Query 028371
Match_columns 210
No_of_seqs 304 out of 2479
Neff 8.9
Searched_HMMs 46136
Date Fri Mar 29 10:28:07 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028371.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028371hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0107 Alternative splicing f 99.9 5.7E-24 1.2E-28 157.6 15.1 81 34-119 7-87 (195)
2 PLN03134 glycine-rich RNA-bind 99.9 7E-22 1.5E-26 147.0 15.5 97 23-119 20-116 (144)
3 KOG4207 Predicted splicing fac 99.9 8.8E-22 1.9E-26 149.6 14.1 86 33-118 9-94 (256)
4 KOG0113 U1 small nuclear ribon 99.8 3E-19 6.5E-24 142.4 15.6 86 35-120 99-184 (335)
5 TIGR01659 sex-lethal sex-letha 99.8 9.3E-19 2E-23 147.4 11.0 84 33-116 103-186 (346)
6 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.8 2E-18 4.4E-23 146.2 12.6 84 35-118 267-350 (352)
7 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.8 2E-18 4.4E-23 146.2 11.4 83 36-118 2-84 (352)
8 PF00076 RRM_1: RNA recognitio 99.8 5.5E-18 1.2E-22 110.3 9.5 70 40-110 1-70 (70)
9 KOG0122 Translation initiation 99.7 6.7E-18 1.5E-22 131.4 9.5 86 32-117 184-269 (270)
10 KOG0121 Nuclear cap-binding pr 99.7 4.2E-18 9.2E-23 120.3 6.9 81 35-115 34-114 (153)
11 TIGR01659 sex-lethal sex-letha 99.7 4.9E-17 1.1E-21 137.0 14.0 83 36-118 192-276 (346)
12 KOG0130 RNA-binding protein RB 99.7 1.1E-17 2.4E-22 119.3 7.9 84 35-118 70-153 (170)
13 KOG0149 Predicted RNA-binding 99.7 1.8E-17 3.8E-22 128.5 6.7 82 34-116 9-90 (247)
14 PF14259 RRM_6: RNA recognitio 99.7 1.7E-16 3.7E-21 103.6 10.2 70 40-110 1-70 (70)
15 TIGR01622 SF-CC1 splicing fact 99.7 2.9E-16 6.3E-21 137.5 13.2 80 36-116 88-167 (457)
16 TIGR01642 U2AF_lg U2 snRNP aux 99.7 2.4E-16 5.3E-21 139.7 11.8 83 35-117 293-375 (509)
17 KOG0131 Splicing factor 3b, su 99.7 5.7E-17 1.2E-21 121.2 5.7 83 33-115 5-87 (203)
18 KOG0126 Predicted RNA-binding 99.7 7.1E-18 1.5E-22 126.0 0.8 82 35-116 33-114 (219)
19 PLN03120 nucleic acid binding 99.7 4E-16 8.7E-21 124.5 10.3 76 37-116 4-79 (260)
20 TIGR01622 SF-CC1 splicing fact 99.7 4.4E-16 9.6E-21 136.4 10.9 80 37-116 186-265 (457)
21 TIGR01645 half-pint poly-U bin 99.7 4.7E-16 1E-20 138.2 11.1 84 35-118 202-285 (612)
22 KOG0111 Cyclophilin-type pepti 99.7 7.6E-17 1.7E-21 123.9 4.7 88 34-121 7-94 (298)
23 KOG0117 Heterogeneous nuclear 99.7 6.3E-16 1.4E-20 129.4 10.5 88 29-116 75-163 (506)
24 TIGR01645 half-pint poly-U bin 99.7 4.4E-16 9.5E-21 138.4 10.1 81 35-115 105-185 (612)
25 PLN03213 repressor of silencin 99.6 8.5E-16 1.8E-20 130.2 9.4 79 35-117 8-88 (759)
26 smart00362 RRM_2 RNA recogniti 99.6 2E-15 4.4E-20 97.6 9.2 72 39-112 1-72 (72)
27 TIGR01628 PABP-1234 polyadenyl 99.6 1.1E-15 2.4E-20 137.2 10.7 79 38-116 1-79 (562)
28 TIGR01648 hnRNP-R-Q heterogene 99.6 1.2E-15 2.5E-20 135.4 10.5 80 34-114 55-135 (578)
29 KOG0125 Ataxin 2-binding prote 99.6 1E-15 2.2E-20 123.8 8.7 83 32-116 91-173 (376)
30 KOG0105 Alternative splicing f 99.6 2.8E-15 6.1E-20 112.5 8.9 80 36-118 5-84 (241)
31 PLN03121 nucleic acid binding 99.6 5.5E-15 1.2E-19 116.3 10.9 77 36-116 4-80 (243)
32 TIGR01628 PABP-1234 polyadenyl 99.6 4.4E-15 9.6E-20 133.3 10.7 83 35-118 283-365 (562)
33 KOG0148 Apoptosis-promoting RN 99.6 5E-15 1.1E-19 117.0 9.5 81 32-118 159-239 (321)
34 TIGR01648 hnRNP-R-Q heterogene 99.6 6.2E-15 1.3E-19 130.8 11.2 75 36-118 232-308 (578)
35 smart00360 RRM RNA recognition 99.6 5.9E-15 1.3E-19 95.0 8.0 71 42-112 1-71 (71)
36 KOG0145 RNA-binding protein EL 99.6 6.8E-15 1.5E-19 115.8 9.0 86 33-118 37-122 (360)
37 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.6 1.6E-14 3.4E-19 127.4 12.0 79 35-118 273-352 (481)
38 COG0724 RNA-binding proteins ( 99.6 9.7E-15 2.1E-19 117.8 9.9 79 37-115 115-193 (306)
39 cd00590 RRM RRM (RNA recogniti 99.6 2.5E-14 5.5E-19 92.8 9.9 74 39-113 1-74 (74)
40 KOG0148 Apoptosis-promoting RN 99.6 5.6E-15 1.2E-19 116.8 7.4 82 37-118 62-143 (321)
41 KOG0114 Predicted RNA-binding 99.6 1.6E-14 3.5E-19 98.6 8.6 82 33-117 14-95 (124)
42 KOG0108 mRNA cleavage and poly 99.6 6.9E-15 1.5E-19 126.1 8.2 82 38-119 19-100 (435)
43 KOG0109 RNA-binding protein LA 99.6 3.7E-15 8E-20 118.9 6.0 73 37-117 2-74 (346)
44 KOG0144 RNA-binding protein CU 99.5 5.3E-15 1.1E-19 123.5 5.4 86 37-123 124-212 (510)
45 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.5 4.1E-14 8.8E-19 124.8 10.2 74 37-116 2-77 (481)
46 KOG0145 RNA-binding protein EL 99.5 7.5E-14 1.6E-18 110.0 10.5 83 35-117 276-358 (360)
47 KOG0117 Heterogeneous nuclear 99.5 3.1E-14 6.8E-19 119.3 7.7 79 34-120 256-334 (506)
48 KOG0144 RNA-binding protein CU 99.5 3.1E-14 6.7E-19 118.9 7.1 85 35-119 32-119 (510)
49 KOG0415 Predicted peptidyl pro 99.5 3.4E-14 7.4E-19 116.1 6.7 83 34-116 236-318 (479)
50 PF13893 RRM_5: RNA recognitio 99.5 2.2E-13 4.9E-18 85.0 8.5 56 54-114 1-56 (56)
51 KOG0127 Nucleolar protein fibr 99.5 1.1E-13 2.4E-18 118.6 8.8 81 37-118 117-197 (678)
52 KOG0147 Transcriptional coacti 99.5 7.6E-14 1.6E-18 119.7 6.6 78 40-117 281-358 (549)
53 KOG0127 Nucleolar protein fibr 99.5 2.2E-13 4.9E-18 116.8 9.3 84 35-118 290-379 (678)
54 smart00361 RRM_1 RNA recogniti 99.5 4.1E-13 8.8E-18 87.8 8.1 61 51-111 2-69 (70)
55 KOG0124 Polypyrimidine tract-b 99.4 1E-13 2.2E-18 113.9 4.7 78 37-114 113-190 (544)
56 KOG0132 RNA polymerase II C-te 99.4 9.8E-13 2.1E-17 116.7 10.7 79 37-121 421-499 (894)
57 KOG0146 RNA-binding protein ET 99.4 1.9E-13 4.2E-18 108.1 5.3 85 34-118 282-366 (371)
58 KOG0109 RNA-binding protein LA 99.4 3E-13 6.6E-18 108.0 5.4 76 34-117 75-150 (346)
59 KOG0131 Splicing factor 3b, su 99.4 4.7E-13 1E-17 100.3 6.0 86 35-120 94-180 (203)
60 TIGR01642 U2AF_lg U2 snRNP aux 99.4 1.8E-12 3.9E-17 115.1 9.9 73 35-114 173-257 (509)
61 KOG4212 RNA-binding protein hn 99.4 1.6E-12 3.4E-17 109.1 8.5 79 37-116 44-123 (608)
62 KOG4208 Nucleolar RNA-binding 99.3 5.8E-12 1.3E-16 96.3 8.1 84 34-117 46-130 (214)
63 KOG4206 Spliceosomal protein s 99.3 9.2E-12 2E-16 96.5 7.6 82 34-118 6-91 (221)
64 KOG0153 Predicted RNA-binding 99.3 1.6E-11 3.6E-16 100.3 8.1 80 31-116 222-302 (377)
65 KOG0106 Alternative splicing f 99.3 4.5E-12 9.8E-17 98.9 4.3 72 38-117 2-73 (216)
66 KOG0533 RRM motif-containing p 99.2 2.5E-11 5.4E-16 96.7 8.0 83 35-118 81-163 (243)
67 KOG0123 Polyadenylate-binding 99.2 2.7E-11 5.9E-16 103.0 7.9 77 40-119 79-155 (369)
68 KOG4661 Hsp27-ERE-TATA-binding 99.2 2.8E-11 6.1E-16 104.6 7.7 84 35-118 403-486 (940)
69 KOG0146 RNA-binding protein ET 99.2 1.8E-11 3.9E-16 97.0 5.0 83 36-119 18-103 (371)
70 KOG0124 Polypyrimidine tract-b 99.2 3.4E-11 7.3E-16 99.2 6.7 79 37-115 210-288 (544)
71 KOG4205 RNA-binding protein mu 99.2 3.3E-11 7.1E-16 99.6 5.3 82 36-118 5-86 (311)
72 KOG4454 RNA binding protein (R 99.2 1.5E-11 3.3E-16 94.8 3.0 84 32-117 4-87 (267)
73 KOG0110 RNA-binding protein (R 99.2 2.5E-11 5.4E-16 107.1 4.8 85 35-119 611-695 (725)
74 KOG0110 RNA-binding protein (R 99.2 8.7E-11 1.9E-15 103.7 7.9 79 37-115 515-596 (725)
75 PF04059 RRM_2: RNA recognitio 99.1 3.1E-10 6.8E-15 78.1 8.6 80 38-117 2-87 (97)
76 KOG4205 RNA-binding protein mu 99.1 5.8E-11 1.3E-15 98.1 5.8 84 36-120 96-179 (311)
77 KOG0116 RasGAP SH3 binding pro 99.1 5.3E-10 1.1E-14 95.8 11.0 83 34-117 285-367 (419)
78 KOG4212 RNA-binding protein hn 99.1 1.2E-10 2.7E-15 97.9 6.8 76 34-114 533-608 (608)
79 KOG0123 Polyadenylate-binding 99.1 2E-10 4.2E-15 97.8 8.0 75 38-118 2-76 (369)
80 KOG1457 RNA binding protein (c 99.1 9.7E-10 2.1E-14 85.2 10.3 88 32-119 29-120 (284)
81 KOG4209 Splicing factor RNPS1, 99.1 2.2E-10 4.8E-15 91.3 6.6 83 34-117 98-180 (231)
82 KOG1548 Transcription elongati 99.0 6.3E-10 1.4E-14 91.1 7.8 84 32-116 129-220 (382)
83 KOG0151 Predicted splicing reg 99.0 1.2E-09 2.7E-14 96.5 8.2 84 33-116 170-256 (877)
84 KOG4660 Protein Mei2, essentia 98.9 9.1E-10 2E-14 95.1 4.6 71 35-110 73-143 (549)
85 KOG0120 Splicing factor U2AF, 98.9 1.9E-09 4.1E-14 93.6 3.9 88 34-121 286-373 (500)
86 KOG1995 Conserved Zn-finger pr 98.8 6E-09 1.3E-13 85.9 6.1 86 33-118 62-155 (351)
87 KOG1190 Polypyrimidine tract-b 98.8 2.9E-08 6.3E-13 83.1 9.2 78 37-119 297-375 (492)
88 KOG0226 RNA-binding proteins [ 98.8 5.5E-09 1.2E-13 82.4 4.3 83 34-116 187-269 (290)
89 KOG0106 Alternative splicing f 98.7 2.2E-08 4.9E-13 78.3 6.3 71 33-111 95-165 (216)
90 KOG4211 Splicing factor hnRNP- 98.7 4.1E-08 9E-13 83.9 8.0 78 35-116 8-85 (510)
91 KOG1456 Heterogeneous nuclear 98.7 2.3E-07 5E-12 77.1 10.8 80 34-118 284-364 (494)
92 PF11608 Limkain-b1: Limkain b 98.6 1.1E-07 2.3E-12 63.0 5.6 70 38-117 3-77 (90)
93 KOG1457 RNA binding protein (c 98.6 5.2E-08 1.1E-12 75.7 4.2 65 36-104 209-273 (284)
94 PF08777 RRM_3: RNA binding mo 98.6 1.1E-07 2.4E-12 66.8 5.5 72 37-114 1-77 (105)
95 KOG4206 Spliceosomal protein s 98.6 2.4E-07 5.3E-12 72.1 7.9 78 33-115 142-220 (221)
96 KOG4849 mRNA cleavage factor I 98.5 9.9E-08 2.2E-12 78.6 2.8 79 37-115 80-160 (498)
97 KOG0147 Transcriptional coacti 98.5 6.8E-08 1.5E-12 83.6 1.9 80 37-117 179-258 (549)
98 KOG4211 Splicing factor hnRNP- 98.4 8.2E-07 1.8E-11 76.1 7.8 79 35-115 101-180 (510)
99 COG5175 MOT2 Transcriptional r 98.4 9.1E-07 2E-11 72.7 6.7 81 36-116 113-202 (480)
100 KOG2416 Acinus (induces apopto 98.3 5E-07 1.1E-11 79.0 4.2 76 35-116 442-521 (718)
101 KOG0105 Alternative splicing f 98.3 5.5E-06 1.2E-10 62.9 9.2 78 29-113 107-186 (241)
102 KOG4307 RNA binding protein RB 98.3 6.9E-06 1.5E-10 73.3 9.6 75 39-113 869-943 (944)
103 KOG4210 Nuclear localization s 98.2 7.2E-07 1.6E-11 73.5 3.1 82 35-117 182-264 (285)
104 KOG2314 Translation initiation 98.2 4E-06 8.6E-11 73.1 7.4 78 35-113 56-140 (698)
105 KOG1548 Transcription elongati 98.2 1.4E-05 3E-10 66.1 8.8 79 34-116 262-351 (382)
106 KOG1456 Heterogeneous nuclear 98.1 1.6E-05 3.5E-10 66.3 9.0 78 36-118 119-200 (494)
107 PF14605 Nup35_RRM_2: Nup53/35 98.1 6.7E-06 1.5E-10 50.4 5.0 53 37-96 1-53 (53)
108 KOG0129 Predicted RNA-binding 98.1 1.2E-05 2.5E-10 69.6 7.6 68 31-98 364-432 (520)
109 KOG3152 TBP-binding protein, a 98.0 2.5E-06 5.5E-11 67.6 2.4 71 38-108 75-157 (278)
110 KOG1190 Polypyrimidine tract-b 98.0 1.4E-05 3.1E-10 67.3 6.7 78 35-116 412-490 (492)
111 PF05172 Nup35_RRM: Nup53/35/4 98.0 3.5E-05 7.6E-10 53.5 7.6 79 36-116 5-91 (100)
112 KOG2202 U2 snRNP splicing fact 98.0 1.8E-06 3.9E-11 68.5 1.3 65 52-117 83-148 (260)
113 KOG1855 Predicted RNA-binding 98.0 5.4E-06 1.2E-10 70.1 4.1 77 35-111 229-318 (484)
114 KOG0120 Splicing factor U2AF, 98.0 2E-05 4.3E-10 68.9 7.7 65 52-116 424-491 (500)
115 KOG4676 Splicing factor, argin 98.0 1.4E-05 3E-10 67.0 6.1 73 39-112 9-84 (479)
116 KOG4676 Splicing factor, argin 98.0 4.3E-07 9.4E-12 75.8 -2.8 69 37-110 151-219 (479)
117 PF08952 DUF1866: Domain of un 98.0 4.3E-05 9.4E-10 56.2 7.5 75 36-119 26-109 (146)
118 KOG1365 RNA-binding protein Fu 97.9 1.1E-05 2.5E-10 67.4 4.6 81 34-115 277-360 (508)
119 KOG0129 Predicted RNA-binding 97.9 7.7E-05 1.7E-09 64.7 8.9 66 34-100 256-327 (520)
120 KOG0112 Large RNA-binding prot 97.8 2E-05 4.3E-10 72.2 4.4 83 33-121 451-535 (975)
121 KOG1996 mRNA splicing factor [ 97.8 7.4E-05 1.6E-09 60.6 6.4 66 51-116 300-366 (378)
122 KOG2193 IGF-II mRNA-binding pr 97.6 7.2E-05 1.6E-09 63.5 3.6 74 38-119 2-78 (584)
123 KOG4307 RNA binding protein RB 97.5 5.9E-05 1.3E-09 67.5 2.9 80 34-114 431-511 (944)
124 PF03467 Smg4_UPF3: Smg-4/UPF3 97.5 0.0005 1.1E-08 52.8 7.2 82 35-116 5-97 (176)
125 KOG0128 RNA-binding protein SA 97.5 5.4E-05 1.2E-09 69.1 1.9 81 37-118 736-816 (881)
126 KOG1365 RNA-binding protein Fu 97.4 0.00045 9.7E-09 58.1 6.8 70 39-110 163-236 (508)
127 PF10309 DUF2414: Protein of u 97.4 0.0011 2.5E-08 41.6 6.7 56 36-99 4-62 (62)
128 KOG4660 Protein Mei2, essentia 97.3 0.00038 8.2E-09 61.0 4.8 56 61-116 413-472 (549)
129 KOG2068 MOT2 transcription fac 97.2 0.00013 2.9E-09 60.2 1.1 81 37-117 77-163 (327)
130 KOG0112 Large RNA-binding prot 97.2 6.8E-05 1.5E-09 68.8 -0.8 80 34-114 369-448 (975)
131 KOG0128 RNA-binding protein SA 97.1 2.5E-05 5.4E-10 71.2 -3.9 68 38-105 668-735 (881)
132 PF03880 DbpA: DbpA RNA bindin 97.1 0.0017 3.8E-08 42.5 5.6 67 39-114 2-74 (74)
133 PF08675 RNA_bind: RNA binding 97.0 0.0035 7.6E-08 41.7 6.5 55 38-101 10-64 (87)
134 KOG0115 RNA-binding protein p5 96.9 0.0012 2.5E-08 52.8 3.6 74 38-112 32-109 (275)
135 PF07576 BRAP2: BRCA1-associat 96.8 0.017 3.7E-07 40.8 9.1 67 38-106 14-81 (110)
136 PF04847 Calcipressin: Calcipr 96.8 0.0043 9.3E-08 48.0 6.2 62 50-117 8-71 (184)
137 KOG2591 c-Mpl binding protein, 96.7 0.002 4.3E-08 56.7 4.4 69 36-111 174-246 (684)
138 KOG2253 U1 snRNP complex, subu 96.7 0.00081 1.8E-08 60.1 1.8 73 33-114 36-108 (668)
139 KOG2135 Proteins containing th 96.6 0.0021 4.5E-08 55.5 3.5 73 37-116 372-445 (526)
140 PF15023 DUF4523: Protein of u 96.3 0.018 3.9E-07 42.2 6.6 74 34-115 83-160 (166)
141 KOG4285 Mitotic phosphoprotein 96.3 0.021 4.6E-07 46.8 7.6 70 37-114 197-267 (350)
142 KOG4574 RNA-binding protein (c 95.8 0.0049 1.1E-07 56.7 2.0 70 43-118 304-375 (1007)
143 PF11767 SET_assoc: Histone ly 95.6 0.077 1.7E-06 33.9 6.4 55 48-111 11-65 (66)
144 KOG0804 Cytoplasmic Zn-finger 95.5 0.041 8.8E-07 47.5 6.2 68 37-106 74-142 (493)
145 KOG4210 Nuclear localization s 95.4 0.0071 1.5E-07 50.0 1.4 80 36-115 87-166 (285)
146 KOG4019 Calcineurin-mediated s 95.3 0.018 4E-07 43.8 3.3 77 35-117 8-90 (193)
147 KOG2318 Uncharacterized conser 94.9 0.15 3.2E-06 45.5 8.1 79 35-113 172-302 (650)
148 KOG4410 5-formyltetrahydrofola 94.3 0.15 3.3E-06 41.6 6.2 62 33-100 326-395 (396)
149 KOG4207 Predicted splicing fac 92.9 2.4 5.3E-05 33.3 10.4 66 40-105 19-86 (256)
150 smart00596 PRE_C2HC PRE_C2HC d 92.0 0.2 4.3E-06 32.1 3.0 61 52-115 2-63 (69)
151 KOG2193 IGF-II mRNA-binding pr 92.0 0.005 1.1E-07 52.6 -5.6 76 37-115 80-155 (584)
152 PF07530 PRE_C2HC: Associated 91.9 0.34 7.3E-06 31.1 4.0 62 52-116 2-64 (68)
153 KOG4483 Uncharacterized conser 91.0 0.6 1.3E-05 40.0 5.6 58 34-98 388-446 (528)
154 PRK11634 ATP-dependent RNA hel 90.0 8.2 0.00018 35.7 12.6 70 38-116 487-562 (629)
155 KOG1295 Nonsense-mediated deca 87.8 0.86 1.9E-05 38.8 4.3 70 35-104 5-77 (376)
156 KOG4365 Uncharacterized conser 87.4 0.081 1.7E-06 45.7 -2.0 79 37-116 3-81 (572)
157 KOG2295 C2H2 Zn-finger protein 86.2 0.086 1.9E-06 46.7 -2.5 71 37-107 231-301 (648)
158 COG0724 RNA-binding proteins ( 84.6 1.4 3E-05 34.8 3.9 64 33-96 221-284 (306)
159 TIGR03636 L23_arch archaeal ri 84.1 4.4 9.6E-05 26.6 5.4 57 39-98 15-73 (77)
160 PRK14548 50S ribosomal protein 84.0 4.2 9E-05 27.2 5.3 57 39-98 22-80 (84)
161 PF03468 XS: XS domain; Inter 83.9 2.5 5.4E-05 30.1 4.5 55 39-96 10-74 (116)
162 PF10567 Nab6_mRNP_bdg: RNA-re 83.4 3.2 7E-05 34.2 5.5 81 35-115 13-106 (309)
163 KOG4454 RNA binding protein (R 83.2 0.24 5.2E-06 39.1 -1.0 73 35-108 78-154 (267)
164 KOG2891 Surface glycoprotein [ 80.8 0.68 1.5E-05 37.9 0.7 69 36-104 148-247 (445)
165 COG5638 Uncharacterized conser 80.4 6.3 0.00014 34.2 6.3 72 35-106 144-285 (622)
166 PF00403 HMA: Heavy-metal-asso 77.5 11 0.00023 23.0 5.4 54 39-98 1-58 (62)
167 KOG4008 rRNA processing protei 77.3 3.1 6.7E-05 33.3 3.4 34 35-68 38-71 (261)
168 PRK10629 EnvZ/OmpR regulon mod 76.1 21 0.00046 25.8 7.2 71 37-115 35-109 (127)
169 PRK11901 hypothetical protein; 74.1 9.9 0.00021 32.0 5.7 63 36-103 244-308 (327)
170 PF03439 Spt5-NGN: Early trans 73.9 13 0.00029 24.6 5.4 37 63-104 33-69 (84)
171 KOG3702 Nuclear polyadenylated 71.1 2.3 4.9E-05 38.8 1.4 72 39-111 513-584 (681)
172 PF09707 Cas_Cas2CT1978: CRISP 69.4 9.8 0.00021 25.6 3.9 50 35-87 23-72 (86)
173 KOG0835 Cyclin L [General func 68.8 16 0.00035 30.8 5.8 6 50-55 214-219 (367)
174 PRK08559 nusG transcription an 68.3 20 0.00043 26.7 5.9 35 64-103 36-70 (153)
175 PF15513 DUF4651: Domain of un 66.5 12 0.00026 23.4 3.6 20 51-70 8-27 (62)
176 PF14893 PNMA: PNMA 66.1 5.9 0.00013 33.6 2.9 78 34-116 15-96 (331)
177 KOG4840 Predicted hydrolases o 65.5 8.4 0.00018 31.0 3.4 70 37-111 37-112 (299)
178 COG2608 CopZ Copper chaperone 64.7 20 0.00044 22.8 4.6 55 37-97 3-61 (71)
179 PF08734 GYD: GYD domain; Int 63.9 37 0.00079 22.9 6.0 46 51-100 22-68 (91)
180 KOG3580 Tight junction protein 63.1 1.2E+02 0.0025 28.2 10.3 9 37-45 39-47 (1027)
181 PF01037 AsnC_trans_reg: AsnC 62.9 34 0.00074 21.2 7.1 45 50-98 11-55 (74)
182 PF02714 DUF221: Domain of unk 61.9 7.9 0.00017 32.3 2.9 33 82-116 1-33 (325)
183 COG5193 LHP1 La protein, small 60.6 4.8 0.0001 34.7 1.3 60 38-97 175-244 (438)
184 smart00195 DSPc Dual specifici 60.4 38 0.00083 24.1 6.1 28 38-67 6-33 (138)
185 KOG4213 RNA-binding protein La 59.4 13 0.00029 28.6 3.4 49 49-98 118-169 (205)
186 PF07292 NID: Nmi/IFP 35 domai 59.0 20 0.00043 24.2 3.9 33 82-114 1-34 (88)
187 KOG2888 Putative RNA binding p 57.4 7.3 0.00016 32.8 1.9 10 52-61 172-181 (453)
188 KOG0107 Alternative splicing f 57.0 89 0.0019 24.1 9.7 10 88-97 59-68 (195)
189 PF13291 ACT_4: ACT domain; PD 56.7 46 0.00099 21.3 5.4 64 38-101 7-71 (80)
190 PRK11230 glycolate oxidase sub 56.5 47 0.001 29.9 7.0 50 50-100 202-255 (499)
191 cd04904 ACT_AAAH ACT domain of 56.2 50 0.0011 21.0 7.4 51 50-101 13-65 (74)
192 PF08544 GHMP_kinases_C: GHMP 55.6 43 0.00094 21.4 5.2 44 52-100 37-80 (85)
193 PRK11558 putative ssRNA endonu 54.8 20 0.00044 24.7 3.4 51 35-88 25-75 (97)
194 PF07292 NID: Nmi/IFP 35 domai 52.5 9.4 0.0002 25.8 1.5 22 37-58 52-73 (88)
195 COG0030 KsgA Dimethyladenosine 52.3 24 0.00052 28.9 4.1 32 38-69 96-127 (259)
196 PF08156 NOP5NT: NOP5NT (NUC12 51.8 4.9 0.00011 25.6 0.0 39 52-100 27-65 (67)
197 cd00027 BRCT Breast Cancer Sup 51.5 48 0.001 19.6 4.7 27 38-64 2-28 (72)
198 TIGR00405 L26e_arch ribosomal 51.5 55 0.0012 23.9 5.7 26 77-102 36-61 (145)
199 PF11823 DUF3343: Protein of u 50.3 19 0.0004 23.1 2.6 25 80-104 2-26 (73)
200 PTZ00191 60S ribosomal protein 50.2 45 0.00099 24.7 4.9 55 39-96 83-139 (145)
201 KOG0156 Cytochrome P450 CYP2 s 50.1 26 0.00056 31.5 4.3 59 41-109 36-97 (489)
202 PF09902 DUF2129: Uncharacteri 49.7 33 0.00072 22.1 3.6 38 57-103 16-53 (71)
203 KOG1847 mRNA splicing factor [ 49.1 14 0.0003 34.0 2.4 11 152-162 733-743 (878)
204 PRK10905 cell division protein 47.4 35 0.00077 28.7 4.4 62 36-102 246-309 (328)
205 PF14581 SseB_C: SseB protein 47.2 38 0.00082 23.3 4.0 80 36-115 4-89 (108)
206 PF12623 Hen1_L: RNA repair, l 47.0 61 0.0013 26.0 5.4 65 35-100 116-184 (245)
207 COG5470 Uncharacterized conser 46.4 40 0.00088 23.0 3.8 18 79-96 53-70 (96)
208 PF00398 RrnaAD: Ribosomal RNA 45.8 16 0.00035 29.6 2.2 30 37-66 97-128 (262)
209 PF12829 Mhr1: Transcriptional 45.3 77 0.0017 21.5 5.0 53 45-101 20-73 (91)
210 PF15063 TC1: Thyroid cancer p 45.2 11 0.00024 24.6 0.9 29 37-65 25-53 (79)
211 COG0150 PurM Phosphoribosylami 45.2 7.2 0.00016 33.0 0.0 48 51-102 275-322 (345)
212 COG5507 Uncharacterized conser 44.7 29 0.00063 23.9 2.9 23 77-99 64-86 (117)
213 TIGR01873 cas_CT1978 CRISPR-as 44.1 38 0.00082 22.8 3.4 49 35-88 23-74 (87)
214 PF05189 RTC_insert: RNA 3'-te 44.0 77 0.0017 21.6 5.1 48 39-86 12-64 (103)
215 KOG2888 Putative RNA binding p 42.8 11 0.00023 31.9 0.7 9 79-87 160-168 (453)
216 KOG2135 Proteins containing th 42.4 22 0.00047 31.5 2.5 54 44-104 204-257 (526)
217 PF11411 DNA_ligase_IV: DNA li 42.2 18 0.00038 20.1 1.3 17 47-63 19-35 (36)
218 PF14111 DUF4283: Domain of un 42.1 13 0.00029 27.1 1.1 68 39-115 17-90 (153)
219 TIGR00387 glcD glycolate oxida 41.8 98 0.0021 27.0 6.6 51 48-99 143-197 (413)
220 COG1098 VacB Predicted RNA bin 41.2 52 0.0011 23.7 3.9 34 81-114 20-61 (129)
221 KOG3424 40S ribosomal protein 41.0 82 0.0018 22.5 4.8 46 48-94 34-84 (132)
222 cd04880 ACT_AAAH-PDT-like ACT 41.0 91 0.002 19.6 6.5 51 50-101 12-66 (75)
223 PF09383 NIL: NIL domain; Int 40.7 53 0.0012 20.9 3.7 55 47-101 12-68 (76)
224 cd04879 ACT_3PGDH-like ACT_3PG 40.6 80 0.0017 18.8 6.0 31 40-70 2-33 (71)
225 TIGR00755 ksgA dimethyladenosi 40.3 38 0.00081 27.3 3.5 25 39-63 96-120 (253)
226 PRK04199 rpl10e 50S ribosomal 40.3 1.7E+02 0.0036 22.4 6.9 26 80-106 129-158 (172)
227 cd04929 ACT_TPH ACT domain of 40.2 1E+02 0.0022 19.8 7.7 50 51-101 14-65 (74)
228 COG0445 GidA Flavin-dependent 40.0 60 0.0013 29.7 4.9 45 35-87 299-343 (621)
229 smart00666 PB1 PB1 domain. Pho 39.0 1E+02 0.0022 19.6 6.0 56 40-100 12-69 (81)
230 COG4010 Uncharacterized protei 39.0 89 0.0019 23.2 4.8 47 44-100 118-164 (170)
231 COG0079 HisC Histidinol-phosph 38.5 55 0.0012 28.0 4.4 50 36-96 145-198 (356)
232 PF04127 DFP: DNA / pantothena 38.4 75 0.0016 24.5 4.7 60 38-99 19-79 (185)
233 cd06405 PB1_Mekk2_3 The PB1 do 38.2 1.1E+02 0.0025 19.9 7.2 62 43-113 14-76 (79)
234 TIGR00587 nfo apurinic endonuc 37.9 53 0.0012 26.8 4.1 58 37-100 137-202 (274)
235 KOG1999 RNA polymerase II tran 37.7 58 0.0013 31.6 4.6 33 78-111 209-241 (1024)
236 PF15440 THRAP3_BCLAF1: THRAP3 37.2 47 0.001 31.0 4.0 12 152-163 2-13 (646)
237 COG1207 GlmU N-acetylglucosami 37.1 1.5E+02 0.0034 26.2 6.8 67 36-102 96-174 (460)
238 PLN02805 D-lactate dehydrogena 36.6 1.5E+02 0.0033 27.1 7.1 51 49-100 278-332 (555)
239 PF14026 DUF4242: Protein of u 36.4 1.2E+02 0.0026 19.7 7.8 61 40-103 3-70 (77)
240 PRK00274 ksgA 16S ribosomal RN 36.3 45 0.00098 27.2 3.5 22 39-60 107-128 (272)
241 KOG1232 Proteins containing th 36.1 56 0.0012 28.5 3.9 52 44-96 231-286 (511)
242 PF09869 DUF2096: Uncharacteri 35.7 1.9E+02 0.0042 22.0 6.3 47 44-100 118-164 (169)
243 cd06404 PB1_aPKC PB1 domain is 35.3 1.4E+02 0.003 20.0 7.1 55 39-100 10-69 (83)
244 COG0002 ArgC Acetylglutamate s 34.7 59 0.0013 27.8 3.9 33 38-71 247-280 (349)
245 PTZ00071 40S ribosomal protein 34.7 1.4E+02 0.0029 21.9 5.2 46 48-94 35-86 (132)
246 cd04878 ACT_AHAS N-terminal AC 34.4 1E+02 0.0023 18.4 7.1 60 39-100 2-63 (72)
247 PRK01178 rps24e 30S ribosomal 34.3 1.5E+02 0.0033 20.4 5.3 47 48-95 30-81 (99)
248 COG5584 Predicted small secret 34.2 73 0.0016 21.9 3.5 30 44-73 29-58 (103)
249 cd04908 ACT_Bt0572_1 N-termina 34.1 1.1E+02 0.0024 18.6 7.8 45 50-98 14-59 (66)
250 KOG0862 Synaptobrevin/VAMP-lik 34.0 32 0.00069 27.2 2.0 13 77-89 107-119 (216)
251 PF07237 DUF1428: Protein of u 33.8 1.3E+02 0.0027 21.0 4.7 48 52-99 23-85 (103)
252 COG0018 ArgS Arginyl-tRNA synt 33.7 2E+02 0.0042 26.6 7.3 65 51-122 60-132 (577)
253 PTZ00338 dimethyladenosine tra 33.7 48 0.001 27.6 3.2 22 39-60 103-124 (294)
254 smart00650 rADc Ribosomal RNA 33.6 62 0.0014 24.1 3.6 23 38-60 78-100 (169)
255 PF13046 DUF3906: Protein of u 33.5 49 0.0011 20.9 2.4 33 50-84 31-63 (64)
256 PF02426 MIase: Muconolactone 33.4 1.5E+02 0.0034 20.0 8.0 58 43-104 9-76 (91)
257 cd04931 ACT_PAH ACT domain of 33.2 1.5E+02 0.0033 19.9 7.8 60 39-100 15-79 (90)
258 PF08538 DUF1749: Protein of u 32.8 39 0.00084 28.3 2.5 60 35-99 32-97 (303)
259 PF01782 RimM: RimM N-terminal 32.3 91 0.002 20.2 3.9 24 79-103 54-77 (84)
260 PRK12378 hypothetical protein; 32.2 1.7E+02 0.0037 23.6 6.0 28 36-63 90-119 (235)
261 COG3254 Uncharacterized conser 32.1 1.6E+02 0.0036 20.5 5.0 42 52-96 27-68 (105)
262 cd04905 ACT_CM-PDT C-terminal 31.8 1.4E+02 0.003 19.0 6.9 50 51-101 15-68 (80)
263 COG0225 MsrA Peptide methionin 31.3 1.2E+02 0.0027 23.2 4.7 76 39-117 59-138 (174)
264 KOG2187 tRNA uracil-5-methyltr 30.6 34 0.00073 30.8 1.9 38 79-116 63-100 (534)
265 cd04887 ACT_MalLac-Enz ACT_Mal 30.4 1.4E+02 0.0029 18.4 6.8 61 40-101 2-63 (74)
266 PRK02886 hypothetical protein; 30.3 1.1E+02 0.0025 20.5 3.9 38 57-103 20-57 (87)
267 PF05036 SPOR: Sporulation rel 30.3 6.2 0.00014 24.8 -2.1 59 38-100 5-65 (76)
268 smart00738 NGN In Spt5p, this 30.1 95 0.0021 20.9 3.8 24 79-102 59-82 (106)
269 KOG1719 Dual specificity phosp 30.0 1.8E+02 0.0039 22.1 5.3 27 87-113 90-116 (183)
270 PRK05772 translation initiatio 29.9 1.7E+02 0.0037 25.2 6.0 50 49-100 3-57 (363)
271 PRK10162 acetyl esterase; Prov 29.9 1.5E+02 0.0033 24.6 5.7 58 36-99 249-308 (318)
272 cd04930 ACT_TH ACT domain of t 29.8 2E+02 0.0044 20.2 7.3 62 39-101 42-106 (115)
273 KOG0635 Adenosine 5'-phosphosu 29.7 91 0.002 23.7 3.7 33 35-67 29-64 (207)
274 cd04917 ACT_AKiii-LysC-EC_2 AC 29.6 86 0.0019 19.0 3.2 17 87-103 46-62 (64)
275 KOG3671 Actin regulatory prote 29.2 1.2E+02 0.0026 27.3 5.0 48 49-101 90-137 (569)
276 PRK02302 hypothetical protein; 29.1 1.2E+02 0.0026 20.5 3.9 38 57-103 22-59 (89)
277 TIGR00279 L10e ribosomal prote 29.1 2.3E+02 0.0051 21.7 5.9 18 88-106 141-158 (172)
278 COG0217 Uncharacterized conser 29.0 2.3E+02 0.0049 23.0 6.1 38 36-73 93-136 (241)
279 PF01842 ACT: ACT domain; Int 28.9 1.3E+02 0.0028 17.8 4.5 47 50-99 13-61 (66)
280 CHL00123 rps6 ribosomal protei 28.8 1.9E+02 0.004 19.7 5.0 57 39-97 10-80 (97)
281 PF01762 Galactosyl_T: Galacto 28.3 69 0.0015 24.5 3.1 34 37-70 21-57 (195)
282 cd04902 ACT_3PGDH-xct C-termin 28.0 1.5E+02 0.0032 18.0 5.3 59 41-101 3-64 (73)
283 smart00434 TOP4c DNA Topoisome 27.9 1.1E+02 0.0024 27.1 4.7 57 38-95 233-293 (445)
284 PF13689 DUF4154: Domain of un 27.9 1.3E+02 0.0028 21.9 4.4 35 79-114 26-60 (145)
285 PHA03008 hypothetical protein; 27.8 94 0.002 24.4 3.6 38 34-71 18-55 (234)
286 PF08206 OB_RNB: Ribonuclease 27.7 9.6 0.00021 23.3 -1.5 36 79-115 8-44 (58)
287 PF03389 MobA_MobL: MobA/MobL 27.3 1.7E+02 0.0037 23.1 5.3 48 38-88 68-123 (216)
288 PF14268 YoaP: YoaP-like 26.3 75 0.0016 18.4 2.2 33 82-114 3-37 (44)
289 PF08442 ATP-grasp_2: ATP-gras 26.1 1.4E+02 0.003 23.4 4.5 54 49-105 25-81 (202)
290 PF13721 SecD-TM1: SecD export 25.5 2.3E+02 0.005 19.4 6.7 57 38-102 32-92 (101)
291 KOG2855 Ribokinase [Carbohydra 25.3 1.3E+02 0.0027 25.7 4.3 48 35-86 59-107 (330)
292 KOG4388 Hormone-sensitive lipa 25.3 1.1E+02 0.0023 28.5 4.0 59 36-100 788-852 (880)
293 TIGR01033 DNA-binding regulato 25.3 2.5E+02 0.0055 22.6 5.9 28 36-63 93-122 (238)
294 cd00127 DSPc Dual specificity 25.0 1.9E+02 0.0042 20.1 4.9 20 36-55 5-24 (139)
295 KOG1546 Metacaspase involved i 25.0 4.4E+02 0.0095 22.5 8.1 90 20-115 46-147 (362)
296 PF12687 DUF3801: Protein of u 24.8 1.8E+02 0.004 22.7 4.9 56 49-106 39-97 (204)
297 PHA01632 hypothetical protein 24.7 75 0.0016 19.4 2.1 19 42-60 21-39 (64)
298 cd04883 ACT_AcuB C-terminal AC 24.4 1.8E+02 0.0038 17.7 8.3 47 50-98 14-63 (72)
299 PTZ00372 endonuclease 4-like p 24.4 1E+02 0.0022 27.1 3.7 59 36-100 267-333 (413)
300 KOG4357 Uncharacterized conser 24.2 2.8E+02 0.0061 20.1 6.0 26 81-106 115-140 (164)
301 PF10567 Nab6_mRNP_bdg: RNA-re 24.0 4.4E+02 0.0094 22.1 8.1 39 64-102 174-214 (309)
302 PLN02707 Soluble inorganic pyr 23.9 32 0.00069 28.3 0.5 41 52-101 208-249 (267)
303 PRK15464 cold shock-like prote 23.5 56 0.0012 20.9 1.5 38 79-117 16-59 (70)
304 PF04026 SpoVG: SpoVG; InterP 23.4 1.6E+02 0.0035 19.6 3.7 26 63-88 2-27 (84)
305 PF11061 DUF2862: Protein of u 23.3 2E+02 0.0044 18.1 4.0 43 39-88 4-51 (64)
306 cd01201 Neurobeachin Neurobeac 23.3 2.6E+02 0.0057 19.6 4.9 54 40-100 49-106 (108)
307 PF09702 Cas_Csa5: CRISPR-asso 23.3 86 0.0019 21.8 2.4 23 34-59 61-83 (105)
308 smart00633 Glyco_10 Glycosyl h 23.1 3.5E+02 0.0077 21.6 6.5 24 86-112 165-188 (254)
309 PRK05738 rplW 50S ribosomal pr 23.1 2.1E+02 0.0045 19.3 4.3 31 39-69 21-53 (92)
310 PF01071 GARS_A: Phosphoribosy 22.9 98 0.0021 24.1 3.0 46 50-99 25-70 (194)
311 PF13820 Nucleic_acid_bd: Puta 22.8 1.1E+02 0.0024 22.8 3.2 58 40-101 7-67 (149)
312 KOG2996 Rho guanine nucleotide 22.6 53 0.0011 30.2 1.6 61 51-112 497-557 (865)
313 KOG2854 Possible pfkB family c 22.6 88 0.0019 26.6 2.8 62 37-98 160-231 (343)
314 PF14401 RLAN: RimK-like ATPgr 22.4 1.4E+02 0.0029 22.3 3.6 58 37-94 87-145 (153)
315 TIGR02381 cspD cold shock doma 22.3 73 0.0016 20.1 1.9 38 79-117 13-56 (68)
316 cd04894 ACT_ACR-like_1 ACT dom 22.3 2.1E+02 0.0045 18.1 3.8 38 44-87 6-45 (69)
317 cd07052 BMC_like_1_repeat2 Bac 22.2 2.4E+02 0.0052 18.6 4.3 20 79-98 53-73 (79)
318 PF05929 Phage_GPO: Phage caps 22.0 2.6E+02 0.0057 23.1 5.5 17 57-73 52-68 (276)
319 PF09341 Pcc1: Transcription f 21.9 1.4E+02 0.003 19.0 3.2 36 80-115 3-50 (76)
320 cd05992 PB1 The PB1 domain is 21.9 2.2E+02 0.0047 17.9 4.7 52 44-100 15-69 (81)
321 PF11004 Kdo_hydroxy: 3-deoxy- 21.9 1.4E+02 0.0031 24.6 3.8 45 35-80 19-64 (281)
322 COG5236 Uncharacterized conser 21.8 1.9E+02 0.0042 24.8 4.7 51 51-109 264-314 (493)
323 cd04458 CSP_CDS Cold-Shock Pro 21.8 46 0.001 20.4 0.9 38 79-116 12-54 (65)
324 smart00518 AP2Ec AP endonuclea 21.6 2.1E+02 0.0045 22.9 4.9 37 36-72 132-173 (273)
325 PF11910 NdhO: Cyanobacterial 21.6 90 0.0019 19.7 2.0 22 56-87 30-51 (67)
326 PRK09937 stationary phase/star 21.6 71 0.0015 20.6 1.7 9 79-87 13-21 (74)
327 PLN02655 ent-kaurene oxidase 21.5 1.6E+02 0.0035 25.8 4.5 49 41-98 9-60 (466)
328 PF07876 Dabb: Stress responsi 21.5 2.4E+02 0.0053 18.3 6.8 57 39-95 3-70 (97)
329 PRK12450 foldase protein PrsA; 21.5 1.4E+02 0.003 25.0 3.9 39 48-100 132-170 (309)
330 PF00585 Thr_dehydrat_C: C-ter 21.5 1.5E+02 0.0034 19.8 3.5 58 39-101 11-73 (91)
331 PF15407 Spo7_2_N: Sporulation 21.5 32 0.00069 21.9 0.1 24 36-59 26-49 (67)
332 PF02946 GTF2I: GTF2I-like rep 21.3 1.9E+02 0.0042 18.9 3.6 31 37-67 34-72 (76)
333 cd04882 ACT_Bt0572_2 C-termina 21.3 1.9E+02 0.0041 17.0 5.8 46 51-98 13-59 (65)
334 PF00313 CSD: 'Cold-shock' DNA 21.3 68 0.0015 19.7 1.6 12 79-90 12-23 (66)
335 cd06396 PB1_NBR1 The PB1 domai 21.2 2.6E+02 0.0056 18.5 6.1 65 41-113 12-78 (81)
336 KOG0918 Selenium-binding prote 21.1 72 0.0016 27.9 2.1 58 35-92 398-456 (476)
337 PRK14998 cold shock-like prote 21.0 76 0.0017 20.4 1.8 39 79-118 13-57 (73)
338 PRK09507 cspE cold shock prote 21.0 67 0.0015 20.4 1.5 10 79-88 15-24 (69)
339 PRK15463 cold shock-like prote 20.9 69 0.0015 20.4 1.6 39 79-117 16-59 (70)
340 COG3227 LasB Zinc metalloprote 20.9 3.2E+02 0.0069 24.6 5.9 56 46-115 48-106 (507)
341 PTZ00363 rab-GDP dissociation 20.8 2.4E+02 0.0051 25.0 5.3 33 38-70 351-384 (443)
342 PF07521 RMMBL: RNA-metabolisi 20.7 1.2E+02 0.0025 17.2 2.3 33 37-70 6-38 (43)
343 cd06408 PB1_NoxR The PB1 domai 20.5 2.6E+02 0.0057 18.7 4.3 54 40-99 13-67 (86)
344 KOG0226 RNA-binding proteins [ 20.5 34 0.00075 27.9 0.1 73 38-111 97-172 (290)
345 cd04909 ACT_PDH-BS C-terminal 20.5 2.1E+02 0.0046 17.3 7.3 49 50-100 14-63 (69)
346 PF09162 Tap-RNA_bind: Tap, RN 20.4 1.6E+02 0.0036 19.8 3.3 59 49-114 18-80 (88)
347 COG0045 SucC Succinyl-CoA synt 20.4 3.9E+02 0.0085 23.3 6.3 65 49-116 26-97 (387)
348 PRK10943 cold shock-like prote 20.4 69 0.0015 20.3 1.5 39 79-117 15-58 (69)
349 COG1691 NCAIR mutase (PurE)-re 20.3 1.3E+02 0.0028 24.3 3.2 54 45-99 15-69 (254)
350 cd00187 TOP4c DNA Topoisomeras 20.2 2.3E+02 0.0049 25.2 5.1 57 38-96 226-286 (445)
351 PRK13014 methionine sulfoxide 20.1 3.4E+02 0.0074 21.0 5.4 74 39-115 61-138 (186)
No 1
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.92 E-value=5.7e-24 Score=157.56 Aligned_cols=81 Identities=30% Similarity=0.550 Sum_probs=75.4
Q ss_pred CCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEE
Q 028371 34 RDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 113 (210)
Q Consensus 34 ~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~ 113 (210)
.+..++||||||+..+++.+|+.+|..||.|..|+|..++ .|||||||++..+|+.|+..|+|..|+|..|.|++
T Consensus 7 ~~~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArnP-----PGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~ 81 (195)
T KOG0107|consen 7 RNGNTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARNP-----PGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVEL 81 (195)
T ss_pred cCCCceEEeccCCCCcchHHHHHHHHhcCcceeEEEeecC-----CCceEEeccCcccHHHHHhhcCCccccCceEEEEe
Confidence 3568999999999999999999999999999999998766 99999999999999999999999999999999999
Q ss_pred eecCCC
Q 028371 114 AEENRK 119 (210)
Q Consensus 114 a~~~~~ 119 (210)
+.....
T Consensus 82 S~G~~r 87 (195)
T KOG0107|consen 82 STGRPR 87 (195)
T ss_pred ecCCcc
Confidence 976543
No 2
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.89 E-value=7e-22 Score=147.03 Aligned_cols=97 Identities=33% Similarity=0.449 Sum_probs=89.2
Q ss_pred CCCCCCCCCCCCCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCe
Q 028371 23 PSPRGHYGGRGRDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGY 102 (210)
Q Consensus 23 p~~~~~~~~~~~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~ 102 (210)
+.|.....+......++|||+||+++++|++|+++|.+||.|..|.|+.+..++.++|||||+|.+.++|+.||+.||+.
T Consensus 20 ~~~~~~~~~~~~~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~ 99 (144)
T PLN03134 20 NVPVTSMLGSLRLMSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGK 99 (144)
T ss_pred CCccccccccccCCCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCC
Confidence 45556666777788999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eEcCeEEEEEEeecCCC
Q 028371 103 LLLGRELTVVFAEENRK 119 (210)
Q Consensus 103 ~i~g~~i~v~~a~~~~~ 119 (210)
.|+|+.|+|+++.+...
T Consensus 100 ~i~Gr~l~V~~a~~~~~ 116 (144)
T PLN03134 100 ELNGRHIRVNPANDRPS 116 (144)
T ss_pred EECCEEEEEEeCCcCCC
Confidence 99999999999976543
No 3
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.88 E-value=8.8e-22 Score=149.56 Aligned_cols=86 Identities=48% Similarity=0.725 Sum_probs=81.2
Q ss_pred CCCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEE
Q 028371 33 GRDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVV 112 (210)
Q Consensus 33 ~~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~ 112 (210)
+-+..++|.|-||.+.|+.++|..+|++||.|-.|.|++|..|+.++|||||.|.+..+|+.|+++|+|.+|+|+.|.|+
T Consensus 9 dv~gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq 88 (256)
T KOG4207|consen 9 DVEGMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQ 88 (256)
T ss_pred CcccceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceeeeh
Confidence 44557889999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EeecCC
Q 028371 113 FAEENR 118 (210)
Q Consensus 113 ~a~~~~ 118 (210)
+|....
T Consensus 89 ~arygr 94 (256)
T KOG4207|consen 89 MARYGR 94 (256)
T ss_pred hhhcCC
Confidence 997654
No 4
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.83 E-value=3e-19 Score=142.43 Aligned_cols=86 Identities=31% Similarity=0.480 Sum_probs=81.5
Q ss_pred CCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEe
Q 028371 35 DLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFA 114 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a 114 (210)
++-+||||+-|+++++|..|+..|..||.|+.|.|+.++.||+++|||||+|+++.++..|.+..+|.+|+|+.|.|.+.
T Consensus 99 DPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VDvE 178 (335)
T KOG0113|consen 99 DPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDVE 178 (335)
T ss_pred CccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEEec
Confidence 77899999999999999999999999999999999999999999999999999999999999999999999999999997
Q ss_pred ecCCCC
Q 028371 115 EENRKK 120 (210)
Q Consensus 115 ~~~~~~ 120 (210)
.....+
T Consensus 179 RgRTvk 184 (335)
T KOG0113|consen 179 RGRTVK 184 (335)
T ss_pred cccccc
Confidence 655443
No 5
>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=99.78 E-value=9.3e-19 Score=147.44 Aligned_cols=84 Identities=27% Similarity=0.442 Sum_probs=79.5
Q ss_pred CCCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEE
Q 028371 33 GRDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVV 112 (210)
Q Consensus 33 ~~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~ 112 (210)
.....++|||+|||+++++++|+++|..||+|+.|.|+.++.++.++|||||+|.++++|+.||+.|++..|.++.|+|.
T Consensus 103 ~~~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~ 182 (346)
T TIGR01659 103 TNNSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVS 182 (346)
T ss_pred CCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeee
Confidence 44567899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred Eeec
Q 028371 113 FAEE 116 (210)
Q Consensus 113 ~a~~ 116 (210)
++.+
T Consensus 183 ~a~p 186 (346)
T TIGR01659 183 YARP 186 (346)
T ss_pred cccc
Confidence 9865
No 6
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.78 E-value=2e-18 Score=146.21 Aligned_cols=84 Identities=31% Similarity=0.474 Sum_probs=79.2
Q ss_pred CCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEe
Q 028371 35 DLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFA 114 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a 114 (210)
..+.+|||+|||+.+++++|.++|.+||.|..|.|+.+..++.++|||||+|.+.++|..||+.|||..|+|+.|+|.|+
T Consensus 267 ~~~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V~~~ 346 (352)
T TIGR01661 267 GAGYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQVSFK 346 (352)
T ss_pred CCCcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEc
Confidence 34457999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecCC
Q 028371 115 EENR 118 (210)
Q Consensus 115 ~~~~ 118 (210)
..+.
T Consensus 347 ~~~~ 350 (352)
T TIGR01661 347 TNKA 350 (352)
T ss_pred cCCC
Confidence 7654
No 7
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.77 E-value=2e-18 Score=146.22 Aligned_cols=83 Identities=31% Similarity=0.563 Sum_probs=78.9
Q ss_pred CCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEee
Q 028371 36 LPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAE 115 (210)
Q Consensus 36 ~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~ 115 (210)
..++|||+|||..++|++|+++|..||+|..|.|+.++.+|.++|||||+|.+.++|+.||+.|||..|.|+.|.|+|+.
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 46899999999999999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred cCC
Q 028371 116 ENR 118 (210)
Q Consensus 116 ~~~ 118 (210)
+..
T Consensus 82 ~~~ 84 (352)
T TIGR01661 82 PSS 84 (352)
T ss_pred ccc
Confidence 543
No 8
>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=5.5e-18 Score=110.27 Aligned_cols=70 Identities=34% Similarity=0.628 Sum_probs=66.7
Q ss_pred EEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEE
Q 028371 40 LLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELT 110 (210)
Q Consensus 40 l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~ 110 (210)
|||+|||.++++++|+++|.+||.|..+.+..+ .++...+||||+|.+.++|+.|++.|+|..|+|..|+
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 9
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.75 E-value=6.7e-18 Score=131.42 Aligned_cols=86 Identities=36% Similarity=0.546 Sum_probs=82.6
Q ss_pred CCCCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEE
Q 028371 32 RGRDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTV 111 (210)
Q Consensus 32 ~~~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v 111 (210)
+.++..++|-|.||+.+++|++|++||.+||.|..|.|..|+.||.++|||||.|.+.++|++||+.|||.-++.-.|.|
T Consensus 184 R~R~D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrv 263 (270)
T KOG0122|consen 184 RERDDEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRV 263 (270)
T ss_pred ccCCccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEE
Confidence 56678899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEeecC
Q 028371 112 VFAEEN 117 (210)
Q Consensus 112 ~~a~~~ 117 (210)
+|+++.
T Consensus 264 EwskP~ 269 (270)
T KOG0122|consen 264 EWSKPS 269 (270)
T ss_pred EecCCC
Confidence 999874
No 10
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.74 E-value=4.2e-18 Score=120.34 Aligned_cols=81 Identities=26% Similarity=0.402 Sum_probs=77.6
Q ss_pred CCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEe
Q 028371 35 DLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFA 114 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a 114 (210)
...+||||+||+..|+|++|.++|.++|+|..|.|-.|+.+..+.|||||+|...++|+.||+.|+|..|+.++|.|.|.
T Consensus 34 r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D 113 (153)
T KOG0121|consen 34 RKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWD 113 (153)
T ss_pred hhcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeecc
Confidence 45799999999999999999999999999999999999999999999999999999999999999999999999999986
Q ss_pred e
Q 028371 115 E 115 (210)
Q Consensus 115 ~ 115 (210)
.
T Consensus 114 ~ 114 (153)
T KOG0121|consen 114 A 114 (153)
T ss_pred c
Confidence 4
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=4.9e-17 Score=137.05 Aligned_cols=83 Identities=33% Similarity=0.516 Sum_probs=77.3
Q ss_pred CCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcC--eEEEEEE
Q 028371 36 LPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLG--RELTVVF 113 (210)
Q Consensus 36 ~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g--~~i~v~~ 113 (210)
..++|||+|||..++|++|+++|.+||+|+.|.|+.++.++++++||||+|.+.++|++||+.||+..|.+ ..|.|.+
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 46789999999999999999999999999999999999999999999999999999999999999999876 6899999
Q ss_pred eecCC
Q 028371 114 AEENR 118 (210)
Q Consensus 114 a~~~~ 118 (210)
|....
T Consensus 272 a~~~~ 276 (346)
T TIGR01659 272 AEEHG 276 (346)
T ss_pred CCccc
Confidence 87654
No 12
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=99.73 E-value=1.1e-17 Score=119.30 Aligned_cols=84 Identities=25% Similarity=0.400 Sum_probs=79.7
Q ss_pred CCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEe
Q 028371 35 DLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFA 114 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a 114 (210)
-.+-.|||+++..+++|++|.+.|..||+|++|.|..|..||..+|||+|+|++.++|+.||..|||..|.|+.|.|.|+
T Consensus 70 VEGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw~ 149 (170)
T KOG0130|consen 70 VEGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDWC 149 (170)
T ss_pred eeeEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEEEE
Confidence 34678999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecCC
Q 028371 115 EENR 118 (210)
Q Consensus 115 ~~~~ 118 (210)
.-+.
T Consensus 150 Fv~g 153 (170)
T KOG0130|consen 150 FVKG 153 (170)
T ss_pred EecC
Confidence 8643
No 13
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.71 E-value=1.8e-17 Score=128.55 Aligned_cols=82 Identities=28% Similarity=0.415 Sum_probs=75.6
Q ss_pred CCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEE
Q 028371 34 RDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 113 (210)
Q Consensus 34 ~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~ 113 (210)
+..-++||||||+|++..++|..+|++||+|++..|+.|+.+|.++||+||+|.+.+.|..||+. .+-.|+|++..|++
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 45578999999999999999999999999999999999999999999999999999999999965 45789999999998
Q ss_pred eec
Q 028371 114 AEE 116 (210)
Q Consensus 114 a~~ 116 (210)
|.-
T Consensus 88 A~l 90 (247)
T KOG0149|consen 88 ASL 90 (247)
T ss_pred hhh
Confidence 854
No 14
>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=99.71 E-value=1.7e-16 Score=103.64 Aligned_cols=70 Identities=33% Similarity=0.563 Sum_probs=64.8
Q ss_pred EEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEE
Q 028371 40 LLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELT 110 (210)
Q Consensus 40 l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~ 110 (210)
|||+|||+.+++++|.++|..||.|..|.+..++. +..+++|||+|.+.++|+.|++.+++..|+|+.|+
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 79999999999999999999999999999998876 88999999999999999999999999999999874
No 15
>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=99.69 E-value=2.9e-16 Score=137.53 Aligned_cols=80 Identities=24% Similarity=0.429 Sum_probs=75.5
Q ss_pred CCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEee
Q 028371 36 LPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAE 115 (210)
Q Consensus 36 ~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~ 115 (210)
...+|||+|||..+++++|+++|.+||.|..|.|+.++.++.++|||||+|.+.++|++|| .|+|..|.|..|.|+++.
T Consensus 88 ~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al-~l~g~~~~g~~i~v~~~~ 166 (457)
T TIGR01622 88 DDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKAL-ALTGQMLLGRPIIVQSSQ 166 (457)
T ss_pred CCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHH-HhCCCEECCeeeEEeecc
Confidence 4678999999999999999999999999999999999999999999999999999999999 589999999999998865
Q ss_pred c
Q 028371 116 E 116 (210)
Q Consensus 116 ~ 116 (210)
.
T Consensus 167 ~ 167 (457)
T TIGR01622 167 A 167 (457)
T ss_pred h
Confidence 4
No 16
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.68 E-value=2.4e-16 Score=139.70 Aligned_cols=83 Identities=25% Similarity=0.330 Sum_probs=78.7
Q ss_pred CCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEe
Q 028371 35 DLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFA 114 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a 114 (210)
+...+|||+|||+.+++++|+++|+.||.|..|.|+.+..+|.++|||||+|.+.++|+.||+.|||..|+|..|.|++|
T Consensus 293 ~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a 372 (509)
T TIGR01642 293 DSKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRA 372 (509)
T ss_pred CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEC
Confidence 45689999999999999999999999999999999999889999999999999999999999999999999999999998
Q ss_pred ecC
Q 028371 115 EEN 117 (210)
Q Consensus 115 ~~~ 117 (210)
...
T Consensus 373 ~~~ 375 (509)
T TIGR01642 373 CVG 375 (509)
T ss_pred ccC
Confidence 654
No 17
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.68 E-value=5.7e-17 Score=121.16 Aligned_cols=83 Identities=29% Similarity=0.378 Sum_probs=79.9
Q ss_pred CCCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEE
Q 028371 33 GRDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVV 112 (210)
Q Consensus 33 ~~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~ 112 (210)
+.++..||||+||+..++++.|+++|-+.|.|..|.|+.+..+...+|||||+|.++++|+-||+.||...|.|++|+|.
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 45788999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred Eee
Q 028371 113 FAE 115 (210)
Q Consensus 113 ~a~ 115 (210)
.+.
T Consensus 85 kas 87 (203)
T KOG0131|consen 85 KAS 87 (203)
T ss_pred ecc
Confidence 886
No 18
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.67 E-value=7.1e-18 Score=125.99 Aligned_cols=82 Identities=28% Similarity=0.446 Sum_probs=77.3
Q ss_pred CCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEe
Q 028371 35 DLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFA 114 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a 114 (210)
....-|||||||+++||.||..+|.+||+|+.|.|+.|+.||+++||||+-|++......|+..|||..|.|+.|+|...
T Consensus 33 kdsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv 112 (219)
T KOG0126|consen 33 KDSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHV 112 (219)
T ss_pred ccceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeeec
Confidence 34667999999999999999999999999999999999999999999999999999999999999999999999999876
Q ss_pred ec
Q 028371 115 EE 116 (210)
Q Consensus 115 ~~ 116 (210)
..
T Consensus 113 ~~ 114 (219)
T KOG0126|consen 113 SN 114 (219)
T ss_pred cc
Confidence 43
No 19
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.67 E-value=4e-16 Score=124.50 Aligned_cols=76 Identities=18% Similarity=0.318 Sum_probs=70.4
Q ss_pred CCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEeec
Q 028371 37 PTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEE 116 (210)
Q Consensus 37 ~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~~ 116 (210)
..+|||+||++.+++++|+++|..||+|..|.|+.+.. ..|||||+|.+.++|+.|| .|+|..|.|+.|.|.++..
T Consensus 4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~---~~GfAFVtF~d~eaAe~Al-lLnG~~l~gr~V~Vt~a~~ 79 (260)
T PLN03120 4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENE---RSQIAYVTFKDPQGAETAL-LLSGATIVDQSVTITPAED 79 (260)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCC---CCCEEEEEeCcHHHHHHHH-HhcCCeeCCceEEEEeccC
Confidence 57999999999999999999999999999999987753 4689999999999999999 5999999999999999864
No 20
>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=99.66 E-value=4.4e-16 Score=136.36 Aligned_cols=80 Identities=38% Similarity=0.650 Sum_probs=76.9
Q ss_pred CCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEeec
Q 028371 37 PTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEE 116 (210)
Q Consensus 37 ~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~~ 116 (210)
.++|||+|||..+++++|+++|.+||.|..|.|+.+..+|.++|||||+|.+.++|+.||+.|||..|.|+.|.|.|+..
T Consensus 186 ~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a~~ 265 (457)
T TIGR01622 186 FLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQD 265 (457)
T ss_pred CCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEccC
Confidence 47899999999999999999999999999999999998899999999999999999999999999999999999999864
No 21
>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=99.66 E-value=4.7e-16 Score=138.20 Aligned_cols=84 Identities=21% Similarity=0.309 Sum_probs=79.0
Q ss_pred CCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEe
Q 028371 35 DLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFA 114 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a 114 (210)
...++|||+||+.++++++|+++|+.||.|..|.|+.++.++..+|||||+|.+.++|+.||+.||+..|+|+.|+|.++
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 ecCC
Q 028371 115 EENR 118 (210)
Q Consensus 115 ~~~~ 118 (210)
....
T Consensus 282 i~pP 285 (612)
T TIGR01645 282 VTPP 285 (612)
T ss_pred CCCc
Confidence 7543
No 22
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.66 E-value=7.6e-17 Score=123.90 Aligned_cols=88 Identities=34% Similarity=0.553 Sum_probs=82.6
Q ss_pred CCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEE
Q 028371 34 RDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 113 (210)
Q Consensus 34 ~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~ 113 (210)
.....+||||+|..+|+|..|...|-.||.|..|.|+.|..+++++|||||+|+..++|.+||..||+.+|.|+.|.|.+
T Consensus 7 a~~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~ 86 (298)
T KOG0111|consen 7 ANQKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNL 86 (298)
T ss_pred cccceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEee
Confidence 45678999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eecCCCCc
Q 028371 114 AEENRKKP 121 (210)
Q Consensus 114 a~~~~~~~ 121 (210)
|++.+.+.
T Consensus 87 AkP~kike 94 (298)
T KOG0111|consen 87 AKPEKIKE 94 (298)
T ss_pred cCCccccC
Confidence 98765443
No 23
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.66 E-value=6.3e-16 Score=129.40 Aligned_cols=88 Identities=22% Similarity=0.435 Sum_probs=80.3
Q ss_pred CCCCCCCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeE-cCe
Q 028371 29 YGGRGRDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLL-LGR 107 (210)
Q Consensus 29 ~~~~~~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i-~g~ 107 (210)
..++....++-||||.||.++.|++|.-||++.|+|-++.|+.|+.+|.++|||||+|.+.++|+.||+.||+.+| .|+
T Consensus 75 weg~~p~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK 154 (506)
T KOG0117|consen 75 WEGPPPPRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGK 154 (506)
T ss_pred ccCCCCCCCceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCC
Confidence 3444557789999999999999999999999999999999999999999999999999999999999999999988 588
Q ss_pred EEEEEEeec
Q 028371 108 ELTVVFAEE 116 (210)
Q Consensus 108 ~i~v~~a~~ 116 (210)
.|.|+.+..
T Consensus 155 ~igvc~Sva 163 (506)
T KOG0117|consen 155 LLGVCVSVA 163 (506)
T ss_pred EeEEEEeee
Confidence 888887643
No 24
>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=99.66 E-value=4.4e-16 Score=138.41 Aligned_cols=81 Identities=31% Similarity=0.505 Sum_probs=76.9
Q ss_pred CCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEe
Q 028371 35 DLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFA 114 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a 114 (210)
...++|||+||++.+++++|+++|.+||.|..|.|+.++.+++++|||||+|.+.++|+.||+.|||..|+|+.|+|.+.
T Consensus 105 ~~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~rp 184 (612)
T TIGR01645 105 AIMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRP 184 (612)
T ss_pred cCCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeeccc
Confidence 45689999999999999999999999999999999999999999999999999999999999999999999999999865
Q ss_pred e
Q 028371 115 E 115 (210)
Q Consensus 115 ~ 115 (210)
.
T Consensus 185 ~ 185 (612)
T TIGR01645 185 S 185 (612)
T ss_pred c
Confidence 4
No 25
>PLN03213 repressor of silencing 3; Provisional
Probab=99.64 E-value=8.5e-16 Score=130.23 Aligned_cols=79 Identities=20% Similarity=0.312 Sum_probs=71.9
Q ss_pred CCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCH--HHHHHHHHhhCCeeEcCeEEEEE
Q 028371 35 DLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDP--ADAADAKYHMDGYLLLGRELTVV 112 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~--~~a~~Ai~~l~g~~i~g~~i~v~ 112 (210)
....+||||||++.|++++|..+|..||.|..|.|+. .+| +|||||+|.+. .++.+||..|||..|+|+.|+|+
T Consensus 8 ~~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpR--ETG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVN 83 (759)
T PLN03213 8 GGGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVR--TKG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLE 83 (759)
T ss_pred CcceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEec--ccC--CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEe
Confidence 3467899999999999999999999999999999993 466 99999999977 68999999999999999999999
Q ss_pred EeecC
Q 028371 113 FAEEN 117 (210)
Q Consensus 113 ~a~~~ 117 (210)
.|++.
T Consensus 84 KAKP~ 88 (759)
T PLN03213 84 KAKEH 88 (759)
T ss_pred eccHH
Confidence 99653
No 26
>smart00362 RRM_2 RNA recognition motif.
Probab=99.64 E-value=2e-15 Score=97.58 Aligned_cols=72 Identities=38% Similarity=0.657 Sum_probs=66.9
Q ss_pred eEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEE
Q 028371 39 SLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVV 112 (210)
Q Consensus 39 ~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~ 112 (210)
+|||+|||..+++++|.++|.+||.|..+.+..+. +.+.++|||+|.+.++|+.|++.|++..|.|..|.|+
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 58999999999999999999999999999988775 6778999999999999999999999999999998873
No 27
>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=99.64 E-value=1.1e-15 Score=137.19 Aligned_cols=79 Identities=29% Similarity=0.465 Sum_probs=75.7
Q ss_pred CeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEeec
Q 028371 38 TSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEE 116 (210)
Q Consensus 38 ~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~~ 116 (210)
.+|||+|||.+++|++|.++|.+||.|..|.|+.+..++.++|||||+|.+.++|+.||+.|++..|.|+.|+|.|+..
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~~ 79 (562)
T TIGR01628 1 ASLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQR 79 (562)
T ss_pred CeEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeecccc
Confidence 3799999999999999999999999999999999999999999999999999999999999999999999999999753
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=99.64 E-value=1.2e-15 Score=135.38 Aligned_cols=80 Identities=24% Similarity=0.442 Sum_probs=72.9
Q ss_pred CCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEc-CeEEEEE
Q 028371 34 RDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLL-GRELTVV 112 (210)
Q Consensus 34 ~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~-g~~i~v~ 112 (210)
.+..++|||+|||.+++|++|.++|.+||.|..|.|+.| .+|.++|||||+|.+.++|+.||+.||+..|. |+.|.|+
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 456799999999999999999999999999999999999 68999999999999999999999999998885 6776666
Q ss_pred Ee
Q 028371 113 FA 114 (210)
Q Consensus 113 ~a 114 (210)
++
T Consensus 134 ~S 135 (578)
T TIGR01648 134 IS 135 (578)
T ss_pred cc
Confidence 54
No 29
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.63 E-value=1e-15 Score=123.84 Aligned_cols=83 Identities=34% Similarity=0.570 Sum_probs=76.3
Q ss_pred CCCCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEE
Q 028371 32 RGRDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTV 111 (210)
Q Consensus 32 ~~~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v 111 (210)
...+.++.|+|.|||+..-+.||..+|++||+|..|.|+.+ .-.++||+||+|++.++|++|-++|||..|.|++|+|
T Consensus 91 ~s~~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfN--ERGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEV 168 (376)
T KOG0125|consen 91 SSKDTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFN--ERGSKGFGFVTMENPADADRARAELHGTVVEGRKIEV 168 (376)
T ss_pred CCCCCCceeEeecCCccccCccHHHHHHhhCceeeEEEEec--cCCCCccceEEecChhhHHHHHHHhhcceeeceEEEE
Confidence 34567889999999999999999999999999999999876 3456999999999999999999999999999999999
Q ss_pred EEeec
Q 028371 112 VFAEE 116 (210)
Q Consensus 112 ~~a~~ 116 (210)
..|..
T Consensus 169 n~ATa 173 (376)
T KOG0125|consen 169 NNATA 173 (376)
T ss_pred eccch
Confidence 99864
No 30
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.61 E-value=2.8e-15 Score=112.52 Aligned_cols=80 Identities=36% Similarity=0.580 Sum_probs=72.5
Q ss_pred CCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEee
Q 028371 36 LPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAE 115 (210)
Q Consensus 36 ~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~ 115 (210)
..++|||+|||.++.|.+|+++|.+||.|.+|.|...+ ....||||+|++..+|+.||..-+|..++|..|.|+|+.
T Consensus 5 ~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~---g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfpr 81 (241)
T KOG0105|consen 5 NSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRP---GPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFPR 81 (241)
T ss_pred ccceEEecCCCcchhhccHHHHHhhhcceEEEEeccCC---CCCCeeEEEecCccchhhhhhcccccccCcceEEEEecc
Confidence 46789999999999999999999999999999987543 447899999999999999999999999999999999987
Q ss_pred cCC
Q 028371 116 ENR 118 (210)
Q Consensus 116 ~~~ 118 (210)
...
T Consensus 82 ggr 84 (241)
T KOG0105|consen 82 GGR 84 (241)
T ss_pred CCC
Confidence 543
No 31
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.61 E-value=5.5e-15 Score=116.35 Aligned_cols=77 Identities=16% Similarity=0.180 Sum_probs=70.3
Q ss_pred CCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEee
Q 028371 36 LPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAE 115 (210)
Q Consensus 36 ~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~ 115 (210)
.+.+|||+||++.+++++|++||..||+|..|.|+.+. ...+||||+|.++++|+.|| .|+|..|.++.|.|..+.
T Consensus 4 ~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~---et~gfAfVtF~d~~aaetAl-lLnGa~l~d~~I~It~~~ 79 (243)
T PLN03121 4 GGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSG---EYACTAYVTFKDAYALETAV-LLSGATIVDQRVCITRWG 79 (243)
T ss_pred CceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCC---CcceEEEEEECCHHHHHHHH-hcCCCeeCCceEEEEeCc
Confidence 46799999999999999999999999999999999874 44689999999999999999 899999999999998765
Q ss_pred c
Q 028371 116 E 116 (210)
Q Consensus 116 ~ 116 (210)
.
T Consensus 80 ~ 80 (243)
T PLN03121 80 Q 80 (243)
T ss_pred c
Confidence 4
No 32
>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=99.60 E-value=4.4e-15 Score=133.30 Aligned_cols=83 Identities=33% Similarity=0.515 Sum_probs=77.9
Q ss_pred CCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEe
Q 028371 35 DLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFA 114 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a 114 (210)
...++|||+||+..+++++|+++|..||.|..|.|+.+ .+|.++|||||+|.+.++|++||..|||..|+|+.|.|.+|
T Consensus 283 ~~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d-~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V~~a 361 (562)
T TIGR01628 283 AQGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLD-EKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYVALA 361 (562)
T ss_pred cCCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEEC-CCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEEEec
Confidence 45678999999999999999999999999999999988 58999999999999999999999999999999999999999
Q ss_pred ecCC
Q 028371 115 EENR 118 (210)
Q Consensus 115 ~~~~ 118 (210)
..+.
T Consensus 362 ~~k~ 365 (562)
T TIGR01628 362 QRKE 365 (562)
T ss_pred cCcH
Confidence 7654
No 33
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.60 E-value=5e-15 Score=117.04 Aligned_cols=81 Identities=22% Similarity=0.395 Sum_probs=75.4
Q ss_pred CCCCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEE
Q 028371 32 RGRDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTV 111 (210)
Q Consensus 32 ~~~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v 111 (210)
+....+|+||||||+..++|++|++.|..||.|.+|.+.++ +|||||.|++.|.|..||..||+.+|.|+.|+|
T Consensus 159 Qssp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~------qGYaFVrF~tkEaAahAIv~mNntei~G~~VkC 232 (321)
T KOG0148|consen 159 QSSPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKD------QGYAFVRFETKEAAAHAIVQMNNTEIGGQLVRC 232 (321)
T ss_pred cCCCCCceEEeCCcCccccHHHHHHhcccCCcceEEEEecc------cceEEEEecchhhHHHHHHHhcCceeCceEEEE
Confidence 44567899999999999999999999999999999999977 899999999999999999999999999999999
Q ss_pred EEeecCC
Q 028371 112 VFAEENR 118 (210)
Q Consensus 112 ~~a~~~~ 118 (210)
.|-+...
T Consensus 233 sWGKe~~ 239 (321)
T KOG0148|consen 233 SWGKEGD 239 (321)
T ss_pred eccccCC
Confidence 9987654
No 34
>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=6.2e-15 Score=130.82 Aligned_cols=75 Identities=29% Similarity=0.441 Sum_probs=70.1
Q ss_pred CCCeEEEecCCCCCCHHHHHHHhccC--CceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEE
Q 028371 36 LPTSLLVRNLRHDCRPEDLRGPFGQF--GRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 113 (210)
Q Consensus 36 ~~~~l~V~nL~~~~te~~l~~~f~~~--G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~ 113 (210)
..++|||+||++.+++++|+++|++| |+|+.|.++ ++||||+|++.++|++||+.||+.+|+|+.|+|.|
T Consensus 232 ~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~--------rgfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~ 303 (578)
T TIGR01648 232 KVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKI--------RDYAFVHFEDREDAVKAMDELNGKELEGSEIEVTL 303 (578)
T ss_pred cccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEee--------cCeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence 45789999999999999999999999 999999877 57999999999999999999999999999999999
Q ss_pred eecCC
Q 028371 114 AEENR 118 (210)
Q Consensus 114 a~~~~ 118 (210)
+++..
T Consensus 304 Akp~~ 308 (578)
T TIGR01648 304 AKPVD 308 (578)
T ss_pred ccCCC
Confidence 98754
No 35
>smart00360 RRM RNA recognition motif.
Probab=99.59 E-value=5.9e-15 Score=94.99 Aligned_cols=71 Identities=39% Similarity=0.618 Sum_probs=66.6
Q ss_pred EecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEE
Q 028371 42 VRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVV 112 (210)
Q Consensus 42 V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~ 112 (210)
|+|||..+++++|+++|.+||.|..|.+..++.++.++++|||+|.+.++|+.|++.|++..|.|..|.|+
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 57999999999999999999999999999887788899999999999999999999999999999998873
No 36
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.59 E-value=6.8e-15 Score=115.85 Aligned_cols=86 Identities=31% Similarity=0.586 Sum_probs=81.0
Q ss_pred CCCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEE
Q 028371 33 GRDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVV 112 (210)
Q Consensus 33 ~~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~ 112 (210)
..+..+.|+|.-||.++|+++|+.+|...|+|+.|+++.|+.+|.+.||+||.|.+++||++||..|||..|..+.|+|.
T Consensus 37 t~~skTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVS 116 (360)
T KOG0145|consen 37 TDESKTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVS 116 (360)
T ss_pred cCcccceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEE
Confidence 34567789999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EeecCC
Q 028371 113 FAEENR 118 (210)
Q Consensus 113 ~a~~~~ 118 (210)
||.+..
T Consensus 117 yARPSs 122 (360)
T KOG0145|consen 117 YARPSS 122 (360)
T ss_pred eccCCh
Confidence 997643
No 37
>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=99.58 E-value=1.6e-14 Score=127.45 Aligned_cols=79 Identities=20% Similarity=0.359 Sum_probs=72.8
Q ss_pred CCCCeEEEecCCC-CCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEE
Q 028371 35 DLPTSLLVRNLRH-DCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 113 (210)
Q Consensus 35 ~~~~~l~V~nL~~-~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~ 113 (210)
.+.++|||+||++ .+++++|.++|+.||.|..|.|+.++ +|||||+|.+.++|+.||..|||..|.|+.|.|.+
T Consensus 273 ~~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~-----~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~ 347 (481)
T TIGR01649 273 GPGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNK-----KETALIEMADPYQAQLALTHLNGVKLFGKPLRVCP 347 (481)
T ss_pred CCCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEE
Confidence 4678999999998 69999999999999999999998764 79999999999999999999999999999999999
Q ss_pred eecCC
Q 028371 114 AEENR 118 (210)
Q Consensus 114 a~~~~ 118 (210)
++...
T Consensus 348 s~~~~ 352 (481)
T TIGR01649 348 SKQQN 352 (481)
T ss_pred ccccc
Confidence 86543
No 38
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.58 E-value=9.7e-15 Score=117.76 Aligned_cols=79 Identities=41% Similarity=0.574 Sum_probs=76.6
Q ss_pred CCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEee
Q 028371 37 PTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAE 115 (210)
Q Consensus 37 ~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~ 115 (210)
..+|||+||++.+++++|.++|.+||.|..|.|+.+..++..+|||||+|.+.++|+.|++.|++..|.|+.|.|.++.
T Consensus 115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~ 193 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQ 193 (306)
T ss_pred CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeeccc
Confidence 5899999999999999999999999999999999998899999999999999999999999999999999999999975
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=99.58 E-value=2.5e-14 Score=92.83 Aligned_cols=74 Identities=41% Similarity=0.642 Sum_probs=68.2
Q ss_pred eEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEE
Q 028371 39 SLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 113 (210)
Q Consensus 39 ~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~ 113 (210)
+|+|+|||..+++++|.++|..||.|..+.+..+..+ ...++|||+|.+.++|+.|++.|++..+.|..|.|.+
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 5899999999999999999999999999999877644 6689999999999999999999999999999999864
No 40
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.57 E-value=5.6e-15 Score=116.76 Aligned_cols=82 Identities=30% Similarity=0.522 Sum_probs=78.2
Q ss_pred CCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEeec
Q 028371 37 PTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEE 116 (210)
Q Consensus 37 ~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~~ 116 (210)
-..|||+.|..+++-++|++.|.+||+|.+++|++|..|++++||+||.|.+.++|+.||+.|||..|.++.|...||.-
T Consensus 62 hfhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWATR 141 (321)
T KOG0148|consen 62 HFHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWATR 141 (321)
T ss_pred ceeEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeecccccc
Confidence 45699999999999999999999999999999999999999999999999999999999999999999999999999975
Q ss_pred CC
Q 028371 117 NR 118 (210)
Q Consensus 117 ~~ 118 (210)
+.
T Consensus 142 Kp 143 (321)
T KOG0148|consen 142 KP 143 (321)
T ss_pred Cc
Confidence 54
No 41
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.57 E-value=1.6e-14 Score=98.63 Aligned_cols=82 Identities=30% Similarity=0.502 Sum_probs=73.7
Q ss_pred CCCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEE
Q 028371 33 GRDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVV 112 (210)
Q Consensus 33 ~~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~ 112 (210)
+.+.+..|||.|||+.+|.+++.++|.+||.|..|.|-..+ ..+|-|||.|++..+|.+|++.|+|..+++..|.|-
T Consensus 14 ppevnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k---~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vl 90 (124)
T KOG0114|consen 14 PPEVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTK---ETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVL 90 (124)
T ss_pred ChhhheeEEEecCCccccHHHHHHHhhcccceEEEEecCcc---CcCceEEEEehHhhhHHHHHHHhcccccCCceEEEE
Confidence 34667889999999999999999999999999999997655 448999999999999999999999999999999998
Q ss_pred EeecC
Q 028371 113 FAEEN 117 (210)
Q Consensus 113 ~a~~~ 117 (210)
+-.+.
T Consensus 91 yyq~~ 95 (124)
T KOG0114|consen 91 YYQPE 95 (124)
T ss_pred ecCHH
Confidence 86543
No 42
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=99.57 E-value=6.9e-15 Score=126.12 Aligned_cols=82 Identities=30% Similarity=0.510 Sum_probs=79.2
Q ss_pred CeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEeecC
Q 028371 38 TSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEEN 117 (210)
Q Consensus 38 ~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~~~ 117 (210)
..|||||||++++|++|..+|.+.|.|..+.++.|+.+|..+|||||+|.+.++|+.|+..|||.++.|++|+|.|+...
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 89999999999999999999999999999999999999999999999999999999999999999999999999999765
Q ss_pred CC
Q 028371 118 RK 119 (210)
Q Consensus 118 ~~ 119 (210)
..
T Consensus 99 ~~ 100 (435)
T KOG0108|consen 99 KN 100 (435)
T ss_pred ch
Confidence 54
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=99.57 E-value=3.7e-15 Score=118.86 Aligned_cols=73 Identities=29% Similarity=0.565 Sum_probs=69.5
Q ss_pred CCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEeec
Q 028371 37 PTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEE 116 (210)
Q Consensus 37 ~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~~ 116 (210)
+.+|||||||.++++.+|+.+|++||+|.+|.|+ +.||||..++...|+.||..||+.+|+|..|+|+-++.
T Consensus 2 ~~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIv--------KNYgFVHiEdktaaedairNLhgYtLhg~nInVeaSks 73 (346)
T KOG0109|consen 2 PVKLFIGNLPREATEQELRSLFEQYGKVLECDIV--------KNYGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKS 73 (346)
T ss_pred ccchhccCCCcccchHHHHHHHHhhCceEeeeee--------cccceEEeecccccHHHHhhcccceecceEEEEEeccc
Confidence 4589999999999999999999999999999999 67999999999999999999999999999999999876
Q ss_pred C
Q 028371 117 N 117 (210)
Q Consensus 117 ~ 117 (210)
+
T Consensus 74 K 74 (346)
T KOG0109|consen 74 K 74 (346)
T ss_pred c
Confidence 6
No 44
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.55 E-value=5.3e-15 Score=123.47 Aligned_cols=86 Identities=30% Similarity=0.550 Sum_probs=77.8
Q ss_pred CCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCe-eEcC--eEEEEEE
Q 028371 37 PTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGY-LLLG--RELTVVF 113 (210)
Q Consensus 37 ~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~-~i~g--~~i~v~~ 113 (210)
..+|||+.|+..++|.+|.++|.+||.|++|.|+++. .+.++|||||.|.+.+.|..||+.|||. ++.| .+|.|+|
T Consensus 124 e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~-~~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVkF 202 (510)
T KOG0144|consen 124 ERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDP-DGLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVKF 202 (510)
T ss_pred chhhhhhhccccccHHHHHHHHHhhCccchhhheecc-cccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEEe
Confidence 6789999999999999999999999999999999986 7899999999999999999999999995 4554 7999999
Q ss_pred eecCCCCchh
Q 028371 114 AEENRKKPSE 123 (210)
Q Consensus 114 a~~~~~~~~~ 123 (210)
|.+++.+..+
T Consensus 203 ADtqkdk~~~ 212 (510)
T KOG0144|consen 203 ADTQKDKDGK 212 (510)
T ss_pred cccCCCchHH
Confidence 9987765543
No 45
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=99.53 E-value=4.1e-14 Score=124.81 Aligned_cols=74 Identities=18% Similarity=0.234 Sum_probs=68.1
Q ss_pred CCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhh--CCeeEcCeEEEEEEe
Q 028371 37 PTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHM--DGYLLLGRELTVVFA 114 (210)
Q Consensus 37 ~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l--~g~~i~g~~i~v~~a 114 (210)
..+|||+|||+.++|++|.++|.+||.|..|.|+.+ ++||||+|++.++|+.||+.| ++..|.|+.|.|+|+
T Consensus 2 s~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~~------k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~s 75 (481)
T TIGR01649 2 SPVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLPG------KRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNYS 75 (481)
T ss_pred ccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEECC------CCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEec
Confidence 568999999999999999999999999999999854 689999999999999999864 778999999999998
Q ss_pred ec
Q 028371 115 EE 116 (210)
Q Consensus 115 ~~ 116 (210)
..
T Consensus 76 ~~ 77 (481)
T TIGR01649 76 TS 77 (481)
T ss_pred CC
Confidence 64
No 46
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.53 E-value=7.5e-14 Score=110.00 Aligned_cols=83 Identities=33% Similarity=0.466 Sum_probs=78.5
Q ss_pred CCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEe
Q 028371 35 DLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFA 114 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a 114 (210)
..+-+|||-||.+++.|..|+++|.+||.|..|+|+.|..|.+++||+||.+.+.++|..||..|||..+.++.|.|.|.
T Consensus 276 ~~g~ciFvYNLspd~de~~LWQlFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~rvLQVsFK 355 (360)
T KOG0145|consen 276 GGGWCIFVYNLSPDADESILWQLFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLGDRVLQVSFK 355 (360)
T ss_pred CCeeEEEEEecCCCchHhHHHHHhCcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcCccccceEEEEEEe
Confidence 34679999999999999999999999999999999999999999999999999999999999999999999999999997
Q ss_pred ecC
Q 028371 115 EEN 117 (210)
Q Consensus 115 ~~~ 117 (210)
..+
T Consensus 356 tnk 358 (360)
T KOG0145|consen 356 TNK 358 (360)
T ss_pred cCC
Confidence 643
No 47
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.52 E-value=3.1e-14 Score=119.34 Aligned_cols=79 Identities=30% Similarity=0.477 Sum_probs=72.1
Q ss_pred CCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEE
Q 028371 34 RDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 113 (210)
Q Consensus 34 ~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~ 113 (210)
...-+.|||.||+.+|||+.|+++|++||.|+.|+.+ +.||||.|.+.++|.+||+.|||.+|+|..|.|.+
T Consensus 256 ms~VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~--------rDYaFVHf~eR~davkAm~~~ngkeldG~~iEvtL 327 (506)
T KOG0117|consen 256 MSKVKVLYVRNLMESTTEETLKKLFNEFGKVERVKKP--------RDYAFVHFAEREDAVKAMKETNGKELDGSPIEVTL 327 (506)
T ss_pred hhheeeeeeeccchhhhHHHHHHHHHhccceEEeecc--------cceeEEeecchHHHHHHHHHhcCceecCceEEEEe
Confidence 3456789999999999999999999999999999887 45999999999999999999999999999999999
Q ss_pred eecCCCC
Q 028371 114 AEENRKK 120 (210)
Q Consensus 114 a~~~~~~ 120 (210)
|++..++
T Consensus 328 AKP~~k~ 334 (506)
T KOG0117|consen 328 AKPVDKK 334 (506)
T ss_pred cCChhhh
Confidence 9976543
No 48
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.51 E-value=3.1e-14 Score=118.91 Aligned_cols=85 Identities=27% Similarity=0.470 Sum_probs=76.7
Q ss_pred CCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCee-EcC--eEEEE
Q 028371 35 DLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYL-LLG--RELTV 111 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~-i~g--~~i~v 111 (210)
...-+||||-||..++|.||+++|++||.|.+|.|++|+.|+..+|||||+|.+.++|.+|+.+||+.+ |-| .+|.|
T Consensus 32 ~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvqv 111 (510)
T KOG0144|consen 32 GSAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQV 111 (510)
T ss_pred chhhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcceee
Confidence 445689999999999999999999999999999999999999999999999999999999999999965 555 68899
Q ss_pred EEeecCCC
Q 028371 112 VFAEENRK 119 (210)
Q Consensus 112 ~~a~~~~~ 119 (210)
++|.....
T Consensus 112 k~Ad~E~e 119 (510)
T KOG0144|consen 112 KYADGERE 119 (510)
T ss_pred cccchhhh
Confidence 99876543
No 49
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.50 E-value=3.4e-14 Score=116.13 Aligned_cols=83 Identities=25% Similarity=0.429 Sum_probs=78.9
Q ss_pred CCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEE
Q 028371 34 RDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 113 (210)
Q Consensus 34 ~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~ 113 (210)
.++.+.|||+.|.+.|+.++|+-+|+.||.|..|.|+.+..||.+..||||+|++.+.|++|.-.|++..|+.+.|+|.|
T Consensus 236 ~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDF 315 (479)
T KOG0415|consen 236 KPPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDF 315 (479)
T ss_pred CCCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEeeh
Confidence 35578899999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred eec
Q 028371 114 AEE 116 (210)
Q Consensus 114 a~~ 116 (210)
+..
T Consensus 316 SQS 318 (479)
T KOG0415|consen 316 SQS 318 (479)
T ss_pred hhh
Confidence 754
No 50
>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=99.49 E-value=2.2e-13 Score=84.98 Aligned_cols=56 Identities=36% Similarity=0.603 Sum_probs=51.0
Q ss_pred HHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEe
Q 028371 54 LRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFA 114 (210)
Q Consensus 54 l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a 114 (210)
|.++|++||+|..|.+..+. .++|||+|.+.++|+.|++.|||..|+|+.|+|+||
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 67899999999999998653 589999999999999999999999999999999986
No 51
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.48 E-value=1.1e-13 Score=118.61 Aligned_cols=81 Identities=32% Similarity=0.568 Sum_probs=74.5
Q ss_pred CCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEeec
Q 028371 37 PTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEE 116 (210)
Q Consensus 37 ~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~~ 116 (210)
.-.|+|.|||+.+.+.+|+.+|..||.|.+|.|+.....+. +|||||+|.+..+|..||+.||+..|+|++|-|.||-+
T Consensus 117 k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~dgkl-cGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV~ 195 (678)
T KOG0127|consen 117 KWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKDGKL-CGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAVD 195 (678)
T ss_pred cceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCCCCc-cceEEEEEeeHHHHHHHHHhccCceecCceeEEeeecc
Confidence 56899999999999999999999999999999997775555 59999999999999999999999999999999999976
Q ss_pred CC
Q 028371 117 NR 118 (210)
Q Consensus 117 ~~ 118 (210)
+.
T Consensus 196 Kd 197 (678)
T KOG0127|consen 196 KD 197 (678)
T ss_pred cc
Confidence 54
No 52
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.47 E-value=7.6e-14 Score=119.71 Aligned_cols=78 Identities=35% Similarity=0.672 Sum_probs=75.0
Q ss_pred EEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEeecC
Q 028371 40 LLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEEN 117 (210)
Q Consensus 40 l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~~~ 117 (210)
|||+||..++++++|..+|+.||.|+.|.++.+..||.++||+||+|.+.++|.+|++.|||.+|.|+.|+|......
T Consensus 281 l~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~~r 358 (549)
T KOG0147|consen 281 LYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVTER 358 (549)
T ss_pred hhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEeeee
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999887654
No 53
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.47 E-value=2.2e-13 Score=116.77 Aligned_cols=84 Identities=32% Similarity=0.489 Sum_probs=76.9
Q ss_pred CCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhh-----CC-eeEcCeE
Q 028371 35 DLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHM-----DG-YLLLGRE 108 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l-----~g-~~i~g~~ 108 (210)
..+.+|||.|||+++||++|.+.|.+||+|..+.|+.++.|+.++|.|||.|.+..+|+.||.+. .| ..|+|+.
T Consensus 290 ~~~~tVFvRNL~fD~tEEel~~~fskFG~v~ya~iV~~k~T~~skGtAFv~Fkt~~~~~~ci~~Aspa~e~g~~ll~GR~ 369 (678)
T KOG0127|consen 290 TEGKTVFVRNLPFDTTEEELKEHFSKFGEVKYAIIVKDKDTGHSKGTAFVKFKTQIAAQNCIEAASPASEDGSVLLDGRL 369 (678)
T ss_pred cccceEEEecCCccccHHHHHHHHHhhccceeEEEEeccCCCCcccceEEEeccHHHHHHHHHhcCccCCCceEEEeccE
Confidence 45689999999999999999999999999999999999999999999999999999999999876 23 6799999
Q ss_pred EEEEEeecCC
Q 028371 109 LTVVFAEENR 118 (210)
Q Consensus 109 i~v~~a~~~~ 118 (210)
|+|..|-...
T Consensus 370 Lkv~~Av~Rk 379 (678)
T KOG0127|consen 370 LKVTLAVTRK 379 (678)
T ss_pred EeeeeccchH
Confidence 9999986543
No 54
>smart00361 RRM_1 RNA recognition motif.
Probab=99.46 E-value=4.1e-13 Score=87.75 Aligned_cols=61 Identities=26% Similarity=0.416 Sum_probs=54.7
Q ss_pred HHHHHHHhc----cCCceEEEE-EecCCCC--CCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEE
Q 028371 51 PEDLRGPFG----QFGRLKDIY-LPRDYYT--GEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTV 111 (210)
Q Consensus 51 e~~l~~~f~----~~G~i~~v~-i~~~~~~--g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v 111 (210)
+++|.++|. +||.|..|. |+.++.+ +..+|||||+|.+.++|+.|++.|||..|.|+.|.+
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~ 69 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKA 69 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEe
Confidence 578888888 999999985 6666656 889999999999999999999999999999999976
No 55
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.43 E-value=1e-13 Score=113.85 Aligned_cols=78 Identities=32% Similarity=0.513 Sum_probs=75.0
Q ss_pred CCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEe
Q 028371 37 PTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFA 114 (210)
Q Consensus 37 ~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a 114 (210)
.+.||||.|.+++.|+.|...|..||.|+.|.|-+|+.|++++|||||+|+-+|.|+.|++.|||..++|+.|+|..-
T Consensus 113 McRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgrP 190 (544)
T KOG0124|consen 113 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRP 190 (544)
T ss_pred hHheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccCC
Confidence 478999999999999999999999999999999999999999999999999999999999999999999999999743
No 56
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=99.43 E-value=9.8e-13 Score=116.73 Aligned_cols=79 Identities=22% Similarity=0.408 Sum_probs=73.1
Q ss_pred CCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEeec
Q 028371 37 PTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEE 116 (210)
Q Consensus 37 ~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~~ 116 (210)
.+|||||+|+.+|+|.||..+|+.||+|..|.|+.. .+||||.+...++|++||.+|.+..|.++.|+|.||..
T Consensus 421 SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~~------R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~g 494 (894)
T KOG0132|consen 421 SRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPP------RGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAVG 494 (894)
T ss_pred eeeeeeccccchhhHHHHHHHHHhcccceeEeeccC------CceeEEEEeehhHHHHHHHHHhcccccceeeEEeeecc
Confidence 589999999999999999999999999999998855 89999999999999999999999999999999999976
Q ss_pred CCCCc
Q 028371 117 NRKKP 121 (210)
Q Consensus 117 ~~~~~ 121 (210)
+-.+.
T Consensus 495 ~G~ks 499 (894)
T KOG0132|consen 495 KGPKS 499 (894)
T ss_pred CCcch
Confidence 65444
No 57
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.42 E-value=1.9e-13 Score=108.08 Aligned_cols=85 Identities=24% Similarity=0.340 Sum_probs=80.2
Q ss_pred CCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEE
Q 028371 34 RDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 113 (210)
Q Consensus 34 ~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~ 113 (210)
-+.+|+|||-.||.+..+.+|..+|-.||.|+..++..|..|..+++|+||.|+|...|+.||.+|||+.|+-+.|+|++
T Consensus 282 GPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKVQL 361 (371)
T KOG0146|consen 282 GPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKVQL 361 (371)
T ss_pred CCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhhhhh
Confidence 35689999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eecCC
Q 028371 114 AEENR 118 (210)
Q Consensus 114 a~~~~ 118 (210)
..++.
T Consensus 362 KRPkd 366 (371)
T KOG0146|consen 362 KRPKD 366 (371)
T ss_pred cCccc
Confidence 87654
No 58
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.40 E-value=3e-13 Score=108.03 Aligned_cols=76 Identities=22% Similarity=0.452 Sum_probs=71.6
Q ss_pred CCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEE
Q 028371 34 RDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 113 (210)
Q Consensus 34 ~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~ 113 (210)
....++|+|+||.+.++.++|++.|++||.|.+|.|+ ++|+||.|+-.++|..|+..|++.+|.|+.|+|++
T Consensus 75 sk~stkl~vgNis~tctn~ElRa~fe~ygpviecdiv--------kdy~fvh~d~~eda~~air~l~~~~~~gk~m~vq~ 146 (346)
T KOG0109|consen 75 SKASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIV--------KDYAFVHFDRAEDAVEAIRGLDNTEFQGKRMHVQL 146 (346)
T ss_pred CCCccccccCCCCccccCHHHhhhhcccCCceeeeee--------cceeEEEEeeccchHHHHhcccccccccceeeeee
Confidence 3568899999999999999999999999999999999 77999999999999999999999999999999999
Q ss_pred eecC
Q 028371 114 AEEN 117 (210)
Q Consensus 114 a~~~ 117 (210)
+...
T Consensus 147 stsr 150 (346)
T KOG0109|consen 147 STSR 150 (346)
T ss_pred eccc
Confidence 8754
No 59
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.40 E-value=4.7e-13 Score=100.31 Aligned_cols=86 Identities=34% Similarity=0.502 Sum_probs=78.4
Q ss_pred CCCCeEEEecCCCCCCHHHHHHHhccCCceEE-EEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEE
Q 028371 35 DLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKD-IYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 113 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~-v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~ 113 (210)
+.+.+|||+||.+++.|..|.++|..||.|.. -.++.+..||..++||||.|.+.+.+.+||..|||+.++..+|.|.+
T Consensus 94 ~vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~itv~y 173 (203)
T KOG0131|consen 94 DVGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQYLCNRPITVSY 173 (203)
T ss_pred cccccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhccchhcCCceEEEE
Confidence 55689999999999999999999999998765 37888888999999999999999999999999999999999999999
Q ss_pred eecCCCC
Q 028371 114 AEENRKK 120 (210)
Q Consensus 114 a~~~~~~ 120 (210)
+..+..+
T Consensus 174 a~k~~~k 180 (203)
T KOG0131|consen 174 AFKKDTK 180 (203)
T ss_pred EEecCCC
Confidence 9866543
No 60
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.39 E-value=1.8e-12 Score=115.06 Aligned_cols=73 Identities=14% Similarity=0.225 Sum_probs=60.9
Q ss_pred CCCCeEEEecCCCCCCHHHHHHHhccC------------CceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCe
Q 028371 35 DLPTSLLVRNLRHDCRPEDLRGPFGQF------------GRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGY 102 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te~~l~~~f~~~------------G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~ 102 (210)
....+|||+|||+.+++++|.++|.++ +.|..+.+. ..+|||||+|.+.++|+.|| .|+|+
T Consensus 173 ~~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~~------~~kg~afVeF~~~e~A~~Al-~l~g~ 245 (509)
T TIGR01642 173 RQARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNIN------KEKNFAFLEFRTVEEATFAM-ALDSI 245 (509)
T ss_pred ccccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEEC------CCCCEEEEEeCCHHHHhhhh-cCCCe
Confidence 345789999999999999999999875 234444444 33799999999999999999 69999
Q ss_pred eEcCeEEEEEEe
Q 028371 103 LLLGRELTVVFA 114 (210)
Q Consensus 103 ~i~g~~i~v~~a 114 (210)
.|.|..|+|...
T Consensus 246 ~~~g~~l~v~r~ 257 (509)
T TIGR01642 246 IYSNVFLKIRRP 257 (509)
T ss_pred EeeCceeEecCc
Confidence 999999998654
No 61
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.38 E-value=1.6e-12 Score=109.09 Aligned_cols=79 Identities=28% Similarity=0.441 Sum_probs=72.8
Q ss_pred CCeEEEecCCCCCCHHHHHHHhc-cCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEee
Q 028371 37 PTSLLVRNLRHDCRPEDLRGPFG-QFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAE 115 (210)
Q Consensus 37 ~~~l~V~nL~~~~te~~l~~~f~-~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~ 115 (210)
...+||+|||+++.|++|+++|. +.|+|+.|.|..|. .|+.+|||.|||+++|.+++|++.||.+.|.|++|+|+-..
T Consensus 44 ~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~-~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd~ 122 (608)
T KOG4212|consen 44 DRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDE-SGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKEDH 122 (608)
T ss_pred cceEEEecCcchhhhHhHHHHHHHhcCceEeeeeeccc-CCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEeccC
Confidence 44599999999999999999995 78999999999886 89999999999999999999999999999999999997664
Q ss_pred c
Q 028371 116 E 116 (210)
Q Consensus 116 ~ 116 (210)
.
T Consensus 123 d 123 (608)
T KOG4212|consen 123 D 123 (608)
T ss_pred c
Confidence 3
No 62
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=99.33 E-value=5.8e-12 Score=96.29 Aligned_cols=84 Identities=24% Similarity=0.408 Sum_probs=76.2
Q ss_pred CCCCCeEEEecCCCCCCHHHHHHHhccC-CceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEE
Q 028371 34 RDLPTSLLVRNLRHDCRPEDLRGPFGQF-GRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVV 112 (210)
Q Consensus 34 ~~~~~~l~V~nL~~~~te~~l~~~f~~~-G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~ 112 (210)
.....-+||..+|..+.+.+|..+|.+| |.|..+.+-.++.||.++|||||+|++++.|+-|.+.||+..|+++.|.|.
T Consensus 46 ~~~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~ 125 (214)
T KOG4208|consen 46 QEIEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECH 125 (214)
T ss_pred cCCccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeE
Confidence 3455678999999999999999999988 677788888999999999999999999999999999999999999999999
Q ss_pred EeecC
Q 028371 113 FAEEN 117 (210)
Q Consensus 113 ~a~~~ 117 (210)
+-.+.
T Consensus 126 vmppe 130 (214)
T KOG4208|consen 126 VMPPE 130 (214)
T ss_pred EeCch
Confidence 87655
No 63
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=99.29 E-value=9.2e-12 Score=96.53 Aligned_cols=82 Identities=24% Similarity=0.482 Sum_probs=73.5
Q ss_pred CCCCCeEEEecCCCCCCHHHHHH----HhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEE
Q 028371 34 RDLPTSLLVRNLRHDCRPEDLRG----PFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGREL 109 (210)
Q Consensus 34 ~~~~~~l~V~nL~~~~te~~l~~----~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i 109 (210)
.++..||||.||+..+..++|+. +|++||+|..|.+.. +.+.+|-|||.|.+.+.|-.|+..|+|..|.|++|
T Consensus 6 ~~pn~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~k---t~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~m 82 (221)
T KOG4206|consen 6 VNPNGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFK---TPKMRGQAFVVFKETEAASAALRALQGFPFYGKPM 82 (221)
T ss_pred cCCCceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecC---CCCccCceEEEecChhHHHHHHHHhcCCcccCchh
Confidence 34455999999999999998888 999999999887763 56789999999999999999999999999999999
Q ss_pred EEEEeecCC
Q 028371 110 TVVFAEENR 118 (210)
Q Consensus 110 ~v~~a~~~~ 118 (210)
.|+||+.+.
T Consensus 83 riqyA~s~s 91 (221)
T KOG4206|consen 83 RIQYAKSDS 91 (221)
T ss_pred heecccCcc
Confidence 999998654
No 64
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.27 E-value=1.6e-11 Score=100.30 Aligned_cols=80 Identities=19% Similarity=0.359 Sum_probs=70.7
Q ss_pred CCCCCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHh-hCCeeEcCeEE
Q 028371 31 GRGRDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYH-MDGYLLLGREL 109 (210)
Q Consensus 31 ~~~~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~-l~g~~i~g~~i 109 (210)
.+++..-++|||++|...++|.+|.+.|.+||+|..|.+... +++|||+|.+.+.|+.|.+. ++...|+|..|
T Consensus 222 pPeD~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~------~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl 295 (377)
T KOG0153|consen 222 PPEDTSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPR------KGCAFVTFTTREAAEKAAEKSFNKLVINGFRL 295 (377)
T ss_pred CCcccceeEEEecccccchhHHHHHHHHhhcCCeeeEEeecc------cccceeeehhhHHHHHHHHhhcceeeecceEE
Confidence 345566789999999999999999999999999999998865 67999999999999998876 55567999999
Q ss_pred EEEEeec
Q 028371 110 TVVFAEE 116 (210)
Q Consensus 110 ~v~~a~~ 116 (210)
+|.|..+
T Consensus 296 ~i~Wg~~ 302 (377)
T KOG0153|consen 296 KIKWGRP 302 (377)
T ss_pred EEEeCCC
Confidence 9999987
No 65
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=99.26 E-value=4.5e-12 Score=98.91 Aligned_cols=72 Identities=33% Similarity=0.561 Sum_probs=67.8
Q ss_pred CeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEeecC
Q 028371 38 TSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEEN 117 (210)
Q Consensus 38 ~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~~~ 117 (210)
..|||++|++.+.+.+|++||..||+|..|.|+ .||+||+|++..+|..||..||+.+|+|..+.|+++...
T Consensus 2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk--------~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~~ 73 (216)
T KOG0106|consen 2 PRVYIGRLPYRARERDVERFFKGYGKIPDADMK--------NGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARGK 73 (216)
T ss_pred CceeecccCCccchhHHHHHHhhccccccceee--------cccceeccCchhhhhcccchhcCceecceeeeeeccccc
Confidence 469999999999999999999999999999988 789999999999999999999999999999999998754
No 66
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=99.25 E-value=2.5e-11 Score=96.68 Aligned_cols=83 Identities=27% Similarity=0.334 Sum_probs=75.7
Q ss_pred CCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEe
Q 028371 35 DLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFA 114 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a 114 (210)
.-.++|+|.||++.|+++||+++|..||.+..+.|..++ +|.+.|.|-|.|...++|+.||+.|+|+.++|..|++++.
T Consensus 81 ~~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~-~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i 159 (243)
T KOG0533|consen 81 TRSTKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDR-AGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEII 159 (243)
T ss_pred CCcceeeeecCCcCcchHHHHHHHHHhccceEEeeccCC-CCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEe
Confidence 334789999999999999999999999999999888886 8999999999999999999999999999999999999887
Q ss_pred ecCC
Q 028371 115 EENR 118 (210)
Q Consensus 115 ~~~~ 118 (210)
....
T Consensus 160 ~~~~ 163 (243)
T KOG0533|consen 160 SSPS 163 (243)
T ss_pred cCcc
Confidence 6543
No 67
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.23 E-value=2.7e-11 Score=102.96 Aligned_cols=77 Identities=26% Similarity=0.509 Sum_probs=71.4
Q ss_pred EEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEeecCCC
Q 028371 40 LLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEENRK 119 (210)
Q Consensus 40 l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~~~~~ 119 (210)
|||.||+..++..+|.++|..||+|..|++..+. +| .+|| ||+|+++++|++||+.|||..+.++.|.|.....+..
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 VFIKNLDESIDNKSLYDTFSEFGNILSCKVATDE-NG-SKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFERKEE 155 (369)
T ss_pred eeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcC-CC-ceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccchhh
Confidence 9999999999999999999999999999999886 44 8999 9999999999999999999999999999988765443
No 68
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=99.22 E-value=2.8e-11 Score=104.60 Aligned_cols=84 Identities=25% Similarity=0.378 Sum_probs=77.6
Q ss_pred CCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEe
Q 028371 35 DLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFA 114 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a 114 (210)
..+.+|||.+|...|...+|+.||.+||+|+..+|+.+..+....+|+||++.+.++|.+||+.||.++|.|+.|.|+.+
T Consensus 403 ~~gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEka 482 (940)
T KOG4661|consen 403 TLGRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKA 482 (940)
T ss_pred ccccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeec
Confidence 34678999999999999999999999999999999998888888999999999999999999999999999999999988
Q ss_pred ecCC
Q 028371 115 EENR 118 (210)
Q Consensus 115 ~~~~ 118 (210)
+...
T Consensus 483 KNEp 486 (940)
T KOG4661|consen 483 KNEP 486 (940)
T ss_pred ccCc
Confidence 7543
No 69
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.20 E-value=1.8e-11 Score=97.05 Aligned_cols=83 Identities=27% Similarity=0.455 Sum_probs=73.8
Q ss_pred CCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCee-EcC--eEEEEE
Q 028371 36 LPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYL-LLG--RELTVV 112 (210)
Q Consensus 36 ~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~-i~g--~~i~v~ 112 (210)
...+||||.|...-.|+|+..+|..||.|++|.+...+ .|.++|||||.|.+..+|+.||..|||.. +-| ..|.|+
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 46789999999999999999999999999999998876 78899999999999999999999999954 555 578999
Q ss_pred EeecCCC
Q 028371 113 FAEENRK 119 (210)
Q Consensus 113 ~a~~~~~ 119 (210)
|+...+.
T Consensus 97 ~ADTdkE 103 (371)
T KOG0146|consen 97 FADTDKE 103 (371)
T ss_pred eccchHH
Confidence 9976543
No 70
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.20 E-value=3.4e-11 Score=99.22 Aligned_cols=79 Identities=23% Similarity=0.343 Sum_probs=74.9
Q ss_pred CCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEee
Q 028371 37 PTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAE 115 (210)
Q Consensus 37 ~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~ 115 (210)
-+.|||..+.++++|+||+.+|+.||+|..|.+..++..+.++||+||+|.+......||..||-+.|+|+.|.|-.+-
T Consensus 210 fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFDLGGQyLRVGk~v 288 (544)
T KOG0124|consen 210 FNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCV 288 (544)
T ss_pred hheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcchhhcccceEeccccc
Confidence 5789999999999999999999999999999999999999999999999999999999999999999999999986553
No 71
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=99.17 E-value=3.3e-11 Score=99.57 Aligned_cols=82 Identities=30% Similarity=0.441 Sum_probs=73.7
Q ss_pred CCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEee
Q 028371 36 LPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAE 115 (210)
Q Consensus 36 ~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~ 115 (210)
..++|||++|+++++++.|.+.|.+||+|.+|.++.++.++...||+||+|++.+.+..+| ....+.|+|+.|.++-|.
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 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVL-NARTHKLDGRSVEPKRAV 83 (311)
T ss_pred CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheee-cccccccCCccccceecc
Confidence 6789999999999999999999999999999999999999999999999999988888887 345678999998888776
Q ss_pred cCC
Q 028371 116 ENR 118 (210)
Q Consensus 116 ~~~ 118 (210)
+..
T Consensus 84 ~r~ 86 (311)
T KOG4205|consen 84 SRE 86 (311)
T ss_pred Ccc
Confidence 543
No 72
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=99.17 E-value=1.5e-11 Score=94.80 Aligned_cols=84 Identities=21% Similarity=0.224 Sum_probs=74.9
Q ss_pred CCCCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEE
Q 028371 32 RGRDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTV 111 (210)
Q Consensus 32 ~~~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v 111 (210)
...+...||||+||...|+|+.|.++|-+.|.|..|.|+.+. .++.+ ||||+|.++..+.-|++.|||..+.+..|+|
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 455778899999999999999999999999999999998775 55555 9999999999999999999999999999999
Q ss_pred EEeecC
Q 028371 112 VFAEEN 117 (210)
Q Consensus 112 ~~a~~~ 117 (210)
++-...
T Consensus 82 ~~r~G~ 87 (267)
T KOG4454|consen 82 TLRCGN 87 (267)
T ss_pred ccccCC
Confidence 876544
No 73
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.17 E-value=2.5e-11 Score=107.11 Aligned_cols=85 Identities=33% Similarity=0.615 Sum_probs=77.8
Q ss_pred CCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEe
Q 028371 35 DLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFA 114 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a 114 (210)
+..++|+|.|||+.++..+|+.+|..||.|..|.|+.....+.+.|||||+|.++.+|.+|+++|..+.|.|+.|.++||
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 34679999999999999999999999999999999877566778999999999999999999999999999999999999
Q ss_pred ecCCC
Q 028371 115 EENRK 119 (210)
Q Consensus 115 ~~~~~ 119 (210)
+....
T Consensus 691 ~~d~~ 695 (725)
T KOG0110|consen 691 KSDNT 695 (725)
T ss_pred ccchH
Confidence 86543
No 74
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.16 E-value=8.7e-11 Score=103.73 Aligned_cols=79 Identities=32% Similarity=0.505 Sum_probs=70.2
Q ss_pred CCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCC---CcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEE
Q 028371 37 PTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTG---EPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 113 (210)
Q Consensus 37 ~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g---~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~ 113 (210)
.++|||.||++.++.++|..+|..+|.|..|.|...+... .+.|||||+|.+.++|+.|++.|+|+.|+|+.|.|++
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 4459999999999999999999999999998887654221 2459999999999999999999999999999999999
Q ss_pred ee
Q 028371 114 AE 115 (210)
Q Consensus 114 a~ 115 (210)
+.
T Consensus 595 S~ 596 (725)
T KOG0110|consen 595 SE 596 (725)
T ss_pred cc
Confidence 97
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=99.15 E-value=3.1e-10 Score=78.15 Aligned_cols=80 Identities=21% Similarity=0.355 Sum_probs=70.9
Q ss_pred CeEEEecCCCCCCHHHHHHHhcc--CCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEc----CeEEEE
Q 028371 38 TSLLVRNLRHDCRPEDLRGPFGQ--FGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLL----GRELTV 111 (210)
Q Consensus 38 ~~l~V~nL~~~~te~~l~~~f~~--~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~----g~~i~v 111 (210)
|||+|.|||...+.++|.+++.. .|....+.|+.|..++.+.|||||.|.+++.|....+.++|..|. .+.+.|
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 79999999999999999999865 367788999999999999999999999999999999999998885 467788
Q ss_pred EEeecC
Q 028371 112 VFAEEN 117 (210)
Q Consensus 112 ~~a~~~ 117 (210)
.||.-+
T Consensus 82 ~yAriQ 87 (97)
T PF04059_consen 82 SYARIQ 87 (97)
T ss_pred ehhHhh
Confidence 888643
No 76
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=99.15 E-value=5.8e-11 Score=98.08 Aligned_cols=84 Identities=26% Similarity=0.379 Sum_probs=76.8
Q ss_pred CCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEee
Q 028371 36 LPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAE 115 (210)
Q Consensus 36 ~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~ 115 (210)
...+|||++|+.++++++|+++|.+||.|..+.++.|..+...++|+||.|.+++.++.++ .+.-+.|+|+.|.|+.|.
T Consensus 96 ~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~-~~~f~~~~gk~vevkrA~ 174 (311)
T KOG4205|consen 96 RTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVT-LQKFHDFNGKKVEVKRAI 174 (311)
T ss_pred ceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceec-ccceeeecCceeeEeecc
Confidence 3568999999999999999999999999999999999999999999999999999999888 557789999999999998
Q ss_pred cCCCC
Q 028371 116 ENRKK 120 (210)
Q Consensus 116 ~~~~~ 120 (210)
++...
T Consensus 175 pk~~~ 179 (311)
T KOG4205|consen 175 PKEVM 179 (311)
T ss_pred chhhc
Confidence 76543
No 77
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=99.13 E-value=5.3e-10 Score=95.77 Aligned_cols=83 Identities=28% Similarity=0.371 Sum_probs=68.7
Q ss_pred CCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEE
Q 028371 34 RDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 113 (210)
Q Consensus 34 ~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~ 113 (210)
.....+|||.|||.++++.+|+++|..||.|+...|..-...++..+||||+|.+.++++.||++ +-..|+++.|.|+.
T Consensus 285 ~~~~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~A-sp~~ig~~kl~Vee 363 (419)
T KOG0116|consen 285 RADGLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEA-SPLEIGGRKLNVEE 363 (419)
T ss_pred eecccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhc-CccccCCeeEEEEe
Confidence 34556799999999999999999999999999876654332344449999999999999999976 57889999999988
Q ss_pred eecC
Q 028371 114 AEEN 117 (210)
Q Consensus 114 a~~~ 117 (210)
....
T Consensus 364 k~~~ 367 (419)
T KOG0116|consen 364 KRPG 367 (419)
T ss_pred cccc
Confidence 6653
No 78
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.12 E-value=1.2e-10 Score=97.88 Aligned_cols=76 Identities=28% Similarity=0.451 Sum_probs=68.3
Q ss_pred CCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEE
Q 028371 34 RDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 113 (210)
Q Consensus 34 ~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~ 113 (210)
....++|||.|||.++||+.|++-|..||.|..+.|+. +|+.+| .|.|.++++|+.||..|+|..|+|+.|+|.|
T Consensus 533 arKa~qIiirNlP~dfTWqmlrDKfre~G~v~yadime---~GkskG--VVrF~s~edAEra~a~Mngs~l~Gr~I~V~y 607 (608)
T KOG4212|consen 533 ARKACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIME---NGKSKG--VVRFFSPEDAERACALMNGSRLDGRNIKVTY 607 (608)
T ss_pred cccccEEEEecCCccccHHHHHHHHHhccceehhhhhc---cCCccc--eEEecCHHHHHHHHHHhccCcccCceeeeee
Confidence 35568899999999999999999999999999998853 566665 8999999999999999999999999999987
Q ss_pred e
Q 028371 114 A 114 (210)
Q Consensus 114 a 114 (210)
.
T Consensus 608 ~ 608 (608)
T KOG4212|consen 608 F 608 (608)
T ss_pred C
Confidence 4
No 79
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.12 E-value=2e-10 Score=97.76 Aligned_cols=75 Identities=28% Similarity=0.423 Sum_probs=70.0
Q ss_pred CeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEeecC
Q 028371 38 TSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEEN 117 (210)
Q Consensus 38 ~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~~~ 117 (210)
..|||| ++|||..|.++|..+|.|..|.++.+. | +.|||||.|.++++|+.||+.||...|.|++|.|-|+...
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 8999999999999999999999999999999999998654
Q ss_pred C
Q 028371 118 R 118 (210)
Q Consensus 118 ~ 118 (210)
.
T Consensus 76 ~ 76 (369)
T KOG0123|consen 76 P 76 (369)
T ss_pred C
Confidence 3
No 80
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=99.10 E-value=9.7e-10 Score=85.20 Aligned_cols=88 Identities=19% Similarity=0.255 Sum_probs=72.1
Q ss_pred CCCCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEec-CCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEc---Ce
Q 028371 32 RGRDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPR-DYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLL---GR 107 (210)
Q Consensus 32 ~~~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~-~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~---g~ 107 (210)
.+++.-.||||.+||.++...+|..+|..|-..+.+.|.. ++....++-+|||+|.+..+|++|+++|||+.|+ +.
T Consensus 29 ~~~~~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~s 108 (284)
T KOG1457|consen 29 DEPGAVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGS 108 (284)
T ss_pred ccccccceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCc
Confidence 4456678999999999999999999999986666555543 3333345689999999999999999999999986 68
Q ss_pred EEEEEEeecCCC
Q 028371 108 ELTVVFAEENRK 119 (210)
Q Consensus 108 ~i~v~~a~~~~~ 119 (210)
.|+|++|+.+.+
T Consensus 109 tLhiElAKSNtK 120 (284)
T KOG1457|consen 109 TLHIELAKSNTK 120 (284)
T ss_pred eeEeeehhcCcc
Confidence 999999987653
No 81
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=99.09 E-value=2.2e-10 Score=91.32 Aligned_cols=83 Identities=22% Similarity=0.396 Sum_probs=77.2
Q ss_pred CCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEE
Q 028371 34 RDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 113 (210)
Q Consensus 34 ~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~ 113 (210)
......|||+|+.+.++.++|+..|+.||.|..|.|+.++..+.++|||||+|.+.+.++.|++ |++..|.|..|+|.+
T Consensus 98 ~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~vt~ 176 (231)
T KOG4209|consen 98 EVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIEVTL 176 (231)
T ss_pred ccCCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccccccceeee
Confidence 4456789999999999999999999999999999999999999999999999999999999997 999999999999998
Q ss_pred eecC
Q 028371 114 AEEN 117 (210)
Q Consensus 114 a~~~ 117 (210)
....
T Consensus 177 ~r~~ 180 (231)
T KOG4209|consen 177 KRTN 180 (231)
T ss_pred eeee
Confidence 8754
No 82
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=99.05 E-value=6.3e-10 Score=91.09 Aligned_cols=84 Identities=24% Similarity=0.256 Sum_probs=75.2
Q ss_pred CCCCCCCeEEEecCCCCCCHHHHHHHhccCCceE--------EEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCee
Q 028371 32 RGRDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLK--------DIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYL 103 (210)
Q Consensus 32 ~~~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~--------~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~ 103 (210)
.+...++.|||.|||.++|.+++.++|.+||-|. .|+|..+. .|+.+|-|+|.|...+.++.||+.|++..
T Consensus 129 ~~~~~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~-~G~lKGDaLc~y~K~ESVeLA~~ilDe~~ 207 (382)
T KOG1548|consen 129 PEPKVNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDN-QGKLKGDALCCYIKRESVELAIKILDEDE 207 (382)
T ss_pred cccccCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecC-CCCccCceEEEeecccHHHHHHHHhCccc
Confidence 4556788899999999999999999999999775 46776665 59999999999999999999999999999
Q ss_pred EcCeEEEEEEeec
Q 028371 104 LLGRELTVVFAEE 116 (210)
Q Consensus 104 i~g~~i~v~~a~~ 116 (210)
|.|..|.|+.|+-
T Consensus 208 ~rg~~~rVerAkf 220 (382)
T KOG1548|consen 208 LRGKKLRVERAKF 220 (382)
T ss_pred ccCcEEEEehhhh
Confidence 9999999998864
No 83
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=99.00 E-value=1.2e-09 Score=96.54 Aligned_cols=84 Identities=26% Similarity=0.424 Sum_probs=74.6
Q ss_pred CCCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCC---CCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEE
Q 028371 33 GRDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYT---GEPRGFGFVQYIDPADAADAKYHMDGYLLLGREL 109 (210)
Q Consensus 33 ~~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~---g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i 109 (210)
.++..++|||+||++.++++.|...|..||.|..|.|++.... .....|+||.|.+..+|++|++.|+|..|.+..|
T Consensus 170 gDP~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~ 249 (877)
T KOG0151|consen 170 GDPQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEM 249 (877)
T ss_pred CCCcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeee
Confidence 3567888999999999999999999999999999999876522 2346789999999999999999999999999999
Q ss_pred EEEEeec
Q 028371 110 TVVFAEE 116 (210)
Q Consensus 110 ~v~~a~~ 116 (210)
++-|++.
T Consensus 250 K~gWgk~ 256 (877)
T KOG0151|consen 250 KLGWGKA 256 (877)
T ss_pred eeccccc
Confidence 9999854
No 84
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=98.93 E-value=9.1e-10 Score=95.12 Aligned_cols=71 Identities=25% Similarity=0.405 Sum_probs=64.7
Q ss_pred CCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEE
Q 028371 35 DLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELT 110 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~ 110 (210)
-...+|+|.|||..|++++|..+|+.||+|..|...... .+.+||+|-+..+|+.|+++|++..|.|+.|+
T Consensus 73 ~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~~~-----~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k 143 (549)
T KOG4660|consen 73 MNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETPNK-----RGIVFVEFYDVRDAERALKALNRREIAGKRIK 143 (549)
T ss_pred CccceEEEEecCCcCCHHHHHHHHHhhcchhhhhccccc-----CceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence 345689999999999999999999999999998776554 89999999999999999999999999998887
No 85
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=98.85 E-value=1.9e-09 Score=93.65 Aligned_cols=88 Identities=27% Similarity=0.422 Sum_probs=80.9
Q ss_pred CCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEE
Q 028371 34 RDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 113 (210)
Q Consensus 34 ~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~ 113 (210)
.....+|||++||..+++.++.+++..||.+....++.+..+|.++||||.+|.+......|+..|||..+.+..|.|+.
T Consensus 286 ~~~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~ 365 (500)
T KOG0120|consen 286 PDSPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQR 365 (500)
T ss_pred ccccchhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEeeh
Confidence 45678899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eecCCCCc
Q 028371 114 AEENRKKP 121 (210)
Q Consensus 114 a~~~~~~~ 121 (210)
|.......
T Consensus 366 A~~g~~~~ 373 (500)
T KOG0120|consen 366 AIVGASNA 373 (500)
T ss_pred hhccchhc
Confidence 87655433
No 86
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=98.84 E-value=6e-09 Score=85.94 Aligned_cols=86 Identities=27% Similarity=0.314 Sum_probs=77.2
Q ss_pred CCCCCCeEEEecCCCCCCHHHHHHHhccCCceE--------EEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeE
Q 028371 33 GRDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLK--------DIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLL 104 (210)
Q Consensus 33 ~~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~--------~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i 104 (210)
......+|||-+|+..+++++|.++|.++|.|. .|+|-+++.|+..++-|.|.|++...|++||..+++..|
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 345677899999999999999999999999874 577888889999999999999999999999999999999
Q ss_pred cCeEEEEEEeecCC
Q 028371 105 LGRELTVVFAEENR 118 (210)
Q Consensus 105 ~g~~i~v~~a~~~~ 118 (210)
++..|+|.+|....
T Consensus 142 ~gn~ikvs~a~~r~ 155 (351)
T KOG1995|consen 142 CGNTIKVSLAERRT 155 (351)
T ss_pred cCCCchhhhhhhcc
Confidence 99999998886443
No 87
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=98.80 E-value=2.9e-08 Score=83.13 Aligned_cols=78 Identities=26% Similarity=0.403 Sum_probs=70.1
Q ss_pred CCeEEEecCCC-CCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEee
Q 028371 37 PTSLLVRNLRH-DCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAE 115 (210)
Q Consensus 37 ~~~l~V~nL~~-~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~ 115 (210)
...|.|.||.. .||.+.|..+|..||.|..|+|..++ +..|+|.|.+...|+.|++.|+|+.|.|+.|+|.+++
T Consensus 297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nk-----kd~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SK 371 (492)
T KOG1190|consen 297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNK-----KDNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSK 371 (492)
T ss_pred ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecC-----CcceeeeecchhHHHHHHHHhhcceecCceEEEeecc
Confidence 56788889865 59999999999999999999999876 5789999999999999999999999999999999987
Q ss_pred cCCC
Q 028371 116 ENRK 119 (210)
Q Consensus 116 ~~~~ 119 (210)
-...
T Consensus 372 H~~v 375 (492)
T KOG1190|consen 372 HTNV 375 (492)
T ss_pred Cccc
Confidence 5543
No 88
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=98.79 E-value=5.5e-09 Score=82.44 Aligned_cols=83 Identities=25% Similarity=0.415 Sum_probs=76.0
Q ss_pred CCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEE
Q 028371 34 RDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 113 (210)
Q Consensus 34 ~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~ 113 (210)
.+....||+|.|..+++.+.|-..|.+|-......++.++.||+++||+||-|.+..++..|+..|+|..++.++|++.-
T Consensus 187 ~~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklRk 266 (290)
T KOG0226|consen 187 DEDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLRK 266 (290)
T ss_pred ccccceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhhh
Confidence 35578999999999999999999999998888888999999999999999999999999999999999999999998765
Q ss_pred eec
Q 028371 114 AEE 116 (210)
Q Consensus 114 a~~ 116 (210)
...
T Consensus 267 S~w 269 (290)
T KOG0226|consen 267 SEW 269 (290)
T ss_pred hhH
Confidence 543
No 89
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.74 E-value=2.2e-08 Score=78.32 Aligned_cols=71 Identities=31% Similarity=0.440 Sum_probs=63.8
Q ss_pred CCCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEE
Q 028371 33 GRDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTV 111 (210)
Q Consensus 33 ~~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v 111 (210)
.....+.|+|.+|+..+.+++|.+.|.++|++....+. .+++||+|+..++|..||..|++..|.++.|.|
T Consensus 95 p~~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~~--------~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~~ 165 (216)
T KOG0106|consen 95 PSRTHFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDAR--------RNFAFVEFSEQEDAKRALEKLDGKKLNGRRISV 165 (216)
T ss_pred cccccceeeeccchhhhhHHHHhhhhcccCCCchhhhh--------ccccceeehhhhhhhhcchhccchhhcCceeee
Confidence 34557889999999999999999999999999655443 679999999999999999999999999999999
No 90
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.73 E-value=4.1e-08 Score=83.93 Aligned_cols=78 Identities=19% Similarity=0.311 Sum_probs=65.2
Q ss_pred CCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEe
Q 028371 35 DLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFA 114 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a 114 (210)
....-|-+.+|||++|+++|.+||..+ .|+.+.+++. +|+..|-|||+|.+++++++||+ ++-..+..+-|.|--+
T Consensus 8 ~~~~~vr~rGLPwsat~~ei~~Ff~~~-~I~~~~~~r~--~Gr~sGeA~Ve~~seedv~~Alk-kdR~~mg~RYIEVf~~ 83 (510)
T KOG4211|consen 8 STAFEVRLRGLPWSATEKEILDFFSNC-GIENLEIPRR--NGRPSGEAYVEFTSEEDVEKALK-KDRESMGHRYIEVFTA 83 (510)
T ss_pred CcceEEEecCCCccccHHHHHHHHhcC-ceeEEEEecc--CCCcCcceEEEeechHHHHHHHH-hhHHHhCCceEEEEcc
Confidence 345567788999999999999999998 4777766654 79999999999999999999995 5777888888888766
Q ss_pred ec
Q 028371 115 EE 116 (210)
Q Consensus 115 ~~ 116 (210)
..
T Consensus 84 ~~ 85 (510)
T KOG4211|consen 84 GG 85 (510)
T ss_pred CC
Confidence 43
No 91
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=98.68 E-value=2.3e-07 Score=77.07 Aligned_cols=80 Identities=20% Similarity=0.287 Sum_probs=71.8
Q ss_pred CCCCCeEEEecCCCC-CCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEE
Q 028371 34 RDLPTSLLVRNLRHD-CRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVV 112 (210)
Q Consensus 34 ~~~~~~l~V~nL~~~-~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~ 112 (210)
..+++.++|-+|... ++-+-|..+|..||.|+.|++++.+ .|-|+|++.+..+++.||..||+..+.|.+|.|+
T Consensus 284 ~~~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk-----~gtamVemgd~~aver~v~hLnn~~lfG~kl~v~ 358 (494)
T KOG1456|consen 284 GAPGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTK-----PGTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVC 358 (494)
T ss_pred CCCCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeecc-----cceeEEEcCcHHHHHHHHHHhccCccccceEEEe
Confidence 356788999999776 6788999999999999999999766 7899999999999999999999999999999999
Q ss_pred EeecCC
Q 028371 113 FAEENR 118 (210)
Q Consensus 113 ~a~~~~ 118 (210)
+++...
T Consensus 359 ~SkQ~~ 364 (494)
T KOG1456|consen 359 VSKQNF 364 (494)
T ss_pred eccccc
Confidence 987654
No 92
>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=98.61 E-value=1.1e-07 Score=63.01 Aligned_cols=70 Identities=24% Similarity=0.404 Sum_probs=48.0
Q ss_pred CeEEEecCCCCCCHHH----HHHHhccCC-ceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEE
Q 028371 38 TSLLVRNLRHDCRPED----LRGPFGQFG-RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVV 112 (210)
Q Consensus 38 ~~l~V~nL~~~~te~~----l~~~f~~~G-~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~ 112 (210)
+.|||.|||.+..... |+.++..+| +|..|. .+.|+|.|.+.+.|..|++.|+|..+.|..|.|.
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----------GGTAILRFPNQEFAERAQKRMEGEDVFGNKISVS 72 (90)
T ss_dssp EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE------------TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEE
T ss_pred cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEEe----------CCEEEEEeCCHHHHHHHHHhhcccccccceEEEE
Confidence 4699999999988654 556666776 665552 4679999999999999999999999999999999
Q ss_pred EeecC
Q 028371 113 FAEEN 117 (210)
Q Consensus 113 ~a~~~ 117 (210)
|....
T Consensus 73 ~~~~~ 77 (90)
T PF11608_consen 73 FSPKN 77 (90)
T ss_dssp SS--S
T ss_pred EcCCc
Confidence 98543
No 93
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.58 E-value=5.2e-08 Score=75.70 Aligned_cols=65 Identities=20% Similarity=0.398 Sum_probs=54.1
Q ss_pred CCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeE
Q 028371 36 LPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLL 104 (210)
Q Consensus 36 ~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i 104 (210)
.-.||||.||..+++|++|+.+|..|-...-++|.. ......|||+|++.+.|..|+..|+|..|
T Consensus 209 acstlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~----~~g~~vaf~~~~~~~~at~am~~lqg~~~ 273 (284)
T KOG1457|consen 209 ACSTLFIANLGPNCTEDELKQLLSRYPGFHILKIRA----RGGMPVAFADFEEIEQATDAMNHLQGNLL 273 (284)
T ss_pred hhhhHhhhccCCCCCHHHHHHHHHhCCCceEEEEec----CCCcceEeecHHHHHHHHHHHHHhhccee
Confidence 346899999999999999999999997666566542 12345899999999999999999999776
No 94
>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=98.58 E-value=1.1e-07 Score=66.85 Aligned_cols=72 Identities=24% Similarity=0.383 Sum_probs=45.4
Q ss_pred CCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCC-----eeEcCeEEEE
Q 028371 37 PTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDG-----YLLLGRELTV 111 (210)
Q Consensus 37 ~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g-----~~i~g~~i~v 111 (210)
++.|+|.+++..++.++|+++|.+||.|..|.+... ...|||.|.+.+.|+.|++.+.. ..|.+..+.+
T Consensus 1 G~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G------~~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~ 74 (105)
T PF08777_consen 1 GCILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRG------DTEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTL 74 (105)
T ss_dssp --EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-------SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEE
T ss_pred CeEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCC------CCEEEEEECCcchHHHHHHHHHhccCCceEEcCceEEE
Confidence 357899999999999999999999999999998854 45799999999999999887643 3567777776
Q ss_pred EEe
Q 028371 112 VFA 114 (210)
Q Consensus 112 ~~a 114 (210)
.+-
T Consensus 75 ~vL 77 (105)
T PF08777_consen 75 EVL 77 (105)
T ss_dssp E--
T ss_pred EEC
Confidence 654
No 95
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=98.58 E-value=2.4e-07 Score=72.12 Aligned_cols=78 Identities=23% Similarity=0.403 Sum_probs=69.0
Q ss_pred CCCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEc-CeEEEE
Q 028371 33 GRDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLL-GRELTV 111 (210)
Q Consensus 33 ~~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~-g~~i~v 111 (210)
...+..+||+.|||.+++.+.|..+|.+|....+|.++... .+.|||+|.+...|..|...|++..|- ...|.|
T Consensus 142 ~~ppn~ilf~~niP~es~~e~l~~lf~qf~g~keir~i~~~-----~~iAfve~~~d~~a~~a~~~lq~~~it~~~~m~i 216 (221)
T KOG4206|consen 142 MAPPNNILFLTNIPSESESEMLSDLFEQFPGFKEIRLIPPR-----SGIAFVEFLSDRQASAAQQALQGFKITKKNTMQI 216 (221)
T ss_pred CCCCceEEEEecCCcchhHHHHHHHHhhCcccceeEeccCC-----CceeEEecchhhhhHHHhhhhccceeccCceEEe
Confidence 34667889999999999999999999999999999888655 789999999999999999999998876 788888
Q ss_pred EEee
Q 028371 112 VFAE 115 (210)
Q Consensus 112 ~~a~ 115 (210)
.++.
T Consensus 217 ~~a~ 220 (221)
T KOG4206|consen 217 TFAK 220 (221)
T ss_pred cccC
Confidence 8774
No 96
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=98.45 E-value=9.9e-08 Score=78.56 Aligned_cols=79 Identities=16% Similarity=0.188 Sum_probs=68.7
Q ss_pred CCeEEEecCCCCCCHHHHHHHhccCC--ceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEe
Q 028371 37 PTSLLVRNLRHDCRPEDLRGPFGQFG--RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFA 114 (210)
Q Consensus 37 ~~~l~V~nL~~~~te~~l~~~f~~~G--~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a 114 (210)
..++|||||-|.+|.+||.+.+...| .|.++++..+..+|.++|||+|...+...+++.++.|...+|.|+.-.|.-.
T Consensus 80 k~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V~~~ 159 (498)
T KOG4849|consen 80 KYCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTVLSY 159 (498)
T ss_pred eEEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCCCeeecc
Confidence 45799999999999999999998776 6777888888899999999999999999999999999999999986555443
Q ss_pred e
Q 028371 115 E 115 (210)
Q Consensus 115 ~ 115 (210)
+
T Consensus 160 N 160 (498)
T KOG4849|consen 160 N 160 (498)
T ss_pred c
Confidence 3
No 97
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=98.45 E-value=6.8e-08 Score=83.58 Aligned_cols=80 Identities=23% Similarity=0.414 Sum_probs=74.1
Q ss_pred CCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEeec
Q 028371 37 PTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEE 116 (210)
Q Consensus 37 ~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~~ 116 (210)
..|||+..|...+++.+|.+||..+|+|..|.|+.|..++..+|.|||+|.+.+.+..|| .|.|+.+.|.+|.|+....
T Consensus 179 ~Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~ai-aLsGqrllg~pv~vq~sEa 257 (549)
T KOG0147|consen 179 QRTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAI-ALSGQRLLGVPVIVQLSEA 257 (549)
T ss_pred HHHHHHHHHhhcCCchhHHHHHHhhcCcceeEeeccccchhhcceeEEEEecccchhhHh-hhcCCcccCceeEecccHH
Confidence 467888889999999999999999999999999999999999999999999999999999 8999999999999987654
Q ss_pred C
Q 028371 117 N 117 (210)
Q Consensus 117 ~ 117 (210)
.
T Consensus 258 e 258 (549)
T KOG0147|consen 258 E 258 (549)
T ss_pred H
Confidence 3
No 98
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.43 E-value=8.2e-07 Score=76.14 Aligned_cols=79 Identities=27% Similarity=0.312 Sum_probs=64.0
Q ss_pred CCCCeEEEecCCCCCCHHHHHHHhccCCceEE-EEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEE
Q 028371 35 DLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKD-IYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 113 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~-v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~ 113 (210)
.....|-|.+||+.||++||.+||+.+-.|.. |.|+.++ .+.+.|-|||.|++.+.|++||.. |...|..+-|.|..
T Consensus 101 ~~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~-rgR~tGEAfVqF~sqe~ae~Al~r-hre~iGhRYIEvF~ 178 (510)
T KOG4211|consen 101 ANDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQ-RGRPTGEAFVQFESQESAEIALGR-HRENIGHRYIEVFR 178 (510)
T ss_pred CCCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccC-CCCcccceEEEecCHHHHHHHHHH-HHHhhccceEEeeh
Confidence 34567889999999999999999998754444 5556555 667899999999999999999954 67788888888866
Q ss_pred ee
Q 028371 114 AE 115 (210)
Q Consensus 114 a~ 115 (210)
+.
T Consensus 179 Ss 180 (510)
T KOG4211|consen 179 SS 180 (510)
T ss_pred hH
Confidence 53
No 99
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=98.38 E-value=9.1e-07 Score=72.71 Aligned_cols=81 Identities=23% Similarity=0.371 Sum_probs=62.5
Q ss_pred CCCeEEEecCCCCCCHHH------HHHHhccCCceEEEEEecCC-CCCCcceE--EEEEecCHHHHHHHHHhhCCeeEcC
Q 028371 36 LPTSLLVRNLRHDCRPED------LRGPFGQFGRLKDIYLPRDY-YTGEPRGF--GFVQYIDPADAADAKYHMDGYLLLG 106 (210)
Q Consensus 36 ~~~~l~V~nL~~~~te~~------l~~~f~~~G~i~~v~i~~~~-~~g~~~g~--afV~f~~~~~a~~Ai~~l~g~~i~g 106 (210)
+..-|||-+|++.+..++ -.++|.+||+|..|.|.... ......++ .||+|...++|..||.+++|..++|
T Consensus 113 QKNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~DG 192 (480)
T COG5175 113 QKNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLDG 192 (480)
T ss_pred ecceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccccC
Confidence 455689999988876554 25789999999998876543 11112233 3999999999999999999999999
Q ss_pred eEEEEEEeec
Q 028371 107 RELTVVFAEE 116 (210)
Q Consensus 107 ~~i~v~~a~~ 116 (210)
+.|+..|...
T Consensus 193 r~lkatYGTT 202 (480)
T COG5175 193 RVLKATYGTT 202 (480)
T ss_pred ceEeeecCch
Confidence 9999988643
No 100
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=98.33 E-value=5e-07 Score=79.01 Aligned_cols=76 Identities=16% Similarity=0.270 Sum_probs=64.0
Q ss_pred CCCCeEEEecCCCCCCHHHHHHHhc-cCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeE---cCeEEE
Q 028371 35 DLPTSLLVRNLRHDCRPEDLRGPFG-QFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLL---LGRELT 110 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te~~l~~~f~-~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i---~g~~i~ 110 (210)
.+.+.|||.||-.-+|..+|+++|. ..|.|+.+||- +.+.+|||.|.+.++|.+.+.+|||..| +++.|.
T Consensus 442 ~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~WmD------kIKShCyV~yss~eEA~atr~AlhnV~WP~sNPK~L~ 515 (718)
T KOG2416|consen 442 EPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEFWMD------KIKSHCYVSYSSVEEAAATREALHNVQWPPSNPKHLI 515 (718)
T ss_pred CccceEeeecccccchHHHHHHHHhhccCchHHHHHH------HhhcceeEecccHHHHHHHHHHHhccccCCCCCceeE
Confidence 5678899999999999999999999 45666666443 3378999999999999999999999987 568888
Q ss_pred EEEeec
Q 028371 111 VVFAEE 116 (210)
Q Consensus 111 v~~a~~ 116 (210)
|.|+..
T Consensus 516 adf~~~ 521 (718)
T KOG2416|consen 516 ADFVRA 521 (718)
T ss_pred eeecch
Confidence 888754
No 101
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=98.32 E-value=5.5e-06 Score=62.86 Aligned_cols=78 Identities=22% Similarity=0.268 Sum_probs=64.8
Q ss_pred CCCCCCCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEc--C
Q 028371 29 YGGRGRDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLL--G 106 (210)
Q Consensus 29 ~~~~~~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~--g 106 (210)
.+++.......|+|.+||...+|+||++.+.+.|.|+...+..| |++.|+|...++++-||..|+.+.+. |
T Consensus 107 rgppsrrSe~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rD-------g~GvV~~~r~eDMkYAvr~ld~~~~~seG 179 (241)
T KOG0105|consen 107 RGPPSRRSEYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRD-------GVGVVEYLRKEDMKYAVRKLDDQKFRSEG 179 (241)
T ss_pred cCCcccccceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeecc-------cceeeeeeehhhHHHHHHhhccccccCcC
Confidence 44566677889999999999999999999999999998888764 58999999999999999999987654 4
Q ss_pred eEEEEEE
Q 028371 107 RELTVVF 113 (210)
Q Consensus 107 ~~i~v~~ 113 (210)
....|.+
T Consensus 180 e~~yirv 186 (241)
T KOG0105|consen 180 ETAYIRV 186 (241)
T ss_pred cEeeEEe
Confidence 4443333
No 102
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=98.25 E-value=6.9e-06 Score=73.29 Aligned_cols=75 Identities=21% Similarity=0.270 Sum_probs=64.2
Q ss_pred eEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEE
Q 028371 39 SLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 113 (210)
Q Consensus 39 ~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~ 113 (210)
.|-|.|+|+.++.+||.+||..|-.+-.-.+++-.+.|+..|-|.|.|++.++|..|...|++..|..++|+|.+
T Consensus 869 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 869 VLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRNDDGVPTGECMVAFESQEEARRASMDLDGQKIRNRVVSLRI 943 (944)
T ss_pred EEEecCCCccccHHHHHHHhcccccCCCceeEeecCCCCcccceeEeecCHHHHHhhhhccccCcccceeEEEEe
Confidence 567889999999999999999996554333333445899999999999999999999999999999999998865
No 103
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=98.24 E-value=7.2e-07 Score=73.52 Aligned_cols=82 Identities=22% Similarity=0.353 Sum_probs=74.0
Q ss_pred CCCCeEE-EecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEE
Q 028371 35 DLPTSLL-VRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 113 (210)
Q Consensus 35 ~~~~~l~-V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~ 113 (210)
....++| |++|+..+++++|+.+|..+|.|..+.++.+..++.+.|||||.|.+...+..|+.. +...+.+..+.|..
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 4456666 999999999999999999999999999999999999999999999999999999877 78889999999988
Q ss_pred eecC
Q 028371 114 AEEN 117 (210)
Q Consensus 114 a~~~ 117 (210)
..+.
T Consensus 261 ~~~~ 264 (285)
T KOG4210|consen 261 DEPR 264 (285)
T ss_pred CCCC
Confidence 7654
No 104
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=98.22 E-value=4e-06 Score=73.14 Aligned_cols=78 Identities=23% Similarity=0.341 Sum_probs=62.8
Q ss_pred CCCCeEEEecCCCCCC------HHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcC-e
Q 028371 35 DLPTSLLVRNLRHDCR------PEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLG-R 107 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~t------e~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g-~ 107 (210)
...+.|+|.|+|.--. ..-|..+|+++|+|..+.++.+..+| ++||.|++|++..+|+.|++.|||..|+- +
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 3457899999985422 24567789999999999999887555 89999999999999999999999998764 5
Q ss_pred EEEEEE
Q 028371 108 ELTVVF 113 (210)
Q Consensus 108 ~i~v~~ 113 (210)
.+.|..
T Consensus 135 tf~v~~ 140 (698)
T KOG2314|consen 135 TFFVRL 140 (698)
T ss_pred eEEeeh
Confidence 555543
No 105
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=98.16 E-value=1.4e-05 Score=66.06 Aligned_cols=79 Identities=22% Similarity=0.373 Sum_probs=63.5
Q ss_pred CCCCCeEEEecCCC----CCC-------HHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCe
Q 028371 34 RDLPTSLLVRNLRH----DCR-------PEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGY 102 (210)
Q Consensus 34 ~~~~~~l~V~nL~~----~~t-------e~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~ 102 (210)
....++|+|.||-. ..+ +++|.+...+||.|..|.|.- ..+.|.+.|.|.+.++|+.||+.|+|.
T Consensus 262 ~r~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~d----~hPdGvvtV~f~n~eeA~~ciq~m~GR 337 (382)
T KOG1548|consen 262 ARADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVYD----RHPDGVVTVSFRNNEEADQCIQTMDGR 337 (382)
T ss_pred ccCCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEec----cCCCceeEEEeCChHHHHHHHHHhcCe
Confidence 45578899998732 233 356666788999999998762 245899999999999999999999999
Q ss_pred eEcCeEEEEEEeec
Q 028371 103 LLLGRELTVVFAEE 116 (210)
Q Consensus 103 ~i~g~~i~v~~a~~ 116 (210)
.|+|+.|...+...
T Consensus 338 ~fdgRql~A~i~DG 351 (382)
T KOG1548|consen 338 WFDGRQLTASIWDG 351 (382)
T ss_pred eecceEEEEEEeCC
Confidence 99999999877643
No 106
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=98.14 E-value=1.6e-05 Score=66.33 Aligned_cols=78 Identities=18% Similarity=0.161 Sum_probs=62.6
Q ss_pred CCCeEEEe--cCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcC--eEEEE
Q 028371 36 LPTSLLVR--NLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLG--RELTV 111 (210)
Q Consensus 36 ~~~~l~V~--nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g--~~i~v 111 (210)
++..|.++ |--+.+|.+.|..+....|+|..|.|... + ---|+|||++.+.|++|.++|||..|.. -.|+|
T Consensus 119 pN~VLl~TIlNp~YpItvDVly~Icnp~GkVlRIvIfkk--n---gVQAmVEFdsv~~AqrAk~alNGADIYsGCCTLKI 193 (494)
T KOG1456|consen 119 PNKVLLFTILNPQYPITVDVLYTICNPQGKVLRIVIFKK--N---GVQAMVEFDSVEVAQRAKAALNGADIYSGCCTLKI 193 (494)
T ss_pred CCeEEEEEeecCccccchhhhhhhcCCCCceEEEEEEec--c---ceeeEEeechhHHHHHHHhhcccccccccceeEEE
Confidence 34445544 44466899999999999999999988754 3 3459999999999999999999998765 57899
Q ss_pred EEeecCC
Q 028371 112 VFAEENR 118 (210)
Q Consensus 112 ~~a~~~~ 118 (210)
+||++.+
T Consensus 194 eyAkP~r 200 (494)
T KOG1456|consen 194 EYAKPTR 200 (494)
T ss_pred EecCcce
Confidence 9998754
No 107
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=98.13 E-value=6.7e-06 Score=50.40 Aligned_cols=53 Identities=30% Similarity=0.503 Sum_probs=42.9
Q ss_pred CCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHH
Q 028371 37 PTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAK 96 (210)
Q Consensus 37 ~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai 96 (210)
++.|-|.|++....+..| ..|..||+|..+.+... ..+.||.|.+..+|+.||
T Consensus 1 ~~wI~V~Gf~~~~~~~vl-~~F~~fGeI~~~~~~~~------~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 1 STWISVSGFPPDLAEEVL-EHFASFGEIVDIYVPES------TNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred CcEEEEEeECchHHHHHH-HHHHhcCCEEEEEcCCC------CcEEEEEECCHHHHHhhC
Confidence 357889999987765554 57888999999888722 568999999999999985
No 108
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=98.10 E-value=1.2e-05 Score=69.63 Aligned_cols=68 Identities=19% Similarity=0.188 Sum_probs=61.8
Q ss_pred CCCCCCCCeEEEecCCCCCCHHHHHHHhc-cCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHh
Q 028371 31 GRGRDLPTSLLVRNLRHDCRPEDLRGPFG-QFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYH 98 (210)
Q Consensus 31 ~~~~~~~~~l~V~nL~~~~te~~l~~~f~-~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~ 98 (210)
...-++..|||||+||--++.++|..+|+ -||.|+.+-|-.|+.-+.++|-|=|+|.+...-.+||.+
T Consensus 364 sq~lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsa 432 (520)
T KOG0129|consen 364 NQPIDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISA 432 (520)
T ss_pred CcccCccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHhh
Confidence 34557789999999999999999999998 799999999999988899999999999999999999864
No 109
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=98.04 E-value=2.5e-06 Score=67.65 Aligned_cols=71 Identities=20% Similarity=0.325 Sum_probs=60.4
Q ss_pred CeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCC--------CCcc----eEEEEEecCHHHHHHHHHhhCCeeEc
Q 028371 38 TSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYT--------GEPR----GFGFVQYIDPADAADAKYHMDGYLLL 105 (210)
Q Consensus 38 ~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~--------g~~~----g~afV~f~~~~~a~~Ai~~l~g~~i~ 105 (210)
-.|||++||+.+....|.++|..||+|-.|.|.....+ |.+. --|+|+|.+...|+.+...||+..|.
T Consensus 75 GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~Ig 154 (278)
T KOG3152|consen 75 GVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTPIG 154 (278)
T ss_pred eEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCccC
Confidence 57999999999999999999999999999988765544 2222 23789999999999999999999998
Q ss_pred CeE
Q 028371 106 GRE 108 (210)
Q Consensus 106 g~~ 108 (210)
|+.
T Consensus 155 gkk 157 (278)
T KOG3152|consen 155 GKK 157 (278)
T ss_pred CCC
Confidence 864
No 110
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=98.03 E-value=1.4e-05 Score=67.31 Aligned_cols=78 Identities=19% Similarity=0.209 Sum_probs=63.5
Q ss_pred CCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCe-EEEEEE
Q 028371 35 DLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGR-ELTVVF 113 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~-~i~v~~ 113 (210)
.+..+|++.|+|..++|++|+++|..-|......... ++...+|++.+++.|+|..|+..|+++.+.+. .|.|.|
T Consensus 412 PpsatlHlsnip~svsee~lk~~f~~~g~~vkafkff----~kd~kmal~q~~sveeA~~ali~~hnh~lgen~hlRvSF 487 (492)
T KOG1190|consen 412 PPSATLHLSNIPPSVSEEDLKNLFQEPGGQVKAFKFF----QKDRKMALPQLESVEEAIQALIDLHNHYLGENHHLRVSF 487 (492)
T ss_pred CchhheeeccCCcccchhHHHHhhhcCCceEEeeeec----CCCcceeecccCChhHhhhhccccccccCCCCceEEEEe
Confidence 4567899999999999999999999887654332221 22367999999999999999999999998775 889999
Q ss_pred eec
Q 028371 114 AEE 116 (210)
Q Consensus 114 a~~ 116 (210)
++.
T Consensus 488 Sks 490 (492)
T KOG1190|consen 488 SKS 490 (492)
T ss_pred ecc
Confidence 864
No 111
>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=98.02 E-value=3.5e-05 Score=53.47 Aligned_cols=79 Identities=15% Similarity=0.171 Sum_probs=52.4
Q ss_pred CCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCC-------CCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeE
Q 028371 36 LPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDY-------YTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRE 108 (210)
Q Consensus 36 ~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~-------~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~ 108 (210)
..+-|.|.++|.. ....|.+.|++||.|.+..-.... .......+..|+|.+..+|++|| ..||..|.|..
T Consensus 5 ~~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL-~~NG~i~~g~~ 82 (100)
T PF05172_consen 5 SETWVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRAL-QKNGTIFSGSL 82 (100)
T ss_dssp GCCEEEEE---GG-GHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHH-TTTTEEETTCE
T ss_pred CCeEEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHH-HhCCeEEcCcE
Confidence 4567889999988 456788899999999876411000 00122568999999999999999 45999999864
Q ss_pred -EEEEEeec
Q 028371 109 -LTVVFAEE 116 (210)
Q Consensus 109 -i~v~~a~~ 116 (210)
|-|.+.++
T Consensus 83 mvGV~~~~~ 91 (100)
T PF05172_consen 83 MVGVKPCDP 91 (100)
T ss_dssp EEEEEE-HH
T ss_pred EEEEEEcHH
Confidence 45776643
No 112
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=98.02 E-value=1.8e-06 Score=68.51 Aligned_cols=65 Identities=15% Similarity=0.280 Sum_probs=53.5
Q ss_pred HHHHHHhc-cCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEeecC
Q 028371 52 EDLRGPFG-QFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEEN 117 (210)
Q Consensus 52 ~~l~~~f~-~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~~~ 117 (210)
++|...|+ +||+|+++.|..+- .-...|-+||.|...++|++|++.||+-.|.|++|.+++....
T Consensus 83 Ed~f~E~~~kygEiee~~Vc~Nl-~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~pvT 148 (260)
T KOG2202|consen 83 EDVFTELEDKYGEIEELNVCDNL-GDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSPVT 148 (260)
T ss_pred HHHHHHHHHHhhhhhhhhhhccc-chhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecCcC
Confidence 45555566 89999998766442 3455788999999999999999999999999999999987543
No 113
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=98.02 E-value=5.4e-06 Score=70.13 Aligned_cols=77 Identities=21% Similarity=0.200 Sum_probs=61.0
Q ss_pred CCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecC---CCCC--C--------cceEEEEEecCHHHHHHHHHhhCC
Q 028371 35 DLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRD---YYTG--E--------PRGFGFVQYIDPADAADAKYHMDG 101 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~---~~~g--~--------~~g~afV~f~~~~~a~~Ai~~l~g 101 (210)
-+..+|.+.|||.+-.-+.|.+||..+|.|..|.|+.. +.+. . .+-+|||+|+..+.|.+|.+.|+.
T Consensus 229 l~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~~ 308 (484)
T KOG1855|consen 229 LPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLNP 308 (484)
T ss_pred cccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhch
Confidence 47889999999999888999999999999999999876 3221 1 256799999999999999988866
Q ss_pred eeEcCeEEEE
Q 028371 102 YLLLGRELTV 111 (210)
Q Consensus 102 ~~i~g~~i~v 111 (210)
...+-..|+|
T Consensus 309 e~~wr~glkv 318 (484)
T KOG1855|consen 309 EQNWRMGLKV 318 (484)
T ss_pred hhhhhhcchh
Confidence 5433333333
No 114
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=98.02 E-value=2e-05 Score=68.95 Aligned_cols=65 Identities=26% Similarity=0.477 Sum_probs=53.5
Q ss_pred HHHHHHhccCCceEEEEEecCCCC---CCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEeec
Q 028371 52 EDLRGPFGQFGRLKDIYLPRDYYT---GEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEE 116 (210)
Q Consensus 52 ~~l~~~f~~~G~i~~v~i~~~~~~---g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~~ 116 (210)
++|+..+.+||.|..|.|+.+..+ .-..|..||+|.+.++|+.|+++|+|.+|.|+.|.+.|-.+
T Consensus 424 Edvr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVvtsYyde 491 (500)
T KOG0120|consen 424 EDVRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRTVVASYYDE 491 (500)
T ss_pred HHHHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCcEEEEEecCH
Confidence 345556789999999999877322 33467899999999999999999999999999999888654
No 115
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=98.00 E-value=1.4e-05 Score=67.05 Aligned_cols=73 Identities=18% Similarity=0.361 Sum_probs=57.8
Q ss_pred eEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCC---CCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEE
Q 028371 39 SLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYT---GEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVV 112 (210)
Q Consensus 39 ~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~---g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~ 112 (210)
.|.|.||.+.++.++++.||..+|+|.++.|..+..+ ....-.|||.|.+.+.+..|. +|.+++|-+..|.|-
T Consensus 9 vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQ-hLtntvfvdraliv~ 84 (479)
T KOG4676|consen 9 VIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQ-HLTNTVFVDRALIVR 84 (479)
T ss_pred eeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHh-hhccceeeeeeEEEE
Confidence 8999999999999999999999999999988653322 334568999999998888777 566666555555443
No 116
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=97.99 E-value=4.3e-07 Score=75.81 Aligned_cols=69 Identities=9% Similarity=-0.032 Sum_probs=54.2
Q ss_pred CCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEE
Q 028371 37 PTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELT 110 (210)
Q Consensus 37 ~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~ 110 (210)
..+|+|++|+..+...++.++|+.+|+|....|. .+....+|.|+|........|+. ++|..+.-+...
T Consensus 151 rRt~~v~sl~~~~~l~e~~e~f~r~Gev~ya~~a----sk~~s~~c~~sf~~qts~~halr-~~gre~k~qhsr 219 (479)
T KOG4676|consen 151 RRTREVQSLISAAILPESGESFERKGEVSYAHTA----SKSRSSSCSHSFRKQTSSKHALR-SHGRERKRQHSR 219 (479)
T ss_pred Hhhhhhhcchhhhcchhhhhhhhhcchhhhhhhh----ccCCCcchhhhHhhhhhHHHHHH-hcchhhhhhhhh
Confidence 4679999999999999999999999999877665 34446788899998888888884 577766543333
No 117
>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=4.3e-05 Score=56.22 Aligned_cols=75 Identities=19% Similarity=0.257 Sum_probs=52.4
Q ss_pred CCCeEEEecCC------CCCCH---HHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcC
Q 028371 36 LPTSLLVRNLR------HDCRP---EDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLG 106 (210)
Q Consensus 36 ~~~~l~V~nL~------~~~te---~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g 106 (210)
+..||.|.-+. ..+.+ .+|.+.|..||+|.-|.++ .+.-+|+|.+-+.|.+|+ .|+|.+|+|
T Consensus 26 pDaTVvVsv~~~~~~e~~~Fdd~l~~~ll~~~~~~GevvLvRfv--------~~~mwVTF~dg~sALaal-s~dg~~v~g 96 (146)
T PF08952_consen 26 PDATVVVSVDSPSEDEDSSFDDNLMDELLQKFAQYGEVVLVRFV--------GDTMWVTFRDGQSALAAL-SLDGIQVNG 96 (146)
T ss_dssp TT-EEEEEECS-SCCCCHS--HHHHHHHHHHHHCCS-ECEEEEE--------TTCEEEEESSCHHHHHHH-HGCCSEETT
T ss_pred CCceEEEEecCCCccccCcCCHHHHHHHHHHHHhCCceEEEEEe--------CCeEEEEECccHHHHHHH-ccCCcEECC
Confidence 35577776554 12222 3677788899999988888 345899999999999999 689999999
Q ss_pred eEEEEEEeecCCC
Q 028371 107 RELTVVFAEENRK 119 (210)
Q Consensus 107 ~~i~v~~a~~~~~ 119 (210)
+.|+|.+..+...
T Consensus 97 ~~l~i~LKtpdW~ 109 (146)
T PF08952_consen 97 RTLKIRLKTPDWL 109 (146)
T ss_dssp EEEEEEE------
T ss_pred EEEEEEeCCccHH
Confidence 9999998876654
No 118
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=97.94 E-value=1.1e-05 Score=67.39 Aligned_cols=81 Identities=20% Similarity=0.270 Sum_probs=67.3
Q ss_pred CCCCCeEEEecCCCCCCHHHHHHHhccCCc-eEE--EEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEE
Q 028371 34 RDLPTSLLVRNLRHDCRPEDLRGPFGQFGR-LKD--IYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELT 110 (210)
Q Consensus 34 ~~~~~~l~V~nL~~~~te~~l~~~f~~~G~-i~~--v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~ 110 (210)
.....+|-+.+||+.++.++|.+||..|.. |.. |.|+.+. .|.+.|-|||+|.+.++|..|....+++....+.|.
T Consensus 277 ~~~kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~-qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk~RYiE 355 (508)
T KOG1365|consen 277 TRSKDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNG-QGRPSGEAFIQMRNAERARAAAQKCHKKLMKSRYIE 355 (508)
T ss_pred CCCCCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcC-CCCcChhhhhhhhhhHHHHHHHHHHHHhhcccceEE
Confidence 344668999999999999999999998863 333 6777664 788899999999999999999999898888888888
Q ss_pred EEEee
Q 028371 111 VVFAE 115 (210)
Q Consensus 111 v~~a~ 115 (210)
|-.+.
T Consensus 356 vfp~S 360 (508)
T KOG1365|consen 356 VFPCS 360 (508)
T ss_pred Eeecc
Confidence 86653
No 119
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.89 E-value=7.7e-05 Score=64.68 Aligned_cols=66 Identities=21% Similarity=0.405 Sum_probs=49.4
Q ss_pred CCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCC---CCCcce---EEEEEecCHHHHHHHHHhhC
Q 028371 34 RDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYY---TGEPRG---FGFVQYIDPADAADAKYHMD 100 (210)
Q Consensus 34 ~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~---~g~~~g---~afV~f~~~~~a~~Ai~~l~ 100 (210)
..-..+||||+||++++|++|...|..||.|. |.++.... --.++| |+|+.|+++..++..|.++.
T Consensus 256 ~~~S~KVFvGGlp~dise~~i~~~F~~FGs~~-VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC~ 327 (520)
T KOG0129|consen 256 PRYSRKVFVGGLPWDITEAQINASFGQFGSVK-VDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSACS 327 (520)
T ss_pred cccccceeecCCCccccHHHHHhhcccccceE-eecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHHh
Confidence 34467999999999999999999999999764 44442111 112355 99999999988887776544
No 120
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.82 E-value=2e-05 Score=72.17 Aligned_cols=83 Identities=27% Similarity=0.338 Sum_probs=72.1
Q ss_pred CCCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcC--eEEE
Q 028371 33 GRDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLG--RELT 110 (210)
Q Consensus 33 ~~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g--~~i~ 110 (210)
...+.+.+||++|..++....|..+|..||.|..|.+-.. .-||||.|++...|+.|++.|-|..|.+ +.|.
T Consensus 451 kst~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~hg------q~yayi~yes~~~aq~a~~~~rgap~G~P~~r~r 524 (975)
T KOG0112|consen 451 KSTPTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRHG------QPYAYIQYESPPAAQAATHDMRGAPLGGPPRRLR 524 (975)
T ss_pred ccccceeeccCCCCCCChHHHHHHHhhccCcceeeecccC------CcceeeecccCccchhhHHHHhcCcCCCCCcccc
Confidence 4566788999999999999999999999999999887633 6799999999999999999999999987 6799
Q ss_pred EEEeecCCCCc
Q 028371 111 VVFAEENRKKP 121 (210)
Q Consensus 111 v~~a~~~~~~~ 121 (210)
|.||......+
T Consensus 525 vdla~~~~~~P 535 (975)
T KOG0112|consen 525 VDLASPPGATP 535 (975)
T ss_pred cccccCCCCCh
Confidence 99997654433
No 121
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=97.77 E-value=7.4e-05 Score=60.58 Aligned_cols=66 Identities=15% Similarity=0.219 Sum_probs=53.9
Q ss_pred HHHHHHHhccCCceEEEEEecCCCCCCc-ceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEeec
Q 028371 51 PEDLRGPFGQFGRLKDIYLPRDYYTGEP-RGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEE 116 (210)
Q Consensus 51 e~~l~~~f~~~G~i~~v~i~~~~~~g~~-~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~~ 116 (210)
++++++.+++||+|..|.|...+..... .--.||+|+..+.|.+|+-.|||..|+|+.+..+|-+-
T Consensus 300 ede~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fyn~ 366 (378)
T KOG1996|consen 300 EDETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFYNL 366 (378)
T ss_pred HHHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeeheeccH
Confidence 4678888999999999887766433222 33479999999999999999999999999999888653
No 122
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=97.55 E-value=7.2e-05 Score=63.48 Aligned_cols=74 Identities=24% Similarity=0.355 Sum_probs=60.1
Q ss_pred CeEEEecCCCCCCHHHHHHHhccC--CceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCe-eEcCeEEEEEEe
Q 028371 38 TSLLVRNLRHDCRPEDLRGPFGQF--GRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGY-LLLGRELTVVFA 114 (210)
Q Consensus 38 ~~l~V~nL~~~~te~~l~~~f~~~--G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~-~i~g~~i~v~~a 114 (210)
.+|||+||.+.++..+|..+|... +.-..+.|. .|||||.+.+...|..|++.|+|. ++.|+.+.|++.
T Consensus 2 nklyignL~p~~~psdl~svfg~ak~~~~g~fl~k--------~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~s 73 (584)
T KOG2193|consen 2 NKLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLVK--------SGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHS 73 (584)
T ss_pred CcccccccCCCCChHHHHHHhccccCCCCcceeee--------cceeeccCCchhhhhhhHHhhchhhhhcCceeeccch
Confidence 479999999999999999999754 222223232 689999999999999999999995 689999999988
Q ss_pred ecCCC
Q 028371 115 EENRK 119 (210)
Q Consensus 115 ~~~~~ 119 (210)
-++..
T Consensus 74 v~kkq 78 (584)
T KOG2193|consen 74 VPKKQ 78 (584)
T ss_pred hhHHH
Confidence 66543
No 123
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=97.53 E-value=5.9e-05 Score=67.51 Aligned_cols=80 Identities=21% Similarity=0.082 Sum_probs=65.7
Q ss_pred CCCCCeEEEecCCCCCCHHHHHHHhccCCceEE-EEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEE
Q 028371 34 RDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKD-IYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVV 112 (210)
Q Consensus 34 ~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~-v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~ 112 (210)
...+.+|||..||..+++.++.++|...-.|+. |.|..-+ ++...+.|||+|..++++..|+..-+.+.+..+.|.|.
T Consensus 431 ~~ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~P-~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~r~irv~ 509 (944)
T KOG4307|consen 431 GGAGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRLP-TDLLRPAAFVAFIHPTAPLTASSVKTKFYPGHRIIRVD 509 (944)
T ss_pred CCccceEEeccCCccccccchhhhhhhhhhhhheeEeccCC-cccccchhhheeccccccchhhhcccccccCceEEEee
Confidence 456889999999999999999999998777776 6665554 67778999999999999888886666666777888886
Q ss_pred Ee
Q 028371 113 FA 114 (210)
Q Consensus 113 ~a 114 (210)
-.
T Consensus 510 si 511 (944)
T KOG4307|consen 510 SI 511 (944)
T ss_pred ch
Confidence 54
No 124
>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=97.48 E-value=0.0005 Score=52.84 Aligned_cols=82 Identities=13% Similarity=0.192 Sum_probs=51.7
Q ss_pred CCCCeEEEecCCCCCCHHHHHHHhcc-CCce---EEEEEecCC--CCCCcceEEEEEecCHHHHHHHHHhhCCeeEcC--
Q 028371 35 DLPTSLLVRNLRHDCRPEDLRGPFGQ-FGRL---KDIYLPRDY--YTGEPRGFGFVQYIDPADAADAKYHMDGYLLLG-- 106 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te~~l~~~f~~-~G~i---~~v~i~~~~--~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g-- 106 (210)
...++|.|.+||+.+||+++.+.+.. ++.. ..+...... .......-|||.|.+.+++...+..++|+.|.+
T Consensus 5 ~~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~D~k 84 (176)
T PF03467_consen 5 KEGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFVDSK 84 (176)
T ss_dssp ----EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE-TT
T ss_pred ccCceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEECCC
Confidence 45679999999999999999987776 6654 233311211 112235679999999999999999999987643
Q ss_pred ---eEEEEEEeec
Q 028371 107 ---RELTVVFAEE 116 (210)
Q Consensus 107 ---~~i~v~~a~~ 116 (210)
....|++|.-
T Consensus 85 g~~~~~~VE~Apy 97 (176)
T PF03467_consen 85 GNEYPAVVEFAPY 97 (176)
T ss_dssp S-EEEEEEEE-SS
T ss_pred CCCcceeEEEcch
Confidence 3456777754
No 125
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=97.47 E-value=5.4e-05 Score=69.07 Aligned_cols=81 Identities=20% Similarity=0.194 Sum_probs=72.2
Q ss_pred CCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEeec
Q 028371 37 PTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEE 116 (210)
Q Consensus 37 ~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~~ 116 (210)
...|||.|+|+..|.++|+.+|.++|.+..+.++..+ .|+++|.|||.|.++.+|..++..++...+....+.|++.++
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 4579999999999999999999999999999877665 899999999999999999999988888888888888888666
Q ss_pred CC
Q 028371 117 NR 118 (210)
Q Consensus 117 ~~ 118 (210)
..
T Consensus 815 ~~ 816 (881)
T KOG0128|consen 815 ER 816 (881)
T ss_pred cc
Confidence 43
No 126
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=97.43 E-value=0.00045 Score=58.09 Aligned_cols=70 Identities=23% Similarity=0.237 Sum_probs=51.4
Q ss_pred eEEEecCCCCCCHHHHHHHhccC----CceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEE
Q 028371 39 SLLVRNLRHDCRPEDLRGPFGQF----GRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELT 110 (210)
Q Consensus 39 ~l~V~nL~~~~te~~l~~~f~~~----G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~ 110 (210)
.|-+.+||+++++.||.+||..- |.++.|.++..+ +|...|-|||.|..+++|+.||.. |...|+-+.|.
T Consensus 163 ivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rp-dgrpTGdAFvlfa~ee~aq~aL~k-hrq~iGqRYIE 236 (508)
T KOG1365|consen 163 IVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRP-DGRPTGDAFVLFACEEDAQFALRK-HRQNIGQRYIE 236 (508)
T ss_pred EEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECC-CCCcccceEEEecCHHHHHHHHHH-HHHHHhHHHHH
Confidence 34456999999999999999632 244556555443 788899999999999999999954 44444444333
No 127
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=97.39 E-value=0.0011 Score=41.63 Aligned_cols=56 Identities=20% Similarity=0.248 Sum_probs=44.5
Q ss_pred CCCeEEEecCCCCCCHHHHHHHhccC---CceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhh
Q 028371 36 LPTSLLVRNLRHDCRPEDLRGPFGQF---GRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHM 99 (210)
Q Consensus 36 ~~~~l~V~nL~~~~te~~l~~~f~~~---G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l 99 (210)
.+.+|+|.||. +++.++|+.+|..| .....|.++-|. -|-|.|.+.+.|..||.+|
T Consensus 4 rpeavhirGvd-~lsT~dI~~y~~~y~~~~~~~~IEWIdDt-------ScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 4 RPEAVHIRGVD-ELSTDDIKAYFSEYFDEEGPFRIEWIDDT-------SCNVVFKDEETAARALVAL 62 (62)
T ss_pred eeceEEEEcCC-CCCHHHHHHHHHHhcccCCCceEEEecCC-------cEEEEECCHHHHHHHHHcC
Confidence 46789999996 57788999999988 134577777553 4789999999999999765
No 128
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=97.27 E-value=0.00038 Score=60.96 Aligned_cols=56 Identities=18% Similarity=0.307 Sum_probs=44.4
Q ss_pred CCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEc----CeEEEEEEeec
Q 028371 61 FGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLL----GRELTVVFAEE 116 (210)
Q Consensus 61 ~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~----g~~i~v~~a~~ 116 (210)
.|.-..+.++.|..+.++.|||||.|.+.+++..+.+++||+.|+ .+.+.|.||.-
T Consensus 413 ~gtYDFlYLPiDF~nkcNvGYAFINm~sp~ai~~F~kAFnGk~W~~FnS~Kia~itYArI 472 (549)
T KOG4660|consen 413 KGTYDFLYLPIDFKNKCNVGYAFINMTSPEAIIRFYKAFNGKKWEKFNSEKIASITYARI 472 (549)
T ss_pred cCccceEEeccccccccccceeEEeecCHHHHHHHHHHHcCCchhhhcceeeeeeehhhh
Confidence 445556778888888899999999999999999999999998753 24455666643
No 129
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=97.19 E-value=0.00013 Score=60.22 Aligned_cols=81 Identities=23% Similarity=0.336 Sum_probs=60.1
Q ss_pred CCeEEEecCCCCCCHH-HHH--HHhccCCceEEEEEecCCC--C-CCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEE
Q 028371 37 PTSLLVRNLRHDCRPE-DLR--GPFGQFGRLKDIYLPRDYY--T-GEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELT 110 (210)
Q Consensus 37 ~~~l~V~nL~~~~te~-~l~--~~f~~~G~i~~v~i~~~~~--~-g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~ 110 (210)
..-+||-+|+..+..+ .|+ +.|.+||.|..|.+..+.. . .....-+||+|+..++|..||...+|+.++|+.|+
T Consensus 77 knlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~~lk 156 (327)
T KOG2068|consen 77 KNLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGRALK 156 (327)
T ss_pred hhhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHhhhhhhH
Confidence 3557888888776544 343 3688999999998877652 1 11223389999999999999999999999999887
Q ss_pred EEEeecC
Q 028371 111 VVFAEEN 117 (210)
Q Consensus 111 v~~a~~~ 117 (210)
+.+...+
T Consensus 157 a~~gttk 163 (327)
T KOG2068|consen 157 ASLGTTK 163 (327)
T ss_pred HhhCCCc
Confidence 7776543
No 130
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.17 E-value=6.8e-05 Score=68.81 Aligned_cols=80 Identities=15% Similarity=0.297 Sum_probs=65.6
Q ss_pred CCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEE
Q 028371 34 RDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 113 (210)
Q Consensus 34 ~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~ 113 (210)
...+.|||++||+..+++.+|...|..+|.|..|.|.... -+....||||.|.+.+.+..|+..|.+..|....+++.+
T Consensus 369 ~~atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~-~~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r~gl 447 (975)
T KOG0112|consen 369 FRATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPH-IKTESAYAFVSLLNTDMTPSAKFEESGPLIGNGTHRIGL 447 (975)
T ss_pred hhhhhhhhhcCcccchhhhhhhhhhhhhccccccccccCC-CCcccchhhhhhhccccCcccchhhcCCccccCcccccc
Confidence 3457899999999999999999999999999999987664 334467999999999999999988888777554444444
Q ss_pred e
Q 028371 114 A 114 (210)
Q Consensus 114 a 114 (210)
.
T Consensus 448 G 448 (975)
T KOG0112|consen 448 G 448 (975)
T ss_pred c
Confidence 3
No 131
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=97.14 E-value=2.5e-05 Score=71.20 Aligned_cols=68 Identities=22% Similarity=0.325 Sum_probs=58.5
Q ss_pred CeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEc
Q 028371 38 TSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLL 105 (210)
Q Consensus 38 ~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~ 105 (210)
.++||.||+..+.+.+|...|..+|.|..+.+.....++..+|+|||+|...+++.+||....+..+.
T Consensus 668 ~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~g 735 (881)
T KOG0128|consen 668 IKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFG 735 (881)
T ss_pred HHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhhhhhh
Confidence 57899999999999999999999998888877766678899999999999999999999655544443
No 132
>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=97.11 E-value=0.0017 Score=42.47 Aligned_cols=67 Identities=19% Similarity=0.289 Sum_probs=41.0
Q ss_pred eEEEe-cCCCCCCHHHHHHHhccCC-----ceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEE
Q 028371 39 SLLVR-NLRHDCRPEDLRGPFGQFG-----RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVV 112 (210)
Q Consensus 39 ~l~V~-nL~~~~te~~l~~~f~~~G-----~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~ 112 (210)
+|||. +--..++..+|..+|...+ .|-.|.|. ..|+||+.. .+.|+.++..|++..+.|+.|.|+
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 RLFINVGRKDGLTPRDIVGAICNEAGIPGRDIGRIDIF--------DNFSFVEVP-EEVAEKVLEALNGKKIKGKKVRVE 72 (74)
T ss_dssp EEEES-SGGGT--HHHHHHHHHTCTTB-GGGEEEEEE---------SS-EEEEE--TT-HHHHHHHHTT--SSS----EE
T ss_pred EEEEEcccccCCCHHHHHHHHHhccCCCHHhEEEEEEe--------eeEEEEEEC-HHHHHHHHHHhcCCCCCCeeEEEE
Confidence 56663 3345688899999997765 45577776 458999985 457888999999999999999998
Q ss_pred Ee
Q 028371 113 FA 114 (210)
Q Consensus 113 ~a 114 (210)
.|
T Consensus 73 ~A 74 (74)
T PF03880_consen 73 RA 74 (74)
T ss_dssp E-
T ss_pred EC
Confidence 75
No 133
>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=97.04 E-value=0.0035 Score=41.67 Aligned_cols=55 Identities=15% Similarity=0.244 Sum_probs=40.6
Q ss_pred CeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCC
Q 028371 38 TSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDG 101 (210)
Q Consensus 38 ~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g 101 (210)
..+||+ +|.++...||.++|..||.|. |.++.+ .-|||.+.+.+.|..|+..+.-
T Consensus 10 HVFhlt-FPkeWK~~DI~qlFspfG~I~-VsWi~d-------TSAfV~l~~r~~~~~v~~~~~~ 64 (87)
T PF08675_consen 10 HVFHLT-FPKEWKTSDIYQLFSPFGQIY-VSWIND-------TSAFVALHNRDQAKVVMNTLKK 64 (87)
T ss_dssp CEEEEE---TT--HHHHHHHCCCCCCEE-EEEECT-------TEEEEEECCCHHHHHHHHHHTT
T ss_pred eEEEEe-CchHhhhhhHHHHhccCCcEE-EEEEcC-------CcEEEEeecHHHHHHHHHHhcc
Confidence 345554 999999999999999999976 444433 3699999999999999988764
No 134
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=96.86 E-value=0.0012 Score=52.80 Aligned_cols=74 Identities=24% Similarity=0.308 Sum_probs=59.2
Q ss_pred CeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCe----eEcCeEEEEE
Q 028371 38 TSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGY----LLLGRELTVV 112 (210)
Q Consensus 38 ~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~----~i~g~~i~v~ 112 (210)
..|||.||...+..+.|...|..||+|....++.|. .++..+-++|+|...-.|.+|+..+.-. ++.+.++-|.
T Consensus 32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~-r~k~t~eg~v~~~~k~~a~~a~rr~~~~g~~~~~~~~p~~Ve 109 (275)
T KOG0115|consen 32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDD-RGKPTREGIVEFAKKPNARKAARRCREGGFGGTTGGRPVGVE 109 (275)
T ss_pred ceEEEEecchhhhhHHHHHhhhhcCccchheeeecc-cccccccchhhhhcchhHHHHHHHhccCccccCCCCCccCCC
Confidence 789999999999999999999999999876666554 6788899999999999999998776432 3344444443
No 135
>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=96.84 E-value=0.017 Score=40.84 Aligned_cols=67 Identities=15% Similarity=0.029 Sum_probs=48.7
Q ss_pred CeEEEecCCCCCCHHHHHHHhccCC-ceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcC
Q 028371 38 TSLLVRNLRHDCRPEDLRGPFGQFG-RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLG 106 (210)
Q Consensus 38 ~~l~V~nL~~~~te~~l~~~f~~~G-~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g 106 (210)
..+.+...|+.++.++|..+...+- .|..+.|+.+. ..++-.++|+|.+.++|....+.+||..|+.
T Consensus 14 ~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~--~pnrymVLikF~~~~~Ad~Fy~~fNGk~Fns 81 (110)
T PF07576_consen 14 TLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDG--TPNRYMVLIKFRDQESADEFYEEFNGKPFNS 81 (110)
T ss_pred eEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCC--CCceEEEEEEECCHHHHHHHHHHhCCCccCC
Confidence 3444555566666677766666553 56788888763 2356678999999999999999999987754
No 136
>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=96.78 E-value=0.0043 Score=47.95 Aligned_cols=62 Identities=18% Similarity=0.213 Sum_probs=46.7
Q ss_pred CHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhC--CeeEcCeEEEEEEeecC
Q 028371 50 RPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMD--GYLLLGRELTVVFAEEN 117 (210)
Q Consensus 50 te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~--g~~i~g~~i~v~~a~~~ 117 (210)
..+.|+++|..|+.+..+.+... -+-..|.|.+.++|+.|...|+ +..|.|..|+|.|+...
T Consensus 8 ~~~~l~~l~~~~~~~~~~~~L~s------FrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~~ 71 (184)
T PF04847_consen 8 NLAELEELFSTYDPPVQFSPLKS------FRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQPT 71 (184)
T ss_dssp -HHHHHHHHHTT-SS-EEEEETT------TTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----S
T ss_pred hHHHHHHHHHhcCCceEEEEcCC------CCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEcccc
Confidence 46889999999998888877643 5678999999999999999999 89999999999998543
No 137
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=96.73 E-value=0.002 Score=56.67 Aligned_cols=69 Identities=10% Similarity=0.146 Sum_probs=53.4
Q ss_pred CCCeEEEecCCCCCCHHHHHHHhcc--CCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCC--eeEcCeEEEE
Q 028371 36 LPTSLLVRNLRHDCRPEDLRGPFGQ--FGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDG--YLLLGRELTV 111 (210)
Q Consensus 36 ~~~~l~V~nL~~~~te~~l~~~f~~--~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g--~~i~g~~i~v 111 (210)
.-+.|+|.-||..+.+++|+.||.. +-++..|.+..+. -=||+|++..||+.|.+.|.. .+|-|++|..
T Consensus 174 kRcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~-------nWyITfesd~DAQqAykylreevk~fqgKpImA 246 (684)
T KOG2591|consen 174 KRCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHND-------NWYITFESDTDAQQAYKYLREEVKTFQGKPIMA 246 (684)
T ss_pred ceeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecC-------ceEEEeecchhHHHHHHHHHHHHHhhcCcchhh
Confidence 3466778899999999999999964 6678888776542 359999999999999887764 3466666543
No 138
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=96.69 E-value=0.00081 Score=60.09 Aligned_cols=73 Identities=12% Similarity=0.106 Sum_probs=63.4
Q ss_pred CCCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEE
Q 028371 33 GRDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVV 112 (210)
Q Consensus 33 ~~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~ 112 (210)
..++..+|||+||...+..+.++.++..+|.|..+... -|+|++|..+..+..|+..|+-..++|+.|.+.
T Consensus 36 ~~~~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~---------~fgf~~f~~~~~~~ra~r~~t~~~~~~~kl~~~ 106 (668)
T KOG2253|consen 36 PLPPRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRD---------KFGFCEFLKHIGDLRASRLLTELNIDDQKLIEN 106 (668)
T ss_pred CCCCCceeEecchhhhhhHHHHHHHHhhCCcchhhhhh---------hhcccchhhHHHHHHHHHHhcccCCCcchhhcc
Confidence 34567899999999999999999999999998776554 299999999999999999999999999888776
Q ss_pred Ee
Q 028371 113 FA 114 (210)
Q Consensus 113 ~a 114 (210)
..
T Consensus 107 ~d 108 (668)
T KOG2253|consen 107 VD 108 (668)
T ss_pred ch
Confidence 63
No 139
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=96.59 E-value=0.0021 Score=55.52 Aligned_cols=73 Identities=21% Similarity=0.299 Sum_probs=59.2
Q ss_pred CCeEEEecCCCCC-CHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEee
Q 028371 37 PTSLLVRNLRHDC-RPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAE 115 (210)
Q Consensus 37 ~~~l~V~nL~~~~-te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~ 115 (210)
.+.|-|.-++..+ +-++|...|.+||+|..|.+-.. .-.|.|+|.+..+|-.|. +.++..|+++.|+|.|-+
T Consensus 372 hs~l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~------~~~a~vTF~t~aeag~a~-~s~~avlnnr~iKl~whn 444 (526)
T KOG2135|consen 372 HSPLALEKSPFGLNTIADLNPHFAQFGEIENIQVDYS------SLHAVVTFKTRAEAGEAY-ASHGAVLNNRFIKLFWHN 444 (526)
T ss_pred cchhhhhccCCCCchHhhhhhhhhhcCccccccccCc------hhhheeeeeccccccchh-ccccceecCceeEEEEec
Confidence 4455555556554 46899999999999999987644 457999999999997777 579999999999999987
Q ss_pred c
Q 028371 116 E 116 (210)
Q Consensus 116 ~ 116 (210)
+
T Consensus 445 p 445 (526)
T KOG2135|consen 445 P 445 (526)
T ss_pred C
Confidence 6
No 140
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=96.34 E-value=0.018 Score=42.25 Aligned_cols=74 Identities=19% Similarity=0.275 Sum_probs=54.7
Q ss_pred CCCCCeEEEecCCCCCC-HHH---HHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEE
Q 028371 34 RDLPTSLLVRNLRHDCR-PED---LRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGREL 109 (210)
Q Consensus 34 ~~~~~~l~V~nL~~~~t-e~~---l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i 109 (210)
..+..||.|.=|..++. .+| |...+..||+|..|.+. .+.-|.|.|.+...|=.|+.+++. ...|..+
T Consensus 83 epPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~c-------GrqsavVvF~d~~SAC~Av~Af~s-~~pgtm~ 154 (166)
T PF15023_consen 83 EPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLC-------GRQSAVVVFKDITSACKAVSAFQS-RAPGTMF 154 (166)
T ss_pred CCCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeec-------CCceEEEEehhhHHHHHHHHhhcC-CCCCceE
Confidence 34566888887766654 334 44556789999999775 256799999999999999988775 5667778
Q ss_pred EEEEee
Q 028371 110 TVVFAE 115 (210)
Q Consensus 110 ~v~~a~ 115 (210)
.+.|-.
T Consensus 155 qCsWqq 160 (166)
T PF15023_consen 155 QCSWQQ 160 (166)
T ss_pred Eeeccc
Confidence 877753
No 141
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=96.33 E-value=0.021 Score=46.79 Aligned_cols=70 Identities=16% Similarity=0.148 Sum_probs=51.6
Q ss_pred CCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEE-EEEEe
Q 028371 37 PTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGREL-TVVFA 114 (210)
Q Consensus 37 ~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i-~v~~a 114 (210)
.+=|-|.++++... .-|..+|.+||+|+..... ..-.+-+|.|.+..+|++||. .||..|+|..| =|+.+
T Consensus 197 D~WVTVfGFppg~~-s~vL~~F~~cG~Vvkhv~~------~ngNwMhirYssr~~A~KALs-kng~ii~g~vmiGVkpC 267 (350)
T KOG4285|consen 197 DTWVTVFGFPPGQV-SIVLNLFSRCGEVVKHVTP------SNGNWMHIRYSSRTHAQKALS-KNGTIIDGDVMIGVKPC 267 (350)
T ss_pred cceEEEeccCccch-hHHHHHHHhhCeeeeeecC------CCCceEEEEecchhHHHHhhh-hcCeeeccceEEeeeec
Confidence 34455668876543 4567789999999876554 225689999999999999994 59999988654 34443
No 142
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=95.80 E-value=0.0049 Score=56.72 Aligned_cols=70 Identities=19% Similarity=0.211 Sum_probs=57.8
Q ss_pred ecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCee--EcCeEEEEEEeecCC
Q 028371 43 RNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYL--LLGRELTVVFAEENR 118 (210)
Q Consensus 43 ~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~--i~g~~i~v~~a~~~~ 118 (210)
.|.+-.++-.-|..+|.+||.|..++...+ ...|.|+|...+.|..|+++|+|.+ +-|-+.+|.+|+...
T Consensus 304 ~nn~v~~tSssL~~l~s~yg~v~s~wtlr~------~N~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~~ak~~~ 375 (1007)
T KOG4574|consen 304 ENNAVNLTSSSLATLCSDYGSVASAWTLRD------LNMALVSFSSVESAILALDALQGKEVSVTGAPSRVSFAKTLP 375 (1007)
T ss_pred hcccccchHHHHHHHHHhhcchhhheeccc------ccchhhhhHHHHHHHHhhhhhcCCcccccCCceeEEeccccc
Confidence 334445566788899999999999998866 5789999999999999999999976 467888999887543
No 143
>PF11767 SET_assoc: Histone lysine methyltransferase SET associated; InterPro: IPR024636 The SET domain is a protein-protein interaction domain found in protein lysine methyltransferase enzymes. This entry represents a domain of unknown function which is associated with the SET domain and found in histone lysine methyltransferases [].
Probab=95.64 E-value=0.077 Score=33.86 Aligned_cols=55 Identities=18% Similarity=0.314 Sum_probs=43.3
Q ss_pred CCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEE
Q 028371 48 DCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTV 111 (210)
Q Consensus 48 ~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v 111 (210)
.++.++|+..|..|+- ..| ..++ .| -||.|.+..+|+++....++..+.+..|.+
T Consensus 11 ~~~v~d~K~~Lr~y~~-~~I--~~d~-----tG-fYIvF~~~~Ea~rC~~~~~~~~~f~y~m~M 65 (66)
T PF11767_consen 11 GVTVEDFKKRLRKYRW-DRI--RDDR-----TG-FYIVFNDSKEAERCFRAEDGTLFFTYRMQM 65 (66)
T ss_pred CccHHHHHHHHhcCCc-ceE--EecC-----CE-EEEEECChHHHHHHHHhcCCCEEEEEEEEe
Confidence 4678999999999963 333 3332 33 489999999999999999999988887765
No 144
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=95.50 E-value=0.041 Score=47.54 Aligned_cols=68 Identities=22% Similarity=0.197 Sum_probs=56.7
Q ss_pred CCeEEEecCCCCCCHHHHHHHhccCC-ceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcC
Q 028371 37 PTSLLVRNLRHDCRPEDLRGPFGQFG-RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLG 106 (210)
Q Consensus 37 ~~~l~V~nL~~~~te~~l~~~f~~~G-~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g 106 (210)
.+.|+|-.+|..++-.||..|+..+- .|..|.|+++. -.+.-.++|+|.+.++|....+.+||..|+.
T Consensus 74 ~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~--~pnrymvLIkFr~q~da~~Fy~efNGk~Fn~ 142 (493)
T KOG0804|consen 74 STMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDG--MPNRYMVLIKFRDQADADTFYEEFNGKQFNS 142 (493)
T ss_pred CcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecC--CCceEEEEEEeccchhHHHHHHHcCCCcCCC
Confidence 78899999999999999999988654 67889888753 1224567999999999999999999988754
No 145
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=95.40 E-value=0.0071 Score=50.04 Aligned_cols=80 Identities=11% Similarity=-0.019 Sum_probs=63.0
Q ss_pred CCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEee
Q 028371 36 LPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAE 115 (210)
Q Consensus 36 ~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~ 115 (210)
..+++||+++.+.+.+.++..+|..+|.+..+.+.........+++++|.|+..+.+..|+.......+.+..+...+.+
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 46789999999999999899999999987776666555577889999999999999999996544456666555544443
No 146
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=95.33 E-value=0.018 Score=43.78 Aligned_cols=77 Identities=23% Similarity=0.349 Sum_probs=58.2
Q ss_pred CCCCeEEEecCCCCCCH-----HHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCe-E
Q 028371 35 DLPTSLLVRNLRHDCRP-----EDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGR-E 108 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te-----~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~-~ 108 (210)
+.+++|++++|+.++.. .....+|-+|-+...+.+... .++.-|.|.+.+.|..|...++...|.|. .
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 67888999999877543 233445666666655555532 56778899999999999999999999998 8
Q ss_pred EEEEEeecC
Q 028371 109 LTVVFAEEN 117 (210)
Q Consensus 109 i~v~~a~~~ 117 (210)
|++-++...
T Consensus 82 ~k~yfaQ~~ 90 (193)
T KOG4019|consen 82 LKLYFAQPG 90 (193)
T ss_pred EEEEEccCC
Confidence 888888654
No 147
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.94 E-value=0.15 Score=45.48 Aligned_cols=79 Identities=18% Similarity=0.172 Sum_probs=59.0
Q ss_pred CCCCeEEEecCCCC-CCHHHHHHHhccC----CceEEEEEecCC----------CCC-----------------------
Q 028371 35 DLPTSLLVRNLRHD-CRPEDLRGPFGQF----GRLKDIYLPRDY----------YTG----------------------- 76 (210)
Q Consensus 35 ~~~~~l~V~nL~~~-~te~~l~~~f~~~----G~i~~v~i~~~~----------~~g----------------------- 76 (210)
..+..|-|.||.|. |...+|.-+|..| |.|..|.|.... ..|
T Consensus 172 ~~T~RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsilSV~IYpSeFGkeRM~eEeV~GP~~el~~~~e~~~~s~sD~ee~~ 251 (650)
T KOG2318|consen 172 EETKRLAVVNMDWDRVKAKDLFVLFNSFLPKGGSILSVKIYPSEFGKERMKEEEVHGPPKELFKPVEEYKESESDDEEEE 251 (650)
T ss_pred cccceeeEeccccccccHHHHHHHHHhhcCCCCceeEEEechhhhhHHHhhhhcccCChhhhccccccCcccccchhhhh
Confidence 45678999999998 7788999998765 478877765321 111
Q ss_pred --------------CcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEE
Q 028371 77 --------------EPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 113 (210)
Q Consensus 77 --------------~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~ 113 (210)
...-||.|+|.+.+.|..+.+.|+|.+|....+.+.+
T Consensus 252 ~~~~~kLR~Yq~~rLkYYyAVvecDsi~tA~~vYe~CDG~EfEsS~~~~DL 302 (650)
T KOG2318|consen 252 DVDREKLRQYQLNRLKYYYAVVECDSIETAKAVYEECDGIEFESSANKLDL 302 (650)
T ss_pred hHHHHHHHHHHhhhheeEEEEEEecCchHHHHHHHhcCcceeccccceeee
Confidence 1245799999999999999999999998765444443
No 148
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=94.28 E-value=0.15 Score=41.63 Aligned_cols=62 Identities=18% Similarity=0.201 Sum_probs=44.4
Q ss_pred CCCCCCeEEEecCCCCCCHHHHHHHhccCCce-EEEEEecCCCCCCcceEEEEEecCH-------HHHHHHHHhhC
Q 028371 33 GRDLPTSLLVRNLRHDCRPEDLRGPFGQFGRL-KDIYLPRDYYTGEPRGFGFVQYIDP-------ADAADAKYHMD 100 (210)
Q Consensus 33 ~~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i-~~v~i~~~~~~g~~~g~afV~f~~~-------~~a~~Ai~~l~ 100 (210)
+....+-|+|+||+.++...||+..+.+.+.+ ..|.+. .+.+-||+.|.+. +++.++++.||
T Consensus 326 ~a~~~~di~~~nl~rd~rv~dlk~~lr~~~~~pm~iswk------g~~~k~flh~~~~~~~~~~~~~~~~~~~s~~ 395 (396)
T KOG4410|consen 326 EAGAKTDIKLTNLSRDIRVKDLKSELRKRECTPMSISWK------GHFGKCFLHFGNRKGVPSTQDDMDKVLKSLN 395 (396)
T ss_pred cCccccceeeccCccccchHHHHHHHHhcCCCceeEeee------cCCcceeEecCCccCCCCCchHHHHHhccCC
Confidence 34455679999999999999999999887754 334443 3378899999764 45555555544
No 149
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=92.88 E-value=2.4 Score=33.28 Aligned_cols=66 Identities=17% Similarity=-0.018 Sum_probs=41.2
Q ss_pred EEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHH--hhCCeeEc
Q 028371 40 LLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKY--HMDGYLLL 105 (210)
Q Consensus 40 l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~--~l~g~~i~ 105 (210)
.-|++-...-+.--|.+-+...|.|---.-....+.-...-+-|-.=.+.++|++||+ .|+|.+|-
T Consensus 19 dNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelr 86 (256)
T KOG4207|consen 19 DNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELR 86 (256)
T ss_pred cceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceee
Confidence 3344444444556677778888876533222222233334556777789999999986 58998873
No 150
>smart00596 PRE_C2HC PRE_C2HC domain.
Probab=92.04 E-value=0.2 Score=32.08 Aligned_cols=61 Identities=16% Similarity=0.139 Sum_probs=45.4
Q ss_pred HHHHHHhccCC-ceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEee
Q 028371 52 EDLRGPFGQFG-RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAE 115 (210)
Q Consensus 52 ~~l~~~f~~~G-~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~ 115 (210)
.+|++.|..+| .+..|..+....+..+...-||+.....+... .|+=..|+|+.|.|+-..
T Consensus 2 ~~I~~~L~~~G~~v~~i~~m~~~~~r~P~nmf~vel~~~~~~~~---Il~ik~Lg~~~V~VEr~~ 63 (69)
T smart00596 2 SQIEEALKDIGFPVLFIHNMLNRDTKNPQNMFEVELVPAANGKE---ILNIKTLGGQRVTVERPH 63 (69)
T ss_pred HHHHHHHHHcCCceeEEEcccccCCCCcceeEEEEeeecCCCcc---eEeehhhCCeeEEEecCc
Confidence 46788888888 77888888777778888888999876544333 455567889998887654
No 151
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=92.00 E-value=0.005 Score=52.58 Aligned_cols=76 Identities=18% Similarity=0.220 Sum_probs=62.2
Q ss_pred CCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEee
Q 028371 37 PTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAE 115 (210)
Q Consensus 37 ~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~ 115 (210)
..++.|.|+|+...++-|..|+.+||.|+.|..+. +..-....-|+|...+.+..||..|+|..|....++|.|-.
T Consensus 80 srk~Qirnippql~wevld~Ll~qyg~ve~~eqvn---t~~etavvnvty~~~~~~~~ai~kl~g~Q~en~~~k~~YiP 155 (584)
T KOG2193|consen 80 SRKIQIRNIPPQLQWEVLDSLLAQYGTVENCEQVN---TDSETAVVNVTYSAQQQHRQAIHKLNGPQLENQHLKVGYIP 155 (584)
T ss_pred hhhhhHhcCCHHHHHHHHHHHHhccCCHhHhhhhc---cchHHHHHHHHHHHHHHHHHHHHhhcchHhhhhhhhcccCc
Confidence 45688999999999999999999999999885532 11123344578899999999999999999999999998864
No 152
>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=91.92 E-value=0.34 Score=31.11 Aligned_cols=62 Identities=16% Similarity=0.172 Sum_probs=44.7
Q ss_pred HHHHHHhccCC-ceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEeec
Q 028371 52 EDLRGPFGQFG-RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEE 116 (210)
Q Consensus 52 ~~l~~~f~~~G-~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~~ 116 (210)
++|.+.|...| .|..|.-+....++.+....||+++...+.. +.|+=..|++..|+|+....
T Consensus 2 ~~I~~~L~~~G~~v~~i~~~~~~~~k~pl~mf~veL~p~~~~k---~i~~Ik~l~~~~V~vE~~~k 64 (68)
T PF07530_consen 2 EEIKEELKDQGHPVRNIHNMHSRNTKKPLNMFFVELEPKPNNK---EIYKIKTLCGQRVKVERPRK 64 (68)
T ss_pred HHHHHHHHHcCCceEEEEccccCCCCCCceEEEEeeccCcccc---ceeehHhhCCeEEEEecCCC
Confidence 46777787777 6778877777767788888999987654433 34455678888888887643
No 153
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=90.97 E-value=0.6 Score=40.02 Aligned_cols=58 Identities=24% Similarity=0.299 Sum_probs=46.8
Q ss_pred CCCCCeEEEecCCCCCCHHHHHHHhccCCc-eEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHh
Q 028371 34 RDLPTSLLVRNLRHDCRPEDLRGPFGQFGR-LKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYH 98 (210)
Q Consensus 34 ~~~~~~l~V~nL~~~~te~~l~~~f~~~G~-i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~ 98 (210)
.+....|-|-++|.....+||..+|+.|+. -..|+|+.+ .+||..|.....|..||-.
T Consensus 388 ~dlpHVlEIydfp~efkteDll~~f~~yq~kgfdIkWvDd-------thalaVFss~~~AaeaLt~ 446 (528)
T KOG4483|consen 388 SDLPHVLEIYDFPDEFKTEDLLKAFETYQNKGFDIKWVDD-------THALAVFSSVNRAAEALTL 446 (528)
T ss_pred ccccceeEeccCchhhccHHHHHHHHHhhcCCceeEEeec-------ceeEEeecchHHHHHHhhc
Confidence 456778889999999999999999999974 345666644 4899999999999999843
No 154
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=90.03 E-value=8.2 Score=35.74 Aligned_cols=70 Identities=9% Similarity=0.145 Sum_probs=52.6
Q ss_pred CeEEEe-cCCCCCCHHHHHHHhccCCce-----EEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEE
Q 028371 38 TSLLVR-NLRHDCRPEDLRGPFGQFGRL-----KDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTV 111 (210)
Q Consensus 38 ~~l~V~-nL~~~~te~~l~~~f~~~G~i-----~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v 111 (210)
..+||. +-...++..+|..++..-+.| -.|.|. ..|.||+.. ...|..+++.|++..+.|+.|.|
T Consensus 487 ~~~~~~~g~~~~~~~~~~~~~i~~~~~~~~~~ig~i~i~--------~~~s~v~~~-~~~~~~~~~~~~~~~~~~~~~~~ 557 (629)
T PRK11634 487 QLYRIEVGRDDGVEVRHIVGAIANEGDISSRYIGNIKLF--------ASHSTIELP-KGMPGEVLQHFTRTRILNKPMNM 557 (629)
T ss_pred EEEEEecccccCCCHHHHHHHHHhhcCCChhhCCcEEEe--------CCceEEEcC-hhhHHHHHHHhccccccCCceEE
Confidence 445553 335568888888888766544 356665 558999985 56788899999999999999999
Q ss_pred EEeec
Q 028371 112 VFAEE 116 (210)
Q Consensus 112 ~~a~~ 116 (210)
+.+..
T Consensus 558 ~~~~~ 562 (629)
T PRK11634 558 QLLGD 562 (629)
T ss_pred EECCC
Confidence 98753
No 155
>KOG1295 consensus Nonsense-mediated decay protein Upf3 [RNA processing and modification]
Probab=87.75 E-value=0.86 Score=38.82 Aligned_cols=70 Identities=16% Similarity=0.365 Sum_probs=50.1
Q ss_pred CCCCeEEEecCCCCCCHHHHHHHhccCC-ceEEEEEecCCCC--CCcceEEEEEecCHHHHHHHHHhhCCeeE
Q 028371 35 DLPTSLLVRNLRHDCRPEDLRGPFGQFG-RLKDIYLPRDYYT--GEPRGFGFVQYIDPADAADAKYHMDGYLL 104 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te~~l~~~f~~~G-~i~~v~i~~~~~~--g~~~g~afV~f~~~~~a~~Ai~~l~g~~i 104 (210)
....+|.|.+||+.+++.+|.+-+..|- .|....+...... ..-.+.|||.|...+++......++|++|
T Consensus 5 ~~~~Kvv~rrlpp~l~~~~~~eqi~p~~~~v~~~~F~~a~~s~~~~~ysrayinFk~~~dv~ef~~~f~g~if 77 (376)
T KOG1295|consen 5 EAKVKVVVRRLPPKLTEEQLLEQINPFPEHVNWEFFAKADESLRNHKYSRAYINFKNPEDVEEFRRRFDGYIF 77 (376)
T ss_pred ccceeeeeecCCCcccHHHHhhhcCCCccccchheeccccccchhhhhhhhhhccccHHHHHHHHhhCCceEE
Confidence 4567899999999999999988887763 2333333321100 12256789999999999988888998765
No 156
>KOG4365 consensus Uncharacterized conserved protein [Function unknown]
Probab=87.43 E-value=0.081 Score=45.67 Aligned_cols=79 Identities=3% Similarity=-0.195 Sum_probs=62.0
Q ss_pred CCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEeec
Q 028371 37 PTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEE 116 (210)
Q Consensus 37 ~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~~ 116 (210)
.+..|+..|+..+++.+|.-+|+.||.|..+.+......+.....+||+.. ..+|..+|+.|.-+.+.|..+.|.++..
T Consensus 3 s~~~~l~d~~~~~~~~~~~~~~~d~~~i~~~d~~~~~~~~~~~v~~f~~~~-~~~~~~~i~~~k~q~~~~~~~r~~~~~~ 81 (572)
T KOG4365|consen 3 SMKKSLKDSVASNNKDQNSMKHEDPSIISMEDGSPYVNGSLGEVTPFQHAK-KANGPNYIQPQKRQTTFESQDRKAVSPS 81 (572)
T ss_pred chhhhHhhcccccccchhhhhccCCcceeeccCCccccCCcceeeeeeeee-ccCcccccCHHHHhhhhhhhhhhhcCch
Confidence 345778899999999999999999999998888766656666777888775 3566777777666777888888877753
No 157
>KOG2295 consensus C2H2 Zn-finger protein [General function prediction only]
Probab=86.22 E-value=0.086 Score=46.71 Aligned_cols=71 Identities=15% Similarity=0.136 Sum_probs=54.0
Q ss_pred CCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCe
Q 028371 37 PTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGR 107 (210)
Q Consensus 37 ~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~ 107 (210)
.++|||.|++++++-++|+.++..+-.+..+.+-.+.......-+.+|+|.--.....|+.+||+..+...
T Consensus 231 e~sll~rni~Pnis~aeIe~~ck~i~~~lrfals~~~aek~~~r~lwv~fk~~~ni~~a~~aLn~irl~s~ 301 (648)
T KOG2295|consen 231 ECSLLVRNILPNISVAEIENLCKGIPGFLRFALSTINAEKNFERRLWVTFKRGTNIKEACWALNGIRLRSN 301 (648)
T ss_pred HHHHHHhccCCcccHHHHHHHhccCchheeeeccCchHHHHHHHHhhHhhccccchHHHHHHhhhcccccc
Confidence 46789999999999999999999887666665544332334456789999877777888888888766443
No 158
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=84.56 E-value=1.4 Score=34.76 Aligned_cols=64 Identities=23% Similarity=0.237 Sum_probs=44.6
Q ss_pred CCCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHH
Q 028371 33 GRDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAK 96 (210)
Q Consensus 33 ~~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai 96 (210)
.......+++.+++..++..++..+|..+|.+..+.+...........+.++.+.....+..++
T Consensus 221 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 284 (306)
T COG0724 221 LLEKSDNLYVGNLPLKTAEEELADLFKSRGDIVRASLPPSKDGKIPKSRSFVGNEASKDALESN 284 (306)
T ss_pred cccccceeeccccccccchhHHHHhccccccceeeeccCCCCCcccccccccchhHHHhhhhhh
Confidence 3456788999999999999999999999999977776655433334444444444444444443
No 159
>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=84.06 E-value=4.4 Score=26.62 Aligned_cols=57 Identities=9% Similarity=0.127 Sum_probs=40.1
Q ss_pred eEEEecCCCCCCHHHHHHHhcc-CC-ceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHh
Q 028371 39 SLLVRNLRHDCRPEDLRGPFGQ-FG-RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYH 98 (210)
Q Consensus 39 ~l~V~nL~~~~te~~l~~~f~~-~G-~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~ 98 (210)
.-|+..++..++..+|+..++. |+ .|..|..+.-+ ...--|||++...+.|..+-..
T Consensus 15 n~y~F~V~~~anK~eIK~avE~lf~VkV~~Vnt~~~~---~~~KKA~VtL~~g~~a~~va~k 73 (77)
T TIGR03636 15 NKLTFIVDRKATKGDIKRAVEKLFDVKVEKVNTLITP---RGEKKAYVKLAEEYAAEEIASR 73 (77)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcC---CCceEEEEEECCCCcHHHHHHh
Confidence 4677788999999999999887 44 45565444332 2245699999887777766543
No 160
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=84.04 E-value=4.2 Score=27.24 Aligned_cols=57 Identities=11% Similarity=0.159 Sum_probs=40.4
Q ss_pred eEEEecCCCCCCHHHHHHHhcc-CC-ceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHh
Q 028371 39 SLLVRNLRHDCRPEDLRGPFGQ-FG-RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYH 98 (210)
Q Consensus 39 ~l~V~nL~~~~te~~l~~~f~~-~G-~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~ 98 (210)
..|+.-++..++..+|++.++. || .|..|..+.-+ ...--|||.|...++|..+...
T Consensus 22 n~y~F~V~~~anK~eIK~AvE~lf~VkV~~VnT~~~~---~~~KKA~V~L~~g~~A~~va~k 80 (84)
T PRK14548 22 NKLTFIVDRRATKPDIKRAVEELFDVKVEKVNTLITP---KGEKKAYVKLAEEYDAEEIASR 80 (84)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcC---CCcEEEEEEeCCCCcHHHHHHh
Confidence 4566678889999999999987 44 55666544332 2245699999988888776544
No 161
>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=83.93 E-value=2.5 Score=30.13 Aligned_cols=55 Identities=18% Similarity=0.237 Sum_probs=28.1
Q ss_pred eEEEecCCCC---------CCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecC-HHHHHHHH
Q 028371 39 SLLVRNLRHD---------CRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYID-PADAADAK 96 (210)
Q Consensus 39 ~l~V~nL~~~---------~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~-~~~a~~Ai 96 (210)
+++|-|++.. ++.+.|.+.|..|..+. +..+.++ ..+.|+++|+|.. ..-...|+
T Consensus 10 mgIi~N~~~~~~~~g~~~g~~~~~l~~~l~~f~p~k-v~~l~~~--~gh~g~aiv~F~~~w~Gf~~A~ 74 (116)
T PF03468_consen 10 MGIIVNIPTEKDDDGRWVGMSNEELLDKLAEFNPLK-VKPLYGK--QGHTGFAIVEFNKDWSGFKNAM 74 (116)
T ss_dssp EEEEE----EE-TTS-EE---SHHHHHHHHH---SE-EEEEEET--TEEEEEEEEE--SSHHHHHHHH
T ss_pred EEEEEcCccccCCCCceeccCHHHHHHHHHhcCCce-eEECcCC--CCCcEEEEEEECCChHHHHHHH
Confidence 5677788554 34578999999898765 4333443 2458999999984 33334444
No 162
>PF10567 Nab6_mRNP_bdg: RNA-recognition motif; InterPro: IPR018885 This conserved domain is found in fungal proteins and appears to be involved in RNA-processing. It binds to poly-adenylated RNA, interacts genetically with mRNA 3'-end processing factors, co-purifies with the nuclear cap-binding protein Cbp20p, and is found in complexes containing other translation factors, such as EIF4G as in P39935 from SWISSPROT and P39936 from SWISSPROT.
Probab=83.37 E-value=3.2 Score=34.25 Aligned_cols=81 Identities=19% Similarity=0.245 Sum_probs=57.8
Q ss_pred CCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCC-------CCCCcceEEEEEecCHHHHHHHH----HhhCC--
Q 028371 35 DLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDY-------YTGEPRGFGFVQYIDPADAADAK----YHMDG-- 101 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~-------~~g~~~g~afV~f~~~~~a~~Ai----~~l~g-- 101 (210)
=....|.+.||..+++-..+...|-+||.|+.|.++.+. ...+......+-|-+.+.|.... +.|..
T Consensus 13 YrTRSLLfeNv~~sidLh~Fl~~fv~~~pIESiYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~CLdFYNnvLQrLsEfK 92 (309)
T PF10567_consen 13 YRTRSLLFENVNNSIDLHSFLTKFVKFGPIESIYLIKSNDKPSDDYNDDKNNQSILLSFLSREICLDFYNNVLQRLSEFK 92 (309)
T ss_pred ceeHHHHHhhccccccHHHHHHHhhccCceeEEEEecCCCcccccccccccceEEEEeeechHHHHHHHHHHHHHHHHHH
Confidence 345568889999999988888899999999999998764 12234567788999888876543 33332
Q ss_pred eeEcCeEEEEEEee
Q 028371 102 YLLLGRELTVVFAE 115 (210)
Q Consensus 102 ~~i~g~~i~v~~a~ 115 (210)
..+....|.|.|..
T Consensus 93 ~~L~S~~L~lsFV~ 106 (309)
T PF10567_consen 93 TKLKSESLTLSFVS 106 (309)
T ss_pred HhcCCcceeEEEEE
Confidence 24566667766654
No 163
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=83.17 E-value=0.24 Score=39.09 Aligned_cols=73 Identities=27% Similarity=0.385 Sum_probs=56.5
Q ss_pred CCCCeEEEec----CCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeE
Q 028371 35 DLPTSLLVRN----LRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRE 108 (210)
Q Consensus 35 ~~~~~l~V~n----L~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~ 108 (210)
+...+++.|+ |...++++.+...|...|.|..+.+..+. +|.+..++|+++.-....-.|+..+.+..+.-.+
T Consensus 78 e~q~~~r~G~shapld~r~~~ei~~~v~s~a~p~~~~R~~~~~-d~rnrn~~~~~~qr~~~~P~~~~~y~~l~~~~~~ 154 (267)
T KOG4454|consen 78 EEQRTLRCGNSHAPLDERVTEEILYEVFSQAGPIEGVRIPTDN-DGRNRNFGFVTYQRLCAVPFALDLYQGLELFQKK 154 (267)
T ss_pred hhhcccccCCCcchhhhhcchhhheeeecccCCCCCccccccc-cCCccCccchhhhhhhcCcHHhhhhcccCcCCCC
Confidence 4455677777 77788899999999999999988888776 4778889999998887777787776665544333
No 164
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=80.83 E-value=0.68 Score=37.89 Aligned_cols=69 Identities=26% Similarity=0.523 Sum_probs=43.1
Q ss_pred CCCeEEEecCCCC------------CCHHHHHHHhccCCceEEEEEec-CC----CCCCc-----ceEE---------EE
Q 028371 36 LPTSLLVRNLRHD------------CRPEDLRGPFGQFGRLKDIYLPR-DY----YTGEP-----RGFG---------FV 84 (210)
Q Consensus 36 ~~~~l~V~nL~~~------------~te~~l~~~f~~~G~i~~v~i~~-~~----~~g~~-----~g~a---------fV 84 (210)
.+.|||+.+||-. .+++-|...|+.||.|..|.|+. |+ -+|+. .||+ ||
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 3567787777632 35788999999999999887753 32 23333 3333 34
Q ss_pred EecCHHHHHHHHHhhCCeeE
Q 028371 85 QYIDPADAADAKYHMDGYLL 104 (210)
Q Consensus 85 ~f~~~~~a~~Ai~~l~g~~i 104 (210)
.|........|+..|.|..|
T Consensus 228 qfmeykgfa~amdalr~~k~ 247 (445)
T KOG2891|consen 228 QFMEYKGFAQAMDALRGMKL 247 (445)
T ss_pred HHHHHHhHHHHHHHHhcchH
Confidence 44444445567777777553
No 165
>COG5638 Uncharacterized conserved protein [Function unknown]
Probab=80.37 E-value=6.3 Score=34.16 Aligned_cols=72 Identities=21% Similarity=0.230 Sum_probs=52.0
Q ss_pred CCCCeEEEecCCCC-CCHHHHHHHhccC----CceEEEEEecCC------------------------------------
Q 028371 35 DLPTSLLVRNLRHD-CRPEDLRGPFGQF----GRLKDIYLPRDY------------------------------------ 73 (210)
Q Consensus 35 ~~~~~l~V~nL~~~-~te~~l~~~f~~~----G~i~~v~i~~~~------------------------------------ 73 (210)
.+...|-|-||.|. +...+|..+|..| |+|..|.|....
T Consensus 144 ~~tkrLAvVnmDWd~v~a~DLf~~fsSf~P~ggkl~kV~iypsefGkeRm~~e~vqGpprdif~~~d~~~ssqk~~~dn~ 223 (622)
T COG5638 144 NPTKRLAVVNMDWDRVDAKDLFKIFSSFLPYGGKLSKVKIYPSEFGKERMAAEHVQGPPRDIFTPADNQPSSQKFGDDNV 223 (622)
T ss_pred CcccceeEeecccccchHHHHHHHHHhhCCCCCccceeEechhhhhHHHHhHhhccCCchhhccccccCcchhccCCccc
Confidence 45677889999987 7778888888755 466666654211
Q ss_pred ----CCC-------------------------CcceEEEEEecCHHHHHHHHHhhCCeeEcC
Q 028371 74 ----YTG-------------------------EPRGFGFVQYIDPADAADAKYHMDGYLLLG 106 (210)
Q Consensus 74 ----~~g-------------------------~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g 106 (210)
..| .-.-||.|+|.+.+.++.+...++|..+..
T Consensus 224 ~sd~d~g~d~~~Egd~g~e~d~~~lrqyqlerlryYyAvvec~d~~tsK~iY~~CDG~Eye~ 285 (622)
T COG5638 224 FSDRDAGEDALIEGDRGNEFDMVKLRQYQLERLRYYYAVVECEDIETSKNIYSACDGVEYEN 285 (622)
T ss_pred hhhhhcchhhhhhcccccchhHHHHHHHHhhhheeEEEEEEeccchhhHHHHhccCcccccc
Confidence 000 013479999999999999999999988765
No 166
>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=77.48 E-value=11 Score=23.00 Aligned_cols=54 Identities=9% Similarity=0.099 Sum_probs=39.7
Q ss_pred eEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCH----HHHHHHHHh
Q 028371 39 SLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDP----ADAADAKYH 98 (210)
Q Consensus 39 ~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~----~~a~~Ai~~ 98 (210)
||.|.||.=......|+..+...-.|..+.+... .+-+-|+|... ++...+|+.
T Consensus 1 t~~v~~m~C~~C~~~v~~~l~~~~GV~~v~vd~~------~~~v~v~~~~~~~~~~~i~~~i~~ 58 (62)
T PF00403_consen 1 TFKVPGMTCEGCAKKVEKALSKLPGVKSVKVDLE------TKTVTVTYDPDKTSIEKIIEAIEK 58 (62)
T ss_dssp EEEEESTTSHHHHHHHHHHHHTSTTEEEEEEETT------TTEEEEEESTTTSCHHHHHHHHHH
T ss_pred CEEECCcccHHHHHHHHHHHhcCCCCcEEEEECC------CCEEEEEEecCCCCHHHHHHHHHH
Confidence 5778888777778899999999888888877654 45678888633 556666654
No 167
>KOG4008 consensus rRNA processing protein RRP7 [RNA processing and modification]
Probab=77.26 E-value=3.1 Score=33.29 Aligned_cols=34 Identities=18% Similarity=0.296 Sum_probs=28.6
Q ss_pred CCCCeEEEecCCCCCCHHHHHHHhccCCceEEEE
Q 028371 35 DLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIY 68 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~ 68 (210)
....+||+-|||..+|++.|..+..++|.+..+.
T Consensus 38 ~eKd~lfl~Nvp~~~tee~lkr~vsqlg~vq~~~ 71 (261)
T KOG4008|consen 38 NEKDCLFLVNVPLLSTEEHLKRFVSQLGHVQELL 71 (261)
T ss_pred ccccceeeecccccccHHHHHHHHHHhhhhhhee
Confidence 4567899999999999999999999998655443
No 168
>PRK10629 EnvZ/OmpR regulon moderator; Provisional
Probab=76.06 E-value=21 Score=25.83 Aligned_cols=71 Identities=17% Similarity=0.151 Sum_probs=48.1
Q ss_pred CCeEEEecCCCC---CCHHHHHHHhccCC-ceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEE
Q 028371 37 PTSLLVRNLRHD---CRPEDLRGPFGQFG-RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVV 112 (210)
Q Consensus 37 ~~~l~V~nL~~~---~te~~l~~~f~~~G-~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~ 112 (210)
...|.|.+.... .+...|.+++.+-| .++.+... .+-..|.|.+.++-..|.+.|....=++..|.+.
T Consensus 35 dpavQIs~~~~g~~~~~~~~v~~~L~~~gI~~ksi~~~--------~~~~~irf~~~~~Ql~Ak~vL~~~L~~~y~VAln 106 (127)
T PRK10629 35 ESTLAIRAVHQGASLPDGFYVYQHLDANGIHIKSITPE--------NDSLLIRFDSPEQSAAAKEVLDRTLPHGYIIAQQ 106 (127)
T ss_pred CceEEEecCCCCCccchHHHHHHHHHHCCCCcceEEee--------CCEEEEEECCHHHHHHHHHHHHHHcCCCCEEEEe
Confidence 345777766333 45678888887776 44555443 3467899999999888888877655555666666
Q ss_pred Eee
Q 028371 113 FAE 115 (210)
Q Consensus 113 ~a~ 115 (210)
.+.
T Consensus 107 l~p 109 (127)
T PRK10629 107 DDN 109 (127)
T ss_pred cCC
Confidence 654
No 169
>PRK11901 hypothetical protein; Reviewed
Probab=74.06 E-value=9.9 Score=31.98 Aligned_cols=63 Identities=14% Similarity=0.086 Sum_probs=40.0
Q ss_pred CCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEE--EEEecCHHHHHHHHHhhCCee
Q 028371 36 LPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFG--FVQYIDPADAADAKYHMDGYL 103 (210)
Q Consensus 36 ~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~a--fV~f~~~~~a~~Ai~~l~g~~ 103 (210)
...+|.|..+ ..++.|..|..+++ +..+++..-..+|+ .-|. |-.|.+.++|+.||..|-...
T Consensus 244 ~~YTLQL~Aa---s~~~~L~~f~~~~~-L~~~~VYqT~RnGk-pWYVVvyG~Y~Sr~eAk~Ai~sLPa~l 308 (327)
T PRK11901 244 SHYTLQLSSA---SRSDTLNAYAKKQN-LSHYHVYETKRDGK-PWYVLVSGNYASSAEAKRAIATLPAEV 308 (327)
T ss_pred CCeEEEeecC---CCHHHHHHHHHHcC-cCceEEEEEEECCc-eEEEEEecCcCCHHHHHHHHHhCCHHH
Confidence 3445555544 46888888887775 34444443333444 2344 347899999999999887543
No 170
>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=73.87 E-value=13 Score=24.63 Aligned_cols=37 Identities=16% Similarity=0.255 Sum_probs=25.5
Q ss_pred ceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeE
Q 028371 63 RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLL 104 (210)
Q Consensus 63 ~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i 104 (210)
.|..+..+.+ .+||-|||=.+..++..|+..+.+...
T Consensus 33 ~I~Si~~~~~-----lkGyIyVEA~~~~~V~~ai~gi~~i~~ 69 (84)
T PF03439_consen 33 NIYSIFAPDS-----LKGYIYVEAERESDVKEAIRGIRHIRG 69 (84)
T ss_dssp ---EEEE-TT-----STSEEEEEESSHHHHHHHHTT-TTEEE
T ss_pred ceEEEEEeCC-----CceEEEEEeCCHHHHHHHHhcccceee
Confidence 4555555433 499999999999999999988776543
No 171
>KOG3702 consensus Nuclear polyadenylated RNA binding protein [RNA processing and modification]
Probab=71.13 E-value=2.3 Score=38.85 Aligned_cols=72 Identities=15% Similarity=0.172 Sum_probs=55.1
Q ss_pred eEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEE
Q 028371 39 SLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTV 111 (210)
Q Consensus 39 ~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v 111 (210)
+||+.|.....+..-+..++..++.+....++.....+...+-||++|.....++.|. .|.+..+....|++
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 TIFVANGHGGSNPDSLSRHSEKKNELTKAKILTRCKYGPACTSAECEFAHPTAAENAK-SLPNKKFASKCLKS 584 (681)
T ss_pred ceecccccccCCCcchhhCcccccccccceeeccccCCCcCCchhhhhcCCcchhhhh-ccccccccccceec
Confidence 7888888888888888889999998887777766656666678999999988887665 66776665555443
No 172
>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=69.37 E-value=9.8 Score=25.58 Aligned_cols=50 Identities=16% Similarity=0.182 Sum_probs=31.7
Q ss_pred CCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEec
Q 028371 35 DLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYI 87 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~ 87 (210)
+...-|||++++..+-|.-.+.+.+..++-..+.+..+. ...||+|-++-
T Consensus 23 Ei~~GVyVg~~s~rVRe~lW~~v~~~~~~G~a~m~~~~~---neqG~~~~t~G 72 (86)
T PF09707_consen 23 EIRPGVYVGNVSARVRERLWERVTEWIGDGSAVMVWSDN---NEQGFDFRTLG 72 (86)
T ss_pred ecCCCcEEcCCCHHHHHHHHHHHHhhCCCccEEEEEccC---CCCCEEEEEeC
Confidence 456679999999888776555555544433333333222 25899998873
No 173
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=68.83 E-value=16 Score=30.79 Aligned_cols=6 Identities=0% Similarity=0.268 Sum_probs=2.2
Q ss_pred CHHHHH
Q 028371 50 RPEDLR 55 (210)
Q Consensus 50 te~~l~ 55 (210)
++.+|.
T Consensus 214 ~k~eid 219 (367)
T KOG0835|consen 214 TKREID 219 (367)
T ss_pred cHHHHH
Confidence 333333
No 174
>PRK08559 nusG transcription antitermination protein NusG; Validated
Probab=68.26 E-value=20 Score=26.69 Aligned_cols=35 Identities=14% Similarity=0.199 Sum_probs=27.2
Q ss_pred eEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCee
Q 028371 64 LKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYL 103 (210)
Q Consensus 64 i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~ 103 (210)
|..|.++.. ..||.||+....+++..++..+.+..
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 566666644 49999999998888888998887743
No 175
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=66.54 E-value=12 Score=23.43 Aligned_cols=20 Identities=25% Similarity=0.594 Sum_probs=16.5
Q ss_pred HHHHHHHhccCCceEEEEEe
Q 028371 51 PEDLRGPFGQFGRLKDIYLP 70 (210)
Q Consensus 51 e~~l~~~f~~~G~i~~v~i~ 70 (210)
.++|.++|+.+|+|.-+.+.
T Consensus 8 ~~~iR~~fs~lG~I~vLYvn 27 (62)
T PF15513_consen 8 TAEIRQFFSQLGEIAVLYVN 27 (62)
T ss_pred HHHHHHHHHhcCcEEEEEEc
Confidence 36899999999999877654
No 176
>PF14893 PNMA: PNMA
Probab=66.10 E-value=5.9 Score=33.56 Aligned_cols=78 Identities=18% Similarity=0.239 Sum_probs=43.7
Q ss_pred CCCCCeEEEecCCCCCCHHHHHHHhcc----CCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEE
Q 028371 34 RDLPTSLLVRNLRHDCRPEDLRGPFGQ----FGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGREL 109 (210)
Q Consensus 34 ~~~~~~l~V~nL~~~~te~~l~~~f~~----~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i 109 (210)
-++-..|.|.+||.++++++|++.+.. +|...-+.-+..+ ......|+|+|...-+-..+=..+. -.|..+
T Consensus 15 ~~~~r~lLv~giP~dc~~~ei~e~l~~~l~plg~yrvl~~~f~~--~~~~~aalve~~e~~n~~~iP~~i~---g~gg~W 89 (331)
T PF14893_consen 15 VDPQRALLVLGIPEDCEEAEIEEALQAALSPLGRYRVLGKMFRR--EENAKAALVEFAEDVNYSLIPREIP---GKGGPW 89 (331)
T ss_pred cChhhhheeecCCCCCCHHHHHHHHHHhhcccccceehhhHhhh--hcccceeeeecccccchhhCchhcC---CCCCce
Confidence 355667999999999999999988753 4432211111111 1225578999974333221111221 235677
Q ss_pred EEEEeec
Q 028371 110 TVVFAEE 116 (210)
Q Consensus 110 ~v~~a~~ 116 (210)
+|-+..+
T Consensus 90 ~Vv~~p~ 96 (331)
T PF14893_consen 90 RVVFKPP 96 (331)
T ss_pred EEEecCC
Confidence 7766543
No 177
>KOG4840 consensus Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]
Probab=65.47 E-value=8.4 Score=30.96 Aligned_cols=70 Identities=14% Similarity=0.042 Sum_probs=36.4
Q ss_pred CCeEEEecCCCCCCH----HHHHHHhccCC-ceEEEEEecCCCCCCcceEEEEEe-cCHHHHHHHHHhhCCeeEcCeEEE
Q 028371 37 PTSLLVRNLRHDCRP----EDLRGPFGQFG-RLKDIYLPRDYYTGEPRGFGFVQY-IDPADAADAKYHMDGYLLLGRELT 110 (210)
Q Consensus 37 ~~~l~V~nL~~~~te----~~l~~~f~~~G-~i~~v~i~~~~~~g~~~g~afV~f-~~~~~a~~Ai~~l~g~~i~g~~i~ 110 (210)
...||||+|-...-. +.|...+.+.+ .|..+.+-.. ..||+.... .+.++.+++|++|.+..+.-..+-
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 457999998665432 33333333322 3333333322 245554333 367788888886666544333333
Q ss_pred E
Q 028371 111 V 111 (210)
Q Consensus 111 v 111 (210)
|
T Consensus 112 ~ 112 (299)
T KOG4840|consen 112 V 112 (299)
T ss_pred E
Confidence 3
No 178
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=64.65 E-value=20 Score=22.82 Aligned_cols=55 Identities=11% Similarity=0.126 Sum_probs=39.4
Q ss_pred CCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecC----HHHHHHHHH
Q 028371 37 PTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYID----PADAADAKY 97 (210)
Q Consensus 37 ~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~----~~~a~~Ai~ 97 (210)
..+|+|.++.=.--...|...+.....|..+.+-.. .+-++|+|.+ .++...||+
T Consensus 3 ~~~l~v~~MtC~~C~~~V~~al~~v~gv~~v~v~l~------~~~~~V~~d~~~~~~~~i~~ai~ 61 (71)
T COG2608 3 KTTLKVEGMTCGHCVKTVEKALEEVDGVASVDVDLE------KGTATVTFDSNKVDIEAIIEAIE 61 (71)
T ss_pred eEEEEECCcCcHHHHHHHHHHHhcCCCeeEEEEEcc------cCeEEEEEcCCcCCHHHHHHHHH
Confidence 356777777766667889999998887888877755 5569999987 344444443
No 179
>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=63.90 E-value=37 Score=22.89 Aligned_cols=46 Identities=28% Similarity=0.330 Sum_probs=32.6
Q ss_pred HHHHHHHhccCC-ceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhC
Q 028371 51 PEDLRGPFGQFG-RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMD 100 (210)
Q Consensus 51 e~~l~~~f~~~G-~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~ 100 (210)
.+.+.++++.+| +|..+.+.. |..-.++.+++.+.+.|.++.-.+.
T Consensus 22 ~~a~~~~~e~~Gg~l~~~y~t~----G~yD~v~i~eaPD~~~a~~~~l~i~ 68 (91)
T PF08734_consen 22 AEAVRALIEALGGKLKSFYWTL----GEYDFVVIVEAPDDETAAAASLAIR 68 (91)
T ss_pred HHHHHHHHHHcCCEEEEEEEec----CCCCEEEEEEcCCHHHHHHHHHHHH
Confidence 456777887775 788887773 4445677889999888877664443
No 180
>KOG3580 consensus Tight junction proteins [Signal transduction mechanisms]
Probab=63.10 E-value=1.2e+02 Score=28.20 Aligned_cols=9 Identities=22% Similarity=0.582 Sum_probs=4.7
Q ss_pred CCeEEEecC
Q 028371 37 PTSLLVRNL 45 (210)
Q Consensus 37 ~~~l~V~nL 45 (210)
.+.|.|..+
T Consensus 39 etSiViSDV 47 (1027)
T KOG3580|consen 39 ETSIVISDV 47 (1027)
T ss_pred ceeEEEeec
Confidence 345666543
No 181
>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=62.93 E-value=34 Score=21.24 Aligned_cols=45 Identities=13% Similarity=0.087 Sum_probs=37.4
Q ss_pred CHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHh
Q 028371 50 RPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYH 98 (210)
Q Consensus 50 te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~ 98 (210)
..+++.+.+..+-.|..|..+ +|...-.+.|.+.+.++....+..
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 367788888899999999888 677777889999999999988443
No 182
>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=61.93 E-value=7.9 Score=32.34 Aligned_cols=33 Identities=21% Similarity=0.060 Sum_probs=24.3
Q ss_pred EEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEeec
Q 028371 82 GFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEE 116 (210)
Q Consensus 82 afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~~ 116 (210)
|||+|.+..+|+.|++.+.... ...+.|+.|.+
T Consensus 1 aFVtF~~~~~a~~~~q~~~~~~--~~~~~v~~APe 33 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLLLSKR--PNSWRVSPAPE 33 (325)
T ss_pred CEEEECCHHHHHHHHHHHhcCC--CCCceEeeCCC
Confidence 7999999999999998655443 34456666643
No 183
>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=60.63 E-value=4.8 Score=34.71 Aligned_cols=60 Identities=20% Similarity=0.191 Sum_probs=46.4
Q ss_pred CeEEEecCCCCCCH--------HHHHHHhcc--CCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHH
Q 028371 38 TSLLVRNLRHDCRP--------EDLRGPFGQ--FGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKY 97 (210)
Q Consensus 38 ~~l~V~nL~~~~te--------~~l~~~f~~--~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~ 97 (210)
..+|+.++..+... ++|..+|.. .+.+..|.+..+..+....|-.|++|...+.|+.++.
T Consensus 175 r~~y~n~fG~e~~~~a~~~e~~~d~~~~~p~h~h~~~~~i~~rrd~~nkn~~gSv~~efk~~~~~q~~nn 244 (438)
T COG5193 175 RDVYQNGFGKEDVNNASRPEQQEDLEIQFPPHYHAPPSQIRNRRDWLNKNFRGSVFVEFKYFREAQRFNN 244 (438)
T ss_pred hhHHhhcCCcccccccccchhhhhHHhhCCCcccCChhhccchhhhhhccccCcccccccChHHHHHHhc
Confidence 34666666655443 488999988 6677788877776677888999999999999998873
No 184
>smart00195 DSPc Dual specificity phosphatase, catalytic domain.
Probab=60.43 E-value=38 Score=24.10 Aligned_cols=28 Identities=7% Similarity=0.064 Sum_probs=17.1
Q ss_pred CeEEEecCCCCCCHHHHHHHhccCCceEEE
Q 028371 38 TSLLVRNLRHDCRPEDLRGPFGQFGRLKDI 67 (210)
Q Consensus 38 ~~l~V~nL~~~~te~~l~~~f~~~G~i~~v 67 (210)
..||||+++.....+.|++. .+..|..+
T Consensus 6 ~~l~~G~~~~~~~~~~l~~~--gi~~Vi~l 33 (138)
T smart00195 6 PHLYLGSYSSALNLALLKKL--GITHVINV 33 (138)
T ss_pred CCeEECChhHcCCHHHHHHc--CCCEEEEc
Confidence 45999999977665444432 33445444
No 185
>KOG4213 consensus RNA-binding protein La [RNA processing and modification]
Probab=59.43 E-value=13 Score=28.56 Aligned_cols=49 Identities=12% Similarity=0.033 Sum_probs=33.1
Q ss_pred CCHHHHHHHhccC-CceEEEEEecCCCCC--CcceEEEEEecCHHHHHHHHHh
Q 028371 49 CRPEDLRGPFGQF-GRLKDIYLPRDYYTG--EPRGFGFVQYIDPADAADAKYH 98 (210)
Q Consensus 49 ~te~~l~~~f~~~-G~i~~v~i~~~~~~g--~~~g~afV~f~~~~~a~~Ai~~ 98 (210)
.++++|..+.... |++..|.+-... .+ ..+|-.||+|.+.+.|.++++.
T Consensus 118 ~td~ql~~l~qw~~~k~~nv~mr~~~-~k~~~fkGsvkv~f~tk~qa~a~~~~ 169 (205)
T KOG4213|consen 118 ITDDQLDDLNQWASGKGHNVKMRRHG-NKAHPFKGSVKVTFQTKEQAFANDDT 169 (205)
T ss_pred CCHHHHHHHHHHhcccceEeeccccC-CCCCCCCCceEEEeecHHHHHhhhhh
Confidence 4555555554322 688888775432 22 4578899999999999887754
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=58.99 E-value=20 Score=24.21 Aligned_cols=33 Identities=9% Similarity=0.001 Sum_probs=22.5
Q ss_pred EEEEecCHHHHHHHHHhh-CCeeEcCeEEEEEEe
Q 028371 82 GFVQYIDPADAADAKYHM-DGYLLLGRELTVVFA 114 (210)
Q Consensus 82 afV~f~~~~~a~~Ai~~l-~g~~i~g~~i~v~~a 114 (210)
|+|+|.+..-|+..++.- +...+++..+.|...
T Consensus 1 AlITF~e~~VA~~i~~~~~~~v~l~~~~~~V~v~ 34 (88)
T PF07292_consen 1 ALITFEEEGVAQRILKKKKHPVPLEDCCVRVKVS 34 (88)
T ss_pred CEEEeCcHHHHHHHHhCCEEEEEECCEEEEEEEE
Confidence 689999999999988542 223466666555543
No 187
>KOG2888 consensus Putative RNA binding protein [General function prediction only]
Probab=57.36 E-value=7.3 Score=32.82 Aligned_cols=10 Identities=20% Similarity=0.381 Sum_probs=4.1
Q ss_pred HHHHHHhccC
Q 028371 52 EDLRGPFGQF 61 (210)
Q Consensus 52 ~~l~~~f~~~ 61 (210)
.+|+.+|+.|
T Consensus 172 ~dLw~WyEpy 181 (453)
T KOG2888|consen 172 ADLWDWYEPY 181 (453)
T ss_pred hHHHHHhhhh
Confidence 3444444433
No 188
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=57.01 E-value=89 Score=24.11 Aligned_cols=10 Identities=30% Similarity=0.162 Sum_probs=5.4
Q ss_pred CHHHHHHHHH
Q 028371 88 DPADAADAKY 97 (210)
Q Consensus 88 ~~~~a~~Ai~ 97 (210)
+.++|..+|.
T Consensus 59 DA~DAvr~LD 68 (195)
T KOG0107|consen 59 DAEDAVRYLD 68 (195)
T ss_pred cHHHHHhhcC
Confidence 4555555554
No 189
>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A.
Probab=56.65 E-value=46 Score=21.29 Aligned_cols=64 Identities=13% Similarity=0.061 Sum_probs=39.5
Q ss_pred CeEEEecCCCCCCHHHHHHHhccCC-ceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCC
Q 028371 38 TSLLVRNLRHDCRPEDLRGPFGQFG-RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDG 101 (210)
Q Consensus 38 ~~l~V~nL~~~~te~~l~~~f~~~G-~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g 101 (210)
.+|.|......-.-.+|...|...| .|..+.+......+......-|+..+.++....+..|..
T Consensus 7 ~~l~i~~~dr~GlL~dI~~~i~~~~~nI~~i~~~~~~~~~~~~~~l~v~V~d~~~L~~ii~~L~~ 71 (80)
T PF13291_consen 7 VRLRIEAEDRPGLLADITSVISENGVNIRSINARTNKDDGTARITLTVEVKDLEHLNQIIRKLRQ 71 (80)
T ss_dssp EEEEEEEE--TTHHHHHHHHHHCSSSEEEEEEEEE--ETTEEEEEEEEEESSHHHHHHHHHHHCT
T ss_pred EEEEEEEEcCCCHHHHHHHHHHHCCCCeEEEEeEEeccCCEEEEEEEEEECCHHHHHHHHHHHHC
Confidence 3455555555445678888888775 677777765422334444445666788888888877765
No 190
>PRK11230 glycolate oxidase subunit GlcD; Provisional
Probab=56.51 E-value=47 Score=29.85 Aligned_cols=50 Identities=12% Similarity=-0.032 Sum_probs=34.9
Q ss_pred CHHHHHHHhc----cCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhC
Q 028371 50 RPEDLRGPFG----QFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMD 100 (210)
Q Consensus 50 te~~l~~~f~----~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~ 100 (210)
+.-+|..+|. .+|-|.++.|...+.. ......++.|.+.++|..|+..|.
T Consensus 202 ~g~dl~~l~~Gs~GtlGIIt~atlkl~p~p-~~~~~~~~~f~~~~~a~~~~~~~~ 255 (499)
T PRK11230 202 PGFDLLALFTGSEGMLGVVTEVTVKLLPKP-PVARVLLASFDSVEKAGLAVGDII 255 (499)
T ss_pred CccchHhhhccCCCccEEEEEEEEEEEcCC-cceEEEEEECCCHHHHHHHHHHHH
Confidence 3456777765 5777888777655432 234567889999999999887754
No 191
>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=56.24 E-value=50 Score=21.02 Aligned_cols=51 Identities=14% Similarity=0.029 Sum_probs=28.7
Q ss_pred CHHHHHHHhccCCceEEEEEecCCCCCC-cceEEEEEec-CHHHHHHHHHhhCC
Q 028371 50 RPEDLRGPFGQFGRLKDIYLPRDYYTGE-PRGFGFVQYI-DPADAADAKYHMDG 101 (210)
Q Consensus 50 te~~l~~~f~~~G~i~~v~i~~~~~~g~-~~g~afV~f~-~~~~a~~Ai~~l~g 101 (210)
.-.+|...|..+| |.-..|..-+..+. ..-+-||+|+ ..+..+.|++.|..
T Consensus 13 ~L~~vL~~f~~~~-iNlt~IeSRP~~~~~~~y~Ffvd~~~~~~~~~~~l~~L~~ 65 (74)
T cd04904 13 ALARALKLFEEFG-VNLTHIESRPSRRNGSEYEFFVDCEVDRGDLDQLISSLRR 65 (74)
T ss_pred HHHHHHHHHHHCC-CcEEEEECCCCCCCCceEEEEEEEEcChHHHHHHHHHHHH
Confidence 3567777888876 33333333332222 2334578877 55566777777654
No 192
>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=55.62 E-value=43 Score=21.44 Aligned_cols=44 Identities=14% Similarity=0.102 Sum_probs=28.0
Q ss_pred HHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhC
Q 028371 52 EDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMD 100 (210)
Q Consensus 52 ~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~ 100 (210)
.+|.+++..+| +....|.- + ..-++.|+.|.+.+.++.+++.|.
T Consensus 37 ~~~~~~~~~~G-a~~~~~sG---s-G~G~~v~~l~~~~~~~~~v~~~l~ 80 (85)
T PF08544_consen 37 DELKEAAEENG-ALGAKMSG---S-GGGPTVFALCKDEDDAERVAEALR 80 (85)
T ss_dssp HHHHHHHHHTT-ESEEEEET---T-SSSSEEEEEESSHHHHHHHHHHHH
T ss_pred HHHHHHHHHCC-CCceecCC---C-CCCCeEEEEECCHHHHHHHHHHHH
Confidence 46677777888 44444431 1 114567888888888888877653
No 193
>PRK11558 putative ssRNA endonuclease; Provisional
Probab=54.82 E-value=20 Score=24.66 Aligned_cols=51 Identities=10% Similarity=0.077 Sum_probs=29.2
Q ss_pred CCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecC
Q 028371 35 DLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYID 88 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~ 88 (210)
+..+-||||+++..+-+.--+.+-+.++.-..+.+..+ ....||+|.++.+
T Consensus 25 Ev~~GVyVg~~S~rVRd~lW~~v~~~~~~G~avmv~~~---~~eqG~~~~t~G~ 75 (97)
T PRK11558 25 EVRAGVYVGDVSRRIREMIWQQVTQLAEEGNVVMAWAT---NTESGFEFQTFGE 75 (97)
T ss_pred ecCCCcEEcCCCHHHHHHHHHHHHHhCCCCcEEEEEcC---CCCCCcEEEecCC
Confidence 44567999999888765543333343433222222222 2335999988864
No 194
>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=52.52 E-value=9.4 Score=25.79 Aligned_cols=22 Identities=23% Similarity=0.360 Sum_probs=19.0
Q ss_pred CCeEEEecCCCCCCHHHHHHHh
Q 028371 37 PTSLLVRNLRHDCRPEDLRGPF 58 (210)
Q Consensus 37 ~~~l~V~nL~~~~te~~l~~~f 58 (210)
..+|.|.|||..+.+++|++.+
T Consensus 52 ~rtVlvsgip~~l~ee~l~D~L 73 (88)
T PF07292_consen 52 KRTVLVSGIPDVLDEEELRDKL 73 (88)
T ss_pred CCEEEEeCCCCCCChhhheeeE
Confidence 5689999999999999998654
No 195
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=52.34 E-value=24 Score=28.87 Aligned_cols=32 Identities=19% Similarity=0.067 Sum_probs=24.2
Q ss_pred CeEEEecCCCCCCHHHHHHHhccCCceEEEEE
Q 028371 38 TSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYL 69 (210)
Q Consensus 38 ~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i 69 (210)
....|+|||++++-.-|..++...-.+..+.+
T Consensus 96 ~~~vVaNlPY~Isspii~kll~~~~~~~~~v~ 127 (259)
T COG0030 96 PYKVVANLPYNISSPILFKLLEEKFIIQDMVL 127 (259)
T ss_pred CCEEEEcCCCcccHHHHHHHHhccCccceEEE
Confidence 46779999999999999999877655433333
No 196
>PF08156 NOP5NT: NOP5NT (NUC127) domain; InterPro: IPR012974 This N-terminal domain is found in RNA-binding proteins of the NOP5 family [].
Probab=51.85 E-value=4.9 Score=25.61 Aligned_cols=39 Identities=13% Similarity=0.280 Sum_probs=27.3
Q ss_pred HHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhC
Q 028371 52 EDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMD 100 (210)
Q Consensus 52 ~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~ 100 (210)
++|++.|..+.....+. +-.+|..|.+.++|..++..+.
T Consensus 27 ~~v~~~~~~~~~f~k~v----------kL~aF~pF~s~~~ALe~~~ais 65 (67)
T PF08156_consen 27 EEVQKSFSDPEKFSKIV----------KLKAFSPFKSAEEALENANAIS 65 (67)
T ss_pred HHHHHHHcCHHHHhhhh----------hhhhccCCCCHHHHHHHHHHhh
Confidence 68888887765444332 2358999999999888876653
No 197
>cd00027 BRCT Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo/hetero BRCT multimers, BRCT-non-BRCT interactions, and interactions within DNA strand breaks.
Probab=51.51 E-value=48 Score=19.62 Aligned_cols=27 Identities=7% Similarity=0.165 Sum_probs=21.9
Q ss_pred CeEEEecCCCCCCHHHHHHHhccCCce
Q 028371 38 TSLLVRNLRHDCRPEDLRGPFGQFGRL 64 (210)
Q Consensus 38 ~~l~V~nL~~~~te~~l~~~f~~~G~i 64 (210)
..++|.+.....+.++|++++..+|..
T Consensus 2 ~~~~i~g~~~~~~~~~l~~~i~~~Gg~ 28 (72)
T cd00027 2 LTFVITGDLPSEERDELKELIEKLGGK 28 (72)
T ss_pred CEEEEEecCCCcCHHHHHHHHHHcCCE
Confidence 467888876678899999999998863
No 198
>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=51.50 E-value=55 Score=23.87 Aligned_cols=26 Identities=12% Similarity=0.114 Sum_probs=21.1
Q ss_pred CcceEEEEEecCHHHHHHHHHhhCCe
Q 028371 77 EPRGFGFVQYIDPADAADAKYHMDGY 102 (210)
Q Consensus 77 ~~~g~afV~f~~~~~a~~Ai~~l~g~ 102 (210)
..+||.||++...++...++..+.|.
T Consensus 36 ~fpGYvFV~~~~~~~~~~~i~~~~gv 61 (145)
T TIGR00405 36 SLKGYILVEAETKIDMRNPIIGVPHV 61 (145)
T ss_pred CCCcEEEEEEECcHHHHHHHhCCCCE
Confidence 35999999999877778888777774
No 199
>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=50.29 E-value=19 Score=23.06 Aligned_cols=25 Identities=12% Similarity=0.177 Sum_probs=20.3
Q ss_pred eEEEEEecCHHHHHHHHHhhCCeeE
Q 028371 80 GFGFVQYIDPADAADAKYHMDGYLL 104 (210)
Q Consensus 80 g~afV~f~~~~~a~~Ai~~l~g~~i 104 (210)
.+.+|.|.+..+|.+|-+.|....|
T Consensus 2 ~~~~i~F~st~~a~~~ek~lk~~gi 26 (73)
T PF11823_consen 2 KYYLITFPSTHDAMKAEKLLKKNGI 26 (73)
T ss_pred ceEEEEECCHHHHHHHHHHHHHCCC
Confidence 3689999999999999888776544
No 200
>PTZ00191 60S ribosomal protein L23a; Provisional
Probab=50.20 E-value=45 Score=24.72 Aligned_cols=55 Identities=9% Similarity=0.141 Sum_probs=35.5
Q ss_pred eEEEecCCCCCCHHHHHHHhcc-CC-ceEEEEEecCCCCCCcceEEEEEecCHHHHHHHH
Q 028371 39 SLLVRNLRHDCRPEDLRGPFGQ-FG-RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAK 96 (210)
Q Consensus 39 ~l~V~nL~~~~te~~l~~~f~~-~G-~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai 96 (210)
..|+.-++..++..+|++.++. |+ .|..|..+.-+ ...--|||.+....+|....
T Consensus 83 N~yvF~Vd~kAnK~qIK~AVEklf~VkV~kVNTli~p---~g~KKA~V~L~~~~~aidva 139 (145)
T PTZ00191 83 NTLVFIVDQRANKTQIKKAVEKLYDVKVVKVNTLITP---DGLKKAYIRLSPDVDALDVA 139 (145)
T ss_pred CEEEEEEcCCCCHHHHHHHHHHHhCCeeEEEEeEEcC---CCceEEEEEECCCCcHHHHH
Confidence 4666678888999999988886 44 45555443322 12346899997666654443
No 201
>KOG0156 consensus Cytochrome P450 CYP2 subfamily [Secondary metabolites biosynthesis, transport and catabolism]
Probab=50.09 E-value=26 Score=31.47 Aligned_cols=59 Identities=14% Similarity=0.104 Sum_probs=42.4
Q ss_pred EEecCCCCCC---HHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEE
Q 028371 41 LVRNLRHDCR---PEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGREL 109 (210)
Q Consensus 41 ~V~nL~~~~t---e~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i 109 (210)
+||||+.-.. ...+..+-++||.|-.++|-. .-.|...+.+.|++|+.. ++..+.+++.
T Consensus 36 iIGnl~~l~~~~~h~~~~~ls~~yGpi~tl~lG~---------~~~Vviss~~~akE~l~~-~d~~fa~Rp~ 97 (489)
T KOG0156|consen 36 IIGNLHQLGSLPPHRSFRKLSKKYGPVFTLRLGS---------VPVVVISSYEAAKEVLVK-QDLEFADRPD 97 (489)
T ss_pred ccccHHHcCCCchhHHHHHHHHHhCCeEEEEecC---------ceEEEECCHHHHHHHHHh-CCccccCCCC
Confidence 4788765433 355666667899999777642 236777889999999954 7888888775
No 202
>PF09902 DUF2129: Uncharacterized protein conserved in bacteria (DUF2129); InterPro: IPR016979 This is a group of uncharacterised conserved proteins.
Probab=49.68 E-value=33 Score=22.13 Aligned_cols=38 Identities=11% Similarity=0.242 Sum_probs=26.6
Q ss_pred HhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCee
Q 028371 57 PFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYL 103 (210)
Q Consensus 57 ~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~ 103 (210)
-+.+||.|..+.=. ..|+. .|.+.++++..++.|....
T Consensus 16 ~L~kfG~i~Y~Skk--------~kYvv-lYvn~~~~e~~~~kl~~l~ 53 (71)
T PF09902_consen 16 QLRKFGDIHYVSKK--------MKYVV-LYVNEEDVEEIIEKLKKLK 53 (71)
T ss_pred hHhhcccEEEEECC--------ccEEE-EEECHHHHHHHHHHHhcCC
Confidence 46789998776422 34554 4668899999988877644
No 203
>KOG1847 consensus mRNA splicing factor [RNA processing and modification]
Probab=49.14 E-value=14 Score=33.99 Aligned_cols=11 Identities=45% Similarity=0.631 Sum_probs=5.0
Q ss_pred CCCCCCCCCCC
Q 028371 152 RGYSRSPDYYS 162 (210)
Q Consensus 152 r~rsrs~~r~~ 162 (210)
+-+|+++-.++
T Consensus 733 rkrSrs~~~~~ 743 (878)
T KOG1847|consen 733 RKRSRSHELYD 743 (878)
T ss_pred ccccccccccc
Confidence 34455544443
No 204
>PRK10905 cell division protein DamX; Validated
Probab=47.37 E-value=35 Score=28.71 Aligned_cols=62 Identities=16% Similarity=0.114 Sum_probs=38.4
Q ss_pred CCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEE--EEEecCHHHHHHHHHhhCCe
Q 028371 36 LPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFG--FVQYIDPADAADAKYHMDGY 102 (210)
Q Consensus 36 ~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~a--fV~f~~~~~a~~Ai~~l~g~ 102 (210)
...+|.|+.+. +++.|.+|..++| +....+.....+|+. -|. |-.|.+.++|+.||..|-..
T Consensus 246 ~~YTLQL~A~S---s~~~l~~fakKlg-L~~y~vy~TtRnGkp-WYVV~yG~YaSraeAk~AiakLPa~ 309 (328)
T PRK10905 246 SHYTLQLSSSS---NYDNLNGWAKKEN-LKNYVVYETTRNGQP-WYVLVSGVYASKEEAKRAVSTLPAD 309 (328)
T ss_pred CceEEEEEecC---CHHHHHHHHHHcC-CCceEEEEeccCCce-EEEEEecCCCCHHHHHHHHHHCCHH
Confidence 34566666655 5677888887775 333323322224432 233 34789999999999988753
No 205
>PF14581 SseB_C: SseB protein C-terminal domain
Probab=47.21 E-value=38 Score=23.33 Aligned_cols=80 Identities=14% Similarity=0.072 Sum_probs=42.2
Q ss_pred CCCeEEEecCCCCCC--HHHHHHHhccCCceEEEEEecCCC-CCCcceEEEEEecC--HHHHHHHHHhhCCeeEc-CeEE
Q 028371 36 LPTSLLVRNLRHDCR--PEDLRGPFGQFGRLKDIYLPRDYY-TGEPRGFGFVQYID--PADAADAKYHMDGYLLL-GREL 109 (210)
Q Consensus 36 ~~~~l~V~nL~~~~t--e~~l~~~f~~~G~i~~v~i~~~~~-~g~~~g~afV~f~~--~~~a~~Ai~~l~g~~i~-g~~i 109 (210)
.+.+|.|+-.....+ .+.|.++|.+.+.|..+.+..-.. .+...-+--|+|.. .+.+..+|..+....+. +..|
T Consensus 4 ~g~~v~l~~P~~~p~~l~~aL~~~~~~~~~V~~Ayl~~~~~~~~~~~~li~vd~~~~~~~~~~~~i~~~~~~~~~~~~~v 83 (108)
T PF14581_consen 4 KGEKVLLGEPEEEPTDLLAALSEYFKQHKNVRAAYLALMQDEDEQPSLLIGVDFDGEDIEEIFQEIGRAARPYLPDGWPV 83 (108)
T ss_pred CCCEEEecCCccCHHHHHHHHHHHHhhCccHHHhHHHHhhccCCCceEEEEEeccChhHHHHHHHHHHHhhhcCCCCceE
Confidence 355677764433322 478888999999888765544333 33333344466655 23333333333333333 3566
Q ss_pred EEEEee
Q 028371 110 TVVFAE 115 (210)
Q Consensus 110 ~v~~a~ 115 (210)
.+....
T Consensus 84 d~~~~~ 89 (108)
T PF14581_consen 84 DFVLLD 89 (108)
T ss_pred EEEEcc
Confidence 555444
No 206
>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=47.03 E-value=61 Score=26.04 Aligned_cols=65 Identities=20% Similarity=0.211 Sum_probs=44.8
Q ss_pred CCCCeEEEecCCCCCCHHHHHHHhccCC-ceEEEEEecCC---CCCCcceEEEEEecCHHHHHHHHHhhC
Q 028371 35 DLPTSLLVRNLRHDCRPEDLRGPFGQFG-RLKDIYLPRDY---YTGEPRGFGFVQYIDPADAADAKYHMD 100 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te~~l~~~f~~~G-~i~~v~i~~~~---~~g~~~g~afV~f~~~~~a~~Ai~~l~ 100 (210)
..+-+|-|.-||-.-.++-++.+|+..| .|....+..|. ..|.+ -|..|+..-..-.+.|+..|-
T Consensus 116 ~~pL~v~~p~lp~rGg~~l~~rLFePLGw~V~a~~~~Ld~~fP~WG~S-~y~~l~L~g~~rl~daL~HLY 184 (245)
T PF12623_consen 116 PIPLEVRLPALPCRGGEELVRRLFEPLGWTVTAEPVPLDEQFPEWGDS-RYVDLTLTGTVRLADALNHLY 184 (245)
T ss_pred CCceEEEeeeeecCCcHHHHHHhhcCcCceEEeEeccCCccCccccCC-cceEEEEeeeEEHHHHHhhhh
Confidence 4567888889998889999999999999 44444444443 23444 477777776666666665543
No 207
>COG5470 Uncharacterized conserved protein [Function unknown]
Probab=46.40 E-value=40 Score=23.05 Aligned_cols=18 Identities=11% Similarity=0.051 Sum_probs=14.6
Q ss_pred ceEEEEEecCHHHHHHHH
Q 028371 79 RGFGFVQYIDPADAADAK 96 (210)
Q Consensus 79 ~g~afV~f~~~~~a~~Ai 96 (210)
.....|+|.+.+.|..+.
T Consensus 53 tr~vviEFps~~~ar~~y 70 (96)
T COG5470 53 TRNVVIEFPSLEAARDCY 70 (96)
T ss_pred ccEEEEEcCCHHHHHHHh
Confidence 567899999998887654
No 208
>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=45.77 E-value=16 Score=29.62 Aligned_cols=30 Identities=30% Similarity=0.396 Sum_probs=22.9
Q ss_pred CCeEEEecCCCCCCHHHHHHHhc--cCCceEE
Q 028371 37 PTSLLVRNLRHDCRPEDLRGPFG--QFGRLKD 66 (210)
Q Consensus 37 ~~~l~V~nL~~~~te~~l~~~f~--~~G~i~~ 66 (210)
...++|+|||+.++..-|..++. .||.+..
T Consensus 97 ~~~~vv~NlPy~is~~il~~ll~~~~~g~~~~ 128 (262)
T PF00398_consen 97 QPLLVVGNLPYNISSPILRKLLELYRFGRVRM 128 (262)
T ss_dssp SEEEEEEEETGTGHHHHHHHHHHHGGGCEEEE
T ss_pred CceEEEEEecccchHHHHHHHhhcccccccce
Confidence 45688999999999999999886 4444433
No 209
>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=45.31 E-value=77 Score=21.53 Aligned_cols=53 Identities=15% Similarity=0.130 Sum_probs=33.5
Q ss_pred CCCCCCHHHHHHHhccCCceE-EEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCC
Q 028371 45 LRHDCRPEDLRGPFGQFGRLK-DIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDG 101 (210)
Q Consensus 45 L~~~~te~~l~~~f~~~G~i~-~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g 101 (210)
+.+.++...|..-|.-.|.-. ...+-.|- =+.+|.|+|.+.+.+..|.+.|..
T Consensus 20 ~~p~l~~~~i~~Q~~~~gkk~~pp~lRkD~----W~pm~vv~f~~~~~g~~~yq~Lre 73 (91)
T PF12829_consen 20 QTPNLDNNQILKQFPFPGKKNKPPSLRKDY----WRPMCVVNFPNYEVGVSAYQKLRE 73 (91)
T ss_pred cCcccChhHHHHhccCCCcccCCchhcccc----ceEeEEEECCChHHHHHHHHHHHH
Confidence 345666777776666555311 12222222 156899999999999999877653
No 210
>PF15063 TC1: Thyroid cancer protein 1
Probab=45.25 E-value=11 Score=24.55 Aligned_cols=29 Identities=17% Similarity=0.201 Sum_probs=23.5
Q ss_pred CCeEEEecCCCCCCHHHHHHHhccCCceE
Q 028371 37 PTSLLVRNLRHDCRPEDLRGPFGQFGRLK 65 (210)
Q Consensus 37 ~~~l~V~nL~~~~te~~l~~~f~~~G~i~ 65 (210)
..+--+.||-.+++..+|+.+|+.-|...
T Consensus 25 ~RKkasaNIFe~vn~~qlqrLF~~sGD~k 53 (79)
T PF15063_consen 25 SRKKASANIFENVNLDQLQRLFQKSGDKK 53 (79)
T ss_pred HhhhhhhhhhhccCHHHHHHHHHHccchh
Confidence 33445778889999999999999999653
No 211
>COG0150 PurM Phosphoribosylaminoimidazole (AIR) synthetase [Nucleotide transport and metabolism]
Probab=45.17 E-value=7.2 Score=33.05 Aligned_cols=48 Identities=19% Similarity=0.173 Sum_probs=36.4
Q ss_pred HHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCe
Q 028371 51 PEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGY 102 (210)
Q Consensus 51 e~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~ 102 (210)
...|.+++++.|.|..-.|..- -+.|.+||.+-.+++++++++.|.+.
T Consensus 275 ~p~iF~~i~~~G~v~~~EM~rt----FNmGvG~v~iv~~e~~~~~~~~l~~~ 322 (345)
T COG0150 275 PPPIFKWLQKAGNVEREEMYRT----FNMGVGMVLIVPEEDAEKALALLKEQ 322 (345)
T ss_pred CcHHHHHHHHhcCCCHHHHHHH----hcCccceEEEEcHHHHHHHHHHHHhc
Confidence 4677888888887765544322 23688899999999999999998864
No 212
>COG5507 Uncharacterized conserved protein [Function unknown]
Probab=44.74 E-value=29 Score=23.90 Aligned_cols=23 Identities=22% Similarity=0.296 Sum_probs=17.8
Q ss_pred CcceEEEEEecCHHHHHHHHHhh
Q 028371 77 EPRGFGFVQYIDPADAADAKYHM 99 (210)
Q Consensus 77 ~~~g~afV~f~~~~~a~~Ai~~l 99 (210)
..--|.+++|.+.+....|...+
T Consensus 64 E~VvFsW~~Y~skq~rDA~~~km 86 (117)
T COG5507 64 EEVVFSWIEYPSKQVRDAANAKM 86 (117)
T ss_pred cEEEEEEEEcCchhHHHHHHHHh
Confidence 34568999999998888877654
No 213
>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=44.10 E-value=38 Score=22.83 Aligned_cols=49 Identities=16% Similarity=0.129 Sum_probs=27.2
Q ss_pred CCCCeEEEecCCCCCCHH---HHHHHhccCCceEEEEEecCCCCCCcceEEEEEecC
Q 028371 35 DLPTSLLVRNLRHDCRPE---DLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYID 88 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te~---~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~ 88 (210)
+..+-|||++++..+-+. .|.+.+.+-|.+.-+ .. +....||+|-++.+
T Consensus 23 Ev~~GVyVg~~s~rVRe~lW~~v~~~~~~~G~avm~--~~---~~~e~G~~~~t~G~ 74 (87)
T TIGR01873 23 EPRAGVYVGGVSASVRERIWDYLAQHCPPKGSLVIT--WS---SNTCPGFEFFTLGE 74 (87)
T ss_pred ecCCCcEEcCCCHHHHHHHHHHHHHhCCCCccEEEE--Ee---CCCCCCcEEEecCC
Confidence 445679999998877654 333332122333322 22 22346888887754
No 214
>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=43.97 E-value=77 Score=21.64 Aligned_cols=48 Identities=15% Similarity=0.062 Sum_probs=27.4
Q ss_pred eEEEecCCCCCCHHH---HHHHhccCCceEEEEE--ecCCCCCCcceEEEEEe
Q 028371 39 SLLVRNLRHDCRPED---LRGPFGQFGRLKDIYL--PRDYYTGEPRGFGFVQY 86 (210)
Q Consensus 39 ~l~V~nL~~~~te~~---l~~~f~~~G~i~~v~i--~~~~~~g~~~g~afV~f 86 (210)
..|+.|||..+.+.. ++.+|..+..-..|.+ ......+...|++.+.+
T Consensus 12 ~a~~a~lp~~va~R~~~~a~~~L~~~~~~v~i~~d~~~~~~~~~~~G~gi~l~ 64 (103)
T PF05189_consen 12 IAFVAGLPSSVAERMANAARKRLNWYGPDVEIETDYRESDDSAFGPGSGISLV 64 (103)
T ss_dssp EEEEESS-CHHHHHHHHHHHHHHCTTCSEEEEEEEEE-CCCCGCSSEEEEEEE
T ss_pred EEEEcCCCHHHHHHHHHHHHHHhhhhCCCeEEEEecccCccCCCCCceEEEEE
Confidence 468899999887654 4555666654444443 22334555667765544
No 215
>KOG2888 consensus Putative RNA binding protein [General function prediction only]
Probab=42.81 E-value=11 Score=31.87 Aligned_cols=9 Identities=33% Similarity=0.918 Sum_probs=4.8
Q ss_pred ceEEEEEec
Q 028371 79 RGFGFVQYI 87 (210)
Q Consensus 79 ~g~afV~f~ 87 (210)
.||-||.|.
T Consensus 160 lGFmYiRYt 168 (453)
T KOG2888|consen 160 LGFMYIRYT 168 (453)
T ss_pred heeeEEeec
Confidence 455555553
No 216
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=42.41 E-value=22 Score=31.53 Aligned_cols=54 Identities=20% Similarity=0.103 Sum_probs=34.0
Q ss_pred cCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeE
Q 028371 44 NLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLL 104 (210)
Q Consensus 44 nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i 104 (210)
++.......-+..+|+.+|.++...++... .|+..|.|+ +.|..+|..++...|
T Consensus 204 gp~ks~~s~~r~k~fee~g~~~r~el~p~~-----hg~~~vv~~--enan~~m~s~da~ei 257 (526)
T KOG2135|consen 204 GPEKSRNSENRRKFFEEFGVLERGELCPTH-----HGCVPVVSK--ENANKTMKSEDAAEI 257 (526)
T ss_pred CcccccccHHhhhhhHhhceeeeccccccc-----cccceeEee--ccccccccCCcchhh
Confidence 444557788889999999988776665432 445555554 555555555544333
No 217
>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=42.19 E-value=18 Score=20.08 Aligned_cols=17 Identities=18% Similarity=0.405 Sum_probs=10.4
Q ss_pred CCCCHHHHHHHhccCCc
Q 028371 47 HDCRPEDLRGPFGQFGR 63 (210)
Q Consensus 47 ~~~te~~l~~~f~~~G~ 63 (210)
.++++++|+++|.+...
T Consensus 19 ~Dtd~~~Lk~vF~~i~~ 35 (36)
T PF11411_consen 19 VDTDEDQLKEVFNRIKK 35 (36)
T ss_dssp S---HHHHHHHHHCS--
T ss_pred ccCCHHHHHHHHHHhcc
Confidence 46889999999987643
No 218
>PF14111 DUF4283: Domain of unknown function (DUF4283)
Probab=42.12 E-value=13 Score=27.07 Aligned_cols=68 Identities=15% Similarity=0.030 Sum_probs=41.3
Q ss_pred eEEEecCC--CCCCHHHHHHHhcc----CCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEE
Q 028371 39 SLLVRNLR--HDCRPEDLRGPFGQ----FGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVV 112 (210)
Q Consensus 39 ~l~V~nL~--~~~te~~l~~~f~~----~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~ 112 (210)
...|+.+. ...+...|...+.. .+.+.-..+- .++..+.|.+.+++..++. .....|++..|.++
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 45566552 23556666666543 3444333332 5789999999999988874 34456677666655
Q ss_pred Eee
Q 028371 113 FAE 115 (210)
Q Consensus 113 ~a~ 115 (210)
.-.
T Consensus 88 ~W~ 90 (153)
T PF14111_consen 88 RWS 90 (153)
T ss_pred hhc
Confidence 433
No 219
>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=41.79 E-value=98 Score=26.95 Aligned_cols=51 Identities=22% Similarity=0.174 Sum_probs=34.6
Q ss_pred CCCHHHHHHHhcc----CCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhh
Q 028371 48 DCRPEDLRGPFGQ----FGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHM 99 (210)
Q Consensus 48 ~~te~~l~~~f~~----~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l 99 (210)
+...-+|..+|.. +|-|.++.|...+.. ....+.++.|.+.++|..|+..|
T Consensus 143 ~~~g~dl~~l~~Gs~GtlGiit~~~lkl~p~p-~~~~~~~~~f~~~~~~~~~~~~~ 197 (413)
T TIGR00387 143 DVAGYDLTGLFVGSEGTLGIVTEATLKLLPKP-ENIVVALAFFDSIEKAMQAVYDI 197 (413)
T ss_pred CCCCCChhhhcccCCccceEEEEEEEEeecCC-CccEEEEEECCCHHHHHHHHHHH
Confidence 3344467777753 677888777655432 33556778999999998887554
No 220
>COG1098 VacB Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]
Probab=41.22 E-value=52 Score=23.74 Aligned_cols=34 Identities=21% Similarity=0.165 Sum_probs=23.5
Q ss_pred EEEEEecC--------HHHHHHHHHhhCCeeEcCeEEEEEEe
Q 028371 81 FGFVQYID--------PADAADAKYHMDGYLLLGRELTVVFA 114 (210)
Q Consensus 81 ~afV~f~~--------~~~a~~Ai~~l~g~~i~g~~i~v~~a 114 (210)
-|||+|++ .+-|...++.+|.+.--|..|.|++-
T Consensus 20 GAFV~l~~g~tGLVHISEIa~~fVkdI~d~L~vG~eV~vKVl 61 (129)
T COG1098 20 GAFVELEGGKTGLVHISEIADGFVKDIHDHLKVGQEVKVKVL 61 (129)
T ss_pred ceEEEecCCCcceEEehHhhhhhHHhHHHHhcCCCEEEEEEE
Confidence 47888876 35666777777776666777777654
No 221
>KOG3424 consensus 40S ribosomal protein S24 [Translation, ribosomal structure and biogenesis]
Probab=41.04 E-value=82 Score=22.52 Aligned_cols=46 Identities=13% Similarity=0.255 Sum_probs=27.2
Q ss_pred CCCHHHHHHHhccCC----c-eEEEEEecCCCCCCcceEEEEEecCHHHHHH
Q 028371 48 DCRPEDLRGPFGQFG----R-LKDIYLPRDYYTGEPRGFGFVQYIDPADAAD 94 (210)
Q Consensus 48 ~~te~~l~~~f~~~G----~-i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~ 94 (210)
++..++|.+-+.+.- . |.-+.+-.....|.+.|||.| |.+.+.|..
T Consensus 34 ~vsK~EirEKla~mYkt~~d~V~vfgfrt~~GggkstgfalI-Ydsve~akk 84 (132)
T KOG3424|consen 34 NVSKTEIREKLAKMYKTTPDAVFVFGFRTHFGGGKSTGFALI-YDSVEYAKK 84 (132)
T ss_pred CCCHHHHHHHHHHHhcCCcceEEEEEeeeccCCcccceeeee-eehHHHHHh
Confidence 467778877665422 2 222234444456788889987 666666553
No 222
>cd04880 ACT_AAAH-PDT-like ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH). ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH): Phenylalanine hydroxylases (PAH), tyrosine hydroxylases (TH) and tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. This family of enzymes shares a common catalytic mechanism, in which dioxygen is used by an active site containing a single, reduced iron atom to hydroxylate an unactivated aromatic substrate, concomitant with a two-electron oxidation of tetrahydropterin (BH4) cofactor to its quinonoid dihydropterin form. Eukaryotic AAAHs have an N-terminal ACT (regulatory) domain, a middle catalytic domain and a C-terminal domain which is responsible for the oligomeric state of the enzyme forming a domain-swapped tetrameric coiled-coil. The PAH, TH, and TPH enzymes contain highly conserved catalytic domains but distinct N-terminal ACT domains and differ in their mech
Probab=41.03 E-value=91 Score=19.56 Aligned_cols=51 Identities=18% Similarity=0.080 Sum_probs=29.3
Q ss_pred CHHHHHHHhccCC-ceEEEEEecCCCCCCcceEEEEEecC---HHHHHHHHHhhCC
Q 028371 50 RPEDLRGPFGQFG-RLKDIYLPRDYYTGEPRGFGFVQYID---PADAADAKYHMDG 101 (210)
Q Consensus 50 te~~l~~~f~~~G-~i~~v~i~~~~~~g~~~g~afV~f~~---~~~a~~Ai~~l~g 101 (210)
.-.+|.++|..+| .|..|.-.... .....-..||++.. ....+.+++.|..
T Consensus 12 ~L~~vL~~f~~~~vni~~I~Srp~~-~~~~~~~f~id~~~~~~~~~~~~~l~~l~~ 66 (75)
T cd04880 12 ALAKALKVFAERGINLTKIESRPSR-KGLWEYEFFVDFEGHIDDPDVKEALEELKR 66 (75)
T ss_pred HHHHHHHHHHHCCCCEEEEEeeecC-CCCceEEEEEEEECCCCCHHHHHHHHHHHH
Confidence 3567788888886 55555332221 12334456788874 4556666666543
No 223
>PF09383 NIL: NIL domain; InterPro: IPR018449 This domain is found at the C terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins. This domain is likely to act as a substrate binding domain. The domain has been named after a conserved sequence in some members of the family. ; PDB: 2QRR_A 3CED_A 2QSW_A 3TUZ_D 3TUJ_D 3DHX_B 3TUI_H 3DHW_D.
Probab=40.75 E-value=53 Score=20.89 Aligned_cols=55 Identities=15% Similarity=0.132 Sum_probs=31.3
Q ss_pred CCCCHHHHHHHhccCCceEEE-EEecCCCCCCcceEEEEEec-CHHHHHHHHHhhCC
Q 028371 47 HDCRPEDLRGPFGQFGRLKDI-YLPRDYYTGEPRGFGFVQYI-DPADAADAKYHMDG 101 (210)
Q Consensus 47 ~~~te~~l~~~f~~~G~i~~v-~i~~~~~~g~~~g~afV~f~-~~~~a~~Ai~~l~g 101 (210)
..+.+..|-++...||--..| .-..+...+...|.-+|++. +.++.++|++.|..
T Consensus 12 ~~~~~piis~l~~~~~v~~nIl~g~i~~i~~~~~G~l~l~l~g~~~~~~~a~~~L~~ 68 (76)
T PF09383_consen 12 NSAQEPIISQLIREFGVDVNILHGNIEEIQGTPFGILILELPGDDEEIEKAIAYLRE 68 (76)
T ss_dssp CSSSSCHHHHHHHHHT-EEEEEEEEEEEETTEEEEEEEEEEES-HHHHHHHHHHHHH
T ss_pred CCcCchHHHHHHHHhCCCEEEEEEEeEEcCCeeEEEEEEEEECCHHHHHHHHHHHHH
Confidence 345666677777777632222 11112224566788889995 44556777776653
No 224
>cd04879 ACT_3PGDH-like ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH). ACT_3PGDH-like: The ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH), with or without an extended C-terminal (xct) region found in various bacteria, archaea, fungi, and plants. 3PGDH is an enzyme that belongs to the D-isomer specific, 2-hydroxyacid dehydrogenase family and catalyzes the oxidation of D-3-phosphoglycerate to 3- phosphohydroxypyruvate, which is the first step in the biosynthesis of L-serine, using NAD+ as the oxidizing agent. In bacteria, 3PGDH is feedback controlled by the end product L-serine in an allosteric manner. In the Escherichia coli homotetrameric enzyme, the interface at adjacent ACT (regulatory) domains couples to create an extended beta-sheet. Each regulatory interface forms two serine-binding sites. The mechanism by which serine transmits inhibition to the active
Probab=40.58 E-value=80 Score=18.80 Aligned_cols=31 Identities=13% Similarity=0.170 Sum_probs=18.8
Q ss_pred EEEecCCCCCCHHHHHHHhccCC-ceEEEEEe
Q 028371 40 LLVRNLRHDCRPEDLRGPFGQFG-RLKDIYLP 70 (210)
Q Consensus 40 l~V~nL~~~~te~~l~~~f~~~G-~i~~v~i~ 70 (210)
|+|..-...-.-.+|..+|.++| .|..+.+.
T Consensus 2 l~v~~~d~~g~l~~i~~~l~~~~~nI~~~~~~ 33 (71)
T cd04879 2 LLIVHKDVPGVIGKVGTILGEHGINIAAMQVG 33 (71)
T ss_pred EEEEecCCCCHHHHHHHHHHhcCCCeeeEEEe
Confidence 34433333345677888888876 66666654
No 225
>TIGR00755 ksgA dimethyladenosine transferase. Alternate name: S-adenosylmethionine--6-N',N'-adenosyl (rRNA) dimethyltransferase
Probab=40.32 E-value=38 Score=27.26 Aligned_cols=25 Identities=12% Similarity=-0.089 Sum_probs=20.8
Q ss_pred eEEEecCCCCCCHHHHHHHhccCCc
Q 028371 39 SLLVRNLRHDCRPEDLRGPFGQFGR 63 (210)
Q Consensus 39 ~l~V~nL~~~~te~~l~~~f~~~G~ 63 (210)
-++|+|||+.++...|..++..+|.
T Consensus 96 ~~vvsNlPy~i~~~il~~ll~~~~~ 120 (253)
T TIGR00755 96 LKVVSNLPYNISSPLIFKLLEKPKF 120 (253)
T ss_pred ceEEEcCChhhHHHHHHHHhccCCC
Confidence 3789999999999999999975543
No 226
>PRK04199 rpl10e 50S ribosomal protein L10e; Reviewed
Probab=40.29 E-value=1.7e+02 Score=22.43 Aligned_cols=26 Identities=15% Similarity=0.010 Sum_probs=14.9
Q ss_pred eEEEEEec----CHHHHHHHHHhhCCeeEcC
Q 028371 80 GFGFVQYI----DPADAADAKYHMDGYLLLG 106 (210)
Q Consensus 80 g~afV~f~----~~~~a~~Ai~~l~g~~i~g 106 (210)
|-.++|+. +.+.|..|+.. ....|..
T Consensus 129 G~ilfei~~~~~~~~~akeAlr~-a~~KLP~ 158 (172)
T PRK04199 129 GQKIFTVRVNPEHLEAAKEALRR-AAMKLPT 158 (172)
T ss_pred CCEEEEEEecCCCHHHHHHHHHH-hhccCCC
Confidence 34455554 67788888854 3344433
No 227
>cd04929 ACT_TPH ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. TPH catalyses the hydroxylation of L-Trp to 5-hydroxytryptophan, the rate limiting step in the biosynthesis of 5-hydroxytryptamine (serotonin) and the first reaction in the synthesis of melatonin. Very little is known about the role of the ACT domain in TPH, which appears to be regulated by phosphorylation but not by its substrate or cofactor. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=40.20 E-value=1e+02 Score=19.83 Aligned_cols=50 Identities=12% Similarity=0.021 Sum_probs=28.3
Q ss_pred HHHHHHHhccCC-ceEEEEEecCCCCCCcceEEEEEec-CHHHHHHHHHhhCC
Q 028371 51 PEDLRGPFGQFG-RLKDIYLPRDYYTGEPRGFGFVQYI-DPADAADAKYHMDG 101 (210)
Q Consensus 51 e~~l~~~f~~~G-~i~~v~i~~~~~~g~~~g~afV~f~-~~~~a~~Ai~~l~g 101 (210)
-.++...|+.+| .+..|.--..+ .....-.-||+++ +.+..+.|++.|..
T Consensus 14 L~~iL~~f~~~~inl~~IeSRP~~-~~~~~y~F~id~e~~~~~i~~~l~~l~~ 65 (74)
T cd04929 14 LAKALKLFQELGINVVHIESRKSK-RRSSEFEIFVDCECDQRRLDELVQLLKR 65 (74)
T ss_pred HHHHHHHHHHCCCCEEEEEeccCC-CCCceEEEEEEEEcCHHHHHHHHHHHHH
Confidence 567778888886 44444332221 1222335577776 44566777777654
No 228
>COG0445 GidA Flavin-dependent tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Cell cycle control, cell division, chromosome partitioning]
Probab=39.97 E-value=60 Score=29.74 Aligned_cols=45 Identities=11% Similarity=0.127 Sum_probs=33.8
Q ss_pred CCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEec
Q 028371 35 DLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYI 87 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~ 87 (210)
.....||+.+|+..+.++--.+++...-.++++.|+. .||| |||.
T Consensus 299 l~~~evY~nGlSTSlP~dVQ~~~irsipGlEna~i~r-------pgYA-IEYD 343 (621)
T COG0445 299 LDTDEVYPNGLSTSLPEDVQEQIIRSIPGLENAEILR-------PGYA-IEYD 343 (621)
T ss_pred CCCceEecCcccccCCHHHHHHHHHhCcccccceeec-------ccee-eeec
Confidence 3467899999999998887777777777778888774 4566 4554
No 229
>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=39.03 E-value=1e+02 Score=19.64 Aligned_cols=56 Identities=23% Similarity=0.233 Sum_probs=34.9
Q ss_pred EEEecCCCCCCHHHHHHHhc-cCCce-EEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhC
Q 028371 40 LLVRNLRHDCRPEDLRGPFG-QFGRL-KDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMD 100 (210)
Q Consensus 40 l~V~nL~~~~te~~l~~~f~-~~G~i-~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~ 100 (210)
+++-.|+..++-++|...+. .|+.. ..+.|......| -+|.+.+.++.+.|+..+.
T Consensus 12 ~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y~Dedg-----d~v~l~sd~Dl~~a~~~~~ 69 (81)
T smart00666 12 TRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKYQDEDG-----DLVSLTSDEDLEEAIEEYD 69 (81)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEEECCCC-----CEEEecCHHHHHHHHHHHH
Confidence 45556788888887777664 34421 233332221111 2889999999999997654
No 230
>COG4010 Uncharacterized protein conserved in archaea [Function unknown]
Probab=38.97 E-value=89 Score=23.22 Aligned_cols=47 Identities=19% Similarity=0.157 Sum_probs=36.8
Q ss_pred cCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhC
Q 028371 44 NLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMD 100 (210)
Q Consensus 44 nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~ 100 (210)
.|+..+.++-|+++.+..|-|.+.. -.| ..+.|.+.+.+..|++.|-
T Consensus 118 ~L~epl~~eRlqDi~E~hgvIiE~~-E~D---------~V~i~Gd~drVk~aLke~~ 164 (170)
T COG4010 118 HLREPLAEERLQDIAETHGVIIEFE-EYD---------LVAIYGDSDRVKKALKEIG 164 (170)
T ss_pred ecCchhHHHHHHHHHHhhheeEEee-ecc---------EEEEeccHHHHHHHHHHHH
Confidence 5788889999999999999887654 222 3567889999999998754
No 231
>COG0079 HisC Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]
Probab=38.54 E-value=55 Score=28.01 Aligned_cols=50 Identities=10% Similarity=0.105 Sum_probs=32.4
Q ss_pred CCCeEEEecCC----CCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHH
Q 028371 36 LPTSLLVRNLR----HDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAK 96 (210)
Q Consensus 36 ~~~~l~V~nL~----~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai 96 (210)
...-|||+|=. ..++.++|..+++.... .+.++.| -||++|.. +++...+
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 45678888642 23568999999988755 3334434 49999998 4444333
No 232
>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=38.36 E-value=75 Score=24.50 Aligned_cols=60 Identities=12% Similarity=0.088 Sum_probs=38.2
Q ss_pred CeEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCC-CCcceEEEEEecCHHHHHHHHHhh
Q 028371 38 TSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYT-GEPRGFGFVQYIDPADAADAKYHM 99 (210)
Q Consensus 38 ~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~-g~~~g~afV~f~~~~~a~~Ai~~l 99 (210)
..=||+|.+...+-..|-+.|...|.- |.++..+.. ..+.++-+|.|.+.++...++..+
T Consensus 19 ~VR~ItN~SSG~~G~~lA~~~~~~Ga~--V~li~g~~~~~~p~~~~~i~v~sa~em~~~~~~~ 79 (185)
T PF04127_consen 19 PVRFITNRSSGKMGAALAEEAARRGAE--VTLIHGPSSLPPPPGVKVIRVESAEEMLEAVKEL 79 (185)
T ss_dssp SSEEEEES--SHHHHHHHHHHHHTT-E--EEEEE-TTS----TTEEEEE-SSHHHHHHHHHHH
T ss_pred CceEecCCCcCHHHHHHHHHHHHCCCE--EEEEecCccccccccceEEEecchhhhhhhhccc
Confidence 356899999988888899888887742 333322221 224578899999999988887654
No 233
>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=38.19 E-value=1.1e+02 Score=19.93 Aligned_cols=62 Identities=15% Similarity=0.171 Sum_probs=42.0
Q ss_pred ecCCCCCCHHHHHHHh-ccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEE
Q 028371 43 RNLRHDCRPEDLRGPF-GQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 113 (210)
Q Consensus 43 ~nL~~~~te~~l~~~f-~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~ 113 (210)
-.++.-+.-+||+.-. ..||.-..+.+..+ --.|-..+.++..+||+.|+. .-..+.|+|-+
T Consensus 14 i~f~RPvkf~dl~~kv~~afGq~mdl~ytn~--------eL~iPl~~Q~DLDkAie~ld~-s~~~ksLRilL 76 (79)
T cd06405 14 IQFPRPVKFKDLQQKVTTAFGQPMDLHYTNN--------ELLIPLKNQEDLDRAIELLDR-SPHMKSLRILL 76 (79)
T ss_pred EecCCCccHHHHHHHHHHHhCCeeeEEEecc--------cEEEeccCHHHHHHHHHHHcc-CccccceeEeE
Confidence 3567777777776555 57898888777633 267788899999999988876 33334444433
No 234
>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=37.90 E-value=53 Score=26.77 Aligned_cols=58 Identities=17% Similarity=0.029 Sum_probs=37.4
Q ss_pred CCeEEEecCCCC-----CCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEec---CHHHHHHHHHhhC
Q 028371 37 PTSLLVRNLRHD-----CRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYI---DPADAADAKYHMD 100 (210)
Q Consensus 37 ~~~l~V~nL~~~-----~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~---~~~~a~~Ai~~l~ 100 (210)
..+|.|.|++.. .+.++|..++..++....+.++.| .+++|+.-. +.+....+++.+.
T Consensus 137 ~v~l~lEN~~~~~~~l~~~~~el~~ll~~~~~~~~lg~~lD------t~H~~~~g~~~~~~~~~~~~~~~~~ 202 (274)
T TIGR00587 137 IVTILLENMAGQGSELGRSFEELAYIIKVIVDKRRIGVCLD------TCHFFAAGYDITTKAYFEVVKNEFD 202 (274)
T ss_pred CCEEEEEeCCCCCCccCCCHHHHHHHHHhcCCCCceEEEEE------hhhHHhcCCCcCCHHHHHHHHHHHH
Confidence 467899998743 478899999988875456667766 445554333 3455555655443
No 235
>KOG1999 consensus RNA polymerase II transcription elongation factor DSIF/SUPT5H/SPT5 [Transcription]
Probab=37.74 E-value=58 Score=31.59 Aligned_cols=33 Identities=15% Similarity=0.172 Sum_probs=26.3
Q ss_pred cceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEE
Q 028371 78 PRGFGFVQYIDPADAADAKYHMDGYLLLGRELTV 111 (210)
Q Consensus 78 ~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v 111 (210)
-+||-|||=.....++.||+-|-+..+. +.|.|
T Consensus 209 lkGyIYIEA~KqshV~~Ai~gv~niy~~-~~~lV 241 (1024)
T KOG1999|consen 209 LKGYIYIEADKQSHVKEAIEGVRNIYAN-RILLV 241 (1024)
T ss_pred cceeEEEEechhHHHHHHHhhhhhheec-cEEEE
Confidence 3899999999999999999888776655 44434
No 236
>PF15440 THRAP3_BCLAF1: THRAP3/BCLAF1 family
Probab=37.23 E-value=47 Score=30.96 Aligned_cols=12 Identities=58% Similarity=0.742 Sum_probs=5.2
Q ss_pred CCCCCCCCCCCC
Q 028371 152 RGYSRSPDYYSP 163 (210)
Q Consensus 152 r~rsrs~~r~~~ 163 (210)
|+|||||-+++.
T Consensus 2 RSRSRSPKrRS~ 13 (646)
T PF15440_consen 2 RSRSRSPKRRSP 13 (646)
T ss_pred CccCCCccccCC
Confidence 344455443333
No 237
>COG1207 GlmU N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]
Probab=37.09 E-value=1.5e+02 Score=26.19 Aligned_cols=67 Identities=12% Similarity=-0.026 Sum_probs=43.5
Q ss_pred CCCeEEEecCCCCCCHHHHHHHhccCC----ceEEEEEecCCCCC--------CcceEEEEEecCHHHHHHHHHhhCCe
Q 028371 36 LPTSLLVRNLRHDCRPEDLRGPFGQFG----RLKDIYLPRDYYTG--------EPRGFGFVQYIDPADAADAKYHMDGY 102 (210)
Q Consensus 36 ~~~~l~V~nL~~~~te~~l~~~f~~~G----~i~~v~i~~~~~~g--------~~~g~afV~f~~~~~a~~Ai~~l~g~ 102 (210)
.+.+|.+.+=.+-++.+.|++++.... .+.-+.+..+.-+| ...-.+.||..+..++++.|..+|.-
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 345777777777889999998876552 23223222222122 22446889999999999988887763
No 238
>PLN02805 D-lactate dehydrogenase [cytochrome]
Probab=36.60 E-value=1.5e+02 Score=27.11 Aligned_cols=51 Identities=18% Similarity=0.176 Sum_probs=34.9
Q ss_pred CCHHHHHHHh----ccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhC
Q 028371 49 CRPEDLRGPF----GQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMD 100 (210)
Q Consensus 49 ~te~~l~~~f----~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~ 100 (210)
.+.-+|..+| ..+|-|.++.|...+. ......+++.|.+.++|..|+..+.
T Consensus 278 ~~g~dL~~l~~GseGtLGIIT~~tlrl~p~-P~~~~~~~~~f~~~~~a~~av~~i~ 332 (555)
T PLN02805 278 AAGYDLTRLVIGSEGTLGVITEVTLRLQKI-PQHSVVAMCNFPTIKDAADVAIATM 332 (555)
T ss_pred CCCccHHHHhccCCCceEEEEEEEEEeecC-CcceEEEEEEcCCHHHHHHHHHHHH
Confidence 3445787777 2477888887764432 2335678899999999988876643
No 239
>PF14026 DUF4242: Protein of unknown function (DUF4242)
Probab=36.42 E-value=1.2e+02 Score=19.67 Aligned_cols=61 Identities=11% Similarity=0.079 Sum_probs=37.3
Q ss_pred EEEecCCCCCCHHHHHHHhccC-------CceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCee
Q 028371 40 LLVRNLRHDCRPEDLRGPFGQF-------GRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYL 103 (210)
Q Consensus 40 l~V~nL~~~~te~~l~~~f~~~-------G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~ 103 (210)
|..-+||..++.++|.++..+. ..|..+....... ..+-||+.+=.+.+.+.++-+. .|..
T Consensus 3 mver~~p~~it~e~l~~~~~~~~~~~~~~~~V~w~~s~v~~d--~~k~~Cly~Ap~~eaV~~~~~~-aG~p 70 (77)
T PF14026_consen 3 MVERDFPGGITAEDLAAAHAKSCAVQAEMPGVQWLRSYVSED--DGKIFCLYEAPDEEAVREHARR-AGLP 70 (77)
T ss_pred EEEEeCCCCCCHHHHHHHHHHhHHHHhhcCCeEEEEEEEecC--CCeEEEEEECCCHHHHHHHHHH-cCCC
Confidence 4556888889998888876443 3444443332221 2256777777788887777654 3543
No 240
>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed
Probab=36.33 E-value=45 Score=27.19 Aligned_cols=22 Identities=18% Similarity=0.027 Sum_probs=18.8
Q ss_pred eEEEecCCCCCCHHHHHHHhcc
Q 028371 39 SLLVRNLRHDCRPEDLRGPFGQ 60 (210)
Q Consensus 39 ~l~V~nL~~~~te~~l~~~f~~ 60 (210)
.++|+|||+.++..-|..++..
T Consensus 107 ~~vv~NlPY~iss~ii~~~l~~ 128 (272)
T PRK00274 107 LKVVANLPYNITTPLLFHLLEE 128 (272)
T ss_pred ceEEEeCCccchHHHHHHHHhc
Confidence 5789999999998888888854
No 241
>KOG1232 consensus Proteins containing the FAD binding domain [Energy production and conversion]
Probab=36.12 E-value=56 Score=28.47 Aligned_cols=52 Identities=17% Similarity=0.183 Sum_probs=37.1
Q ss_pred cCCCCCCHHHHHHHhc----cCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHH
Q 028371 44 NLRHDCRPEDLRGPFG----QFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAK 96 (210)
Q Consensus 44 nL~~~~te~~l~~~f~----~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai 96 (210)
+|-.+-|--+|+++|- ..|-|..|.|...+ ..+....||+-.++.+++++++
T Consensus 231 slRKDNTgydlkhLFIGSEGtlGVvT~vSil~~~-kpksvn~af~gi~sf~~v~k~f 286 (511)
T KOG1232|consen 231 SLRKDNTGYDLKHLFIGSEGTLGVVTKVSILAPP-KPKSVNVAFIGIESFDDVQKVF 286 (511)
T ss_pred hhcccCccccchhheecCCceeeEEeeEEEeecC-CCcceeEEEEccccHHHHHHHH
Confidence 4556667778999993 45778888877655 3455678999888888877653
No 242
>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=35.67 E-value=1.9e+02 Score=21.97 Aligned_cols=47 Identities=15% Similarity=0.066 Sum_probs=38.0
Q ss_pred cCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhC
Q 028371 44 NLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMD 100 (210)
Q Consensus 44 nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~ 100 (210)
+|+..+.++-|+++.+-+|-|.+. - + ..-.+.|.+.+..++||+.|.
T Consensus 118 ~l~~~i~~erl~ei~E~~gvI~Ef--e-e-------~~~V~I~Gdke~Ik~aLKe~s 164 (169)
T PF09869_consen 118 KLKKPIQEERLQEISEWHGVIFEF--E-E-------DDKVVIEGDKERIKKALKEFS 164 (169)
T ss_pred ecCccchHHHHHHHHHHhceeEEe--c-C-------CcEEEEeccHHHHHHHHHHHH
Confidence 899999999999999999988665 1 1 124677889999999998764
No 243
>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=35.26 E-value=1.4e+02 Score=19.95 Aligned_cols=55 Identities=7% Similarity=0.050 Sum_probs=33.0
Q ss_pred eEEEecCCCCCCHHHHHHHh----ccCC-ceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhC
Q 028371 39 SLLVRNLRHDCRPEDLRGPF----GQFG-RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMD 100 (210)
Q Consensus 39 ~l~V~nL~~~~te~~l~~~f----~~~G-~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~ 100 (210)
-|+|..++..++-++|.+.+ .-.- ..-.++++- ..|. .|+|.+.++.+.|+..+.
T Consensus 10 di~it~~d~~~s~e~L~~~v~~~c~~~~~q~ft~kw~D--EEGD-----p~tiSS~~EL~EA~rl~~ 69 (83)
T cd06404 10 DIMITSIDPSISLEELCNEVRDMCRFHNDQPFTLKWID--EEGD-----PCTISSQMELEEAFRLYE 69 (83)
T ss_pred cEEEEEcCCCcCHHHHHHHHHHHhCCCCCCcEEEEEEC--CCCC-----ceeecCHHHHHHHHHHHH
Confidence 47888888888866555443 3221 122333332 2344 367888888888886544
No 244
>COG0002 ArgC Acetylglutamate semialdehyde dehydrogenase [Amino acid transport and metabolism]
Probab=34.73 E-value=59 Score=27.79 Aligned_cols=33 Identities=12% Similarity=0.252 Sum_probs=20.8
Q ss_pred CeEEEecCCCCCCHHHHHHHhccC-CceEEEEEec
Q 028371 38 TSLLVRNLRHDCRPEDLRGPFGQF-GRLKDIYLPR 71 (210)
Q Consensus 38 ~~l~V~nL~~~~te~~l~~~f~~~-G~i~~v~i~~ 71 (210)
.|+++ .|...++.++|.++|.+| ..-..|.|+.
T Consensus 247 ~Ti~~-~l~~~~t~~~i~~~y~~~Y~~epfVrv~~ 280 (349)
T COG0002 247 ATIYL-KLKDLVTLEELHAAYEEFYAGEPFVRVVP 280 (349)
T ss_pred EEEEE-ecCCCCCHHHHHHHHHHHhCCCCeEEEec
Confidence 34443 455668999999999764 4434555443
No 245
>PTZ00071 40S ribosomal protein S24; Provisional
Probab=34.67 E-value=1.4e+02 Score=21.86 Aligned_cols=46 Identities=15% Similarity=0.365 Sum_probs=24.1
Q ss_pred CCCHHHHHHHhcc-CC-ceEEEE----EecCCCCCCcceEEEEEecCHHHHHH
Q 028371 48 DCRPEDLRGPFGQ-FG-RLKDIY----LPRDYYTGEPRGFGFVQYIDPADAAD 94 (210)
Q Consensus 48 ~~te~~l~~~f~~-~G-~i~~v~----i~~~~~~g~~~g~afV~f~~~~~a~~ 94 (210)
..+..+|.+.+.+ |+ .=..+. |....-.|.+.|||.| |++.+.|..
T Consensus 35 TpSr~eirekLA~~~~v~d~~~Vvv~~~~T~fG~g~StG~a~I-Yds~e~~kk 86 (132)
T PTZ00071 35 TVSKKDIKEKLAKQYKVADARTIVLFGFKTKFGGGKTTGFGLI-YDNLAALKK 86 (132)
T ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEEccEecCCCceEEEEEEE-ECCHHHHHh
Confidence 4566777776654 44 111222 2223334566777766 566666543
No 246
>cd04878 ACT_AHAS N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS). ACT_AHAS: N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS). AHAS catalyses the first common step in the biosynthesis of the three branched-chain amino acids. The first step involves the condensation of either pyruvate or 2-ketobutyrate with the two-carbon hydroxyethyl fragment derived from another pyruvate molecule, covalently bound to the coenzyme thiamine diphosphate. Bacterial AHASs generally consist of regulatory and catalytic subunits. The effector (valine) binding sites are proposed to be located in two symmetrically related positions in the interface between a pair of N-terminal ACT domains with the C-terminal domain of IlvH contacting the catalytic dimer. Plants Arabidopsis and Oryza have tandem IlvH subunits; both the first and second ACT domain sequences are present in this CD. Members of
Probab=34.44 E-value=1e+02 Score=18.35 Aligned_cols=60 Identities=8% Similarity=-0.012 Sum_probs=28.7
Q ss_pred eEEEecCCCCCCHHHHHHHhccCC-ceEEEEEecCCCCCCcceEEEEEecCH-HHHHHHHHhhC
Q 028371 39 SLLVRNLRHDCRPEDLRGPFGQFG-RLKDIYLPRDYYTGEPRGFGFVQYIDP-ADAADAKYHMD 100 (210)
Q Consensus 39 ~l~V~nL~~~~te~~l~~~f~~~G-~i~~v~i~~~~~~g~~~g~afV~f~~~-~~a~~Ai~~l~ 100 (210)
+|.|......-.-.+|..+|..++ .|..+...... +......++++... .....++..|.
T Consensus 2 ~l~i~~~d~~g~l~~i~~~l~~~~~~i~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~l~~~l~ 63 (72)
T cd04878 2 TLSVLVENEPGVLNRISGLFARRGFNIESLTVGPTE--DPGISRITIVVEGDDDVIEQIVKQLN 63 (72)
T ss_pred EEEEEEcCCCcHHHHHHHHHHhCCCCEEEEEeeecC--CCCeEEEEEEEECCHHHHHHHHHHHh
Confidence 344433333334567888888776 56666554221 11122233333321 45555555544
No 247
>PRK01178 rps24e 30S ribosomal protein S24e; Reviewed
Probab=34.27 E-value=1.5e+02 Score=20.38 Aligned_cols=47 Identities=21% Similarity=0.376 Sum_probs=24.0
Q ss_pred CCCHHHHHHHhc-cCCceEEEEE----ecCCCCCCcceEEEEEecCHHHHHHH
Q 028371 48 DCRPEDLRGPFG-QFGRLKDIYL----PRDYYTGEPRGFGFVQYIDPADAADA 95 (210)
Q Consensus 48 ~~te~~l~~~f~-~~G~i~~v~i----~~~~~~g~~~g~afV~f~~~~~a~~A 95 (210)
..+..+|++-+. .|+.=..+.+ ....-.|.+.|||.| |.+.+.|+..
T Consensus 30 tpsr~eirekLa~~~~~~~~~vvv~~~~t~fG~g~s~G~a~I-Yds~e~~kk~ 81 (99)
T PRK01178 30 TPSRKDVRKKLAAMLNADKELVVVRKIKTEYGMGKSKGYAKV-YDDKERARKI 81 (99)
T ss_pred CCCHHHHHHHHHHHHCcCCCEEEEEccCccCCCceEEEEEEE-ECCHHHHHhh
Confidence 455667766654 3442222222 222233556677765 6666666543
No 248
>COG5584 Predicted small secreted protein [Function unknown]
Probab=34.23 E-value=73 Score=21.88 Aligned_cols=30 Identities=17% Similarity=0.300 Sum_probs=23.4
Q ss_pred cCCCCCCHHHHHHHhccCCceEEEEEecCC
Q 028371 44 NLRHDCRPEDLRGPFGQFGRLKDIYLPRDY 73 (210)
Q Consensus 44 nL~~~~te~~l~~~f~~~G~i~~v~i~~~~ 73 (210)
|+..+....-+++.|.+++.|..-+|...+
T Consensus 29 ~is~e~alk~vk~afk~~mnI~GSwI~~~p 58 (103)
T COG5584 29 NISRENALKVVKEAFKQFMNIKGSWIVYEP 58 (103)
T ss_pred ccChhHHHHHHHHHhcccCCcceeEEEEec
Confidence 455666677889999999999987776655
No 249
>cd04908 ACT_Bt0572_1 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains. Included in this CD is the N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains as seen in the uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related ACT domains. These tandem ACT domain proteins belong to the superfamily of ACT regulatory domains.
Probab=34.08 E-value=1.1e+02 Score=18.61 Aligned_cols=45 Identities=18% Similarity=0.235 Sum_probs=28.1
Q ss_pred CHHHHHHHhccCC-ceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHh
Q 028371 50 RPEDLRGPFGQFG-RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYH 98 (210)
Q Consensus 50 te~~l~~~f~~~G-~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~ 98 (210)
.-.+|-++|.+.| .|..+.+... +. .++.-+.+.+.+.|.++|+.
T Consensus 14 ~La~v~~~l~~~~inI~~i~~~~~---~~-~~~~rl~~~~~~~~~~~L~~ 59 (66)
T cd04908 14 RLAAVTEILSEAGINIRALSIADT---SE-FGILRLIVSDPDKAKEALKE 59 (66)
T ss_pred hHHHHHHHHHHCCCCEEEEEEEec---CC-CCEEEEEECCHHHHHHHHHH
Confidence 3467778887766 6777655332 12 35556667777777777754
No 250
>KOG0862 consensus Synaptobrevin/VAMP-like protein SEC22 [Intracellular trafficking, secretion, and vesicular transport]
Probab=33.98 E-value=32 Score=27.25 Aligned_cols=13 Identities=15% Similarity=0.473 Sum_probs=10.1
Q ss_pred CcceEEEEEecCH
Q 028371 77 EPRGFGFVQYIDP 89 (210)
Q Consensus 77 ~~~g~afV~f~~~ 89 (210)
..+.||||+|.+.
T Consensus 107 ~~RPY~FieFD~~ 119 (216)
T KOG0862|consen 107 ASRPYAFIEFDTF 119 (216)
T ss_pred cCCCeeEEehhHH
Confidence 3477999999864
No 251
>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=33.76 E-value=1.3e+02 Score=21.03 Aligned_cols=48 Identities=19% Similarity=0.201 Sum_probs=30.0
Q ss_pred HHHHHHhccCCceEEEEEec-----CC----------CCCCcceEEEEEecCHHHHHHHHHhh
Q 028371 52 EDLRGPFGQFGRLKDIYLPR-----DY----------YTGEPRGFGFVQYIDPADAADAKYHM 99 (210)
Q Consensus 52 ~~l~~~f~~~G~i~~v~i~~-----~~----------~~g~~~g~afV~f~~~~~a~~Ai~~l 99 (210)
+...++|..||.+..+...- .+ ..+..--|.+|+|.+.+...++...+
T Consensus 23 ~~a~~vf~e~GAl~~vE~wgdDvp~G~~TsF~~Av~a~~~E~VVFSWi~wpska~rD~~~~k~ 85 (103)
T PF07237_consen 23 EKAAEVFKEHGALRVVECWGDDVPDGKVTSFPRAVKAKPDETVVFSWIEWPSKATRDAANAKM 85 (103)
T ss_dssp HHHHHHHHHTT-SEEEEEEEEE----SS--HHHHTT--TTEEEEEEEEEESSHHHHHHHHHHH
T ss_pred HHHHHHHHHhCCEEEEEeecCcCCcCccCCHHHHhcCCCCCEEEEEEEEcCCHHHHHHHHHHh
Confidence 34456788999665443221 11 12445678999999998888877654
No 252
>COG0018 ArgS Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=33.73 E-value=2e+02 Score=26.60 Aligned_cols=65 Identities=12% Similarity=0.116 Sum_probs=37.9
Q ss_pred HHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhC--Cee-----E-cCeEEEEEEeecCCCCch
Q 028371 51 PEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMD--GYL-----L-LGRELTVVFAEENRKKPS 122 (210)
Q Consensus 51 e~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~--g~~-----i-~g~~i~v~~a~~~~~~~~ 122 (210)
.++|.+.|..-+.|..|.+.- .||-++.+....-++..+..+. +.. + .|+.|.|+|..++..++-
T Consensus 60 A~~i~~~l~~~~~~~~veiaG-------pgfINf~l~~~~~~~~~~~~l~~~~~~~G~~~~~~~~kV~iE~sSaNptkpl 132 (577)
T COG0018 60 AEEIAEKLDTDEIIEKVEIAG-------PGFINFFLSPEFLAELLLEILEKGDDRYGRSKLGKGKKVVIEYSSANPTGPL 132 (577)
T ss_pred HHHHHHhccccCcEeEEEEcC-------CCEEEEEECHHHHHHHHHHHHHhcccccCccccCCCCEEEEEEeCCCCCCCc
Confidence 355666666655677777751 3555555544344444444444 222 2 578999999988776653
No 253
>PTZ00338 dimethyladenosine transferase-like protein; Provisional
Probab=33.71 E-value=48 Score=27.57 Aligned_cols=22 Identities=9% Similarity=0.010 Sum_probs=18.9
Q ss_pred eEEEecCCCCCCHHHHHHHhcc
Q 028371 39 SLLVRNLRHDCRPEDLRGPFGQ 60 (210)
Q Consensus 39 ~l~V~nL~~~~te~~l~~~f~~ 60 (210)
.++|+|||+.++...|..++..
T Consensus 103 d~VvaNlPY~Istpil~~ll~~ 124 (294)
T PTZ00338 103 DVCVANVPYQISSPLVFKLLAH 124 (294)
T ss_pred CEEEecCCcccCcHHHHHHHhc
Confidence 4778999999999988888864
No 254
>smart00650 rADc Ribosomal RNA adenine dimethylases.
Probab=33.58 E-value=62 Score=24.06 Aligned_cols=23 Identities=17% Similarity=0.031 Sum_probs=18.9
Q ss_pred CeEEEecCCCCCCHHHHHHHhcc
Q 028371 38 TSLLVRNLRHDCRPEDLRGPFGQ 60 (210)
Q Consensus 38 ~~l~V~nL~~~~te~~l~~~f~~ 60 (210)
.-++|+|+|+.++.+.|..++..
T Consensus 78 ~d~vi~n~Py~~~~~~i~~~l~~ 100 (169)
T smart00650 78 PYKVVGNLPYNISTPILFKLLEE 100 (169)
T ss_pred CCEEEECCCcccHHHHHHHHHhc
Confidence 35778999999998888888764
No 255
>PF13046 DUF3906: Protein of unknown function (DUF3906)
Probab=33.47 E-value=49 Score=20.86 Aligned_cols=33 Identities=21% Similarity=0.313 Sum_probs=22.2
Q ss_pred CHHHHHHHhccCCceEEEEEecCCCCCCcceEEEE
Q 028371 50 RPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFV 84 (210)
Q Consensus 50 te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV 84 (210)
-+.+|+..|-+.-+|..+.|...+.-+ +|-|||
T Consensus 31 ~e~eler~fl~~P~v~e~~l~EKKri~--~G~gyV 63 (64)
T PF13046_consen 31 VEVELERHFLPLPEVKEVALYEKKRIR--KGAGYV 63 (64)
T ss_pred HHHHhhhhccCCCCceEEEEEEEEeee--CCceeE
Confidence 356788888888889988887654333 344554
No 256
>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=33.41 E-value=1.5e+02 Score=20.02 Aligned_cols=58 Identities=12% Similarity=0.206 Sum_probs=42.0
Q ss_pred ecCCCCCCHHHHHHH----------hccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeE
Q 028371 43 RNLRHDCRPEDLRGP----------FGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLL 104 (210)
Q Consensus 43 ~nL~~~~te~~l~~~----------f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i 104 (210)
-+||.+++.+++.++ +..-|.+..++-+ .|....++.+.-++.++....|..|.=..+
T Consensus 9 v~~P~~~~~~~~~~~~a~E~~~a~eLq~~G~~~~lWr~----~G~~~n~~Ifdv~d~~eLh~lL~sLPL~p~ 76 (91)
T PF02426_consen 9 VNVPPDMPPEEVDRLKAREKARAQELQRQGKWRHLWRV----VGRYANVSIFDVEDNDELHELLSSLPLFPY 76 (91)
T ss_pred eeCCCCCCHHHHHHHHHHHHHHHHHHHHCCeeeEEEEe----cCCcceEEEEECCCHHHHHHHHHhCCCccc
Confidence 378888887665544 4556888888765 566678888888899998888776665444
No 257
>cd04931 ACT_PAH ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, phenylalanine hydroxylases (PAH). ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, phenylalanine hydroxylases (PAH). PAH catalyzes the hydroxylation of L-Phe to L-Tyr, the first step in the catabolic degradation of L-Phe. In PAH, an autoregulatory sequence, N-terminal of the ACT domain, extends across the catalytic domain active site and regulates the enzyme by intrasteric regulation. It appears that the activation by L-Phe induces a conformational change that converts the enzyme to a high-affinity and high-activity state. Modulation of activity is achieved through inhibition by BH4 and activation by phosphorylation of serine residues of the autoregulatory region. The molecular basis for the cooperative activation process is not fully understood yet. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=33.21 E-value=1.5e+02 Score=19.86 Aligned_cols=60 Identities=10% Similarity=-0.032 Sum_probs=30.6
Q ss_pred eEEEecCCCCC-CHHHHHHHhccCC-ceEEEEEecCCCCCC-cceEEEEEecC--HHHHHHHHHhhC
Q 028371 39 SLLVRNLRHDC-RPEDLRGPFGQFG-RLKDIYLPRDYYTGE-PRGFGFVQYID--PADAADAKYHMD 100 (210)
Q Consensus 39 ~l~V~nL~~~~-te~~l~~~f~~~G-~i~~v~i~~~~~~g~-~~g~afV~f~~--~~~a~~Ai~~l~ 100 (210)
+.+|..|+... .-.++...|..+| .+..|.- -+..+. ..-+-||+|+- .+..+.||+.|.
T Consensus 15 tslif~l~~~pGsL~~vL~~Fa~~~INLt~IeS--RP~~~~~~~Y~FfVDieg~~~~~~~~~l~~L~ 79 (90)
T cd04931 15 ISLIFSLKEEVGALAKVLRLFEEKDINLTHIES--RPSRLNKDEYEFFINLDKKSAPALDPIIKSLR 79 (90)
T ss_pred EEEEEEcCCCCcHHHHHHHHHHHCCCCEEEEEe--ccCCCCCceEEEEEEEEcCCCHHHHHHHHHHH
Confidence 33344454432 3466777788776 3444432 222222 22345788873 344556666654
No 258
>PF08538 DUF1749: Protein of unknown function (DUF1749); InterPro: IPR013744 This is a plant and fungal family of unknown function. This family contains many hypothetical proteins. ; PDB: 2Q0X_B.
Probab=32.80 E-value=39 Score=28.35 Aligned_cols=60 Identities=20% Similarity=0.259 Sum_probs=27.0
Q ss_pred CCCCeEEEecCCCCC-C---HHHHHHHhccCC-ceEEEEEecCCCCCCcceEEEEEec-CHHHHHHHHHhh
Q 028371 35 DLPTSLLVRNLRHDC-R---PEDLRGPFGQFG-RLKDIYLPRDYYTGEPRGFGFVQYI-DPADAADAKYHM 99 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~-t---e~~l~~~f~~~G-~i~~v~i~~~~~~g~~~g~afV~f~-~~~~a~~Ai~~l 99 (210)
.+.+.||||+|.... | -.+|.+.+...+ .|..+.|--.. .||++-..+ +.++..++|+.|
T Consensus 32 ~~~~llfIGGLtDGl~tvpY~~~La~aL~~~~wsl~q~~LsSSy-----~G~G~~SL~~D~~eI~~~v~yl 97 (303)
T PF08538_consen 32 APNALLFIGGLTDGLLTVPYLPDLAEALEETGWSLFQVQLSSSY-----SGWGTSSLDRDVEEIAQLVEYL 97 (303)
T ss_dssp SSSEEEEE--TT--TT-STCHHHHHHHHT-TT-EEEEE--GGGB-----TTS-S--HHHHHHHHHHHHHHH
T ss_pred CCcEEEEECCCCCCCCCCchHHHHHHHhccCCeEEEEEEecCcc-----CCcCcchhhhHHHHHHHHHHHH
Confidence 456689999997642 2 466777775433 34444443222 455554443 445555555544
No 259
>PF01782 RimM: RimM N-terminal domain; InterPro: IPR002676 The RimM protein is essential for efficient processing of 16S rRNA []. The RimM protein was shown to have affinity for free ribosomal 30S subunits but not for 30S subunits in the 70S ribosomes [].; GO: 0006364 rRNA processing; PDB: 2QGG_A 3A1P_C 2DOG_A 2DYI_A 3H9N_A 2F1L_A.
Probab=32.29 E-value=91 Score=20.20 Aligned_cols=24 Identities=17% Similarity=0.122 Sum_probs=16.1
Q ss_pred ceEEEEEecCHHHHHHHHHhhCCee
Q 028371 79 RGFGFVQYIDPADAADAKYHMDGYL 103 (210)
Q Consensus 79 ~g~afV~f~~~~~a~~Ai~~l~g~~ 103 (210)
.+..+|.|+..++.+.|. .|.|..
T Consensus 54 ~~~~i~~~~gi~~r~~Ae-~l~g~~ 77 (84)
T PF01782_consen 54 GKSLIVKFEGIDDREAAE-ALRGCE 77 (84)
T ss_dssp TTEEEEEETT--SHHHHH-TTTT-E
T ss_pred CCEEEEEEcCCCCHHHHH-hhCCCE
Confidence 567899999888888777 566654
No 260
>PRK12378 hypothetical protein; Provisional
Probab=32.22 E-value=1.7e+02 Score=23.60 Aligned_cols=28 Identities=18% Similarity=0.309 Sum_probs=21.5
Q ss_pred CCCeEEEecCCCCC--CHHHHHHHhccCCc
Q 028371 36 LPTSLLVRNLRHDC--RPEDLRGPFGQFGR 63 (210)
Q Consensus 36 ~~~~l~V~nL~~~~--te~~l~~~f~~~G~ 63 (210)
.+..|+|--|..+. |..+|+.+|.++|.
T Consensus 90 gGvaiiVe~lTDN~nRt~~~vr~~f~K~gg 119 (235)
T PRK12378 90 NGVMVIVECLTDNVNRTVANVRSAFNKNGG 119 (235)
T ss_pred CCcEEEEEECCCCHHHHHHHHHHHHhhcCC
Confidence 35678888887765 47899999999864
No 261
>COG3254 Uncharacterized conserved protein [Function unknown]
Probab=32.13 E-value=1.6e+02 Score=20.49 Aligned_cols=42 Identities=19% Similarity=0.229 Sum_probs=25.5
Q ss_pred HHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHH
Q 028371 52 EDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAK 96 (210)
Q Consensus 52 ~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai 96 (210)
.+|.+++...| |.+..|..+. ..+.-||++++.+.+..-++|
T Consensus 27 PE~~a~lk~ag-i~nYSIfLde--~~n~lFgy~E~~d~~a~m~~~ 68 (105)
T COG3254 27 PELLALLKEAG-IRNYSIFLDE--EENLLFGYWEYEDFEADMAKM 68 (105)
T ss_pred HHHHHHHHHcC-CceeEEEecC--CcccEEEEEEEcChHHHHHHH
Confidence 46777788887 4444343332 134679999999655544444
No 262
>cd04905 ACT_CM-PDT C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme. The C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme, found in plants, fungi, bacteria, and archaea. The P-protein of E. coli (CM-PDT, PheA) catalyzes the conversion of chorismate to prephenate and then the decarboxylation and dehydration to form phenylpyruvate. These are the first two steps in the biosynthesis of L-Phe and L-Tyr via the shikimate pathway in microorganisms and plants. The E. coli P-protein (CM-PDT) has three domains with an N-terminal domain with chorismate mutase activity, a middle domain with prephenate dehydratase activity, and an ACT regulatory C-terminal domain. The prephenate dehydratase enzyme has a PDT and ACT domain. The ACT domain is essential to bring about the negative allosteric regulation by L-Phe bindi
Probab=31.80 E-value=1.4e+02 Score=19.01 Aligned_cols=50 Identities=20% Similarity=0.183 Sum_probs=29.2
Q ss_pred HHHHHHHhccCC-ceEEEEEecCCCCCCcceEEEEEecC---HHHHHHHHHhhCC
Q 028371 51 PEDLRGPFGQFG-RLKDIYLPRDYYTGEPRGFGFVQYID---PADAADAKYHMDG 101 (210)
Q Consensus 51 e~~l~~~f~~~G-~i~~v~i~~~~~~g~~~g~afV~f~~---~~~a~~Ai~~l~g 101 (210)
-.+|.++|.++| .|..+...... .....-..||+++. .++.+.+++.|..
T Consensus 15 L~~il~~f~~~~ini~~i~s~p~~-~~~~~~~f~vd~~~~~~~~~~~~~l~~l~~ 68 (80)
T cd04905 15 LYDVLGVFAERGINLTKIESRPSK-GGLWEYVFFIDFEGHIEDPNVAEALEELKR 68 (80)
T ss_pred HHHHHHHHHHCCcCEEEEEEEEcC-CCCceEEEEEEEECCCCCHHHHHHHHHHHH
Confidence 567778888886 56666443322 22223345677763 5666677766654
No 263
>COG0225 MsrA Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]
Probab=31.27 E-value=1.2e+02 Score=23.19 Aligned_cols=76 Identities=9% Similarity=0.060 Sum_probs=39.1
Q ss_pred eEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEE-EEecCHHH---HHHHHHhhCCeeEcCeEEEEEEe
Q 028371 39 SLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGF-VQYIDPAD---AADAKYHMDGYLLLGRELTVVFA 114 (210)
Q Consensus 39 ~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~af-V~f~~~~~---a~~Ai~~l~g~~i~g~~i~v~~a 114 (210)
.|.|.-=|..++-++|.++|...-.-..+ ...- +.....|-- |-+.+.++ |++.++.|....+.+.+|.+++.
T Consensus 59 ~V~V~yDp~~isy~~LL~~ff~ihDPT~~--nrQG-nD~GtqYRs~Iy~~~~~q~~~a~~~~~~~q~~~~~~~~IvteI~ 135 (174)
T COG0225 59 AVEVTYDPKVISYEELLEVFFEIHDPTSL--NRQG-NDRGTQYRSAIYYTNEEQKAIAEASIEELQASGYFKKPIVTEIE 135 (174)
T ss_pred EEEEEeCCccccHHHHHHHHheecCCCCC--CccC-CcccccceeEEEEcCHHHHHHHHHHHHHHHHhccCCCCeEEEee
Confidence 46666667778888888887654211111 1100 011122222 33334444 44455566655666777877776
Q ss_pred ecC
Q 028371 115 EEN 117 (210)
Q Consensus 115 ~~~ 117 (210)
..+
T Consensus 136 p~~ 138 (174)
T COG0225 136 PAK 138 (174)
T ss_pred ccc
Confidence 543
No 264
>KOG2187 consensus tRNA uracil-5-methyltransferase and related tRNA-modifying enzymes [Translation, ribosomal structure and biogenesis]
Probab=30.60 E-value=34 Score=30.83 Aligned_cols=38 Identities=29% Similarity=0.456 Sum_probs=33.0
Q ss_pred ceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEeec
Q 028371 79 RGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEE 116 (210)
Q Consensus 79 ~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~~ 116 (210)
..|++++|++...+..|+..++|..+.+..+.|..+..
T Consensus 63 ~~~~~~~~et~~~~~ka~~~v~g~~~k~~~~~~~~~~~ 100 (534)
T KOG2187|consen 63 PKYAYVTFETPSDAGKAINLVDGLLYKGFILRVQLGAT 100 (534)
T ss_pred CCceEEEEeccchhhhHHHHHhhhhhhcchhhhhhccc
Confidence 57999999999999999999999988888777766654
No 265
>cd04887 ACT_MalLac-Enz ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI and related domains. The ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI, a malolactic enzyme (MalLac-Enz) which converts malate to lactate, and other related ACT domains. The yqkJ product is predicted to convert malate directly to lactate, as opposed to related malic enzymes that convert malate to pyruvate. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=30.36 E-value=1.4e+02 Score=18.43 Aligned_cols=61 Identities=11% Similarity=-0.054 Sum_probs=34.0
Q ss_pred EEEecCCCCCCHHHHHHHhccCC-ceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCC
Q 028371 40 LLVRNLRHDCRPEDLRGPFGQFG-RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDG 101 (210)
Q Consensus 40 l~V~nL~~~~te~~l~~~f~~~G-~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g 101 (210)
|.|......-.-.+|...+...| .|..+...... .+......-|+-.+.+.....+..|..
T Consensus 2 l~v~~~d~~g~L~~i~~~i~~~~~nI~~v~~~~~~-~~~~~~~~~vev~~~~~l~~i~~~L~~ 63 (74)
T cd04887 2 LRLELPNRPGMLGRVTTAIGEAGGDIGAIDLVEQG-RDYTVRDITVDAPSEEHAETIVAAVRA 63 (74)
T ss_pred EEEEeCCCCchHHHHHHHHHHcCCcEEEEEEEEec-CCEEEEEEEEEcCCHHHHHHHHHHHhc
Confidence 44555555556778888888776 67666654322 122112222444577777666665543
No 266
>PRK02886 hypothetical protein; Provisional
Probab=30.33 E-value=1.1e+02 Score=20.53 Aligned_cols=38 Identities=16% Similarity=0.275 Sum_probs=26.4
Q ss_pred HhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCee
Q 028371 57 PFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYL 103 (210)
Q Consensus 57 ~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~ 103 (210)
.+.+||.|..+.=. ..|+ |.|.+.++|+..++.|....
T Consensus 20 ~LrkyG~I~Y~Skr--------~kYv-vlYvn~~~~e~~~~kl~~l~ 57 (87)
T PRK02886 20 QLRKFGNVHYVSKR--------LKYA-VLYCDMEQVEDIMNKLSSLP 57 (87)
T ss_pred HHhhcCcEEEEecc--------ccEE-EEEECHHHHHHHHHHHhcCC
Confidence 46789998776422 3455 44668899999988887643
No 267
>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=30.26 E-value=6.2 Score=24.84 Aligned_cols=59 Identities=14% Similarity=0.088 Sum_probs=29.2
Q ss_pred CeEEEecCCCCCCHHHHHHHhccCCceEE-EEEecCCCCCCcceEEE-EEecCHHHHHHHHHhhC
Q 028371 38 TSLLVRNLRHDCRPEDLRGPFGQFGRLKD-IYLPRDYYTGEPRGFGF-VQYIDPADAADAKYHMD 100 (210)
Q Consensus 38 ~~l~V~nL~~~~te~~l~~~f~~~G~i~~-v~i~~~~~~g~~~g~af-V~f~~~~~a~~Ai~~l~ 100 (210)
..|.|+.+...-..+.+..-+...|.-.. +.+.. +...-..+ -.|.+.++|+.++..|.
T Consensus 5 y~vQv~s~~~~~~A~~~~~~l~~~g~~~~~~~~~~----~~~~yrV~~G~f~~~~~A~~~~~~l~ 65 (76)
T PF05036_consen 5 YYVQVGSFSSEENAERLLAKLKKKGPDAYVVQVSK----GGPWYRVRVGPFSSREEAEAALRKLK 65 (76)
T ss_dssp EEEEEEEES-HHHHHHHHHHHHHHT-----EEEEE----ETTCEEEEECCECTCCHHHHHHHHHH
T ss_pred EEEEEEEcCCHHHHHHHHHHHHhcCCCcceEEEec----CCceEEEEECCCCCHHHHHHHHHHHh
Confidence 45677766543333333444443343222 22221 11122233 37889999999998877
No 268
>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=30.14 E-value=95 Score=20.90 Aligned_cols=24 Identities=21% Similarity=0.115 Sum_probs=18.1
Q ss_pred ceEEEEEecCHHHHHHHHHhhCCe
Q 028371 79 RGFGFVQYIDPADAADAKYHMDGY 102 (210)
Q Consensus 79 ~g~afV~f~~~~~a~~Ai~~l~g~ 102 (210)
.||.||++.-.+++..+|..+.|.
T Consensus 59 pGYvFv~~~~~~~~~~~i~~~~~v 82 (106)
T smart00738 59 PGYIFVEADLEDEVWTAIRGTPGV 82 (106)
T ss_pred CCEEEEEEEeCCcHHHHHhcCCCc
Confidence 499999998666667777776663
No 269
>KOG1719 consensus Dual specificity phosphatase [Defense mechanisms]
Probab=30.04 E-value=1.8e+02 Score=22.08 Aligned_cols=27 Identities=15% Similarity=0.076 Sum_probs=21.8
Q ss_pred cCHHHHHHHHHhhCCeeEcCeEEEEEE
Q 028371 87 IDPADAADAKYHMDGYLLLGRELTVVF 113 (210)
Q Consensus 87 ~~~~~a~~Ai~~l~g~~i~g~~i~v~~ 113 (210)
.+.++...|++.++.....|+.+.|.-
T Consensus 90 Ps~~~i~~aVeFi~k~asLGktvYVHC 116 (183)
T KOG1719|consen 90 PSLENIQKAVEFIHKNASLGKTVYVHC 116 (183)
T ss_pred CCHHHHHHHHHHHHhccccCCeEEEEe
Confidence 477888899988888888888877754
No 270
>PRK05772 translation initiation factor IF-2B subunit alpha; Provisional
Probab=29.90 E-value=1.7e+02 Score=25.25 Aligned_cols=50 Identities=16% Similarity=0.064 Sum_probs=32.8
Q ss_pred CCHHHHHHHhccCC-ceE----EEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhC
Q 028371 49 CRPEDLRGPFGQFG-RLK----DIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMD 100 (210)
Q Consensus 49 ~te~~l~~~f~~~G-~i~----~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~ 100 (210)
++..+++++|..-- .|. .+.|+ | ++..+.-+-||++.+.+++..||+.|.
T Consensus 3 ~~~~~~~~~~~~~~~~i~~~~~~l~~l-D-q~~lP~~~~~~~~~~~~~v~~aI~~M~ 57 (363)
T PRK05772 3 LTVKEVKELFKPKLLPIIWKDNTLTLL-D-QSLLPFETVYVDLKTVEEVALAIRNMQ 57 (363)
T ss_pred chHHHHHHHhCCCCceEEecCCEEEEE-e-cCCCCCeEEEEEeCCHHHHHHHHHhCc
Confidence 46678888887531 111 12222 1 244567789999999999999997754
No 271
>PRK10162 acetyl esterase; Provisional
Probab=29.88 E-value=1.5e+02 Score=24.61 Aligned_cols=58 Identities=14% Similarity=0.002 Sum_probs=34.0
Q ss_pred CCCeEEEecCCCCCCH-HHHHHHhccCCceEEEEEecCCCCCCcceEEEEEec-CHHHHHHHHHhh
Q 028371 36 LPTSLLVRNLRHDCRP-EDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYI-DPADAADAKYHM 99 (210)
Q Consensus 36 ~~~~l~V~nL~~~~te-~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~-~~~~a~~Ai~~l 99 (210)
+++-|+++....-..+ ..+.+.+.+.|.-..+.+... ..++|+.|. ..++|+.|++.+
T Consensus 249 Pp~~i~~g~~D~L~de~~~~~~~L~~aGv~v~~~~~~g------~~H~f~~~~~~~~~a~~~~~~~ 308 (318)
T PRK10162 249 PPCFIAGAEFDPLLDDSRLLYQTLAAHQQPCEFKLYPG------TLHAFLHYSRMMDTADDALRDG 308 (318)
T ss_pred CCeEEEecCCCcCcChHHHHHHHHHHcCCCEEEEEECC------CceehhhccCchHHHHHHHHHH
Confidence 3555666666655543 456666777775444444422 457787775 356666666543
No 272
>cd04930 ACT_TH ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, tyrosine hydroxylases (TH). ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, tyrosine hydroxylases (TH). TH catalyses the hydroxylation of L-Tyr to 3,4-dihydroxyphenylalanine, the rate limiting step in the biosynthesis of catecholamines (dopamine, noradrenaline and adrenaline), functioning as hormones and neurotransmitters. The enzyme is not regulated by its amino acid substrate, but instead by phosphorylation at several serine residues located N-terminal of the ACT domain, and by feedback inhibition by catecholamines at the active site. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=29.78 E-value=2e+02 Score=20.24 Aligned_cols=62 Identities=15% Similarity=0.010 Sum_probs=30.8
Q ss_pred eEEEecCCCCC-CHHHHHHHhccCCceEEEEEecCCCCCCc-ceEEEEEec-CHHHHHHHHHhhCC
Q 028371 39 SLLVRNLRHDC-RPEDLRGPFGQFGRLKDIYLPRDYYTGEP-RGFGFVQYI-DPADAADAKYHMDG 101 (210)
Q Consensus 39 ~l~V~nL~~~~-te~~l~~~f~~~G~i~~v~i~~~~~~g~~-~g~afV~f~-~~~~a~~Ai~~l~g 101 (210)
+.+|..|+... .-.++..+|..+| |.-+.|..-+..+.. .-+-||+++ +.++++.||+.|..
T Consensus 42 tSlifsl~~~pGsL~~iL~~Fa~~g-INLt~IESRP~~~~~~eY~FfIdieg~~~~~~~aL~~L~~ 106 (115)
T cd04930 42 ATLLFSLKEGFSSLSRILKVFETFE-AKIHHLESRPSRKEGGDLEVLVRCEVHRSDLLQLISSLRQ 106 (115)
T ss_pred EEEEEEeCCCCcHHHHHHHHHHHCC-CCEEEEECCcCCCCCceEEEEEEEEeCHHHHHHHHHHHHH
Confidence 33344444433 2456667777775 333333333322222 234466665 44566777776653
No 273
>KOG0635 consensus Adenosine 5'-phosphosulfate kinase [Inorganic ion transport and metabolism]
Probab=29.71 E-value=91 Score=23.66 Aligned_cols=33 Identities=18% Similarity=0.134 Sum_probs=24.2
Q ss_pred CCCCeEEEecCCCC---CCHHHHHHHhccCCceEEE
Q 028371 35 DLPTSLLVRNLRHD---CRPEDLRGPFGQFGRLKDI 67 (210)
Q Consensus 35 ~~~~~l~V~nL~~~---~te~~l~~~f~~~G~i~~v 67 (210)
..+++|||++|+.. +-...|.+++-+-|.+..+
T Consensus 29 qkGcviWiTGLSgSGKStlACaL~q~L~qrgkl~Y~ 64 (207)
T KOG0635|consen 29 QKGCVIWITGLSGSGKSTLACALSQALLQRGKLTYI 64 (207)
T ss_pred CCCcEEEEeccCCCCchhHHHHHHHHHHhcCceEEE
Confidence 56899999999754 4456777777777776554
No 274
>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=29.63 E-value=86 Score=18.97 Aligned_cols=17 Identities=12% Similarity=0.255 Sum_probs=11.5
Q ss_pred cCHHHHHHHHHhhCCee
Q 028371 87 IDPADAADAKYHMDGYL 103 (210)
Q Consensus 87 ~~~~~a~~Ai~~l~g~~ 103 (210)
-+.++++.|++.||...
T Consensus 46 V~~~~~~~a~~~Lh~~f 62 (64)
T cd04917 46 VKEEDKDEVVQRLHSRL 62 (64)
T ss_pred EeHHHHHHHHHHHHHHH
Confidence 34567888888777543
No 275
>KOG3671 consensus Actin regulatory protein (Wiskott-Aldrich syndrome protein) [Signal transduction mechanisms; Cytoskeleton]
Probab=29.18 E-value=1.2e+02 Score=27.26 Aligned_cols=48 Identities=8% Similarity=0.010 Sum_probs=28.2
Q ss_pred CCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCC
Q 028371 49 CRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDG 101 (210)
Q Consensus 49 ~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g 101 (210)
+.+++|..-|.-+-.-.++... .|. .|++=+.|.++++|+..++.+..
T Consensus 90 iWdqELY~nf~y~q~r~ffhtF----egd-dc~aGLnF~~E~EA~~F~k~V~~ 137 (569)
T KOG3671|consen 90 IWDQELYQNFEYRQPRTFFHTF----EGD-DCQAGLNFASEEEAQKFRKKVQD 137 (569)
T ss_pred eehHHhhhhceeccCccceeee----ccc-cceeeecccCHHHHHHHHHHHHH
Confidence 4556666666544322222111 111 45677789999999998877654
No 276
>PRK02302 hypothetical protein; Provisional
Probab=29.11 E-value=1.2e+02 Score=20.49 Aligned_cols=38 Identities=8% Similarity=0.155 Sum_probs=26.4
Q ss_pred HhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCee
Q 028371 57 PFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYL 103 (210)
Q Consensus 57 ~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~ 103 (210)
-+.+||.|..+.=. ..|+. .|.+.++|+..++.|....
T Consensus 22 ~LrkfG~I~Y~Skk--------~kYvv-lYvn~~~~e~~~~kl~~l~ 59 (89)
T PRK02302 22 KLSKYGDIVYHSKR--------SRYLV-LYVNKEDVEQKLEELSKLK 59 (89)
T ss_pred HHhhcCcEEEEecc--------ccEEE-EEECHHHHHHHHHHHhcCC
Confidence 46789998776422 34554 4668999999988877643
No 277
>TIGR00279 L10e ribosomal protein L10.e. L10.e is distantly related to eubacterial ribosomal protein L16.
Probab=29.11 E-value=2.3e+02 Score=21.66 Aligned_cols=18 Identities=11% Similarity=-0.121 Sum_probs=10.8
Q ss_pred CHHHHHHHHHhhCCeeEcC
Q 028371 88 DPADAADAKYHMDGYLLLG 106 (210)
Q Consensus 88 ~~~~a~~Ai~~l~g~~i~g 106 (210)
+.+.|..|+.. -...|..
T Consensus 141 ~~~~AkeAlr~-A~~KLP~ 158 (172)
T TIGR00279 141 NFDVAKEALRR-AAMKFPV 158 (172)
T ss_pred CHHHHHHHHHH-HhccCCC
Confidence 55888888843 3444443
No 278
>COG0217 Uncharacterized conserved protein [Function unknown]
Probab=29.00 E-value=2.3e+02 Score=22.99 Aligned_cols=38 Identities=18% Similarity=0.277 Sum_probs=26.5
Q ss_pred CCCeEEEecCCCCC--CHHHHHHHhccCCc-eE---EEEEecCC
Q 028371 36 LPTSLLVRNLRHDC--RPEDLRGPFGQFGR-LK---DIYLPRDY 73 (210)
Q Consensus 36 ~~~~l~V~nL~~~~--te~~l~~~f~~~G~-i~---~v~i~~~~ 73 (210)
.+.-|+|..|..+. |..+|+..|.+.|. +- .|.++.+.
T Consensus 93 ~GvaiiVe~LTDN~NRTas~vR~~F~K~GG~lg~~GSV~~mF~~ 136 (241)
T COG0217 93 GGVAIIVEALTDNRNRTASNVRSAFNKNGGNLGEPGSVSYMFDR 136 (241)
T ss_pred CceEEEEEeccCCcchhHHHHHHHHHhcCCccCCCceEEEEEec
Confidence 35678898887664 57899999998863 22 35555554
No 279
>PF01842 ACT: ACT domain; InterPro: IPR002912 The ACT domain is found in a variety of contexts and is proposed to be a conserved regulatory binding fold. ACT domains are linked to a wide range of metabolic enzymes that are regulated by amino acid concentration. The archetypical ACT domain is the C-terminal regulatory domain of 3-phosphoglycerate dehydrogenase (3PGDH), which folds with a ferredoxin-like topology. A pair of ACT domains form an eight-stranded antiparallel sheet with two molecules of allosteric inhibitor serine bound in the interface. Biochemical exploration of a few other proteins containing ACT domains supports the suggestions that these domains contain the archetypical ACT structure [].; GO: 0016597 amino acid binding, 0008152 metabolic process; PDB: 3L76_B 2F06_B 3NRB_C 1Y7P_C 2QMX_A 2DT9_A 2ZHO_D 3K5P_A 3TVI_K 3C1M_C ....
Probab=28.90 E-value=1.3e+02 Score=17.76 Aligned_cols=47 Identities=17% Similarity=0.217 Sum_probs=24.5
Q ss_pred CHHHHHHHhccCC-ceEEEEEecCCCCCCcceEEEEEec-CHHHHHHHHHhh
Q 028371 50 RPEDLRGPFGQFG-RLKDIYLPRDYYTGEPRGFGFVQYI-DPADAADAKYHM 99 (210)
Q Consensus 50 te~~l~~~f~~~G-~i~~v~i~~~~~~g~~~g~afV~f~-~~~~a~~Ai~~l 99 (210)
.-.+|..+|...| .|..+........ ..++|+.+. +...++.+++.|
T Consensus 13 ~l~~v~~~la~~~inI~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~l 61 (66)
T PF01842_consen 13 ILADVTEILADHGINIDSISQSSDKDG---VGIVFIVIVVDEEDLEKLLEEL 61 (66)
T ss_dssp HHHHHHHHHHHTTEEEEEEEEEEESST---TEEEEEEEEEEGHGHHHHHHHH
T ss_pred HHHHHHHHHHHcCCCHHHeEEEecCCC---ceEEEEEEECCCCCHHHHHHHH
Confidence 3567778888776 5666655544311 334444332 444444444433
No 280
>CHL00123 rps6 ribosomal protein S6; Validated
Probab=28.78 E-value=1.9e+02 Score=19.66 Aligned_cols=57 Identities=12% Similarity=0.121 Sum_probs=28.8
Q ss_pred eEEEecCCCCCCHHHHHHHh-------ccCC-ceEEEEEecC-----CCCCCcce-EEEEEecCHHHHHHHHH
Q 028371 39 SLLVRNLRHDCRPEDLRGPF-------GQFG-RLKDIYLPRD-----YYTGEPRG-FGFVQYIDPADAADAKY 97 (210)
Q Consensus 39 ~l~V~nL~~~~te~~l~~~f-------~~~G-~i~~v~i~~~-----~~~g~~~g-~afV~f~~~~~a~~Ai~ 97 (210)
++|| |.++++++++..++ ...| +|..+...-. +..+...| |.++.|.-..++...++
T Consensus 10 ~~~I--l~p~l~e~~~~~~~~~~~~~i~~~gg~i~~~~~wG~r~LAY~I~k~~~G~Yv~~~f~~~~~~i~ele 80 (97)
T CHL00123 10 TMYL--LKPDLNEEELLKWIENYKKLLRKRGAKNISVQNRGKRKLSYKINKYEDGIYIQMNYSGNGKLVNSLE 80 (97)
T ss_pred EEEE--ECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEeecCeeeeEEcCCCCEEEEEEEEEEECHHHHHHHH
Confidence 4555 35556666555554 3433 5555432110 11233455 57888886555555554
No 281
>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=28.31 E-value=69 Score=24.48 Aligned_cols=34 Identities=15% Similarity=0.130 Sum_probs=24.4
Q ss_pred CCeEEEecCCC--CC-CHHHHHHHhccCCceEEEEEe
Q 028371 37 PTSLLVRNLRH--DC-RPEDLRGPFGQFGRLKDIYLP 70 (210)
Q Consensus 37 ~~~l~V~nL~~--~~-te~~l~~~f~~~G~i~~v~i~ 70 (210)
-..+||-+.+. +. ..+.|.+...+||.|..+.+.
T Consensus 21 ~~~~FvvG~~~~~~~~~~~~l~~E~~~y~Dil~~d~~ 57 (195)
T PF01762_consen 21 VKVVFVVGESPNSDSDLQEALQEEAEKYGDILQGDFV 57 (195)
T ss_pred EEEEEEEecCCCCcHHHHHHhhhhhhhcCceEeeecc
Confidence 45678877776 32 244588888999999887765
No 282
>cd04902 ACT_3PGDH-xct C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH). The C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH), with an extended C-terminal (xct) region from bacteria, archaea, fungi, and plants. 3PGDH is an enzyme that belongs to the D-isomer specific, 2-hydroxyacid dehydrogenase family and catalyzes the oxidation of D-3-phosphoglycerate to 3- phosphohydroxypyruvate, which is the first step in the biosynthesis of L-serine, using NAD+ as the oxidizing agent. In bacteria, 3PGDH is feedback-controlled by the end product L-serine in an allosteric manner. Some 3PGDH enzymes have an additional domain formed by an extended C-terminal region. This additional domain introduces significant asymmetry to the homotetramer. Adjacent ACT (regulatory) domains interact, creating two serine-binding sites, however, this asymmetric arrangement results in the formation of two different and distinct domain interfaces between iden
Probab=27.98 E-value=1.5e+02 Score=18.05 Aligned_cols=59 Identities=15% Similarity=0.218 Sum_probs=28.9
Q ss_pred EEecCCCCCCHHHHHHHhccCC-ceEEEEEecCCCCCCcceEEEEEecC--HHHHHHHHHhhCC
Q 028371 41 LVRNLRHDCRPEDLRGPFGQFG-RLKDIYLPRDYYTGEPRGFGFVQYID--PADAADAKYHMDG 101 (210)
Q Consensus 41 ~V~nL~~~~te~~l~~~f~~~G-~i~~v~i~~~~~~g~~~g~afV~f~~--~~~a~~Ai~~l~g 101 (210)
+|..-...-.-.+|.++|.++| .|..+.+.... .....+..+...+ ..++..+++.+.|
T Consensus 3 ~v~~~d~~G~l~~i~~~l~~~~inI~~~~~~~~~--~~~~~~~~i~v~~~~~~~~~~~l~~~~~ 64 (73)
T cd04902 3 VVRNTDRPGVIGKVGTILGEAGINIAGMQVGRDE--PGGEALMVLSVDEPVPDEVLEELRALPG 64 (73)
T ss_pred EEEeCCCCCHHHHHHHHHHHcCcChhheEeeccC--CCCEEEEEEEeCCCCCHHHHHHHHcCCC
Confidence 3333333344567788888876 56555543221 1123334444433 2344555555554
No 283
>smart00434 TOP4c DNA Topoisomerase IV. Bacterial DNA topoisomerase IV, GyrA, ParC
Probab=27.90 E-value=1.1e+02 Score=27.10 Aligned_cols=57 Identities=14% Similarity=0.145 Sum_probs=32.9
Q ss_pred CeEEEecCCCCCCHHHHHHHhcc---CCceEEEEEecCCCCCCcceEEE-EEecCHHHHHHH
Q 028371 38 TSLLVRNLRHDCRPEDLRGPFGQ---FGRLKDIYLPRDYYTGEPRGFGF-VQYIDPADAADA 95 (210)
Q Consensus 38 ~~l~V~nL~~~~te~~l~~~f~~---~G~i~~v~i~~~~~~g~~~g~af-V~f~~~~~a~~A 95 (210)
++|.|+-||+.++.+.+.+.+.. -++|..|.-..+..+. ..+..| |++.....++..
T Consensus 233 ~~ivItElP~~~~~~~~~e~I~~lv~~~ki~~i~~~~des~~-~~~vrivI~lk~~~~~~~~ 293 (445)
T smart00434 233 NTIVITELPYQVNKAKLIEKIAELVKDKKIEGIIDVRDESHD-RTGVRIVIELKRGAMAEVV 293 (445)
T ss_pred ceEEEEeCCCcccHHHHHHHHHHHHhcCCCCcceehhhccCC-CCceEEEEEECCCcCHHHH
Confidence 68999999999998888876543 3445444333333211 244555 455443334433
No 284
>PF13689 DUF4154: Domain of unknown function (DUF4154)
Probab=27.88 E-value=1.3e+02 Score=21.87 Aligned_cols=35 Identities=23% Similarity=0.170 Sum_probs=25.3
Q ss_pred ceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEe
Q 028371 79 RGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFA 114 (210)
Q Consensus 79 ~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a 114 (210)
..+-++.+.+.. ...++..|.+..+.|+.|.|..-
T Consensus 26 ~~~~icv~g~~~-~~~~L~~l~~~~~~~~~i~v~~~ 60 (145)
T PF13689_consen 26 SPFRICVLGDDP-FAEALSTLAGKQVGGRPIRVRRL 60 (145)
T ss_pred CCeEEEEECChH-HHHHHHHhhhcccCCCcEEEEEC
Confidence 345666666555 44577788889999999988754
No 285
>PHA03008 hypothetical protein; Provisional
Probab=27.80 E-value=94 Score=24.42 Aligned_cols=38 Identities=13% Similarity=0.242 Sum_probs=31.6
Q ss_pred CCCCCeEEEecCCCCCCHHHHHHHhccCCceEEEEEec
Q 028371 34 RDLPTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPR 71 (210)
Q Consensus 34 ~~~~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~ 71 (210)
++....+||.|+..--...-|+-+|.+|..+.+|.++.
T Consensus 18 ~~~~d~~~~snit~~h~~n~i~~ff~~~d~~~~~ifvp 55 (234)
T PHA03008 18 DEICDIAFISNITHIHDHNIIKIFFDKFDDFDEIIFVP 55 (234)
T ss_pred cccccEEEEecccccccccHHHHHHhhccccceEEEcc
Confidence 34456789999998888899999999999998887763
No 286
>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=27.69 E-value=9.6 Score=23.33 Aligned_cols=36 Identities=25% Similarity=0.313 Sum_probs=16.9
Q ss_pred ceEEEEEecC-HHHHHHHHHhhCCeeEcCeEEEEEEee
Q 028371 79 RGFGFVQYID-PADAADAKYHMDGYLLLGRELTVVFAE 115 (210)
Q Consensus 79 ~g~afV~f~~-~~~a~~Ai~~l~g~~i~g~~i~v~~a~ 115 (210)
.|||||...+ .++.--.-..|+ ..++|-.+.|.+..
T Consensus 8 ~GfGFv~~~~~~~DifIp~~~l~-~A~~gD~V~v~i~~ 44 (58)
T PF08206_consen 8 KGFGFVIPDDGGEDIFIPPRNLN-GAMDGDKVLVRITP 44 (58)
T ss_dssp SS-EEEEECT-TEEEEE-HHHHT-TS-TT-EEEEEEEE
T ss_pred CCCEEEEECCCCCCEEECHHHHC-CCCCCCEEEEEEec
Confidence 8999999886 111111112223 23355566666655
No 287
>PF03389 MobA_MobL: MobA/MobL family; InterPro: IPR005053 This entry represents a domain found at the N terminus of MobA in Escherichia coli, and MobL in Thiobacillus ferrooxidans (Acidithiobacillus ferrooxidans), as well as in conjugal transfer protein TraA. MobA and MobL are mobilisation proteins, which are essential for specific plasmid transfer.; GO: 0009291 unidirectional conjugation; PDB: 2NS6_A.
Probab=27.34 E-value=1.7e+02 Score=23.07 Aligned_cols=48 Identities=13% Similarity=0.178 Sum_probs=26.9
Q ss_pred CeEEEecCCCCCCHHH--------HHHHhccCCceEEEEEecCCCCCCcceEEEEEecC
Q 028371 38 TSLLVRNLRHDCRPED--------LRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYID 88 (210)
Q Consensus 38 ~~l~V~nL~~~~te~~--------l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~ 88 (210)
..=||-.||.+++.++ ++++|..+|-+..+.|..+. ...-+|.|.|.+
T Consensus 68 are~~iALP~EL~~eq~~~L~~~f~~~~~~~~G~~~d~aIH~d~---~~NpHaHim~t~ 123 (216)
T PF03389_consen 68 AREFEIALPRELTLEQNIELVREFAQENFVDYGMAADVAIHDDG---PRNPHAHIMFTT 123 (216)
T ss_dssp EEEEEEE--TTS-HHHHHHHHHHHHHHHHTTTT--EEEEEEEET---TTEEEEEEEE--
T ss_pred eeeeeeeCCccCCHHHHHHHHHHHHHHHhhccceEEEEEEecCC---CCCCEEEEEeec
Confidence 4456779999988643 34446667888888887532 235578887764
No 288
>PF14268 YoaP: YoaP-like
Probab=26.30 E-value=75 Score=18.42 Aligned_cols=33 Identities=15% Similarity=0.179 Sum_probs=24.6
Q ss_pred EEEEecCHHHHHHHHHhhCCe--eEcCeEEEEEEe
Q 028371 82 GFVQYIDPADAADAKYHMDGY--LLLGRELTVVFA 114 (210)
Q Consensus 82 afV~f~~~~~a~~Ai~~l~g~--~i~g~~i~v~~a 114 (210)
-+|.+++.++|+.|-.-++.. .++|+.|.+++-
T Consensus 3 ~~i~i~t~e~Aq~~P~pft~yalFYnGkfiT~eil 37 (44)
T PF14268_consen 3 KLIKIDTLEKAQNAPCPFTTYALFYNGKFITNEIL 37 (44)
T ss_pred EEEEeccHHHHhcCCCceeEEEEEECCEEEEeecc
Confidence 478888999999886555553 467888888774
No 289
>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=26.10 E-value=1.4e+02 Score=23.39 Aligned_cols=54 Identities=22% Similarity=0.265 Sum_probs=32.7
Q ss_pred CCHHHHHHHhccCCc---eEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEc
Q 028371 49 CRPEDLRGPFGQFGR---LKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLL 105 (210)
Q Consensus 49 ~te~~l~~~f~~~G~---i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~ 105 (210)
.+.+++.++...+|. |...++... |..++-+...-.+.++|..+...|-|..|.
T Consensus 25 ~s~eea~~~~~~l~~~~~VvKaQvl~G---gRGK~GgVk~~~s~~ea~~~a~~mlg~~l~ 81 (202)
T PF08442_consen 25 TSPEEAREAAKELGGKPLVVKAQVLAG---GRGKAGGVKIAKSPEEAKEAAKEMLGKTLK 81 (202)
T ss_dssp SSHHHHHHHHHHHTTSSEEEEE-SSSS---TTTTTTCEEEESSHHHHHHHHHTTTTSEEE
T ss_pred CCHHHHHHHHHHhCCCcEEEEEeEeec---CcccCCceeecCCHHHHHHHHHHHhCCceE
Confidence 356677776666553 445555432 333332232345789999999998888876
No 290
>PF13721 SecD-TM1: SecD export protein N-terminal TM region
Probab=25.45 E-value=2.3e+02 Score=19.44 Aligned_cols=57 Identities=9% Similarity=0.068 Sum_probs=36.0
Q ss_pred CeEEEecCCCCCC---HHHHHHHhccCC-ceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCe
Q 028371 38 TSLLVRNLRHDCR---PEDLRGPFGQFG-RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGY 102 (210)
Q Consensus 38 ~~l~V~nL~~~~t---e~~l~~~f~~~G-~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~ 102 (210)
..|.|......++ ..+|...+..-| .++.+... .+-..|.|.+.++-..|.+.|...
T Consensus 32 pAvqIs~~~~~~~~~~~~~v~~~L~~~~I~~k~i~~~--------~~~llirf~~~~~Ql~Ak~~L~~~ 92 (101)
T PF13721_consen 32 PAVQISASSAGVQLPDAFQVEQALKAAGIAVKSIEQE--------GDSLLIRFDSTDQQLKAKDVLSKA 92 (101)
T ss_pred CcEEEecCCCCccCChHHHHHHHHHHCCCCcceEEee--------CCEEEEEECCHHHHHHHHHHHHHH
Confidence 3566665432222 357888888776 34445443 346788999998888787766543
No 291
>KOG2855 consensus Ribokinase [Carbohydrate transport and metabolism]
Probab=25.34 E-value=1.3e+02 Score=25.67 Aligned_cols=48 Identities=10% Similarity=0.037 Sum_probs=32.3
Q ss_pred CCCCeEEEecCCCCCCHHHHHHHhccCC-ceEEEEEecCCCCCCcceEEEEEe
Q 028371 35 DLPTSLLVRNLRHDCRPEDLRGPFGQFG-RLKDIYLPRDYYTGEPRGFGFVQY 86 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te~~l~~~f~~~G-~i~~v~i~~~~~~g~~~g~afV~f 86 (210)
-...+.|||+|-.+.--++|...+.++| .+..|.... +...++|+|..
T Consensus 59 LG~~~afiGkvGdD~fG~~l~~~L~~~~V~~~~v~~~~----~~~T~~a~i~v 107 (330)
T KOG2855|consen 59 LGGRVAFIGKVGDDEFGDDLLDILKQNGVDTSGVKFDE----NARTACATITV 107 (330)
T ss_pred cCcceeeeecccchhhHHHHHHHHhhCCcccccceecC----CCceEEEEEEE
Confidence 3478899999999888899999999876 233444332 23345555543
No 292
>KOG4388 consensus Hormone-sensitive lipase HSL [Lipid transport and metabolism]
Probab=25.28 E-value=1.1e+02 Score=28.52 Aligned_cols=59 Identities=10% Similarity=0.150 Sum_probs=39.2
Q ss_pred CCCeEEEecCCCCCCHHH-HHHHhccCCceEEEEEecCCCCCCcceEEEEEec-----CHHHHHHHHHhhC
Q 028371 36 LPTSLLVRNLRHDCRPED-LRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYI-----DPADAADAKYHMD 100 (210)
Q Consensus 36 ~~~~l~V~nL~~~~te~~-l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~-----~~~~a~~Ai~~l~ 100 (210)
+++.|...++++-..... +..-+...|+++.+.|+.+ .-++|+.|. ..+.++.||+.|.
T Consensus 788 Pp~~i~ac~mDP~LDD~vmfA~kLr~lG~~v~l~vle~------lPHGFLnft~ls~E~~~~~~~CI~rl~ 852 (880)
T KOG4388|consen 788 PPVHIVACAMDPMLDDSVMFARKLRNLGQPVTLRVLED------LPHGFLNFTALSRETRQAAELCIERLR 852 (880)
T ss_pred CCceEEEeccCcchhHHHHHHHHHHhcCCceeehhhhc------CCccceeHHhhCHHHHHHHHHHHHHHH
Confidence 467777778877665432 2334567899999988855 557888885 4456666766554
No 293
>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=25.27 E-value=2.5e+02 Score=22.60 Aligned_cols=28 Identities=18% Similarity=0.334 Sum_probs=21.3
Q ss_pred CCCeEEEecCCCCC--CHHHHHHHhccCCc
Q 028371 36 LPTSLLVRNLRHDC--RPEDLRGPFGQFGR 63 (210)
Q Consensus 36 ~~~~l~V~nL~~~~--te~~l~~~f~~~G~ 63 (210)
.+..|+|.-|..+. |..+|+.+|.++|.
T Consensus 93 ~GvaiiVe~lTDN~nRt~~~ir~~f~K~gg 122 (238)
T TIGR01033 93 GGVAIIVECLTDNKNRTASEVRSAFNKNGG 122 (238)
T ss_pred CceEEEEEEecCCHHhHHHHHHHHHHHcCC
Confidence 35667787787665 47899999999874
No 294
>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=25.05 E-value=1.9e+02 Score=20.15 Aligned_cols=20 Identities=15% Similarity=0.212 Sum_probs=13.6
Q ss_pred CCCeEEEecCCCCCCHHHHH
Q 028371 36 LPTSLLVRNLRHDCRPEDLR 55 (210)
Q Consensus 36 ~~~~l~V~nL~~~~te~~l~ 55 (210)
....||||+++.....+.|.
T Consensus 5 i~~~l~~g~~~~~~d~~~L~ 24 (139)
T cd00127 5 ITPGLYLGSYPAASDKELLK 24 (139)
T ss_pred EcCCeEECChhHhcCHHHHH
Confidence 45579999998766544443
No 295
>KOG1546 consensus Metacaspase involved in regulation of apoptosis [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=24.99 E-value=4.4e+02 Score=22.55 Aligned_cols=90 Identities=18% Similarity=0.192 Sum_probs=45.9
Q ss_pred CCCCCCCCCCCCCCCCCCCeEEEecCCCCCCHHHHHH-----------HhccCC-ceEEEEEecCCCCCCcceEEEEEec
Q 028371 20 YRSPSPRGHYGGRGRDLPTSLLVRNLRHDCRPEDLRG-----------PFGQFG-RLKDIYLPRDYYTGEPRGFGFVQYI 87 (210)
Q Consensus 20 ~~sp~~~~~~~~~~~~~~~~l~V~nL~~~~te~~l~~-----------~f~~~G-~i~~v~i~~~~~~g~~~g~afV~f~ 87 (210)
..+|+|...+--+.........|-++.+--|..+|+- +.+.|| ....|.|+.+..+ -.+...
T Consensus 46 ~~~PpPq~~~~~~~~~gkrrAvLiGINY~gTk~ELrGCINDv~~M~~~Lv~rfGFs~ddI~~LtDt~~------s~~~~P 119 (362)
T KOG1546|consen 46 YPNPPPQPPYQYPQMAGKRRAVLIGINYPGTKNELRGCINDVHRMRKLLVERFGFSEDDILMLTDTDE------SPVRIP 119 (362)
T ss_pred CCCCCCCCCCCCccccccceEEEEeecCCCcHHHHhhhHHHHHHHHHHHHHhhCCChhheEEEecCCC------cccccC
Confidence 4455555333322222233355557777777666653 235677 3455666655321 122334
Q ss_pred CHHHHHHHHHhhCCeeEcCeEEEEEEee
Q 028371 88 DPADAADAKYHMDGYLLLGRELTVVFAE 115 (210)
Q Consensus 88 ~~~~a~~Ai~~l~g~~i~g~~i~v~~a~ 115 (210)
+......||.-|-...--|-.|.+.|+-
T Consensus 120 T~~Nir~Al~wLV~~aq~gD~LvfHYSG 147 (362)
T KOG1546|consen 120 TGKNIRRALRWLVESAQPGDSLVFHYSG 147 (362)
T ss_pred cHHHHHHHHHHHHhcCCCCCEEEEEecC
Confidence 4555556665444333345667777764
No 296
>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=24.82 E-value=1.8e+02 Score=22.75 Aligned_cols=56 Identities=20% Similarity=0.128 Sum_probs=34.6
Q ss_pred CCHHHHHH---HhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcC
Q 028371 49 CRPEDLRG---PFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLG 106 (210)
Q Consensus 49 ~te~~l~~---~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g 106 (210)
+++++|.. ++..|| |.++. +.|..++...-..|+.=.+.+.+..|++.+....+..
T Consensus 39 i~~~~lk~F~k~AkKyG-V~yav-~kdk~~~~~~~~V~FkA~Da~~i~~af~~~~~~~~~~ 97 (204)
T PF12687_consen 39 ITDEDLKEFKKEAKKYG-VDYAV-KKDKSTGPGKYDVFFKAKDADVINRAFKEFSAKKLKK 97 (204)
T ss_pred cCHhhHHHHHHHHHHcC-CceEE-eeccCCCCCcEEEEEEcCcHHHHHHHHHHHHHHhhhh
Confidence 34445544 456787 44443 4455455445566666678888889998877765544
No 297
>PHA01632 hypothetical protein
Probab=24.71 E-value=75 Score=19.41 Aligned_cols=19 Identities=16% Similarity=0.300 Sum_probs=15.4
Q ss_pred EecCCCCCCHHHHHHHhcc
Q 028371 42 VRNLRHDCRPEDLRGPFGQ 60 (210)
Q Consensus 42 V~nL~~~~te~~l~~~f~~ 60 (210)
|..+|..-||++|+..+.+
T Consensus 21 ieqvp~kpteeelrkvlpk 39 (64)
T PHA01632 21 IEQVPQKPTEEELRKVLPK 39 (64)
T ss_pred hhhcCCCCCHHHHHHHHHH
Confidence 4578999999999987654
No 298
>cd04883 ACT_AcuB C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. This CD includes the C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. AcuB is putatively involved in the anaerobic catabolism of acetoin, and related proteins. Studies report the induction of AcuB by nitrate respiration and also by fermentation. Since acetoin can be secreted and later serve as a source of carbon, it has been proposed that, during anaerobic growth when other carbon sources are exhausted, the induction of the AcuB protein results in acetoin catabolism. AcuB-like proteins have two N-terminal tandem CBS domains and a single C-terminal ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=24.36 E-value=1.8e+02 Score=17.73 Aligned_cols=47 Identities=11% Similarity=0.145 Sum_probs=25.3
Q ss_pred CHHHHHHHhccCC-ceEEEEEecCCCCCCcceEEEEEec--CHHHHHHHHHh
Q 028371 50 RPEDLRGPFGQFG-RLKDIYLPRDYYTGEPRGFGFVQYI--DPADAADAKYH 98 (210)
Q Consensus 50 te~~l~~~f~~~G-~i~~v~i~~~~~~g~~~g~afV~f~--~~~~a~~Ai~~ 98 (210)
.-..|..+|.++| .|..+..... ........+|.++ +.+++..+|..
T Consensus 14 ~l~~i~~~l~~~~inI~~i~~~~~--~~~~~~~v~i~v~~~~~~~~~~~L~~ 63 (72)
T cd04883 14 QLADIAAIFKDRGVNIVSVLVYPS--KEEDNKILVFRVQTMNPRPIIEDLRR 63 (72)
T ss_pred HHHHHHHHHHHcCCCEEEEEEecc--CCCCeEEEEEEEecCCHHHHHHHHHH
Confidence 3467778888776 5666654322 1222334455554 55555666644
No 299
>PTZ00372 endonuclease 4-like protein; Provisional
Probab=24.36 E-value=1e+02 Score=27.08 Aligned_cols=59 Identities=14% Similarity=0.084 Sum_probs=37.5
Q ss_pred CCCeEEEecCCCC-----CCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEE---EecCHHHHHHHHHhhC
Q 028371 36 LPTSLLVRNLRHD-----CRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFV---QYIDPADAADAKYHMD 100 (210)
Q Consensus 36 ~~~~l~V~nL~~~-----~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV---~f~~~~~a~~Ai~~l~ 100 (210)
.+.+|.|.|++.. .+.++|.+++..+.....|.++.| .+++|. .+.+.+.+...++.++
T Consensus 267 ~gV~IlLENmag~g~~lG~~~eeL~~Iid~v~~~~rlGvCLD------TcHafaAGydl~t~e~~~~~l~~f~ 333 (413)
T PTZ00372 267 KSVIIVLENTAGQKNSVGSKFEDLRDIIALVEDKSRVGVCLD------TCHLFAAGYDIRTKESFDKVMKEFD 333 (413)
T ss_pred CCCEEEEecCCCCCCcccCCHHHHHHHHHhcCCcCCeEEEEE------HHHHHhcCCCCCcHHHHHHHHHHHH
Confidence 3577889998763 367889999988765455666666 344442 2345566666665544
No 300
>KOG4357 consensus Uncharacterized conserved protein (involved in mesoderm differentiation in humans) [General function prediction only]
Probab=24.22 E-value=2.8e+02 Score=20.05 Aligned_cols=26 Identities=19% Similarity=0.138 Sum_probs=21.0
Q ss_pred EEEEEecCHHHHHHHHHhhCCeeEcC
Q 028371 81 FGFVQYIDPADAADAKYHMDGYLLLG 106 (210)
Q Consensus 81 ~afV~f~~~~~a~~Ai~~l~g~~i~g 106 (210)
-|+..|.+-+.|-.|...|-|+.++.
T Consensus 115 raifm~kdge~a~e~k~fll~qd~~a 140 (164)
T KOG4357|consen 115 RAIFMFKDGEQAFEAKDFLLGQDFCA 140 (164)
T ss_pred eEEEEEeChhHHHHHHHHhhccchhe
Confidence 57888999999999988888776553
No 301
>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=23.98 E-value=4.4e+02 Score=22.14 Aligned_cols=39 Identities=13% Similarity=0.203 Sum_probs=28.7
Q ss_pred eEEEEEecCC--CCCCcceEEEEEecCHHHHHHHHHhhCCe
Q 028371 64 LKDIYLPRDY--YTGEPRGFGFVQYIDPADAADAKYHMDGY 102 (210)
Q Consensus 64 i~~v~i~~~~--~~g~~~g~afV~f~~~~~a~~Ai~~l~g~ 102 (210)
|+.|.|+... ...-++.||.++|-+...|..+++.|...
T Consensus 174 lEsIDlVna~~~~~~Fp~~YaILtFlnIsMAiEV~dYlk~~ 214 (309)
T PF10567_consen 174 LESIDLVNADEPSKHFPKNYAILTFLNISMAIEVLDYLKSN 214 (309)
T ss_pred EEEEEEeccCcccccCCcceEEEeehhHHhHHHHHHHHHhc
Confidence 5667766432 23446789999999999999998877643
No 302
>PLN02707 Soluble inorganic pyrophosphatase
Probab=23.92 E-value=32 Score=28.29 Aligned_cols=41 Identities=15% Similarity=0.162 Sum_probs=24.8
Q ss_pred HHHHHHhccCCceEEEEEecCCCCCCcceEEEE-EecCHHHHHHHHHhhCC
Q 028371 52 EDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFV-QYIDPADAADAKYHMDG 101 (210)
Q Consensus 52 ~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV-~f~~~~~a~~Ai~~l~g 101 (210)
++|+++|..|-... . .....|||+ +|.+.+.|.++|+..+.
T Consensus 208 ~~I~~fF~~YK~~e------G---K~~n~~~~~~~~~~~~~A~~vI~e~~~ 249 (267)
T PLN02707 208 TAIRDWFRDYKIPD------G---KPANKFGLDNKPMDKDYALKVIEETNE 249 (267)
T ss_pred HHHHHHHHHhcCCC------C---CceeeccccCCcCCHHHHHHHHHHHHH
Confidence 57777777773221 0 111335554 78899999888866543
No 303
>PRK15464 cold shock-like protein CspH; Provisional
Probab=23.48 E-value=56 Score=20.91 Aligned_cols=38 Identities=18% Similarity=0.161 Sum_probs=20.3
Q ss_pred ceEEEEEecCH-HHH---HHHHHhhCC--eeEcCeEEEEEEeecC
Q 028371 79 RGFGFVQYIDP-ADA---ADAKYHMDG--YLLLGRELTVVFAEEN 117 (210)
Q Consensus 79 ~g~afV~f~~~-~~a---~~Ai~~l~g--~~i~g~~i~v~~a~~~ 117 (210)
+||+||+=.+- +++ ..||+. ++ ....|..|..++....
T Consensus 16 KGfGFI~~~~g~~DvFvH~s~l~~-~g~~~l~~G~~V~f~v~~~~ 59 (70)
T PRK15464 16 SGKGFIIPSDGRKEVQVHISAFTP-RDAEVLIPGLRVEFCRVNGL 59 (70)
T ss_pred CCeEEEccCCCCccEEEEehhehh-cCCCCCCCCCEEEEEEEECC
Confidence 89999976542 222 122221 22 2345777777776543
No 304
>PF04026 SpoVG: SpoVG; InterPro: IPR007170 This is a stage V sporulation protein G. It is essential for sporulation and specific to stage V sporulation in Bacillus megaterium and Bacillus subtilis []. In B. subtilis, expression decreases after 30-60 minutes of cold shock [].; GO: 0030435 sporulation resulting in formation of a cellular spore; PDB: 2IA9_F 2I9X_B 2I9Z_A.
Probab=23.36 E-value=1.6e+02 Score=19.56 Aligned_cols=26 Identities=19% Similarity=0.377 Sum_probs=18.9
Q ss_pred ceEEEEEecCCCCCCcceEEEEEecC
Q 028371 63 RLKDIYLPRDYYTGEPRGFGFVQYID 88 (210)
Q Consensus 63 ~i~~v~i~~~~~~g~~~g~afV~f~~ 88 (210)
+|.+|.|..-...+..++||=|+|.+
T Consensus 2 ~itdVri~~~~~~~~lka~asV~~dd 27 (84)
T PF04026_consen 2 KITDVRIRKIEPEGKLKAFASVTFDD 27 (84)
T ss_dssp -EEEEEEEETTSSSSEEEEEEEEETT
T ss_pred ccEEEEEEEecCCCCEEEEEEEEECC
Confidence 35667665555458889999999976
No 305
>PF11061 DUF2862: Protein of unknown function (DUF2862); InterPro: IPR021291 This family of proteins has no known function.
Probab=23.34 E-value=2e+02 Score=18.12 Aligned_cols=43 Identities=21% Similarity=0.484 Sum_probs=25.4
Q ss_pred eEEE--ecCCCCCCHHHHHHHhcc--CCceEEEEEecCCCCCCcceEE-EEEecC
Q 028371 39 SLLV--RNLRHDCRPEDLRGPFGQ--FGRLKDIYLPRDYYTGEPRGFG-FVQYID 88 (210)
Q Consensus 39 ~l~V--~nL~~~~te~~l~~~f~~--~G~i~~v~i~~~~~~g~~~g~a-fV~f~~ 88 (210)
+|-| .-+-.-+.+ +|.+.+.+ .|.|...+|.-. .|.+ +|+|.+
T Consensus 4 kVrV~~~~irDRi~~-~l~~~l~~~~~g~I~~fKmtDG------~giG~vv~~~n 51 (64)
T PF11061_consen 4 KVRVNLSRIRDRIPK-ELVDKLGKNPIGTIKGFKMTDG------SGIGVVVEFSN 51 (64)
T ss_pred EEEEeehhhhhhccH-HHHHHhccCCcEEEEEEEEecC------CcEEEEEEecC
Confidence 4444 444444444 45555665 889999988733 4544 567764
No 306
>cd01201 Neurobeachin Neurobeachin Pleckstrin homology-like domain. Neurobeachin Pleckstrin homology-like domain. This domain is found in the large multi-domain eukaryotic protein Nerubeachin, N-terminal to the BEACH domain. This PH-like domain interacts with the BEACH domain in the same manner used by other PH-like domains to bind peptides.
Probab=23.28 E-value=2.6e+02 Score=19.61 Aligned_cols=54 Identities=15% Similarity=0.275 Sum_probs=35.8
Q ss_pred EEEecCCCCCCHHHHHHHhcc-CC---ceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhC
Q 028371 40 LLVRNLRHDCRPEDLRGPFGQ-FG---RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMD 100 (210)
Q Consensus 40 l~V~nL~~~~te~~l~~~f~~-~G---~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~ 100 (210)
.|..++...+.-.+|++++.. |. .-.+|.+. + ..-.|+.|.+.+.+++.+..|.
T Consensus 49 ~~~~~~~~~w~ls~Ir~v~~RRylLr~~alEiF~~-d------~~~~f~~F~~~~~~k~vv~~lp 106 (108)
T cd01201 49 SYCEELHGKWPFSEIRAIFSRRYLLQNTALELFLA-S------RTSIFFAFPDQNAVKKVVYALP 106 (108)
T ss_pred eccccccceeeHHHHHHHHHHhhhcccceEEEEEe-C------CceEEEEeCcHHHHHHHHhhcC
Confidence 344566667788899998863 42 12234443 1 2457999999999998887654
No 307
>PF09702 Cas_Csa5: CRISPR-associated protein (Cas_Csa5); InterPro: IPR010157 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a minor family of Cas protein found in various species of Sulfolobus and Pyrococcus (all archaeal). It is found with two different CRISPR loci in Sulfolobus solfataricus.
Probab=23.27 E-value=86 Score=21.79 Aligned_cols=23 Identities=13% Similarity=0.159 Sum_probs=15.8
Q ss_pred CCCCCeEEEecCCCCCCHHHHHHHhc
Q 028371 34 RDLPTSLLVRNLRHDCRPEDLRGPFG 59 (210)
Q Consensus 34 ~~~~~~l~V~nL~~~~te~~l~~~f~ 59 (210)
...++.++++.|| +.+|++.|+.
T Consensus 61 ekeg~~i~~g~lP---t~~eVe~Fl~ 83 (105)
T PF09702_consen 61 EKEGNYIIVGYLP---TDEEVEDFLD 83 (105)
T ss_pred cCCCCEEecCCCC---ChHHHHHHHH
Confidence 3456889999999 4566666654
No 308
>smart00633 Glyco_10 Glycosyl hydrolase family 10.
Probab=23.13 E-value=3.5e+02 Score=21.59 Aligned_cols=24 Identities=17% Similarity=0.171 Sum_probs=14.9
Q ss_pred ecCHHHHHHHHHhhCCeeEcCeEEEEE
Q 028371 86 YIDPADAADAKYHMDGYLLLGRELTVV 112 (210)
Q Consensus 86 f~~~~~a~~Ai~~l~g~~i~g~~i~v~ 112 (210)
+.+.+....+|+.|... |.+|.|.
T Consensus 165 ~~~~~~~~~~l~~~~~~---g~pi~iT 188 (254)
T smart00633 165 SPNIAEIRAALDRFASL---GLEIQIT 188 (254)
T ss_pred CCCHHHHHHHHHHHHHc---CCceEEE
Confidence 34667777777766532 6666654
No 309
>PRK05738 rplW 50S ribosomal protein L23; Reviewed
Probab=23.12 E-value=2.1e+02 Score=19.31 Aligned_cols=31 Identities=13% Similarity=0.366 Sum_probs=23.0
Q ss_pred eEEEecCCCCCCHHHHHHHhcc-CC-ceEEEEE
Q 028371 39 SLLVRNLRHDCRPEDLRGPFGQ-FG-RLKDIYL 69 (210)
Q Consensus 39 ~l~V~nL~~~~te~~l~~~f~~-~G-~i~~v~i 69 (210)
..|+..++..++..+|++.|+. || .|..|..
T Consensus 21 n~~~F~V~~~a~K~eIK~aie~lf~VkV~~VnT 53 (92)
T PRK05738 21 NKYVFEVAPDATKPEIKAAVEKLFGVKVESVNT 53 (92)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHcCCceeEEEE
Confidence 4667778899999999999987 44 4455543
No 310
>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=22.90 E-value=98 Score=24.15 Aligned_cols=46 Identities=22% Similarity=0.186 Sum_probs=29.2
Q ss_pred CHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhh
Q 028371 50 RPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHM 99 (210)
Q Consensus 50 te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l 99 (210)
+.++..+++..++.-. +.|..| |...|-+.+.+.+.++|..|++.|
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 5667777777665322 334433 344444566678999999998765
No 311
>PF13820 Nucleic_acid_bd: Putative nucleic acid-binding region
Probab=22.83 E-value=1.1e+02 Score=22.79 Aligned_cols=58 Identities=17% Similarity=0.234 Sum_probs=32.7
Q ss_pred EEEecCCCC-CCHHHHHHHhccC-Cc-eEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCC
Q 028371 40 LLVRNLRHD-CRPEDLRGPFGQF-GR-LKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDG 101 (210)
Q Consensus 40 l~V~nL~~~-~te~~l~~~f~~~-G~-i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g 101 (210)
+|+|+|... .+-++|+..+... +. +..+.+... ..-+-+.|+|.-+.+|...|..|-.
T Consensus 7 a~~G~l~~~~~~ld~i~~~l~~L~~~~~~~l~~~~~----~~~~sv~V~f~ipreaa~~Lr~LA~ 67 (149)
T PF13820_consen 7 AYIGGLRMFQYKLDDIKNWLASLYKPRISDLKVRKV----EPWNSVRVTFSIPREAATRLRQLAQ 67 (149)
T ss_pred EEECChhhhHHHHHHHHHHHHHHHhcccccceeecc----ccCceEEEEEechHHHHHHHHHHhh
Confidence 566777611 2234555555432 22 223333221 2246799999999988887776654
No 312
>KOG2996 consensus Rho guanine nucleotide exchange factor VAV3 [Signal transduction mechanisms]
Probab=22.60 E-value=53 Score=30.18 Aligned_cols=61 Identities=11% Similarity=0.200 Sum_probs=40.7
Q ss_pred HHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEE
Q 028371 51 PEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVV 112 (210)
Q Consensus 51 e~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~ 112 (210)
++.-+.++++| ++..-.|..+..+.....|+|-.|.+...|+.+-..|.|..+.|..+.-+
T Consensus 497 e~~kkkWmeqf-ema~SNi~Pdya~an~H~fqmhtF~~~tsCkvC~mllrGtfYQGY~C~~c 557 (865)
T KOG2996|consen 497 EDLKKKWMEQF-EMAKSNISPDYARANNHDFQMHTFKNTTSCKVCQMLLRGTFYQGYKCEKC 557 (865)
T ss_pred HHHHHHHHHHH-HHHHhcCCcccccccCcceEEEeccCCcchHHHHHHhhhhhhcceeeeec
Confidence 33333444444 23333344455566667899999999999998888889988888766544
No 313
>KOG2854 consensus Possible pfkB family carbohydrate kinase [Carbohydrate transport and metabolism]
Probab=22.60 E-value=88 Score=26.61 Aligned_cols=62 Identities=10% Similarity=0.052 Sum_probs=34.7
Q ss_pred CCeEEEecCCCCCCHHHHHHHhccCCceE-----EEEEecCC-----CCCCcceEEEEEecCHHHHHHHHHh
Q 028371 37 PTSLLVRNLRHDCRPEDLRGPFGQFGRLK-----DIYLPRDY-----YTGEPRGFGFVQYIDPADAADAKYH 98 (210)
Q Consensus 37 ~~~l~V~nL~~~~te~~l~~~f~~~G~i~-----~v~i~~~~-----~~g~~~g~afV~f~~~~~a~~Ai~~ 98 (210)
...+||+++-..+..+.|..+-+..-+.. .+.++... .-.+...|+.|.|.|+++|....+.
T Consensus 160 a~v~yv~Gffltv~p~ai~~v~qh~~e~~r~~~lnlsapfI~q~~~~~l~~v~~y~DiifgNe~EA~af~~~ 231 (343)
T KOG2854|consen 160 AKVFYVAGFFLTVSPDAIRKVAQHAAENNRVFTLNLSAPFISQFFKDALDKVLPYADIIFGNEDEAAAFARA 231 (343)
T ss_pred eeEEEEEEEEEEeChHHHHHHHHHHHHhcchhheeccchhHHHHHHHHHHhhcCcceEEEcCHHHHHHHHHh
Confidence 45678888877776665554433221111 11111000 0123356899999999999876643
No 314
>PF14401 RLAN: RimK-like ATPgrasp N-terminal domain
Probab=22.35 E-value=1.4e+02 Score=22.34 Aligned_cols=58 Identities=12% Similarity=0.047 Sum_probs=32.3
Q ss_pred CCeEEEecCCCCCCHHHHHHHhccCC-ceEEEEEecCCCCCCcceEEEEEecCHHHHHH
Q 028371 37 PTSLLVRNLRHDCRPEDLRGPFGQFG-RLKDIYLPRDYYTGEPRGFGFVQYIDPADAAD 94 (210)
Q Consensus 37 ~~~l~V~nL~~~~te~~l~~~f~~~G-~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~ 94 (210)
..+||.|.-+..--+.--..+|+.|- +|..|.+..............+.+.+..+.+.
T Consensus 87 ~l~iyFG~~~~~~~~~lAr~lFe~F~~PlL~v~~~~~~~~w~i~~i~~~~~~~l~~~e~ 145 (153)
T PF14401_consen 87 ELSIYFGQTPDPRLERLARQLFERFPCPLLEVEFVRDDGKWRISSIKPLSLSELSEEEQ 145 (153)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHhCCCceEEEEEEecCCcEEEeeEeecChhhCCHHHH
Confidence 34677776655555556667788774 66777776554212333444455544444333
No 315
>TIGR02381 cspD cold shock domain protein CspD. This model represents what appears to be a phylogenetically distinct clade, containing E. coli CspD and related proteobacterial proteins within the larger family of cold shock domain proteins described by pfam model pfam00313. The gene symbol cspD may have been used idependently for other subfamilies of cold shock domain proteins, such as for B. subtilis CspD. These proteins typically are shorter than 70 amino acids. In E. coli, CspD is a stress response protein induced in stationary phase. This homodimer binds single-stranded DNA and appears to inhibit DNA replication.
Probab=22.29 E-value=73 Score=20.07 Aligned_cols=38 Identities=24% Similarity=0.370 Sum_probs=20.4
Q ss_pred ceEEEEEecC-HHHH---HHHHHhhCC--eeEcCeEEEEEEeecC
Q 028371 79 RGFGFVQYID-PADA---ADAKYHMDG--YLLLGRELTVVFAEEN 117 (210)
Q Consensus 79 ~g~afV~f~~-~~~a---~~Ai~~l~g--~~i~g~~i~v~~a~~~ 117 (210)
+||+||+-.+ .+++ ..+|.. .+ ..-.|..|..++....
T Consensus 13 kGfGFI~~~~g~~dvfvH~s~~~~-~g~~~l~~G~~V~f~~~~~~ 56 (68)
T TIGR02381 13 KGFGFICPEGVDGDIFAHYSTIQM-DGYRTLKAGQKVQFEVVQGP 56 (68)
T ss_pred CCeEEEecCCCCccEEEEHHHhhh-cCCCCCCCCCEEEEEEEECC
Confidence 8999997765 2332 122321 22 2345677777666543
No 316
>cd04894 ACT_ACR-like_1 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the N-terminal ACT domain of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) have been described, however, the ACR-like sequences in this CD are distinct from those characterized. This CD includes the Oryza sativa ACR-like protein (Os05g0113000) encoded on chromosome 5 and the Arabidopsis thaliana predicted gene product, At2g39570. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=22.29 E-value=2.1e+02 Score=18.10 Aligned_cols=38 Identities=16% Similarity=0.152 Sum_probs=23.9
Q ss_pred cCCCCCC-HHHHHHHhccCC-ceEEEEEecCCCCCCcceEEEEEec
Q 028371 44 NLRHDCR-PEDLRGPFGQFG-RLKDIYLPRDYYTGEPRGFGFVQYI 87 (210)
Q Consensus 44 nL~~~~t-e~~l~~~f~~~G-~i~~v~i~~~~~~g~~~g~afV~f~ 87 (210)
|-|..+- -.||-.+.-.|| .|..-.+..| -..|||.|.
T Consensus 6 nCPDktGLgcdlcr~il~fGl~i~rgd~sTD------GkWCyiv~w 45 (69)
T cd04894 6 NCPDKTGLGCDLCRIILEFGLNITRGDDSTD------GRWCYIVFW 45 (69)
T ss_pred eCCCccCcccHHHHHHHHhceEEEecccccC------CcEEEEEEE
Confidence 5555544 467777777888 3444455444 348999885
No 317
>cd07052 BMC_like_1_repeat2 Bacterial Micro-Compartment (BMC)-like domain 1 repeat 2. BMC-like domains exist in cyanobacteria, proteobacteria, and actinobacteria and are homologs of the carboxysome shell proteins. They might be encoded from putative organelles involved in unknown metabolic process. Although it has been suggested that these carboxysome shell protein homologs form hexamers and further assemble into the flat facets of the polyhedral bacterial organelles shell at present no experimental evidence exists to directly support this view. Proteins in this CD contain two tandem BMC domains. This CD includes repeat 2 (the second BMC domain of BMC like 1 proteins).
Probab=22.18 E-value=2.4e+02 Score=18.59 Aligned_cols=20 Identities=25% Similarity=0.260 Sum_probs=13.5
Q ss_pred ceEEEEEec-CHHHHHHHHHh
Q 028371 79 RGFGFVQYI-DPADAADAKYH 98 (210)
Q Consensus 79 ~g~afV~f~-~~~~a~~Ai~~ 98 (210)
-|++|+.+. +..+++.|++.
T Consensus 53 Ggk~~~~ltGdva~V~~A~~a 73 (79)
T cd07052 53 GAFGRLYLSGTEADVRAARDA 73 (79)
T ss_pred ccEEEEEEeecHHHHHHHHHH
Confidence 677887776 66666666653
No 318
>PF05929 Phage_GPO: Phage capsid scaffolding protein (GPO) serine peptidase; InterPro: IPR009228 This entry is represented by Bacteriophage P2, GpO. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several bacteriophage capsid scaffolding protein (GpO) and some related bacterial sequences. GpO is thought to function in both the assembly of proheads and the cleavage of GpN [].; GO: 0019069 viral capsid assembly
Probab=21.99 E-value=2.6e+02 Score=23.13 Aligned_cols=17 Identities=24% Similarity=0.501 Sum_probs=12.8
Q ss_pred HhccCCceEEEEEecCC
Q 028371 57 PFGQFGRLKDIYLPRDY 73 (210)
Q Consensus 57 ~f~~~G~i~~v~i~~~~ 73 (210)
.|..||.|..|+.-...
T Consensus 52 ~f~~~GdV~alkaEe~~ 68 (276)
T PF05929_consen 52 PFGNYGDVLALKAEEID 68 (276)
T ss_pred ccccccceEEEEEEEcc
Confidence 37889999988766543
No 319
>PF09341 Pcc1: Transcription factor Pcc1; InterPro: IPR015419 Pcc1 is a proposed transcription factor involved in the expression of genes regulated by alpha-factor and galactose; component of the EKC/KEOPS protein complex with Kae1, Gon7, Bud32, and Cgi121; related to human cancer-testis antigens [].; PDB: 2BNR_C 2P5W_C 3KLA_C 2F54_C 2P5E_C 2F53_C 3ENO_E 3ENC_B.
Probab=21.93 E-value=1.4e+02 Score=19.02 Aligned_cols=36 Identities=8% Similarity=-0.022 Sum_probs=23.8
Q ss_pred eEEEEEecCHHHHHHHHHhhCC------------eeEcCeEEEEEEee
Q 028371 80 GFGFVQYIDPADAADAKYHMDG------------YLLLGRELTVVFAE 115 (210)
Q Consensus 80 g~afV~f~~~~~a~~Ai~~l~g------------~~i~g~~i~v~~a~ 115 (210)
..+-|.|.+++.|+.|++.|.- ..+.|..|.|.|.-
T Consensus 3 ~~l~i~f~s~~~A~ii~~sL~~d~e~~~~~~~~~~~~~~~~L~i~~~A 50 (76)
T PF09341_consen 3 FTLEIPFESEEKAEIIYRSLKPDKELKPSRVKRELSVDGNKLVITIEA 50 (76)
T ss_dssp EEEEEE-SSHHHHHHHHHHHHHHHH-SS-SSEEEEEEESSEEEEEEEE
T ss_pred EEEEEEeCCHHHHHHHHHHhCCCCCCCCCcEEEEEEEeCCEEEEEEEE
Confidence 4567899999999988776532 23456666666653
No 320
>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=21.90 E-value=2.2e+02 Score=17.93 Aligned_cols=52 Identities=21% Similarity=0.170 Sum_probs=32.1
Q ss_pred cCC-CCCCHHHHHHHhc-cCCce-EEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhC
Q 028371 44 NLR-HDCRPEDLRGPFG-QFGRL-KDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMD 100 (210)
Q Consensus 44 nL~-~~~te~~l~~~f~-~~G~i-~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~ 100 (210)
.++ ..++-++|...+. .|+.. ..+.|..... -| .+|...+.++.+.|++.+.
T Consensus 15 ~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~y~D~----e~-d~v~l~sd~Dl~~a~~~~~ 69 (81)
T cd05992 15 VVVSRSISFEDLRSKIAEKFGLDAVSFKLKYPDE----DG-DLVTISSDEDLEEAIEEAR 69 (81)
T ss_pred EEecCCCCHHHHHHHHHHHhCCCCCcEEEEeeCC----CC-CEEEeCCHHHHHHHHHHHh
Confidence 444 7778777777664 34432 2333322111 22 6899999999999998765
No 321
>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=21.85 E-value=1.4e+02 Score=24.64 Aligned_cols=45 Identities=22% Similarity=0.212 Sum_probs=28.3
Q ss_pred CCCCeEEEecCCCCCCHHHHHHHhcc-CCceEEEEEecCCCCCCcce
Q 028371 35 DLPTSLLVRNLRHDCRPEDLRGPFGQ-FGRLKDIYLPRDYYTGEPRG 80 (210)
Q Consensus 35 ~~~~~l~V~nL~~~~te~~l~~~f~~-~G~i~~v~i~~~~~~g~~~g 80 (210)
+.+..||+-+|...+++++. .||.. +-....-.|..++.++..+|
T Consensus 19 E~G~VL~fP~l~F~l~~~E~-~fL~p~~~d~k~KNIs~~p~~~~l~G 64 (281)
T PF11004_consen 19 EQGKVLYFPQLRFPLSPEER-AFLDPAIVDPKRKNISYRPNTGSLRG 64 (281)
T ss_pred hCCCEEEeCCCCCCCChhHH-hhcChhhhCCCCCceeecCCCCceec
Confidence 56889999999999998876 55543 32222223334444566565
No 322
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=21.81 E-value=1.9e+02 Score=24.79 Aligned_cols=51 Identities=12% Similarity=-0.088 Sum_probs=34.6
Q ss_pred HHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEE
Q 028371 51 PEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGREL 109 (210)
Q Consensus 51 e~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i 109 (210)
-++|+..|..---+..++...+ --||.|.+..+.++-|-..++..+.+.++
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 4667777766555555554433 24778888888888887888877776554
No 323
>cd04458 CSP_CDS Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein. CSP expression is up-regulated by an abrupt drop in growth temperature. CSP's are also expressed under normal condition at lower level. The function of cold-shock proteins is not fully understood. They preferentially bind poly-pyrimidine region of single-stranded RNA and DNA. CSP's are thought to bind mRNA and regulate ribosomal translation, mRNA degradation, and the rate of transcription termination. The human Y-box protein, which contains a CSD, regulates transcription and translation of genes that contain the Y-box sequence in their promoters. This specific ssDNA-binding properties of CSD are required for the binding of Y-box protein to the promoter's Y-box sequence, thereby regulating transcription.
Probab=21.76 E-value=46 Score=20.44 Aligned_cols=38 Identities=26% Similarity=0.259 Sum_probs=19.6
Q ss_pred ceEEEEEecC-HHHH---HHHHHhh-CCeeEcCeEEEEEEeec
Q 028371 79 RGFGFVQYID-PADA---ADAKYHM-DGYLLLGRELTVVFAEE 116 (210)
Q Consensus 79 ~g~afV~f~~-~~~a---~~Ai~~l-~g~~i~g~~i~v~~a~~ 116 (210)
+||+||+-.+ .+++ ..++... ......|..|..++...
T Consensus 12 kGfGFI~~~~~g~diffh~~~~~~~~~~~~~~G~~V~f~~~~~ 54 (65)
T cd04458 12 KGFGFITPDDGGEDVFVHISALEGDGFRSLEEGDRVEFELEEG 54 (65)
T ss_pred CCeEEEecCCCCcCEEEEhhHhhccCCCcCCCCCEEEEEEEEC
Confidence 7899997765 3332 1222211 12234566666666554
No 324
>smart00518 AP2Ec AP endonuclease family 2. These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites
Probab=21.56 E-value=2.1e+02 Score=22.94 Aligned_cols=37 Identities=19% Similarity=0.134 Sum_probs=24.3
Q ss_pred CCCeEEEecCCCC-----CCHHHHHHHhccCCceEEEEEecC
Q 028371 36 LPTSLLVRNLRHD-----CRPEDLRGPFGQFGRLKDIYLPRD 72 (210)
Q Consensus 36 ~~~~l~V~nL~~~-----~te~~l~~~f~~~G~i~~v~i~~~ 72 (210)
.+.+|.|-|++.. .+.+++.+++..++....|.++.|
T Consensus 132 ~gv~l~lEn~~~~~~~~~~~~~~~~~ll~~v~~~~~~g~~lD 173 (273)
T smart00518 132 KGVVILLETTAGKGSQIGSTFEDLKEIIDLIKELDRIGVCID 173 (273)
T ss_pred CCcEEEEeccCCCCCccCCCHHHHHHHHHhcCCCCCeEEEEE
Confidence 3567788887542 356778888877765445666666
No 325
>PF11910 NdhO: Cyanobacterial and plant NDH-1 subunit O; InterPro: IPR020905 NAD(P)H-quinone oxidoreductase (NDH-1) shuttles electrons from an unknown electron donor, via FMN and iron-sulphur (Fe-S) centres, to quinones in the respiratory and/or the photosynthetic chain. The immediate electron acceptor for the enzyme in this species is believed to be plastoquinone. It couples the redox reaction to proton translocation, and thus conserves the redox energy in a proton gradient. Cyanobacterial NDH-1 also plays a role in inorganic carbon-concentration. NDH-1 can be composed of about 15 different subunits, although different subcomplexes with different compositions have been identified which probably have different functions. This entry represents subunit O. ; GO: 0016655 oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor, 0055114 oxidation-reduction process, 0005886 plasma membrane
Probab=21.56 E-value=90 Score=19.74 Aligned_cols=22 Identities=23% Similarity=0.271 Sum_probs=15.7
Q ss_pred HHhccCCceEEEEEecCCCCCCcceEEEEEec
Q 028371 56 GPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYI 87 (210)
Q Consensus 56 ~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~ 87 (210)
-+|+.-|+|..|. -.||+|.|.
T Consensus 30 Yife~~GEvl~ik----------gdYa~vr~~ 51 (67)
T PF11910_consen 30 YIFEGPGEVLDIK----------GDYAQVRFR 51 (67)
T ss_pred ceecCCCeEEEec----------CCEEEEEec
Confidence 3577778886654 458999994
No 326
>PRK09937 stationary phase/starvation inducible regulatory protein CspD; Provisional
Probab=21.55 E-value=71 Score=20.64 Aligned_cols=9 Identities=44% Similarity=0.918 Sum_probs=6.8
Q ss_pred ceEEEEEec
Q 028371 79 RGFGFVQYI 87 (210)
Q Consensus 79 ~g~afV~f~ 87 (210)
+||+||+=.
T Consensus 13 KGfGFI~~~ 21 (74)
T PRK09937 13 KGFGFICPE 21 (74)
T ss_pred CCeEEEeeC
Confidence 788888654
No 327
>PLN02655 ent-kaurene oxidase
Probab=21.53 E-value=1.6e+02 Score=25.79 Aligned_cols=49 Identities=14% Similarity=0.020 Sum_probs=32.9
Q ss_pred EEecCCCC---CCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHh
Q 028371 41 LVRNLRHD---CRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYH 98 (210)
Q Consensus 41 ~V~nL~~~---~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~ 98 (210)
+||||..- -....+.+++.+||.|..+.+. +.-+|...+.+.++.++..
T Consensus 9 ~iG~l~~~~~~~~~~~~~~~~~~yG~i~~~~~g---------~~~~vvv~~pe~~k~il~~ 60 (466)
T PLN02655 9 VIGNLLQLKEKKPHRTFTKWSEIYGPIYTIRTG---------ASSVVVLNSTEVAKEAMVT 60 (466)
T ss_pred ccccHHHcCCCchhHHHHHHHHHhCCeEEEEEC---------CEeEEEeCCHHHHHHHHHh
Confidence 46765332 1346788888999998776653 2346667788888888743
No 328
>PF07876 Dabb: Stress responsive A/B Barrel Domain; InterPro: IPR013097 The stress-response A/B barrel domain is found in a class of stress-response proteins in plants. It is also found in some bacterial fructose-bisphosphate aldolase such as at the C terminus of a fructose 1,6-bisphosphate aldolase from Hydrogenophilus thermoluteolus (Q9ZA13 from SWISSPROT) []. Q93NG5 from SWISSPROT is found in the pA01 plasmid, which encodes genes for molybdopterin uptake and degradation of plant alkaloid nicotine. The stress-response A/B barrel domain forms a very stable dimer. This dimer belongs to the superfamily of dimeric alpha+beta barrels in which the two beta-sheets form a beta-barrel. The two molecules in the dimer are related by a 2-fold axis parallel to helix H1 and beta-strands B3 and B4. C-terminal residues extending from the beta4 strand of each monomer wrap around and connect with the beta2 strand and alpha1 helix of the opposing monomer to form the dimer interface [, , ].The outer surface of the beta-sheets of the two molecules forms a beta-barrel-like structure defining a central pore. The function of the stress-response A/B barrel domain is unknown [, , ], but it is upregulated in response to salt stress in Populus balsamifera (balsam poplar) []. Some proteins known to contain a stress response A/B barrel domain are listed below: - Arabidopsis thaliana At3g17210 - Arabidopsis thaliana At5g22580 -Populus tremula stable protein 1 (SP-1)(Populus species), a thermostable stress-responsive protein. - Pseudomonas hydrogenothermophila fructose 1,6-bisphosphate aldolase (cbbA). The structure of one of these proteins has been solved (Q9LUV2 from SWISSPROT) and the domain forms an alpha-beta barrel dimer [].; PDB: 3BB5_E 3FMB_A 3BDE_B 2QYC_A 1Q53_B 2Q3P_A 1Q4R_A 3BN7_A 3BGU_B 1RJJ_B ....
Probab=21.53 E-value=2.4e+02 Score=18.34 Aligned_cols=57 Identities=9% Similarity=0.188 Sum_probs=32.8
Q ss_pred eEEEecCCCCCCHHHHHHHhc-------cCCceEEEEEecCCCCC---CcceEE-EEEecCHHHHHHH
Q 028371 39 SLLVRNLRHDCRPEDLRGPFG-------QFGRLKDIYLPRDYYTG---EPRGFG-FVQYIDPADAADA 95 (210)
Q Consensus 39 ~l~V~nL~~~~te~~l~~~f~-------~~G~i~~v~i~~~~~~g---~~~g~a-fV~f~~~~~a~~A 95 (210)
.|.+..|...++++++.+++. ....|..+.+-.+.... ..-.++ +++|.+.++.+.-
T Consensus 3 Hivlfklk~~~~~~~~~~~~~~l~~l~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~~~l~~Y 70 (97)
T PF07876_consen 3 HIVLFKLKPDATEEEIEEVLEALRALKDKIPGIVSFEVGRNFSPEDLAKGYDHALVSTFESEEDLDAY 70 (97)
T ss_dssp EEEEEEESTTTCHHHHHHHHHHHHHHHHHSTTECEEEEEEESSTSSTSTT-SEEEEEEESSHHHHHHH
T ss_pred EEEEEEECCCCCHHHHHHHHHHHHhcccCCCceEEEEEEcccCcccccCCCcEEEEEEECCHHHHHHH
Confidence 355668888999888765543 33345666554432221 223344 5688888776543
No 329
>PRK12450 foldase protein PrsA; Reviewed
Probab=21.51 E-value=1.4e+02 Score=24.97 Aligned_cols=39 Identities=15% Similarity=0.229 Sum_probs=29.3
Q ss_pred CCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhC
Q 028371 48 DCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMD 100 (210)
Q Consensus 48 ~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~ 100 (210)
.+|+++|+.+|..|.+ .+. ..+|.+.+.+.|+.+++.|.
T Consensus 132 ~Vtd~evk~~y~~~~~--~~~------------~~~I~~~~~~~A~~i~~~l~ 170 (309)
T PRK12450 132 TISKKDYRQAYDAYTP--TMT------------AEIMQFEKEEDAKAALEAVK 170 (309)
T ss_pred CCCHHHHHHHHHHhCc--cce------------eEEEEeCCHHHHHHHHHHHH
Confidence 4799999999987632 111 23577889999999999885
No 330
>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=21.50 E-value=1.5e+02 Score=19.76 Aligned_cols=58 Identities=14% Similarity=0.217 Sum_probs=31.2
Q ss_pred eEEEecCCCCCCHHHHHHHhccCCc---eEEEEEecCCCCCCcceEEEEEec--CHHHHHHHHHhhCC
Q 028371 39 SLLVRNLRHDCRPEDLRGPFGQFGR---LKDIYLPRDYYTGEPRGFGFVQYI--DPADAADAKYHMDG 101 (210)
Q Consensus 39 ~l~V~nL~~~~te~~l~~~f~~~G~---i~~v~i~~~~~~g~~~g~afV~f~--~~~~a~~Ai~~l~g 101 (210)
.+|.-.+|..- ..|++|+..++. |..+..- .++...+.+||-|. +.++.+..++.|+.
T Consensus 11 ~~~~v~~PE~p--Gal~~F~~~l~~~~nITeF~YR---~~~~~~a~vlvgi~v~~~~~~~~l~~~L~~ 73 (91)
T PF00585_consen 11 ALFAVEFPERP--GALKRFLDALGPRNNITEFHYR---YSGDDFARVLVGIEVPDAEDLEELIERLKA 73 (91)
T ss_dssp EEEEEE--BST--THCHHHHHCCSSSE-EEEEEEE----TTTSCSEEEEEEE-SSTHHHHHHHHHHTS
T ss_pred EEEEEECCCCc--cHHHHHHHHhCCCceEEEEEEc---CCCCCeeeEEEEEEeCCHHHHHHHHHHHHH
Confidence 45556676543 345666666654 4444442 34446777887665 44555666666664
No 331
>PF15407 Spo7_2_N: Sporulation protein family 7
Probab=21.48 E-value=32 Score=21.92 Aligned_cols=24 Identities=0% Similarity=0.009 Sum_probs=17.0
Q ss_pred CCCeEEEecCCCCCCHHHHHHHhc
Q 028371 36 LPTSLLVRNLRHDCRPEDLRGPFG 59 (210)
Q Consensus 36 ~~~~l~V~nL~~~~te~~l~~~f~ 59 (210)
...+||||+||..+-++.=..++.
T Consensus 26 tSr~vflG~IP~~W~~~~~~~~~k 49 (67)
T PF15407_consen 26 TSRRVFLGPIPEIWLQDHRKSWYK 49 (67)
T ss_pred cCceEEECCCChHHHHcCcchHHH
Confidence 467899999998876655444443
No 332
>PF02946 GTF2I: GTF2I-like repeat; InterPro: IPR004212 This region of sequence similarity is found up to six times in a variety of proteins including general transcription factor II-I (GTF2I). It has been suggested that this may be a DNA binding domain [, ].; PDB: 2E3L_A 2D99_A 2DN4_A 2D9B_A 2EJE_A 1Q60_A 2DZR_A 2DN5_A 2DZQ_A 2ED2_A.
Probab=21.34 E-value=1.9e+02 Score=18.92 Aligned_cols=31 Identities=16% Similarity=0.238 Sum_probs=18.1
Q ss_pred CCeEEEecCCCCCC--------HHHHHHHhccCCceEEE
Q 028371 37 PTSLLVRNLRHDCR--------PEDLRGPFGQFGRLKDI 67 (210)
Q Consensus 37 ~~~l~V~nL~~~~t--------e~~l~~~f~~~G~i~~v 67 (210)
+..|+|.+||..+. ...|+.+++.-..|..+
T Consensus 34 p~~v~V~GLPegi~fr~P~~Y~i~~L~~IL~~~~~I~Fv 72 (76)
T PF02946_consen 34 PEAVYVQGLPEGIPFRRPSNYGIPRLEKILEASSRIRFV 72 (76)
T ss_dssp TTTEEEES--TT--SS-TTTS-HHHHHHHHHTTTT-EEE
T ss_pred CCcEEEEeCCCCCcCCCCCcCCHHHHHHHHHccCCcEEE
Confidence 55799999987764 45777777766555543
No 333
>cd04882 ACT_Bt0572_2 C-terminal ACT domain of a novel protein composed of just two ACT domains. Included in this CD is the C-terminal ACT domain of a novel protein composed of just two ACT domains, as seen in the yet uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related proteins. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=21.30 E-value=1.9e+02 Score=17.00 Aligned_cols=46 Identities=9% Similarity=0.067 Sum_probs=24.6
Q ss_pred HHHHHHHhccCC-ceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHh
Q 028371 51 PEDLRGPFGQFG-RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYH 98 (210)
Q Consensus 51 e~~l~~~f~~~G-~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~ 98 (210)
-.+|..+|.++| .|..+...... ........+..++.+.+..+++.
T Consensus 13 L~~i~~~l~~~~~nI~~i~~~~~~--~~~~~~v~~~ve~~~~~~~~L~~ 59 (65)
T cd04882 13 LHEILQILSEEGINIEYMYAFVEK--KGGKALLIFRTEDIEKAIEVLQE 59 (65)
T ss_pred HHHHHHHHHHCCCChhheEEEccC--CCCeEEEEEEeCCHHHHHHHHHH
Confidence 356667777765 56555442221 11234445566676666666644
No 334
>PF00313 CSD: 'Cold-shock' DNA-binding domain; InterPro: IPR002059 When Escherichia coli is exposed to a temperature drop from 37 to 10 degrees centigrade, a 4-5 hour lag phase occurs, after which growth is resumed at a reduced rate []. During the lag phase, the expression of around 13 proteins, which contain specific DNA-binding regions [], is increased 2-10 fold. These so-called 'cold shock' proteins are thought to help the cell to survive in temperatures lower than optimum growth temperature, by contrast with heat shock proteins, which help the cell to survive in temperatures greater than the optimum, possibly by condensation of the chromosome and organisation of the prokaryotic nucleoid []. A conserved domain of about 70 amino acids has been found in prokaryotic and eukaryotic DNA-binding proteins [, , ]. This domain is known as the 'cold-shock domain' (CSD), part of which is highly similar [] to the RNP-1 RNA-binding motif.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1HZC_A 1I5F_A 1HZ9_B 1C9O_B 1HZB_B 1HZA_A 2HAX_B 2L15_A 2LSS_A 3I2Z_B ....
Probab=21.30 E-value=68 Score=19.73 Aligned_cols=12 Identities=33% Similarity=0.805 Sum_probs=9.1
Q ss_pred ceEEEEEecCHH
Q 028371 79 RGFGFVQYIDPA 90 (210)
Q Consensus 79 ~g~afV~f~~~~ 90 (210)
+||+||+-.+.+
T Consensus 12 kgyGFI~~~~~~ 23 (66)
T PF00313_consen 12 KGYGFITSDDGG 23 (66)
T ss_dssp TTEEEEEETTSS
T ss_pred CCceEEEEcccc
Confidence 789999887543
No 335
>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=21.19 E-value=2.6e+02 Score=18.51 Aligned_cols=65 Identities=11% Similarity=-0.092 Sum_probs=35.1
Q ss_pred EEecCCC--CCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEE
Q 028371 41 LVRNLRH--DCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 113 (210)
Q Consensus 41 ~V~nL~~--~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~ 113 (210)
....|+. .++.++|.+.+...-.+..+.|..-...+ =.|...+..+.+.|+..+.. .|..|++.+
T Consensus 12 ~rf~~~~~~~~~~~~L~~ev~~rf~l~~f~lKYlDde~-----e~v~lssd~eLeE~~rl~~~---~~~~l~~~v 78 (81)
T cd06396 12 QSFLVSDSENTTWASVEAMVKVSFGLNDIQIKYVDEEN-----EEVSVNSQGEYEEALKSAVR---QGNLLQMNV 78 (81)
T ss_pred EEEEecCCCCCCHHHHHHHHHHHhCCCcceeEEEcCCC-----CEEEEEchhhHHHHHHHHHh---CCCEEEEEE
Confidence 3445666 77888888877653333344333211122 24555666677777765443 234555544
No 336
>KOG0918 consensus Selenium-binding protein [Inorganic ion transport and metabolism]
Probab=21.06 E-value=72 Score=27.95 Aligned_cols=58 Identities=10% Similarity=-0.154 Sum_probs=35.4
Q ss_pred CCCCeEEEecCCCC-CCHHHHHHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHH
Q 028371 35 DLPTSLLVRNLRHD-CRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADA 92 (210)
Q Consensus 35 ~~~~~l~V~nL~~~-~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a 92 (210)
..++.|||+|--+. +..+..-++.++-+.+..|.|-..+..-...--.||.|.++.+.
T Consensus 398 LDGKRLYVt~SLys~WD~QFYPE~v~~G~~miqidvdt~~g~~~lN~~flvDf~~ep~g 456 (476)
T KOG0918|consen 398 LDGKRLYVTNSLYSAWDRQFYPELVSKGSHMIQIDVDTVKGGLSLNPDFLVDFGKEPDG 456 (476)
T ss_pred cCCcEEEEEchhhhhhHhhhCHHHHhcCceEEEEeeeccCCceeeCccceEEccCCCCC
Confidence 45899999986555 44455556667777887777743321111223468889875443
No 337
>PRK14998 cold shock-like protein CspD; Provisional
Probab=21.00 E-value=76 Score=20.42 Aligned_cols=39 Identities=23% Similarity=0.344 Sum_probs=19.2
Q ss_pred ceEEEEEecCH-HHHH---HHHHhhCC--eeEcCeEEEEEEeecCC
Q 028371 79 RGFGFVQYIDP-ADAA---DAKYHMDG--YLLLGRELTVVFAEENR 118 (210)
Q Consensus 79 ~g~afV~f~~~-~~a~---~Ai~~l~g--~~i~g~~i~v~~a~~~~ 118 (210)
+||+||+=.+- +++- .+|+. ++ ....|..|..++.....
T Consensus 13 kGfGFI~~~~g~~dVFvH~s~l~~-~g~~~l~~G~~V~f~~~~~~~ 57 (73)
T PRK14998 13 KGFGFICPEGGGEDIFAHYSTIQM-DGYRTLKAGQSVRFDVHQGPK 57 (73)
T ss_pred CceEEEecCCCCccEEEEeeeecc-cCCCCCCCCCEEEEEEEECCC
Confidence 78888866542 2221 12211 12 23356677776665433
No 338
>PRK09507 cspE cold shock protein CspE; Reviewed
Probab=20.96 E-value=67 Score=20.36 Aligned_cols=10 Identities=50% Similarity=1.062 Sum_probs=7.6
Q ss_pred ceEEEEEecC
Q 028371 79 RGFGFVQYID 88 (210)
Q Consensus 79 ~g~afV~f~~ 88 (210)
+||+||+=.+
T Consensus 15 kGyGFI~~~~ 24 (69)
T PRK09507 15 KGFGFITPED 24 (69)
T ss_pred CCcEEEecCC
Confidence 8899987654
No 339
>PRK15463 cold shock-like protein CspF; Provisional
Probab=20.93 E-value=69 Score=20.41 Aligned_cols=39 Identities=18% Similarity=0.085 Sum_probs=20.1
Q ss_pred ceEEEEEecCH-HHH---HHHHHhh-CCeeEcCeEEEEEEeecC
Q 028371 79 RGFGFVQYIDP-ADA---ADAKYHM-DGYLLLGRELTVVFAEEN 117 (210)
Q Consensus 79 ~g~afV~f~~~-~~a---~~Ai~~l-~g~~i~g~~i~v~~a~~~ 117 (210)
+||+||+=.+- +++ ..||... ....-.|..|..++....
T Consensus 16 kGfGFI~~~~g~~DvFvH~sal~~~g~~~l~~G~~V~f~v~~~~ 59 (70)
T PRK15463 16 SGKGLITPSDGRKDVQVHISALNLRDAEELTTGLRVEFCRINGL 59 (70)
T ss_pred CceEEEecCCCCccEEEEehhhhhcCCCCCCCCCEEEEEEEECC
Confidence 88999876542 222 1233221 112335777777766543
No 340
>COG3227 LasB Zinc metalloprotease (elastase) [Amino acid transport and metabolism]
Probab=20.90 E-value=3.2e+02 Score=24.63 Aligned_cols=56 Identities=21% Similarity=0.319 Sum_probs=37.6
Q ss_pred CCCCCHHHHHHHhccCCc---eEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEEEEee
Q 028371 46 RHDCRPEDLRGPFGQFGR---LKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAE 115 (210)
Q Consensus 46 ~~~~te~~l~~~f~~~G~---i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v~~a~ 115 (210)
...+++.+|..+|.+-+. ++-+....++ .|+-+|.|.. .++|..+.|..|.|.+.+
T Consensus 48 ~~a~~~Kei~~~l~~~n~~~nlk~~~~~td~-----~G~t~vr~~q---------~vnGvpv~g~~v~vh~dk 106 (507)
T COG3227 48 KSAPNEKEILQFLENVNADNNLKAISTDTDP-----NGFTHVRYQQ---------VVNGVPVKGSEVIVHLDK 106 (507)
T ss_pred cccCChHHHHHHHhcCChhhceeeEEeeccC-----CCceEEEEEe---------eECCeeccCceEEEEECC
Confidence 345678888888875443 3333444443 8889999863 678888888888877653
No 341
>PTZ00363 rab-GDP dissociation inhibitor; Provisional
Probab=20.78 E-value=2.4e+02 Score=25.03 Aligned_cols=33 Identities=3% Similarity=0.242 Sum_probs=22.0
Q ss_pred CeEEEecC-CCCCCHHHHHHHhccCCceEEEEEe
Q 028371 38 TSLLVRNL-RHDCRPEDLRGPFGQFGRLKDIYLP 70 (210)
Q Consensus 38 ~~l~V~nL-~~~~te~~l~~~f~~~G~i~~v~i~ 70 (210)
..+||.-+ .....+.+|+..++..|.|.+..+.
T Consensus 351 ~i~~~st~~~t~~~~~~l~~~~~~l~~~~~~~~~ 384 (443)
T PTZ00363 351 YIAIISTTVETNNPEKEIEPALKLLGPIEEKFVS 384 (443)
T ss_pred EEEEEEEecCCCCHHHHHHHHHHHhccchheEEe
Confidence 34455544 4445578899999999988765443
No 342
>PF07521 RMMBL: RNA-metabolising metallo-beta-lactamase; InterPro: IPR011108 The metallo-beta-lactamase fold contains five sequence motifs. The first four motifs are found in IPR001279 from INTERPRO and are common to all metallo-beta-lactamases. The fifth motif appears to be specific to function. This entry represents the fifth motif from metallo-beta-lactamases involved in RNA metabolism [].; PDB: 3ZQ4_D 2I7T_A 2I7V_A 2YCB_B 3BK1_A 3T3N_A 3BK2_A 3T3O_A 3AF5_A 3AF6_A ....
Probab=20.71 E-value=1.2e+02 Score=17.18 Aligned_cols=33 Identities=12% Similarity=0.129 Sum_probs=23.2
Q ss_pred CCeEEEecCCCCCCHHHHHHHhccCCceEEEEEe
Q 028371 37 PTSLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLP 70 (210)
Q Consensus 37 ~~~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~ 70 (210)
.+.|..-+++..++.++|.+++..+.. ..|.++
T Consensus 6 ~a~v~~~~fSgHad~~~L~~~i~~~~p-~~vilV 38 (43)
T PF07521_consen 6 RARVEQIDFSGHADREELLEFIEQLNP-RKVILV 38 (43)
T ss_dssp -SEEEESGCSSS-BHHHHHHHHHHHCS-SEEEEE
T ss_pred EEEEEEEeecCCCCHHHHHHHHHhcCC-CEEEEe
Confidence 456666668888999999999988855 555554
No 343
>cd06408 PB1_NoxR The PB1 domain is present in the Epichloe festucae NoxR protein (NADPH oxidase regulator), a key regulator of NADPH oxidase isoform, NoxA. NoxA is essential for growth control of the fungal endophyte in plant tissue in the process of symbiotic interaction between a fungi and its plant host. The Epichloe festucae p67(phox)-like regulator, NoxR, dispensable in culture but essential in plants for the symbiotic interaction. Plants infected with a noxR deletion mutant show severe stunting and premature senescence, whereas hyphae in the meristematic tissues show increased branching leading to increased fungal colonization of pseudostem and leaf blade tissue. The PB1 domain is a modular domain mediating specific protein-protein interactions which a play role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is
Probab=20.53 E-value=2.6e+02 Score=18.71 Aligned_cols=54 Identities=15% Similarity=0.085 Sum_probs=31.6
Q ss_pred EEEecCCCCCCHHHHHHHhc-cCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhh
Q 028371 40 LLVRNLRHDCRPEDLRGPFG-QFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHM 99 (210)
Q Consensus 40 l~V~nL~~~~te~~l~~~f~-~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l 99 (210)
|++-.||..++-++|.+-+. .|+--..+.|.+... | -+|+..+.++.+.||...
T Consensus 13 v~~i~v~~~i~f~dL~~kIrdkf~~~~~~~iKykDE-G-----D~iti~sq~DLd~Ai~~a 67 (86)
T cd06408 13 TRYIMIGPDTGFADFEDKIRDKFGFKRRLKIKMKDD-G-----DMITMGDQDDLDMAIDTA 67 (86)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHhCCCCceEEEEEcC-C-----CCccccCHHHHHHHHHHH
Confidence 44557888888776665542 343223333332221 2 578888888888887653
No 344
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=20.52 E-value=34 Score=27.88 Aligned_cols=73 Identities=16% Similarity=0.123 Sum_probs=46.0
Q ss_pred CeEEEecCCCCCCHHH-H--HHHhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeEcCeEEEE
Q 028371 38 TSLLVRNLRHDCRPED-L--RGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTV 111 (210)
Q Consensus 38 ~~l~V~nL~~~~te~~-l--~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~i~v 111 (210)
..++++++-..+..+- | ...|..|-.+....++.+. .+...+++|+.|........+...-++..|.-..|++
T Consensus 97 f~p~~~~~g~~v~pep~lp~~~~f~~~p~L~ktk~v~~~-p~~~~~~~~~~~k~s~a~~k~~~~~~~Kki~~~~VR~ 172 (290)
T KOG0226|consen 97 FRPFQSNAGATVNPEPPLPLPVVFSEYPSLVKTKLVRDR-PQPIRPEAFESFKASDALLKAETEKEKKKIGKPPVRL 172 (290)
T ss_pred ccccccccccccCCCCCCcchhhhccchhhhhhhhhhcC-CCccCcccccCcchhhhhhhhccccccccccCcceee
Confidence 3455666655555443 2 5667776666666666553 4566899999998777777676555566665555444
No 345
>cd04909 ACT_PDH-BS C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH). The C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate, found in Bacillus subtilis (BS) and other Firmicutes, Deinococci, and Bacteroidetes. PDH is the first enzyme in the aromatic amino acid pathway specific for the biosynthesis of tyrosine. This enzyme is feedback-inhibited by tyrosine in B. subtilis and other microorganisms. Both phenylalanine and tryptophan have been shown to be inhibitors of this activity in B. subtilis. Bifunctional chorismate mutase-PDH (TyrA) enzymes such as those seen in Escherichia coli do not contain an ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=20.50 E-value=2.1e+02 Score=17.26 Aligned_cols=49 Identities=18% Similarity=0.215 Sum_probs=27.6
Q ss_pred CHHHHHHHhccCC-ceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhC
Q 028371 50 RPEDLRGPFGQFG-RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMD 100 (210)
Q Consensus 50 te~~l~~~f~~~G-~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~ 100 (210)
.-.+|..+|.++| .|..+...... .+ ..+...+.+...++.+.+++.|.
T Consensus 14 ~L~~l~~~l~~~~i~i~~~~~~~~~-~~-~~~~~~i~v~~~~~~~~~~~~L~ 63 (69)
T cd04909 14 VIAEVTQILGDAGISIKNIEILEIR-EG-IGGILRISFKTQEDRERAKEILK 63 (69)
T ss_pred HHHHHHHHHHHcCCCceeeEeEEee-cC-CcEEEEEEECCHHHHHHHHHHHH
Confidence 3567888888776 56665443321 11 24555677765555555555543
No 346
>PF09162 Tap-RNA_bind: Tap, RNA-binding; InterPro: IPR015245 This domain adopts a structure consisting of an alpha+beta sandwich with an antiparallel beta-sheet, arranged in a 2(beta-alpha-beta) motif. It is mainly found in mRNA export factors, which mediate the sequence nonspecific nuclear export of cellular mRNAs as well as the sequence-specific export of retroviral mRNAs bearing the constitutive transport element []. ; GO: 0003723 RNA binding, 0006406 mRNA export from nucleus, 0005634 nucleus, 0005737 cytoplasm; PDB: 1FT8_A 1KOH_C 1KOO_C 3RW6_B 3RW7_C 1FO1_A.
Probab=20.43 E-value=1.6e+02 Score=19.79 Aligned_cols=59 Identities=8% Similarity=0.079 Sum_probs=29.4
Q ss_pred CCHHHHHHHhccCCceE--EEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCCeeE--cCeEEEEEEe
Q 028371 49 CRPEDLRGPFGQFGRLK--DIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLL--LGRELTVVFA 114 (210)
Q Consensus 49 ~te~~l~~~f~~~G~i~--~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i--~g~~i~v~~a 114 (210)
..++.|...++....+. -+.+..+. . .++-|-+-.++..||+.++.... +|.+|.|-+.
T Consensus 18 YdK~wLl~~iq~~c~v~F~Pv~fh~~~------~-~a~FfV~D~~tA~aLk~vsrkI~~~dg~Ki~I~V~ 80 (88)
T PF09162_consen 18 YDKDWLLNSIQSHCSVPFTPVDFHYEK------N-RAQFFVEDASTASALKDVSRKICDEDGFKISIFVN 80 (88)
T ss_dssp S-HHHHHHHHHHHSSS----EEEEEET------T-EEEEEESSHHHHHHHHTTTTTEEBTTSBEE--EEE
T ss_pred cCHHHHHHHHHHHCCCCeeeeeeeeeC------C-EEEEEeCCHHHHHHHHHCCCceECCCCCEEEEEEc
Confidence 34556666555443332 23333332 1 23445455566678888887655 4677766554
No 347
>COG0045 SucC Succinyl-CoA synthetase, beta subunit [Energy production and conversion]
Probab=20.42 E-value=3.9e+02 Score=23.30 Aligned_cols=65 Identities=20% Similarity=0.270 Sum_probs=41.9
Q ss_pred CCHHHHHHHhccCC--c-eEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhhCC----eeEcCeEEEEEEeec
Q 028371 49 CRPEDLRGPFGQFG--R-LKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDG----YLLLGRELTVVFAEE 116 (210)
Q Consensus 49 ~te~~l~~~f~~~G--~-i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g----~~i~g~~i~v~~a~~ 116 (210)
++.+++.++..++| . |.+.+++. .|..+.-+...-.+.++|..+.+.|-| ..+.|..+..-+..+
T Consensus 26 ~s~eea~~~a~~lg~~~~VvKaQV~a---GGRGKaGGVk~~~s~~ea~~~a~~~lg~~~q~~~~G~~v~~vlvee 97 (387)
T COG0045 26 TSPEEAEEAAKELGGGPVVVKAQVHA---GGRGKAGGVKLAKSPEEAKEAAEEILGKNYQTDIKGEPVNKVLVEE 97 (387)
T ss_pred eCHHHHHHHHHHhCCCcEEEEeeeee---cCccccCceEEeCCHHHHHHHHHHHhCcccccCcCCceeeEEEEEe
Confidence 46777888877776 2 34555543 233333334444589999999998888 778887766555543
No 348
>PRK10943 cold shock-like protein CspC; Provisional
Probab=20.37 E-value=69 Score=20.29 Aligned_cols=39 Identities=23% Similarity=0.336 Sum_probs=19.6
Q ss_pred ceEEEEEecCH-HHH---HHHHHhhC-CeeEcCeEEEEEEeecC
Q 028371 79 RGFGFVQYIDP-ADA---ADAKYHMD-GYLLLGRELTVVFAEEN 117 (210)
Q Consensus 79 ~g~afV~f~~~-~~a---~~Ai~~l~-g~~i~g~~i~v~~a~~~ 117 (210)
+||+||+=.+- +++ ..||+.-. .....|..|..++....
T Consensus 15 kGfGFI~~~~g~~dvFvH~s~l~~~g~~~l~~G~~V~f~~~~~~ 58 (69)
T PRK10943 15 KGFGFITPADGSKDVFVHFSAIQGNGFKTLAEGQNVEFEIQDGQ 58 (69)
T ss_pred CCcEEEecCCCCeeEEEEhhHccccCCCCCCCCCEEEEEEEECC
Confidence 88999876542 222 12232111 12245677777666543
No 349
>COG1691 NCAIR mutase (PurE)-related proteins [General function prediction only]
Probab=20.30 E-value=1.3e+02 Score=24.31 Aligned_cols=54 Identities=17% Similarity=0.300 Sum_probs=31.6
Q ss_pred CCCCCCHHHHHH-HhccCCceEEEEEecCCCCCCcceEEEEEecCHHHHHHHHHhh
Q 028371 45 LRHDCRPEDLRG-PFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHM 99 (210)
Q Consensus 45 L~~~~te~~l~~-~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l 99 (210)
+..+--+++|+. .|+.++++..+.+.....+|.+ -..|..-.++++..++++.|
T Consensus 15 i~~~~a~~~i~~~~~~~~~~~~k~D~~R~~RtG~p-Evv~a~gKt~eqi~~i~~~~ 69 (254)
T COG1691 15 ISLEEAEEQIKSLAFESLGEFAKLDIHREKRTGFP-EVVFAPGKTPEQIVEIVEVL 69 (254)
T ss_pred ccHHHHHHHHhhhhhhhhchhhhccchhhccCCCc-eEeecCCCCHHHHHHHHHHH
Confidence 333333556665 5667777777777766555543 23444555677766666543
No 350
>cd00187 TOP4c DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA topology by catalysing the concerted breakage and rejoining of DNA strands during normal cellular growth.
Probab=20.23 E-value=2.3e+02 Score=25.22 Aligned_cols=57 Identities=18% Similarity=0.175 Sum_probs=32.8
Q ss_pred CeEEEecCCCCCCHHHHHHHhcc---CCceEEEEEecCCCCCCcceEEEE-EecCHHHHHHHH
Q 028371 38 TSLLVRNLRHDCRPEDLRGPFGQ---FGRLKDIYLPRDYYTGEPRGFGFV-QYIDPADAADAK 96 (210)
Q Consensus 38 ~~l~V~nL~~~~te~~l~~~f~~---~G~i~~v~i~~~~~~g~~~g~afV-~f~~~~~a~~Ai 96 (210)
++|.|+-||+.++.+.|.+.+.. -+++..|.-+.|..+. .++.|| ++.....++..+
T Consensus 226 ~~i~ItElP~~~~~~~~~e~i~~l~~~~k~~~I~~~~D~s~~--~~vrivI~lk~~~~~~~~~ 286 (445)
T cd00187 226 NTIEITELPYQVNKAKLKEKIAELVKDKKIEGISDVRDESDR--EGIRFVIELKRGAMAEVVL 286 (445)
T ss_pred ceEEEEeCCCcccHHHHHHHHHHHHhcCCCcccceeeeccCC--CceEEEEEECCCccHHHHH
Confidence 68999999999998888776543 2333334333343222 256654 454444444333
No 351
>PRK13014 methionine sulfoxide reductase A; Provisional
Probab=20.05 E-value=3.4e+02 Score=21.03 Aligned_cols=74 Identities=8% Similarity=0.025 Sum_probs=36.1
Q ss_pred eEEEecCCCCCCHHHHHHHhccCCceEEEEEecCCCCCCcceEEE-EEecCHHHHHH---HHHhhCCeeEcCeEEEEEEe
Q 028371 39 SLLVRNLRHDCRPEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGF-VQYIDPADAAD---AKYHMDGYLLLGRELTVVFA 114 (210)
Q Consensus 39 ~l~V~nL~~~~te~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~af-V~f~~~~~a~~---Ai~~l~g~~i~g~~i~v~~a 114 (210)
.|.|.--|..++-++|.++|...-.-..+.-. . +.....|-- |-+.+.++.+. +++.|......+.+|.+++.
T Consensus 61 ~V~V~yDp~~iSy~~LL~~Ff~~hDPt~~~~Q-g--~D~G~QYRS~If~~~~eQ~~~a~~~~~~~~~~~~~~~~i~Tei~ 137 (186)
T PRK13014 61 AVQITYDPKQVSYENLLQIFFSTHDPTQLNRQ-G--PDRGEQYRSAIFYHDEEQKKVAEAYIAQLDEAGIFKKPIVTPIK 137 (186)
T ss_pred EEEEEECCCcCCHHHHHHHHHHhcCCCccCCC-C--CCCCCCceEEEEeCCHHHHHHHHHHHHHHHhccccCCCcEEEEe
Confidence 36666667778888888888654221111100 0 001123333 34445555444 44455433233566666664
Q ss_pred e
Q 028371 115 E 115 (210)
Q Consensus 115 ~ 115 (210)
.
T Consensus 138 p 138 (186)
T PRK13014 138 P 138 (186)
T ss_pred c
Confidence 3
Done!