Q ss_pred eeEEEecccC
Q 028130 120 LITVEKAKRS 129 (213)
Q Consensus 120 ~i~V~~a~~~ 129 (213)
.|++.+...+
T Consensus 154 ~lka~~gttk 163 (327)
T KOG2068|consen 154 ALKASLGTTK 163 (327)
T ss_pred hhHHhhCCCc
Confidence 8777765433
No 133
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=96.86 E-value=0.0013 Score=53.74 Aligned_cols=76 Identities=21% Similarity=0.229 Sum_probs=60.4
Q ss_pred CeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCce----eCCeeeEEEe
Q 028130 50 NNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSV----LEGRLITVEK 125 (213)
Q Consensus 50 ~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~----i~g~~i~V~~ 125 (213)
..|||.||...+..+.|...|..||+|....++.|. .++..+-++|+|...-.|.+|+..+.-.- +.+.++.|..
T Consensus 32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~-r~k~t~eg~v~~~~k~~a~~a~rr~~~~g~~~~~~~~p~~VeP 110 (275)
T KOG0115|consen 32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDD-RGKPTREGIVEFAKKPNARKAARRCREGGFGGTTGGRPVGVEP 110 (275)
T ss_pred ceEEEEecchhhhhHHHHHhhhhcCccchheeeecc-cccccccchhhhhcchhHHHHHHHhccCccccCCCCCccCCCh
Confidence 689999999999999999999999999876666664 67777899999999999999998774332 3444555544
Q ss_pred c
Q 028130 126 A 126 (213)
Q Consensus 126 a 126 (213)
.
T Consensus 111 ~ 111 (275)
T KOG0115|consen 111 M 111 (275)
T ss_pred h
Confidence 3
No 134
>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=96.83 E-value=0.013 Score=42.28 Aligned_cols=81 Identities=11% Similarity=0.050 Sum_probs=53.8
Q ss_pred CCCCCCCCeEEEeCCC-CCCcHHHHHHHHccC-CCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCC--
Q 028130 43 PDAANPGNNLYVTGLS-TRVTNADLEKFFGGE-GKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEG-- 118 (213)
Q Consensus 43 ~~~~~~~~~v~V~nLp-~~~t~~~L~~~F~~~-G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g-- 118 (213)
.+.....+.|.|-.+| ..++.++|..+.+.+ ..|..+.|+.+. ..++=.++|.|.+.++|.+....+||+.|+.
T Consensus 6 ~~~~~~~~~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~--~pnrymVLikF~~~~~Ad~Fy~~fNGk~FnslE 83 (110)
T PF07576_consen 6 DLPDERRSTLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDG--TPNRYMVLIKFRDQESADEFYEEFNGKPFNSLE 83 (110)
T ss_pred CCCCCCCceEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCC--CCceEEEEEEECCHHHHHHHHHHhCCCccCCCC
Confidence 3344445555554455 555556666666665 456777887753 2344578999999999999999999998754
Q ss_pred -eeeEEEe
Q 028130 119 -RLITVEK 125 (213)
Q Consensus 119 -~~i~V~~ 125 (213)
..++|-+
T Consensus 84 pE~Chvvf 91 (110)
T PF07576_consen 84 PETCHVVF 91 (110)
T ss_pred CceeEEEE
Confidence 3444444
No 135
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=96.80 E-value=0.0056 Score=51.24 Aligned_cols=69 Identities=14% Similarity=0.260 Sum_probs=53.2
Q ss_pred CCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCee-eEEEe
Q 028130 49 GNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRL-ITVEK 125 (213)
Q Consensus 49 ~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~-i~V~~ 125 (213)
.+.|-|.++|+.-. ..|..+|.+||+|+...... +| .|-+|.|.+..+|++||. .||+.|+|.. |-|.-
T Consensus 197 D~WVTVfGFppg~~-s~vL~~F~~cG~Vvkhv~~~---ng---NwMhirYssr~~A~KALs-kng~ii~g~vmiGVkp 266 (350)
T KOG4285|consen 197 DTWVTVFGFPPGQV-SIVLNLFSRCGEVVKHVTPS---NG---NWMHIRYSSRTHAQKALS-KNGTIIDGDVMIGVKP 266 (350)
T ss_pred cceEEEeccCccch-hHHHHHHHhhCeeeeeecCC---CC---ceEEEEecchhHHHHhhh-hcCeeeccceEEeeee
Confidence 56788889987644 45677899999998766542 22 599999999999999999 7999998864 34443
No 136
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=96.68 E-value=0.0027 Score=57.01 Aligned_cols=69 Identities=19% Similarity=0.341 Sum_probs=55.1
Q ss_pred CCeEEEeCCCCCCcHHHHHHHHcc--CCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCC--ceeCCeeeEEE
Q 028130 49 GNNLYVTGLSTRVTNADLEKFFGG--EGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNR--SVLEGRLITVE 124 (213)
Q Consensus 49 ~~~v~V~nLp~~~t~~~L~~~F~~--~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g--~~i~g~~i~V~ 124 (213)
-|.|+|.-||..+-.++++.+|.. +-+++.|.+..+. -=||+|++..||+.|++.|.. ++|.|++|...
T Consensus 175 RcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~-------nWyITfesd~DAQqAykylreevk~fqgKpImAR 247 (684)
T KOG2591|consen 175 RCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHND-------NWYITFESDTDAQQAYKYLREEVKTFQGKPIMAR 247 (684)
T ss_pred eeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecC-------ceEEEeecchhHHHHHHHHHHHHHhhcCcchhhh
Confidence 467888999999999999999975 6778888887653 459999999999999987743 34677666544
No 137
>PF03880 DbpA: DbpA RNA binding domain ; InterPro: IPR005580 This RNA binding domain is found at the C terminus of a number of DEAD helicase proteins [].; PDB: 2G0C_A 3MOJ_B.
Probab=96.67 E-value=0.012 Score=39.29 Aligned_cols=67 Identities=24% Similarity=0.447 Sum_probs=40.1
Q ss_pred eEEEe-CCCCCCcHHHHHHHHccCCC-----eEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEE
Q 028130 51 NLYVT-GLSTRVTNADLEKFFGGEGK-----VTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVE 124 (213)
Q Consensus 51 ~v~V~-nLp~~~t~~~L~~~F~~~G~-----i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~ 124 (213)
+|||. +--..++..+|..+|...+. |-.|.|.. .|+||+... +.|+.++..|++..+.|+.|.|+
T Consensus 2 rl~in~Gr~dg~~~~~iv~~i~~~~gi~~~~IG~I~I~~--------~~S~vev~~-~~a~~v~~~l~~~~~~gk~v~ve 72 (74)
T PF03880_consen 2 RLFINVGRKDGLTPRDIVGAICNEAGIPGRDIGRIDIFD--------NFSFVEVPE-EVAEKVLEALNGKKIKGKKVRVE 72 (74)
T ss_dssp EEEES-SGGGT--HHHHHHHHHTCTTB-GGGEEEEEE-S--------S-EEEEE-T-T-HHHHHHHHTT--SSS----EE
T ss_pred EEEEEcccccCCCHHHHHHHHHhccCCCHHhEEEEEEee--------eEEEEEECH-HHHHHHHHHhcCCCCCCeeEEEE
Confidence 45552 23356888899888887654 45666654 389999865 58899999999999999999998
Q ss_pred ec
Q 028130 125 KA 126 (213)
Q Consensus 125 ~a 126 (213)
.|
T Consensus 73 ~A 74 (74)
T PF03880_consen 73 RA 74 (74)
T ss_dssp E-
T ss_pred EC
Confidence 75
No 138
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=96.53 E-value=0.014 Score=43.87 Aligned_cols=74 Identities=12% Similarity=0.144 Sum_probs=53.4
Q ss_pred CCCCCeEEEeCCCCCC----cHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeee
Q 028130 46 ANPGNNLYVTGLSTRV----TNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLI 121 (213)
Q Consensus 46 ~~~~~~v~V~nLp~~~----t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i 121 (213)
+++-.+|.|.=|...+ +...|...++.||+|..|.+.-. .-|.|.|.+...|=.|+.+++. ..-|..+
T Consensus 83 epPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~cGr-------qsavVvF~d~~SAC~Av~Af~s-~~pgtm~ 154 (166)
T PF15023_consen 83 EPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLCGR-------QSAVVVFKDITSACKAVSAFQS-RAPGTMF 154 (166)
T ss_pred CCCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeecCC-------ceEEEEehhhHHHHHHHHhhcC-CCCCceE
Confidence 4555677776554333 33445667889999999877532 4899999999999999999876 4567777
Q ss_pred EEEecc
Q 028130 122 TVEKAK 127 (213)
Q Consensus 122 ~V~~a~ 127 (213)
.+.|-.
T Consensus 155 qCsWqq 160 (166)
T PF15023_consen 155 QCSWQQ 160 (166)
T ss_pred Eeeccc
Confidence 777643
No 139
>PF04847 Calcipressin: Calcipressin; InterPro: IPR006931 Calcipressin 1 negatively regulates calcineurin (IPR015757 from INTERPRO) by direct binding and is essential for the survival of T helper type 1 cells. Calcipressin 1 is a phosphoprotein that increases its capacity to inhibit calcineurin when phosphorylated at the FLISPP motif, and this phosphorylation also controls the half-life of calcipressin 1 by accelerating its degradation []. Calcineurin is a calcium-responsive enzyme that dephosphorylates the nuclear factor of activated T cells (NFAT). In so doing it promotes its nuclear translocation and uniquely links calcium signalling to transcriptional regulation []. Calcipressins are a family of proteins derived from three genes. Calcipressin 1 is also known as modulatory calcineurin-interacting protein 1 (MCIP1), Adapt78 and Down syndrome critical region 1 (DSCR1). Calcipressin 2 is variously known as MCIP2, ZAKI-4 and DSCR1-like 1. Calcipressin 3 is also called MCIP3 and DSCR1-like 2 []. DSCR1 (Adapt78) is associated with successful adaptation to oxidative stress and calcium stress as well as with diseases like Alzheimer's and Down syndrome. The DSCR1 (Adapt78) isoform 1 protein, calcipressin 1, inhibits calcineurin and protects against acute calcium-mediated stress damage, including transient oxidative stress []. Calcipressin 1 is encoded by DSCR1, a gene on human chromosome 21. Calcipressin 1 isoform 1 has an N-terminal coding region, which generates a new polypeptide of 252 amino acids. Endogenous calcipressin 1 exists as a complex together with the calcineurin A and B heterodimer []. ; GO: 0019722 calcium-mediated signaling; PDB: 1WEY_A.
Probab=96.52 E-value=0.0091 Score=47.16 Aligned_cols=62 Identities=19% Similarity=0.221 Sum_probs=46.3
Q ss_pred cHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhC--CceeCCeeeEEEecccC
Q 028130 62 TNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLN--RSVLEGRLITVEKAKRS 129 (213)
Q Consensus 62 t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~--g~~i~g~~i~V~~a~~~ 129 (213)
..+.|+++|..|+.+..+.++... +-..|.|.+.+.|+.|...|+ +..|.|..|+|.++...
T Consensus 8 ~~~~l~~l~~~~~~~~~~~~L~sF------rRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~~ 71 (184)
T PF04847_consen 8 NLAELEELFSTYDPPVQFSPLKSF------RRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQPT 71 (184)
T ss_dssp -HHHHHHHHHTT-SS-EEEEETTT------TEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----S
T ss_pred hHHHHHHHHHhcCCceEEEEcCCC------CEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEcccc
Confidence 457899999999998887766543 578999999999999999999 99999999999998544
No 140
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=96.47 E-value=0.0023 Score=56.40 Aligned_cols=82 Identities=21% Similarity=0.162 Sum_probs=64.9
Q ss_pred CCCCCCCCCCCeEEEeCCCCCC-cHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCC
Q 028130 40 SRSPDAANPGNNLYVTGLSTRV-TNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEG 118 (213)
Q Consensus 40 ~~~~~~~~~~~~v~V~nLp~~~-t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g 118 (213)
...+......+.|-+..+|..+ +.++|...|.+||+|..|.+-... -.|.|+|.+..+|-.|.. .++..|++
T Consensus 363 gv~g~~~~dhs~l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~~------~~a~vTF~t~aeag~a~~-s~~avlnn 435 (526)
T KOG2135|consen 363 GVPGHAVVDHSPLALEKSPFGLNTIADLNPHFAQFGEIENIQVDYSS------LHAVVTFKTRAEAGEAYA-SHGAVLNN 435 (526)
T ss_pred CCCcchhcccchhhhhccCCCCchHhhhhhhhhhcCccccccccCch------hhheeeeeccccccchhc-cccceecC
Confidence 3444455556666676677654 467899999999999999886542 379999999999988877 89999999
Q ss_pred eeeEEEeccc
Q 028130 119 RLITVEKAKR 128 (213)
Q Consensus 119 ~~i~V~~a~~ 128 (213)
+.|+|.|-..
T Consensus 436 r~iKl~whnp 445 (526)
T KOG2135|consen 436 RFIKLFWHNP 445 (526)
T ss_pred ceeEEEEecC
Confidence 9999999766
No 141
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=96.09 E-value=0.01 Score=54.49 Aligned_cols=77 Identities=14% Similarity=0.181 Sum_probs=65.2
Q ss_pred CCCCCCCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCe
Q 028130 40 SRSPDAANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGR 119 (213)
Q Consensus 40 ~~~~~~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~ 119 (213)
.....+.++..+|||+||-..+.++-++.++..+|.|..+.... |+|.+|.....+..|+..|+-..++|.
T Consensus 31 qp~~~~~~~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~~---------fgf~~f~~~~~~~ra~r~~t~~~~~~~ 101 (668)
T KOG2253|consen 31 QPVFQPLPPRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRDK---------FGFCEFLKHIGDLRASRLLTELNIDDQ 101 (668)
T ss_pred cccccCCCCCceeEecchhhhhhHHHHHHHHhhCCcchhhhhhh---------hcccchhhHHHHHHHHHHhcccCCCcc
Confidence 34445567788999999999999999999999999987776553 999999999999999999988888888
Q ss_pred eeEEEe
Q 028130 120 LITVEK 125 (213)
Q Consensus 120 ~i~V~~ 125 (213)
.+.+..
T Consensus 102 kl~~~~ 107 (668)
T KOG2253|consen 102 KLIENV 107 (668)
T ss_pred hhhccc
Confidence 776654
No 142
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=95.98 E-value=0.028 Score=49.50 Aligned_cols=71 Identities=15% Similarity=0.246 Sum_probs=58.6
Q ss_pred CCCCCeEEEeCCCCCCcHHHHHHHHccC-CCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCC
Q 028130 46 ANPGNNLYVTGLSTRVTNADLEKFFGGE-GKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEG 118 (213)
Q Consensus 46 ~~~~~~v~V~nLp~~~t~~~L~~~F~~~-G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g 118 (213)
+.+++.|+|=.+|..++-.||..|+..+ -.|..|.|+.+.. .++=.++|.|.+.++|....+.+||..|+.
T Consensus 71 ~~~~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~~--pnrymvLIkFr~q~da~~Fy~efNGk~Fn~ 142 (493)
T KOG0804|consen 71 ASSSTMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDGM--PNRYMVLIKFRDQADADTFYEEFNGKQFNS 142 (493)
T ss_pred CCCCcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecCC--CceEEEEEEeccchhHHHHHHHcCCCcCCC
Confidence 3348899999999999999999998876 5678899888532 233368999999999999999999998764
No 143
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=95.82 E-value=0.0068 Score=56.98 Aligned_cols=72 Identities=22% Similarity=0.242 Sum_probs=58.8
Q ss_pred CCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCcee--CCeeeEEEecccCCCCCC
Q 028130 57 LSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVL--EGRLITVEKAKRSRGRTP 134 (213)
Q Consensus 57 Lp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i--~g~~i~V~~a~~~~~~~~ 134 (213)
.+-.++-.-|..+|.+||.|..++.+.+. ..|.|+|...+.|..|+++|+|+++ .|.+.+|.+|+.-.-..+
T Consensus 306 n~v~~tSssL~~l~s~yg~v~s~wtlr~~------N~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~~ak~~~~~ep 379 (1007)
T KOG4574|consen 306 NAVNLTSSSLATLCSDYGSVASAWTLRDL------NMALVSFSSVESAILALDALQGKEVSVTGAPSRVSFAKTLPMYEP 379 (1007)
T ss_pred ccccchHHHHHHHHHhhcchhhheecccc------cchhhhhHHHHHHHHhhhhhcCCcccccCCceeEEeccccccccC
Confidence 34445556688899999999999987765 4899999999999999999999974 688899999986654333
No 144
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=94.80 E-value=0.003 Score=55.08 Aligned_cols=80 Identities=16% Similarity=0.260 Sum_probs=64.7
Q ss_pred CCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEeccc
Q 028130 49 GNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKAKR 128 (213)
Q Consensus 49 ~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a~~ 128 (213)
..+|-|.|||+...|+-|..++.+||.++.|..+.. ..-....-|+|...+.+..||.+|+|..|....++|.|-..
T Consensus 80 srk~Qirnippql~wevld~Ll~qyg~ve~~eqvnt---~~etavvnvty~~~~~~~~ai~kl~g~Q~en~~~k~~YiPd 156 (584)
T KOG2193|consen 80 SRKIQIRNIPPQLQWEVLDSLLAQYGTVENCEQVNT---DSETAVVNVTYSAQQQHRQAIHKLNGPQLENQHLKVGYIPD 156 (584)
T ss_pred hhhhhHhcCCHHHHHHHHHHHHhccCCHhHhhhhcc---chHHHHHHHHHHHHHHHHHHHHhhcchHhhhhhhhcccCch
Confidence 345889999999999999999999999998866432 11223455788999999999999999999999999988765
Q ss_pred CCC
Q 028130 129 SRG 131 (213)
Q Consensus 129 ~~~ 131 (213)
...
T Consensus 157 eq~ 159 (584)
T KOG2193|consen 157 EQN 159 (584)
T ss_pred hhh
Confidence 543
No 145
>PF11767 SET_assoc: Histone lysine methyltransferase SET associated; InterPro: IPR024636 The SET domain is a protein-protein interaction domain found in protein lysine methyltransferase enzymes. This entry represents a domain of unknown function which is associated with the SET domain and found in histone lysine methyltransferases [].
Probab=94.77 E-value=0.23 Score=32.48 Aligned_cols=56 Identities=18% Similarity=0.262 Sum_probs=44.0
Q ss_pred CCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEE
Q 028130 59 TRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITV 123 (213)
Q Consensus 59 ~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V 123 (213)
..++-++|+..|.+|+-. .|..++ | | -||.|.+.++|++|....+++.+.+..|.+
T Consensus 10 ~~~~v~d~K~~Lr~y~~~---~I~~d~-t----G-fYIvF~~~~Ea~rC~~~~~~~~~f~y~m~M 65 (66)
T PF11767_consen 10 HGVTVEDFKKRLRKYRWD---RIRDDR-T----G-FYIVFNDSKEAERCFRAEDGTLFFTYRMQM 65 (66)
T ss_pred CCccHHHHHHHHhcCCcc---eEEecC-C----E-EEEEECChHHHHHHHHhcCCCEEEEEEEEe
Confidence 356789999999999753 333343 2 2 489999999999999999999988887765
No 146
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=94.72 E-value=0.021 Score=48.28 Aligned_cols=80 Identities=14% Similarity=0.115 Sum_probs=63.9
Q ss_pred CCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEecc
Q 028130 48 PGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKAK 127 (213)
Q Consensus 48 ~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a~ 127 (213)
..+++||+++...+.+.++..++..+|.+..+.+........+++++.|.|...+.+..||+......+.+..+...+..
T Consensus 87 ~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~~~dl~~ 166 (285)
T KOG4210|consen 87 SSSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNKGEKDLNT 166 (285)
T ss_pred ccccccccccccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHHhhhccccccccccCcccc
Confidence 46789999999999999889999999988777766666677888999999999999999999554446666555544443
No 147
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=93.89 E-value=1.2 Score=41.87 Aligned_cols=69 Identities=7% Similarity=0.148 Sum_probs=50.0
Q ss_pred eEEEeCC--CCCCcHHHHHHHHccCCCe-----EEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEE
Q 028130 51 NLYVTGL--STRVTNADLEKFFGGEGKV-----TECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITV 123 (213)
Q Consensus 51 ~v~V~nL--p~~~t~~~L~~~F~~~G~i-----~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V 123 (213)
++|| |+ ...++..+|-.++..-+.| -.|.|.. .|.||+... +.|...+..|++..+.|+.|.|
T Consensus 488 ~~~~-~~g~~~~~~~~~~~~~i~~~~~~~~~~ig~i~i~~--------~~s~v~~~~-~~~~~~~~~~~~~~~~~~~~~~ 557 (629)
T PRK11634 488 LYRI-EVGRDDGVEVRHIVGAIANEGDISSRYIGNIKLFA--------SHSTIELPK-GMPGEVLQHFTRTRILNKPMNM 557 (629)
T ss_pred EEEE-ecccccCCCHHHHHHHHHhhcCCChhhCCcEEEeC--------CceEEEcCh-hhHHHHHHHhccccccCCceEE
Confidence 4544 33 3567788888777765544 3455543 389999864 5688899999999999999999
Q ss_pred EecccC
Q 028130 124 EKAKRS 129 (213)
Q Consensus 124 ~~a~~~ 129 (213)
+.+...
T Consensus 558 ~~~~~~ 563 (629)
T PRK11634 558 QLLGDA 563 (629)
T ss_pred EECCCC
Confidence 987543
No 148
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=93.05 E-value=1.1 Score=35.92 Aligned_cols=62 Identities=15% Similarity=0.019 Sum_probs=40.4
Q ss_pred CCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHH--HhCCceeC
Q 028130 56 GLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIK--YLNRSVLE 117 (213)
Q Consensus 56 nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~--~l~g~~i~ 117 (213)
+-...-+.--|.+-+...|.|---.-...++...+.-+-|-.=.+.++|.+||. .|+|.+|-
T Consensus 23 yRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelr 86 (256)
T KOG4207|consen 23 YRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELR 86 (256)
T ss_pred ccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceee
Confidence 333334556677788888887554333333333333467777789999999995 68999884
No 149
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=92.84 E-value=0.35 Score=40.47 Aligned_cols=67 Identities=19% Similarity=0.228 Sum_probs=46.4
Q ss_pred CCCCCCCCCCCeEEEeCCCCCCcHHHHHHHHccCCCe-EEEEEeeCCCCCCcccEEEEEeecH-------HHHHHHHHHh
Q 028130 40 SRSPDAANPGNNLYVTGLSTRVTNADLEKFFGGEGKV-TECHLVTDPRTRESCGFAFVTMETV-------EGADRCIKYL 111 (213)
Q Consensus 40 ~~~~~~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i-~~~~i~~~~~t~~~~g~afV~f~~~-------~~a~~Ai~~l 111 (213)
+.++....-.+-|+|+||+.++...||+..+.+.+.+ ..+.+.- +.|-||+.|.+. .++.+++..+
T Consensus 321 ~~~g~~a~~~~di~~~nl~rd~rv~dlk~~lr~~~~~pm~iswkg------~~~k~flh~~~~~~~~~~~~~~~~~~~s~ 394 (396)
T KOG4410|consen 321 DQSGVEAGAKTDIKLTNLSRDIRVKDLKSELRKRECTPMSISWKG------HFGKCFLHFGNRKGVPSTQDDMDKVLKSL 394 (396)
T ss_pred CCCcccCccccceeeccCccccchHHHHHHHHhcCCCceeEeeec------CCcceeEecCCccCCCCCchHHHHHhccC
Confidence 4445555566789999999999999999999987754 3343322 336899999763 4455555444
Q ss_pred C
Q 028130 112 N 112 (213)
Q Consensus 112 ~ 112 (213)
|
T Consensus 395 ~ 395 (396)
T KOG4410|consen 395 N 395 (396)
T ss_pred C
Confidence 3
No 150
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.17 E-value=0.86 Score=41.71 Aligned_cols=82 Identities=15% Similarity=0.169 Sum_probs=59.6
Q ss_pred CCCCCeEEEeCCCCC-CcHHHHHHHHccC----CCeEEEEEeeCC----------CCCC---------------------
Q 028130 46 ANPGNNLYVTGLSTR-VTNADLEKFFGGE----GKVTECHLVTDP----------RTRE--------------------- 89 (213)
Q Consensus 46 ~~~~~~v~V~nLp~~-~t~~~L~~~F~~~----G~i~~~~i~~~~----------~t~~--------------------- 89 (213)
..++..|-|.||.|. +...+|..+|..| |.|+.|.|.... .+|.
T Consensus 171 ~~~T~RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsilSV~IYpSeFGkeRM~eEeV~GP~~el~~~~e~~~~s~sD~ee~ 250 (650)
T KOG2318|consen 171 GEETKRLAVVNMDWDRVKAKDLFVLFNSFLPKGGSILSVKIYPSEFGKERMKEEEVHGPPKELFKPVEEYKESESDDEEE 250 (650)
T ss_pred ccccceeeEeccccccccHHHHHHHHHhhcCCCCceeEEEechhhhhHHHhhhhcccCChhhhccccccCcccccchhhh
Confidence 566788999999974 6778899888866 578888764211 1111
Q ss_pred ----------------cccEEEEEeecHHHHHHHHHHhCCceeCC--eeeEEEecc
Q 028130 90 ----------------SCGFAFVTMETVEGADRCIKYLNRSVLEG--RLITVEKAK 127 (213)
Q Consensus 90 ----------------~~g~afV~f~~~~~a~~Ai~~l~g~~i~g--~~i~V~~a~ 127 (213)
-.=||.|+|.+.+.|.+.+..++|.+|.. ..|-+.|..
T Consensus 251 ~~~~~~kLR~Yq~~rLkYYyAVvecDsi~tA~~vYe~CDG~EfEsS~~~~DLRFIP 306 (650)
T KOG2318|consen 251 EDVDREKLRQYQLNRLKYYYAVVECDSIETAKAVYEECDGIEFESSANKLDLRFIP 306 (650)
T ss_pred hhHHHHHHHHHHhhhheeEEEEEEecCchHHHHHHHhcCcceeccccceeeeeecC
Confidence 01279999999999999999999999865 445555543
No 151
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=90.97 E-value=0.2 Score=39.12 Aligned_cols=77 Identities=13% Similarity=0.131 Sum_probs=55.4
Q ss_pred CCCCeEEEeCCCCCCcH-----HHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCe-e
Q 028130 47 NPGNNLYVTGLSTRVTN-----ADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGR-L 120 (213)
Q Consensus 47 ~~~~~v~V~nLp~~~t~-----~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~-~ 120 (213)
.-.++|++++|+..+.. ...+.+|.+|.+...+.++.. .+..-|.|.+.+.|..|..+++...|.|. .
T Consensus 8 dlp~~~~~c~i~~~VF~~~~~k~~~~~lFrq~n~~~~fq~lrs------frrvRi~f~~p~~a~~a~i~~~~~~f~~~~~ 81 (193)
T KOG4019|consen 8 DLPTAIIACDIHEEVFVNREDKALFENLFRQINEDATFQLLRS------FRRVRINFSNPEAAADARIKLHSTSFNGKNE 81 (193)
T ss_pred cccceeeeecccHHhhccHHHHHHHHhHHhhhCcchHHHHHHh------hceeEEeccChhHHHHHHHHhhhcccCCCce
Confidence 34567888998865432 234556667766666555543 25777899999999999999999999988 7
Q ss_pred eEEEecccC
Q 028130 121 ITVEKAKRS 129 (213)
Q Consensus 121 i~V~~a~~~ 129 (213)
|+.-++...
T Consensus 82 ~k~yfaQ~~ 90 (193)
T KOG4019|consen 82 LKLYFAQPG 90 (193)
T ss_pred EEEEEccCC
Confidence 777776544
No 152
>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=89.06 E-value=0.87 Score=33.18 Aligned_cols=57 Identities=14% Similarity=0.208 Sum_probs=29.2
Q ss_pred CeEEEeCCCCC---------CcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeec-HHHHHHHHH
Q 028130 50 NNLYVTGLSTR---------VTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMET-VEGADRCIK 109 (213)
Q Consensus 50 ~~v~V~nLp~~---------~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~-~~~a~~Ai~ 109 (213)
-++.|.|++.+ ++.++|.+.|..|..+. +..+.++. ...|+++|+|.. ..-...|+.
T Consensus 9 wmgIi~N~~~~~~~~g~~~g~~~~~l~~~l~~f~p~k-v~~l~~~~--gh~g~aiv~F~~~w~Gf~~A~~ 75 (116)
T PF03468_consen 9 WMGIIVNIPTEKDDDGRWVGMSNEELLDKLAEFNPLK-VKPLYGKQ--GHTGFAIVEFNKDWSGFKNAMR 75 (116)
T ss_dssp -EEEEE----EE-TTS-EE---SHHHHHHHHH---SE-EEEEEETT--EEEEEEEEE--SSHHHHHHHHH
T ss_pred CEEEEEcCccccCCCCceeccCHHHHHHHHHhcCCce-eEECcCCC--CCcEEEEEEECCChHHHHHHHH
Confidence 36778888654 34578999999998875 44444432 456899999975 333344443
No 153
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=88.82 E-value=0.84 Score=40.01 Aligned_cols=57 Identities=18% Similarity=0.207 Sum_probs=46.4
Q ss_pred CCCCeEEEeCCCCCCcHHHHHHHHccCCCe-EEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHH
Q 028130 47 NPGNNLYVTGLSTRVTNADLEKFFGGEGKV-TECHLVTDPRTRESCGFAFVTMETVEGADRCIKY 110 (213)
Q Consensus 47 ~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i-~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~ 110 (213)
+-.+.|-|-++|...-.+||...|+.|+.- ..|.++-+. .||..|.+...|..||-.
T Consensus 389 dlpHVlEIydfp~efkteDll~~f~~yq~kgfdIkWvDdt-------halaVFss~~~AaeaLt~ 446 (528)
T KOG4483|consen 389 DLPHVLEIYDFPDEFKTEDLLKAFETYQNKGFDIKWVDDT-------HALAVFSSVNRAAEALTL 446 (528)
T ss_pred cccceeEeccCchhhccHHHHHHHHHhhcCCceeEEeecc-------eeEEeecchHHHHHHhhc
Confidence 356789999999999989999999999653 455555443 899999999999999984
No 154
>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=87.02 E-value=1.9 Score=36.36 Aligned_cols=85 Identities=11% Similarity=0.083 Sum_probs=60.5
Q ss_pred CCCCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCC-------CCCCcccEEEEEeecHHHHHHHHH----Hh
Q 028130 43 PDAANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDP-------RTRESCGFAFVTMETVEGADRCIK----YL 111 (213)
Q Consensus 43 ~~~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~-------~t~~~~g~afV~f~~~~~a~~Ai~----~l 111 (213)
++.+-....|.+.||...++-..+...|.+||+|+.|.++.+. ...+......+.|-+.+.|..... .|
T Consensus 9 GdD~YrTRSLLfeNv~~sidLh~Fl~~fv~~~pIESiYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~CLdFYNnvLQrL 88 (309)
T PF10567_consen 9 GDDEYRTRSLLFENVNNSIDLHSFLTKFVKFGPIESIYLIKSNDKPSDDYNDDKNNQSILLSFLSREICLDFYNNVLQRL 88 (309)
T ss_pred CCccceeHHHHHhhccccccHHHHHHHhhccCceeEEEEecCCCcccccccccccceEEEEeeechHHHHHHHHHHHHHH
Confidence 3444556678889999999989999999999999999998765 112333578899999888876543 22
Q ss_pred CC--ceeCCeeeEEEecc
Q 028130 112 NR--SVLEGRLITVEKAK 127 (213)
Q Consensus 112 ~g--~~i~g~~i~V~~a~ 127 (213)
.. +.+.-..|.|.|..
T Consensus 89 sEfK~~L~S~~L~lsFV~ 106 (309)
T PF10567_consen 89 SEFKTKLKSESLTLSFVS 106 (309)
T ss_pred HHHHHhcCCcceeEEEEE
Confidence 22 23566677776654
No 155
>smart00596 PRE_C2HC PRE_C2HC domain.
Probab=86.79 E-value=1.1 Score=29.40 Aligned_cols=62 Identities=21% Similarity=0.281 Sum_probs=44.6
Q ss_pred HHHHHHHccCC-CeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEeccc
Q 028130 64 ADLEKFFGGEG-KVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKAKR 128 (213)
Q Consensus 64 ~~L~~~F~~~G-~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a~~ 128 (213)
.+|++.|.+.| ++..+..+....+..+...-||+.....+... .|+=+.|++..|.|+-...
T Consensus 2 ~~I~~~L~~~G~~v~~i~~m~~~~~r~P~nmf~vel~~~~~~~~---Il~ik~Lg~~~V~VEr~~k 64 (69)
T smart00596 2 SQIEEALKDIGFPVLFIHNMLNRDTKNPQNMFEVELVPAANGKE---ILNIKTLGGQRVTVERPHK 64 (69)
T ss_pred HHHHHHHHHcCCceeEEEcccccCCCCcceeEEEEeeecCCCcc---eEeehhhCCeeEEEecCcc
Confidence 35777788877 56778878777777777888998877654444 3455668888888876543
No 156
>KOG2295 consensus C2H2 Zn-finger protein [General function prediction only]
Probab=84.34 E-value=0.16 Score=45.95 Aligned_cols=74 Identities=16% Similarity=0.130 Sum_probs=56.3
Q ss_pred CCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeee
Q 028130 48 PGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLI 121 (213)
Q Consensus 48 ~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i 121 (213)
..++|||.||+++++-.+|+.++..+-.+..+.+-.........-+++|+|.-.-....|+.+||+..+....+
T Consensus 230 ke~sll~rni~Pnis~aeIe~~ck~i~~~lrfals~~~aek~~~r~lwv~fk~~~ni~~a~~aLn~irl~s~~~ 303 (648)
T KOG2295|consen 230 KECSLLVRNILPNISVAEIENLCKGIPGFLRFALSTINAEKNFERRLWVTFKRGTNIKEACWALNGIRLRSNFL 303 (648)
T ss_pred HHHHHHHhccCCcccHHHHHHHhccCchheeeeccCchHHHHHHHHhhHhhccccchHHHHHHhhhcccccccc
Confidence 45689999999999999999999998766666554333233344578899998888888888888887665544
No 157
>PF07530 PRE_C2HC: Associated with zinc fingers; InterPro: IPR006579 This domain is present in proteins found exclusively in the arthropods, including a number of Drosophila species, the silk moth and the gypsy moth. These proteins are possibly involved in RNA binding or single strand DNA binding.
Probab=83.88 E-value=2.5 Score=27.73 Aligned_cols=63 Identities=17% Similarity=0.336 Sum_probs=43.1
Q ss_pred HHHHHHHccCC-CeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEecccC
Q 028130 64 ADLEKFFGGEG-KVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKAKRS 129 (213)
Q Consensus 64 ~~L~~~F~~~G-~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a~~~ 129 (213)
++|.+.|...| +|..+.-+....++.+...-||+++...+...+ ++=+.|.+..|+|+.....
T Consensus 2 ~~I~~~L~~~G~~v~~i~~~~~~~~k~pl~mf~veL~p~~~~k~i---~~Ik~l~~~~V~vE~~~k~ 65 (68)
T PF07530_consen 2 EEIKEELKDQGHPVRNIHNMHSRNTKKPLNMFFVELEPKPNNKEI---YKIKTLCGQRVKVERPRKR 65 (68)
T ss_pred HHHHHHHHHcCCceEEEEccccCCCCCCceEEEEeeccCccccce---eehHhhCCeEEEEecCCCC
Confidence 35666676666 567777777666777778889998776554443 4445678888888876543
No 158
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=82.38 E-value=1.9 Score=34.40 Aligned_cols=68 Identities=19% Similarity=0.265 Sum_probs=46.3
Q ss_pred CCCCCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHH
Q 028130 42 SPDAANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIK 109 (213)
Q Consensus 42 ~~~~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~ 109 (213)
..........+++.+++..++..++..+|..+|.+..+.+...........+.++.+.....+..++.
T Consensus 218 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 285 (306)
T COG0724 218 KALLLEKSDNLYVGNLPLKTAEEELADLFKSRGDIVRASLPPSKDGKIPKSRSFVGNEASKDALESNS 285 (306)
T ss_pred ccccccccceeeccccccccchhHHHHhccccccceeeeccCCCCCcccccccccchhHHHhhhhhhc
Confidence 34445667789999999999999999999999999777766554333333344444444444444443
No 159
>PF00403 HMA: Heavy-metal-associated domain; InterPro: IPR006121 Proteins that transport heavy metals in micro-organisms and mammals share similarities in their sequences and structures. These proteins provide an important focus for research, some being involved in bacterial resistance to toxic metals, such as lead and cadmium, while others are involved in inherited human syndromes, such as Wilson's and Menke's diseases []. A conserved domain has been found in a number of these heavy metal transport or detoxification proteins []. The domain, which has been termed Heavy-Metal-Associated (HMA), contains two conserved cysteines that are probably involved in metal binding. Structure solution of the fourth HMA domain of the Menke's copper transporting ATPase shows a well-defined structure comprising a four-stranded antiparallel beta-sheet and two alpha helices packed in an alpha-beta sandwich fold []. This fold is common to other domains and is classified as "ferredoxin-like".; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2VOY_A 1P6T_A 1KQK_A 2RML_A 1JWW_A 3K7R_F 1FES_A 1CC8_A 1FD8_A 2GGP_A ....
Probab=81.84 E-value=10 Score=23.62 Aligned_cols=54 Identities=17% Similarity=0.123 Sum_probs=41.4
Q ss_pred eEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecH----HHHHHHHHH
Q 028130 51 NLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETV----EGADRCIKY 110 (213)
Q Consensus 51 ~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~----~~a~~Ai~~ 110 (213)
+|.|.||.-..-...|++.+...-.|..+.+.... +.+-|+|... ++..++|+.
T Consensus 1 t~~v~~m~C~~C~~~v~~~l~~~~GV~~v~vd~~~------~~v~v~~~~~~~~~~~i~~~i~~ 58 (62)
T PF00403_consen 1 TFKVPGMTCEGCAKKVEKALSKLPGVKSVKVDLET------KTVTVTYDPDKTSIEKIIEAIEK 58 (62)
T ss_dssp EEEEESTTSHHHHHHHHHHHHTSTTEEEEEEETTT------TEEEEEESTTTSCHHHHHHHHHH
T ss_pred CEEECCcccHHHHHHHHHHHhcCCCCcEEEEECCC------CEEEEEEecCCCCHHHHHHHHHH
Confidence 57888888888888999999999888888876543 4788888743 555666654
No 160
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=80.78 E-value=7.5 Score=33.41 Aligned_cols=8 Identities=13% Similarity=0.505 Sum_probs=3.2
Q ss_pred CcHHHHHH
Q 028130 61 VTNADLEK 68 (213)
Q Consensus 61 ~t~~~L~~ 68 (213)
+++.+|.+
T Consensus 213 ~~k~eid~ 220 (367)
T KOG0835|consen 213 TTKREIDE 220 (367)
T ss_pred CcHHHHHH
Confidence 34444433
No 161
>KOG1295 consensus Nonsense-mediated decay protein Upf3 [RNA processing and modification]
Probab=79.90 E-value=2.3 Score=37.05 Aligned_cols=70 Identities=10% Similarity=0.124 Sum_probs=48.6
Q ss_pred CCCeEEEeCCCCCCcHHHHHHHHccCCC-eEEEEEeeCCC--CCCcccEEEEEeecHHHHHHHHHHhCCceeC
Q 028130 48 PGNNLYVTGLSTRVTNADLEKFFGGEGK-VTECHLVTDPR--TRESCGFAFVTMETVEGADRCIKYLNRSVLE 117 (213)
Q Consensus 48 ~~~~v~V~nLp~~~t~~~L~~~F~~~G~-i~~~~i~~~~~--t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~ 117 (213)
.-..|.|.+||+.+++.+|.+.+..|-. |....+..... -..-.+.|||.|...+++......++|++|.
T Consensus 6 ~~~Kvv~rrlpp~l~~~~~~eqi~p~~~~v~~~~F~~a~~s~~~~~ysrayinFk~~~dv~ef~~~f~g~ifl 78 (376)
T KOG1295|consen 6 AKVKVVVRRLPPKLTEEQLLEQINPFPEHVNWEFFAKADESLRNHKYSRAYINFKNPEDVEEFRRRFDGYIFL 78 (376)
T ss_pred cceeeeeecCCCcccHHHHhhhcCCCccccchheeccccccchhhhhhhhhhccccHHHHHHHHhhCCceEEe
Confidence 3457889999999999999888776532 22222221110 0112467999999999999999999998863
No 162
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=78.91 E-value=4.8 Score=25.85 Aligned_cols=20 Identities=20% Similarity=0.434 Sum_probs=16.8
Q ss_pred HHHHHHHccCCCeEEEEEee
Q 028130 64 ADLEKFFGGEGKVTECHLVT 83 (213)
Q Consensus 64 ~~L~~~F~~~G~i~~~~i~~ 83 (213)
++|+++|+..|+|.-+.+..
T Consensus 9 ~~iR~~fs~lG~I~vLYvn~ 28 (62)
T PF15513_consen 9 AEIRQFFSQLGEIAVLYVNP 28 (62)
T ss_pred HHHHHHHHhcCcEEEEEEcc
Confidence 67999999999998777654
No 163
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=78.59 E-value=0.92 Score=37.96 Aligned_cols=68 Identities=18% Similarity=0.330 Sum_probs=42.6
Q ss_pred CCCeEEEeCCCCC------------CcHHHHHHHHccCCCeEEEEEeeC-C----CCCCc-----ccE---------EEE
Q 028130 48 PGNNLYVTGLSTR------------VTNADLEKFFGGEGKVTECHLVTD-P----RTRES-----CGF---------AFV 96 (213)
Q Consensus 48 ~~~~v~V~nLp~~------------~t~~~L~~~F~~~G~i~~~~i~~~-~----~t~~~-----~g~---------afV 96 (213)
...|||+.+||.. .+++-|...|..||.|..|.|+.- + -+++. .|| |||
T Consensus 148 rpdti~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir~vdipicdplr~~mn~kisgiq~~gfg~g~dlffeayv 227 (445)
T KOG2891|consen 148 RPDTIHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIRNVDIPICDPLREEMNGKISGIQFHGFGFGGDLFFEAYV 227 (445)
T ss_pred CCCceeecCCcceeeeecccccccCChHHHHHHHHHHhccceecCCcccchhHHHhcCccccceeeccccCcchhHHHHH
Confidence 3458898888843 345679999999999998887531 1 12322 233 334
Q ss_pred EeecHHHHHHHHHHhCCce
Q 028130 97 TMETVEGADRCIKYLNRSV 115 (213)
Q Consensus 97 ~f~~~~~a~~Ai~~l~g~~ 115 (213)
.|........|+.+|.|..
T Consensus 228 qfmeykgfa~amdalr~~k 246 (445)
T KOG2891|consen 228 QFMEYKGFAQAMDALRGMK 246 (445)
T ss_pred HHHHHHhHHHHHHHHhcch
Confidence 5555555556666666654
No 164
>COG5638 Uncharacterized conserved protein [Function unknown]
Probab=78.23 E-value=7.7 Score=34.35 Aligned_cols=85 Identities=20% Similarity=0.296 Sum_probs=57.9
Q ss_pred CCCCCCCCCeEEEeCCCCC-CcHHHHHHHHccC----CCeEEEEEeeCC-------------------------------
Q 028130 42 SPDAANPGNNLYVTGLSTR-VTNADLEKFFGGE----GKVTECHLVTDP------------------------------- 85 (213)
Q Consensus 42 ~~~~~~~~~~v~V~nLp~~-~t~~~L~~~F~~~----G~i~~~~i~~~~------------------------------- 85 (213)
-|+..++...|-|-||.|. +...+|..+|+.| |.|..|.|....
T Consensus 139 ~pe~G~~tkrLAvVnmDWd~v~a~DLf~~fsSf~P~ggkl~kV~iypsefGkeRm~~e~vqGpprdif~~~d~~~ssqk~ 218 (622)
T COG5638 139 VPEEGNPTKRLAVVNMDWDRVDAKDLFKIFSSFLPYGGKLSKVKIYPSEFGKERMAAEHVQGPPRDIFTPADNQPSSQKF 218 (622)
T ss_pred ccCCCCcccceeEeecccccchHHHHHHHHHhhCCCCCccceeEechhhhhHHHHhHhhccCCchhhccccccCcchhcc
Confidence 4555677889999999974 6678898888765 566666542100
Q ss_pred ---------CCC------Cc-------------------ccEEEEEeecHHHHHHHHHHhCCceeCC--eeeEEEec
Q 028130 86 ---------RTR------ES-------------------CGFAFVTMETVEGADRCIKYLNRSVLEG--RLITVEKA 126 (213)
Q Consensus 86 ---------~t~------~~-------------------~g~afV~f~~~~~a~~Ai~~l~g~~i~g--~~i~V~~a 126 (213)
..| .- .=||+|++.+.+.+...+..++|.++.. ..+.+.|.
T Consensus 219 ~~dn~~sd~d~g~d~~~Egd~g~e~d~~~lrqyqlerlryYyAvvec~d~~tsK~iY~~CDG~Eye~san~~DLRfv 295 (622)
T COG5638 219 GDDNVFSDRDAGEDALIEGDRGNEFDMVKLRQYQLERLRYYYAVVECEDIETSKNIYSACDGVEYENSANVLDLRFV 295 (622)
T ss_pred CCccchhhhhcchhhhhhcccccchhHHHHHHHHhhhheeEEEEEEeccchhhHHHHhccCccccccccceeeeeec
Confidence 000 00 1279999999999999999999998754 34444443
No 165
>PRK11901 hypothetical protein; Reviewed
Probab=78.19 E-value=6.8 Score=33.60 Aligned_cols=64 Identities=16% Similarity=0.242 Sum_probs=41.3
Q ss_pred CCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEE--EeecHHHHHHHHHHhCCce
Q 028130 47 NPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFV--TMETVEGADRCIKYLNRSV 115 (213)
Q Consensus 47 ~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV--~f~~~~~a~~Ai~~l~g~~ 115 (213)
...++|-|..+ ..++.|..|..+++ +..++|......|+. .|..| .|.+.++|+.||..|....
T Consensus 243 ~~~YTLQL~Aa---s~~~~L~~f~~~~~-L~~~~VYqT~RnGkp-WYVVvyG~Y~Sr~eAk~Ai~sLPa~l 308 (327)
T PRK11901 243 ASHYTLQLSSA---SRSDTLNAYAKKQN-LSHYHVYETKRDGKP-WYVLVSGNYASSAEAKRAIATLPAEV 308 (327)
T ss_pred CCCeEEEeecC---CCHHHHHHHHHHcC-cCceEEEEEEECCce-EEEEEecCcCCHHHHHHHHHhCCHHH
Confidence 34556666554 45778888888775 344555544444443 34433 6889999999999886543
No 166
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=73.94 E-value=0.82 Score=36.98 Aligned_cols=71 Identities=21% Similarity=0.258 Sum_probs=54.5
Q ss_pred CCCeEEEeC----CCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCe
Q 028130 48 PGNNLYVTG----LSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGR 119 (213)
Q Consensus 48 ~~~~v~V~n----Lp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~ 119 (213)
...+++.|+ |...++++.+...|..-|.|..+.+..+.+ +.++.++||.+.-....-.|+...++..+--.
T Consensus 79 ~q~~~r~G~shapld~r~~~ei~~~v~s~a~p~~~~R~~~~~d-~rnrn~~~~~~qr~~~~P~~~~~y~~l~~~~~ 153 (267)
T KOG4454|consen 79 EQRTLRCGNSHAPLDERVTEEILYEVFSQAGPIEGVRIPTDND-GRNRNFGFVTYQRLCAVPFALDLYQGLELFQK 153 (267)
T ss_pred hhcccccCCCcchhhhhcchhhheeeecccCCCCCcccccccc-CCccCccchhhhhhhcCcHHhhhhcccCcCCC
Confidence 344566666 677788888889999999999988887764 77888999999888888888877666554333
No 167
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=73.51 E-value=40 Score=26.52 Aligned_cols=9 Identities=33% Similarity=0.383 Sum_probs=3.9
Q ss_pred cHHHHHHHH
Q 028130 100 TVEGADRCI 108 (213)
Q Consensus 100 ~~~~a~~Ai 108 (213)
+.++|..+|
T Consensus 59 DA~DAvr~L 67 (195)
T KOG0107|consen 59 DAEDAVRYL 67 (195)
T ss_pred cHHHHHhhc
Confidence 344444444
No 168
>KOG4365 consensus Uncharacterized conserved protein [Function unknown]
Probab=72.92 E-value=0.65 Score=41.16 Aligned_cols=78 Identities=4% Similarity=-0.172 Sum_probs=57.2
Q ss_pred CeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEeccc
Q 028130 50 NNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKAKR 128 (213)
Q Consensus 50 ~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a~~ 128 (213)
+..|+..||..+++.+|.-+|..||-|.-+.+...-..+...-.+||...+ .+|..+|..+.-..+.|.++.|.++..
T Consensus 4 ~~~~l~d~~~~~~~~~~~~~~~d~~~i~~~d~~~~~~~~~~~v~~f~~~~~-~~~~~~i~~~k~q~~~~~~~r~~~~~~ 81 (572)
T KOG4365|consen 4 MKKSLKDSVASNNKDQNSMKHEDPSIISMEDGSPYVNGSLGEVTPFQHAKK-ANGPNYIQPQKRQTTFESQDRKAVSPS 81 (572)
T ss_pred hhhhHhhcccccccchhhhhccCCcceeeccCCccccCCcceeeeeeeeec-cCcccccCHHHHhhhhhhhhhhhcCch
Confidence 456778899999999999999999999887766554455555567777654 566677766666667777777777653
No 169
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=69.20 E-value=26 Score=22.84 Aligned_cols=45 Identities=22% Similarity=0.260 Sum_probs=36.7
Q ss_pred CeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeec
Q 028130 50 NNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMET 100 (213)
Q Consensus 50 ~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~ 100 (213)
.+|+|.++.-.--...+...+.....|..+.+.... +.++|+|++
T Consensus 4 ~~l~v~~MtC~~C~~~V~~al~~v~gv~~v~v~l~~------~~~~V~~d~ 48 (71)
T COG2608 4 TTLKVEGMTCGHCVKTVEKALEEVDGVASVDVDLEK------GTATVTFDS 48 (71)
T ss_pred EEEEECCcCcHHHHHHHHHHHhcCCCeeEEEEEccc------CeEEEEEcC
Confidence 467888888777778899999998888888887754 469999987
No 170
>PF02714 DUF221: Domain of unknown function DUF221; InterPro: IPR003864 This domain is found in a family of hypothetical transmembrane proteins none of which have any known function, the aligned region is at 538 residues at maximum length.; GO: 0016020 membrane
Probab=65.83 E-value=7.9 Score=32.89 Aligned_cols=35 Identities=23% Similarity=0.229 Sum_probs=26.3
Q ss_pred EEEEeecHHHHHHHHHHhCCceeCCeeeEEEecccCC
Q 028130 94 AFVTMETVEGADRCIKYLNRSVLEGRLITVEKAKRSR 130 (213)
Q Consensus 94 afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a~~~~ 130 (213)
|||+|++..+|+.|++.+.... ...+.|+.|....
T Consensus 1 aFVtF~~~~~a~~~~q~~~~~~--~~~~~v~~APeP~ 35 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLLLSKR--PNSWRVSPAPEPD 35 (325)
T ss_pred CEEEECCHHHHHHHHHHHhcCC--CCCceEeeCCCcc
Confidence 7999999999999999765543 3556777765543
No 171
>PF14893 PNMA: PNMA
Probab=64.87 E-value=8.5 Score=33.28 Aligned_cols=77 Identities=16% Similarity=0.142 Sum_probs=42.7
Q ss_pred CCCCeEEEeCCCCCCcHHHHHHHHcc----CCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeE
Q 028130 47 NPGNNLYVTGLSTRVTNADLEKFFGG----EGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLIT 122 (213)
Q Consensus 47 ~~~~~v~V~nLp~~~t~~~L~~~F~~----~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~ 122 (213)
++-..|.|.+||.++++++|++.+.. .|...-+.-+..+. .+...|+|+|...-+-...=..+.| .|....
T Consensus 16 ~~~r~lLv~giP~dc~~~ei~e~l~~~l~plg~yrvl~~~f~~~--~~~~aalve~~e~~n~~~iP~~i~g---~gg~W~ 90 (331)
T PF14893_consen 16 DPQRALLVLGIPEDCEEAEIEEALQAALSPLGRYRVLGKMFRRE--ENAKAALVEFAEDVNYSLIPREIPG---KGGPWR 90 (331)
T ss_pred ChhhhheeecCCCCCCHHHHHHHHHHhhcccccceehhhHhhhh--cccceeeeecccccchhhCchhcCC---CCCceE
Confidence 45567999999999999999887664 34332221111111 1224788888653332222222322 355666
Q ss_pred EEeccc
Q 028130 123 VEKAKR 128 (213)
Q Consensus 123 V~~a~~ 128 (213)
|-+..+
T Consensus 91 Vv~~p~ 96 (331)
T PF14893_consen 91 VVFKPP 96 (331)
T ss_pred EEecCC
Confidence 665443
No 172
>KOG4008 consensus rRNA processing protein RRP7 [RNA processing and modification]
Probab=62.78 E-value=4.9 Score=32.87 Aligned_cols=36 Identities=22% Similarity=0.359 Sum_probs=29.4
Q ss_pred CCCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEE
Q 028130 45 AANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECH 80 (213)
Q Consensus 45 ~~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~ 80 (213)
..+...+||+-|||..+|++.|..+..++|-+..+.
T Consensus 36 ~~~eKd~lfl~Nvp~~~tee~lkr~vsqlg~vq~~~ 71 (261)
T KOG4008|consen 36 NSNEKDCLFLVNVPLLSTEEHLKRFVSQLGHVQELL 71 (261)
T ss_pred ccccccceeeecccccccHHHHHHHHHHhhhhhhee
Confidence 345667899999999999999999999988654433
No 173
>KOG3702 consensus Nuclear polyadenylated RNA binding protein [RNA processing and modification]
Probab=61.69 E-value=6.5 Score=36.72 Aligned_cols=72 Identities=11% Similarity=0.176 Sum_probs=56.8
Q ss_pred eEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEE
Q 028130 51 NLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITV 123 (213)
Q Consensus 51 ~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V 123 (213)
+||+.|.....+..-|..++..+++++...++.....+...+-|+++|.-...++.|.. |.+..+....+++
T Consensus 513 ~i~~~~~~~~s~~~s~s~~s~~~~~ltk~k~l~~Cky~~~Ct~a~Ce~~HPtaa~~~~s-~p~k~fa~~~~ks 584 (681)
T KOG3702|consen 513 TIFVANGHGGSNPDSLSRHSEKKNELTKAKILTRCKYGPACTSAECEFAHPTAAENAKS-LPNKKFASKCLKS 584 (681)
T ss_pred ceecccccccCCCcchhhCcccccccccceeeccccCCCcCCchhhhhcCCcchhhhhc-cccccccccceec
Confidence 89999888888888899999999999888877776677777789999998888876655 6666665554443
No 174
>KOG4213 consensus RNA-binding protein La [RNA processing and modification]
Probab=60.93 E-value=14 Score=29.13 Aligned_cols=49 Identities=20% Similarity=0.117 Sum_probs=33.1
Q ss_pred CcHHHHHHHHccC-CCeEEEEEeeCCCC-CCcccEEEEEeecHHHHHHHHH
Q 028130 61 VTNADLEKFFGGE-GKVTECHLVTDPRT-RESCGFAFVTMETVEGADRCIK 109 (213)
Q Consensus 61 ~t~~~L~~~F~~~-G~i~~~~i~~~~~t-~~~~g~afV~f~~~~~a~~Ai~ 109 (213)
+|+++|.++...- |++..|.+-..... -..+|-.||+|.+.+.|.++++
T Consensus 118 ~td~ql~~l~qw~~~k~~nv~mr~~~~k~~~fkGsvkv~f~tk~qa~a~~~ 168 (205)
T KOG4213|consen 118 ITDDQLDDLNQWASGKGHNVKMRRHGNKAHPFKGSVKVTFQTKEQAFANDD 168 (205)
T ss_pred CCHHHHHHHHHHhcccceEeeccccCCCCCCCCCceEEEeecHHHHHhhhh
Confidence 4555554444322 68888877554322 2567889999999999999887
No 175
>COG5193 LHP1 La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]
Probab=57.69 E-value=5.1 Score=35.26 Aligned_cols=61 Identities=21% Similarity=0.243 Sum_probs=47.7
Q ss_pred CCeEEEeCCCCCCcHH--------HHHHHHcc--CCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHH
Q 028130 49 GNNLYVTGLSTRVTNA--------DLEKFFGG--EGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIK 109 (213)
Q Consensus 49 ~~~v~V~nLp~~~t~~--------~L~~~F~~--~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~ 109 (213)
...+|+.++..+.+.. +|+.+|.. .+.+..+.+..+.....+.|..|++|.....|++++.
T Consensus 174 qr~~y~n~fG~e~~~~a~~~e~~~d~~~~~p~h~h~~~~~i~~rrd~~nkn~~gSv~~efk~~~~~q~~nn 244 (438)
T COG5193 174 QRDVYQNGFGKEDVNNASRPEQQEDLEIQFPPHYHAPPSQIRNRRDWLNKNFRGSVFVEFKYFREAQRFNN 244 (438)
T ss_pred hhhHHhhcCCcccccccccchhhhhHHhhCCCcccCChhhccchhhhhhccccCcccccccChHHHHHHhc
Confidence 3467777777554444 89999988 6777888777776667788899999999999999973
No 176
>PF08544 GHMP_kinases_C: GHMP kinases C terminal ; InterPro: IPR013750 This domain is found in homoserine kinases (2.7.1.39 from EC), galactokinases (2.7.1.6 from EC) and mevalonate kinases (2.7.1.36 from EC). These kinases make up the GHMP kinase superfamily of ATP-dependent enzymes []. These enzymes are involved in the biosynthesis of isoprenes and amino acids as well as in carbohydrate metabolism. The C-terminal domain of homoserine kinase has a central alpha-beta plait fold and an insertion of four helices, which, together with the N-terminal fold, create a novel nucleotide binding fold [].; PDB: 2R3V_C 4EMD_A 4DXL_A 4ED4_A 2GS8_A 1K47_E 3GON_A 3K17_B 1PIE_A 2AJ4_A ....
Probab=55.39 E-value=43 Score=21.89 Aligned_cols=44 Identities=14% Similarity=0.187 Sum_probs=28.6
Q ss_pred HHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhC
Q 028130 64 ADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLN 112 (213)
Q Consensus 64 ~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~ 112 (213)
.+|.+++.++| +....|.- .| .-++.|+.+.+.+.++.+++.|.
T Consensus 37 ~~~~~~~~~~G-a~~~~~sG---sG-~G~~v~~l~~~~~~~~~v~~~l~ 80 (85)
T PF08544_consen 37 DELKEAAEENG-ALGAKMSG---SG-GGPTVFALCKDEDDAERVAEALR 80 (85)
T ss_dssp HHHHHHHHHTT-ESEEEEET---TS-SSSEEEEEESSHHHHHHHHHHHH
T ss_pred HHHHHHHHHCC-CCceecCC---CC-CCCeEEEEECCHHHHHHHHHHHH
Confidence 45677777888 44444432 20 12588888888888888887663
No 177
>KOG2187 consensus tRNA uracil-5-methyltransferase and related tRNA-modifying enzymes [Translation, ribosomal structure and biogenesis]
Probab=55.12 E-value=12 Score=34.28 Aligned_cols=38 Identities=24% Similarity=0.439 Sum_probs=33.5
Q ss_pred cEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEecccC
Q 028130 92 GFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKAKRS 129 (213)
Q Consensus 92 g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a~~~ 129 (213)
.|+++.|++...+.+|+..++|..+.+..+.|+.+...
T Consensus 64 ~~~~~~~et~~~~~ka~~~v~g~~~k~~~~~~~~~~~~ 101 (534)
T KOG2187|consen 64 KYAYVTFETPSDAGKAINLVDGLLYKGFILRVQLGATE 101 (534)
T ss_pred CceEEEEeccchhhhHHHHHhhhhhhcchhhhhhcccc
Confidence 59999999999999999999999998888888776544
No 178
>TIGR03636 L23_arch archaeal ribosomal protein L23. This model describes the archaeal ribosomal protein L23P and rigorously excludes the bacterial counterpart L23. In order to capture every known instance of archaeal L23P, the trusted cutoff is set lower than a few of the highest scoring eukaryotic cytosolic ribosomal counterparts.
Probab=54.40 E-value=41 Score=22.57 Aligned_cols=58 Identities=19% Similarity=0.213 Sum_probs=40.0
Q ss_pred eEEEeCCCCCCcHHHHHHHHcc-CC-CeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHh
Q 028130 51 NLYVTGLSTRVTNADLEKFFGG-EG-KVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYL 111 (213)
Q Consensus 51 ~v~V~nLp~~~t~~~L~~~F~~-~G-~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l 111 (213)
..|+..++..++..+|+..+++ |+ .|..|..+..+. ..-=|||.+...+.|.+.-..+
T Consensus 15 n~y~F~V~~~anK~eIK~avE~lf~VkV~~Vnt~~~~~---~~KKA~VtL~~g~~a~~va~k~ 74 (77)
T TIGR03636 15 NKLTFIVDRKATKGDIKRAVEKLFDVKVEKVNTLITPR---GEKKAYVKLAEEYAAEEIASRL 74 (77)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcCC---CceEEEEEECCCCcHHHHHHhh
Confidence 4566778899999999988887 44 455555443321 2236999998888887765544
No 179
>PRK10629 EnvZ/OmpR regulon moderator; Provisional
Probab=54.00 E-value=87 Score=23.10 Aligned_cols=72 Identities=10% Similarity=0.180 Sum_probs=48.1
Q ss_pred CCCeEEEeCCCCC---CcHHHHHHHHccCCC-eEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEE
Q 028130 48 PGNNLYVTGLSTR---VTNADLEKFFGGEGK-VTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITV 123 (213)
Q Consensus 48 ~~~~v~V~nLp~~---~t~~~L~~~F~~~G~-i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V 123 (213)
+...|.|.+.... .+...+.+.+.+-|- ++.+.... +-..|.|.+.++..+|.+.|....-++..|.+
T Consensus 34 edpavQIs~~~~g~~~~~~~~v~~~L~~~gI~~ksi~~~~--------~~~~irf~~~~~Ql~Ak~vL~~~L~~~y~VAl 105 (127)
T PRK10629 34 QESTLAIRAVHQGASLPDGFYVYQHLDANGIHIKSITPEN--------DSLLIRFDSPEQSAAAKEVLDRTLPHGYIIAQ 105 (127)
T ss_pred CCceEEEecCCCCCccchHHHHHHHHHHCCCCcceEEeeC--------CEEEEEECCHHHHHHHHHHHHHHcCCCCEEEE
Confidence 3446777766333 456678888887663 33333321 37889999999999999888766555666666
Q ss_pred Eecc
Q 028130 124 EKAK 127 (213)
Q Consensus 124 ~~a~ 127 (213)
.++.
T Consensus 106 nl~p 109 (127)
T PRK10629 106 QDDN 109 (127)
T ss_pred ecCC
Confidence 6654
No 180
>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=53.61 E-value=48 Score=19.99 Aligned_cols=27 Identities=15% Similarity=0.170 Sum_probs=22.3
Q ss_pred CeEEEeCCCCCCcHHHHHHHHccCCCe
Q 028130 50 NNLYVTGLSTRVTNADLEKFFGGEGKV 76 (213)
Q Consensus 50 ~~v~V~nLp~~~t~~~L~~~F~~~G~i 76 (213)
..++|.+.....+..+|++++..+|..
T Consensus 2 ~~~~i~g~~~~~~~~~l~~~i~~~Gg~ 28 (72)
T cd00027 2 LTFVITGDLPSEERDELKELIEKLGGK 28 (72)
T ss_pred CEEEEEecCCCcCHHHHHHHHHHcCCE
Confidence 568888877678889999999998864
No 181
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=51.88 E-value=13 Score=35.27 Aligned_cols=20 Identities=35% Similarity=0.311 Sum_probs=11.0
Q ss_pred CCCCCCccCCCCCCCCCCCC
Q 028130 194 DLFRRRRERSLSAGSSGYRR 213 (213)
Q Consensus 194 ~~~rr~r~rsrs~~r~~~r~ 213 (213)
++.+++++||+.++|++.+|
T Consensus 855 sr~rd~~drs~~RdRd~r~r 874 (877)
T KOG0151|consen 855 SRDRDRRDRSRERDRDWRRR 874 (877)
T ss_pred cccccccccCcccchhhhhc
Confidence 34444556666666666553
No 182
>PRK11230 glycolate oxidase subunit GlcD; Provisional
Probab=51.80 E-value=61 Score=29.68 Aligned_cols=49 Identities=22% Similarity=0.251 Sum_probs=34.7
Q ss_pred HHHHHHHHc----cCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhC
Q 028130 63 NADLEKFFG----GEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLN 112 (213)
Q Consensus 63 ~~~L~~~F~----~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~ 112 (213)
..+|..+|. .+|-|+.+.|...+.. +.....++.|.+.++|..|+..+-
T Consensus 203 g~dl~~l~~Gs~GtlGIIt~atlkl~p~p-~~~~~~~~~f~~~~~a~~~~~~~~ 255 (499)
T PRK11230 203 GFDLLALFTGSEGMLGVVTEVTVKLLPKP-PVARVLLASFDSVEKAGLAVGDII 255 (499)
T ss_pred ccchHhhhccCCCccEEEEEEEEEEEcCC-cceEEEEEECCCHHHHHHHHHHHH
Confidence 456777665 5778888777665532 233577889999999999988764
No 183
>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=51.27 E-value=42 Score=23.02 Aligned_cols=48 Identities=25% Similarity=0.290 Sum_probs=28.6
Q ss_pred CCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEe
Q 028130 48 PGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTM 98 (213)
Q Consensus 48 ~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f 98 (213)
...-|||+|+...+-+.-.+.+.+..++-. +.|+....+ ..||+|-.+
T Consensus 24 i~~GVyVg~~s~rVRe~lW~~v~~~~~~G~-a~m~~~~~n--eqG~~~~t~ 71 (86)
T PF09707_consen 24 IRPGVYVGNVSARVRERLWERVTEWIGDGS-AVMVWSDNN--EQGFDFRTL 71 (86)
T ss_pred cCCCcEEcCCCHHHHHHHHHHHHhhCCCcc-EEEEEccCC--CCCEEEEEe
Confidence 455799999998877665454444444332 333332222 558998876
No 184
>KOG0156 consensus Cytochrome P450 CYP2 subfamily [Secondary metabolites biosynthesis, transport and catabolism]
Probab=50.84 E-value=24 Score=32.25 Aligned_cols=61 Identities=15% Similarity=0.083 Sum_probs=44.3
Q ss_pred eEEEeCCCCCC---cHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeee
Q 028130 51 NLYVTGLSTRV---TNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLI 121 (213)
Q Consensus 51 ~v~V~nLp~~~---t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i 121 (213)
-=+||||+.-. ....|.++-.+||.|..+.+-. .-.|...+.+.|++|+. -|+..+.+++.
T Consensus 34 lPiIGnl~~l~~~~~h~~~~~ls~~yGpi~tl~lG~---------~~~Vviss~~~akE~l~-~~d~~fa~Rp~ 97 (489)
T KOG0156|consen 34 LPIIGNLHQLGSLPPHRSFRKLSKKYGPVFTLRLGS---------VPVVVISSYEAAKEVLV-KQDLEFADRPD 97 (489)
T ss_pred CCccccHHHcCCCchhHHHHHHHHHhCCeEEEEecC---------ceEEEECCHHHHHHHHH-hCCccccCCCC
Confidence 34678887433 3355666667899998777632 24777888999999998 67888888775
No 185
>COG0150 PurM Phosphoribosylaminoimidazole (AIR) synthetase [Nucleotide transport and metabolism]
Probab=50.16 E-value=6.5 Score=33.97 Aligned_cols=48 Identities=17% Similarity=0.279 Sum_probs=36.5
Q ss_pred HHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCc
Q 028130 63 NADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRS 114 (213)
Q Consensus 63 ~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~ 114 (213)
...|.+++.+.|.|..-.|.... +.|.+||.+-.+++++++++.|.+.
T Consensus 275 ~p~iF~~i~~~G~v~~~EM~rtF----NmGvG~v~iv~~e~~~~~~~~l~~~ 322 (345)
T COG0150 275 PPPIFKWLQKAGNVEREEMYRTF----NMGVGMVLIVPEEDAEKALALLKEQ 322 (345)
T ss_pred CcHHHHHHHHhcCCCHHHHHHHh----cCccceEEEEcHHHHHHHHHHHHhc
Confidence 46678888888877654444322 4478999999999999999998765
No 186
>PF07292 NID: Nmi/IFP 35 domain (NID); InterPro: IPR009909 This entry represents a domain of approximately 90 residues that is tandemly repeated within interferon-induced 35 kDa protein (IFP 35) and the homologous N-myc-interactor (Nmi). This domain mediates Nmi-Nmi protein interactions and subcellular localisation [].
Probab=49.92 E-value=11 Score=26.01 Aligned_cols=24 Identities=13% Similarity=0.299 Sum_probs=20.1
Q ss_pred CCCCeEEEeCCCCCCcHHHHHHHH
Q 028130 47 NPGNNLYVTGLSTRVTNADLEKFF 70 (213)
Q Consensus 47 ~~~~~v~V~nLp~~~t~~~L~~~F 70 (213)
....+|.|.|||..+.+++|++.+
T Consensus 50 vs~rtVlvsgip~~l~ee~l~D~L 73 (88)
T PF07292_consen 50 VSKRTVLVSGIPDVLDEEELRDKL 73 (88)
T ss_pred ccCCEEEEeCCCCCCChhhheeeE
Confidence 446789999999999999998763
No 187
>smart00195 DSPc Dual specificity phosphatase, catalytic domain.
Probab=49.72 E-value=56 Score=23.65 Aligned_cols=71 Identities=17% Similarity=0.255 Sum_probs=33.9
Q ss_pred eEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEee--c------HHHHHHHHHHhCCceeCCeeeE
Q 028130 51 NLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTME--T------VEGADRCIKYLNRSVLEGRLIT 122 (213)
Q Consensus 51 ~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~--~------~~~a~~Ai~~l~g~~i~g~~i~ 122 (213)
.|||+++|...+.+.|++. .+..|..+.-... .....++-++.|. + .+....|++.++...-.|..|-
T Consensus 7 ~l~~G~~~~~~~~~~l~~~--gi~~Vi~l~~~~~--~~~~~~~~~~~ipi~D~~~~~~~~~~~~~~~~i~~~~~~~~~Vl 82 (138)
T smart00195 7 HLYLGSYSSALNLALLKKL--GITHVINVTNEVP--NLNKKGFTYLGVPILDNTETKISPYFPEAVEFIEDAEKKGGKVL 82 (138)
T ss_pred CeEECChhHcCCHHHHHHc--CCCEEEEccCCCC--CCCCCCCEEEEEECCCCCCCChHHHHHHHHHHHHHHhcCCCeEE
Confidence 4999999976655444432 3344444422111 1122344444443 3 1223445555544444555565
Q ss_pred EEe
Q 028130 123 VEK 125 (213)
Q Consensus 123 V~~ 125 (213)
|.-
T Consensus 83 VHC 85 (138)
T smart00195 83 VHC 85 (138)
T ss_pred EEC
Confidence 543
No 188
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=49.46 E-value=49 Score=22.56 Aligned_cols=58 Identities=19% Similarity=0.212 Sum_probs=40.3
Q ss_pred eEEEeCCCCCCcHHHHHHHHcc-CC-CeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHh
Q 028130 51 NLYVTGLSTRVTNADLEKFFGG-EG-KVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYL 111 (213)
Q Consensus 51 ~v~V~nLp~~~t~~~L~~~F~~-~G-~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l 111 (213)
..|+.-++..++..+|++.+++ || .|..|..+..+. ...=|||.+...++|.+....|
T Consensus 22 n~y~F~V~~~anK~eIK~AvE~lf~VkV~~VnT~~~~~---~~KKA~V~L~~g~~A~~va~ki 81 (84)
T PRK14548 22 NKLTFIVDRRATKPDIKRAVEELFDVKVEKVNTLITPK---GEKKAYVKLAEEYDAEEIASRL 81 (84)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcCC---CcEEEEEEeCCCCcHHHHHHhh
Confidence 3555667889999999998887 54 456665544331 2236999999988888776544
No 189
>cd06405 PB1_Mekk2_3 The PB1 domain is present in the two mitogen-activated protein kinase kinases MEKK2 and MEKK3 which are two members of the signaling kinase cascade involved in angiogenesis and early cardiovascular development. The PB1 domain of MEKK2 (and/or MEKK3) interacts with the PB1 domain of another member of the kinase cascade Map2k5. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, f
Probab=48.11 E-value=82 Score=21.09 Aligned_cols=61 Identities=20% Similarity=0.262 Sum_probs=41.4
Q ss_pred CCCCCCcHHHHHHH-HccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEe
Q 028130 56 GLSTRVTNADLEKF-FGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEK 125 (213)
Q Consensus 56 nLp~~~t~~~L~~~-F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~ 125 (213)
.+|.-+.-+||+.. -..||...++.+..+ --.|-..+.++..+||+.++.. ...+-|.|-+
T Consensus 15 ~f~RPvkf~dl~~kv~~afGq~mdl~ytn~--------eL~iPl~~Q~DLDkAie~ld~s-~~~ksLRilL 76 (79)
T cd06405 15 QFPRPVKFKDLQQKVTTAFGQPMDLHYTNN--------ELLIPLKNQEDLDRAIELLDRS-PHMKSLRILL 76 (79)
T ss_pred ecCCCccHHHHHHHHHHHhCCeeeEEEecc--------cEEEeccCHHHHHHHHHHHccC-ccccceeEeE
Confidence 45666666776544 456998888777543 3678889999999999988763 3333444433
No 190
>KOG4840 consensus Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]
Probab=47.84 E-value=32 Score=28.40 Aligned_cols=70 Identities=11% Similarity=0.239 Sum_probs=36.2
Q ss_pred CCeEEEeCCCCCCcH----HHHHHHHccC-CCeEEEEEeeCCCCCCcccEEEEEe-ecHHHHHHHHHHhCCceeCCeeeE
Q 028130 49 GNNLYVTGLSTRVTN----ADLEKFFGGE-GKVTECHLVTDPRTRESCGFAFVTM-ETVEGADRCIKYLNRSVLEGRLIT 122 (213)
Q Consensus 49 ~~~v~V~nLp~~~t~----~~L~~~F~~~-G~i~~~~i~~~~~t~~~~g~afV~f-~~~~~a~~Ai~~l~g~~i~g~~i~ 122 (213)
...|||++|....-. +.|-..+.+- -.|..+.+... .-||+.-.. .+.++.+.+|+++.+..+.-..+-
T Consensus 37 ~~vvfiGGLgdgLl~~~y~~~L~~~lde~~wslVq~q~~Ss-----y~G~Gt~slk~D~edl~~l~~Hi~~~~fSt~vVL 111 (299)
T KOG4840|consen 37 VKVVFIGGLGDGLLICLYTTMLNRYLDENSWSLVQPQLRSS-----YNGYGTFSLKDDVEDLKCLLEHIQLCGFSTDVVL 111 (299)
T ss_pred EEEEEEcccCCCccccccHHHHHHHHhhccceeeeeecccc-----ccccccccccccHHHHHHHHHHhhccCcccceEE
Confidence 557999998654332 3333333332 23333333222 224554443 367888888887766654433333
Q ss_pred E
Q 028130 123 V 123 (213)
Q Consensus 123 V 123 (213)
|
T Consensus 112 ~ 112 (299)
T KOG4840|consen 112 V 112 (299)
T ss_pred E
Confidence 3
No 191
>cd06404 PB1_aPKC PB1 domain is an essential modular domain of the atypical protein kinase C (aPKC) which in complex with Par6 and Par3 proteins is crucial for establishment of apical-basal polarity of animal cells. PB1 domain is a modular domain mediating specific protein-protein interaction which play roles in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi,
Probab=47.43 E-value=89 Score=21.31 Aligned_cols=66 Identities=8% Similarity=0.080 Sum_probs=37.1
Q ss_pred eEEEeCCCCCCcHHHHH----HHHccCC-CeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEE
Q 028130 51 NLYVTGLSTRVTNADLE----KFFGGEG-KVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITV 123 (213)
Q Consensus 51 ~v~V~nLp~~~t~~~L~----~~F~~~G-~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V 123 (213)
-|+|..++..++-++|. ++|.-.- ..-.++++ ...|. -|.|.+.++.+.|+..+.-..=.+-.|+|
T Consensus 10 di~it~~d~~~s~e~L~~~v~~~c~~~~~q~ft~kw~--DEEGD-----p~tiSS~~EL~EA~rl~~~n~~~~l~ihv 80 (83)
T cd06404 10 DIMITSIDPSISLEELCNEVRDMCRFHNDQPFTLKWI--DEEGD-----PCTISSQMELEEAFRLYELNKDSELNIHV 80 (83)
T ss_pred cEEEEEcCCCcCHHHHHHHHHHHhCCCCCCcEEEEEE--CCCCC-----ceeecCHHHHHHHHHHHHhcCcccEEEEe
Confidence 47788888888876654 3443321 22233333 22333 46788888999998855433223444554
No 192
>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=47.06 E-value=64 Score=22.48 Aligned_cols=49 Identities=16% Similarity=0.101 Sum_probs=28.6
Q ss_pred eEEEeCCCCCCcHHHH---HHHHccCCCeEEEEE--eeCCCCCCcccEEEEEee
Q 028130 51 NLYVTGLSTRVTNADL---EKFFGGEGKVTECHL--VTDPRTRESCGFAFVTME 99 (213)
Q Consensus 51 ~v~V~nLp~~~t~~~L---~~~F~~~G~i~~~~i--~~~~~t~~~~g~afV~f~ 99 (213)
..|+.|||..+.+..+ +..|.++..-..|.+ ..........|++++.+.
T Consensus 12 ~a~~a~lp~~va~R~~~~a~~~L~~~~~~v~i~~d~~~~~~~~~~~G~gi~l~a 65 (103)
T PF05189_consen 12 IAFVAGLPSSVAERMANAARKRLNWYGPDVEIETDYRESDDSAFGPGSGISLVA 65 (103)
T ss_dssp EEEEESS-CHHHHHHHHHHHHHHCTTCSEEEEEEEEE-CCCCGCSSEEEEEEEE
T ss_pred EEEEcCCCHHHHHHHHHHHHHHhhhhCCCeEEEEecccCccCCCCCceEEEEEE
Confidence 4588999998887664 566767764444443 223334555566655543
No 193
>COG5507 Uncharacterized conserved protein [Function unknown]
Probab=46.18 E-value=23 Score=25.00 Aligned_cols=21 Identities=10% Similarity=0.167 Sum_probs=17.2
Q ss_pred ccEEEEEeecHHHHHHHHHHh
Q 028130 91 CGFAFVTMETVEGADRCIKYL 111 (213)
Q Consensus 91 ~g~afV~f~~~~~a~~Ai~~l 111 (213)
--|++++|.+.+...+|...+
T Consensus 66 VvFsW~~Y~skq~rDA~~~km 86 (117)
T COG5507 66 VVFSWIEYPSKQVRDAANAKM 86 (117)
T ss_pred EEEEEEEcCchhHHHHHHHHh
Confidence 348899999999998888755
No 194
>PF14581 SseB_C: SseB protein C-terminal domain
Probab=45.62 E-value=47 Score=23.32 Aligned_cols=81 Identities=16% Similarity=0.143 Sum_probs=42.5
Q ss_pred CCCCeEEEeCCCCCCc--HHHHHHHHccCCCeEEEEEeeCCC-CCCcccEEEEEeec--HHHHHHHHHHhCCcee-CCee
Q 028130 47 NPGNNLYVTGLSTRVT--NADLEKFFGGEGKVTECHLVTDPR-TRESCGFAFVTMET--VEGADRCIKYLNRSVL-EGRL 120 (213)
Q Consensus 47 ~~~~~v~V~nLp~~~t--~~~L~~~F~~~G~i~~~~i~~~~~-t~~~~g~afV~f~~--~~~a~~Ai~~l~g~~i-~g~~ 120 (213)
..+..|.|+-.....+ .+.|.++|.+.+.|....+.+-.. .+...-+-.|+|.. .+.+-.+|..+....+ ++..
T Consensus 3 ~~g~~v~l~~P~~~p~~l~~aL~~~~~~~~~V~~Ayl~~~~~~~~~~~~li~vd~~~~~~~~~~~~i~~~~~~~~~~~~~ 82 (108)
T PF14581_consen 3 PKGEKVLLGEPEEEPTDLLAALSEYFKQHKNVRAAYLALMQDEDEQPSLLIGVDFDGEDIEEIFQEIGRAARPYLPDGWP 82 (108)
T ss_pred CCCCEEEecCCccCHHHHHHHHHHHHhhCccHHHhHHHHhhccCCCceEEEEEeccChhHHHHHHHHHHHhhhcCCCCce
Confidence 3455777764433333 466888999999997776554443 33333233456655 2333333333333333 3356
Q ss_pred eEEEecc
Q 028130 121 ITVEKAK 127 (213)
Q Consensus 121 i~V~~a~ 127 (213)
|.+....
T Consensus 83 vd~~~~~ 89 (108)
T PF14581_consen 83 VDFVLLD 89 (108)
T ss_pred EEEEEcc
Confidence 6555443
No 195
>KOG3424 consensus 40S ribosomal protein S24 [Translation, ribosomal structure and biogenesis]
Probab=44.82 E-value=65 Score=23.57 Aligned_cols=46 Identities=22% Similarity=0.257 Sum_probs=27.7
Q ss_pred CCCcHHHHHHHHcc-CC----CeEEEEEeeCCCCCCcccEEEEEeecHHHHH
Q 028130 59 TRVTNADLEKFFGG-EG----KVTECHLVTDPRTRESCGFAFVTMETVEGAD 105 (213)
Q Consensus 59 ~~~t~~~L~~~F~~-~G----~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~ 105 (213)
..++.+||++-+.+ |- .|.-+.+-....+|++.|||.| |.+.+.|.
T Consensus 33 a~vsK~EirEKla~mYkt~~d~V~vfgfrt~~GggkstgfalI-Ydsve~ak 83 (132)
T KOG3424|consen 33 ANVSKTEIREKLAKMYKTTPDAVFVFGFRTHFGGGKSTGFALI-YDSVEYAK 83 (132)
T ss_pred CCCCHHHHHHHHHHHhcCCcceEEEEEeeeccCCcccceeeee-eehHHHHH
Confidence 35677888776665 32 2333445555567788888876 55555444
No 196
>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=44.50 E-value=11 Score=23.62 Aligned_cols=37 Identities=24% Similarity=0.283 Sum_probs=19.6
Q ss_pred cccEEEEEeec-HHHHHHHHHHhCCceeCCeeeEEEecc
Q 028130 90 SCGFAFVTMET-VEGADRCIKYLNRSVLEGRLITVEKAK 127 (213)
Q Consensus 90 ~~g~afV~f~~-~~~a~~Ai~~l~g~~i~g~~i~V~~a~ 127 (213)
..|||||...+ .++.--.-..|++. ++|-.+.|....
T Consensus 7 ~~GfGFv~~~~~~~DifIp~~~l~~A-~~gD~V~v~i~~ 44 (58)
T PF08206_consen 7 PKGFGFVIPDDGGEDIFIPPRNLNGA-MDGDKVLVRITP 44 (58)
T ss_dssp SSS-EEEEECT-TEEEEE-HHHHTTS--TT-EEEEEEEE
T ss_pred cCCCEEEEECCCCCCEEECHHHHCCC-CCCCEEEEEEec
Confidence 34899999886 33332233445544 566667776655
No 197
>PRK08559 nusG transcription antitermination protein NusG; Validated
Probab=44.29 E-value=78 Score=23.96 Aligned_cols=35 Identities=11% Similarity=0.178 Sum_probs=25.6
Q ss_pred eEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCce
Q 028130 76 VTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSV 115 (213)
Q Consensus 76 i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~ 115 (213)
|..|.++.. ..||.||+....+++..+|..+.+..
T Consensus 36 i~~i~vp~~-----fpGYVfVe~~~~~~~~~~i~~v~~v~ 70 (153)
T PRK08559 36 IYAILAPPE-----LKGYVLVEAESKGAVEEAIRGIPHVR 70 (153)
T ss_pred EEEEEccCC-----CCcEEEEEEEChHHHHHHHhcCCCEe
Confidence 445555433 45999999998888889988776653
No 198
>PF11823 DUF3343: Protein of unknown function (DUF3343); InterPro: IPR021778 This family of proteins are functionally uncharacterised. This protein is found in bacteria and archaea. Proteins in this family are typically between 78 to 102 amino acids in length.
Probab=44.01 E-value=31 Score=22.51 Aligned_cols=27 Identities=15% Similarity=0.245 Sum_probs=21.6
Q ss_pred cEEEEEeecHHHHHHHHHHhCCceeCC
Q 028130 92 GFAFVTMETVEGADRCIKYLNRSVLEG 118 (213)
Q Consensus 92 g~afV~f~~~~~a~~Ai~~l~g~~i~g 118 (213)
.+.+|.|.+..+|.+|-+.|....|..
T Consensus 2 ~~~~i~F~st~~a~~~ek~lk~~gi~~ 28 (73)
T PF11823_consen 2 KYYLITFPSTHDAMKAEKLLKKNGIPV 28 (73)
T ss_pred ceEEEEECCHHHHHHHHHHHHHCCCcE
Confidence 378999999999999998887664433
No 199
>PF08734 GYD: GYD domain; InterPro: IPR014845 These proteins of unknown function are usually less than 100 amino acids in length. They may belong to the dimeric alpha/beta barrel superfamily.
Probab=43.18 E-value=99 Score=21.19 Aligned_cols=45 Identities=11% Similarity=0.023 Sum_probs=30.2
Q ss_pred HHHHHHHccC-CCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhC
Q 028130 64 ADLEKFFGGE-GKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLN 112 (213)
Q Consensus 64 ~~L~~~F~~~-G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~ 112 (213)
+.++++++++ |+++.+.+...... .++++++.+.+.|.++.-.+.
T Consensus 23 ~a~~~~~e~~Gg~l~~~y~t~G~yD----~v~i~eaPD~~~a~~~~l~i~ 68 (91)
T PF08734_consen 23 EAVRALIEALGGKLKSFYWTLGEYD----FVVIVEAPDDETAAAASLAIR 68 (91)
T ss_pred HHHHHHHHHcCCEEEEEEEecCCCC----EEEEEEcCCHHHHHHHHHHHH
Confidence 4567777776 57777777654321 467888888888877765453
No 200
>PF01282 Ribosomal_S24e: Ribosomal protein S24e; InterPro: IPR001976 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family contains the S24e ribosomal proteins from eukaryotes and archaebacteria. These proteins have 101 to 148 amino acids.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2V94_B 1YWX_A 2G1D_A 3IZ6_U 1XN9_A 2XZM_P 2XZN_P 3U5G_Y 3J16_D 3IZB_U ....
Probab=43.09 E-value=91 Score=21.16 Aligned_cols=46 Identities=13% Similarity=0.193 Sum_probs=22.7
Q ss_pred CCCcHHHHHHHHcc-CC----CeEEEEEeeCCCCCCcccEEEEEeecHHHHH
Q 028130 59 TRVTNADLEKFFGG-EG----KVTECHLVTDPRTRESCGFAFVTMETVEGAD 105 (213)
Q Consensus 59 ~~~t~~~L~~~F~~-~G----~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~ 105 (213)
.+.+..+|++.+.+ |+ .|.-..|......+.+.|||.| |++.+.++
T Consensus 11 ~Tpsr~ei~~klA~~~~~~~~~ivv~~~~t~fG~~~s~g~a~I-Yd~~e~~k 61 (84)
T PF01282_consen 11 PTPSRKEIREKLAAMLNVDPDLIVVFGIKTEFGGGKSTGFAKI-YDSAEALK 61 (84)
T ss_dssp SS--HHHHHHHHHHHHTSTGCCEEEEEEEESSSSSEEEEEEEE-ESSHHHHH
T ss_pred CCCCHHHHHHHHHHHhCCCCCeEEEeccEecCCCceEEEEEEE-eCCHHHHH
Confidence 34566777766654 33 2333344444444555666655 45555544
No 201
>PF05036 SPOR: Sporulation related domain; InterPro: IPR007730 This 70 residue domain is composed of two 35 residue repeats that are found in bacterial proteins involved in sporulation and cell division, such as FtsN, CwlM and RlpA. This repeat might be involved in binding peptidoglycan. FtsN is an essential cell division protein with a simple bitopic topology: a short N-terminal cytoplasmic segment fused to a large carboxy periplasmic domain through a single transmembrane domain. The repeats lie at the periplasmic C terminus, which has an RNP-like fold []. FtsN localises to the septum ring complex. The CwlM protein is a cell wall hydrolase, where the C-terminal region, including the repeats, determines substrate specificity []. RlpA is a rare lipoprotein A protein that may be important for cell division. Its N-terminal cysteine may be attached to thioglyceride and N-fatty acyl residues [].; PDB: 1X60_A 1UTA_A.
Probab=42.55 E-value=4.4 Score=26.07 Aligned_cols=61 Identities=13% Similarity=0.110 Sum_probs=31.6
Q ss_pred CCeEEEeCCCCCCcHHHHHHHHccCCCeEE-EEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhC
Q 028130 49 GNNLYVTGLSTRVTNADLEKFFGGEGKVTE-CHLVTDPRTRESCGFAFVTMETVEGADRCIKYLN 112 (213)
Q Consensus 49 ~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~-~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~ 112 (213)
...|.|+.+...-..+.+...+...|.-.. +.+... +..--+-+-.|.+.++|+.++..|.
T Consensus 4 ~y~vQv~s~~~~~~A~~~~~~l~~~g~~~~~~~~~~~---~~~yrV~~G~f~~~~~A~~~~~~l~ 65 (76)
T PF05036_consen 4 GYYVQVGSFSSEENAERLLAKLKKKGPDAYVVQVSKG---GPWYRVRVGPFSSREEAEAALRKLK 65 (76)
T ss_dssp EEEEEEEEES-HHHHHHHHHHHHHHT-----EEEEEE---TTCEEEEECCECTCCHHHHHHHHHH
T ss_pred cEEEEEEEcCCHHHHHHHHHHHHhcCCCcceEEEecC---CceEEEEECCCCCHHHHHHHHHHHh
Confidence 456777766654444444444544444322 222211 1111123347899999999999887
No 202
>PF04127 DFP: DNA / pantothenate metabolism flavoprotein; InterPro: IPR007085 This entry represents the C-terminal domain found in DNA/pantothenate metabolism flavoproteins, which affects synthesis of DNA and pantothenate metabolism. These proteins contain ATP, phosphopantothenate, and cysteine binding sites. The structure of this domain has been determined in human phosphopantothenoylcysteine (PPC) synthetase [] and as the PPC synthase domain (CoaB) from the Escherichia coli coenzyme A bifunctional protein CoaBC []. This domain adopts a 3-layer alpha/beta/alpha fold with mixed beta-sheets, which topologically resembles a combination of Rossmann-like and ribokinase-like folds. The structure of these proteins predicts a ping pong mechanism with initial formation of an acyladenylate intermediate, followed by release of pyrophosphate and attack by cysteine to form the final products PPC and AMP. ; PDB: 1U7W_A 1U7U_A 1U80_C 1U7Z_A 1P9O_B 2GK4_A.
Probab=42.19 E-value=81 Score=24.78 Aligned_cols=59 Identities=22% Similarity=0.285 Sum_probs=38.1
Q ss_pred eEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCC-CCcccEEEEEeecHHHHHHHHHHh
Q 028130 51 NLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRT-RESCGFAFVTMETVEGADRCIKYL 111 (213)
Q Consensus 51 ~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t-~~~~g~afV~f~~~~~a~~Ai~~l 111 (213)
.=||+|.....+-..|-+.|...|. .|.++..+.. ..+.++-+|.|.+.+++.+++..+
T Consensus 20 VR~ItN~SSG~~G~~lA~~~~~~Ga--~V~li~g~~~~~~p~~~~~i~v~sa~em~~~~~~~ 79 (185)
T PF04127_consen 20 VRFITNRSSGKMGAALAEEAARRGA--EVTLIHGPSSLPPPPGVKVIRVESAEEMLEAVKEL 79 (185)
T ss_dssp SEEEEES--SHHHHHHHHHHHHTT---EEEEEE-TTS----TTEEEEE-SSHHHHHHHHHHH
T ss_pred ceEecCCCcCHHHHHHHHHHHHCCC--EEEEEecCccccccccceEEEecchhhhhhhhccc
Confidence 5688999988888889888887774 3333333322 224578999999999998888755
No 203
>TIGR00387 glcD glycolate oxidase, subunit GlcD. This protein, the glycolate oxidase GlcD subunit, is similar in sequence to that of several D-lactate dehydrogenases, including that of E. coli. The glycolate oxidase has been found to have some D-lactate dehydrogenase activity.
Probab=41.94 E-value=73 Score=28.23 Aligned_cols=52 Identities=29% Similarity=0.348 Sum_probs=35.2
Q ss_pred CCcHHHHHHHHcc----CCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhC
Q 028130 60 RVTNADLEKFFGG----EGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLN 112 (213)
Q Consensus 60 ~~t~~~L~~~F~~----~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~ 112 (213)
.....+|..+|.. +|-|+.+.|...+.. ....+.++.|.+.++|.+|+..+-
T Consensus 143 ~~~g~dl~~l~~Gs~GtlGiit~~~lkl~p~p-~~~~~~~~~f~~~~~~~~~~~~~~ 198 (413)
T TIGR00387 143 DVAGYDLTGLFVGSEGTLGIVTEATLKLLPKP-ENIVVALAFFDSIEKAMQAVYDII 198 (413)
T ss_pred CCCCCChhhhcccCCccceEEEEEEEEeecCC-CccEEEEEECCCHHHHHHHHHHHH
Confidence 3334467777753 677888877665532 233567889999999999886553
No 204
>PF14026 DUF4242: Protein of unknown function (DUF4242)
Probab=41.87 E-value=1e+02 Score=20.45 Aligned_cols=61 Identities=10% Similarity=-0.027 Sum_probs=36.9
Q ss_pred EEEeCCCCCCcHHHHHHHHcc-------CCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCce
Q 028130 52 LYVTGLSTRVTNADLEKFFGG-------EGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSV 115 (213)
Q Consensus 52 v~V~nLp~~~t~~~L~~~F~~-------~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~ 115 (213)
|...+||..+|.++|.++..+ +..|.-+........+ +-||+.+=.+++.+.++-+.- |..
T Consensus 3 mver~~p~~it~e~l~~~~~~~~~~~~~~~~V~w~~s~v~~d~~--k~~Cly~Ap~~eaV~~~~~~a-G~p 70 (77)
T PF14026_consen 3 MVERDFPGGITAEDLAAAHAKSCAVQAEMPGVQWLRSYVSEDDG--KIFCLYEAPDEEAVREHARRA-GLP 70 (77)
T ss_pred EEEEeCCCCCCHHHHHHHHHHhHHHHhhcCCeEEEEEEEecCCC--eEEEEEECCCHHHHHHHHHHc-CCC
Confidence 456789988999988776543 3344444333332222 357777777887777776633 543
No 205
>PF09902 DUF2129: Uncharacterized protein conserved in bacteria (DUF2129); InterPro: IPR016979 This is a group of uncharacterised conserved proteins.
Probab=39.99 E-value=72 Score=21.05 Aligned_cols=38 Identities=13% Similarity=0.101 Sum_probs=26.8
Q ss_pred HHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCce
Q 028130 69 FFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSV 115 (213)
Q Consensus 69 ~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~ 115 (213)
.+.+||.|..+.-.. .|+ |.|-+.++++..++.|....
T Consensus 16 ~L~kfG~i~Y~Skk~--------kYv-vlYvn~~~~e~~~~kl~~l~ 53 (71)
T PF09902_consen 16 QLRKFGDIHYVSKKM--------KYV-VLYVNEEDVEEIIEKLKKLK 53 (71)
T ss_pred hHhhcccEEEEECCc--------cEE-EEEECHHHHHHHHHHHhcCC
Confidence 467899997764222 255 45778899999998886654
No 206
>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=39.45 E-value=22 Score=20.17 Aligned_cols=18 Identities=17% Similarity=0.279 Sum_probs=10.9
Q ss_pred CCCCcHHHHHHHHccCCC
Q 028130 58 STRVTNADLEKFFGGEGK 75 (213)
Q Consensus 58 p~~~t~~~L~~~F~~~G~ 75 (213)
-..+++++|+++|.+...
T Consensus 18 ~~Dtd~~~Lk~vF~~i~~ 35 (36)
T PF11411_consen 18 TVDTDEDQLKEVFNRIKK 35 (36)
T ss_dssp SS---HHHHHHHHHCS--
T ss_pred cccCCHHHHHHHHHHhcc
Confidence 356889999999987653
No 207
>PF08156 NOP5NT: NOP5NT (NUC127) domain; InterPro: IPR012974 This N-terminal domain is found in RNA-binding proteins of the NOP5 family [].
Probab=39.28 E-value=9.6 Score=24.81 Aligned_cols=39 Identities=18% Similarity=0.174 Sum_probs=26.0
Q ss_pred HHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhC
Q 028130 64 ADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLN 112 (213)
Q Consensus 64 ~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~ 112 (213)
++|++.|..+.....+.- -.+|.-|.+.++|..++..+.
T Consensus 27 ~~v~~~~~~~~~f~k~vk----------L~aF~pF~s~~~ALe~~~ais 65 (67)
T PF08156_consen 27 EEVQKSFSDPEKFSKIVK----------LKAFSPFKSAEEALENANAIS 65 (67)
T ss_pred HHHHHHHcCHHHHhhhhh----------hhhccCCCCHHHHHHHHHHhh
Confidence 577777776544322211 168999999998888877653
No 208
>PF11491 DUF3213: Protein of unknown function (DUF3213) ; InterPro: IPR021583 The backbone structure of this family of proteins has been determined however the function remains unknown. The protein has an alpha and beta structure with a ferredoxin-like fold []. ; PDB: 2F40_A.
Probab=38.74 E-value=60 Score=22.16 Aligned_cols=67 Identities=15% Similarity=0.136 Sum_probs=26.1
Q ss_pred EEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeec----HHHHHHHHHHhCCceeCCeeeEEEe
Q 028130 52 LYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMET----VEGADRCIKYLNRSVLEGRLITVEK 125 (213)
Q Consensus 52 v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~----~~~a~~Ai~~l~g~~i~g~~i~V~~ 125 (213)
|-+++|.++-. .+++-.+++-..|-.+.|.-. . ..|||.|.. .+....+++.|....+.-+.|+|+.
T Consensus 3 lkfg~It~eeA-~~~QYeLsk~~~vyRvFiNgY-----a-r~g~VifDe~kl~~e~lL~~le~~kpEVi~ek~lTveE 73 (88)
T PF11491_consen 3 LKFGNITPEEA-MVKQYELSKNEAVYRVFINGY-----A-RNGFVIFDESKLSKEELLEMLEEFKPEVIEEKELTVEE 73 (88)
T ss_dssp EE--S-TTTTT-HHHHHTTTTTTTB------TT-----S-S--EEE--B-S-SHHHH---HHHTTT-SS-------SS
T ss_pred cccCCCCHHHH-HHHHHHhhcccceeeeeeccc-----c-cceEEEECcccCCHHHHHHHHHhcChhheeeccccHHH
Confidence 44566654322 234445666677766665422 2 268999974 5777888888888888888888764
No 209
>KOG2548 consensus SWAP mRNA splicing regulator [RNA processing and modification]
Probab=38.62 E-value=19 Score=33.01 Aligned_cols=9 Identities=22% Similarity=0.379 Sum_probs=4.0
Q ss_pred CCeEEEeCC
Q 028130 49 GNNLYVTGL 57 (213)
Q Consensus 49 ~~~v~V~nL 57 (213)
...-||+-+
T Consensus 320 eKieyITsF 328 (653)
T KOG2548|consen 320 EKIEYITSF 328 (653)
T ss_pred ccceEEeec
Confidence 334455444
No 210
>PF05573 NosL: NosL; InterPro: IPR008719 NosL is one of the accessory proteins of the nos (nitrous oxide reductase) gene cluster. NosL is a monomeric protein of 18,540 MW that specifically and stoichiometrically binds Cu(I). The copper ion in NosL is ligated by a Cys residue, and one Met and one His are thought to serve as the other ligands. It is possible that NosL is a copper chaperone involved in metallocentre assembly []. This entry also contains HTH-type transcriptional repressors, including YcnK. YcnK may act as a negative transcriptional regulator of YcnJ in the presence of copper and may use copper as a corepressor. The gene, ycnK, is significantly induced under copper-limiting conditions.; PDB: 2HQ3_A 2HPU_A.
Probab=38.55 E-value=10 Score=28.73 Aligned_cols=25 Identities=16% Similarity=0.186 Sum_probs=17.7
Q ss_pred cccEEEEEeecHHHHHHHHHHhCCc
Q 028130 90 SCGFAFVTMETVEGADRCIKYLNRS 114 (213)
Q Consensus 90 ~~g~afV~f~~~~~a~~Ai~~l~g~ 114 (213)
+.|..+|-|.+.++|++..+...|.
T Consensus 113 pMg~~~~aF~~~~~A~~F~~~~GG~ 137 (149)
T PF05573_consen 113 PMGPDLIAFASKEDAEAFAKEHGGK 137 (149)
T ss_dssp TTS--EEEES-HHHHHHHHHHTEEE
T ss_pred CCCCcccccCCHHHHHHHHHHcCCE
Confidence 3468899999999999999976444
No 211
>PTZ00191 60S ribosomal protein L23a; Provisional
Probab=38.36 E-value=86 Score=23.76 Aligned_cols=56 Identities=16% Similarity=0.156 Sum_probs=35.8
Q ss_pred eEEEeCCCCCCcHHHHHHHHcc-CC-CeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHH
Q 028130 51 NLYVTGLSTRVTNADLEKFFGG-EG-KVTECHLVTDPRTRESCGFAFVTMETVEGADRCIK 109 (213)
Q Consensus 51 ~v~V~nLp~~~t~~~L~~~F~~-~G-~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~ 109 (213)
..||.-+....+..+|++.+++ |+ .|..|..+.-+. + .-=|||.+....+|.+...
T Consensus 83 N~yvF~Vd~kAnK~qIK~AVEklf~VkV~kVNTli~p~-g--~KKA~V~L~~~~~aidva~ 140 (145)
T PTZ00191 83 NTLVFIVDQRANKTQIKKAVEKLYDVKVVKVNTLITPD-G--LKKAYIRLSPDVDALDVAN 140 (145)
T ss_pred CEEEEEEcCCCCHHHHHHHHHHHhCCeeEEEEeEEcCC-C--ceEEEEEECCCCcHHHHHH
Confidence 4556667888899999988887 44 345554443322 1 1258999977776655444
No 212
>COG3254 Uncharacterized conserved protein [Function unknown]
Probab=38.07 E-value=1e+02 Score=21.96 Aligned_cols=41 Identities=15% Similarity=0.183 Sum_probs=24.8
Q ss_pred HHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHH
Q 028130 64 ADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRC 107 (213)
Q Consensus 64 ~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~A 107 (213)
.+|.+++.+.|. .+..|..+..+ +.-||++++.+.+..-++
T Consensus 27 PE~~a~lk~agi-~nYSIfLde~~--n~lFgy~E~~d~~a~m~~ 67 (105)
T COG3254 27 PELLALLKEAGI-RNYSIFLDEEE--NLLFGYWEYEDFEADMAK 67 (105)
T ss_pred HHHHHHHHHcCC-ceeEEEecCCc--ccEEEEEEEcChHHHHHH
Confidence 457777888774 45555555433 335999999854443333
No 213
>PF03439 Spt5-NGN: Early transcription elongation factor of RNA pol II, NGN section; InterPro: IPR005100 Spt5p and prokaryotic NusG are shown to contain a novel 'NGN' domain. The combined NGN and KOW motif regions of Spt5 form the binding domain with Spt4 []. Spt5 complexes with Spt4 as a 1:1 heterodimer snf this Spt5-Spt4 complex regulates early transcription elongation by RNA polymerase II and has an imputed role in pre-mRNA processing via its physical association with mRNA capping enzymes. The Schizosaccharomyces pombe core Spt5-Spt4 complex is a heterodimer bearing a trypsin-resistant Spt4-binding domain within the Spt5 subunit []. ; PDB: 3H7H_B 3QQC_D 3P8B_B 2EXU_A.
Probab=37.64 E-value=52 Score=22.18 Aligned_cols=26 Identities=15% Similarity=0.253 Sum_probs=21.3
Q ss_pred cccEEEEEeecHHHHHHHHHHhCCce
Q 028130 90 SCGFAFVTMETVEGADRCIKYLNRSV 115 (213)
Q Consensus 90 ~~g~afV~f~~~~~a~~Ai~~l~g~~ 115 (213)
.+||-|||=.+..++..||..+.+..
T Consensus 43 lkGyIyVEA~~~~~V~~ai~gi~~i~ 68 (84)
T PF03439_consen 43 LKGYIYVEAERESDVKEAIRGIRHIR 68 (84)
T ss_dssp STSEEEEEESSHHHHHHHHTT-TTEE
T ss_pred CceEEEEEeCCHHHHHHHHhccccee
Confidence 56899999999999999998776543
No 214
>smart00666 PB1 PB1 domain. Phox and Bem1p domain, present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.
Probab=37.24 E-value=1.2e+02 Score=19.76 Aligned_cols=56 Identities=13% Similarity=0.086 Sum_probs=35.1
Q ss_pred EEEeCCCCCCcHHHHHHHHc-cCCCe-EEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhC
Q 028130 52 LYVTGLSTRVTNADLEKFFG-GEGKV-TECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLN 112 (213)
Q Consensus 52 v~V~nLp~~~t~~~L~~~F~-~~G~i-~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~ 112 (213)
+++-.|+..++-++|...+. +|+.. ..+.|...... --+|.+.+.++.+.|+..+.
T Consensus 12 ~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y~Ded-----gd~v~l~sd~Dl~~a~~~~~ 69 (81)
T smart00666 12 TRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKYQDED-----GDLVSLTSDEDLEEAIEEYD 69 (81)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEEECCC-----CCEEEecCHHHHHHHHHHHH
Confidence 44556788888888876654 35432 12333222111 13889999999999999664
No 215
>COG5584 Predicted small secreted protein [Function unknown]
Probab=36.94 E-value=83 Score=22.13 Aligned_cols=31 Identities=13% Similarity=0.159 Sum_probs=24.0
Q ss_pred CCCCCCcHHHHHHHHccCCCeEEEEEeeCCC
Q 028130 56 GLSTRVTNADLEKFFGGEGKVTECHLVTDPR 86 (213)
Q Consensus 56 nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~ 86 (213)
|+..+.--.-+++.|.+++.|+..+|...+.
T Consensus 29 ~is~e~alk~vk~afk~~mnI~GSwI~~~pe 59 (103)
T COG5584 29 NISRENALKVVKEAFKQFMNIKGSWIVYEPE 59 (103)
T ss_pred ccChhHHHHHHHHHhcccCCcceeEEEEecc
Confidence 4555556677899999999999888876653
No 216
>PF14111 DUF4283: Domain of unknown function (DUF4283)
Probab=36.25 E-value=15 Score=27.25 Aligned_cols=69 Identities=16% Similarity=0.172 Sum_probs=42.7
Q ss_pred eEEEeCCC--CCCcHHHHHHHHcc----CCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEE
Q 028130 51 NLYVTGLS--TRVTNADLEKFFGG----EGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVE 124 (213)
Q Consensus 51 ~v~V~nLp--~~~t~~~L~~~F~~----~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~ 124 (213)
...|+.+. ..++...|...+.+ .+.+.-..+- .++..+.|.+.++++.++. .....+++..|.++
T Consensus 17 ~~lVg~~l~~~~~~~~~l~~~l~~~W~~~~~~~i~~l~--------~~~fl~~F~~~~d~~~vl~-~~p~~~~~~~~~l~ 87 (153)
T PF14111_consen 17 LCLVGRVLSPKPISLSALEQELAKIWKLKGGVKIRDLG--------DNLFLFQFESEEDRQRVLK-GGPWNFNGHFLILQ 87 (153)
T ss_pred eEEEEEECCCCCCCHHHHHHHHHHHhCCCCcEEEEEeC--------CCeEEEEEEeccceeEEEe-cccccccccchhhh
Confidence 34455442 23556666666554 3333333331 1689999999999999987 44556777777776
Q ss_pred eccc
Q 028130 125 KAKR 128 (213)
Q Consensus 125 ~a~~ 128 (213)
...+
T Consensus 88 ~W~~ 91 (153)
T PF14111_consen 88 RWSP 91 (153)
T ss_pred hhcc
Confidence 5543
No 217
>PF00585 Thr_dehydrat_C: C-terminal regulatory domain of Threonine dehydratase; InterPro: IPR001721 Threonine dehydratases including Serine/threonine dehydratase (see IPR001926 from INTERPRO) contain a common C-terminal region that may have a regulatory role. Some members contain two copies of this region [].; GO: 0004794 L-threonine ammonia-lyase activity, 0009097 isoleucine biosynthetic process; PDB: 1TDJ_A 3IAU_A.
Probab=36.10 E-value=1.1e+02 Score=20.87 Aligned_cols=62 Identities=16% Similarity=0.239 Sum_probs=34.8
Q ss_pred eEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeec--HHHHHHHHHHhCCc
Q 028130 51 NLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMET--VEGADRCIKYLNRS 114 (213)
Q Consensus 51 ~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~--~~~a~~Ai~~l~g~ 114 (213)
.+|.-.+|... ..|+.|+...+...+|.......++...+.+||-|.- .++.++.++.|+..
T Consensus 11 ~~~~v~~PE~p--Gal~~F~~~l~~~~nITeF~YR~~~~~~a~vlvgi~v~~~~~~~~l~~~L~~~ 74 (91)
T PF00585_consen 11 ALFAVEFPERP--GALKRFLDALGPRNNITEFHYRYSGDDFARVLVGIEVPDAEDLEELIERLKAL 74 (91)
T ss_dssp EEEEEE--BST--THCHHHHHCCSSSE-EEEEEEE-TTTSCSEEEEEEE-SSTHHHHHHHHHHTSS
T ss_pred EEEEEECCCCc--cHHHHHHHHhCCCceEEEEEEcCCCCCeeeEEEEEEeCCHHHHHHHHHHHHHc
Confidence 45556677643 3567777777765544443334455566788887764 45556666777654
No 218
>PF09869 DUF2096: Uncharacterized protein conserved in archaea (DUF2096); InterPro: IPR017098 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=36.09 E-value=2e+02 Score=22.34 Aligned_cols=46 Identities=15% Similarity=0.157 Sum_probs=38.0
Q ss_pred CCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHh
Q 028130 56 GLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYL 111 (213)
Q Consensus 56 nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l 111 (213)
+|+..+.++-|+++.+.+|-|... .+. .-.+.|-+.+..+.||+.|
T Consensus 118 ~l~~~i~~erl~ei~E~~gvI~Ef---ee~-------~~V~I~Gdke~Ik~aLKe~ 163 (169)
T PF09869_consen 118 KLKKPIQEERLQEISEWHGVIFEF---EED-------DKVVIEGDKERIKKALKEF 163 (169)
T ss_pred ecCccchHHHHHHHHHHhceeEEe---cCC-------cEEEEeccHHHHHHHHHHH
Confidence 799999999999999999988665 221 4578889999999999876
No 219
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=35.41 E-value=46 Score=27.75 Aligned_cols=34 Identities=15% Similarity=0.108 Sum_probs=25.2
Q ss_pred CCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEe
Q 028130 49 GNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLV 82 (213)
Q Consensus 49 ~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~ 82 (213)
.....|+|||+.++-.-|..++...-.+..+.++
T Consensus 95 ~~~~vVaNlPY~Isspii~kll~~~~~~~~~v~M 128 (259)
T COG0030 95 QPYKVVANLPYNISSPILFKLLEEKFIIQDMVLM 128 (259)
T ss_pred CCCEEEEcCCCcccHHHHHHHHhccCccceEEEE
Confidence 3467799999999999999888876554344443
No 220
>PF12623 Hen1_L: RNA repair, ligase-Pnkp-associating, region of Hen1; InterPro: IPR024740 This entry represents the N-terminal domain of the bacterial Hen1 protein, which is a 3' terminal RNA ribose 2'-O-methyltransferase that is involved in bacterial RNA repair []. Hen1 forms a heterotetramer with Pnkp. The heterotetramer has been shown to repair transfer RNAs cleaved by ribotoxins in vitro []. The N-terminal domain of Hen1 contributes to the ligase activity of the heterotetramer.
Probab=35.13 E-value=1.1e+02 Score=25.04 Aligned_cols=62 Identities=16% Similarity=0.124 Sum_probs=44.2
Q ss_pred CCeEEEeCCCCCCcHHHHHHHHccCCC-eEEEEEeeCC---CCCCcccEEEEEeecHHHHHHHHHHh
Q 028130 49 GNNLYVTGLSTRVTNADLEKFFGGEGK-VTECHLVTDP---RTRESCGFAFVTMETVEGADRCIKYL 111 (213)
Q Consensus 49 ~~~v~V~nLp~~~t~~~L~~~F~~~G~-i~~~~i~~~~---~t~~~~g~afV~f~~~~~a~~Ai~~l 111 (213)
.-+|.|.-||..-.++-++.+|+..|= |..-.+..+. ..|.+. |..|+..-..-.++||.+|
T Consensus 118 pL~v~~p~lp~rGg~~l~~rLFePLGw~V~a~~~~Ld~~fP~WG~S~-y~~l~L~g~~rl~daL~HL 183 (245)
T PF12623_consen 118 PLEVRLPALPCRGGEELVRRLFEPLGWTVTAEPVPLDEQFPEWGDSR-YVDLTLTGTVRLADALNHL 183 (245)
T ss_pred ceEEEeeeeecCCcHHHHHHhhcCcCceEEeEeccCCccCccccCCc-ceEEEEeeeEEHHHHHhhh
Confidence 347888899998899999999999884 3333344443 235553 7888888777777777755
No 221
>PRK10905 cell division protein DamX; Validated
Probab=34.46 E-value=79 Score=27.23 Aligned_cols=62 Identities=15% Similarity=0.164 Sum_probs=37.7
Q ss_pred CCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEE--EEeecHHHHHHHHHHhCCc
Q 028130 48 PGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAF--VTMETVEGADRCIKYLNRS 114 (213)
Q Consensus 48 ~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~af--V~f~~~~~a~~Ai~~l~g~ 114 (213)
..++|-|..+. +++.|++|..+.|. ....+......|+. .|.. =.|.+.++|++||..|-..
T Consensus 246 ~~YTLQL~A~S---s~~~l~~fakKlgL-~~y~vy~TtRnGkp-WYVV~yG~YaSraeAk~AiakLPa~ 309 (328)
T PRK10905 246 SHYTLQLSSSS---NYDNLNGWAKKENL-KNYVVYETTRNGQP-WYVLVSGVYASKEEAKRAVSTLPAD 309 (328)
T ss_pred CceEEEEEecC---CHHHHHHHHHHcCC-CceEEEEeccCCce-EEEEEecCCCCHHHHHHHHHHCCHH
Confidence 34677776655 45777777777753 33333333234432 2332 3678999999999988644
No 222
>TIGR01033 DNA-binding regulatory protein, YebC/PmpR family. This model describes a minimally characterized protein family, restricted to bacteria excepting for some eukaryotic sequences that have possible transit peptides. YebC from E. coli is crystallized, and PA0964 from Pseudomonas aeruginosa has been shown to be a sequence-specific DNA-binding regulatory protein.
Probab=33.61 E-value=1.5e+02 Score=24.41 Aligned_cols=46 Identities=13% Similarity=0.191 Sum_probs=30.0
Q ss_pred CCCCeEEEeCCCCCC--cHHHHHHHHccCCCeE----EEEEeeCCCCCCcccEEEEEee
Q 028130 47 NPGNNLYVTGLSTRV--TNADLEKFFGGEGKVT----ECHLVTDPRTRESCGFAFVTME 99 (213)
Q Consensus 47 ~~~~~v~V~nLp~~~--t~~~L~~~F~~~G~i~----~~~i~~~~~t~~~~g~afV~f~ 99 (213)
+.+..|+|--|..+. |..+|+.+|.++|... .+.++.++ .++|+|.
T Consensus 92 P~GvaiiVe~lTDN~nRt~~~ir~~f~K~gg~l~~~gsv~~~Fe~-------kG~i~~~ 143 (238)
T TIGR01033 92 PGGVAIIVECLTDNKNRTASEVRSAFNKNGGSLGEPGSVSYLFSR-------KGVIEVP 143 (238)
T ss_pred CCceEEEEEEecCCHHhHHHHHHHHHHHcCCeeCCCCceeeeeec-------ceEEEEC
Confidence 456677777776543 4688999999987532 24444443 5677774
No 223
>COG5470 Uncharacterized conserved protein [Function unknown]
Probab=33.60 E-value=71 Score=22.37 Aligned_cols=18 Identities=17% Similarity=0.366 Sum_probs=14.4
Q ss_pred ccEEEEEeecHHHHHHHH
Q 028130 91 CGFAFVTMETVEGADRCI 108 (213)
Q Consensus 91 ~g~afV~f~~~~~a~~Ai 108 (213)
.....|+|.+.+.|..+.
T Consensus 53 tr~vviEFps~~~ar~~y 70 (96)
T COG5470 53 TRNVVIEFPSLEAARDCY 70 (96)
T ss_pred ccEEEEEcCCHHHHHHHh
Confidence 357899999998887764
No 224
>PF02426 MIase: Muconolactone delta-isomerase; InterPro: IPR003464 This small enzyme forms a homodecameric complex, that catalyses the third step in the catabolism of catechol to succinate- and acetyl-coa in the beta-ketoadipate pathway (5.3.3.4 from EC). The protein has a ferredoxin-like fold according to SCOP.; GO: 0006725 cellular aromatic compound metabolic process
Probab=33.51 E-value=1.6e+02 Score=20.34 Aligned_cols=57 Identities=9% Similarity=0.143 Sum_probs=39.9
Q ss_pred CCCCCCcHHHHHHH----------HccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCcee
Q 028130 56 GLSTRVTNADLEKF----------FGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVL 116 (213)
Q Consensus 56 nLp~~~t~~~L~~~----------F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i 116 (213)
+||..++.+++.++ +.+-|.+..+.-+ .|....++++.-++.++..+.|..|.=..+
T Consensus 10 ~~P~~~~~~~~~~~~a~E~~~a~eLq~~G~~~~lWr~----~G~~~n~~Ifdv~d~~eLh~lL~sLPL~p~ 76 (91)
T PF02426_consen 10 NVPPDMPPEEVDRLKAREKARAQELQRQGKWRHLWRV----VGRYANVSIFDVEDNDELHELLSSLPLFPY 76 (91)
T ss_pred eCCCCCCHHHHHHHHHHHHHHHHHHHHCCeeeEEEEe----cCCcceEEEEECCCHHHHHHHHHhCCCccc
Confidence 68888887765443 4456888888765 344446888888888888888776654443
No 225
>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=33.11 E-value=39 Score=23.28 Aligned_cols=49 Identities=22% Similarity=0.394 Sum_probs=25.6
Q ss_pred CCCeEEEeCCCCCCcHHHHHHHHccC--CCeEEEEEeeCCCCCCcccEEEEEeec
Q 028130 48 PGNNLYVTGLSTRVTNADLEKFFGGE--GKVTECHLVTDPRTRESCGFAFVTMET 100 (213)
Q Consensus 48 ~~~~v~V~nLp~~~t~~~L~~~F~~~--G~i~~~~i~~~~~t~~~~g~afV~f~~ 100 (213)
...-|||+++...+-+. |.+.+.+. ++- .+.|... +....||+|..+-+
T Consensus 24 v~~GVyVg~~s~rVRe~-lW~~v~~~~~~~G-~avm~~~--~~~e~G~~~~t~G~ 74 (87)
T TIGR01873 24 PRAGVYVGGVSASVRER-IWDYLAQHCPPKG-SLVITWS--SNTCPGFEFFTLGE 74 (87)
T ss_pred cCCCcEEcCCCHHHHHH-HHHHHHHhCCCCc-cEEEEEe--CCCCCCcEEEecCC
Confidence 44579999998776654 33333332 221 2222222 22244788877643
No 226
>PHA01632 hypothetical protein
Probab=32.87 E-value=37 Score=21.30 Aligned_cols=20 Identities=15% Similarity=0.305 Sum_probs=15.9
Q ss_pred EEeCCCCCCcHHHHHHHHcc
Q 028130 53 YVTGLSTRVTNADLEKFFGG 72 (213)
Q Consensus 53 ~V~nLp~~~t~~~L~~~F~~ 72 (213)
.|..+|...|+++|+.++.+
T Consensus 20 lieqvp~kpteeelrkvlpk 39 (64)
T PHA01632 20 LIEQVPQKPTEEELRKVLPK 39 (64)
T ss_pred ehhhcCCCCCHHHHHHHHHH
Confidence 34688999999999887654
No 227
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=32.67 E-value=1.1e+02 Score=26.83 Aligned_cols=51 Identities=10% Similarity=-0.056 Sum_probs=36.1
Q ss_pred HHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeee
Q 028130 63 NADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLI 121 (213)
Q Consensus 63 ~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i 121 (213)
-++|+..|..---+..+....+ --||.|.++.+.++-|-..|+..+.+..|
T Consensus 264 Y~~Le~HF~~~hy~ct~qtc~~--------~k~~vf~~~~el~~h~~~~h~~~~~~~~~ 314 (493)
T COG5236 264 YEDLEAHFRNAHYCCTFQTCRV--------GKCYVFPYHTELLEHLTRFHKVNARLSEI 314 (493)
T ss_pred HHHHHHHhhcCceEEEEEEEec--------CcEEEeccHHHHHHHHHHHhhcccccCcC
Confidence 3567777776555555555543 24788999989888888889888777654
No 228
>smart00738 NGN In Spt5p, this domain may confer affinity for Spt4p. It possesses a RNP-like fold. In Spt5p, this domain may confer affinity for Spt4p.Spt4p
Probab=31.48 E-value=1.1e+02 Score=21.03 Aligned_cols=23 Identities=17% Similarity=0.228 Sum_probs=18.5
Q ss_pred cEEEEEeecHHHHHHHHHHhCCc
Q 028130 92 GFAFVTMETVEGADRCIKYLNRS 114 (213)
Q Consensus 92 g~afV~f~~~~~a~~Ai~~l~g~ 114 (213)
||.||++.-.+++..+|..+.|.
T Consensus 60 GYvFv~~~~~~~~~~~i~~~~~v 82 (106)
T smart00738 60 GYIFVEADLEDEVWTAIRGTPGV 82 (106)
T ss_pred CEEEEEEEeCCcHHHHHhcCCCc
Confidence 89999998777777888777664
No 229
>PRK04199 rpl10e 50S ribosomal protein L10e; Reviewed
Probab=31.34 E-value=2.6e+02 Score=21.89 Aligned_cols=39 Identities=18% Similarity=0.179 Sum_probs=21.1
Q ss_pred CCCeEEEEEeeCCCCCCcccEEEEEee----cHHHHHHHHHHhCCceeCC
Q 028130 73 EGKVTECHLVTDPRTRESCGFAFVTME----TVEGADRCIKYLNRSVLEG 118 (213)
Q Consensus 73 ~G~i~~~~i~~~~~t~~~~g~afV~f~----~~~~a~~Ai~~l~g~~i~g 118 (213)
+|.+........+ |-.++|+. +.+.|.+||... ...|-.
T Consensus 116 kG~p~~wva~Vk~------G~ilfei~~~~~~~~~akeAlr~a-~~KLP~ 158 (172)
T PRK04199 116 FGKPVGTAARVEK------GQKIFTVRVNPEHLEAAKEALRRA-AMKLPT 158 (172)
T ss_pred CCCccEEEEEECc------CCEEEEEEecCCCHHHHHHHHHHh-hccCCC
Confidence 5555544433332 44555665 667788888733 333433
No 230
>PF12687 DUF3801: Protein of unknown function (DUF3801); InterPro: IPR024234 This functionally uncharacterised protein family is found in bacteria. Proteins found in this family are typically between 158 and 187 amino acids in length and include the PcfB protein.
Probab=31.23 E-value=1.2e+02 Score=24.29 Aligned_cols=54 Identities=15% Similarity=0.118 Sum_probs=32.8
Q ss_pred HHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCe
Q 028130 64 ADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGR 119 (213)
Q Consensus 64 ~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~ 119 (213)
.+|..++.+||. .+.|+.|..++...-..|+.=.+.+.+..|++.+....+...
T Consensus 45 k~F~k~AkKyGV--~yav~kdk~~~~~~~~V~FkA~Da~~i~~af~~~~~~~~~~~ 98 (204)
T PF12687_consen 45 KEFKKEAKKYGV--DYAVKKDKSTGPGKYDVFFKAKDADVINRAFKEFSAKKLKKE 98 (204)
T ss_pred HHHHHHHHHcCC--ceEEeeccCCCCCcEEEEEEcCcHHHHHHHHHHHHHHhhhhh
Confidence 334455667884 344455554544333455555688888999988877655443
No 231
>PRK11558 putative ssRNA endonuclease; Provisional
Probab=31.22 E-value=96 Score=21.81 Aligned_cols=50 Identities=16% Similarity=0.204 Sum_probs=27.5
Q ss_pred CCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeec
Q 028130 48 PGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMET 100 (213)
Q Consensus 48 ~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~ 100 (213)
...-|||+++...+-+.--+.+.+.++.- .+.++... + ...||+|..+.+
T Consensus 26 v~~GVyVg~~S~rVRd~lW~~v~~~~~~G-~avmv~~~-~-~eqG~~~~t~G~ 75 (97)
T PRK11558 26 VRAGVYVGDVSRRIREMIWQQVTQLAEEG-NVVMAWAT-N-TESGFEFQTFGE 75 (97)
T ss_pred cCCCcEEcCCCHHHHHHHHHHHHHhCCCC-cEEEEEcC-C-CCCCcEEEecCC
Confidence 34579999988776654333333334332 23333321 2 233899987754
No 232
>KOG3671 consensus Actin regulatory protein (Wiskott-Aldrich syndrome protein) [Signal transduction mechanisms; Cytoskeleton]
Probab=31.19 E-value=97 Score=28.39 Aligned_cols=49 Identities=16% Similarity=0.062 Sum_probs=29.9
Q ss_pred CcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCc
Q 028130 61 VTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRS 114 (213)
Q Consensus 61 ~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~ 114 (213)
+.+++|.+-|.-+-.-.++..+. +. .|++=+.|.++++|++.++++...
T Consensus 90 iWdqELY~nf~y~q~r~ffhtFe----gd-dc~aGLnF~~E~EA~~F~k~V~~r 138 (569)
T KOG3671|consen 90 IWDQELYQNFEYRQPRTFFHTFE----GD-DCQAGLNFASEEEAQKFRKKVQDR 138 (569)
T ss_pred eehHHhhhhceeccCccceeeec----cc-cceeeecccCHHHHHHHHHHHHHH
Confidence 44566766666544333332221 11 147778899999999998877554
No 233
>KOG3346 consensus Phosphatidylethanolamine binding protein [General function prediction only]
Probab=31.06 E-value=1.6e+02 Score=23.35 Aligned_cols=47 Identities=15% Similarity=0.058 Sum_probs=28.6
Q ss_pred CCCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCC--CCCCcccEEEEEeecH
Q 028130 46 ANPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDP--RTRESCGFAFVTMETV 101 (213)
Q Consensus 46 ~~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~--~t~~~~g~afV~f~~~ 101 (213)
-.+-..-.|.|||-... -..|.+....+.--+ .+|..+ |.|+.|...
T Consensus 83 ~rE~lHWlV~nIPg~~~--------~~~G~~i~~Y~~P~Pp~~tG~HR-yVfll~rQ~ 131 (185)
T KOG3346|consen 83 FREWLHWLVTNIPGTDG--------ISKGQEISEYLGPGPPKGTGLHR-YVFLLYRQP 131 (185)
T ss_pred ceeEEEEEEEeecCCcc--------ccCCeEeeeeeCCCCCCCCCceE-EEEEEEEcC
Confidence 34445667889987654 335665555443333 366665 899999753
No 234
>COG1207 GlmU N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]
Probab=30.62 E-value=1.7e+02 Score=26.51 Aligned_cols=67 Identities=21% Similarity=0.180 Sum_probs=41.7
Q ss_pred CCCeEEEeCCCCCCcHHHHHHHHccC----CCeEEEEEeeCCCCCC--------cccEEEEEeecHHHHHHHHHHhCCc
Q 028130 48 PGNNLYVTGLSTRVTNADLEKFFGGE----GKVTECHLVTDPRTRE--------SCGFAFVTMETVEGADRCIKYLNRS 114 (213)
Q Consensus 48 ~~~~v~V~nLp~~~t~~~L~~~F~~~----G~i~~~~i~~~~~t~~--------~~g~afV~f~~~~~a~~Ai~~l~g~ 114 (213)
.+.+|.+.+=.+-++.+.|++++... ..+.-+.+..+..+|. ..-.++||.++..++++.|..+|.-
T Consensus 96 ~g~vLVl~GD~PLit~~TL~~L~~~~~~~~~~~tvLt~~~~dP~GYGRIvr~~~g~V~~IVE~KDA~~eek~I~eiNtG 174 (460)
T COG1207 96 DGDVLVLYGDVPLITAETLEELLAAHPAHGAAATVLTAELDDPTGYGRIVRDGNGEVTAIVEEKDASEEEKQIKEINTG 174 (460)
T ss_pred CCcEEEEeCCcccCCHHHHHHHHHhhhhcCCceEEEEEEcCCCCCcceEEEcCCCcEEEEEEcCCCCHHHhcCcEEeee
Confidence 34577777767778888888777654 2232222222222321 1226889999999999888877654
No 235
>KOG2854 consensus Possible pfkB family carbohydrate kinase [Carbohydrate transport and metabolism]
Probab=30.10 E-value=58 Score=28.22 Aligned_cols=63 Identities=13% Similarity=0.131 Sum_probs=34.8
Q ss_pred CCCCeEEEeCCCCCCcHHHHHHHHc---cCCCe--EEEEEeeCC-----CCCCcccEEEEEeecHHHHHHHHH
Q 028130 47 NPGNNLYVTGLSTRVTNADLEKFFG---GEGKV--TECHLVTDP-----RTRESCGFAFVTMETVEGADRCIK 109 (213)
Q Consensus 47 ~~~~~v~V~nLp~~~t~~~L~~~F~---~~G~i--~~~~i~~~~-----~t~~~~g~afV~f~~~~~a~~Ai~ 109 (213)
+....+||.++...+..+.|..+-+ ..-.+ .++..+... .-.+...|++|.|.++++|++..+
T Consensus 158 eka~v~yv~Gffltv~p~ai~~v~qh~~e~~r~~~lnlsapfI~q~~~~~l~~v~~y~DiifgNe~EA~af~~ 230 (343)
T KOG2854|consen 158 EKAKVFYVAGFFLTVSPDAIRKVAQHAAENNRVFTLNLSAPFISQFFKDALDKVLPYADIIFGNEDEAAAFAR 230 (343)
T ss_pred hheeEEEEEEEEEEeChHHHHHHHHHHHHhcchhheeccchhHHHHHHHHHHhhcCcceEEEcCHHHHHHHHH
Confidence 3445788888887776665544322 22221 111111000 001122489999999999988776
No 236
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=29.80 E-value=81 Score=28.67 Aligned_cols=53 Identities=19% Similarity=0.249 Sum_probs=32.8
Q ss_pred CCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeC
Q 028130 58 STRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLE 117 (213)
Q Consensus 58 p~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~ 117 (213)
.......-...+|+++|-++...++.... |+..|.|+ +.|..++..++...|+
T Consensus 206 ~ks~~s~~r~k~fee~g~~~r~el~p~~h-----g~~~vv~~--enan~~m~s~da~ei~ 258 (526)
T KOG2135|consen 206 EKSRNSENRRKFFEEFGVLERGELCPTHH-----GCVPVVSK--ENANKTMKSEDAAEIM 258 (526)
T ss_pred ccccccHHhhhhhHhhceeeecccccccc-----ccceeEee--ccccccccCCcchhhh
Confidence 34566777889999999887776654332 45555554 5555555544444443
No 237
>PF01037 AsnC_trans_reg: AsnC family; InterPro: IPR019887 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities. One such family is the AsnC/Lrp subfamily []. The Lrp family of transcriptional regulators appears to be widely distributed among bacteria and archaea, as an important regulatory system of the amino acid metabolism and related processes []. Members of the Lrp family are small DNA-binding proteins with molecular masses of around 15 kDa. Target promoters often contain a number of binding sites that typically lack obvious inverted repeat elements, and to which binding is usually co-operative. LrpA from Pyrococcus furiosus is the first Lrp-like protein to date of which a three-dimensional structure has been solved. In the crystal structure LrpA forms an octamer consisting of four dimers. The structure revealed that the N-terminal part of the protein consists of a helix-turn-helix (HTH) domain, a fold generally involved in DNA binding. The C terminus of Lrp-like proteins has a beta-fold, where the two alpha-helices are located at one side of the four-stranded antiparallel beta-sheet. LrpA forms a homodimer mainly through interactions between the beta-strands of this C-terminal domain, and an octamer through further interactions between the second alpha-helix and fourth beta-strand of the motif. Hence, the C-terminal domain of Lrp-like proteins appears to be involved in ligand-response and activation [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2DJW_F 2GQQ_A 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2CG4_B 2DBB_B 1I1G_A ....
Probab=29.18 E-value=1.5e+02 Score=18.52 Aligned_cols=45 Identities=20% Similarity=0.174 Sum_probs=35.7
Q ss_pred cHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHH
Q 028130 62 TNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKY 110 (213)
Q Consensus 62 t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~ 110 (213)
..+++.+.+...-+|..|..+ +|..-=.+.|.+.+.++.+..+..
T Consensus 11 ~~~~~~~~l~~~p~V~~~~~v----tG~~d~~~~v~~~d~~~l~~~i~~ 55 (74)
T PF01037_consen 11 AYDEFAEALAEIPEVVECYSV----TGEYDLILKVRARDMEELEEFIRE 55 (74)
T ss_dssp HHHHHHHHHHTSTTEEEEEEE----SSSSSEEEEEEESSHHHHHHHHHH
T ss_pred hHHHHHHHHHcCCCEEEEEEE----eCCCCEEEEEEECCHHHHHHHHHH
Confidence 467788899999999999887 444444678899999999999654
No 238
>PRK13011 formyltetrahydrofolate deformylase; Reviewed
Probab=28.67 E-value=1.4e+02 Score=25.17 Aligned_cols=62 Identities=5% Similarity=-0.115 Sum_probs=36.2
Q ss_pred CCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCC
Q 028130 56 GLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEG 118 (213)
Q Consensus 56 nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g 118 (213)
.+|..++..+|++.|...++-..+.+.......+. ..||+.-..-..+++.+.++....++.
T Consensus 56 ~~p~~~~~~~L~~~L~~l~~~l~l~i~i~~~~~~~-ri~vl~Sg~g~nl~al~~~~~~~~~~~ 117 (286)
T PRK13011 56 HSEEGLDEDALRAGFAPIAARFGMQWELHDPAARP-KVLIMVSKFDHCLNDLLYRWRIGELPM 117 (286)
T ss_pred ecCCCCCHHHHHHHHHHHHHHhCcEEEEeecccCc-eEEEEEcCCcccHHHHHHHHHcCCCCc
Confidence 47888889999998888765444444333222222 355555555555666665555544443
No 239
>PTZ00071 40S ribosomal protein S24; Provisional
Probab=28.61 E-value=1.6e+02 Score=22.00 Aligned_cols=44 Identities=11% Similarity=0.194 Sum_probs=21.5
Q ss_pred CCcHHHHHHHHcc-CC-C---eEEE-EEeeCCCCCCcccEEEEEeecHHHH
Q 028130 60 RVTNADLEKFFGG-EG-K---VTEC-HLVTDPRTRESCGFAFVTMETVEGA 104 (213)
Q Consensus 60 ~~t~~~L~~~F~~-~G-~---i~~~-~i~~~~~t~~~~g~afV~f~~~~~a 104 (213)
+.+..+|.+.+.+ |+ . +..| .|......+.+.|||.| |++.+.|
T Consensus 35 TpSr~eirekLA~~~~v~d~~~Vvv~~~~T~fG~g~StG~a~I-Yds~e~~ 84 (132)
T PTZ00071 35 TVSKKDIKEKLAKQYKVADARTIVLFGFKTKFGGGKTTGFGLI-YDNLAAL 84 (132)
T ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEEccEecCCCceEEEEEEE-ECCHHHH
Confidence 5567777766654 55 1 1122 22333334556566655 4444433
No 240
>TIGR00587 nfo apurinic endonuclease (APN1). All proteins in this family for which functions are known are 5' AP endonculeases that are used in base excision repair and the repair of abasic sites in DNA.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=28.56 E-value=1.1e+02 Score=25.45 Aligned_cols=58 Identities=7% Similarity=-0.055 Sum_probs=37.6
Q ss_pred CCeEEEeCCCCC-----CcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEee---cHHHHHHHHHHhC
Q 028130 49 GNNLYVTGLSTR-----VTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTME---TVEGADRCIKYLN 112 (213)
Q Consensus 49 ~~~v~V~nLp~~-----~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~---~~~~a~~Ai~~l~ 112 (213)
+.+|.|-|++.. .+.++|..++..++....+.++.|- +.+|+.-. +.+....+++.+.
T Consensus 137 ~v~l~lEN~~~~~~~l~~~~~el~~ll~~~~~~~~lg~~lDt------~H~~~~g~~~~~~~~~~~~~~~~~ 202 (274)
T TIGR00587 137 IVTILLENMAGQGSELGRSFEELAYIIKVIVDKRRIGVCLDT------CHFFAAGYDITTKAYFEVVKNEFD 202 (274)
T ss_pred CCEEEEEeCCCCCCccCCCHHHHHHHHHhcCCCCceEEEEEh------hhHHhcCCCcCCHHHHHHHHHHHH
Confidence 478999998732 4788999999988754566676663 23443333 3455666666554
No 241
>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed
Probab=28.53 E-value=65 Score=26.74 Aligned_cols=22 Identities=18% Similarity=0.101 Sum_probs=18.7
Q ss_pred eEEEeCCCCCCcHHHHHHHHcc
Q 028130 51 NLYVTGLSTRVTNADLEKFFGG 72 (213)
Q Consensus 51 ~v~V~nLp~~~t~~~L~~~F~~ 72 (213)
.++|+|+|+.++..-|..++..
T Consensus 107 ~~vv~NlPY~iss~ii~~~l~~ 128 (272)
T PRK00274 107 LKVVANLPYNITTPLLFHLLEE 128 (272)
T ss_pred ceEEEeCCccchHHHHHHHHhc
Confidence 6789999999998888888764
No 242
>KOG1999 consensus RNA polymerase II transcription elongation factor DSIF/SUPT5H/SPT5 [Transcription]
Probab=28.51 E-value=1.3e+02 Score=29.81 Aligned_cols=34 Identities=12% Similarity=0.269 Sum_probs=26.7
Q ss_pred cccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEE
Q 028130 90 SCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVE 124 (213)
Q Consensus 90 ~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~ 124 (213)
-+||.|||-.....++.||+.|-+..+. +.|.|-
T Consensus 209 lkGyIYIEA~KqshV~~Ai~gv~niy~~-~~~lVP 242 (1024)
T KOG1999|consen 209 LKGYIYIEADKQSHVKEAIEGVRNIYAN-RILLVP 242 (1024)
T ss_pred cceeEEEEechhHHHHHHHhhhhhheec-cEEEEe
Confidence 4589999999999999999988777665 444443
No 243
>PF00398 RrnaAD: Ribosomal RNA adenine dimethylase; InterPro: IPR001737 This family of proteins include rRNA adenine dimethylases (e.g. KsgA) and the Erythromycin resistance methylases (Erm). The bacterial enzyme KsgA catalyses the transfer of a total of four methyl groups from S-adenosyl-l-methionine (S-AdoMet) to two adjacent adenosine bases in 16S rRNA. This enzyme and the resulting modified adenosine bases appear to be conserved in all species of eubacteria, eukaryotes, and archaea, and in eukaryotic organelles. Bacterial resistance to the aminoglycoside antibiotic kasugamycin involves inactivation of KsgA and resulting loss of the dimethylations, with modest consequences to the overall fitness of the organism. In contrast, the yeast ortholog, Dim1, is essential. In Saccharomyces cerevisiae (Baker's yeast), and presumably in other eukaryotes, the enzyme performs a vital role in pre-rRNA processing in addition to its methylating activity. The best conserved region in these enzymes is located in the N-terminal section and corresponds to a region that is probably involved in S-adenosyl methionine (SAM) binding domain. The crystal structure of KsgA from Escherichia coli has been solved to a resolution of 2.1A. It bears a strong similarity to the crystal structure of ErmC' from Bacillus stearothermophilus and a lesser similarity to the yeast mitochondrial transcription factor, sc-mtTFB []. The Erm family of RNA methyltransferases, which methylate a single adenosine base in 23S rRNA confer resistance to the MLS-B group of antibiotics. Despite their sequence similarity, the two enzyme families have strikingly different levels of regulation that remain to be elucidated. Other orthologs, of this family include the yeast and Homo sapiens (Human) mitochondrial transcription factors (MTF1 and h-mtTFB respectively), which are nuclear encoded []. Human-mtTFB is able to stimulate transcription in vitro independently of its S-adenosylmethionine binding and rRNA methyltransferase activity [].; GO: 0000179 rRNA (adenine-N6,N6-)-dimethyltransferase activity, 0008649 rRNA methyltransferase activity, 0000154 rRNA modification; PDB: 3FTF_A 3R9X_B 3FTE_A 3FTC_A 3FTD_A 3GRY_A 3FYC_A 3GRU_A 3FYD_A 3GRV_A ....
Probab=27.99 E-value=60 Score=26.78 Aligned_cols=23 Identities=22% Similarity=0.238 Sum_probs=20.0
Q ss_pred CCeEEEeCCCCCCcHHHHHHHHc
Q 028130 49 GNNLYVTGLSTRVTNADLEKFFG 71 (213)
Q Consensus 49 ~~~v~V~nLp~~~t~~~L~~~F~ 71 (213)
...++|+|||..++..-|..++.
T Consensus 97 ~~~~vv~NlPy~is~~il~~ll~ 119 (262)
T PF00398_consen 97 QPLLVVGNLPYNISSPILRKLLE 119 (262)
T ss_dssp SEEEEEEEETGTGHHHHHHHHHH
T ss_pred CceEEEEEecccchHHHHHHHhh
Confidence 45688999999999999988887
No 244
>PF07237 DUF1428: Protein of unknown function (DUF1428); InterPro: IPR009874 This family consists of several hypothetical bacterial and one archaeal sequence of around 120 residues in length. The function of this family is unknown.; PDB: 2OKQ_A.
Probab=27.25 E-value=2.3e+02 Score=20.18 Aligned_cols=46 Identities=13% Similarity=0.208 Sum_probs=29.7
Q ss_pred HHHHHccCCCeEEEEEeeC-----C----------CCCCcccEEEEEeecHHHHHHHHHHh
Q 028130 66 LEKFFGGEGKVTECHLVTD-----P----------RTRESCGFAFVTMETVEGADRCIKYL 111 (213)
Q Consensus 66 L~~~F~~~G~i~~~~i~~~-----~----------~t~~~~g~afV~f~~~~~a~~Ai~~l 111 (213)
.-++|..||.+..+....+ + ..+..--|.+|+|.+.+...++..++
T Consensus 25 a~~vf~e~GAl~~vE~wgdDvp~G~~TsF~~Av~a~~~E~VVFSWi~wpska~rD~~~~k~ 85 (103)
T PF07237_consen 25 AAEVFKEHGALRVVECWGDDVPDGKVTSFPRAVKAKPDETVVFSWIEWPSKATRDAANAKM 85 (103)
T ss_dssp HHHHHHHTT-SEEEEEEEEE----SS--HHHHTT--TTEEEEEEEEEESSHHHHHHHHHHH
T ss_pred HHHHHHHhCCEEEEEeecCcCCcCccCCHHHHhcCCCCCEEEEEEEEcCCHHHHHHHHHHh
Confidence 4568899998766543221 1 12233348999999999888887755
No 245
>cd00495 Ribosomal_L25_TL5_CTC Ribosomal_L25_TL5_CTC: Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain. L25 is a single-domain protein, homologous to the N-terminal domain of TL5 and CTC, which each contain two domains. CTC is a known stress protein, and proteins of this family are believed to have two functions, acting as both ribosomal and stress proteins. In Escherichia coli, cells deleted for L25 were found to be viable; however, these cells grew slowly and had impaired protein synthesis capability. In Bacillus subtilis, CTC is induced under stress conditions and located in the ribosome; it has been proposed that CTC may be necessary for accurate translation under stress conditions. Ribosomal_L25_TL5_CTC is found only in bacteria and some plastids. Due to its limited taxonomic diversity and the viability of cells deleted for L25, this protein is not believed to be necessary for ribosomal assembly. Eukaryotes contain a protein called L25, which is not homologous to bacterial L
Probab=27.18 E-value=1.6e+02 Score=20.03 Aligned_cols=60 Identities=22% Similarity=0.339 Sum_probs=35.5
Q ss_pred eEEEe---CCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEec
Q 028130 51 NLYVT---GLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKA 126 (213)
Q Consensus 51 ~v~V~---nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a 126 (213)
.||-. +++-.+.+.+|..+|...|.-.-+.+..+ +.. ..|+|. .++-..+.+..|+|+|.
T Consensus 28 vvYG~~~~~~~i~v~~~~l~k~l~~~~~~~~~~L~i~---g~~-~~~~ik------------evQ~~pv~~~i~HvDF~ 90 (91)
T cd00495 28 VIYGKGKEPISISVDEKELEKLLRKEGRSTLIELNID---GKK-ENVLIK------------DVQRHPVKDKILHVDFL 90 (91)
T ss_pred EEECCCCCCEEEEEcHHHHHHHHhhcCCceEEEEEEC---CEE-EEEEEe------------hhhhccCCCCEEEEecc
Confidence 45543 45567788999999988763333333332 211 234443 35556677888888874
No 246
>COG0217 Uncharacterized conserved protein [Function unknown]
Probab=27.13 E-value=2.4e+02 Score=23.27 Aligned_cols=39 Identities=18% Similarity=0.251 Sum_probs=26.5
Q ss_pred CCCCeEEEeCCCCC--CcHHHHHHHHccCCCeE----EEEEeeCC
Q 028130 47 NPGNNLYVTGLSTR--VTNADLEKFFGGEGKVT----ECHLVTDP 85 (213)
Q Consensus 47 ~~~~~v~V~nLp~~--~t~~~L~~~F~~~G~i~----~~~i~~~~ 85 (213)
+.+.-|+|-.|..+ =|..+|+..|.+.|.-. .|.++.++
T Consensus 92 P~GvaiiVe~LTDN~NRTas~vR~~F~K~GG~lg~~GSV~~mF~~ 136 (241)
T COG0217 92 PGGVAIIVEALTDNRNRTASNVRSAFNKNGGNLGEPGSVSYMFDR 136 (241)
T ss_pred CCceEEEEEeccCCcchhHHHHHHHHHhcCCccCCCceEEEEEec
Confidence 44667888888744 45789999999986432 35555554
No 247
>PF01762 Galactosyl_T: Galactosyltransferase; InterPro: IPR002659 The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.- from EC) and related proteins into distinct sequence based families has been described []. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'. Glycosyltransferase family 31 (GH31 from CAZY) comprises enzymes with a number of known activities; N-acetyllactosaminide beta-1,3-N-acetylglucosaminyltransferase (2.4.1.149 from EC); beta-1,3-galactosyltransferase (2.4.1 from EC); fucose-specific beta-1,3-N-acetylglucosaminyltransferase (2.4.1 from EC); globotriosylceramide beta-1,3-GalNAc transferase (2.4.1.79 from EC) [, ].; GO: 0008378 galactosyltransferase activity, 0006486 protein glycosylation, 0016020 membrane
Probab=26.91 E-value=85 Score=24.37 Aligned_cols=36 Identities=17% Similarity=0.191 Sum_probs=24.8
Q ss_pred CCCeEEEeCCCC--CCc-HHHHHHHHccCCCeEEEEEee
Q 028130 48 PGNNLYVTGLST--RVT-NADLEKFFGGEGKVTECHLVT 83 (213)
Q Consensus 48 ~~~~v~V~nLp~--~~t-~~~L~~~F~~~G~i~~~~i~~ 83 (213)
.-..+||-+.+. ... .+.|.+...+||.|..+.+..
T Consensus 20 ~~~~~FvvG~~~~~~~~~~~~l~~E~~~y~Dil~~d~~D 58 (195)
T PF01762_consen 20 RVKVVFVVGESPNSDSDLQEALQEEAEKYGDILQGDFVD 58 (195)
T ss_pred cEEEEEEEecCCCCcHHHHHHhhhhhhhcCceEeeeccc
Confidence 345678877776 222 344778888999998887643
No 248
>smart00650 rADc Ribosomal RNA adenine dimethylases.
Probab=26.67 E-value=96 Score=23.45 Aligned_cols=23 Identities=17% Similarity=0.108 Sum_probs=19.0
Q ss_pred CeEEEeCCCCCCcHHHHHHHHcc
Q 028130 50 NNLYVTGLSTRVTNADLEKFFGG 72 (213)
Q Consensus 50 ~~v~V~nLp~~~t~~~L~~~F~~ 72 (213)
..+.|+|+|..++.+.|..++..
T Consensus 78 ~d~vi~n~Py~~~~~~i~~~l~~ 100 (169)
T smart00650 78 PYKVVGNLPYNISTPILFKLLEE 100 (169)
T ss_pred CCEEEECCCcccHHHHHHHHHhc
Confidence 45778999999988888888764
No 249
>cd06396 PB1_NBR1 The PB1 domain is an essential part of NBR1 protein, next to BRCA1, a scaffold protein mediating specific protein-protein interaction with both titin protein kinase and with another scaffold protein p62. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The NBR1 protein contains a type I PB1 domain.
Probab=26.64 E-value=2.1e+02 Score=19.39 Aligned_cols=63 Identities=14% Similarity=0.118 Sum_probs=34.9
Q ss_pred eCCCC--CCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEe
Q 028130 55 TGLST--RVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLEGRLITVEK 125 (213)
Q Consensus 55 ~nLp~--~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~ 125 (213)
..|++ .++.++|.+.+.+.=.+..+.|..--+.+ =.|...+..+.+.||..+.. .|..|.+..
T Consensus 14 f~~~~~~~~~~~~L~~ev~~rf~l~~f~lKYlDde~-----e~v~lssd~eLeE~~rl~~~---~~~~l~~~v 78 (81)
T cd06396 14 FLVSDSENTTWASVEAMVKVSFGLNDIQIKYVDEEN-----EEVSVNSQGEYEEALKSAVR---QGNLLQMNV 78 (81)
T ss_pred EEecCCCCCCHHHHHHHHHHHhCCCcceeEEEcCCC-----CEEEEEchhhHHHHHHHHHh---CCCEEEEEE
Confidence 34566 77888888776652222244333322222 24566677888888885543 245555543
No 250
>PTZ00338 dimethyladenosine transferase-like protein; Provisional
Probab=26.53 E-value=64 Score=27.34 Aligned_cols=22 Identities=9% Similarity=0.240 Sum_probs=18.8
Q ss_pred eEEEeCCCCCCcHHHHHHHHcc
Q 028130 51 NLYVTGLSTRVTNADLEKFFGG 72 (213)
Q Consensus 51 ~v~V~nLp~~~t~~~L~~~F~~ 72 (213)
.+.|+|||+.++...|..++..
T Consensus 103 d~VvaNlPY~Istpil~~ll~~ 124 (294)
T PTZ00338 103 DVCVANVPYQISSPLVFKLLAH 124 (294)
T ss_pred CEEEecCCcccCcHHHHHHHhc
Confidence 4788999999999988888864
No 251
>PF01071 GARS_A: Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; InterPro: IPR020561 Phosphoribosylglycinamide synthetase (6.3.4.13 from EC) (GARS) (phosphoribosylamine glycine ligase) [] catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by phosphoribosylglycinamide synthetase is the ATP-dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide: ATP + 5-phosphoribosylamine + glycine = ADP + Pi + 5'-phosphoribosylglycinamide In bacteria, GARS is a monofunctional enzyme (encoded by the purD gene). In yeast, GARS is part of a bifunctional enzyme (encoded by the ADE5/7 gene) in conjunction with phosphoribosylformylglycinamidine cyclo-ligase (AIRS) (IPR000728 from INTERPRO). In higher eukaryotes, GARS is part of a trifunctional enzyme in conjunction with AIRS (IPR000728 from INTERPRO) and with phosphoribosylglycinamide formyltransferase (GART) (), forming GARS-AIRS-GART. This entry represents the A-domain of the enzyme, and is related to the ATP-grasp domain of biotin carboxylase/carbamoyl phosphate synthetase.; PDB: 1GSO_A 3LP8_A 2IP4_A 1VKZ_A 2QK4_A 2XD4_A 2XCL_A 3MJF_A 2YRW_A 2YS6_A ....
Probab=26.21 E-value=1.5e+02 Score=23.56 Aligned_cols=46 Identities=13% Similarity=0.169 Sum_probs=28.7
Q ss_pred cHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHh
Q 028130 62 TNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYL 111 (213)
Q Consensus 62 t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l 111 (213)
+.++..+++..++.-. +.|..+ +...|-+.+...+.++|..||..+
T Consensus 25 ~~~~A~~~l~~~~~p~-~ViKad---Gla~GKGV~i~~~~~eA~~~l~~~ 70 (194)
T PF01071_consen 25 DYEEALEYLEEQGYPY-VVIKAD---GLAAGKGVVIADDREEALEALREI 70 (194)
T ss_dssp SHHHHHHHHHHHSSSE-EEEEES---SSCTTTSEEEESSHHHHHHHHHHH
T ss_pred CHHHHHHHHHhcCCCc-eEEccC---CCCCCCEEEEeCCHHHHHHHHHHh
Confidence 5667777777765433 333333 223344455668999999999766
No 252
>TIGR00755 ksgA dimethyladenosine transferase. Alternate name: S-adenosylmethionine--6-N',N'-adenosyl (rRNA) dimethyltransferase
Probab=26.11 E-value=90 Score=25.46 Aligned_cols=25 Identities=12% Similarity=0.042 Sum_probs=20.8
Q ss_pred eEEEeCCCCCCcHHHHHHHHccCCC
Q 028130 51 NLYVTGLSTRVTNADLEKFFGGEGK 75 (213)
Q Consensus 51 ~v~V~nLp~~~t~~~L~~~F~~~G~ 75 (213)
.+.|+|||..++...|.+++..+|.
T Consensus 96 ~~vvsNlPy~i~~~il~~ll~~~~~ 120 (253)
T TIGR00755 96 LKVVSNLPYNISSPLIFKLLEKPKF 120 (253)
T ss_pred ceEEEcCChhhHHHHHHHHhccCCC
Confidence 4789999999999999999875543
No 253
>cd04904 ACT_AAAH ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH). ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH): Phenylalanine hydroxylases (PAH), tyrosine hydroxylases (TH) and tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. This family of enzymes shares a common catalytic mechanism, in which dioxygen is used by an active site containing a single, reduced iron atom to hydroxylate an unactivated aromatic substrate, concomitant with a two-electron oxidation of tetrahydropterin (BH4) cofactor to its quinonoid dihydropterin form. PAH catalyzes the hydroxylation of L-Phe to L-Tyr, the first step in the catabolic degradation of L-Phe; TH catalyses the hydroxylation of L-Tyr to 3,4-dihydroxyphenylalanine, the rate limiting step in the biosynthesis of catecholamines; and TPH catalyses the hydroxylation of L-Trp to 5-hydroxytryptophan, the rate limiting step in the biosynthesis of 5-hydroxy
Probab=25.91 E-value=1.9e+02 Score=18.63 Aligned_cols=50 Identities=28% Similarity=0.311 Sum_probs=27.0
Q ss_pred cHHHHHHHHccCC-CeEEEEEeeCCCCCCccc-EEEEEee-cHHHHHHHHHHhCC
Q 028130 62 TNADLEKFFGGEG-KVTECHLVTDPRTRESCG-FAFVTME-TVEGADRCIKYLNR 113 (213)
Q Consensus 62 t~~~L~~~F~~~G-~i~~~~i~~~~~t~~~~g-~afV~f~-~~~~a~~Ai~~l~g 113 (213)
.-.++.+.|+.+| .+..|. .-+..+..-. +-||+|+ ..+..++||+.|..
T Consensus 13 ~L~~vL~~f~~~~iNlt~Ie--SRP~~~~~~~y~Ffvd~~~~~~~~~~~l~~L~~ 65 (74)
T cd04904 13 ALARALKLFEEFGVNLTHIE--SRPSRRNGSEYEFFVDCEVDRGDLDQLISSLRR 65 (74)
T ss_pred HHHHHHHHHHHCCCcEEEEE--CCCCCCCCceEEEEEEEEcChHHHHHHHHHHHH
Confidence 4566777888876 233332 2221222212 3467776 45566778877754
No 254
>COG4010 Uncharacterized protein conserved in archaea [Function unknown]
Probab=25.86 E-value=2.1e+02 Score=21.82 Aligned_cols=46 Identities=11% Similarity=0.133 Sum_probs=35.9
Q ss_pred CCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHh
Q 028130 56 GLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYL 111 (213)
Q Consensus 56 nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l 111 (213)
.|+..+.++-|+++.+..|-|..+. -. -..+.|.+.+....||+.+
T Consensus 118 ~L~epl~~eRlqDi~E~hgvIiE~~-E~---------D~V~i~Gd~drVk~aLke~ 163 (170)
T COG4010 118 HLREPLAEERLQDIAETHGVIIEFE-EY---------DLVAIYGDSDRVKKALKEI 163 (170)
T ss_pred ecCchhHHHHHHHHHHhhheeEEee-ec---------cEEEEeccHHHHHHHHHHH
Confidence 4788888999999999999886654 11 2356788999999999866
No 255
>COG0225 MsrA Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]
Probab=25.76 E-value=1.8e+02 Score=22.72 Aligned_cols=74 Identities=16% Similarity=0.022 Sum_probs=38.9
Q ss_pred eEEEeCCCCCCcHHHHHHHHccCCCeEEEE-EeeCCCCCCcccEEEEE-eecH---HHHHHHHHHhCCceeCCeeeEEEe
Q 028130 51 NLYVTGLSTRVTNADLEKFFGGEGKVTECH-LVTDPRTRESCGFAFVT-METV---EGADRCIKYLNRSVLEGRLITVEK 125 (213)
Q Consensus 51 ~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~-i~~~~~t~~~~g~afV~-f~~~---~~a~~Ai~~l~g~~i~g~~i~V~~ 125 (213)
.|.|.==|..++-++|.++|-+.-....+. --.| -|. .|--+. +.+. +.|++.++.+....+.+.+|.+++
T Consensus 59 ~V~V~yDp~~isy~~LL~~ff~ihDPT~~nrQGnD--~Gt--qYRs~Iy~~~~~q~~~a~~~~~~~q~~~~~~~~IvteI 134 (174)
T COG0225 59 AVEVTYDPKVISYEELLEVFFEIHDPTSLNRQGND--RGT--QYRSAIYYTNEEQKAIAEASIEELQASGYFKKPIVTEI 134 (174)
T ss_pred EEEEEeCCccccHHHHHHHHheecCCCCCCccCCc--ccc--cceeEEEEcCHHHHHHHHHHHHHHHHhccCCCCeEEEe
Confidence 566766678888888877776543222211 1111 111 233233 3333 445555666666556666777776
Q ss_pred ccc
Q 028130 126 AKR 128 (213)
Q Consensus 126 a~~ 128 (213)
...
T Consensus 135 ~p~ 137 (174)
T COG0225 135 EPA 137 (174)
T ss_pred ecc
Confidence 543
No 256
>KOG0829 consensus 60S ribosomal protein L18A [Translation, ribosomal structure and biogenesis]
Probab=25.63 E-value=2.1e+02 Score=22.00 Aligned_cols=67 Identities=16% Similarity=0.352 Sum_probs=36.8
Q ss_pred CCCCCCCCeEEEeCC--CCC-CcH-------HHHHHHHccCCCeEEEEEeeCCCCCCcccEE-EEEeecHHHHHHHHH
Q 028130 43 PDAANPGNNLYVTGL--STR-VTN-------ADLEKFFGGEGKVTECHLVTDPRTRESCGFA-FVTMETVEGADRCIK 109 (213)
Q Consensus 43 ~~~~~~~~~v~V~nL--p~~-~t~-------~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~a-fV~f~~~~~a~~Ai~ 109 (213)
|.+.++...||..-| +.. +.. ..|+.+=..-|+|..|.-+..+...+-+.|+ .+.|.+......+..
T Consensus 11 PTe~~p~p~l~~m~ifa~N~V~AKsrfwyfl~~l~KvKks~Geiv~i~qi~E~~p~~vkNfGIwlrYdSRsG~HNmYk 88 (169)
T KOG0829|consen 11 PTEKEPTPKLYRMRIFAPNHVVAKSRFWYFLSKLKKVKKSSGEIVAINQIFEKSPLKVKNFGIWLRYDSRSGTHNMYK 88 (169)
T ss_pred CCCCCCCCceEEEEEeccceeehhHHHHHHHHHHHHHhhcCceEEEeceecCCCCceeeeeEEEEEEccCCcchHHHH
Confidence 344555666776654 111 222 2233333456999999776666556666676 466766544444333
No 257
>PF13820 Nucleic_acid_bd: Putative nucleic acid-binding region
Probab=25.62 E-value=1.2e+02 Score=23.12 Aligned_cols=59 Identities=14% Similarity=0.160 Sum_probs=33.2
Q ss_pred eEEEeCCC-CCCcHHHHHHHHcc-CCCe-EEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCC
Q 028130 51 NLYVTGLS-TRVTNADLEKFFGG-EGKV-TECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNR 113 (213)
Q Consensus 51 ~v~V~nLp-~~~t~~~L~~~F~~-~G~i-~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g 113 (213)
.+|+++|. ...+-++|+..+.. |+.. ..+.+...+ .-+.+.|+|.-.-+|..-|..|-.
T Consensus 6 la~~G~l~~~~~~ld~i~~~l~~L~~~~~~~l~~~~~~----~~~sv~V~f~ipreaa~~Lr~LA~ 67 (149)
T PF13820_consen 6 LAYIGGLRMFQYKLDDIKNWLASLYKPRISDLKVRKVE----PWNSVRVTFSIPREAATRLRQLAQ 67 (149)
T ss_pred EEEECChhhhHHHHHHHHHHHHHHHhcccccceeeccc----cCceEEEEEechHHHHHHHHHHhh
Confidence 45678887 12233445544444 3322 223222211 225899999999888888877743
No 258
>KOG3432 consensus Vacuolar H+-ATPase V1 sector, subunit F [Energy production and conversion]
Probab=25.40 E-value=1e+02 Score=22.27 Aligned_cols=25 Identities=12% Similarity=0.240 Sum_probs=18.7
Q ss_pred CCCCcHHHHHHHHccCCCeEEEEEe
Q 028130 58 STRVTNADLEKFFGGEGKVTECHLV 82 (213)
Q Consensus 58 p~~~t~~~L~~~F~~~G~i~~~~i~ 82 (213)
...+|.++|++.|..|-.-..+.|+
T Consensus 42 ~~~Tt~~eiedaF~~f~~RdDIaIi 66 (121)
T KOG3432|consen 42 DSKTTVEEIEDAFKSFTARDDIAII 66 (121)
T ss_pred eccCCHHHHHHHHHhhccccCeEEE
Confidence 4589999999999999764444443
No 259
>PRK00110 hypothetical protein; Validated
Probab=25.21 E-value=2.7e+02 Score=22.98 Aligned_cols=46 Identities=20% Similarity=0.277 Sum_probs=29.3
Q ss_pred CCCCeEEEeCCCCCC--cHHHHHHHHccCCCeE----EEEEeeCCCCCCcccEEEEEee
Q 028130 47 NPGNNLYVTGLSTRV--TNADLEKFFGGEGKVT----ECHLVTDPRTRESCGFAFVTME 99 (213)
Q Consensus 47 ~~~~~v~V~nLp~~~--t~~~L~~~F~~~G~i~----~~~i~~~~~t~~~~g~afV~f~ 99 (213)
+.+..|+|--|..+. |..+|+.+|.++|... .|.++.++ .++|+|.
T Consensus 92 P~GvaiiVe~lTDN~nRt~~~vR~~f~K~gG~l~~~Gsv~~~Fe~-------kG~i~~~ 143 (245)
T PRK00110 92 PGGVAIIVEALTDNRNRTAAEVRHAFSKNGGNLGETGSVSYMFDR-------KGVIVIE 143 (245)
T ss_pred CCCeEEEEEEecCCHHHHHHHHHHHHHhcCceeCCCcceEEEecc-------ceEEEeC
Confidence 345667777776543 4678999999986432 24445443 5667775
No 260
>PF14401 RLAN: RimK-like ATPgrasp N-terminal domain
Probab=24.74 E-value=1.7e+02 Score=22.21 Aligned_cols=61 Identities=8% Similarity=0.059 Sum_probs=34.4
Q ss_pred CCCCeEEEeCCCCCCcHHHHHHHHccC-CCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHH
Q 028130 47 NPGNNLYVTGLSTRVTNADLEKFFGGE-GKVTECHLVTDPRTRESCGFAFVTMETVEGADRC 107 (213)
Q Consensus 47 ~~~~~v~V~nLp~~~t~~~L~~~F~~~-G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~A 107 (213)
.-..+||+|.-+..--+.--+.+|+.| -+|..+.+......-.-.....|.+.+..+.+.+
T Consensus 85 ~~~l~iyFG~~~~~~~~~lAr~lFe~F~~PlL~v~~~~~~~~w~i~~i~~~~~~~l~~~e~~ 146 (153)
T PF14401_consen 85 RFELSIYFGQTPDPRLERLARQLFERFPCPLLEVEFVRDDGKWRISSIKPLSLSELSEEEQD 146 (153)
T ss_pred eEEEEEEECCCCCHHHHHHHHHHHHhCCCceEEEEEEecCCcEEEeeEeecChhhCCHHHHH
Confidence 334467887765544445557889888 4677777766543122233444555554444443
No 261
>PF14111 DUF4283: Domain of unknown function (DUF4283)
Probab=24.60 E-value=69 Score=23.59 Aligned_cols=36 Identities=17% Similarity=0.004 Sum_probs=28.0
Q ss_pred CCeEEEeCCCCC-CcHHHHHHHHccCCCeEEEEEeeC
Q 028130 49 GNNLYVTGLSTR-VTNADLEKFFGGEGKVTECHLVTD 84 (213)
Q Consensus 49 ~~~v~V~nLp~~-~t~~~L~~~F~~~G~i~~~~i~~~ 84 (213)
..-|.|.|||.. .+++.|+++.+.+|++..++....
T Consensus 104 ~vWVri~glP~~~~~~~~~~~i~~~iG~~i~vD~~t~ 140 (153)
T PF14111_consen 104 PVWVRIYGLPLHLWSEEILKAIGSKIGEPIEVDENTL 140 (153)
T ss_pred chhhhhccCCHHHhhhHHHHHHHHhcCCeEEEEcCCC
Confidence 344677899975 677788999999999998876543
No 262
>COG0079 HisC Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]
Probab=24.51 E-value=1e+02 Score=26.87 Aligned_cols=50 Identities=12% Similarity=0.195 Sum_probs=33.0
Q ss_pred CCCeEEEeCCC----CCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHH
Q 028130 48 PGNNLYVTGLS----TRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCI 108 (213)
Q Consensus 48 ~~~~v~V~nLp----~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai 108 (213)
....|||+|=. ..++.++|+.++..... .+.++.| -||++|.. +++...+
T Consensus 145 ~~~lv~i~nPNNPTG~~~~~~~l~~l~~~~~~--~~~vVvD--------EAY~eF~~-~~~~~l~ 198 (356)
T COG0079 145 KTKLVFLCNPNNPTGTLLPREELRALLEALPE--GGLVVID--------EAYIEFSP-ESSLELL 198 (356)
T ss_pred CCCEEEEeCCCCCCCCCCCHHHHHHHHHhCCC--CcEEEEe--------CchhhcCC-chhhhhc
Confidence 45678888643 34678899999988765 3334444 69999998 4443333
No 263
>KOG2888 consensus Putative RNA binding protein [General function prediction only]
Probab=24.23 E-value=40 Score=29.20 Aligned_cols=7 Identities=29% Similarity=0.610 Sum_probs=2.7
Q ss_pred HHHHHHc
Q 028130 65 DLEKFFG 71 (213)
Q Consensus 65 ~L~~~F~ 71 (213)
+|...|+
T Consensus 173 dLw~WyE 179 (453)
T KOG2888|consen 173 DLWDWYE 179 (453)
T ss_pred HHHHHhh
Confidence 3333333
No 264
>PLN02805 D-lactate dehydrogenase [cytochrome]
Probab=24.22 E-value=3e+02 Score=25.70 Aligned_cols=50 Identities=18% Similarity=0.131 Sum_probs=34.3
Q ss_pred cHHHHHHHHc----cCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhC
Q 028130 62 TNADLEKFFG----GEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLN 112 (213)
Q Consensus 62 t~~~L~~~F~----~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~ 112 (213)
+..+|..+|- .+|-|+.+.+...+. .....++++.|.+.++|.+|+..+.
T Consensus 279 ~g~dL~~l~~GseGtLGIIT~~tlrl~p~-P~~~~~~~~~f~~~~~a~~av~~i~ 332 (555)
T PLN02805 279 AGYDLTRLVIGSEGTLGVITEVTLRLQKI-PQHSVVAMCNFPTIKDAADVAIATM 332 (555)
T ss_pred CCccHHHHhccCCCceEEEEEEEEEeecC-CcceEEEEEEcCCHHHHHHHHHHHH
Confidence 3457777762 477888887765442 2233578899999999988887653
No 265
>PF02829 3H: 3H domain; InterPro: IPR004173 The 3H domain is named after its three highly conserved histidine residues. The 3H domain appears to be a small molecule-binding domain, based on its occurrence with other domains []. Several proteins carrying this domain are transcriptional regulators from the biotin repressor family. The transcription regulator TM1602 from Thermotoga maritima is a DNA-binding protein thought to belong to a family of de novo NAD synthesis pathway regulators. TM1602 has an N-terminal DNA-binding domain and a C-terminal 3H regulatory domain. The N-terminal domain appears to bind to the NAD promoter region and repress the de novo NAD biosynthesis operon, while the C-terminal 3H domain may bind to nicotinamide, nicotinic acid, or other substrate/products []. The 3H domain has a 2-layer alpha/beta sandwich fold.; GO: 0005488 binding; PDB: 1J5Y_A.
Probab=24.17 E-value=2.6e+02 Score=19.60 Aligned_cols=52 Identities=15% Similarity=0.164 Sum_probs=35.3
Q ss_pred CCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCc
Q 028130 60 RVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRS 114 (213)
Q Consensus 60 ~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~ 114 (213)
+-++++|.-+...-|.|.+|.+...-. | .=.+.+...+..+++..++.|+..
T Consensus 8 ~~~~~EL~~IVd~Gg~V~DV~veHp~Y-G--~i~~~L~i~sr~Dv~~Fi~~l~~~ 59 (98)
T PF02829_consen 8 DEIEDELEIIVDNGGRVLDVIVEHPVY-G--EITGNLNISSRRDVDKFIEKLEKS 59 (98)
T ss_dssp GGHHHHHHHHHHTT-EEEEEEEEETTT-E--EEEEEEEE-SHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHCCCEEEEEEEeCCCC-c--EEEEEEecCCHHHHHHHHHHHhcc
Confidence 345678888888778888888765432 2 235677788999999999887543
No 266
>TIGR00405 L26e_arch ribosomal protein L24p/L26e, archaeal. This protein contains a KOW domain, shared by bacterial NusG and the L24p/L26e family of ribosomal proteins. Although called archaeal NusG in several publications, it is the only close homolog of eukaryotic L26e in archaeal genomes, shares an operon with L11 in many genomes, and has been sequenced from purified ribosomes. It is here designated as a ribosomal protein for these reasons.
Probab=24.15 E-value=72 Score=23.70 Aligned_cols=26 Identities=19% Similarity=0.066 Sum_probs=21.0
Q ss_pred cccEEEEEeecHHHHHHHHHHhCCce
Q 028130 90 SCGFAFVTMETVEGADRCIKYLNRSV 115 (213)
Q Consensus 90 ~~g~afV~f~~~~~a~~Ai~~l~g~~ 115 (213)
..||.||++....+...+|..+.|..
T Consensus 37 fpGYvFV~~~~~~~~~~~i~~~~gv~ 62 (145)
T TIGR00405 37 LKGYILVEAETKIDMRNPIIGVPHVR 62 (145)
T ss_pred CCcEEEEEEECcHHHHHHHhCCCCEE
Confidence 66999999998888888887776653
No 267
>KOG0635 consensus Adenosine 5'-phosphosulfate kinase [Inorganic ion transport and metabolism]
Probab=23.80 E-value=1.4e+02 Score=23.21 Aligned_cols=33 Identities=27% Similarity=0.365 Sum_probs=24.8
Q ss_pred CCCCeEEEeCCCC---CCcHHHHHHHHccCCCeEEE
Q 028130 47 NPGNNLYVTGLST---RVTNADLEKFFGGEGKVTEC 79 (213)
Q Consensus 47 ~~~~~v~V~nLp~---~~t~~~L~~~F~~~G~i~~~ 79 (213)
.++++|||.+|.- .+-...|.+++-+-|.+.++
T Consensus 29 qkGcviWiTGLSgSGKStlACaL~q~L~qrgkl~Y~ 64 (207)
T KOG0635|consen 29 QKGCVIWITGLSGSGKSTLACALSQALLQRGKLTYI 64 (207)
T ss_pred CCCcEEEEeccCCCCchhHHHHHHHHHHhcCceEEE
Confidence 5689999999973 45567788888777876554
No 268
>PF15063 TC1: Thyroid cancer protein 1
Probab=23.79 E-value=43 Score=22.41 Aligned_cols=26 Identities=15% Similarity=0.247 Sum_probs=21.9
Q ss_pred eEEEeCCCCCCcHHHHHHHHccCCCe
Q 028130 51 NLYVTGLSTRVTNADLEKFFGGEGKV 76 (213)
Q Consensus 51 ~v~V~nLp~~~t~~~L~~~F~~~G~i 76 (213)
+--+.||=.+++...|+.+|.+-|..
T Consensus 27 KkasaNIFe~vn~~qlqrLF~~sGD~ 52 (79)
T PF15063_consen 27 KKASANIFENVNLDQLQRLFQKSGDK 52 (79)
T ss_pred hhhhhhhhhccCHHHHHHHHHHccch
Confidence 34467888899999999999999975
No 269
>PF05727 UPF0228: Uncharacterised protein family (UPF0228); InterPro: IPR008887 This small family of proteins is currently restricted to Methanosarcina species. Members of this family are about 200 residues in length, except for Q8TMK1 from SWISSPROT that has two copies of this region. Although the function of this region is unknown the pattern of conservation suggests that this may be an enzyme, including multiple conserved aspartate and glutamate residues. The most conserved motif in these proteins is NEL/MEXNE/D, where X can be any amino acid, and is found at the C terminus of these proteins.
Probab=23.71 E-value=1.7e+02 Score=21.55 Aligned_cols=58 Identities=9% Similarity=0.159 Sum_probs=30.8
Q ss_pred CCC-CCCcHHHHHHHHccCCC-eEEEEEeeCCCCCCcccEEEEEeecHHH-----HHHHHHHhCCceeCCeeeEEEe
Q 028130 56 GLS-TRVTNADLEKFFGGEGK-VTECHLVTDPRTRESCGFAFVTMETVEG-----ADRCIKYLNRSVLEGRLITVEK 125 (213)
Q Consensus 56 nLp-~~~t~~~L~~~F~~~G~-i~~~~i~~~~~t~~~~g~afV~f~~~~~-----a~~Ai~~l~g~~i~g~~i~V~~ 125 (213)
-|+ ..+..+.+.+++.++.- |+.+ -+|+|.|.+... -+.|++.-|..+.+...|.|.+
T Consensus 58 ~vSEqai~d~~FL~iL~K~nLqvKKf------------VwCyI~f~dgs~nywIpe~DAirIKnELE~NE~il~V~~ 122 (127)
T PF05727_consen 58 MVSEQAIEDKNFLEILEKYNLQVKKF------------VWCYIRFGDGSKNYWIPEKDAIRIKNELEMNEKILIVYL 122 (127)
T ss_pred EeehhhcCchhHHHHHHhcCcceeEE------------EEEEEEcCCCCcccccchHHHHHHHHHHhcCCcEEEEEe
Confidence 344 33444567788888742 2211 267777754322 2345554444445566677765
No 270
>TIGR00110 ilvD dihydroxy-acid dehydratase. This model generates scores of up to 150 bits vs. 6-phosphogluconate dehydratase, a homologous enzyme.
Probab=23.68 E-value=3.8e+02 Score=24.99 Aligned_cols=35 Identities=23% Similarity=0.218 Sum_probs=25.8
Q ss_pred cEEEEEeecHHHHHHHHHHhCCceeCCeeeEEEecccC
Q 028130 92 GFAFVTMETVEGADRCIKYLNRSVLEGRLITVEKAKRS 129 (213)
Q Consensus 92 g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~V~~a~~~ 129 (213)
|-| +.|+++++|.+||.. +..-.|..|.|.+.-++
T Consensus 384 G~A-~VF~see~a~~ai~~--g~i~~gdVvViRyeGPk 418 (535)
T TIGR00110 384 GPA-KVFESEEEALEAILG--GKIKEGDVVVIRYEGPK 418 (535)
T ss_pred EeE-EEECCHHHHHHHHhc--CCCCCCeEEEEeCCCCC
Confidence 445 569999999999873 55557777777776555
No 271
>cd00127 DSPc Dual specificity phosphatases (DSP); Ser/Thr and Tyr protein phosphatases. Structurally similar to tyrosine-specific phosphatases but with a shallower active site cleft and a distinctive active site signature motif, HCxxGxxR. Characterized as VHR- or Cdc25-like.
Probab=23.56 E-value=2.3e+02 Score=20.12 Aligned_cols=18 Identities=17% Similarity=0.257 Sum_probs=12.8
Q ss_pred CeEEEeCCCCCCcHHHHH
Q 028130 50 NNLYVTGLSTRVTNADLE 67 (213)
Q Consensus 50 ~~v~V~nLp~~~t~~~L~ 67 (213)
..|||+++|...+.+.|.
T Consensus 7 ~~l~~g~~~~~~d~~~L~ 24 (139)
T cd00127 7 PGLYLGSYPAASDKELLK 24 (139)
T ss_pred CCeEECChhHhcCHHHHH
Confidence 469999999766555544
No 272
>PF08442 ATP-grasp_2: ATP-grasp domain; InterPro: IPR013650 The ATP-grasp superfamily currently includes 17 groups of enzymes, catalyzing ATP-dependent ligation of a carboxylate containing molecule to an amino or thiol group-containing molecule []. They contribute predominantly to macromolecular synthesis. ATP-hydrolysis is used to activate a substrate. For example, DD-ligase transfers phosphate from ATP to D-alanine on the first step of catalysis. On the second step the resulting acylphosphate is attacked by a second D-alanine to produce a DD dipeptide following phosphate elimination []. The ATP-grasp domain contains three conserved motifs, corresponding to the phosphate binding loop and the Mg(2+) binding site []. The fold is characterised by two alpha-beta subdomains that grasp the ATP molecule between them. Each subdomain provides a variable loop that forms a part of the active site, completed by region of other domains not conserved between the various ATP-grasp enzymes []. The ATP-grasp domain represented by this entry is found primarily in succinyl-CoA synthetases (6.2.1.5 from EC).; PDB: 3PFF_A 3MWD_A 3MWE_A 1CQI_E 1SCU_B 2NU9_G 2NU6_E 1CQJ_E 2NU7_B 1JLL_E ....
Probab=23.48 E-value=1.5e+02 Score=23.62 Aligned_cols=54 Identities=11% Similarity=0.067 Sum_probs=32.4
Q ss_pred CcHHHHHHHHccCCC---eEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCceeC
Q 028130 61 VTNADLEKFFGGEGK---VTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSVLE 117 (213)
Q Consensus 61 ~t~~~L~~~F~~~G~---i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~i~ 117 (213)
.+.+++.++..++|. |...++.. .|..++-+...-.+.++|..+...|=|..|.
T Consensus 25 ~s~eea~~~~~~l~~~~~VvKaQvl~---GgRGK~GgVk~~~s~~ea~~~a~~mlg~~l~ 81 (202)
T PF08442_consen 25 TSPEEAREAAKELGGKPLVVKAQVLA---GGRGKAGGVKIAKSPEEAKEAAKEMLGKTLK 81 (202)
T ss_dssp SSHHHHHHHHHHHTTSSEEEEE-SSS---STTTTTTCEEEESSHHHHHHHHHTTTTSEEE
T ss_pred CCHHHHHHHHHHhCCCcEEEEEeEee---cCcccCCceeecCCHHHHHHHHHHHhCCceE
Confidence 456777777766654 34444433 3333332333345789999999888888876
No 273
>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A.
Probab=23.42 E-value=2.1e+02 Score=18.37 Aligned_cols=64 Identities=14% Similarity=0.135 Sum_probs=37.6
Q ss_pred eEEEeCCCCCCcHHHHHHHHccCC-CeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCc
Q 028130 51 NLYVTGLSTRVTNADLEKFFGGEG-KVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRS 114 (213)
Q Consensus 51 ~v~V~nLp~~~t~~~L~~~F~~~G-~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~ 114 (213)
+|.|......---.+|-..|...+ .|..+.+......+......-|+..+.++....|..|...
T Consensus 8 ~l~i~~~dr~GlL~dI~~~i~~~~~nI~~i~~~~~~~~~~~~~~l~v~V~d~~~L~~ii~~L~~i 72 (80)
T PF13291_consen 8 RLRIEAEDRPGLLADITSVISENGVNIRSINARTNKDDGTARITLTVEVKDLEHLNQIIRKLRQI 72 (80)
T ss_dssp EEEEEEE--TTHHHHHHHHHHCSSSEEEEEEEEE--ETTEEEEEEEEEESSHHHHHHHHHHHCTS
T ss_pred EEEEEEEcCCCHHHHHHHHHHHCCCCeEEEEeEEeccCCEEEEEEEEEECCHHHHHHHHHHHHCC
Confidence 455554444445677888887764 5677777654323333333445557888888888877653
No 274
>PRK11633 cell division protein DedD; Provisional
Probab=23.32 E-value=3e+02 Score=22.45 Aligned_cols=73 Identities=10% Similarity=0.001 Sum_probs=47.2
Q ss_pred CCCCeEEEeCCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEE-EeecHHHHHHHHHHhCCc-eeCCeee
Q 028130 47 NPGNNLYVTGLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFV-TMETVEGADRCIKYLNRS-VLEGRLI 121 (213)
Q Consensus 47 ~~~~~v~V~nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV-~f~~~~~a~~Ai~~l~g~-~i~g~~i 121 (213)
...+.|.|+-|......+.|.+-+..-|--.++.-.... .|.-. -.|| =|.+.+.|++++..|+.. -|.|..+
T Consensus 147 ~~~~vVQlgaf~n~~~A~~l~~kL~~~G~~Ay~~~~~~~-~G~~t-RV~VGP~~sk~~ae~~~~~Lk~~~Gl~g~Vv 221 (226)
T PRK11633 147 GKAYVVQLGALKNADKVNEIVAKLRLSGYRVYTVPSTPV-QGKIT-RIYVGPDASKDKLKGSLGELKQLSGLSGVVM 221 (226)
T ss_pred CCcEEEEecccCCHHHHHHHHHHHHHCCCeeEEEeeecC-CCcEE-EEEeCCCCCHHHHHHHHHHHHHhcCCCceEE
Confidence 445788899888877888888888877765555432211 22111 1233 356899999999988773 5666544
No 275
>PF13046 DUF3906: Protein of unknown function (DUF3906)
Probab=23.21 E-value=1e+02 Score=19.96 Aligned_cols=34 Identities=29% Similarity=0.450 Sum_probs=23.1
Q ss_pred CcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEE
Q 028130 61 VTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFV 96 (213)
Q Consensus 61 ~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV 96 (213)
.-+.+|+.+|-+--+|..+.|...+.-.+ |-|||
T Consensus 30 ~~e~eler~fl~~P~v~e~~l~EKKri~~--G~gyV 63 (64)
T PF13046_consen 30 LVEVELERHFLPLPEVKEVALYEKKRIRK--GAGYV 63 (64)
T ss_pred HHHHHhhhhccCCCCceEEEEEEEEeeeC--CceeE
Confidence 33566888888888899988876553333 55565
No 276
>cd01611 GABARAP Ubiquitin domain of GABA-receptor-associated protein. GABARAP (GABA-receptor-associated protein) belongs ot a large family of proteins that mediate intracellular membrane trafficking and/or fusion. GABARAP binds not only to GABA, type A but also to tubulin, gephrin, and ULK1. Orthologues of GABARAP include Gate-16 (golgi-associated ATPase enhancer), LC3 (microtubule-associated protein light chain 3), and ATG8 (autophagy protein 8). ATG8 is a ubiquitin-like protein that is conjugated to the membrane phospholipid, phosphatidylethanolamine as part of a ubiquitin-like conjugation system essential for autophagosome-formation.
Probab=23.01 E-value=1.1e+02 Score=22.00 Aligned_cols=16 Identities=6% Similarity=0.102 Sum_probs=8.7
Q ss_pred CCCCCcHHHHHHHHcc
Q 028130 57 LSTRVTNADLEKFFGG 72 (213)
Q Consensus 57 Lp~~~t~~~L~~~F~~ 72 (213)
+|.+++-.++..++.+
T Consensus 47 Vp~~~tv~~f~~~irk 62 (112)
T cd01611 47 VPSDLTVGQFVYIIRK 62 (112)
T ss_pred ecCCCCHHHHHHHHHH
Confidence 4555565555555543
No 277
>PRK02886 hypothetical protein; Provisional
Probab=22.92 E-value=1.9e+02 Score=19.87 Aligned_cols=38 Identities=16% Similarity=0.077 Sum_probs=26.7
Q ss_pred HHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCce
Q 028130 69 FFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSV 115 (213)
Q Consensus 69 ~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~ 115 (213)
.+.+||.|..+.-.. .|+ |.|-+.++|++.++.|....
T Consensus 20 ~LrkyG~I~Y~Skr~--------kYv-vlYvn~~~~e~~~~kl~~l~ 57 (87)
T PRK02886 20 QLRKFGNVHYVSKRL--------KYA-VLYCDMEQVEDIMNKLSSLP 57 (87)
T ss_pred HHhhcCcEEEEeccc--------cEE-EEEECHHHHHHHHHHHhcCC
Confidence 467899997764222 255 45778899999998887654
No 278
>COG1098 VacB Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]
Probab=22.57 E-value=1.7e+02 Score=21.61 Aligned_cols=33 Identities=30% Similarity=0.329 Sum_probs=22.3
Q ss_pred EEEEEeec--------HHHHHHHHHHhCCceeCCeeeEEEe
Q 028130 93 FAFVTMET--------VEGADRCIKYLNRSVLEGRLITVEK 125 (213)
Q Consensus 93 ~afV~f~~--------~~~a~~Ai~~l~g~~i~g~~i~V~~ 125 (213)
-|||+|+. .+-|...++.+|...--|..|.|..
T Consensus 20 GAFV~l~~g~tGLVHISEIa~~fVkdI~d~L~vG~eV~vKV 60 (129)
T COG1098 20 GAFVELEGGKTGLVHISEIADGFVKDIHDHLKVGQEVKVKV 60 (129)
T ss_pred ceEEEecCCCcceEEehHhhhhhHHhHHHHhcCCCEEEEEE
Confidence 37888876 3566677777777666666666654
No 279
>cd05992 PB1 The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as a noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants.
Probab=22.21 E-value=2.3e+02 Score=18.22 Aligned_cols=52 Identities=17% Similarity=0.164 Sum_probs=32.6
Q ss_pred CCC-CCCcHHHHHHHHc-cCCCe-EEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhC
Q 028130 56 GLS-TRVTNADLEKFFG-GEGKV-TECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLN 112 (213)
Q Consensus 56 nLp-~~~t~~~L~~~F~-~~G~i-~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~ 112 (213)
.++ ..++.++|.+.+. .|+.. ..+.|...... | .+|...+.++.+.|++.+.
T Consensus 15 ~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~y~D~e----~-d~v~l~sd~Dl~~a~~~~~ 69 (81)
T cd05992 15 VVVSRSISFEDLRSKIAEKFGLDAVSFKLKYPDED----G-DLVTISSDEDLEEAIEEAR 69 (81)
T ss_pred EEecCCCCHHHHHHHHHHHhCCCCCcEEEEeeCCC----C-CEEEeCCHHHHHHHHHHHh
Confidence 344 7788888876654 35542 23333221111 2 6899999999999999764
No 280
>COG0002 ArgC Acetylglutamate semialdehyde dehydrogenase [Amino acid transport and metabolism]
Probab=21.85 E-value=2e+02 Score=25.17 Aligned_cols=27 Identities=19% Similarity=0.106 Sum_probs=18.7
Q ss_pred CCCCCcHHHHHHHHccC-CCeEEEEEee
Q 028130 57 LSTRVTNADLEKFFGGE-GKVTECHLVT 83 (213)
Q Consensus 57 Lp~~~t~~~L~~~F~~~-G~i~~~~i~~ 83 (213)
|...++.++|.++|.+| ..-..|.|+.
T Consensus 253 l~~~~t~~~i~~~y~~~Y~~epfVrv~~ 280 (349)
T COG0002 253 LKDLVTLEELHAAYEEFYAGEPFVRVVP 280 (349)
T ss_pred cCCCCCHHHHHHHHHHHhCCCCeEEEec
Confidence 45568999999999874 4444555544
No 281
>PF11004 Kdo_hydroxy: 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; InterPro: IPR021266 This bacterial family of proteins has no known function.
Probab=21.84 E-value=1.6e+02 Score=24.87 Aligned_cols=46 Identities=17% Similarity=0.216 Sum_probs=29.3
Q ss_pred CCCCCeEEEeCCCCCCcHHHHHHHHcc-CCCeEEEEEeeCCCCCCccc
Q 028130 46 ANPGNNLYVTGLSTRVTNADLEKFFGG-EGKVTECHLVTDPRTRESCG 92 (213)
Q Consensus 46 ~~~~~~v~V~nLp~~~t~~~L~~~F~~-~G~i~~~~i~~~~~t~~~~g 92 (213)
.+.+..||+-+|+..++.+|. .+|.. +-....-.|..+..++.-+|
T Consensus 18 LE~G~VL~fP~l~F~l~~~E~-~fL~p~~~d~k~KNIs~~p~~~~l~G 64 (281)
T PF11004_consen 18 LEQGKVLYFPQLRFPLSPEER-AFLDPAIVDPKRKNISYRPNTGSLRG 64 (281)
T ss_pred hhCCCEEEeCCCCCCCChhHH-hhcChhhhCCCCCceeecCCCCceec
Confidence 467889999999999998886 45443 33333333444555565555
No 282
>PF06014 DUF910: Bacterial protein of unknown function (DUF910); InterPro: IPR009256 This family consists of several short bacterial proteins of unknown function.; PDB: 2NN4_A.
Probab=21.82 E-value=67 Score=20.65 Aligned_cols=18 Identities=17% Similarity=0.172 Sum_probs=11.0
Q ss_pred cHHHHHHHHccCCCeEEE
Q 028130 62 TNADLEKFFGGEGKVTEC 79 (213)
Q Consensus 62 t~~~L~~~F~~~G~i~~~ 79 (213)
|--|+++++.+||.+..+
T Consensus 3 tlyDVqQLLK~fG~~IY~ 20 (62)
T PF06014_consen 3 TLYDVQQLLKKFGIIIYV 20 (62)
T ss_dssp SHHHHHHHHHTTS-----
T ss_pred cHHHHHHHHHHCCEEEEe
Confidence 456899999999976543
No 283
>PRK02302 hypothetical protein; Provisional
Probab=21.72 E-value=2.1e+02 Score=19.80 Aligned_cols=38 Identities=11% Similarity=0.096 Sum_probs=26.7
Q ss_pred HHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCce
Q 028130 69 FFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRSV 115 (213)
Q Consensus 69 ~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~~ 115 (213)
.+.+||.|..+.-.. .|+ |.|-+.++|++.++.|....
T Consensus 22 ~LrkfG~I~Y~Skk~--------kYv-vlYvn~~~~e~~~~kl~~l~ 59 (89)
T PRK02302 22 KLSKYGDIVYHSKRS--------RYL-VLYVNKEDVEQKLEELSKLK 59 (89)
T ss_pred HHhhcCcEEEEeccc--------cEE-EEEECHHHHHHHHHHHhcCC
Confidence 467899997764221 255 45778899999998886654
No 284
>TIGR02045 P_fruct_ADP ADP-specific phosphofructokinase. Phosphofructokinase is a key enzyme of glycolysis. The phosphate group donor for different subtypes of phosphofructokinase can be ATP, ADP, or pyrophosphate. This family consists of ADP-dependent phosphofructokinases. Members are more similar to ADP-dependent glucokinases (excluded from this family) than to other phosphofructokinases.
Probab=21.12 E-value=2.4e+02 Score=25.60 Aligned_cols=70 Identities=21% Similarity=0.302 Sum_probs=40.9
Q ss_pred CCeEEEeCCCCCC---cHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEe--e-------cHHHHHHHHHHhCCcee
Q 028130 49 GNNLYVTGLSTRV---TNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTM--E-------TVEGADRCIKYLNRSVL 116 (213)
Q Consensus 49 ~~~v~V~nLp~~~---t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f--~-------~~~~a~~Ai~~l~g~~i 116 (213)
.+.+.|.+=+.+. ..++|++++.+.|...++.|+- ||-.+.- . -.+.+...++.|...
T Consensus 179 aNRfI~s~D~~n~~l~~~~~l~~~~~~i~~~~d~~vlS--------G~q~m~~~y~dg~~~~~~~er~~~~i~~L~~~-- 248 (446)
T TIGR02045 179 SGRFIVSSRPESLRIETKDQLRKFLPEIGEPVDGAILS--------GYQGIKEEYSDGKTAKYYLERAKEDIELLKKN-- 248 (446)
T ss_pred CCeEEEecCCccccceecHHHHHhhhhhhhcccEEEEE--------chhhhhhhccCCccHhHHHHHHHHHHHHHhhC--
Confidence 3444554433332 4567888888888766666653 3333321 1 245666666666332
Q ss_pred CCeeeEEEeccc
Q 028130 117 EGRLITVEKAKR 128 (213)
Q Consensus 117 ~g~~i~V~~a~~ 128 (213)
.+-+|++++|--
T Consensus 249 ~~i~iH~E~As~ 260 (446)
T TIGR02045 249 KDLKIHVEFASI 260 (446)
T ss_pred CCCeEEEEeccc
Confidence 677889988753
No 285
>cd04917 ACT_AKiii-LysC-EC_2 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII. This CD includes the second of two ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in bacteria (Escherichia coli (EC) LysC). Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. The E. coli AKIII (LysC) binds two feedback allosteric inhibitor lysine molecules at the dimer interface located between the ACT1 domain of two subunits. The second ACT domain (ACT2), this CD, is not involved in the binding of heterotrophic effectors. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=20.88 E-value=2.2e+02 Score=17.47 Aligned_cols=17 Identities=18% Similarity=0.278 Sum_probs=12.0
Q ss_pred ecHHHHHHHHHHhCCce
Q 028130 99 ETVEGADRCIKYLNRSV 115 (213)
Q Consensus 99 ~~~~~a~~Ai~~l~g~~ 115 (213)
-+.+++++|++.||...
T Consensus 46 V~~~~~~~a~~~Lh~~f 62 (64)
T cd04917 46 VKEEDKDEVVQRLHSRL 62 (64)
T ss_pred EeHHHHHHHHHHHHHHH
Confidence 35577888888887643
No 286
>PF12829 Mhr1: Transcriptional regulation of mitochondrial recombination; InterPro: IPR024629 These proteins are involved in regulation of RNA polymerase II-dependent transcription. They are also involved in regulation of mitochondrial DNA recombination, maintenance, repair, and generation of homoplasmic cells [, , , ].
Probab=20.76 E-value=1.1e+02 Score=21.21 Aligned_cols=52 Identities=19% Similarity=0.118 Sum_probs=30.7
Q ss_pred CCCCCcHHHHHHHHccCCCeEE-EEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhC
Q 028130 57 LSTRVTNADLEKFFGGEGKVTE-CHLVTDPRTRESCGFAFVTMETVEGADRCIKYLN 112 (213)
Q Consensus 57 Lp~~~t~~~L~~~F~~~G~i~~-~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~ 112 (213)
+.+.+++..|...|.--|.-.. ..+-.| .=+.+|.|+|.+.+.+..|.+.|-
T Consensus 20 ~~p~l~~~~i~~Q~~~~gkk~~pp~lRkD----~W~pm~vv~f~~~~~g~~~yq~Lr 72 (91)
T PF12829_consen 20 QTPNLDNNQILKQFPFPGKKNKPPSLRKD----YWRPMCVVNFPNYEVGVSAYQKLR 72 (91)
T ss_pred cCcccChhHHHHhccCCCcccCCchhccc----cceEeEEEECCChHHHHHHHHHHH
Confidence 4455666666666554443211 111111 112489999999999999987664
No 287
>PF12007 DUF3501: Protein of unknown function (DUF3501); InterPro: IPR021890 This family of proteins is functionally uncharacterised. This protein is found in bacteria and archaea. Proteins in this family are about 200 amino acids in length. The structure of protein of unknown function (YP_111841.1) from B. pseudomallei has been solved. ; PDB: 3FJV_B.
Probab=20.66 E-value=1.1e+02 Score=24.33 Aligned_cols=46 Identities=7% Similarity=0.060 Sum_probs=29.4
Q ss_pred cHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhCCc
Q 028130 62 TNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLNRS 114 (213)
Q Consensus 62 t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~g~ 114 (213)
.+++|++.+..|.++. +..+.-+..-||+|.+.++...+|..|.|.
T Consensus 65 ~~~~I~~Ei~aYnpLi-------P~~~~l~ATl~IE~~d~~~r~~~L~~L~Gi 110 (192)
T PF12007_consen 65 DEEGIQEEIDAYNPLI-------PDGGNLKATLMIEIPDEDERRRELARLVGI 110 (192)
T ss_dssp SHHHHHHHHHHHGGGS---------SSEEEEEEEE--SSHHHHHHHHHHCTTG
T ss_pred CHHHHHHHHHHhcccC-------CCCCcEEEEEEEEcCCHHHHHHHHHHhcCc
Confidence 3445555566665542 123333457899999999999999999886
No 288
>PLN02655 ent-kaurene oxidase
Probab=20.56 E-value=1.8e+02 Score=25.93 Aligned_cols=48 Identities=13% Similarity=0.088 Sum_probs=32.9
Q ss_pred EEeCCCCCC---cHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHH
Q 028130 53 YVTGLSTRV---TNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIK 109 (213)
Q Consensus 53 ~V~nLp~~~---t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~ 109 (213)
+||||..-. ....+.+++.+||.|..+.+. +.-+|...+.+.++.++.
T Consensus 9 ~iG~l~~~~~~~~~~~~~~~~~~yG~i~~~~~g---------~~~~vvv~~pe~~k~il~ 59 (466)
T PLN02655 9 VIGNLLQLKEKKPHRTFTKWSEIYGPIYTIRTG---------ASSVVVLNSTEVAKEAMV 59 (466)
T ss_pred ccccHHHcCCCchhHHHHHHHHHhCCeEEEEEC---------CEeEEEeCCHHHHHHHHH
Confidence 456664321 245788888999998776653 245677778888888876
No 289
>PRK12450 foldase protein PrsA; Reviewed
Probab=20.49 E-value=1.8e+02 Score=24.78 Aligned_cols=39 Identities=10% Similarity=0.198 Sum_probs=29.5
Q ss_pred CCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHHHHhC
Q 028130 60 RVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCIKYLN 112 (213)
Q Consensus 60 ~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai~~l~ 112 (213)
.+|+++|+++|..|.+ .+ -..+|.+.+.+.|+.++..|.
T Consensus 132 ~Vtd~evk~~y~~~~~--~~------------~~~~I~~~~~~~A~~i~~~l~ 170 (309)
T PRK12450 132 TISKKDYRQAYDAYTP--TM------------TAEIMQFEKEEDAKAALEAVK 170 (309)
T ss_pred CCCHHHHHHHHHHhCc--cc------------eeEEEEeCCHHHHHHHHHHHH
Confidence 4799999999998732 11 124577889999999999885
No 290
>KOG2671 consensus Putative RNA methylase [Replication, recombination and repair]
Probab=20.31 E-value=1.1e+02 Score=26.85 Aligned_cols=49 Identities=20% Similarity=0.070 Sum_probs=29.4
Q ss_pred CCCCCCcHHHHHHHHccCCCeEEEEEeeCCCCCCcccEEEEEeecHHHHHHHH
Q 028130 56 GLSTRVTNADLEKFFGGEGKVTECHLVTDPRTRESCGFAFVTMETVEGADRCI 108 (213)
Q Consensus 56 nLp~~~t~~~L~~~F~~~G~i~~~~i~~~~~t~~~~g~afV~f~~~~~a~~Ai 108 (213)
....+.-..+|+.+..-||.- |....+..|.. -|-+|+|++.+.|...+
T Consensus 9 q~hl~Fr~pE~eala~lF~~~--i~~sq~~~t~~--PF~iv~~~s~~~Ar~~~ 57 (421)
T KOG2671|consen 9 QSHLDFRLPELEALASLFGLQ--IDESQKLHTTS--PFFIVEFESEEIARNLI 57 (421)
T ss_pred hhhhccchHHHHHHHHHHhhh--hhhhhhhcCCC--ceEEEEeCchHHHHHHH
Confidence 334455566777777777632 22222122222 49999999999988654
Done!