Query 005758
Match_columns 678
No_of_seqs 324 out of 2280
Neff 8.2
Searched_HMMs 46136
Date Thu Mar 28 13:20:17 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005758.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005758hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2193 IGF-II mRNA-binding pr 100.0 3.6E-40 7.7E-45 332.9 22.1 357 76-507 196-566 (584)
2 KOG2190 PolyC-binding proteins 100.0 2.4E-38 5.2E-43 343.4 36.1 366 76-503 40-407 (485)
3 KOG1676 K-homology type RNA bi 100.0 3.3E-39 7.2E-44 342.7 25.6 325 190-673 52-389 (600)
4 KOG1676 K-homology type RNA bi 100.0 4.9E-36 1.1E-40 318.7 26.6 331 77-506 52-390 (600)
5 KOG2192 PolyC-binding hnRNP-K 100.0 8.4E-33 1.8E-37 264.6 25.4 315 346-677 46-388 (390)
6 KOG2193 IGF-II mRNA-binding pr 100.0 2.7E-33 5.8E-38 283.3 17.0 316 189-673 196-564 (584)
7 KOG2190 PolyC-binding proteins 100.0 9.7E-30 2.1E-34 276.4 29.5 324 347-675 42-411 (485)
8 KOG2192 PolyC-binding hnRNP-K 100.0 5.2E-29 1.1E-33 238.6 23.5 286 76-417 45-381 (390)
9 KOG2191 RNA-binding protein NO 99.9 1.2E-25 2.7E-30 222.0 19.0 245 75-386 35-282 (402)
10 KOG2191 RNA-binding protein NO 99.9 8.6E-22 1.9E-26 194.9 20.3 260 347-674 38-316 (402)
11 KOG2208 Vigilin [Lipid transpo 99.5 7.1E-14 1.5E-18 161.2 13.7 462 76-672 198-708 (753)
12 TIGR03665 arCOG04150 arCOG0415 99.5 7.5E-14 1.6E-18 133.7 11.0 142 83-269 2-153 (172)
13 TIGR03665 arCOG04150 arCOG0415 99.5 1.3E-13 2.7E-18 132.1 10.4 137 352-505 2-151 (172)
14 PRK13763 putative RNA-processi 99.5 2.6E-13 5.6E-18 130.8 12.1 147 79-269 3-159 (180)
15 PRK13763 putative RNA-processi 99.5 2.3E-13 4.9E-18 131.2 10.6 141 348-505 3-157 (180)
16 KOG2208 Vigilin [Lipid transpo 99.5 2.1E-13 4.6E-18 157.3 12.0 394 79-641 347-746 (753)
17 cd02396 PCBP_like_KH K homolog 99.4 9.3E-13 2E-17 105.2 6.8 64 605-668 1-65 (65)
18 cd02394 vigilin_like_KH K homo 99.3 2.4E-12 5.1E-17 102.0 5.7 62 605-668 1-62 (62)
19 PF00013 KH_1: KH domain syndr 99.3 2.9E-12 6.3E-17 100.8 3.9 60 605-667 1-60 (60)
20 cd02393 PNPase_KH Polynucleoti 99.2 1.7E-11 3.6E-16 96.3 6.8 59 604-668 2-61 (61)
21 cd00105 KH-I K homology RNA-bi 99.2 2.2E-11 4.8E-16 97.0 7.6 63 606-668 2-64 (64)
22 cd02396 PCBP_like_KH K homolog 99.2 5.5E-11 1.2E-15 95.0 7.2 64 433-500 1-65 (65)
23 KOG2279 Kinase anchor protein 99.2 3.4E-10 7.3E-15 120.6 13.7 289 346-671 66-366 (608)
24 KOG2279 Kinase anchor protein 99.0 1.7E-09 3.6E-14 115.4 11.7 275 75-400 64-351 (608)
25 cd02394 vigilin_like_KH K homo 99.0 3.8E-10 8.2E-15 89.3 4.9 61 194-262 2-62 (62)
26 cd02393 PNPase_KH Polynucleoti 99.0 1.1E-09 2.4E-14 86.0 7.5 57 432-499 2-60 (61)
27 PF00013 KH_1: KH domain syndr 99.0 4.3E-10 9.3E-15 88.4 4.1 59 433-499 1-60 (60)
28 cd00105 KH-I K homology RNA-bi 98.9 5.7E-09 1.2E-13 83.0 7.7 61 434-499 2-63 (64)
29 smart00322 KH K homology RNA-b 98.9 9.6E-09 2.1E-13 82.4 8.8 66 604-671 3-68 (69)
30 PF13014 KH_3: KH domain 98.9 4.1E-09 8.8E-14 76.7 5.5 42 614-655 1-43 (43)
31 PF13014 KH_3: KH domain 98.8 1.1E-08 2.3E-13 74.5 4.9 42 89-130 1-43 (43)
32 COG1094 Predicted RNA-binding 98.6 1.5E-07 3.3E-12 89.2 8.8 150 78-270 7-167 (194)
33 smart00322 KH K homology RNA-b 98.5 3.5E-07 7.7E-12 73.1 8.4 66 431-503 2-68 (69)
34 COG1094 Predicted RNA-binding 98.5 6.2E-07 1.3E-11 85.2 8.8 142 347-505 7-164 (194)
35 cd02395 SF1_like-KH Splicing f 98.2 4.6E-06 9.9E-11 74.7 7.4 64 613-676 15-98 (120)
36 KOG2113 Predicted RNA binding 98.2 6.8E-06 1.5E-10 82.2 8.7 157 77-266 24-182 (394)
37 cd02395 SF1_like-KH Splicing f 97.9 3.2E-05 6.9E-10 69.3 7.5 71 435-505 3-95 (120)
38 KOG2113 Predicted RNA binding 97.8 3.5E-05 7.6E-10 77.2 6.1 149 429-664 23-173 (394)
39 KOG0336 ATP-dependent RNA heli 97.6 6.7E-05 1.5E-09 78.3 4.4 54 76-132 44-97 (629)
40 PRK08406 transcription elongat 97.5 0.00025 5.4E-09 65.5 6.8 101 346-466 30-134 (140)
41 KOG0119 Splicing factor 1/bran 97.5 0.00063 1.4E-08 72.7 10.5 78 191-268 137-231 (554)
42 PRK08406 transcription elongat 97.5 0.00043 9.3E-09 63.9 7.8 103 80-228 33-135 (140)
43 TIGR02696 pppGpp_PNP guanosine 97.4 0.00033 7.2E-09 80.2 8.3 94 143-267 548-642 (719)
44 TIGR02696 pppGpp_PNP guanosine 97.4 0.00032 7E-09 80.3 7.3 64 604-673 578-642 (719)
45 TIGR03591 polynuc_phos polyrib 97.1 0.00079 1.7E-08 78.4 6.6 65 191-267 550-615 (684)
46 TIGR01952 nusA_arch NusA famil 97.0 0.0023 4.9E-08 58.9 7.3 103 80-228 34-136 (141)
47 TIGR03591 polynuc_phos polyrib 96.9 0.0016 3.4E-08 76.0 6.5 64 604-673 551-615 (684)
48 TIGR01952 nusA_arch NusA famil 96.7 0.0038 8.3E-08 57.4 6.5 100 349-466 34-135 (141)
49 KOG1588 RNA-binding protein Sa 96.6 0.0058 1.3E-07 61.0 7.6 81 188-268 88-192 (259)
50 PLN00207 polyribonucleotide nu 96.6 0.0024 5.1E-08 75.0 5.1 95 143-267 654-750 (891)
51 COG1185 Pnp Polyribonucleotide 96.5 0.004 8.8E-08 70.0 6.1 97 142-268 520-617 (692)
52 KOG0119 Splicing factor 1/bran 96.4 0.0085 1.8E-07 64.4 7.2 61 613-673 153-230 (554)
53 KOG1588 RNA-binding protein Sa 96.3 0.0047 1E-07 61.7 4.9 45 71-115 84-134 (259)
54 KOG2814 Transcription coactiva 96.3 0.0043 9.3E-08 63.6 4.5 70 191-268 56-126 (345)
55 PF14611 SLS: Mitochondrial in 96.3 0.15 3.2E-06 50.8 15.5 85 412-506 4-91 (210)
56 cd02134 NusA_KH NusA_K homolog 96.2 0.0078 1.7E-07 47.2 4.4 36 604-639 25-60 (61)
57 TIGR03319 YmdA_YtgF conserved 96.2 0.013 2.7E-07 66.1 7.7 67 603-674 203-271 (514)
58 PRK00106 hypothetical protein; 96.1 0.014 3E-07 65.4 7.9 67 603-674 224-292 (535)
59 PLN00207 polyribonucleotide nu 96.1 0.0076 1.6E-07 70.9 5.8 88 407-505 654-750 (891)
60 COG0195 NusA Transcription elo 95.9 0.01 2.2E-07 57.4 5.0 100 349-467 77-178 (190)
61 COG0195 NusA Transcription elo 95.9 0.026 5.7E-07 54.7 7.6 99 84-229 81-179 (190)
62 PRK12704 phosphodiesterase; Pr 95.9 0.02 4.3E-07 64.6 7.9 66 603-673 209-276 (520)
63 KOG2814 Transcription coactiva 95.9 0.0095 2.1E-07 61.2 4.5 70 603-674 56-126 (345)
64 KOG0336 ATP-dependent RNA heli 95.8 0.011 2.3E-07 62.4 4.6 71 188-267 43-113 (629)
65 COG1185 Pnp Polyribonucleotide 95.8 0.021 4.6E-07 64.4 7.2 68 430-508 550-619 (692)
66 cd02134 NusA_KH NusA_K homolog 95.6 0.017 3.7E-07 45.2 4.0 36 79-114 25-60 (61)
67 PRK04163 exosome complex RNA-b 95.3 0.032 6.8E-07 56.5 6.0 60 606-671 147-207 (235)
68 PRK11824 polynucleotide phosph 95.1 0.021 4.5E-07 66.9 4.6 95 143-267 523-618 (693)
69 PRK04163 exosome complex RNA-b 95.0 0.043 9.3E-07 55.6 6.0 64 194-269 147-211 (235)
70 TIGR01953 NusA transcription t 95.0 0.082 1.8E-06 56.3 8.1 38 192-229 301-338 (341)
71 PRK12328 nusA transcription el 94.9 0.072 1.6E-06 56.8 7.3 39 192-230 308-346 (374)
72 COG5176 MSL5 Splicing factor ( 94.6 0.051 1.1E-06 52.0 5.0 28 613-640 163-190 (269)
73 PRK12328 nusA transcription el 94.6 0.13 2.9E-06 54.8 8.5 97 357-472 251-349 (374)
74 PRK12327 nusA transcription el 94.5 0.11 2.4E-06 55.7 7.8 39 192-230 303-341 (362)
75 PRK11824 polynucleotide phosph 94.5 0.036 7.7E-07 65.0 4.5 86 408-504 524-617 (693)
76 KOG4369 RTK signaling protein 94.5 0.011 2.5E-07 68.9 0.4 69 603-671 1339-1408(2131)
77 TIGR01953 NusA transcription t 94.5 0.1 2.3E-06 55.5 7.5 93 357-468 243-338 (341)
78 PRK00468 hypothetical protein; 94.5 0.036 7.8E-07 45.2 3.1 33 76-108 27-59 (75)
79 COG5176 MSL5 Splicing factor ( 94.4 0.078 1.7E-06 50.7 5.6 41 190-230 146-192 (269)
80 PF14611 SLS: Mitochondrial in 94.3 1.5 3.2E-05 43.6 15.0 65 193-268 27-91 (210)
81 PRK12329 nusA transcription el 94.3 0.097 2.1E-06 56.7 6.7 37 193-229 336-372 (449)
82 COG1837 Predicted RNA-binding 94.1 0.052 1.1E-06 44.1 3.2 32 76-107 27-58 (76)
83 PRK00468 hypothetical protein; 93.8 0.13 2.8E-06 42.0 5.0 33 428-460 26-59 (75)
84 PRK02821 hypothetical protein; 93.7 0.06 1.3E-06 44.1 2.9 34 77-110 29-62 (77)
85 PRK00106 hypothetical protein; 93.6 0.24 5.2E-06 55.7 8.5 66 191-267 224-291 (535)
86 TIGR03319 YmdA_YtgF conserved 93.5 0.26 5.6E-06 55.7 8.7 63 431-503 203-268 (514)
87 KOG1067 Predicted RNA-binding 93.4 0.14 3.1E-06 56.1 6.1 95 143-268 566-661 (760)
88 PRK12327 nusA transcription el 93.4 0.18 3.8E-06 54.2 6.8 94 357-469 245-341 (362)
89 PRK12704 phosphodiesterase; Pr 93.3 0.28 6E-06 55.5 8.6 63 432-504 210-275 (520)
90 PRK09202 nusA transcription el 93.3 0.19 4.1E-06 55.9 7.1 37 193-229 303-339 (470)
91 PRK02821 hypothetical protein; 93.3 0.16 3.5E-06 41.6 4.9 34 428-461 27-61 (77)
92 PRK01064 hypothetical protein; 92.7 0.12 2.5E-06 42.6 3.3 33 76-108 27-59 (78)
93 COG1837 Predicted RNA-binding 92.6 0.27 5.9E-06 40.0 5.2 32 428-459 26-58 (76)
94 PRK09202 nusA transcription el 92.6 0.28 6.1E-06 54.6 7.2 94 357-469 245-340 (470)
95 PRK01064 hypothetical protein; 92.5 0.33 7.3E-06 39.9 5.6 34 428-461 26-60 (78)
96 PRK12329 nusA transcription el 92.4 0.28 6.2E-06 53.2 6.6 92 357-467 277-371 (449)
97 PRK12705 hypothetical protein; 91.4 0.25 5.3E-06 55.3 4.9 66 603-673 197-264 (508)
98 PF13083 KH_4: KH domain; PDB: 88.4 0.26 5.7E-06 40.0 1.6 33 78-110 28-60 (73)
99 KOG1067 Predicted RNA-binding 88.3 0.98 2.1E-05 49.9 6.3 66 428-505 593-660 (760)
100 KOG2874 rRNA processing protei 88.1 0.67 1.5E-05 46.6 4.5 51 204-267 161-211 (356)
101 KOG3273 Predicted RNA-binding 86.7 0.43 9.3E-06 45.6 2.2 159 78-269 73-233 (252)
102 PRK12705 hypothetical protein; 85.7 1.7 3.7E-05 48.8 6.5 64 193-267 199-264 (508)
103 cd02409 KH-II KH-II (K homolo 84.6 1.6 3.4E-05 34.2 4.3 34 604-637 25-58 (68)
104 COG5166 Uncharacterized conser 84.3 5 0.00011 44.0 9.0 100 350-466 499-606 (657)
105 PF13083 KH_4: KH domain; PDB: 84.3 0.55 1.2E-05 38.1 1.5 33 190-222 27-59 (73)
106 cd02409 KH-II KH-II (K homolo 83.6 1.5 3.3E-05 34.3 3.8 34 79-112 25-58 (68)
107 COG1097 RRP4 RNA-binding prote 82.8 2.5 5.4E-05 42.2 5.6 35 606-640 148-182 (239)
108 KOG3273 Predicted RNA-binding 82.7 0.9 2E-05 43.5 2.4 53 440-504 177-230 (252)
109 PF13184 KH_5: NusA-like KH do 82.3 1.1 2.4E-05 36.0 2.5 35 82-116 6-46 (69)
110 COG1097 RRP4 RNA-binding prote 82.3 2.6 5.6E-05 42.1 5.5 62 194-267 148-210 (239)
111 COG1855 ATPase (PilT family) [ 80.9 1 2.2E-05 49.0 2.2 39 603-641 485-523 (604)
112 KOG4369 RTK signaling protein 80.6 1 2.2E-05 53.5 2.3 57 77-133 1338-1395(2131)
113 PF13184 KH_5: NusA-like KH do 80.0 1.4 3E-05 35.4 2.3 38 193-230 4-47 (69)
114 PRK13764 ATPase; Provisional 79.9 3.6 7.9E-05 47.3 6.4 64 410-473 457-523 (602)
115 PRK13764 ATPase; Provisional 79.7 1.1 2.4E-05 51.4 2.3 40 601-640 478-517 (602)
116 PF07650 KH_2: KH domain syndr 79.2 1.1 2.5E-05 36.7 1.6 34 80-113 26-59 (78)
117 cd02414 jag_KH jag_K homology 79.2 1.8 4E-05 35.5 2.8 35 80-114 25-59 (77)
118 COG1855 ATPase (PilT family) [ 76.6 2 4.4E-05 46.7 2.9 39 193-231 487-525 (604)
119 cd02410 archeal_CPSF_KH The ar 76.3 7.9 0.00017 35.7 6.3 37 349-385 77-113 (145)
120 cd02413 40S_S3_KH K homology R 76.1 2.7 5.8E-05 35.0 2.9 37 80-116 31-67 (81)
121 cd02414 jag_KH jag_K homology 74.0 3.9 8.4E-05 33.5 3.4 35 604-638 24-58 (77)
122 PF07650 KH_2: KH domain syndr 73.5 1.3 2.9E-05 36.3 0.5 34 604-637 25-58 (78)
123 cd02413 40S_S3_KH K homology R 71.6 5.1 0.00011 33.3 3.6 36 604-639 30-65 (81)
124 KOG2874 rRNA processing protei 71.1 6.8 0.00015 39.7 4.9 50 444-505 161-211 (356)
125 cd02410 archeal_CPSF_KH The ar 70.2 9.8 0.00021 35.1 5.4 90 365-468 23-113 (145)
126 PRK06418 transcription elongat 69.0 5 0.00011 38.1 3.3 34 82-116 64-97 (166)
127 COG1782 Predicted metal-depend 68.8 21 0.00045 39.6 8.3 36 349-384 100-135 (637)
128 COG5166 Uncharacterized conser 66.0 6.4 0.00014 43.3 3.8 135 351-505 384-524 (657)
129 cd02412 30S_S3_KH K homology R 65.6 5.3 0.00012 35.2 2.7 31 81-111 63-93 (109)
130 PRK06418 transcription elongat 63.3 7.9 0.00017 36.8 3.5 36 193-229 62-97 (166)
131 cd02411 archeal_30S_S3_KH K ho 63.1 6.9 0.00015 32.8 2.8 28 81-108 40-67 (85)
132 cd02411 archeal_30S_S3_KH K ho 56.0 12 0.00027 31.2 3.1 28 606-633 40-67 (85)
133 COG1782 Predicted metal-depend 55.8 17 0.00038 40.2 4.9 93 362-468 43-136 (637)
134 COG0092 RpsC Ribosomal protein 55.3 9.5 0.00021 38.0 2.7 31 79-109 51-81 (233)
135 COG0092 RpsC Ribosomal protein 54.2 12 0.00026 37.3 3.2 30 604-633 51-80 (233)
136 cd02412 30S_S3_KH K homology R 53.0 12 0.00026 33.0 2.7 30 605-634 62-91 (109)
137 TIGR03675 arCOG00543 arCOG0054 47.3 27 0.00058 40.8 5.1 92 363-468 38-130 (630)
138 TIGR03675 arCOG00543 arCOG0054 46.4 47 0.001 38.8 6.9 131 93-272 37-167 (630)
139 COG1702 PhoH Phosphate starvat 41.8 51 0.0011 35.0 5.6 54 612-672 23-78 (348)
140 TIGR01008 rpsC_E_A ribosomal p 30.6 44 0.00095 32.7 2.9 32 80-111 39-70 (195)
141 PRK04191 rps3p 30S ribosomal p 29.9 45 0.00097 33.0 2.9 32 81-112 42-73 (207)
142 TIGR00436 era GTP-binding prot 29.6 53 0.0012 33.8 3.6 29 79-107 221-250 (270)
143 CHL00048 rps3 ribosomal protei 29.4 46 0.001 33.1 2.9 31 80-110 67-97 (214)
144 PTZ00084 40S ribosomal protein 27.9 50 0.0011 33.0 2.8 33 81-113 46-78 (220)
145 COG1702 PhoH Phosphate starvat 26.9 1.1E+02 0.0025 32.5 5.3 58 197-267 20-79 (348)
146 KOG1423 Ras-like GTPase ERA [C 26.1 63 0.0014 33.9 3.2 31 603-633 327-358 (379)
147 PF09869 DUF2096: Uncharacteri 26.0 1.4E+02 0.003 28.3 5.1 58 189-265 110-167 (169)
148 TIGR01008 rpsC_E_A ribosomal p 25.8 69 0.0015 31.4 3.3 29 605-633 39-67 (195)
149 COG1847 Jag Predicted RNA-bind 25.6 51 0.0011 32.4 2.4 34 193-226 92-125 (208)
150 PF02749 QRPTase_N: Quinolinat 25.5 1.9E+02 0.0041 24.2 5.6 51 622-672 32-85 (88)
151 PRK15494 era GTPase Era; Provi 23.9 76 0.0016 34.0 3.6 37 79-115 273-318 (339)
152 TIGR00436 era GTP-binding prot 23.6 79 0.0017 32.5 3.6 37 603-639 220-265 (270)
153 PF09383 NIL: NIL domain; Int 23.2 2E+02 0.0044 23.0 5.2 49 622-670 15-69 (76)
154 PRK04191 rps3p 30S ribosomal p 23.1 81 0.0018 31.2 3.3 28 606-633 42-69 (207)
155 COG1847 Jag Predicted RNA-bind 22.8 59 0.0013 31.9 2.2 36 79-114 91-126 (208)
156 CHL00048 rps3 ribosomal protei 22.8 85 0.0018 31.3 3.4 29 605-633 67-95 (214)
157 PF09869 DUF2096: Uncharacteri 22.5 1.9E+02 0.0041 27.4 5.3 39 453-502 128-166 (169)
158 PTZ00084 40S ribosomal protein 22.3 80 0.0017 31.6 3.1 28 606-633 46-73 (220)
159 COG1159 Era GTPase [General fu 21.8 92 0.002 32.5 3.5 37 603-639 228-273 (298)
160 PRK00089 era GTPase Era; Revie 21.6 90 0.002 32.4 3.5 34 82-115 229-271 (292)
161 KOG1423 Ras-like GTPase ERA [C 21.5 81 0.0017 33.1 2.9 32 78-109 327-359 (379)
162 PRK00089 era GTPase Era; Revie 21.4 90 0.002 32.4 3.5 38 603-640 225-271 (292)
163 COG1159 Era GTPase [General fu 21.3 87 0.0019 32.7 3.2 28 191-218 228-256 (298)
164 PRK15494 era GTPase Era; Provi 21.3 91 0.002 33.4 3.5 37 604-640 273-318 (339)
165 PRK15468 carboxysome structura 20.9 2.5E+02 0.0055 24.5 5.3 27 481-507 75-101 (111)
No 1
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=100.00 E-value=3.6e-40 Score=332.93 Aligned_cols=357 Identities=25% Similarity=0.394 Sum_probs=270.1
Q ss_pred CccEEEEEEeeCceeceecccCchhHHhHHhHhCCEEEEcc-CCCCCCccEEEEecCCCCCCCCCCCCCchHHHHHHHHH
Q 005758 76 MVTTTYRILCHDMKAGGVIGKSGSIIKSIRQHTGAWINVHE-LIPGDEERIIEISDTRRRDPEGRMPSFSPAQEALFLIH 154 (678)
Q Consensus 76 ~~~~~~~ilip~~~~g~IIGk~G~~Ik~i~~~tga~I~v~~-~~~~~~ervv~i~G~~~~~~~~~~~~~~~~~~a~~~i~ 154 (678)
....++|+|+|..++|.||||.|+|||.|...|.|+|+|.. .+.|..|++|+|.++. || +.+|+.+|+
T Consensus 196 ~~D~PlR~lVptqyvgaIIGkeG~TIknItkqTqsriD~hrken~Gaaek~itvh~tp----Eg-------~s~Ac~~IL 264 (584)
T KOG2193|consen 196 LKDWPLRLLVPTQYVGAIIGKEGATIKNITKQTQSRIDVHRKENAGAAEKIITVHSTP----EG-------TSKACKMIL 264 (584)
T ss_pred ccCcceeeeeccceeEEEecCCCccccCcchhhhheeeeeecccCCcccCceEEecCc----cc-------hHHHHHHHH
Confidence 34689999999999999999999999999999999999964 5668899999999974 33 457888888
Q ss_pred HHhhccCCCCCCCCCcccccCCCCCCCCCCcCCCCCceEEEEEEcccccceecccCchhHHHHHhccCceEEEecCCCCC
Q 005758 155 DRILESDGGGGFYGEEEEEYGGGGGVGGGGFRGGGNRVATRMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRILPRDHSL 234 (678)
Q Consensus 155 ~~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~vp~~~~g~iIGk~G~~I~~I~~~tg~~I~i~~~~~~~ 234 (678)
+.+..+.....+ ...+.++++..+.++|+||||.|.+||+|+++||++|.|.+..+ +
T Consensus 265 eimqkEA~~~k~----------------------~~e~pLk~lAHN~lvGRLIGKeGrnlKkIeq~TgTkITis~lqe-l 321 (584)
T KOG2193|consen 265 EIMQKEAVDDKV----------------------AEEIPLKILAHNNLVGRLIGKEGRNLKKIEQDTGTKITISKLQE-L 321 (584)
T ss_pred HHHHHhhhccch----------------------hhhcchhhhhhcchhhhhhhhccccHHHHHhhcCCceeeeehhh-h
Confidence 887665443321 34678999999999999999999999999999999999987533 3
Q ss_pred CCccCCCCceeeccCCHHHHHHHHHHHHHHHhcccccCCCC------CCCCCCCCCC--cCCCCCCCCCCCCCCCCCCCC
Q 005758 235 PRCVSMSEEIVQVVGDINNVKNAVAIISSRLRESQHRDRSH------FHGRLHSPDR--FFPDDDYVPHMNNTARRPSMD 306 (678)
Q Consensus 235 p~~~~~~~~~V~I~G~~~~v~~A~~~I~~~~~e~~~~~~~~------~~~~~~~p~~--~~~~~~~~p~~~~~~~~~~~~ 306 (678)
.. ...||+|++.|+.++|..|..+|..+|+++...|... +.+-++.|.- |.+...+.|.
T Consensus 322 s~--ynpERTItVkGsiEac~~AE~eImkKlre~yEnDl~a~s~q~~l~P~l~~~~l~~f~ssS~~~~P----------- 388 (584)
T KOG2193|consen 322 SL--YNPERTITVKGSIEACVQAEAEIMKKLRECYENDLAAMSLQCHLPPGLNLPALGLFPSSSAVSPP----------- 388 (584)
T ss_pred cc--cCccceEEecccHHHHHHHHHHHHHHHHHHHhhhHHHhhccCCCCcccCccccCCCCcccccCCC-----------
Confidence 32 2569999999999999999999999999987665321 1111111110 1111111000
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCcCCCCCCCCCCCCCCCCCceEEEEEeeccccceEEeCCchHHHHHHHHhCCeEEEeCC
Q 005758 307 GARFSGSNYRSNNYGPRPSGYSIEAGAAPMSDSVQPFYGEDLVFRMLCPIDKVGRVIGESEGIVELLQNEIGVDLKVADP 386 (678)
Q Consensus 307 ~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~i~vp~~~vg~IIG~~G~~I~~I~~~tg~~I~i~~~ 386 (678)
.| .+.... .+++.. ...-+++...+++.||...+|.|||++|.+|++|...+|+.|+|..+
T Consensus 389 --h~---~Ps~v~------------~a~p~~--~~hq~pe~e~V~~fiP~~~vGAiIGkkG~hIKql~RfagASiKIapp 449 (584)
T KOG2193|consen 389 --HF---PPSPVT------------FASPYP--LFHQNPEQEQVRMFIPAQAVGAIIGKKGQHIKQLSRFAGASIKIAPP 449 (584)
T ss_pred --CC---CCCccc------------cCCCch--hhhcCcchhheeeeccHHHHHHHHhhcchhHHHHHHhccceeeecCC
Confidence 00 000000 000000 00012245678999999999999999999999999999999999776
Q ss_pred -CCCCCCcEEEEecCCCCCCcchHHHHHHHHHHHHhhccC---CCCCCceEEEEeecCCcceeeecCCch-hHHHHhhcC
Q 005758 387 -VDGSDEQIITISSEEGPDDELFPAQEALLHIQTRIVDLG---ADKDNIITTRLLVPSSEIGCLEGRDGS-LSEMRRSTG 461 (678)
Q Consensus 387 -~~~~~er~v~I~G~~g~~~~~~~a~~~i~~i~~~i~~~~---~~~~~~~~~~l~VP~~~~g~iIGkgG~-Ik~I~~~tg 461 (678)
.++..+|.|+|+| ++++.++|+.- ++.++.+.. +..+..+...+-||.+.+|+||||||. ++||+..|+
T Consensus 450 E~pdvseRMViItG---ppeaqfKAQgr---ifgKikEenf~~PkeevklethirVPs~~aGRvIGKGGktVnELQnlt~ 523 (584)
T KOG2193|consen 450 EIPDVSERMVIITG---PPEAQFKAQGR---IFGKIKEENFFLPKEEVKLETHIRVPSSAAGRVIGKGGKTVNELQNLTS 523 (584)
T ss_pred CCCCcceeEEEecC---ChHHHHhhhhh---hhhhhhhhccCCchhhheeeeeeeccchhhhhhhccccccHHHHhcccc
Confidence 4778899999994 56788888774 455555432 234556788899999999999999999 999999999
Q ss_pred CeEEEeccCCCCCCCCCCCeEEEEEecHHHHHHHHHHHHHHHHhhh
Q 005758 462 ANIQILSREEVPACVSGTDELVQIVGEIQAARDALVEVTTRLRSYL 507 (678)
Q Consensus 462 a~I~v~~~~~~p~~~~~~~~~V~I~G~~~~v~~A~~~I~~~l~~~~ 507 (678)
|.|.| |+|+.|+- ++..+|.|.|..-+.+.|...|.+++.++.
T Consensus 524 AeV~v-PrdqtpdE--nd~vivriiGhfyatq~aQrki~~iv~qvk 566 (584)
T KOG2193|consen 524 AEVVV-PRDQTPDE--NDQVIVRIIGHFYATQNAQRKIAHIVNQVK 566 (584)
T ss_pred ceEEc-cccCCCCc--cceeeeeeechhhcchHHHHHHHHHHHHHH
Confidence 99998 56666653 456678999999999999999999998753
No 2
>KOG2190 consensus PolyC-binding proteins alphaCP-1 and related KH domain proteins [RNA processing and modification; General function prediction only]
Probab=100.00 E-value=2.4e-38 Score=343.39 Aligned_cols=366 Identities=39% Similarity=0.589 Sum_probs=278.9
Q ss_pred CccEEEEEEeeCceeceecccCchhHHhHHhHhCCEEEEccCCCCCCccEEEEecCCCCCCCCCCCCCchHHHHHHHHHH
Q 005758 76 MVTTTYRILCHDMKAGGVIGKSGSIIKSIRQHTGAWINVHELIPGDEERIIEISDTRRRDPEGRMPSFSPAQEALFLIHD 155 (678)
Q Consensus 76 ~~~~~~~ilip~~~~g~IIGk~G~~Ik~i~~~tga~I~v~~~~~~~~ervv~i~G~~~~~~~~~~~~~~~~~~a~~~i~~ 155 (678)
+...+||+||+.+.+|.||||+|.+||+||.+|.++|.|.+..+++.+|+++|+|...+. ..+.+++|+.++++
T Consensus 40 ~~t~~~RlL~~~kevG~IIGk~G~~vkkir~~t~s~i~i~~~~~~c~eRIiti~g~~~~~------~~~~~~~al~ka~~ 113 (485)
T KOG2190|consen 40 DETLTYRLLCHVKEVGSIIGKKGDIVKKIRKETESKIRVNESLPGCPERIITITGNRVEL------NLSPATDALFKAFD 113 (485)
T ss_pred CCcceEEEEeccccceeEEccCcHHHHHHhhcccccceeecCCCCCCcceEEEecccccc------cCCchHHHHHHHHH
Confidence 445569999999999999999999999999999999999999999999999999962111 56778888888888
Q ss_pred HhhccCCCCCCCCCcccccCCCCCCCCCCcCCCCCceEEEEEEcccccceecccCchhHHHHHhccCceEEEecCCCCCC
Q 005758 156 RILESDGGGGFYGEEEEEYGGGGGVGGGGFRGGGNRVATRMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRILPRDHSLP 235 (678)
Q Consensus 156 ~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~vp~~~~g~iIGk~G~~I~~I~~~tg~~I~i~~~~~~~p 235 (678)
.+......+. .....++. ......++++|+||..++|+||||+|+.|++|+++|||+|+|.+ +++|
T Consensus 114 ~iv~~~~~d~---~~~~d~~~---------~~~~~~v~~RLlVp~sq~GslIGK~G~~Ik~Ire~TgA~I~v~~--~~lP 179 (485)
T KOG2190|consen 114 MIVFKLEEDD---EAAEDNGE---------DASGPEVTCRLLVPSSQVGSLIGKGGSLIKEIREETGAKIRVSS--DMLP 179 (485)
T ss_pred HHhhcccccc---cccccCCc---------cccCCceEEEEEechhheeeeeccCcHHHHHHHHhcCceEEecC--CCCC
Confidence 8866432110 00001110 11122689999999999999999999999999999999999996 3789
Q ss_pred CccCCCCceeeccCCHHHHHHHHHHHHHHHhcccccCCCCCCCCCCCCCCcCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 005758 236 RCVSMSEEIVQVVGDINNVKNAVAIISSRLRESQHRDRSHFHGRLHSPDRFFPDDDYVPHMNNTARRPSMDGARFSGSNY 315 (678)
Q Consensus 236 ~~~~~~~~~V~I~G~~~~v~~A~~~I~~~~~e~~~~~~~~~~~~~~~p~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~ 315 (678)
. ..++.|+|.|..++|.+|+..|..+|.++..+.- ..+...-.|.|....+ .+ ..
T Consensus 180 ~---ster~V~IsG~~~av~~al~~Is~~L~~~~~~~~----------~~~~st~~y~P~~~~~---~~----~~----- 234 (485)
T KOG2190|consen 180 N---STERAVTISGEPDAVKKALVQISSRLLENPPRSP----------PPLVSTIPYRPSASQG---GP----VL----- 234 (485)
T ss_pred c---ccceeEEEcCchHHHHHHHHHHHHHHHhcCCcCC----------CCCCCcccCCCccccc---Cc----cc-----
Confidence 8 5688899999999999999999999999654310 0010111122200000 00 00
Q ss_pred CCCCCCCCCCCCCcCCCCCCCCCCCCCCCCCceEEEEEeeccccceEEeCCchHHHHHHHHhCCeEEEeCCCCCCCCcEE
Q 005758 316 RSNNYGPRPSGYSIEAGAAPMSDSVQPFYGEDLVFRMLCPIDKVGRVIGESEGIVELLQNEIGVDLKVADPVDGSDEQII 395 (678)
Q Consensus 316 ~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~i~vp~~~vg~IIG~~G~~I~~I~~~tg~~I~i~~~~~~~~er~v 395 (678)
..++.....+. .......+.+..+++.+|.+.++.|||++|..++.|+.++++.|.+.+...+ +++
T Consensus 235 --~s~~~~~~~~~---------~~~~~~~~~e~~~~~~~p~~~~~~v~g~~~~~i~~l~~~~~~~i~v~~~~~~---~~i 300 (485)
T KOG2190|consen 235 --PSTAQTSPDAH---------PFGGIVPEEELVFKLICPSDKVGSVIGKGGLVIRALRNETGASISVGDSRTD---RIV 300 (485)
T ss_pred --cccccCCcccc---------cccccccchhhhhhhcCchhhceeeecCCCccchhhhhhcCCceEeccccCc---cee
Confidence 00000000000 0001122467788999999999999999999999999999999999875433 899
Q ss_pred EEecCCCCCCcchHHHHHHHHHHHHhhccCCCC-CCceEEEEeecCCcceeeecCCch-hHHHHhhcCCeEEEeccCCCC
Q 005758 396 TISSEEGPDDELFPAQEALLHIQTRIVDLGADK-DNIITTRLLVPSSEIGCLEGRDGS-LSEMRRSTGANIQILSREEVP 473 (678)
Q Consensus 396 ~I~G~~g~~~~~~~a~~~i~~i~~~i~~~~~~~-~~~~~~~l~VP~~~~g~iIGkgG~-Ik~I~~~tga~I~v~~~~~~p 473 (678)
+++..+-+.+..+.|++++++++.++.+...+. ...++.+|+||.++++|||||+|. |.+|++.|||.|.+..+++..
T Consensus 301 ~~s~~e~~~~~~s~a~~a~~~~~~~~~~~~~~~~~~~v~~~l~vps~~igciiGk~G~~iseir~~tgA~I~I~~~~~~~ 380 (485)
T KOG2190|consen 301 TISARENPEDRYSMAQEALLLVQPRISENAGDDLTQTVTQRLLVPSDLIGCIIGKGGAKISEIRQRTGASISILNKEEVS 380 (485)
T ss_pred eeccccCcccccccchhhhhhccccccccccccccceeeeeeccCccccceeecccccchHHHHHhcCCceEEccccccC
Confidence 999988888888999999999999988765444 677999999999999999999999 999999999999998766542
Q ss_pred CCCCCCCeEEEEEecHHHHHHHHHHHHHHH
Q 005758 474 ACVSGTDELVQIVGEIQAARDALVEVTTRL 503 (678)
Q Consensus 474 ~~~~~~~~~V~I~G~~~~v~~A~~~I~~~l 503 (678)
...++.++|+|.......|..++...+
T Consensus 381 ---~~~e~~~~I~~~~~~~~~~~~~~~~~~ 407 (485)
T KOG2190|consen 381 ---GVREALVQITGMLREDLLAQYLIRARL 407 (485)
T ss_pred ---CcceeEEEecchhHHHHhhhhhccccc
Confidence 348999999999999988888875555
No 3
>KOG1676 consensus K-homology type RNA binding proteins [RNA processing and modification]
Probab=100.00 E-value=3.3e-39 Score=342.74 Aligned_cols=325 Identities=19% Similarity=0.320 Sum_probs=256.5
Q ss_pred CceEEEEEEcccccceecccCchhHHHHHhccCceEEEecCCCCCCCccCCCCceeeccCCHHHHHHHHHHHHHHHhccc
Q 005758 190 NRVATRMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRILPRDHSLPRCVSMSEEIVQVVGDINNVKNAVAIISSRLRESQ 269 (678)
Q Consensus 190 ~~~~~~l~vp~~~~g~iIGk~G~~I~~I~~~tg~~I~i~~~~~~~p~~~~~~~~~V~I~G~~~~v~~A~~~I~~~~~e~~ 269 (678)
..++.+..||..++++|||++|+.|..|+.++||+|+|..... ....|.|.|+|.+++|+.|+.+|.+++....
T Consensus 52 ~~~~~~~~VPd~~VglvIGrgG~qI~~iqq~SgCrvq~~~~~s------~~~~r~~~~~G~pe~v~~aK~li~evv~r~~ 125 (600)
T KOG1676|consen 52 TVQTERYKVPDEAVGLVIGRGGSQIQAIQQKSGCRVQIAADPS------GIGYRSVDLTGSPENVEVAKQLIGEVVSRGR 125 (600)
T ss_pred cccccccCCCchhceeEeeccHHHhhhhhhhcCCccccCCCCC------CcccccccccCCcccHHHHHHhhhhhhhccC
Confidence 5577888999999999999999999999999999999875321 2468999999999999999999999886531
Q ss_pred ccCCCCCCCCCCCCCCcCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcCCCCCCCCCCCCCCCCCceE
Q 005758 270 HRDRSHFHGRLHSPDRFFPDDDYVPHMNNTARRPSMDGARFSGSNYRSNNYGPRPSGYSIEAGAAPMSDSVQPFYGEDLV 349 (678)
Q Consensus 270 ~~~~~~~~~~~~~p~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~ 349 (678)
. +..| +... .+.+++
T Consensus 126 ----~--------~~~~------------------------~~~q-----------------------------~~~~tt 140 (600)
T KOG1676|consen 126 ----P--------PGGF------------------------PDNQ-----------------------------GSVETT 140 (600)
T ss_pred ----C--------CCCc------------------------cccC-----------------------------Ccccee
Confidence 0 0000 0000 015689
Q ss_pred EEEEeeccccceEEeCCchHHHHHHHHhCCeEEEeCCC--CCCCCcEEEEecCCCCCCcchHHHHHHHHHHHHhhccCC-
Q 005758 350 FRMLCPIDKVGRVIGESEGIVELLQNEIGVDLKVADPV--DGSDEQIITISSEEGPDDELFPAQEALLHIQTRIVDLGA- 426 (678)
Q Consensus 350 ~~i~vp~~~vg~IIG~~G~~I~~I~~~tg~~I~i~~~~--~~~~er~v~I~G~~g~~~~~~~a~~~i~~i~~~i~~~~~- 426 (678)
..|.||.+.+|+||||+|++|++|++++||++.+.... .....+.+.|+|. .+.++.|..++.+++..-.+...
T Consensus 141 qeI~IPa~k~GlIIGKgGETikqlqe~sg~k~i~iqd~~~~~~~~KplritGd---p~~ve~a~~lV~dil~e~~~~~~g 217 (600)
T KOG1676|consen 141 QEILIPANKCGLIIGKGGETIKQLQEQSGVKMILVQDGSIATGADKPLRITGD---PDKVEQAKQLVADILREEDDEVPG 217 (600)
T ss_pred eeeccCccceeeEeccCccHHHHHHhhcCCceEEEecCCcCCCCCCceeecCC---HHHHHHHHHHHHHHHHhcccCCCc
Confidence 99999999999999999999999999999998875531 2236788999964 57788888888877765222211
Q ss_pred -------CCCCceEEEEeecCCcceeeecCCch-hHHHHhhcCCeEEEeccCCCCCCCCCCCeEEEEEecHHHHHHHHHH
Q 005758 427 -------DKDNIITTRLLVPSSEIGCLEGRDGS-LSEMRRSTGANIQILSREEVPACVSGTDELVQIVGEIQAARDALVE 498 (678)
Q Consensus 427 -------~~~~~~~~~l~VP~~~~g~iIGkgG~-Ik~I~~~tga~I~v~~~~~~p~~~~~~~~~V~I~G~~~~v~~A~~~ 498 (678)
......+++|.||++.||.||||+|+ ||+|+.+||++|+|.+++ .| .+.+|.+.|.|++++|++|.++
T Consensus 218 ~~~~~g~~~g~~~~~~V~VPr~~VG~IIGkgGE~IKklq~etG~KIQfkpDd-~p---~speR~~~IiG~~d~ie~Aa~l 293 (600)
T KOG1676|consen 218 SGGHAGVRGGGSATREVKVPRSKVGIIIGKGGEMIKKLQNETGAKIQFKPDD-DP---SSPERPAQIIGTVDQIEHAAEL 293 (600)
T ss_pred cccccCcCccccceeEEeccccceeeEEecCchHHHHHhhccCceeEeecCC-CC---CCccceeeeecCHHHHHHHHHH
Confidence 11224589999999999999999999 999999999999998754 34 3589999999999999999999
Q ss_pred HHHHHHhhhhcccCCCCCCCCCCCCCCcccccccCCCCCCCCCCCCCCCCCCCcccCCCCCCCCCCCCCcccCCCCcccc
Q 005758 499 VTTRLRSYLYRDFFQKETPPSSTGPTGSALVVEAASPIDITPAREVQTVTDPPAATHQSVQIPATSQPSKEAAGSVSETV 578 (678)
Q Consensus 499 I~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~ 578 (678)
|.++|.+..... +++ | .+|.
T Consensus 294 I~eii~~~~~~~------------~~~---------------------------------------~----~~G~----- 313 (600)
T KOG1676|consen 294 INEIIAEAEAGA------------GGG---------------------------------------M----GGGA----- 313 (600)
T ss_pred HHHHHHHHhccC------------CCC---------------------------------------c----CCCC-----
Confidence 999998742110 000 0 0000
Q ss_pred ccCcccccCCCcccccCCCCCcccccEEEEEecCCCcCeeecCCCchHHHHHHHcCCeEEEecC--CCCCceeEEEEEcC
Q 005758 579 KQNESERREDVPTVINRVPLPLVTRSTLEVVLPDYAVPKLITKSKTLLTRFSEMSGASVSLVEG--QPEGTQKIIQISGT 656 (678)
Q Consensus 579 ~~g~~~~~~~~~~~~~~~~~~~~~~~t~~v~VP~~~vg~IIGkgG~~I~~Ir~~sGA~I~i~~~--~~~~~~r~I~IsGt 656 (678)
. . .....++.||++.+|.||||||++|++|.++|||++.+... ..+..+++|+|+|+
T Consensus 314 ----P---------------~--~~~~fy~~VPa~KcGLvIGrGGEtIK~in~qSGA~~el~r~~p~~~~~ektf~IrG~ 372 (600)
T KOG1676|consen 314 ----P---------------G--LVAQFYMKVPADKCGLVIGRGGETIKQINQQSGARCELSRQPPNGNPKEKTFVIRGD 372 (600)
T ss_pred ----c---------------c--ceeeEEEeccccccccccCCCccchhhhcccCCccccccCCCCCCCccceEEEEecC
Confidence 0 0 01168999999999999999999999999999999999844 33557899999999
Q ss_pred HHHHHHHHHHHHHHHhc
Q 005758 657 PEQVERAQSVLQGFILS 673 (678)
Q Consensus 657 ~eqv~~Ak~lI~~~i~~ 673 (678)
+.||+.|+.||+..|..
T Consensus 373 ~~QIdhAk~LIr~kvg~ 389 (600)
T KOG1676|consen 373 KRQIDHAKQLIRDKVGD 389 (600)
T ss_pred cccchHHHHHHHHHhcc
Confidence 99999999999998853
No 4
>KOG1676 consensus K-homology type RNA binding proteins [RNA processing and modification]
Probab=100.00 E-value=4.9e-36 Score=318.67 Aligned_cols=331 Identities=21% Similarity=0.314 Sum_probs=255.2
Q ss_pred ccEEEEEEeeCceeceecccCchhHHhHHhHhCCEEEEccCCCCCCccEEEEecCCCCCCCCCCCCCchHHHHHHHHHHH
Q 005758 77 VTTTYRILCHDMKAGGVIGKSGSIIKSIRQHTGAWINVHELIPGDEERIIEISDTRRRDPEGRMPSFSPAQEALFLIHDR 156 (678)
Q Consensus 77 ~~~~~~ilip~~~~g~IIGk~G~~Ik~i~~~tga~I~v~~~~~~~~ervv~i~G~~~~~~~~~~~~~~~~~~a~~~i~~~ 156 (678)
..++-+..||...+|.||||+|+.|..|+.++||+|+++....+..+|.|.+.|..+ .+..|..++-+.
T Consensus 52 ~~~~~~~~VPd~~VglvIGrgG~qI~~iqq~SgCrvq~~~~~s~~~~r~~~~~G~pe-----------~v~~aK~li~ev 120 (600)
T KOG1676|consen 52 TVQTERYKVPDEAVGLVIGRGGSQIQAIQQKSGCRVQIAADPSGIGYRSVDLTGSPE-----------NVEVAKQLIGEV 120 (600)
T ss_pred cccccccCCCchhceeEeeccHHHhhhhhhhcCCccccCCCCCCcccccccccCCcc-----------cHHHHHHhhhhh
Confidence 346778889999999999999999999999999999987666677999999999742 355555555554
Q ss_pred hhccCCCCCCCCCcccccCCCCCCCCCCcCCCCCceEEEEEEcccccceecccCchhHHHHHhccCceEEEecCCCCCCC
Q 005758 157 ILESDGGGGFYGEEEEEYGGGGGVGGGGFRGGGNRVATRMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRILPRDHSLPR 236 (678)
Q Consensus 157 i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~vp~~~~g~iIGk~G~~I~~I~~~tg~~I~i~~~~~~~p~ 236 (678)
+.......+|.. ......++..|+||++.+|+||||+|.+|+.|++.+||++.+... .....
T Consensus 121 v~r~~~~~~~~~-----------------~q~~~~ttqeI~IPa~k~GlIIGKgGETikqlqe~sg~k~i~iqd-~~~~~ 182 (600)
T KOG1676|consen 121 VSRGRPPGGFPD-----------------NQGSVETTQEILIPANKCGLIIGKGGETIKQLQEQSGVKMILVQD-GSIAT 182 (600)
T ss_pred hhccCCCCCccc-----------------cCCccceeeeeccCccceeeEeccCccHHHHHHhhcCCceEEEec-CCcCC
Confidence 433321111100 011456899999999999999999999999999999999887653 22221
Q ss_pred ccCCCCceeeccCCHHHHHHHHHHHHHHHhcccccCCCCCCCCCCCCCCcCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 005758 237 CVSMSEEIVQVVGDINNVKNAVAIISSRLRESQHRDRSHFHGRLHSPDRFFPDDDYVPHMNNTARRPSMDGARFSGSNYR 316 (678)
Q Consensus 237 ~~~~~~~~V~I~G~~~~v~~A~~~I~~~~~e~~~~~~~~~~~~~~~p~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~ 316 (678)
..++.+.|+|+++.|+.|+.++.++|++... ..+- .. .+
T Consensus 183 ---~~~KplritGdp~~ve~a~~lV~dil~e~~~---~~~g-----------------~~-------~~----------- 221 (600)
T KOG1676|consen 183 ---GADKPLRITGDPDKVEQAKQLVADILREEDD---EVPG-----------------SG-------GH----------- 221 (600)
T ss_pred ---CCCCceeecCCHHHHHHHHHHHHHHHHhccc---CCCc-----------------cc-------cc-----------
Confidence 3678899999999999999999999997321 0000 00 00
Q ss_pred CCCCCCCCCCCCcCCCCCCCCCCCCCCCCCceEEEEEeeccccceEEeCCchHHHHHHHHhCCeEEEeCCC-CCCCCcEE
Q 005758 317 SNNYGPRPSGYSIEAGAAPMSDSVQPFYGEDLVFRMLCPIDKVGRVIGESEGIVELLQNEIGVDLKVADPV-DGSDEQII 395 (678)
Q Consensus 317 ~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~i~vp~~~vg~IIG~~G~~I~~I~~~tg~~I~i~~~~-~~~~er~v 395 (678)
+... .....+++|.||...||.||||+|++||+|+.+||++|.|.... +.+.||.+
T Consensus 222 ----------~g~~-------------~g~~~~~~V~VPr~~VG~IIGkgGE~IKklq~etG~KIQfkpDd~p~speR~~ 278 (600)
T KOG1676|consen 222 ----------AGVR-------------GGGSATREVKVPRSKVGIIIGKGGEMIKKLQNETGAKIQFKPDDDPSSPERPA 278 (600)
T ss_pred ----------cCcC-------------ccccceeEEeccccceeeEEecCchHHHHHhhccCceeEeecCCCCCCcccee
Confidence 0000 01234899999999999999999999999999999999996553 47889999
Q ss_pred EEecCCCCCCcchHHHHHHHHHHHHhhccCC---C-CCCce--EEEEeecCCcceeeecCCch-hHHHHhhcCCeEEEec
Q 005758 396 TISSEEGPDDELFPAQEALLHIQTRIVDLGA---D-KDNII--TTRLLVPSSEIGCLEGRDGS-LSEMRRSTGANIQILS 468 (678)
Q Consensus 396 ~I~G~~g~~~~~~~a~~~i~~i~~~i~~~~~---~-~~~~~--~~~l~VP~~~~g~iIGkgG~-Ik~I~~~tga~I~v~~ 468 (678)
.|.|+ .+.+..|.++|.+|+........ . ..... .+.|.||.+.||.||||||+ ||.|..+|||++.+.+
T Consensus 279 ~IiG~---~d~ie~Aa~lI~eii~~~~~~~~~~~~~G~P~~~~~fy~~VPa~KcGLvIGrGGEtIK~in~qSGA~~el~r 355 (600)
T KOG1676|consen 279 QIIGT---VDQIEHAAELINEIIAEAEAGAGGGMGGGAPGLVAQFYMKVPADKCGLVIGRGGETIKQINQQSGARCELSR 355 (600)
T ss_pred eeecC---HHHHHHHHHHHHHHHHHHhccCCCCcCCCCccceeeEEEeccccccccccCCCccchhhhcccCCccccccC
Confidence 99964 67888888888887776654310 0 11122 78999999999999999999 9999999999999865
Q ss_pred cCCCCCCCCCCCeEEEEEecHHHHHHHHHHHHHHHHhh
Q 005758 469 REEVPACVSGTDELVQIVGEIQAARDALVEVTTRLRSY 506 (678)
Q Consensus 469 ~~~~p~~~~~~~~~V~I~G~~~~v~~A~~~I~~~l~~~ 506 (678)
. +......+++|+|+|++.+|+.|+.+|..++-+.
T Consensus 356 ~---~p~~~~~ektf~IrG~~~QIdhAk~LIr~kvg~~ 390 (600)
T KOG1676|consen 356 Q---PPNGNPKEKTFVIRGDKRQIDHAKQLIRDKVGDI 390 (600)
T ss_pred C---CCCCCccceEEEEecCcccchHHHHHHHHHhccc
Confidence 4 3333568999999999999999999999988764
No 5
>KOG2192 consensus PolyC-binding hnRNP-K protein HRB57A/hnRNP, contains KH domain [RNA processing and modification; General function prediction only]
Probab=100.00 E-value=8.4e-33 Score=264.60 Aligned_cols=315 Identities=23% Similarity=0.268 Sum_probs=212.4
Q ss_pred CceEEEEEeeccccceEEeCCchHHHHHHHHhCCeEEEeCCCCCCCCcEEEEecCCCCCCcchHHHHHHHHHHHHhhccC
Q 005758 346 EDLVFRMLCPIDKVGRVIGESEGIVELLQNEIGVDLKVADPVDGSDEQIITISSEEGPDDELFPAQEALLHIQTRIVDLG 425 (678)
Q Consensus 346 ~~~~~~i~vp~~~vg~IIG~~G~~I~~I~~~tg~~I~i~~~~~~~~er~v~I~G~~g~~~~~~~a~~~i~~i~~~i~~~~ 425 (678)
..+.+++++.++.+|+||||+|++|+.|+.+++++|.|++ ....+|+++|+..+ ....+.|.++...+++ .
T Consensus 46 ~r~e~ril~~sk~agavigkgg~nik~lr~d~na~v~vpd--s~~peri~tisad~------~ti~~ilk~iip~lee-~ 116 (390)
T KOG2192|consen 46 SRVELRILLQSKNAGAVIGKGGKNIKALRTDYNASVSVPD--SSGPERILTISADI------ETIGEILKKIIPTLEE-G 116 (390)
T ss_pred cceeEEEEEecccccceeccccccHHHHhhhccceeeccC--CCCCceeEEEeccH------HHHHHHHHHHhhhhhh-C
Confidence 4588999999999999999999999999999999999976 56789999999542 2233334445545443 2
Q ss_pred CCCCCceEEEEeecCCcceeeecCCch-hHHHHhhcCCeEEEeccCCCCCCCCCCCeEEEEEecHHHHHHHHHHHHHHHH
Q 005758 426 ADKDNIITTRLLVPSSEIGCLEGRDGS-LSEMRRSTGANIQILSREEVPACVSGTDELVQIVGEIQAARDALVEVTTRLR 504 (678)
Q Consensus 426 ~~~~~~~~~~l~VP~~~~g~iIGkgG~-Ik~I~~~tga~I~v~~~~~~p~~~~~~~~~V~I~G~~~~v~~A~~~I~~~l~ 504 (678)
......+.++|+|.+++.|.|||++|+ ||+|++++.|+++|+.. .|..++||+|.|.|.+.+|..+++.|+++|.
T Consensus 117 f~~~~pce~rllihqs~ag~iigrngskikelrekcsarlkift~----c~p~stdrv~l~~g~~k~v~~~i~~il~~i~ 192 (390)
T KOG2192|consen 117 FQLPSPCELRLLIHQSLAGGIIGRNGSKIKELREKCSARLKIFTE----CCPHSTDRVVLIGGKPKRVVECIKIILDLIS 192 (390)
T ss_pred CCCCCchhhhhhhhhhhccceecccchhHHHHHHhhhhhhhhhhc----cCCCCcceEEEecCCcchHHHHHHHHHHHhh
Confidence 345678999999999999999999999 99999999999999743 4556799999999999999999999999998
Q ss_pred hhhhcccCCCCCCCCCCCC---CCcccccccCCCCC--CCCCCCCCCCCCCC----cccCCC---------C--CCCCCC
Q 005758 505 SYLYRDFFQKETPPSSTGP---TGSALVVEAASPID--ITPAREVQTVTDPP----AATHQS---------V--QIPATS 564 (678)
Q Consensus 505 ~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~--~~~~~~~~~~~~~~----~~~~~~---------~--~~~~~~ 564 (678)
|...+...+.+.|.. ..+ .+++.+++...+.. ..|.++...++.++ +...+. + .+....
T Consensus 193 e~pikgsa~py~p~f-yd~t~dyggf~M~f~d~pg~pgpapqrggqgpp~~~~sdlmay~r~GrpG~rydg~vdFs~det 271 (390)
T KOG2192|consen 193 ESPIKGSAQPYDPNF-YDETYDYGGFTMMFDDRPGRPGPAPQRGGQGPPPPRGSDLMAYDRRGRPGDRYDGMVDFSADET 271 (390)
T ss_pred cCCcCCcCCcCCccc-cCcccccCCceeecCCCCCCCCCCCCCCCCCCCCCCccccceeccCCCCCcccccccccccccc
Confidence 866554322222211 111 12233333322221 12222221111110 000000 0 001112
Q ss_pred CCCcccCCCCccc-----cccCccc--ccCCCcccccCCCCCcccccEEEEEecCCCcCeeecCCCchHHHHHHHcCCeE
Q 005758 565 QPSKEAAGSVSET-----VKQNESE--RREDVPTVINRVPLPLVTRSTLEVVLPDYAVPKLITKSKTLLTRFSEMSGASV 637 (678)
Q Consensus 565 ~~~~~~~g~~~~~-----~~~g~~~--~~~~~~~~~~~~~~~~~~~~t~~v~VP~~~vg~IIGkgG~~I~~Ir~~sGA~I 637 (678)
|++.-.+.+.+.+ ...|... .+...-..+..+-. .-.|..|+||.++-|.||||||+.|++|++++||+|
T Consensus 272 w~saidtw~~SewqmaYePQgGs~ydysyAG~~GsYGdlGG---PitTaQvtip~dlggsiigkggqri~~ir~esGA~I 348 (390)
T KOG2192|consen 272 WPSAIDTWSPSEWQMAYEPQGGSGYDYSYAGGYGSYGDLGG---PITTAQVTIPKDLGGSIIGKGGQRIKQIRHESGASI 348 (390)
T ss_pred CCCcCCCcCccccccccCCCCCCCCCccccccccccCCCCC---ceeeeeEecccccCcceecccchhhhhhhhccCceE
Confidence 2221111000000 0000000 00000001111111 236899999999999999999999999999999999
Q ss_pred EEecCCCCCceeEEEEEcCHHHHHHHHHHHHHHHhccccC
Q 005758 638 SLVEGQPEGTQKIIQISGTPEQVERAQSVLQGFILSTQDA 677 (678)
Q Consensus 638 ~i~~~~~~~~~r~I~IsGt~eqv~~Ak~lI~~~i~~~~~~ 677 (678)
+|.+|..++.+|+|+|+||.+|++.||+|||+.|...+|+
T Consensus 349 kidepleGsedrIitItGTqdQIqnAQYLlQn~Vkq~rer 388 (390)
T KOG2192|consen 349 KIDEPLEGSEDRIITITGTQDQIQNAQYLLQNSVKQYRER 388 (390)
T ss_pred EecCcCCCCCceEEEEeccHHHHhhHHHHHHHHHHhhhcc
Confidence 9999888999999999999999999999999999876654
No 6
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=100.00 E-value=2.7e-33 Score=283.26 Aligned_cols=316 Identities=19% Similarity=0.346 Sum_probs=255.9
Q ss_pred CCceEEEEEEcccccceecccCchhHHHHHhccCceEEEecCCCCCCCccCCCCceeeccCCHHHHHHHHHHHHHHHhcc
Q 005758 189 GNRVATRMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRILPRDHSLPRCVSMSEEIVQVVGDINNVKNAVAIISSRLRES 268 (678)
Q Consensus 189 ~~~~~~~l~vp~~~~g~iIGk~G~~I~~I~~~tg~~I~i~~~~~~~p~~~~~~~~~V~I~G~~~~v~~A~~~I~~~~~e~ 268 (678)
-....+|++||..+||.||||.|++|+.|-..|-|+|.|..++. .+..|+.|+|-|.++...+|+++|++++...
T Consensus 196 ~~D~PlR~lVptqyvgaIIGkeG~TIknItkqTqsriD~hrken-----~Gaaek~itvh~tpEg~s~Ac~~ILeimqkE 270 (584)
T KOG2193|consen 196 LKDWPLRLLVPTQYVGAIIGKEGATIKNITKQTQSRIDVHRKEN-----AGAAEKIITVHSTPEGTSKACKMILEIMQKE 270 (584)
T ss_pred ccCcceeeeeccceeEEEecCCCccccCcchhhhheeeeeeccc-----CCcccCceEEecCccchHHHHHHHHHHHHHh
Confidence 45678999999999999999999999999999999999986532 2467999999999999999999999999774
Q ss_pred cccCCCCCCCCCCCCCCcCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcCCCCCCCCCCCCCCCCCce
Q 005758 269 QHRDRSHFHGRLHSPDRFFPDDDYVPHMNNTARRPSMDGARFSGSNYRSNNYGPRPSGYSIEAGAAPMSDSVQPFYGEDL 348 (678)
Q Consensus 269 ~~~~~~~~~~~~~~p~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~ 348 (678)
...+. ...++
T Consensus 271 A~~~k----------------------------------------------------------------------~~~e~ 280 (584)
T KOG2193|consen 271 AVDDK----------------------------------------------------------------------VAEEI 280 (584)
T ss_pred hhccc----------------------------------------------------------------------hhhhc
Confidence 21100 12578
Q ss_pred EEEEEeeccccceEEeCCchHHHHHHHHhCCeEEEeCC---CCCCCCcEEEEecCCCCCCcchHHHHHHHHHHHHhhccC
Q 005758 349 VFRMLCPIDKVGRVIGESEGIVELLQNEIGVDLKVADP---VDGSDEQIITISSEEGPDDELFPAQEALLHIQTRIVDLG 425 (678)
Q Consensus 349 ~~~i~vp~~~vg~IIG~~G~~I~~I~~~tg~~I~i~~~---~~~~~er~v~I~G~~g~~~~~~~a~~~i~~i~~~i~~~~ 425 (678)
.++++..+.++|++|||.|.+|++|+++||++|.|++- ..-+.||.|+|.|+ .+++..|...|++-+.+.-+..
T Consensus 281 pLk~lAHN~lvGRLIGKeGrnlKkIeq~TgTkITis~lqels~ynpERTItVkGs---iEac~~AE~eImkKlre~yEnD 357 (584)
T KOG2193|consen 281 PLKILAHNNLVGRLIGKEGRNLKKIEQDTGTKITISKLQELSLYNPERTITVKGS---IEACVQAEAEIMKKLRECYEND 357 (584)
T ss_pred chhhhhhcchhhhhhhhccccHHHHHhhcCCceeeeehhhhcccCccceEEeccc---HHHHHHHHHHHHHHHHHHHhhh
Confidence 89999999999999999999999999999999999864 33456999999964 5677777777765444322110
Q ss_pred ----------------------C-------------------------CCCCceEEEEeecCCcceeeecCCch-hHHHH
Q 005758 426 ----------------------A-------------------------DKDNIITTRLLVPSSEIGCLEGRDGS-LSEMR 457 (678)
Q Consensus 426 ----------------------~-------------------------~~~~~~~~~l~VP~~~~g~iIGkgG~-Ik~I~ 457 (678)
. ...+.-.++|.||...+|.||||.|. ||.|.
T Consensus 358 l~a~s~q~~l~P~l~~~~l~~f~ssS~~~~Ph~~Ps~v~~a~p~~~~hq~pe~e~V~~fiP~~~vGAiIGkkG~hIKql~ 437 (584)
T KOG2193|consen 358 LAAMSLQCHLPPGLNLPALGLFPSSSAVSPPHFPPSPVTFASPYPLFHQNPEQEQVRMFIPAQAVGAIIGKKGQHIKQLS 437 (584)
T ss_pred HHHhhccCCCCcccCccccCCCCcccccCCCCCCCCccccCCCchhhhcCcchhheeeeccHHHHHHHHhhcchhHHHHH
Confidence 0 00123468999999999999999999 99999
Q ss_pred hhcCCeEEEeccCCCCCCCCCCCeEEEEEecHHHHHHHHHHHHHHHHhhhhcccCCCCCCCCCCCCCCcccccccCCCCC
Q 005758 458 RSTGANIQILSREEVPACVSGTDELVQIVGEIQAARDALVEVTTRLRSYLYRDFFQKETPPSSTGPTGSALVVEAASPID 537 (678)
Q Consensus 458 ~~tga~I~v~~~~~~p~~~~~~~~~V~I~G~~~~v~~A~~~I~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 537 (678)
+.+||.|+|.+.+ .|+ ..+|.|+|+|++++.-+|.-.|..+|.|.-+.
T Consensus 438 RfagASiKIappE-~pd---vseRMViItGppeaqfKAQgrifgKikEenf~---------------------------- 485 (584)
T KOG2193|consen 438 RFAGASIKIAPPE-IPD---VSERMVIITGPPEAQFKAQGRIFGKIKEENFF---------------------------- 485 (584)
T ss_pred HhccceeeecCCC-CCC---cceeEEEecCChHHHHhhhhhhhhhhhhhccC----------------------------
Confidence 9999999997644 444 48999999999999999999999999773110
Q ss_pred CCCCCCCCCCCCCCcccCCCCCCCCCCCCCcccCCCCccccccCcccccCCCcccccCCCCCcccccEEEEEecCCCcCe
Q 005758 538 ITPAREVQTVTDPPAATHQSVQIPATSQPSKEAAGSVSETVKQNESERREDVPTVINRVPLPLVTRSTLEVVLPDYAVPK 617 (678)
Q Consensus 538 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~t~~v~VP~~~vg~ 617 (678)
.|. + +-....+|.||....|.
T Consensus 486 ---------------------------~Pk-------------------e-------------evklethirVPs~~aGR 506 (584)
T KOG2193|consen 486 ---------------------------LPK-------------------E-------------EVKLETHIRVPSSAAGR 506 (584)
T ss_pred ---------------------------Cch-------------------h-------------hheeeeeeeccchhhhh
Confidence 000 0 01356899999999999
Q ss_pred eecCCCchHHHHHHHcCCeEEEecCCC--CCceeEEEEEcCHHHHHHHHHHHHHHHhc
Q 005758 618 LITKSKTLLTRFSEMSGASVSLVEGQP--EGTQKIIQISGTPEQVERAQSVLQGFILS 673 (678)
Q Consensus 618 IIGkgG~~I~~Ir~~sGA~I~i~~~~~--~~~~r~I~IsGt~eqv~~Ak~lI~~~i~~ 673 (678)
||||||.++++|+..|+|.|.|+.+.. +.+..+|.|.|..-+++.|+..|.++|..
T Consensus 507 vIGKGGktVnELQnlt~AeV~vPrdqtpdEnd~vivriiGhfyatq~aQrki~~iv~q 564 (584)
T KOG2193|consen 507 VIGKGGKTVNELQNLTSAEVVVPRDQTPDENDQVIVRIIGHFYATQNAQRKIAHIVNQ 564 (584)
T ss_pred hhccccccHHHHhccccceEEccccCCCCccceeeeeeechhhcchHHHHHHHHHHHH
Confidence 999999999999999999999985532 33456799999999999999999998854
No 7
>KOG2190 consensus PolyC-binding proteins alphaCP-1 and related KH domain proteins [RNA processing and modification; General function prediction only]
Probab=99.97 E-value=9.7e-30 Score=276.35 Aligned_cols=324 Identities=26% Similarity=0.341 Sum_probs=208.6
Q ss_pred ceEEEEEeeccccceEEeCCchHHHHHHHHhCCeEEEeCCCCCCCCcEEEEecCCCCCCcchHHHHHHHHHHHHhhcc--
Q 005758 347 DLVFRMLCPIDKVGRVIGESEGIVELLQNEIGVDLKVADPVDGSDEQIITISSEEGPDDELFPAQEALLHIQTRIVDL-- 424 (678)
Q Consensus 347 ~~~~~i~vp~~~vg~IIG~~G~~I~~I~~~tg~~I~i~~~~~~~~er~v~I~G~~g~~~~~~~a~~~i~~i~~~i~~~-- 424 (678)
..++|++|+.+.+|.|||++|..|++||.++.++|+|.+..+++.+|+++|+|.... ...+.++++++++++.+...
T Consensus 42 t~~~RlL~~~kevG~IIGk~G~~vkkir~~t~s~i~i~~~~~~c~eRIiti~g~~~~-~~~~~~~~al~ka~~~iv~~~~ 120 (485)
T KOG2190|consen 42 TLTYRLLCHVKEVGSIIGKKGDIVKKIRKETESKIRVNESLPGCPERIITITGNRVE-LNLSPATDALFKAFDMIVFKLE 120 (485)
T ss_pred cceEEEEeccccceeEEccCcHHHHHHhhcccccceeecCCCCCCcceEEEeccccc-ccCCchHHHHHHHHHHHhhccc
Confidence 345899999999999999999999999999999999999999999999999984222 25566666776666665431
Q ss_pred ---C-------CCCCCceEEEEeecCCcceeeecCCch-hHHHHhhcCCeEEEeccCCCCCCCCCCCeEEEEEecHHHHH
Q 005758 425 ---G-------ADKDNIITTRLLVPSSEIGCLEGRDGS-LSEMRRSTGANIQILSREEVPACVSGTDELVQIVGEIQAAR 493 (678)
Q Consensus 425 ---~-------~~~~~~~~~~l~VP~~~~g~iIGkgG~-Ik~I~~~tga~I~v~~~~~~p~~~~~~~~~V~I~G~~~~v~ 493 (678)
. ......++++|+||.+++|+||||+|+ ||+|+++|||+|++.++ .+|.| ++|.|+|.|.+++|.
T Consensus 121 ~d~~~~~d~~~~~~~~~v~~RLlVp~sq~GslIGK~G~~Ik~Ire~TgA~I~v~~~-~lP~s---ter~V~IsG~~~av~ 196 (485)
T KOG2190|consen 121 EDDEAAEDNGEDASGPEVTCRLLVPSSQVGSLIGKGGSLIKEIREETGAKIRVSSD-MLPNS---TERAVTISGEPDAVK 196 (485)
T ss_pred ccccccccCCccccCCceEEEEEechhheeeeeccCcHHHHHHHHhcCceEEecCC-CCCcc---cceeEEEcCchHHHH
Confidence 0 012225899999999999999999999 99999999999999755 89987 889999999999999
Q ss_pred HHHHHHHHHHHhhhhcccCCCC-CCCCCC-CCCCcccccccCCCCCCCCCCCCCCCC-C-----CCccc-----------
Q 005758 494 DALVEVTTRLRSYLYRDFFQKE-TPPSST-GPTGSALVVEAASPIDITPAREVQTVT-D-----PPAAT----------- 554 (678)
Q Consensus 494 ~A~~~I~~~l~~~~~~~~~~~~-~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~-~-----~~~~~----------- 554 (678)
+|+..|+.+|.+.....-+... ..++.| ................-..+.+..... + .....
T Consensus 197 ~al~~Is~~L~~~~~~~~~~~~st~~y~P~~~~~~~~~~s~~~~~~~~~~~~~~~~~~e~~~~~~~p~~~~~~v~g~~~~ 276 (485)
T KOG2190|consen 197 KALVQISSRLLENPPRSPPPLVSTIPYRPSASQGGPVLPSTAQTSPDAHPFGGIVPEEELVFKLICPSDKVGSVIGKGGL 276 (485)
T ss_pred HHHHHHHHHHHhcCCcCCCCCCCcccCCCcccccCccccccccCCcccccccccccchhhhhhhcCchhhceeeecCCCc
Confidence 9999999999986433211111 111111 100000011111000000000000000 0 00000
Q ss_pred ----CCCCCCCCCCCCCcccC----CCCccccccCcccccCCCcccccCC----CCCcccccEEEEEecCCCcCeeecCC
Q 005758 555 ----HQSVQIPATSQPSKEAA----GSVSETVKQNESERREDVPTVINRV----PLPLVTRSTLEVVLPDYAVPKLITKS 622 (678)
Q Consensus 555 ----~~~~~~~~~~~~~~~~~----g~~~~~~~~g~~~~~~~~~~~~~~~----~~~~~~~~t~~v~VP~~~vg~IIGkg 622 (678)
..+.......+...... ..+...+..-.+...+.+....... .......++.++.||.+++++||||+
T Consensus 277 ~i~~l~~~~~~~i~v~~~~~~~~i~~s~~e~~~~~~s~a~~a~~~~~~~~~~~~~~~~~~~v~~~l~vps~~igciiGk~ 356 (485)
T KOG2190|consen 277 VIRALRNETGASISVGDSRTDRIVTISARENPEDRYSMAQEALLLVQPRISENAGDDLTQTVTQRLLVPSDLIGCIIGKG 356 (485)
T ss_pred cchhhhhhcCCceEeccccCcceeeeccccCcccccccchhhhhhccccccccccccccceeeeeeccCccccceeeccc
Confidence 00000000000000000 0000000000000111111000000 00113458899999999999999999
Q ss_pred CchHHHHHHHcCCeEEEecCCC--CCceeEEEEEcCHHHHHHHHHHHHHHHhccc
Q 005758 623 KTLLTRFSEMSGASVSLVEGQP--EGTQKIIQISGTPEQVERAQSVLQGFILSTQ 675 (678)
Q Consensus 623 G~~I~~Ir~~sGA~I~i~~~~~--~~~~r~I~IsGt~eqv~~Ak~lI~~~i~~~~ 675 (678)
|++|.+||+.|||.|+|.+... ...++.++|+|+..+...|+++|..++....
T Consensus 357 G~~iseir~~tgA~I~I~~~~~~~~~~e~~~~I~~~~~~~~~~~~~~~~~~~~~~ 411 (485)
T KOG2190|consen 357 GAKISEIRQRTGASISILNKEEVSGVREALVQITGMLREDLLAQYLIRARLSAPK 411 (485)
T ss_pred ccchHHHHHhcCCceEEccccccCCcceeEEEecchhHHHHhhhhhcccccccCc
Confidence 9999999999999999997765 6789999999999999999999988876543
No 8
>KOG2192 consensus PolyC-binding hnRNP-K protein HRB57A/hnRNP, contains KH domain [RNA processing and modification; General function prediction only]
Probab=99.97 E-value=5.2e-29 Score=238.62 Aligned_cols=286 Identities=23% Similarity=0.386 Sum_probs=202.3
Q ss_pred CccEEEEEEeeCceeceecccCchhHHhHHhHhCCEEEEccCCCCCCccEEEEecCCCCCCCCCCCCCchHHHHHHHHHH
Q 005758 76 MVTTTYRILCHDMKAGGVIGKSGSIIKSIRQHTGAWINVHELIPGDEERIIEISDTRRRDPEGRMPSFSPAQEALFLIHD 155 (678)
Q Consensus 76 ~~~~~~~ilip~~~~g~IIGk~G~~Ik~i~~~tga~I~v~~~~~~~~ervv~i~G~~~~~~~~~~~~~~~~~~a~~~i~~ 155 (678)
...+.++||+.++.+|+||||+|.+||+|+.+++|+|+|+++ ..++|+++|+.. ...+-+-|..|+-
T Consensus 45 ~~r~e~ril~~sk~agavigkgg~nik~lr~d~na~v~vpds--~~peri~tisad-----------~~ti~~ilk~iip 111 (390)
T KOG2192|consen 45 RSRVELRILLQSKNAGAVIGKGGKNIKALRTDYNASVSVPDS--SGPERILTISAD-----------IETIGEILKKIIP 111 (390)
T ss_pred hcceeEEEEEecccccceeccccccHHHHhhhccceeeccCC--CCCceeEEEecc-----------HHHHHHHHHHHhh
Confidence 346999999999999999999999999999999999999987 689999999974 3445566666666
Q ss_pred HhhccCCCCCCCCCcccccCCCCCCCCCCcCCCCCceEEEEEEcccccceecccCchhHHHHHhccCceEEEecCCCCCC
Q 005758 156 RILESDGGGGFYGEEEEEYGGGGGVGGGGFRGGGNRVATRMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRILPRDHSLP 235 (678)
Q Consensus 156 ~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~vp~~~~g~iIGk~G~~I~~I~~~tg~~I~i~~~~~~~p 235 (678)
.+++.- .....++++|+|..+++|.|||++|+.|++|++++.++++|.. .
T Consensus 112 ~lee~f-------------------------~~~~pce~rllihqs~ag~iigrngskikelrekcsarlkift-----~ 161 (390)
T KOG2192|consen 112 TLEEGF-------------------------QLPSPCELRLLIHQSLAGGIIGRNGSKIKELREKCSARLKIFT-----E 161 (390)
T ss_pred hhhhCC-------------------------CCCCchhhhhhhhhhhccceecccchhHHHHHHhhhhhhhhhh-----c
Confidence 664421 1245689999999999999999999999999999999999973 4
Q ss_pred CccCCCCceeeccCCHHHHHHHHHHHHHHHhcccccCCC-CCCCCCCCCCCcCCCCCCC--C--C------CCCCCCCCC
Q 005758 236 RCVSMSEEIVQVVGDINNVKNAVAIISSRLRESQHRDRS-HFHGRLHSPDRFFPDDDYV--P--H------MNNTARRPS 304 (678)
Q Consensus 236 ~~~~~~~~~V~I~G~~~~v~~A~~~I~~~~~e~~~~~~~-~~~~~~~~p~~~~~~~~~~--p--~------~~~~~~~~~ 304 (678)
.|..+.||+|.|.|.+.+|..+++.|+++|.+.+-++.. +|.+..-.+. .+|- + . .++.. +.+
T Consensus 162 c~p~stdrv~l~~g~~k~v~~~i~~il~~i~e~pikgsa~py~p~fyd~t-----~dyggf~M~f~d~pg~pgpap-qrg 235 (390)
T KOG2192|consen 162 CCPHSTDRVVLIGGKPKRVVECIKIILDLISESPIKGSAQPYDPNFYDET-----YDYGGFTMMFDDRPGRPGPAP-QRG 235 (390)
T ss_pred cCCCCcceEEEecCCcchHHHHHHHHHHHhhcCCcCCcCCcCCccccCcc-----cccCCceeecCCCCCCCCCCC-CCC
Confidence 567789999999999999999999999999998766653 3433221111 1110 0 0 00000 000
Q ss_pred CCCC-------------------CC-CCCCC------C--CCCCCCC--CCCCCcCCC----------CCCCCCCCCCCC
Q 005758 305 MDGA-------------------RF-SGSNY------R--SNNYGPR--PSGYSIEAG----------AAPMSDSVQPFY 344 (678)
Q Consensus 305 ~~~~-------------------~~-~~~~~------~--~~~~~~~--~~~y~~~~~----------~~~~~~~~~~~~ 344 (678)
.|+. ++ ...++ . -..+++. .+.|..+.+ ..+.++. -
T Consensus 236 gqgpp~~~~sdlmay~r~GrpG~rydg~vdFs~detw~saidtw~~SewqmaYePQgGs~ydysyAG~~GsYGdl----G 311 (390)
T KOG2192|consen 236 GQGPPPPRGSDLMAYDRRGRPGDRYDGMVDFSADETWPSAIDTWSPSEWQMAYEPQGGSGYDYSYAGGYGSYGDL----G 311 (390)
T ss_pred CCCCCCCCccccceeccCCCCCccccccccccccccCCCcCCCcCccccccccCCCCCCCCCccccccccccCCC----C
Confidence 0000 00 00000 0 0001110 112221111 1111110 1
Q ss_pred CCceEEEEEeeccccceEEeCCchHHHHHHHHhCCeEEEeCCCCCCCCcEEEEecCCCCCCcchHHHHHHHHH
Q 005758 345 GEDLVFRMLCPIDKVGRVIGESEGIVELLQNEIGVDLKVADPVDGSDEQIITISSEEGPDDELFPAQEALLHI 417 (678)
Q Consensus 345 ~~~~~~~i~vp~~~vg~IIG~~G~~I~~I~~~tg~~I~i~~~~~~~~er~v~I~G~~g~~~~~~~a~~~i~~i 417 (678)
.--++..+.||.++-|.|||++|.+|++|+.++|+.|++.++..++.+|+++|+|++ +++..|+-++...
T Consensus 312 GPitTaQvtip~dlggsiigkggqri~~ir~esGA~IkidepleGsedrIitItGTq---dQIqnAQYLlQn~ 381 (390)
T KOG2192|consen 312 GPITTAQVTIPKDLGGSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDRIITITGTQ---DQIQNAQYLLQNS 381 (390)
T ss_pred CceeeeeEecccccCcceecccchhhhhhhhccCceEEecCcCCCCCceEEEEeccH---HHHhhHHHHHHHH
Confidence 234688999999999999999999999999999999999999999999999999764 5677776655433
No 9
>KOG2191 consensus RNA-binding protein NOVA1/PASILLA and related KH domain proteins [RNA processing and modification; General function prediction only]
Probab=99.94 E-value=1.2e-25 Score=221.99 Aligned_cols=245 Identities=22% Similarity=0.308 Sum_probs=177.5
Q ss_pred CCccEEEEEEeeCceeceecccCchhHHhHHhHhCCEEEEc---cCCCCCCccEEEEecCCCCCCCCCCCCCchHHHHHH
Q 005758 75 LMVTTTYRILCHDMKAGGVIGKSGSIIKSIRQHTGAWINVH---ELIPGDEERIIEISDTRRRDPEGRMPSFSPAQEALF 151 (678)
Q Consensus 75 ~~~~~~~~ilip~~~~g~IIGk~G~~Ik~i~~~tga~I~v~---~~~~~~~ervv~i~G~~~~~~~~~~~~~~~~~~a~~ 151 (678)
....++++||||+..+|.||||+|++|.+||++|||+|+++ +.+|++.||||.|.|+ ++++...+.
T Consensus 35 e~~~y~ikvLips~AaGsIIGKGG~ti~~lqk~tgariklSks~dfyPGTTeRvcli~Gt-----------~eai~av~e 103 (402)
T KOG2191|consen 35 EDGQYFLKVLIPSYAAGSIIGKGGQTIVQLQKETGARIKLSKSKDFYPGTTERVCLIQGT-----------VEALNAVHE 103 (402)
T ss_pred CCCceEEEEEeecccccceeccchHHHHHHHhccCcEEEeccccccCCCccceEEEEecc-----------HHHHHHHHH
Confidence 33459999999999999999999999999999999999996 4699999999999997 445666667
Q ss_pred HHHHHhhccCCCCCCCCCcccccCCCCCCCCCCcCCCCCceEEEEEEcccccceecccCchhHHHHHhccCceEEEecCC
Q 005758 152 LIHDRILESDGGGGFYGEEEEEYGGGGGVGGGGFRGGGNRVATRMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRILPRD 231 (678)
Q Consensus 152 ~i~~~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~vp~~~~g~iIGk~G~~I~~I~~~tg~~I~i~~~~ 231 (678)
.|+++|.|..+......+- +.| +..++...++|+||+...|.||||+|++||.|+++++|.|+|.|.+
T Consensus 104 fI~dKire~p~~~~k~v~~---~~p---------qt~~r~kqikivvPNstag~iigkggAtiK~~~Eqsga~iqisPqk 171 (402)
T KOG2191|consen 104 FIADKIREKPQAVAKPVDI---LQP---------QTPDRIKQIKIVVPNSTAGMIIGKGGATIKAIQEQSGAWIQISPQK 171 (402)
T ss_pred HHHHHHHHhHHhhcCCccc---cCC---------CCccccceeEEeccCCcccceecCCcchHHHHHHhhCcceEecccC
Confidence 7777777755432211111 111 1124445699999999999999999999999999999999999753
Q ss_pred CCCCCccCCCCceeeccCCHHHHHHHHHHHHHHHhcccccCCCCCCCCCCCCCCcCCCCCCCCCCCCCCCCCCCCCCCCC
Q 005758 232 HSLPRCVSMSEEIVQVVGDINNVKNAVAIISSRLRESQHRDRSHFHGRLHSPDRFFPDDDYVPHMNNTARRPSMDGARFS 311 (678)
Q Consensus 232 ~~~p~~~~~~~~~V~I~G~~~~v~~A~~~I~~~~~e~~~~~~~~~~~~~~~p~~~~~~~~~~p~~~~~~~~~~~~~~~~~ 311 (678)
|......+|+|++.|++++..+|+.+|+++|.++++.....-. .|. ++.+
T Consensus 172 ---pt~~sLqervvt~sge~e~~~~A~~~IL~Ki~eDpqs~scln~-------sya----~vsG---------------- 221 (402)
T KOG2191|consen 172 ---PTGISLQERVVTVSGEPEQNMKAVSLILQKIQEDPQSGSCLNI-------SYA----NVSG---------------- 221 (402)
T ss_pred ---CCCccceeEEEEecCCHHHHHHHHHHHHHHhhcCCcccceecc-------chh----cccC----------------
Confidence 5556688999999999999999999999999998753321100 000 0000
Q ss_pred CCCCCCCCCCCCCCCCCcCCCCCCCCCCCCCCCCCceEEEEEeeccccceEEeCCchHHHHHHHHhCCeEEEeCC
Q 005758 312 GSNYRSNNYGPRPSGYSIEAGAAPMSDSVQPFYGEDLVFRMLCPIDKVGRVIGESEGIVELLQNEIGVDLKVADP 386 (678)
Q Consensus 312 ~~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~i~vp~~~vg~IIG~~G~~I~~I~~~tg~~I~i~~~ 386 (678)
...|..+.-.+|..+.+. .+......+-++....|..-|.+|.+...|-.-+|..+.+++.
T Consensus 222 ----pvaNsnPtGspya~~~~~----------~~astas~~sva~~~iG~a~gaG~~~~a~l~~~~G~l~~itq~ 282 (402)
T KOG2191|consen 222 ----PVANSNPTGSPYAYQAHV----------LPASTASTISVAAGLIGGANGAGGAFGAALSGFTGALIAITQA 282 (402)
T ss_pred ----cccccCCCCCCCCCCCcc----------ccccchhhccccccccccccccccccceeeecccccceeeccc
Confidence 001111111112211111 1123445567888888999999999999999999998888664
No 10
>KOG2191 consensus RNA-binding protein NOVA1/PASILLA and related KH domain proteins [RNA processing and modification; General function prediction only]
Probab=99.89 E-value=8.6e-22 Score=194.95 Aligned_cols=260 Identities=19% Similarity=0.257 Sum_probs=185.7
Q ss_pred ceEEEEEeeccccceEEeCCchHHHHHHHHhCCeEEEeCC---CCCCCCcEEEEecCCCCCCcchHHHHHHHHHHHHhhc
Q 005758 347 DLVFRMLCPIDKVGRVIGESEGIVELLQNEIGVDLKVADP---VDGSDEQIITISSEEGPDDELFPAQEALLHIQTRIVD 423 (678)
Q Consensus 347 ~~~~~i~vp~~~vg~IIG~~G~~I~~I~~~tg~~I~i~~~---~~~~~er~v~I~G~~g~~~~~~~a~~~i~~i~~~i~~ 423 (678)
.+.++|+||+..+|.||||+|++|.+|+.++||+|++++. -+++.||+|.|+|+ .+++....+. |+++|.+
T Consensus 38 ~y~ikvLips~AaGsIIGKGG~ti~~lqk~tgariklSks~dfyPGTTeRvcli~Gt---~eai~av~ef---I~dKire 111 (402)
T KOG2191|consen 38 QYFLKVLIPSYAAGSIIGKGGQTIVQLQKETGARIKLSKSKDFYPGTTERVCLIQGT---VEALNAVHEF---IADKIRE 111 (402)
T ss_pred ceEEEEEeecccccceeccchHHHHHHHhccCcEEEeccccccCCCccceEEEEecc---HHHHHHHHHH---HHHHHHH
Confidence 4799999999999999999999999999999999999876 37899999999976 2333333333 3333332
Q ss_pred cCC------------CCCCceEEEEeecCCcceeeecCCch-hHHHHhhcCCeEEEeccCCCCCCCCCCCeEEEEEecHH
Q 005758 424 LGA------------DKDNIITTRLLVPSSEIGCLEGRDGS-LSEMRRSTGANIQILSREEVPACVSGTDELVQIVGEIQ 490 (678)
Q Consensus 424 ~~~------------~~~~~~~~~l~VP~~~~g~iIGkgG~-Ik~I~~~tga~I~v~~~~~~p~~~~~~~~~V~I~G~~~ 490 (678)
... ..++.-.++++||.+.+|.||||+|. ||.|++++||.|+|.| ..|....-.+|+|++.|+++
T Consensus 112 ~p~~~~k~v~~~~pqt~~r~kqikivvPNstag~iigkggAtiK~~~Eqsga~iqisP--qkpt~~sLqervvt~sge~e 189 (402)
T KOG2191|consen 112 KPQAVAKPVDILQPQTPDRIKQIKIVVPNSTAGMIIGKGGATIKAIQEQSGAWIQISP--QKPTGISLQERVVTVSGEPE 189 (402)
T ss_pred hHHhhcCCccccCCCCccccceeEEeccCCcccceecCCcchHHHHHHhhCcceEecc--cCCCCccceeEEEEecCCHH
Confidence 210 11223458999999999999999999 9999999999999986 33455556899999999999
Q ss_pred HHHHHHHHHHHHHHhhhhcccCCCCCCCCCCCCCCcccccccCCCCCCCCCCCCCCCCCCCcccCCCCCCCCCCCCCccc
Q 005758 491 AARDALVEVTTRLRSYLYRDFFQKETPPSSTGPTGSALVVEAASPIDITPAREVQTVTDPPAATHQSVQIPATSQPSKEA 570 (678)
Q Consensus 491 ~v~~A~~~I~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 570 (678)
+..+|+.+|+++|.|..... .... .++ .++.. ..++..|. .+
T Consensus 190 ~~~~A~~~IL~Ki~eDpqs~---scln--~sy----a~vsG--pvaNsnPt---------------------------Gs 231 (402)
T KOG2191|consen 190 QNMKAVSLILQKIQEDPQSG---SCLN--ISY----ANVSG--PVANSNPT---------------------------GS 231 (402)
T ss_pred HHHHHHHHHHHHhhcCCccc---ceec--cch----hcccC--cccccCCC---------------------------CC
Confidence 99999999999997742110 0000 000 00000 00011000 00
Q ss_pred CCCCccccccCcccccCCCcccccCCCCCcccccEEEEEecCCCcCeeecCCCchHHHHHHHcCCeEEEecCCC---CCc
Q 005758 571 AGSVSETVKQNESERREDVPTVINRVPLPLVTRSTLEVVLPDYAVPKLITKSKTLLTRFSEMSGASVSLVEGQP---EGT 647 (678)
Q Consensus 571 ~g~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~t~~v~VP~~~vg~IIGkgG~~I~~Ir~~sGA~I~i~~~~~---~~~ 647 (678)
++. .-...+....+.++.|+....|..-|.+|.++..|...+|+.|.|+..-. +..
T Consensus 232 pya---------------------~~~~~~~astas~~sva~~~iG~a~gaG~~~~a~l~~~~G~l~~itq~l~~m~g~g 290 (402)
T KOG2191|consen 232 PYA---------------------YQAHVLPASTASTISVAAGLIGGANGAGGAFGAALSGFTGALIAITQALNTMAGYG 290 (402)
T ss_pred CCC---------------------CCCccccccchhhccccccccccccccccccceeeecccccceeeccccccccccc
Confidence 000 00011123456788899999999999999999999999999999975322 233
Q ss_pred eeEEEEEcCHHHHHHHHHHHHHHHhcc
Q 005758 648 QKIIQISGTPEQVERAQSVLQGFILST 674 (678)
Q Consensus 648 ~r~I~IsGt~eqv~~Ak~lI~~~i~~~ 674 (678)
.+ .-+.|.+-.+..|-.+|-..+...
T Consensus 291 y~-~n~~g~~ls~~aa~g~L~~~~~~a 316 (402)
T KOG2191|consen 291 YN-TNILGLGLSILAAEGVLAAKVASA 316 (402)
T ss_pred cc-ccccchhhhhhhhhhHHHHhhccc
Confidence 34 888999999999999998777553
No 11
>KOG2208 consensus Vigilin [Lipid transport and metabolism]
Probab=99.52 E-value=7.1e-14 Score=161.25 Aligned_cols=462 Identities=16% Similarity=0.167 Sum_probs=268.2
Q ss_pred CccEEEEEEeeCceeceecccCchhHHhHHhHhCCEEEEccCCCCCCccEEEEecCCCCCCCCCCCCCchHHHHHHHHHH
Q 005758 76 MVTTTYRILCHDMKAGGVIGKSGSIIKSIRQHTGAWINVHELIPGDEERIIEISDTRRRDPEGRMPSFSPAQEALFLIHD 155 (678)
Q Consensus 76 ~~~~~~~ilip~~~~g~IIGk~G~~Ik~i~~~tga~I~v~~~~~~~~ervv~i~G~~~~~~~~~~~~~~~~~~a~~~i~~ 155 (678)
...+..++.+....+.+|||++|.+|+.++.++.+.|.|+.+....+ ...+.+..... .......+.++.++..
T Consensus 198 ~r~~~~k~~v~~~~~~~~~g~g~~~~~~~~d~~~~~i~ip~sn~~~~--~~~i~~~~~~~----~~~~~~i~~~~~~le~ 271 (753)
T KOG2208|consen 198 ERSVFEKMNVGITLHSHIIGRGGSNISIIMDETKVHIHIPDSNKSSP--SNKIDGRLNSS----SSINVEIQEALTRLES 271 (753)
T ss_pred ceeEEEEeeccccchhhhccccccccccccccceeEEEcccccccch--hhhhccccccc----eehhhhhHHHHHHhcC
Confidence 33377888889999999999999999999999999999986422221 12222211000 0001122333333222
Q ss_pred HhhccC-----------CCC--C-----CCCC-------------ccccc-CCCCCCCC-------CCcCCCCCceEEEE
Q 005758 156 RILESD-----------GGG--G-----FYGE-------------EEEEY-GGGGGVGG-------GGFRGGGNRVATRM 196 (678)
Q Consensus 156 ~i~e~~-----------~~~--~-----~~~~-------------~~~~~-~~~~~~~~-------~~~~~~~~~~~~~l 196 (678)
...... ... . .+-+ +.... ++-.+..- .-..-....+.+.+
T Consensus 272 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nn~~i~~ 351 (753)
T KOG2208|consen 272 EFDYDEIIYRRLPRFIRGIPGEEINQLRDYMPEVDSIFQNYPSKDDSIVLSGFEVGAVLAKRDKTLLLKNSEENNENIKR 351 (753)
T ss_pred hhhhhhhhhccccccccccccchhhHHHhhcchhhhhhccccccceeEeecccccchhhhhhHHHHHHHHhhccceeeEE
Confidence 110000 000 0 0000 00000 00000000 00001245578888
Q ss_pred EEcccccceecccCchhHHHHHhccCceEEEecCCCCCCCccCCCCceeeccCCHHHHHHHHHHHHHHHhcccccCCCCC
Q 005758 197 VVSRMHVGCLLGKGGKIIEQMRMETKTQIRILPRDHSLPRCVSMSEEIVQVVGDINNVKNAVAIISSRLRESQHRDRSHF 276 (678)
Q Consensus 197 ~vp~~~~g~iIGk~G~~I~~I~~~tg~~I~i~~~~~~~p~~~~~~~~~V~I~G~~~~v~~A~~~I~~~~~e~~~~~~~~~ 276 (678)
.+...++.+++||+|.+|.+|++++.|.|.+.... +.+..|.++|...++.+|...+.....+...
T Consensus 352 ~i~~~~~~~v~GK~~~ni~ki~e~~~~~i~~~~~~--------~~~~~v~~~~~~~~~~ka~~~v~~~~~ei~n------ 417 (753)
T KOG2208|consen 352 EIFPEELKFVIGKKGANIEKIREESQVKIDLPKQG--------SNNKKVVITGVSANDEKAVEDVEKIIAEILN------ 417 (753)
T ss_pred eecHHhhhhhcCCCCccHHHHHHhhhhceeccccc--------CCCCCeEEeccccchhHHHHHHHHHHHhhhc------
Confidence 99999999999999999999999999999997421 4577899999999999999999999888531
Q ss_pred CCCCCCCCCcCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcCCCCCCCCCCCCCCCCCceEEEEEeec
Q 005758 277 HGRLHSPDRFFPDDDYVPHMNNTARRPSMDGARFSGSNYRSNNYGPRPSGYSIEAGAAPMSDSVQPFYGEDLVFRMLCPI 356 (678)
Q Consensus 277 ~~~~~~p~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~i~vp~ 356 (678)
......+.+|.
T Consensus 418 ---------------------------------------------------------------------~~~~~~~~iP~ 428 (753)
T KOG2208|consen 418 ---------------------------------------------------------------------SIVKEEVQIPT 428 (753)
T ss_pred ---------------------------------------------------------------------ccccceeecCc
Confidence 02345688999
Q ss_pred cccceEEeCCchHHHHHHHHhC-CeEEEeCCCCCCCCcEEEEecCCCCCCcchHHHHHHHHHHHHhhccCCCCCCceEEE
Q 005758 357 DKVGRVIGESEGIVELLQNEIG-VDLKVADPVDGSDEQIITISSEEGPDDELFPAQEALLHIQTRIVDLGADKDNIITTR 435 (678)
Q Consensus 357 ~~vg~IIG~~G~~I~~I~~~tg-~~I~i~~~~~~~~er~v~I~G~~g~~~~~~~a~~~i~~i~~~i~~~~~~~~~~~~~~ 435 (678)
+.+..+||.+|..|..|..+++ ++|.+.. .......+++.+. ...+..+...+..+.....+ ......++..
T Consensus 429 k~~~~iig~~g~~i~~I~~k~~~v~i~f~~--~~~~~~~~~~~~~---~~dv~~~~~~~~~~~~~a~~--~~~~~~~~~d 501 (753)
T KOG2208|consen 429 KSHKRIIGTKGALINYIMGKHGGVHIKFQN--NNNSSDMVTIRGI---SKDVEKSVSLLKALKADAKN--LKFRDVVTKD 501 (753)
T ss_pred cchhhhhccccccHHHHHhhcCcEEEecCC--CCcccccceEecc---ccccchhHHHHHhhhhhhhc--chhhhhhhcc
Confidence 9999999999999999999999 6777755 3344445566643 23333333333222211111 1122345667
Q ss_pred EeecCCcceeeecCCch-hHHHHhhcCCeEEEeccCCCCCCCCCCCeEEEEEecHHHHHHHHHHHHHHHHhhhhcccCCC
Q 005758 436 LLVPSSEIGCLEGRDGS-LSEMRRSTGANIQILSREEVPACVSGTDELVQIVGEIQAARDALVEVTTRLRSYLYRDFFQK 514 (678)
Q Consensus 436 l~VP~~~~g~iIGkgG~-Ik~I~~~tga~I~v~~~~~~p~~~~~~~~~V~I~G~~~~v~~A~~~I~~~l~~~~~~~~~~~ 514 (678)
.+.|..+.+..+|+.|. +....++....+.. ......++|.|..+.|.+|...+..++..........-
T Consensus 502 ~~~~~~~~~~~~g~~~~i~d~~~~~~i~~~~~----------~~~~~~i~i~gk~~~v~~a~~~L~~~~~~~~~~~~~~v 571 (753)
T KOG2208|consen 502 KLLPVKYIGKEIGKNGTIRDSLGDKSIFPPNE----------DEDHEKITIEGKLELVLEAPAELKALIEALIKATLLEV 571 (753)
T ss_pred ccchHHhhcccccCceeeeccCCceeeccccc----------ccccceeeecccccchhhhHHHHHhcchhhhhhhhhhc
Confidence 77888888888888887 55555544443332 23566899999999999999888766654221111000
Q ss_pred CCCC---CCCCCCCcccccccCCCCCCCCCCCCCCCCCCCcccCCCCCCCCCCCCC-----cccCCCCccccccCccccc
Q 005758 515 ETPP---SSTGPTGSALVVEAASPIDITPAREVQTVTDPPAATHQSVQIPATSQPS-----KEAAGSVSETVKQNESERR 586 (678)
Q Consensus 515 ~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~g~~~~~~~~g~~~~~ 586 (678)
..++ +....+.++.+.....-.++ +...+|. ++.-..+.......+....
T Consensus 572 ~~~~~~~~~~l~~~~~~~~~~~e~~~g----------------------v~~~fp~~~~~~~e~~i~g~~~~v~aa~~~~ 629 (753)
T KOG2208|consen 572 NNPPGQHRPFLIGKGIENRTYVEVFGG----------------------VVVPFPRSPTSSDEVSIKGAKDEVKAAKGRL 629 (753)
T ss_pred cCcchheeeeeeccccccccceeecCc----------------------ccccCCCCCCchhhhccchhHHHHHHhhccc
Confidence 0011 00011111111100000000 0001110 0000000000000000011
Q ss_pred CCCcccccCCCCCcccccEEEEEecCCCcCeeecCCCchHHHHHHHcCCeEEEecCCCCCceeEEEEEcCHHHHHHHHHH
Q 005758 587 EDVPTVINRVPLPLVTRSTLEVVLPDYAVPKLITKSKTLLTRFSEMSGASVSLVEGQPEGTQKIIQISGTPEQVERAQSV 666 (678)
Q Consensus 587 ~~~~~~~~~~~~~~~~~~t~~v~VP~~~vg~IIGkgG~~I~~Ir~~sGA~I~i~~~~~~~~~r~I~IsGt~eqv~~Ak~l 666 (678)
.++...+ ....+..+.+|..+|..+.|.+|..+.+++..++..+.+++.........+.++|-..+++.|+-+
T Consensus 630 ~~i~~~~-------~~~~~~~~~i~~~~~~~~~~~~g~~~~~~t~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~e~~~~~ 702 (753)
T KOG2208|consen 630 EEIVEYL-------SAYATTNTKIPDKFHRSIVGYRGHIIEEITSKFGVGGYFGDAPTEGSVNTIHVSGEKMQSEIAKIA 702 (753)
T ss_pred hhhhhhc-------ccccceeeecccccceeeecCCCcccccceeecCccceeCCCCCccccCcchhhhhhhhhhhcccc
Confidence 1111111 134456699999999999999999999999999999999865443333348999999999999887
Q ss_pred HHHHHh
Q 005758 667 LQGFIL 672 (678)
Q Consensus 667 I~~~i~ 672 (678)
..+...
T Consensus 703 ~~~~~~ 708 (753)
T KOG2208|consen 703 LEAKNL 708 (753)
T ss_pred cccccc
Confidence 765543
No 12
>TIGR03665 arCOG04150 arCOG04150 universal archaeal KH domain protein. This family of proteins is universal among the 41 archaeal genomes analyzed in and is not observed outside of the archaea. The proteins contain a single KH domain (pfam00013) which is likely to confer the ability to bind RNA.
Probab=99.51 E-value=7.5e-14 Score=133.66 Aligned_cols=142 Identities=18% Similarity=0.206 Sum_probs=101.9
Q ss_pred EEeeCceeceecccCchhHHhHHhHhCCEEEEccCCCCCCccEEEEecCCCCCCCCCCCCCchHHHHHHHHHHHhhccCC
Q 005758 83 ILCHDMKAGGVIGKSGSIIKSIRQHTGAWINVHELIPGDEERIIEISDTRRRDPEGRMPSFSPAQEALFLIHDRILESDG 162 (678)
Q Consensus 83 ilip~~~~g~IIGk~G~~Ik~i~~~tga~I~v~~~~~~~~ervv~i~G~~~~~~~~~~~~~~~~~~a~~~i~~~i~e~~~ 162 (678)
+.||.+.+|.|||++|++|+.|+++|||+|++.+ ++..|.|. .... .-..+.+|...|.........
T Consensus 2 i~Ip~~kig~vIG~gG~~Ik~I~~~tgv~I~Id~-----~~g~V~I~-~~t~-------d~~~i~kA~~~I~~i~~gf~~ 68 (172)
T TIGR03665 2 VKIPKDRIGVLIGKGGETKKEIEERTGVKLDIDS-----ETGEVKIE-EEDE-------DPLAVMKAREVVKAIGRGFSP 68 (172)
T ss_pred ccCCHHHhhhHhCCchhHHHHHHHHhCcEEEEEc-----CCceEEEe-cCCC-------CHHHHHHHHHHHHHHHcCCCH
Confidence 5689999999999999999999999999999985 23568884 1111 124566676666654432111
Q ss_pred CCCCCCCcccccCCCCCCCCCCcCCCCCceEEE-EEEcc---------cccceecccCchhHHHHHhccCceEEEecCCC
Q 005758 163 GGGFYGEEEEEYGGGGGVGGGGFRGGGNRVATR-MVVSR---------MHVGCLLGKGGKIIEQMRMETKTQIRILPRDH 232 (678)
Q Consensus 163 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-l~vp~---------~~~g~iIGk~G~~I~~I~~~tg~~I~i~~~~~ 232 (678)
...+. .. ...++++ +.|+. ...|+|||++|.+++.|+..|||+|.|.
T Consensus 69 e~A~~-l~------------------gd~y~~~Vi~I~~~~~~~~~~~~~~griIG~~G~t~~~ie~~t~~~i~i~---- 125 (172)
T TIGR03665 69 EKALK-LL------------------DDDYMLEVIDLKEYGKSPNALRRIKGRIIGEGGKTRRIIEELTGVSISVY---- 125 (172)
T ss_pred HHHHH-hc------------------CCcceEEEEEhhhccCCHHHHHHHHhhhcCCCcHHHHHHHHHHCCeEEEc----
Confidence 10000 00 0111222 23443 3689999999999999999999999995
Q ss_pred CCCCccCCCCceeeccCCHHHHHHHHHHHHHHHhccc
Q 005758 233 SLPRCVSMSEEIVQVVGDINNVKNAVAIISSRLRESQ 269 (678)
Q Consensus 233 ~~p~~~~~~~~~V~I~G~~~~v~~A~~~I~~~~~e~~ 269 (678)
+..|.|.|++++++.|+..|.+++...+
T Consensus 126 ---------~~~v~i~G~~~~~~~A~~~i~~li~~~~ 153 (172)
T TIGR03665 126 ---------GKTVGIIGDPEQVQIAREAIEMLIEGAP 153 (172)
T ss_pred ---------CCEEEEECCHHHHHHHHHHHHHHHcCCC
Confidence 3679999999999999999999996654
No 13
>TIGR03665 arCOG04150 arCOG04150 universal archaeal KH domain protein. This family of proteins is universal among the 41 archaeal genomes analyzed in and is not observed outside of the archaea. The proteins contain a single KH domain (pfam00013) which is likely to confer the ability to bind RNA.
Probab=99.48 E-value=1.3e-13 Score=132.08 Aligned_cols=137 Identities=18% Similarity=0.235 Sum_probs=101.4
Q ss_pred EEeeccccceEEeCCchHHHHHHHHhCCeEEEeCCCCCCCCcEEEEecCCCCCCcchHHHHHHHHHHHH--hhccCCCCC
Q 005758 352 MLCPIDKVGRVIGESEGIVELLQNEIGVDLKVADPVDGSDEQIITISSEEGPDDELFPAQEALLHIQTR--IVDLGADKD 429 (678)
Q Consensus 352 i~vp~~~vg~IIG~~G~~I~~I~~~tg~~I~i~~~~~~~~er~v~I~G~~g~~~~~~~a~~~i~~i~~~--i~~~~~~~~ 429 (678)
|.||.+.++.|||++|++|+.|+++|||+|.+.+ ++..|.|....+..+.+.+|.+.|..+..- ..+...-..
T Consensus 2 i~Ip~~kig~vIG~gG~~Ik~I~~~tgv~I~Id~-----~~g~V~I~~~t~d~~~i~kA~~~I~~i~~gf~~e~A~~l~g 76 (172)
T TIGR03665 2 VKIPKDRIGVLIGKGGETKKEIEERTGVKLDIDS-----ETGEVKIEEEDEDPLAVMKAREVVKAIGRGFSPEKALKLLD 76 (172)
T ss_pred ccCCHHHhhhHhCCchhHHHHHHHHhCcEEEEEc-----CCceEEEecCCCCHHHHHHHHHHHHHHHcCCCHHHHHHhcC
Confidence 5789999999999999999999999999999975 335788832123456777787777655441 111000011
Q ss_pred CceEE-EEeecC---------CcceeeecCCch-hHHHHhhcCCeEEEeccCCCCCCCCCCCeEEEEEecHHHHHHHHHH
Q 005758 430 NIITT-RLLVPS---------SEIGCLEGRDGS-LSEMRRSTGANIQILSREEVPACVSGTDELVQIVGEIQAARDALVE 498 (678)
Q Consensus 430 ~~~~~-~l~VP~---------~~~g~iIGkgG~-Ik~I~~~tga~I~v~~~~~~p~~~~~~~~~V~I~G~~~~v~~A~~~ 498 (678)
..++. -+.|+. ..+|+|||++|+ ++.|++.|||+|.|. +..|.|.|++++++.|...
T Consensus 77 d~y~~~Vi~I~~~~~~~~~~~~~~griIG~~G~t~~~ie~~t~~~i~i~------------~~~v~i~G~~~~~~~A~~~ 144 (172)
T TIGR03665 77 DDYMLEVIDLKEYGKSPNALRRIKGRIIGEGGKTRRIIEELTGVSISVY------------GKTVGIIGDPEQVQIAREA 144 (172)
T ss_pred CcceEEEEEhhhccCCHHHHHHHHhhhcCCCcHHHHHHHHHHCCeEEEc------------CCEEEEECCHHHHHHHHHH
Confidence 12222 233443 369999999999 999999999999983 3579999999999999999
Q ss_pred HHHHHHh
Q 005758 499 VTTRLRS 505 (678)
Q Consensus 499 I~~~l~~ 505 (678)
|.+++..
T Consensus 145 i~~li~~ 151 (172)
T TIGR03665 145 IEMLIEG 151 (172)
T ss_pred HHHHHcC
Confidence 9988844
No 14
>PRK13763 putative RNA-processing protein; Provisional
Probab=99.48 E-value=2.6e-13 Score=130.84 Aligned_cols=147 Identities=18% Similarity=0.184 Sum_probs=104.0
Q ss_pred EEEEEEeeCceeceecccCchhHHhHHhHhCCEEEEccCCCCCCccEEEEecCCCCCCCCCCCCCchHHHHHHHHHHHhh
Q 005758 79 TTYRILCHDMKAGGVIGKSGSIIKSIRQHTGAWINVHELIPGDEERIIEISDTRRRDPEGRMPSFSPAQEALFLIHDRIL 158 (678)
Q Consensus 79 ~~~~ilip~~~~g~IIGk~G~~Ik~i~~~tga~I~v~~~~~~~~ervv~i~G~~~~~~~~~~~~~~~~~~a~~~i~~~i~ 158 (678)
+...+.||.+.++.|||++|++|+.|+++|||+|++.+. +..|.|...... ....+.+|...|.....
T Consensus 3 ~~~~i~IP~~kig~iIG~gGk~Ik~I~e~tg~~I~i~~~-----~g~V~I~~~~~~-------d~~~i~kA~~~I~ai~~ 70 (180)
T PRK13763 3 MMEYVKIPKDRIGVLIGKKGETKKEIEERTGVKLEIDSE-----TGEVIIEPTDGE-------DPLAVLKARDIVKAIGR 70 (180)
T ss_pred ceEEEEcCHHHhhhHhccchhHHHHHHHHHCcEEEEECC-----CCeEEEEeCCCC-------CHHHHHHHHHHHHHHhc
Confidence 567889999999999999999999999999999999862 356777621100 13456666666666553
Q ss_pred ccCCCCCCCCCcccccCCCCCCCCCCcCCCCCceEEEE-EEc---------ccccceecccCchhHHHHHhccCceEEEe
Q 005758 159 ESDGGGGFYGEEEEEYGGGGGVGGGGFRGGGNRVATRM-VVS---------RMHVGCLLGKGGKIIEQMRMETKTQIRIL 228 (678)
Q Consensus 159 e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l-~vp---------~~~~g~iIGk~G~~I~~I~~~tg~~I~i~ 228 (678)
.......+. ...+ .+..++ .+. ...+|+|||++|.+++.|++.|||+|.|.
T Consensus 71 gf~~e~A~~-l~gd------------------~y~~~Vi~i~~~~~~~~~~~r~~griIG~~G~~~k~ie~~t~~~i~i~ 131 (180)
T PRK13763 71 GFSPEKALR-LLDD------------------DYVLEVIDLSDYGDSPNALRRIKGRIIGEGGKTRRIIEELTGVDISVY 131 (180)
T ss_pred CCCHHHHHH-HhCC------------------CceEEEEEhhhccCChhHHHHHhhheeCCCcHHHHHHHHHHCcEEEEc
Confidence 211100000 0001 112221 111 13689999999999999999999999996
Q ss_pred cCCCCCCCccCCCCceeeccCCHHHHHHHHHHHHHHHhccc
Q 005758 229 PRDHSLPRCVSMSEEIVQVVGDINNVKNAVAIISSRLRESQ 269 (678)
Q Consensus 229 ~~~~~~p~~~~~~~~~V~I~G~~~~v~~A~~~I~~~~~e~~ 269 (678)
++.|.|.|++++++.|+..|.+++....
T Consensus 132 -------------~~~v~i~G~~~~~~~A~~~I~~li~g~~ 159 (180)
T PRK13763 132 -------------GKTVAIIGDPEQVEIAREAIEMLIEGAP 159 (180)
T ss_pred -------------CCEEEEEeCHHHHHHHHHHHHHHHcCCC
Confidence 2448999999999999999999996653
No 15
>PRK13763 putative RNA-processing protein; Provisional
Probab=99.47 E-value=2.3e-13 Score=131.21 Aligned_cols=141 Identities=16% Similarity=0.221 Sum_probs=103.1
Q ss_pred eEEEEEeeccccceEEeCCchHHHHHHHHhCCeEEEeCCCCCCCCcEEEEecCC-CCCCcchHHHHHHHHHHHH--hhcc
Q 005758 348 LVFRMLCPIDKVGRVIGESEGIVELLQNEIGVDLKVADPVDGSDEQIITISSEE-GPDDELFPAQEALLHIQTR--IVDL 424 (678)
Q Consensus 348 ~~~~i~vp~~~vg~IIG~~G~~I~~I~~~tg~~I~i~~~~~~~~er~v~I~G~~-g~~~~~~~a~~~i~~i~~~--i~~~ 424 (678)
+...+.||.+.++.|||++|++|+.|+++|||+|.+.+ .+..|.|.... +..+.+.+|++.|..+..- ..+.
T Consensus 3 ~~~~i~IP~~kig~iIG~gGk~Ik~I~e~tg~~I~i~~-----~~g~V~I~~~~~~d~~~i~kA~~~I~ai~~gf~~e~A 77 (180)
T PRK13763 3 MMEYVKIPKDRIGVLIGKKGETKKEIEERTGVKLEIDS-----ETGEVIIEPTDGEDPLAVLKARDIVKAIGRGFSPEKA 77 (180)
T ss_pred ceEEEEcCHHHhhhHhccchhHHHHHHHHHCcEEEEEC-----CCCeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCHHHH
Confidence 46789999999999999999999999999999999975 33677776211 3356677777777655541 1110
Q ss_pred CCCCCCceEEEE-eec---------CCcceeeecCCch-hHHHHhhcCCeEEEeccCCCCCCCCCCCeEEEEEecHHHHH
Q 005758 425 GADKDNIITTRL-LVP---------SSEIGCLEGRDGS-LSEMRRSTGANIQILSREEVPACVSGTDELVQIVGEIQAAR 493 (678)
Q Consensus 425 ~~~~~~~~~~~l-~VP---------~~~~g~iIGkgG~-Ik~I~~~tga~I~v~~~~~~p~~~~~~~~~V~I~G~~~~v~ 493 (678)
.......+...+ .+. ...+|+|||++|+ ++.|++.|||+|.|. ++.|.|.|++++++
T Consensus 78 ~~l~gd~y~~~Vi~i~~~~~~~~~~~r~~griIG~~G~~~k~ie~~t~~~i~i~------------~~~v~i~G~~~~~~ 145 (180)
T PRK13763 78 LRLLDDDYVLEVIDLSDYGDSPNALRRIKGRIIGEGGKTRRIIEELTGVDISVY------------GKTVAIIGDPEQVE 145 (180)
T ss_pred HHHhCCCceEEEEEhhhccCChhHHHHHhhheeCCCcHHHHHHHHHHCcEEEEc------------CCEEEEEeCHHHHH
Confidence 000111222222 111 1378999999999 999999999999993 23599999999999
Q ss_pred HHHHHHHHHHHh
Q 005758 494 DALVEVTTRLRS 505 (678)
Q Consensus 494 ~A~~~I~~~l~~ 505 (678)
.|...|..+++.
T Consensus 146 ~A~~~I~~li~g 157 (180)
T PRK13763 146 IAREAIEMLIEG 157 (180)
T ss_pred HHHHHHHHHHcC
Confidence 999999988854
No 16
>KOG2208 consensus Vigilin [Lipid transport and metabolism]
Probab=99.46 E-value=2.1e-13 Score=157.31 Aligned_cols=394 Identities=15% Similarity=0.170 Sum_probs=238.5
Q ss_pred EEEEEEeeCceeceecccCchhHHhHHhHhCCEEEEccCCCCCCccEEEEecCCCCCCCCCCCCCchHHHHHHHHHHHhh
Q 005758 79 TTYRILCHDMKAGGVIGKSGSIIKSIRQHTGAWINVHELIPGDEERIIEISDTRRRDPEGRMPSFSPAQEALFLIHDRIL 158 (678)
Q Consensus 79 ~~~~ilip~~~~g~IIGk~G~~Ik~i~~~tga~I~v~~~~~~~~ervv~i~G~~~~~~~~~~~~~~~~~~a~~~i~~~i~ 158 (678)
..+.+-+...+...|+||+|.+|.+|++++.|.|.+++. +..+..+.+.+.. ....+|...+...+.
T Consensus 347 ~~i~~~i~~~~~~~v~GK~~~ni~ki~e~~~~~i~~~~~--~~~~~~v~~~~~~-----------~~~~ka~~~v~~~~~ 413 (753)
T KOG2208|consen 347 ENIKREIFPEELKFVIGKKGANIEKIREESQVKIDLPKQ--GSNNKKVVITGVS-----------ANDEKAVEDVEKIIA 413 (753)
T ss_pred eeeEEeecHHhhhhhcCCCCccHHHHHHhhhhceecccc--cCCCCCeEEeccc-----------cchhHHHHHHHHHHH
Confidence 667778888999999999999999999999999999984 5677788888853 223455555555444
Q ss_pred ccCCCCCCCCCcccccCCCCCCCCCCcCCCCCceEEEEEEcccccceecccCchhHHHHHhccC-ceEEEecCCCCCCCc
Q 005758 159 ESDGGGGFYGEEEEEYGGGGGVGGGGFRGGGNRVATRMVVSRMHVGCLLGKGGKIIEQMRMETK-TQIRILPRDHSLPRC 237 (678)
Q Consensus 159 e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~vp~~~~g~iIGk~G~~I~~I~~~tg-~~I~i~~~~~~~p~~ 237 (678)
+.. ...+...+.+|...+.+|||.+|..|+.|+.+++ .+|......
T Consensus 414 ei~---------------------------n~~~~~~~~iP~k~~~~iig~~g~~i~~I~~k~~~v~i~f~~~~------ 460 (753)
T KOG2208|consen 414 EIL---------------------------NSIVKEEVQIPTKSHKRIIGTKGALINYIMGKHGGVHIKFQNNN------ 460 (753)
T ss_pred hhh---------------------------cccccceeecCccchhhhhccccccHHHHHhhcCcEEEecCCCC------
Confidence 321 1145667899999999999999999999999999 556554321
Q ss_pred cCCCCceeeccCCHHHHHHHHHHHHHHHhcccccCCCCCCCCCCCCCCcCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 005758 238 VSMSEEIVQVVGDINNVKNAVAIISSRLRESQHRDRSHFHGRLHSPDRFFPDDDYVPHMNNTARRPSMDGARFSGSNYRS 317 (678)
Q Consensus 238 ~~~~~~~V~I~G~~~~v~~A~~~I~~~~~e~~~~~~~~~~~~~~~p~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~ 317 (678)
.....+++.|....|..++..+..+....... . |
T Consensus 461 --~~~~~~~~~~~~~dv~~~~~~~~~~~~~a~~~---~----------~------------------------------- 494 (753)
T KOG2208|consen 461 --NSSDMVTIRGISKDVEKSVSLLKALKADAKNL---K----------F------------------------------- 494 (753)
T ss_pred --cccccceEeccccccchhHHHHHhhhhhhhcc---h----------h-------------------------------
Confidence 33555788888888888777777666543110 0 0
Q ss_pred CCCCCCCCCCCcCCCCCCCCCCCCCCCCCceEEEEEeeccccceEEeCCchHHHHHHHHhCCeEEEeCCCCCCCCcEEEE
Q 005758 318 NNYGPRPSGYSIEAGAAPMSDSVQPFYGEDLVFRMLCPIDKVGRVIGESEGIVELLQNEIGVDLKVADPVDGSDEQIITI 397 (678)
Q Consensus 318 ~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~i~vp~~~vg~IIG~~G~~I~~I~~~tg~~I~i~~~~~~~~er~v~I 397 (678)
-...+...+.|..+.+..+|+.|..+..+.++..+.+... .++..++|
T Consensus 495 ---------------------------~~~~~~d~~~~~~~~~~~~g~~~~i~d~~~~~~i~~~~~~-----~~~~~i~i 542 (753)
T KOG2208|consen 495 ---------------------------RDVVTKDKLLPVKYIGKEIGKNGTIRDSLGDKSIFPPNED-----EDHEKITI 542 (753)
T ss_pred ---------------------------hhhhhccccchHHhhcccccCceeeeccCCceeecccccc-----cccceeee
Confidence 0123445667778888888888877776666665554442 35667888
Q ss_pred ecCCCCCCcchHHHHHHHHHHHHhhccCCCCCCceEEEEeecCCcceeeecCCch-h-HHHHhhcCCeEEEeccCCCCCC
Q 005758 398 SSEEGPDDELFPAQEALLHIQTRIVDLGADKDNIITTRLLVPSSEIGCLEGRDGS-L-SEMRRSTGANIQILSREEVPAC 475 (678)
Q Consensus 398 ~G~~g~~~~~~~a~~~i~~i~~~i~~~~~~~~~~~~~~l~VP~~~~g~iIGkgG~-I-k~I~~~tga~I~v~~~~~~p~~ 475 (678)
.|. .+.+..+..++..+...+. ....+.+.+|..++..++..+|. . +..+...|+.+.+++..
T Consensus 543 ~gk---~~~v~~a~~~L~~~~~~~~-------~~~~~~v~~~~~~~~~~l~~~~~~~~~~~e~~~gv~~~fp~~~----- 607 (753)
T KOG2208|consen 543 EGK---LELVLEAPAELKALIEALI-------KATLLEVNNPPGQHRPFLIGKGIENRTYVEVFGGVVVPFPRSP----- 607 (753)
T ss_pred ccc---ccchhhhHHHHHhcchhhh-------hhhhhhccCcchheeeeeeccccccccceeecCcccccCCCCC-----
Confidence 864 3455555555443322221 12445566777776665555555 5 44555555677764321
Q ss_pred CCCCCeEEEEEecHHHHHHHHHHHHHHHHhhhhcccCCCCCCCCCCC---CCCcccccccCCCCCCCCCCCCCCCCCCCc
Q 005758 476 VSGTDELVQIVGEIQAARDALVEVTTRLRSYLYRDFFQKETPPSSTG---PTGSALVVEAASPIDITPAREVQTVTDPPA 552 (678)
Q Consensus 476 ~~~~~~~V~I~G~~~~v~~A~~~I~~~l~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 552 (678)
...+.++|.|....++.|...+.+....+-.-....-..+..... ...++...... ..+.+.
T Consensus 608 --~~~~e~~i~g~~~~v~aa~~~~~~i~~~~~~~~~~~~~i~~~~~~~~~~~~g~~~~~~t---------~~~~~~---- 672 (753)
T KOG2208|consen 608 --TSSDEVSIKGAKDEVKAAKGRLEEIVEYLSAYATTNTKIPDKFHRSIVGYRGHIIEEIT---------SKFGVG---- 672 (753)
T ss_pred --CchhhhccchhHHHHHHhhccchhhhhhcccccceeeecccccceeeecCCCcccccce---------eecCcc----
Confidence 234468999999999999888777664321100000001111100 00000000000 000000
Q ss_pred ccCCCCCCCCCCCCCcccCCCCccccccCcccccCCCcccccCCCCCcccccEEEEEecCCCcCeeecCCCchHHHHHHH
Q 005758 553 ATHQSVQIPATSQPSKEAAGSVSETVKQNESERREDVPTVINRVPLPLVTRSTLEVVLPDYAVPKLITKSKTLLTRFSEM 632 (678)
Q Consensus 553 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~t~~v~VP~~~vg~IIGkgG~~I~~Ir~~ 632 (678)
.-++.....++....-..+ +.......+.+.......|.++.+|.++|+.|||++|++++++..+
T Consensus 673 ----------~~~~~~~~~~s~~~~~~~~-----~~~~~e~~~~~~~~~~~~~~~~~~p~~~~~~~ig~~g~~~r~~~~~ 737 (753)
T KOG2208|consen 673 ----------GYFGDAPTEGSVNTIHVSG-----EKMQSEIAKIALEAKNLVTKEIEIPRSLHRYLIGPKGSNLRQLEKE 737 (753)
T ss_pred ----------ceeCCCCCccccCcchhhh-----hhhhhhhcccccccccceeeEEeccHHHhhhccCCCCccHHHHHHH
Confidence 0000000000000000001 1111111222223345789999999999999999999999999999
Q ss_pred cCCeEEEec
Q 005758 633 SGASVSLVE 641 (678)
Q Consensus 633 sGA~I~i~~ 641 (678)
+++.+.++.
T Consensus 738 ~~~~~~~~~ 746 (753)
T KOG2208|consen 738 FNVNIVVPN 746 (753)
T ss_pred hccceecCC
Confidence 999999975
No 17
>cd02396 PCBP_like_KH K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are represented here, in tandem arrangement, followed by a large spacer region, with the third domain near the C-terminal end of the protein. The poly(C) binding proteins (PCBPs) can be divided into two groups, hnRNPs K/J and the alphaCPs, which share a triple KH domain configuration and poly(C) binding specificity. They play roles in mRNA stabilization, translational activation, and translational silencing. Nova-1 and Nova-2 are nuclear RNA-binding proteins that regulate splicing. This group also contains plant proteins that seem to have two tandem repeat arrrangements, like Hen4, a protein that plays a role in AGAMOUS (AG) pre-mRNA processing and important step in plant development. In general, KH binds single-stran
Probab=99.38 E-value=9.3e-13 Score=105.23 Aligned_cols=64 Identities=23% Similarity=0.448 Sum_probs=58.6
Q ss_pred EEEEEecCCCcCeeecCCCchHHHHHHHcCCeEEEecCCC-CCceeEEEEEcCHHHHHHHHHHHH
Q 005758 605 TLEVVLPDYAVPKLITKSKTLLTRFSEMSGASVSLVEGQP-EGTQKIIQISGTPEQVERAQSVLQ 668 (678)
Q Consensus 605 t~~v~VP~~~vg~IIGkgG~~I~~Ir~~sGA~I~i~~~~~-~~~~r~I~IsGt~eqv~~Ak~lI~ 668 (678)
+..|.||.+++|+|||++|++|++|+++|||+|.|.+... ...+|+|+|+|++++|+.|+.||.
T Consensus 1 ~~r~~ip~~~vg~iIG~~G~~i~~i~~~tga~I~i~~~~~~~~~~r~v~I~G~~~~v~~A~~~I~ 65 (65)
T cd02396 1 TLRLLVPSSQAGSIIGKGGSTIKEIREETGAKIRVSKSVLPGSTERVVTISGKPSAVQKALLLIL 65 (65)
T ss_pred CEEEEECHHHcCeeECCCcHHHHHHHHHHCCEEEEcCCCCCCCCceEEEEEeCHHHHHHHHHhhC
Confidence 3679999999999999999999999999999999987654 577899999999999999999983
No 18
>cd02394 vigilin_like_KH K homology RNA-binding domain_vigilin_like. The vigilin family is a large and extended family of multiple KH-domain proteins, including vigilin, also called high density lipoprotein binding protien (HBP), fungal Scp160 and bicaudal-C. Yeast Scp160p has been shown to bind RNA and to associate with both soluble and membrane-bound polyribosomes as a mRNP component. Bicaudal-C is a RNA-binding molecule believed to function in embryonic development at the post-transcriptional level. In general, KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=99.31 E-value=2.4e-12 Score=102.01 Aligned_cols=62 Identities=24% Similarity=0.347 Sum_probs=56.4
Q ss_pred EEEEEecCCCcCeeecCCCchHHHHHHHcCCeEEEecCCCCCceeEEEEEcCHHHHHHHHHHHH
Q 005758 605 TLEVVLPDYAVPKLITKSKTLLTRFSEMSGASVSLVEGQPEGTQKIIQISGTPEQVERAQSVLQ 668 (678)
Q Consensus 605 t~~v~VP~~~vg~IIGkgG~~I~~Ir~~sGA~I~i~~~~~~~~~r~I~IsGt~eqv~~Ak~lI~ 668 (678)
+.+|.||.++|++|||++|++|++|+++|||+|.|++.. ..++.|+|+|++++|++|+.+|+
T Consensus 1 ~~~i~Vp~~~~~~iIG~~G~~i~~i~~~~g~~I~i~~~~--~~~~~v~I~G~~~~v~~A~~~i~ 62 (62)
T cd02394 1 TEEVEIPKKLHRFIIGKKGSNIRKIMEETGVKIRFPDPG--SKSDTITITGPKENVEKAKEEIL 62 (62)
T ss_pred CeEEEeCHHHhhhccCCCCCcHHHHHHHhCCEEEcCCCC--CCCCEEEEEcCHHHHHHHHHHhC
Confidence 368999999999999999999999999999999997543 56789999999999999999884
No 19
>PF00013 KH_1: KH domain syndrome, contains KH motifs.; InterPro: IPR018111 The K homology (KH) domain was first identified in the human heterogeneous nuclear ribonucleoprotein (hnRNP) K. It is a domain of around 70 amino acids that is present in a wide variety of quite diverse nucleic acid-binding proteins []. It has been shown to bind RNA [, ]. Like many other RNA-binding motifs, KH motifs are found in one or multiple copies (14 copies in chicken vigilin) and, at least for hnRNP K (three copies) and FMR-1 (two copies), each motif is necessary for in vitro RNA binding activity, suggesting that they may function cooperatively or, in the case of single KH motif proteins (for example, Mer1p), independently []. According to structural [, , ] analysis the KH domain can be separated in two groups. The first group or type-1 contain a beta-alpha-alpha-beta-beta-alpha structure, whereas in the type-2 the two last beta-sheet are located in the N-terminal part of the domain (alpha-beta-beta-alpha-alpha-beta). Sequence similarity between these two folds are limited to a short region (VIGXXGXXI) in the RNA binding motif. This motif is located between helice 1 and 2 in type-1 and between helice 2 and 3 in type-2. Proteins known to contain a type-1 KH domain include bacterial polyribonucleotide nucleotidyltransferases (2.7.7.8 from EC); vertebrate fragile X mental retardation protein 1 (FMR1); eukaryotic heterogeneous nuclear ribonucleoprotein K (hnRNP K), one of at least 20 major proteins that are part of hnRNP particles in mammalian cells; mammalian poly(rC) binding proteins; Artemia salina glycine-rich protein GRP33; yeast PAB1-binding protein 2 (PBP2); vertebrate vigilin; and human high-density lipoprotein binding protein (HDL-binding protein). More information about these proteins can be found at Protein of the Month: RNA Exosomes [].; GO: 0003723 RNA binding; PDB: 1TUA_A 2Z0S_A 1WE8_A 4AM3_B 4AIM_A 4AID_A 2HH3_A 2JVZ_A 1J4W_A 2HH2_A ....
Probab=99.27 E-value=2.9e-12 Score=100.75 Aligned_cols=60 Identities=28% Similarity=0.548 Sum_probs=55.5
Q ss_pred EEEEEecCCCcCeeecCCCchHHHHHHHcCCeEEEecCCCCCceeEEEEEcCHHHHHHHHHHH
Q 005758 605 TLEVVLPDYAVPKLITKSKTLLTRFSEMSGASVSLVEGQPEGTQKIIQISGTPEQVERAQSVL 667 (678)
Q Consensus 605 t~~v~VP~~~vg~IIGkgG~~I~~Ir~~sGA~I~i~~~~~~~~~r~I~IsGt~eqv~~Ak~lI 667 (678)
|.+|.||.+++++|||++|++|++|+++|||+|.|++. + ....|+|+|++++|++|+.+|
T Consensus 1 T~~i~vp~~~~~~iIG~~G~~i~~I~~~t~~~I~i~~~--~-~~~~v~I~G~~~~v~~A~~~I 60 (60)
T PF00013_consen 1 TERIEVPSSLVGRIIGKKGSNIKEIEEETGVKIQIPDD--D-ERDIVTISGSPEQVEKAKKMI 60 (60)
T ss_dssp EEEEEEEHHHHHHHHTGGGHHHHHHHHHHTSEEEEEST--T-EEEEEEEEESHHHHHHHHHHH
T ss_pred CEEEEECHHHcCEEECCCCCcHHHhhhhcCeEEEEcCC--C-CcEEEEEEeCHHHHHHHHhhC
Confidence 68899999999999999999999999999999999765 3 556899999999999999987
No 20
>cd02393 PNPase_KH Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to those in other RNA binding proteins: a KH domain and an S1 domain. KH domains bind single-stranded RNA and are found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=99.24 E-value=1.7e-11 Score=96.34 Aligned_cols=59 Identities=14% Similarity=0.321 Sum_probs=54.0
Q ss_pred cEEEEEecCCCcCeeecCCCchHHHHHHHcCCeEEEecCCCCCceeEEEEEcC-HHHHHHHHHHHH
Q 005758 604 STLEVVLPDYAVPKLITKSKTLLTRFSEMSGASVSLVEGQPEGTQKIIQISGT-PEQVERAQSVLQ 668 (678)
Q Consensus 604 ~t~~v~VP~~~vg~IIGkgG~~I~~Ir~~sGA~I~i~~~~~~~~~r~I~IsGt-~eqv~~Ak~lI~ 668 (678)
.+.++.||.+++++|||++|++|++|+++|||+|.|++ ++.|.|+|+ ++++++|+.+|+
T Consensus 2 ~~~~i~Ip~~~ig~iIGkgG~~ik~I~~~tg~~I~i~~------~g~v~I~G~~~~~v~~A~~~I~ 61 (61)
T cd02393 2 RIETMKIPPDKIRDVIGPGGKTIKKIIEETGVKIDIED------DGTVYIAASDKEAAEKAKKMIE 61 (61)
T ss_pred eEEEEEeChhheeeeECCCchHHHHHHHHHCCEEEeCC------CCEEEEEeCCHHHHHHHHHHhC
Confidence 36889999999999999999999999999999999964 257999999 999999999984
No 21
>cd00105 KH-I K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that belong to different protein folds, but they share a single KH motif. The KH motif is folded into a beta alpha alpha beta unit. In addition to the core, type II KH domains (e.g. ribosomal protein S3) include N-terminal extension and type I KH domains (e.g. hnRNP K) contain C-terminal extension.
Probab=99.24 E-value=2.2e-11 Score=97.01 Aligned_cols=63 Identities=27% Similarity=0.524 Sum_probs=58.0
Q ss_pred EEEEecCCCcCeeecCCCchHHHHHHHcCCeEEEecCCCCCceeEEEEEcCHHHHHHHHHHHH
Q 005758 606 LEVVLPDYAVPKLITKSKTLLTRFSEMSGASVSLVEGQPEGTQKIIQISGTPEQVERAQSVLQ 668 (678)
Q Consensus 606 ~~v~VP~~~vg~IIGkgG~~I~~Ir~~sGA~I~i~~~~~~~~~r~I~IsGt~eqv~~Ak~lI~ 668 (678)
.+|.||.+++++|||++|++|++|+++|||+|.|++..++..++.|+|+|++++++.|+.+|+
T Consensus 2 ~~i~ip~~~~~~vIG~~G~~i~~I~~~s~~~I~i~~~~~~~~~~~v~i~G~~~~v~~a~~~i~ 64 (64)
T cd00105 2 ERVLVPSSLVGRIIGKGGSTIKEIREETGAKIKIPDSGSGSEERIVTITGTPEAVEKAKELIL 64 (64)
T ss_pred EEEEEchhhcceeECCCCHHHHHHHHHHCCEEEEcCCCCCCCceEEEEEcCHHHHHHHHHHhC
Confidence 689999999999999999999999999999999987655567889999999999999999874
No 22
>cd02396 PCBP_like_KH K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are represented here, in tandem arrangement, followed by a large spacer region, with the third domain near the C-terminal end of the protein. The poly(C) binding proteins (PCBPs) can be divided into two groups, hnRNPs K/J and the alphaCPs, which share a triple KH domain configuration and poly(C) binding specificity. They play roles in mRNA stabilization, translational activation, and translational silencing. Nova-1 and Nova-2 are nuclear RNA-binding proteins that regulate splicing. This group also contains plant proteins that seem to have two tandem repeat arrrangements, like Hen4, a protein that plays a role in AGAMOUS (AG) pre-mRNA processing and important step in plant development. In general, KH binds single-stran
Probab=99.18 E-value=5.5e-11 Score=94.99 Aligned_cols=64 Identities=41% Similarity=0.640 Sum_probs=56.2
Q ss_pred EEEEeecCCcceeeecCCch-hHHHHhhcCCeEEEeccCCCCCCCCCCCeEEEEEecHHHHHHHHHHHH
Q 005758 433 TTRLLVPSSEIGCLEGRDGS-LSEMRRSTGANIQILSREEVPACVSGTDELVQIVGEIQAARDALVEVT 500 (678)
Q Consensus 433 ~~~l~VP~~~~g~iIGkgG~-Ik~I~~~tga~I~v~~~~~~p~~~~~~~~~V~I~G~~~~v~~A~~~I~ 500 (678)
+++|+||.+.+++|||++|+ |++|+++|||+|.+.+... + ...+|+|+|.|+++++.+|+.+|.
T Consensus 1 ~~r~~ip~~~vg~iIG~~G~~i~~i~~~tga~I~i~~~~~-~---~~~~r~v~I~G~~~~v~~A~~~I~ 65 (65)
T cd02396 1 TLRLLVPSSQAGSIIGKGGSTIKEIREETGAKIRVSKSVL-P---GSTERVVTISGKPSAVQKALLLIL 65 (65)
T ss_pred CEEEEECHHHcCeeECCCcHHHHHHHHHHCCEEEEcCCCC-C---CCCceEEEEEeCHHHHHHHHHhhC
Confidence 36899999999999999999 9999999999999965332 2 347899999999999999998873
No 23
>KOG2279 consensus Kinase anchor protein AKAP149, contains KH and Tudor RNA-binding domains [Signal transduction mechanisms]
Probab=99.16 E-value=3.4e-10 Score=120.55 Aligned_cols=289 Identities=17% Similarity=0.211 Sum_probs=179.4
Q ss_pred CceEEEEEeeccccceEEeCCchHHHHHHHHhCCeEEEeCCCCCCCCcEEEEecCCCCCCcchHHHHHHHHHHHHhhccC
Q 005758 346 EDLVFRMLCPIDKVGRVIGESEGIVELLQNEIGVDLKVADPVDGSDEQIITISSEEGPDDELFPAQEALLHIQTRIVDLG 425 (678)
Q Consensus 346 ~~~~~~i~vp~~~vg~IIG~~G~~I~~I~~~tg~~I~i~~~~~~~~er~v~I~G~~g~~~~~~~a~~~i~~i~~~i~~~~ 425 (678)
+++..++.|+.+.+.+++|+.|++|+.|+..++++|.+.... -..++..++.| ...++++|..++.++..
T Consensus 66 k~v~~e~Vv~~e~vkli~gr~gsnik~l~~~t~aKi~L~~ed-~g~e~~~~~~~---~p~~v~~a~a~~~~~~~------ 135 (608)
T KOG2279|consen 66 KDIEIEMVVPQEAVKLIIGRQGSNIKQLRKQTGAKIDLDTED-VGDERVLLISG---FPVQVCKAKAAIHQILT------ 135 (608)
T ss_pred hheeeeEeecccceeeeeccccCCcchhhcccccceecCccc-CCcccchhhcc---CCCCCChHHHHHHHHHh------
Confidence 678999999999999999999999999999999999996532 23455555553 45667777776654432
Q ss_pred CCCCCceEEEEeecCCcceeeecCCch-hHHHHhhcCCeEEEeccCCCCCCCCCCCeEEEEEecHHHHHHHHHHHHHHHH
Q 005758 426 ADKDNIITTRLLVPSSEIGCLEGRDGS-LSEMRRSTGANIQILSREEVPACVSGTDELVQIVGEIQAARDALVEVTTRLR 504 (678)
Q Consensus 426 ~~~~~~~~~~l~VP~~~~g~iIGkgG~-Ik~I~~~tga~I~v~~~~~~p~~~~~~~~~V~I~G~~~~v~~A~~~I~~~l~ 504 (678)
....+...+.+|+..++.|+|++|. +++|+.-++|+|.+.. +. . ...++...|.|....++.|..++.+++.
T Consensus 136 --~~~pvk~~lsvpqr~~~~i~grgget~~si~~ss~aki~~d~--ng-r--~g~~~~~~i~~qqk~~~~a~~~~~~~~~ 208 (608)
T KOG2279|consen 136 --ENTPVSEQLSVPQRSVGRIIGRGGETIRSICKSSGAKITCDK--NG-R--LGLSRLIKISGQQKEVAAAKHLILEKVS 208 (608)
T ss_pred --cCCcccccccchhhhcccccccchhhhcchhccccccccccc--cc-c--cccccceecccccchHHHHHhhhhcccc
Confidence 2446788899999999999999999 9999999999999832 21 1 1356778888988888899999888776
Q ss_pred hhh--hcccCCC---CCCCCCCCCCCcccccccCCCCCCCCCCCCCCCCCCCcccCCCCCCCCCCCCCcccCCCC-cccc
Q 005758 505 SYL--YRDFFQK---ETPPSSTGPTGSALVVEAASPIDITPAREVQTVTDPPAATHQSVQIPATSQPSKEAAGSV-SETV 578 (678)
Q Consensus 505 ~~~--~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~-~~~~ 578 (678)
+.. .+++.+. ..|.+.+.-. ....+...... ..++.++ .+..+ .+.-.+..+.++.. .-..
T Consensus 209 edeelv~~~~e~~q~rvprk~p~n~----~~~~m~~~~~s----~~~h~~~---~t~~s--~spg~~~~~~eg~dm~v~v 275 (608)
T KOG2279|consen 209 EDEELVKRIAESAQTRVPRKQPINV----RREDMTEPGGA----GEPHLWK---NTSSS--MSPGAPLVTKEGGDMAVVV 275 (608)
T ss_pred chhHHhhhchhhcccCCCCCCCccc----cchhhcccccC----CccccCc---cchhc--cCCCCCCcccCCCcceeEE
Confidence 532 2222111 1111111100 00000000000 0000000 00000 00000000011100 0000
Q ss_pred ccCccc--ccCCCcccccCCCCCcccccEEEEEecCCCcCeeecCCCchHHHHHHHcCCeEEEecCCCCCce---eEEEE
Q 005758 579 KQNESE--RREDVPTVINRVPLPLVTRSTLEVVLPDYAVPKLITKSKTLLTRFSEMSGASVSLVEGQPEGTQ---KIIQI 653 (678)
Q Consensus 579 ~~g~~~--~~~~~~~~~~~~~~~~~~~~t~~v~VP~~~vg~IIGkgG~~I~~Ir~~sGA~I~i~~~~~~~~~---r~I~I 653 (678)
..+.++ +-++... ........+|.||..++|.|||+.|..+..+...|++.+.|--..-...- -++++
T Consensus 276 sk~~s~~~~~d~s~~-------k~~~l~i~e~e~p~~lsg~lig~~gey~s~yssasn~~~hi~t~pyt~~v~~~qic~~ 348 (608)
T KOG2279|consen 276 SKEGSWEKPSDDSFQ-------KSEALAIPEMEMPEILSGDLIGHAGEYLSVYSSASNHPNHIWTQPYTSRVLQLQICVN 348 (608)
T ss_pred ecccccCCccccccc-------cccccccceeecCcccccchhhhhhhhhhhhhhccCccceEEeccccchhhhhhhhee
Confidence 111110 0111100 01123468999999999999999999999999999999999743222211 46899
Q ss_pred EcCHHHHHHHHHHHHHHH
Q 005758 654 SGTPEQVERAQSVLQGFI 671 (678)
Q Consensus 654 sGt~eqv~~Ak~lI~~~i 671 (678)
.|+..-++.|-.||...+
T Consensus 349 egkqh~~n~vl~ml~~~~ 366 (608)
T KOG2279|consen 349 EGKQHYENSVLEMLTVHV 366 (608)
T ss_pred cchhHHHHHHHhhhhccC
Confidence 999999999999997554
No 24
>KOG2279 consensus Kinase anchor protein AKAP149, contains KH and Tudor RNA-binding domains [Signal transduction mechanisms]
Probab=99.02 E-value=1.7e-09 Score=115.37 Aligned_cols=275 Identities=17% Similarity=0.149 Sum_probs=163.4
Q ss_pred CCccEEEEEEeeCceeceecccCchhHHhHHhHhCCEEEEccCCCCCCccEEEEecCCCCCCCCCCCCCchHHHHHHHHH
Q 005758 75 LMVTTTYRILCHDMKAGGVIGKSGSIIKSIRQHTGAWINVHELIPGDEERIIEISDTRRRDPEGRMPSFSPAQEALFLIH 154 (678)
Q Consensus 75 ~~~~~~~~ilip~~~~g~IIGk~G~~Ik~i~~~tga~I~v~~~~~~~~ervv~i~G~~~~~~~~~~~~~~~~~~a~~~i~ 154 (678)
....+.+.+.+|..++..+|||+|++|+.|+..|++||.+..... .++++..+.|-. .++ ..|...++
T Consensus 64 ~~k~v~~e~Vv~~e~vkli~gr~gsnik~l~~~t~aKi~L~~ed~-g~e~~~~~~~~p--------~~v---~~a~a~~~ 131 (608)
T KOG2279|consen 64 PQKDIEIEMVVPQEAVKLIIGRQGSNIKQLRKQTGAKIDLDTEDV-GDERVLLISGFP--------VQV---CKAKAAIH 131 (608)
T ss_pred chhheeeeEeecccceeeeeccccCCcchhhcccccceecCcccC-CcccchhhccCC--------CCC---ChHHHHHH
Confidence 445789999999999999999999999999999999999965321 244555555421 123 34555566
Q ss_pred HHhhccCCCCCCCCCcccccCCCCCCCCCCcCCCCCceEEEEEEcccccceecccCchhHHHHHhccCceEEEecCCCCC
Q 005758 155 DRILESDGGGGFYGEEEEEYGGGGGVGGGGFRGGGNRVATRMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRILPRDHSL 234 (678)
Q Consensus 155 ~~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~vp~~~~g~iIGk~G~~I~~I~~~tg~~I~i~~~~~~~ 234 (678)
.++.+ +..+...+-+|...++.|+|++|.+++.|+.-++++|.+... .
T Consensus 132 ~~~~~-----------------------------~~pvk~~lsvpqr~~~~i~grgget~~si~~ss~aki~~d~n---g 179 (608)
T KOG2279|consen 132 QILTE-----------------------------NTPVSEQLSVPQRSVGRIIGRGGETIRSICKSSGAKITCDKN---G 179 (608)
T ss_pred HHHhc-----------------------------CCcccccccchhhhcccccccchhhhcchhcccccccccccc---c
Confidence 66544 235678889999999999999999999999999999998632 1
Q ss_pred CCccCCCCceeeccCCHHHHHHHHHHHHHHHhcccccCCC-C----CCCCCCCCCCcCCCCCCCCCCCCCCCC----CCC
Q 005758 235 PRCVSMSEEIVQVVGDINNVKNAVAIISSRLRESQHRDRS-H----FHGRLHSPDRFFPDDDYVPHMNNTARR----PSM 305 (678)
Q Consensus 235 p~~~~~~~~~V~I~G~~~~v~~A~~~I~~~~~e~~~~~~~-~----~~~~~~~p~~~~~~~~~~p~~~~~~~~----~~~ 305 (678)
. ...++...|.|...-+..|+.++.+.+.+....-+. + -......|..-+.++.+-++......- +.+
T Consensus 180 r---~g~~~~~~i~~qqk~~~~a~~~~~~~~~edeelv~~~~e~~q~rvprk~p~n~~~~~m~~~~~s~~~h~~~~t~~s 256 (608)
T KOG2279|consen 180 R---LGLSRLIKISGQQKEVAAAKHLILEKVSEDEELVKRIAESAQTRVPRKQPINVRREDMTEPGGAGEPHLWKNTSSS 256 (608)
T ss_pred c---cccccceecccccchHHHHHhhhhccccchhHHhhhchhhcccCCCCCCCccccchhhcccccCCccccCccchhc
Confidence 1 145777888888888889999999888774321111 0 000011111111111111111000000 000
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCcCCCCC-CCCCCCCCCCCCceEEEEEeeccccceEEeCCchHHHHHHHHhCCeEEEe
Q 005758 306 DGARFSGSNYRSNNYGPRPSGYSIEAGAA-PMSDSVQPFYGEDLVFRMLCPIDKVGRVIGESEGIVELLQNEIGVDLKVA 384 (678)
Q Consensus 306 ~~~~~~~~~~~~~~~~~~~~~y~~~~~~~-~~~~~~~~~~~~~~~~~i~vp~~~vg~IIG~~G~~I~~I~~~tg~~I~i~ 384 (678)
.....+..+..+.. + ..|..-.+.+ +..+............+|.+|.-.+|.|||+.|+++..+...+++.+.|.
T Consensus 257 ~spg~~~~~~eg~d--m--~v~vsk~~s~~~~~d~s~~k~~~l~i~e~e~p~~lsg~lig~~gey~s~yssasn~~~hi~ 332 (608)
T KOG2279|consen 257 MSPGAPLVTKEGGD--M--AVVVSKEGSWEKPSDDSFQKSEALAIPEMEMPEILSGDLIGHAGEYLSVYSSASNHPNHIW 332 (608)
T ss_pred cCCCCCCcccCCCc--c--eeEEecccccCCccccccccccccccceeecCcccccchhhhhhhhhhhhhhccCccceEE
Confidence 00000000000000 0 0000000000 00000000011345788999999999999999999999999999999997
Q ss_pred CCCCCCCC---cEEEEecC
Q 005758 385 DPVDGSDE---QIITISSE 400 (678)
Q Consensus 385 ~~~~~~~e---r~v~I~G~ 400 (678)
...-...- .++.+.|+
T Consensus 333 t~pyt~~v~~~qic~~egk 351 (608)
T KOG2279|consen 333 TQPYTSRVLQLQICVNEGK 351 (608)
T ss_pred eccccchhhhhhhheecch
Confidence 54222211 45556654
No 25
>cd02394 vigilin_like_KH K homology RNA-binding domain_vigilin_like. The vigilin family is a large and extended family of multiple KH-domain proteins, including vigilin, also called high density lipoprotein binding protien (HBP), fungal Scp160 and bicaudal-C. Yeast Scp160p has been shown to bind RNA and to associate with both soluble and membrane-bound polyribosomes as a mRNP component. Bicaudal-C is a RNA-binding molecule believed to function in embryonic development at the post-transcriptional level. In general, KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=99.01 E-value=3.8e-10 Score=89.32 Aligned_cols=61 Identities=21% Similarity=0.304 Sum_probs=55.1
Q ss_pred EEEEEcccccceecccCchhHHHHHhccCceEEEecCCCCCCCccCCCCceeeccCCHHHHHHHHHHHH
Q 005758 194 TRMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRILPRDHSLPRCVSMSEEIVQVVGDINNVKNAVAIIS 262 (678)
Q Consensus 194 ~~l~vp~~~~g~iIGk~G~~I~~I~~~tg~~I~i~~~~~~~p~~~~~~~~~V~I~G~~~~v~~A~~~I~ 262 (678)
.+|.||..++++|||++|++|++|+++|||+|.|++.. ..++.|+|+|+.++|..|+.+|+
T Consensus 2 ~~i~Vp~~~~~~iIG~~G~~i~~i~~~~g~~I~i~~~~--------~~~~~v~I~G~~~~v~~A~~~i~ 62 (62)
T cd02394 2 EEVEIPKKLHRFIIGKKGSNIRKIMEETGVKIRFPDPG--------SKSDTITITGPKENVEKAKEEIL 62 (62)
T ss_pred eEEEeCHHHhhhccCCCCCcHHHHHHHhCCEEEcCCCC--------CCCCEEEEEcCHHHHHHHHHHhC
Confidence 57899999999999999999999999999999998532 45788999999999999998873
No 26
>cd02393 PNPase_KH Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to those in other RNA binding proteins: a KH domain and an S1 domain. KH domains bind single-stranded RNA and are found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=99.01 E-value=1.1e-09 Score=85.99 Aligned_cols=57 Identities=25% Similarity=0.332 Sum_probs=51.4
Q ss_pred eEEEEeecCCcceeeecCCch-hHHHHhhcCCeEEEeccCCCCCCCCCCCeEEEEEec-HHHHHHHHHHH
Q 005758 432 ITTRLLVPSSEIGCLEGRDGS-LSEMRRSTGANIQILSREEVPACVSGTDELVQIVGE-IQAARDALVEV 499 (678)
Q Consensus 432 ~~~~l~VP~~~~g~iIGkgG~-Ik~I~~~tga~I~v~~~~~~p~~~~~~~~~V~I~G~-~~~v~~A~~~I 499 (678)
....|.||.+++++|||++|+ |++|+++|||+|.+. .++.|.|+|+ +++++.|+.+|
T Consensus 2 ~~~~i~Ip~~~ig~iIGkgG~~ik~I~~~tg~~I~i~-----------~~g~v~I~G~~~~~v~~A~~~I 60 (61)
T cd02393 2 RIETMKIPPDKIRDVIGPGGKTIKKIIEETGVKIDIE-----------DDGTVYIAASDKEAAEKAKKMI 60 (61)
T ss_pred eEEEEEeChhheeeeECCCchHHHHHHHHHCCEEEeC-----------CCCEEEEEeCCHHHHHHHHHHh
Confidence 457899999999999999999 999999999999984 2457999999 99999999876
No 27
>PF00013 KH_1: KH domain syndrome, contains KH motifs.; InterPro: IPR018111 The K homology (KH) domain was first identified in the human heterogeneous nuclear ribonucleoprotein (hnRNP) K. It is a domain of around 70 amino acids that is present in a wide variety of quite diverse nucleic acid-binding proteins []. It has been shown to bind RNA [, ]. Like many other RNA-binding motifs, KH motifs are found in one or multiple copies (14 copies in chicken vigilin) and, at least for hnRNP K (three copies) and FMR-1 (two copies), each motif is necessary for in vitro RNA binding activity, suggesting that they may function cooperatively or, in the case of single KH motif proteins (for example, Mer1p), independently []. According to structural [, , ] analysis the KH domain can be separated in two groups. The first group or type-1 contain a beta-alpha-alpha-beta-beta-alpha structure, whereas in the type-2 the two last beta-sheet are located in the N-terminal part of the domain (alpha-beta-beta-alpha-alpha-beta). Sequence similarity between these two folds are limited to a short region (VIGXXGXXI) in the RNA binding motif. This motif is located between helice 1 and 2 in type-1 and between helice 2 and 3 in type-2. Proteins known to contain a type-1 KH domain include bacterial polyribonucleotide nucleotidyltransferases (2.7.7.8 from EC); vertebrate fragile X mental retardation protein 1 (FMR1); eukaryotic heterogeneous nuclear ribonucleoprotein K (hnRNP K), one of at least 20 major proteins that are part of hnRNP particles in mammalian cells; mammalian poly(rC) binding proteins; Artemia salina glycine-rich protein GRP33; yeast PAB1-binding protein 2 (PBP2); vertebrate vigilin; and human high-density lipoprotein binding protein (HDL-binding protein). More information about these proteins can be found at Protein of the Month: RNA Exosomes [].; GO: 0003723 RNA binding; PDB: 1TUA_A 2Z0S_A 1WE8_A 4AM3_B 4AIM_A 4AID_A 2HH3_A 2JVZ_A 1J4W_A 2HH2_A ....
Probab=98.98 E-value=4.3e-10 Score=88.37 Aligned_cols=59 Identities=34% Similarity=0.526 Sum_probs=52.6
Q ss_pred EEEEeecCCcceeeecCCch-hHHHHhhcCCeEEEeccCCCCCCCCCCCeEEEEEecHHHHHHHHHHH
Q 005758 433 TTRLLVPSSEIGCLEGRDGS-LSEMRRSTGANIQILSREEVPACVSGTDELVQIVGEIQAARDALVEV 499 (678)
Q Consensus 433 ~~~l~VP~~~~g~iIGkgG~-Ik~I~~~tga~I~v~~~~~~p~~~~~~~~~V~I~G~~~~v~~A~~~I 499 (678)
|.+|.||.+++++|||++|+ |++|+++|||+|+|+.. . .+..|+|+|++++|++|+.+|
T Consensus 1 T~~i~vp~~~~~~iIG~~G~~i~~I~~~t~~~I~i~~~-------~-~~~~v~I~G~~~~v~~A~~~I 60 (60)
T PF00013_consen 1 TERIEVPSSLVGRIIGKKGSNIKEIEEETGVKIQIPDD-------D-ERDIVTISGSPEQVEKAKKMI 60 (60)
T ss_dssp EEEEEEEHHHHHHHHTGGGHHHHHHHHHHTSEEEEEST-------T-EEEEEEEEESHHHHHHHHHHH
T ss_pred CEEEEECHHHcCEEECCCCCcHHHhhhhcCeEEEEcCC-------C-CcEEEEEEeCHHHHHHHHhhC
Confidence 67899999999999999999 99999999999999532 1 345899999999999999876
No 28
>cd00105 KH-I K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that belong to different protein folds, but they share a single KH motif. The KH motif is folded into a beta alpha alpha beta unit. In addition to the core, type II KH domains (e.g. ribosomal protein S3) include N-terminal extension and type I KH domains (e.g. hnRNP K) contain C-terminal extension.
Probab=98.89 E-value=5.7e-09 Score=83.02 Aligned_cols=61 Identities=36% Similarity=0.569 Sum_probs=53.8
Q ss_pred EEEeecCCcceeeecCCch-hHHHHhhcCCeEEEeccCCCCCCCCCCCeEEEEEecHHHHHHHHHHH
Q 005758 434 TRLLVPSSEIGCLEGRDGS-LSEMRRSTGANIQILSREEVPACVSGTDELVQIVGEIQAARDALVEV 499 (678)
Q Consensus 434 ~~l~VP~~~~g~iIGkgG~-Ik~I~~~tga~I~v~~~~~~p~~~~~~~~~V~I~G~~~~v~~A~~~I 499 (678)
.+|.||.+++++|||++|+ |++|+++|||+|.|.+... ...++.|+|.|+.+++..|+.+|
T Consensus 2 ~~i~ip~~~~~~vIG~~G~~i~~I~~~s~~~I~i~~~~~-----~~~~~~v~i~G~~~~v~~a~~~i 63 (64)
T cd00105 2 ERVLVPSSLVGRIIGKGGSTIKEIREETGAKIKIPDSGS-----GSEERIVTITGTPEAVEKAKELI 63 (64)
T ss_pred EEEEEchhhcceeECCCCHHHHHHHHHHCCEEEEcCCCC-----CCCceEEEEEcCHHHHHHHHHHh
Confidence 5799999999999999999 9999999999999964322 34788999999999999998876
No 29
>smart00322 KH K homology RNA-binding domain.
Probab=98.88 E-value=9.6e-09 Score=82.37 Aligned_cols=66 Identities=26% Similarity=0.541 Sum_probs=59.5
Q ss_pred cEEEEEecCCCcCeeecCCCchHHHHHHHcCCeEEEecCCCCCceeEEEEEcCHHHHHHHHHHHHHHH
Q 005758 604 STLEVVLPDYAVPKLITKSKTLLTRFSEMSGASVSLVEGQPEGTQKIIQISGTPEQVERAQSVLQGFI 671 (678)
Q Consensus 604 ~t~~v~VP~~~vg~IIGkgG~~I~~Ir~~sGA~I~i~~~~~~~~~r~I~IsGt~eqv~~Ak~lI~~~i 671 (678)
.+.+|.||.+++++|||++|++|++|++.||++|.+..... ....|.|.|++++++.|+.+|.+.+
T Consensus 3 ~~~~i~i~~~~~~~liG~~G~~i~~i~~~~~~~i~~~~~~~--~~~~v~i~g~~~~v~~a~~~i~~~~ 68 (69)
T smart00322 3 VTIEVLIPADKVGLIIGKGGSTIKKIEEETGVKIDIPEDGS--EERVVEITGPPENVEKAAELILEIL 68 (69)
T ss_pred eEEEEEEcchhcceeECCCchHHHHHHHHHCCEEEECCCCC--CccEEEEEcCHHHHHHHHHHHHHHh
Confidence 57899999999999999999999999999999999964332 5678999999999999999998876
No 30
>PF13014 KH_3: KH domain
Probab=98.86 E-value=4.1e-09 Score=76.68 Aligned_cols=42 Identities=21% Similarity=0.502 Sum_probs=37.8
Q ss_pred CcCeeecCCCchHHHHHHHcCCeEEEec-CCCCCceeEEEEEc
Q 005758 614 AVPKLITKSKTLLTRFSEMSGASVSLVE-GQPEGTQKIIQISG 655 (678)
Q Consensus 614 ~vg~IIGkgG~~I~~Ir~~sGA~I~i~~-~~~~~~~r~I~IsG 655 (678)
+||+|||++|++|++|+++|||+|+|++ ..++..++.|+|+|
T Consensus 1 ~vg~iIG~~G~~I~~I~~~tg~~I~i~~~~~~~~~~~~v~I~G 43 (43)
T PF13014_consen 1 FVGRIIGKGGSTIKEIREETGAKIQIPPENEPGSNERVVTITG 43 (43)
T ss_pred CcCeEECCCChHHHHHHHHhCcEEEECCccCCCCCceEEEEEC
Confidence 6899999999999999999999999987 34566789999998
No 31
>PF13014 KH_3: KH domain
Probab=98.77 E-value=1.1e-08 Score=74.51 Aligned_cols=42 Identities=45% Similarity=0.716 Sum_probs=38.5
Q ss_pred eeceecccCchhHHhHHhHhCCEEEEcc-CCCCCCccEEEEec
Q 005758 89 KAGGVIGKSGSIIKSIRQHTGAWINVHE-LIPGDEERIIEISD 130 (678)
Q Consensus 89 ~~g~IIGk~G~~Ik~i~~~tga~I~v~~-~~~~~~ervv~i~G 130 (678)
++|+|||++|++|++|+++|+|+|+|++ ..++..+++|+|+|
T Consensus 1 ~vg~iIG~~G~~I~~I~~~tg~~I~i~~~~~~~~~~~~v~I~G 43 (43)
T PF13014_consen 1 FVGRIIGKGGSTIKEIREETGAKIQIPPENEPGSNERVVTITG 43 (43)
T ss_pred CcCeEECCCChHHHHHHHHhCcEEEECCccCCCCCceEEEEEC
Confidence 4799999999999999999999999987 56678999999987
No 32
>COG1094 Predicted RNA-binding protein (contains KH domains) [General function prediction only]
Probab=98.61 E-value=1.5e-07 Score=89.22 Aligned_cols=150 Identities=19% Similarity=0.259 Sum_probs=103.6
Q ss_pred cEEEEEEeeCceeceecccCchhHHhHHhHhCCEEEEccCCCCCCccEEEEecCCCCCCCCCCCCCchHHHHHHHHHHHh
Q 005758 78 TTTYRILCHDMKAGGVIGKSGSIIKSIRQHTGAWINVHELIPGDEERIIEISDTRRRDPEGRMPSFSPAQEALFLIHDRI 157 (678)
Q Consensus 78 ~~~~~ilip~~~~g~IIGk~G~~Ik~i~~~tga~I~v~~~~~~~~ervv~i~G~~~~~~~~~~~~~~~~~~a~~~i~~~i 157 (678)
..+..+.||....+.+||+.|++.+.|.+.++++|.++. .+..|+|..+.... ++ ....+|...|...-
T Consensus 7 ~~~~~v~iPk~R~~~lig~~g~v~k~ie~~~~~~~~iD~-----~~~~V~i~~~~~t~---Dp---~~~~ka~d~VkAIg 75 (194)
T COG1094 7 KSSEAVKIPKDRIGVLIGKWGEVKKAIEEKTGVKLRIDS-----KTGSVTIRTTRKTE---DP---LALLKARDVVKAIG 75 (194)
T ss_pred cceeeeecCchhheeeecccccchHHHHhhcCeEEEEEC-----CCCeEEEEecCCCC---Ch---HHHHHHHHHHHHHh
Confidence 356678999999999999999999999999999999984 55678888763211 11 12333333333221
Q ss_pred hccCCCCCCCCCcccccCCCCCCCCCCcCCCCCceEEEEE-----Ec--c----cccceecccCchhHHHHHhccCceEE
Q 005758 158 LESDGGGGFYGEEEEEYGGGGGVGGGGFRGGGNRVATRMV-----VS--R----MHVGCLLGKGGKIIEQMRMETKTQIR 226 (678)
Q Consensus 158 ~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~-----vp--~----~~~g~iIGk~G~~I~~I~~~tg~~I~ 226 (678)
.||..+....+ ....+.+.+. +- . ...|+|||++|.+.+.|++-|+|.|.
T Consensus 76 ------rGF~pe~A~~L-------------L~d~~~levIdi~~~~~~~~~~l~R~kgRIIG~~GkTr~~IE~lt~~~I~ 136 (194)
T COG1094 76 ------RGFPPEKALKL-------------LEDDYYLEVIDLKDVVTLSGDHLRRIKGRIIGREGKTRRAIEELTGVYIS 136 (194)
T ss_pred ------cCCCHHHHHHH-------------hcCCcEEEEEEHHHhccCchhhhhHhhceeeCCCchHHHHHHHHhCCeEE
Confidence 12211111000 0112222221 11 1 23589999999999999999999999
Q ss_pred EecCCCCCCCccCCCCceeeccCCHHHHHHHHHHHHHHHhcccc
Q 005758 227 ILPRDHSLPRCVSMSEEIVQVVGDINNVKNAVAIISSRLRESQH 270 (678)
Q Consensus 227 i~~~~~~~p~~~~~~~~~V~I~G~~~~v~~A~~~I~~~~~e~~~ 270 (678)
|. ...|.|-|..++|+.|+..|..++....|
T Consensus 137 V~-------------g~tVaiiG~~~~v~iAr~AVemli~G~~h 167 (194)
T COG1094 137 VY-------------GKTVAIIGGFEQVEIAREAVEMLINGAPH 167 (194)
T ss_pred Ee-------------CcEEEEecChhhhHHHHHHHHHHHcCCCc
Confidence 97 46799999999999999999999988653
No 33
>smart00322 KH K homology RNA-binding domain.
Probab=98.55 E-value=3.5e-07 Score=73.14 Aligned_cols=66 Identities=24% Similarity=0.465 Sum_probs=57.3
Q ss_pred ceEEEEeecCCcceeeecCCch-hHHHHhhcCCeEEEeccCCCCCCCCCCCeEEEEEecHHHHHHHHHHHHHHH
Q 005758 431 IITTRLLVPSSEIGCLEGRDGS-LSEMRRSTGANIQILSREEVPACVSGTDELVQIVGEIQAARDALVEVTTRL 503 (678)
Q Consensus 431 ~~~~~l~VP~~~~g~iIGkgG~-Ik~I~~~tga~I~v~~~~~~p~~~~~~~~~V~I~G~~~~v~~A~~~I~~~l 503 (678)
..+.+|.||..++++|||++|+ |++|++.||++|.+.... .....|+|.|+.++++.|..+|.+.+
T Consensus 2 ~~~~~i~i~~~~~~~liG~~G~~i~~i~~~~~~~i~~~~~~-------~~~~~v~i~g~~~~v~~a~~~i~~~~ 68 (69)
T smart00322 2 PVTIEVLIPADKVGLIIGKGGSTIKKIEEETGVKIDIPEDG-------SEERVVEITGPPENVEKAAELILEIL 68 (69)
T ss_pred ceEEEEEEcchhcceeECCCchHHHHHHHHHCCEEEECCCC-------CCccEEEEEcCHHHHHHHHHHHHHHh
Confidence 3578899999999999999999 999999999999984311 14678999999999999999988765
No 34
>COG1094 Predicted RNA-binding protein (contains KH domains) [General function prediction only]
Probab=98.46 E-value=6.2e-07 Score=85.16 Aligned_cols=142 Identities=20% Similarity=0.281 Sum_probs=98.6
Q ss_pred ceEEEEEeeccccceEEeCCchHHHHHHHHhCCeEEEeCCCCCCCCcEEEEecCCCCCC--cchHHHHHHHHHHHHhhcc
Q 005758 347 DLVFRMLCPIDKVGRVIGESEGIVELLQNEIGVDLKVADPVDGSDEQIITISSEEGPDD--ELFPAQEALLHIQTRIVDL 424 (678)
Q Consensus 347 ~~~~~i~vp~~~vg~IIG~~G~~I~~I~~~tg~~I~i~~~~~~~~er~v~I~G~~g~~~--~~~~a~~~i~~i~~~i~~~ 424 (678)
.....+.||....+.+||+.|++.+.|.+.+++++.+.. .+..|.|..++...+ .+.+|.+.+..+-.-....
T Consensus 7 ~~~~~v~iPk~R~~~lig~~g~v~k~ie~~~~~~~~iD~-----~~~~V~i~~~~~t~Dp~~~~ka~d~VkAIgrGF~pe 81 (194)
T COG1094 7 KSSEAVKIPKDRIGVLIGKWGEVKKAIEEKTGVKLRIDS-----KTGSVTIRTTRKTEDPLALLKARDVVKAIGRGFPPE 81 (194)
T ss_pred cceeeeecCchhheeeecccccchHHHHhhcCeEEEEEC-----CCCeEEEEecCCCCChHHHHHHHHHHHHHhcCCCHH
Confidence 346779999999999999999999999999999999954 567888886633222 2344444333221100000
Q ss_pred CC--CCCCceEEE-Ee----e--c----CCcceeeecCCch-hHHHHhhcCCeEEEeccCCCCCCCCCCCeEEEEEecHH
Q 005758 425 GA--DKDNIITTR-LL----V--P----SSEIGCLEGRDGS-LSEMRRSTGANIQILSREEVPACVSGTDELVQIVGEIQ 490 (678)
Q Consensus 425 ~~--~~~~~~~~~-l~----V--P----~~~~g~iIGkgG~-Ik~I~~~tga~I~v~~~~~~p~~~~~~~~~V~I~G~~~ 490 (678)
.+ -.+..+.+. +. + + ....|+|||++|. -+-|++.|||.|.|. +..|.|.|.++
T Consensus 82 ~A~~LL~d~~~levIdi~~~~~~~~~~l~R~kgRIIG~~GkTr~~IE~lt~~~I~V~------------g~tVaiiG~~~ 149 (194)
T COG1094 82 KALKLLEDDYYLEVIDLKDVVTLSGDHLRRIKGRIIGREGKTRRAIEELTGVYISVY------------GKTVAIIGGFE 149 (194)
T ss_pred HHHHHhcCCcEEEEEEHHHhccCchhhhhHhhceeeCCCchHHHHHHHHhCCeEEEe------------CcEEEEecChh
Confidence 00 000011111 11 1 1 2356999999999 888999999999994 44799999999
Q ss_pred HHHHHHHHHHHHHHh
Q 005758 491 AARDALVEVTTRLRS 505 (678)
Q Consensus 491 ~v~~A~~~I~~~l~~ 505 (678)
+|+.|...|..++..
T Consensus 150 ~v~iAr~AVemli~G 164 (194)
T COG1094 150 QVEIAREAVEMLING 164 (194)
T ss_pred hhHHHHHHHHHHHcC
Confidence 999999999988853
No 35
>cd02395 SF1_like-KH Splicing factor 1 (SF1) K homology RNA-binding domain (KH). Splicing factor 1 (SF1) specifically recognizes the intron branch point sequence (BPS) UACUAAC in the pre-mRNA transcripts during spliceosome assembly. We show that the KH-QUA2 region of SF1 defines an enlarged KH (hnRNP K) fold which is necessary and sufficient for BPS binding. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=98.19 E-value=4.6e-06 Score=74.66 Aligned_cols=64 Identities=13% Similarity=0.201 Sum_probs=51.7
Q ss_pred CCcCeeecCCCchHHHHHHHcCCeEEEecCCC---C--------------CceeEEEEEcC---HHHHHHHHHHHHHHHh
Q 005758 613 YAVPKLITKSKTLLTRFSEMSGASVSLVEGQP---E--------------GTQKIIQISGT---PEQVERAQSVLQGFIL 672 (678)
Q Consensus 613 ~~vg~IIGkgG~~I~~Ir~~sGA~I~i~~~~~---~--------------~~~r~I~IsGt---~eqv~~Ak~lI~~~i~ 672 (678)
+++|.|||.+|++|++|+++|||+|.|..... + ...-.|.|++. .+++++|+.+|+.++.
T Consensus 15 N~IG~IIGPgG~tiK~i~~eTg~kI~Irg~gs~~~~~~~~~~~~~~~~~~~eplhV~I~a~~~~~e~~~~A~~~I~~ll~ 94 (120)
T cd02395 15 NFVGLILGPRGNTLKQLEKETGAKISIRGKGSMKDGKKEEELRGPKYAHLNEPLHVLITAETPPEEALAKAVEAIEELLK 94 (120)
T ss_pred CeeEEEECCCChHHHHHHHHHCCEEEEecCcccccccccccccCcccccCCCCcEEEEEeCCcHHHHHHHHHHHHHHHhc
Confidence 68999999999999999999999999975310 0 01146899996 4999999999999987
Q ss_pred cccc
Q 005758 673 STQD 676 (678)
Q Consensus 673 ~~~~ 676 (678)
...+
T Consensus 95 ~~~~ 98 (120)
T cd02395 95 PAIE 98 (120)
T ss_pred cCCC
Confidence 6543
No 36
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=98.16 E-value=6.8e-06 Score=82.22 Aligned_cols=157 Identities=21% Similarity=0.246 Sum_probs=108.8
Q ss_pred ccEEEEEEeeCceeceecccCchhHHhHHhHhCCEEEEccCCCCCCccEEEEecCCCCCCCCCCCCCchHHHHHHHHHHH
Q 005758 77 VTTTYRILCHDMKAGGVIGKSGSIIKSIRQHTGAWINVHELIPGDEERIIEISDTRRRDPEGRMPSFSPAQEALFLIHDR 156 (678)
Q Consensus 77 ~~~~~~ilip~~~~g~IIGk~G~~Ik~i~~~tga~I~v~~~~~~~~ervv~i~G~~~~~~~~~~~~~~~~~~a~~~i~~~ 156 (678)
..++..+-+|..+++.|.|++|.+||.|+.+|..+|+-+-- .++.+..++|..+ -+..+.+.
T Consensus 24 ~nvt~sv~vps~~v~~ivg~qg~kikalr~KTqtyi~tPsr---~eePiF~vTg~~e---------------dv~~aRre 85 (394)
T KOG2113|consen 24 QNVTESVEVPSEHVAEIVGRQGCKIKALRAKTQTYIKTPSR---GEEPIFPVTGRHE---------------DVRRARRE 85 (394)
T ss_pred CccceeeecCcccceeecccCccccchhhhhhcceeccCCC---CCCCcceeccCch---------------hHHHHhhc
Confidence 56888888999999999999999999999999999998752 4557888888642 22333334
Q ss_pred hhccCCCCCCCCCcccccCCCCCCCCCCcCCCCCceEEEEEEcccccceecccCchhHHHHHhccCceEEEecCCCCCCC
Q 005758 157 ILESDGGGGFYGEEEEEYGGGGGVGGGGFRGGGNRVATRMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRILPRDHSLPR 236 (678)
Q Consensus 157 i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~vp~~~~g~iIGk~G~~I~~I~~~tg~~I~i~~~~~~~p~ 236 (678)
+......++.... .+- ..++..........+....+|...++.|.|.+|.+|+.|++.++..|.-+-+
T Consensus 86 i~saaeH~~l~~~-----s~s-~Sgg~~~~s~s~qt~sy~svP~rvvglvv~~~~~ti~~iqq~tnt~I~T~v~------ 153 (394)
T KOG2113|consen 86 IPSAAEHFGLIRA-----SRS-FSGGTNGASASGQTTSYVSVPLRVVGLVVGPKGATIKRIQQFTNTYIATPVR------ 153 (394)
T ss_pred Cccccceeeeeee-----ccc-ccCCCccccccCCCceeeeccceeeeeccccccCccchheecccceEeeecc------
Confidence 4333222221100 000 0000000112455677788999999999999999999999999988776532
Q ss_pred ccCCCCceeeccCCHHH-HHHHH-HHHHHHHh
Q 005758 237 CVSMSEEIVQVVGDINN-VKNAV-AIISSRLR 266 (678)
Q Consensus 237 ~~~~~~~~V~I~G~~~~-v~~A~-~~I~~~~~ 266 (678)
..+.+..++|...+ +++|. ..|+..+.
T Consensus 154 ---~~~~Vf~Vtg~~~nC~kra~s~eie~ta~ 182 (394)
T KOG2113|consen 154 ---CGEPVFCVTGAPKNCVKRARSCEIEQTAV 182 (394)
T ss_pred ---CCCceEEEecCCcchhhhccccchhhhhh
Confidence 35778899998777 77787 66666553
No 37
>cd02395 SF1_like-KH Splicing factor 1 (SF1) K homology RNA-binding domain (KH). Splicing factor 1 (SF1) specifically recognizes the intron branch point sequence (BPS) UACUAAC in the pre-mRNA transcripts during spliceosome assembly. We show that the KH-QUA2 region of SF1 defines an enlarged KH (hnRNP K) fold which is necessary and sufficient for BPS binding. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=97.92 E-value=3.2e-05 Score=69.26 Aligned_cols=71 Identities=23% Similarity=0.368 Sum_probs=52.7
Q ss_pred EEeecC------CcceeeecCCch-hHHHHhhcCCeEEEeccCCCC-----------CC-CCCCCeEEEEEecH---HHH
Q 005758 435 RLLVPS------SEIGCLEGRDGS-LSEMRRSTGANIQILSREEVP-----------AC-VSGTDELVQIVGEI---QAA 492 (678)
Q Consensus 435 ~l~VP~------~~~g~iIGkgG~-Ik~I~~~tga~I~v~~~~~~p-----------~~-~~~~~~~V~I~G~~---~~v 492 (678)
++.||. +++|.|||++|+ ||.|+++|||+|.|..+.... .. .....-.|.|++.. +++
T Consensus 3 ki~iP~~~~P~~N~IG~IIGPgG~tiK~i~~eTg~kI~Irg~gs~~~~~~~~~~~~~~~~~~~eplhV~I~a~~~~~e~~ 82 (120)
T cd02395 3 KVYIPVKQYPKYNFVGLILGPRGNTLKQLEKETGAKISIRGKGSMKDGKKEEELRGPKYAHLNEPLHVLITAETPPEEAL 82 (120)
T ss_pred EEEcCcccCCCCCeeEEEECCCChHHHHHHHHHCCEEEEecCcccccccccccccCcccccCCCCcEEEEEeCCcHHHHH
Confidence 455664 478999999999 999999999999996432111 00 01233578999965 999
Q ss_pred HHHHHHHHHHHHh
Q 005758 493 RDALVEVTTRLRS 505 (678)
Q Consensus 493 ~~A~~~I~~~l~~ 505 (678)
.+|+.+|..+|..
T Consensus 83 ~~A~~~I~~ll~~ 95 (120)
T cd02395 83 AKAVEAIEELLKP 95 (120)
T ss_pred HHHHHHHHHHhcc
Confidence 9999999988864
No 38
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=97.80 E-value=3.5e-05 Score=77.24 Aligned_cols=149 Identities=20% Similarity=0.332 Sum_probs=108.2
Q ss_pred CCceEEEEeecCCcceeeecCCch-hHHHHhhcCCeEEEeccCCCCCCCCCCCeEEEEEecHHHHHHHHHHHHHHHHhhh
Q 005758 429 DNIITTRLLVPSSEIGCLEGRDGS-LSEMRRSTGANIQILSREEVPACVSGTDELVQIVGEIQAARDALVEVTTRLRSYL 507 (678)
Q Consensus 429 ~~~~~~~l~VP~~~~g~iIGkgG~-Ik~I~~~tga~I~v~~~~~~p~~~~~~~~~V~I~G~~~~v~~A~~~I~~~l~~~~ 507 (678)
...+++.+.||..+++.+.|++|+ ||.|+.+|...|.-+.+.++| ++.++|.++.|+.|+..|...-..+-
T Consensus 23 p~nvt~sv~vps~~v~~ivg~qg~kikalr~KTqtyi~tPsr~eeP--------iF~vTg~~edv~~aRrei~saaeH~~ 94 (394)
T KOG2113|consen 23 GQNVTESVEVPSEHVAEIVGRQGCKIKALRAKTQTYIKTPSRGEEP--------IFPVTGRHEDVRRARREIPSAAEHFG 94 (394)
T ss_pred CCccceeeecCcccceeecccCccccchhhhhhcceeccCCCCCCC--------cceeccCchhHHHHhhcCccccceee
Confidence 367899999999999999999999 999999999999987766555 57899999999999887653221100
Q ss_pred hcccCCCCCCCCCCCCCCcccccccCCCCCCCCCCCCCCCCCCCcccCCCCCCCCCCCCCcccCCCCccccccCcccccC
Q 005758 508 YRDFFQKETPPSSTGPTGSALVVEAASPIDITPAREVQTVTDPPAATHQSVQIPATSQPSKEAAGSVSETVKQNESERRE 587 (678)
Q Consensus 508 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~g~~~~~~ 587 (678)
. ++..... +++..
T Consensus 95 ------------l--------------------~~~s~s~----------------------Sgg~~------------- 107 (394)
T KOG2113|consen 95 ------------L--------------------IRASRSF----------------------SGGTN------------- 107 (394)
T ss_pred ------------e--------------------eeecccc----------------------cCCCc-------------
Confidence 0 0000000 00000
Q ss_pred CCcccccCCCCCcccccEEEEEecCCCcCeeecCCCchHHHHHHHcCCeEEEecCCCCCceeEEEEEcCHHH-HHHHH
Q 005758 588 DVPTVINRVPLPLVTRSTLEVVLPDYAVPKLITKSKTLLTRFSEMSGASVSLVEGQPEGTQKIIQISGTPEQ-VERAQ 664 (678)
Q Consensus 588 ~~~~~~~~~~~~~~~~~t~~v~VP~~~vg~IIGkgG~~I~~Ir~~sGA~I~i~~~~~~~~~r~I~IsGt~eq-v~~Ak 664 (678)
.. . ..-+.+.++.+|-..++.|.|..|..|+.|++.+...|.-+-+ ..+-++-++|-+.+ +++|.
T Consensus 108 ---~~----s--~s~qt~sy~svP~rvvglvv~~~~~ti~~iqq~tnt~I~T~v~---~~~~Vf~Vtg~~~nC~kra~ 173 (394)
T KOG2113|consen 108 ---GA----S--ASGQTTSYVSVPLRVVGLVVGPKGATIKRIQQFTNTYIATPVR---CGEPVFCVTGAPKNCVKRAR 173 (394)
T ss_pred ---cc----c--ccCCCceeeeccceeeeeccccccCccchheecccceEeeecc---CCCceEEEecCCcchhhhcc
Confidence 00 0 0024678999999999999999999999999999888887533 23458999999888 55555
No 39
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.56 E-value=6.7e-05 Score=78.34 Aligned_cols=54 Identities=26% Similarity=0.245 Sum_probs=47.7
Q ss_pred CccEEEEEEeeCceeceecccCchhHHhHHhHhCCEEEEccCCCCCCccEEEEecCC
Q 005758 76 MVTTTYRILCHDMKAGGVIGKSGSIIKSIRQHTGAWINVHELIPGDEERIIEISDTR 132 (678)
Q Consensus 76 ~~~~~~~ilip~~~~g~IIGk~G~~Ik~i~~~tga~I~v~~~~~~~~ervv~i~G~~ 132 (678)
..++++++.|-+..+|.|||++|++||+||..|+++|+|.+ ...+..|+|.|..
T Consensus 44 ~~e~plcf~iks~mvg~vigrggskik~iq~~tnt~iqii~---~~~e~kv~ifg~~ 97 (629)
T KOG0336|consen 44 GGEFPLCFSIKSEMVGKVIGRGGSKIKRIQNDTNTRIQIIK---CDLEVKVTIFGIN 97 (629)
T ss_pred CCCCchhhhhhhhhhheeeccCcchhhhhhcccceeEEEec---cCceeEEEEechH
Confidence 45688899999999999999999999999999999999987 3567788999853
No 40
>PRK08406 transcription elongation factor NusA-like protein; Validated
Probab=97.49 E-value=0.00025 Score=65.46 Aligned_cols=101 Identities=18% Similarity=0.271 Sum_probs=71.4
Q ss_pred CceEEEEEeeccccceEEeCCchHHHHHHHHhCCeEEEeCCCCCCCCcEEEEecCCCCCCcchHHHHHHHHHHHHh--hc
Q 005758 346 EDLVFRMLCPIDKVGRVIGESEGIVELLQNEIGVDLKVADPVDGSDEQIITISSEEGPDDELFPAQEALLHIQTRI--VD 423 (678)
Q Consensus 346 ~~~~~~i~vp~~~vg~IIG~~G~~I~~I~~~tg~~I~i~~~~~~~~er~v~I~G~~g~~~~~~~a~~~i~~i~~~i--~~ 423 (678)
++-...|.|+...+|..||++|++|+.|++..|-+|.+-.- + + .+.+.+..++... .+
T Consensus 30 d~~~vi~vV~~~~vG~~IG~~G~rI~~i~e~lgekIdVve~-----------s------~---d~~~fI~n~l~Pa~V~~ 89 (140)
T PRK08406 30 DDDRIIFVVKEGDMGLAIGKGGENVKRLEEKLGKDIELVEY-----------S------D---DPEEFIKNIFAPAAVRS 89 (140)
T ss_pred eCCEEEEEEeCCCccccCCcCchHHHHHHHHhCCceEEEEc-----------C------C---CHHHHHHHHcCCCEEEE
Confidence 34578888999999999999999999999999988887431 1 0 0112222221111 00
Q ss_pred c-CCCCCCceEEEEeecCCcceeeecCCch-hHHHHhhcCCeEEE
Q 005758 424 L-GADKDNIITTRLLVPSSEIGCLEGRDGS-LSEMRRSTGANIQI 466 (678)
Q Consensus 424 ~-~~~~~~~~~~~l~VP~~~~g~iIGkgG~-Ik~I~~~tga~I~v 466 (678)
. ..+.+....+.+.|+....|.+|||+|. |+.++..++-.+.+
T Consensus 90 v~I~~~~~~~~~~V~V~~~d~g~aIGK~G~ni~la~~L~~~~~di 134 (140)
T PRK08406 90 VTIKKKNGDKVAYVEVAPEDKGIAIGKNGKNIERAKDLAKRHFDI 134 (140)
T ss_pred EEEEecCCcEEEEEEECccccchhhCCCCHHHHHHHHHhCCccCC
Confidence 0 0022334567788999999999999999 99999999998877
No 41
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=97.49 E-value=0.00063 Score=72.72 Aligned_cols=78 Identities=19% Similarity=0.334 Sum_probs=59.6
Q ss_pred ceEEEEEEc------ccccceecccCchhHHHHHhccCceEEEecCCCC---------CCCccCCCCc-eeeccCC-HHH
Q 005758 191 RVATRMVVS------RMHVGCLLGKGGKIIEQMRMETKTQIRILPRDHS---------LPRCVSMSEE-IVQVVGD-INN 253 (678)
Q Consensus 191 ~~~~~l~vp------~~~~g~iIGk~G~~I~~I~~~tg~~I~i~~~~~~---------~p~~~~~~~~-~V~I~G~-~~~ 253 (678)
.++.+|.|| -+|+|+|||..|.|.|+|+++|||+|.|-.+... +.......|. .+.|+++ .+.
T Consensus 137 ~~~~Kv~IPvke~Pd~NFvGLiiGPRG~TqK~lE~etgAKI~IRGkgSvkEgk~~~~d~~~~~~~~epLH~~Isadt~ek 216 (554)
T KOG0119|consen 137 KLHDKVYIPVKEFPDINFVGLIIGPRGNTQKRLERETGAKIAIRGKGSVKEGKGRSDDLSYIPKENEPLHCLISADTQEK 216 (554)
T ss_pred ccccceecchhhcCCcceeEEEecCCccHHHHHHHHhCCeEEEeccccccccccCCcccccccccccceeEEEecchHHH
Confidence 667788887 4689999999999999999999999999763111 1111112223 3888887 799
Q ss_pred HHHHHHHHHHHHhcc
Q 005758 254 VKNAVAIISSRLRES 268 (678)
Q Consensus 254 v~~A~~~I~~~~~e~ 268 (678)
|++|++.|+.+|.+.
T Consensus 217 i~~Ai~vienli~~a 231 (554)
T KOG0119|consen 217 IKKAIAVIENLIQSA 231 (554)
T ss_pred HHHHHHHHHHHHHhh
Confidence 999999999999874
No 42
>PRK08406 transcription elongation factor NusA-like protein; Validated
Probab=97.45 E-value=0.00043 Score=63.88 Aligned_cols=103 Identities=21% Similarity=0.238 Sum_probs=69.1
Q ss_pred EEEEEeeCceeceecccCchhHHhHHhHhCCEEEEccCCCCCCccEEEEecCCCCCCCCCCCCCchHHHHHHHHHHHhhc
Q 005758 80 TYRILCHDMKAGGVIGKSGSIIKSIRQHTGAWINVHELIPGDEERIIEISDTRRRDPEGRMPSFSPAQEALFLIHDRILE 159 (678)
Q Consensus 80 ~~~ilip~~~~g~IIGk~G~~Ik~i~~~tga~I~v~~~~~~~~ervv~i~G~~~~~~~~~~~~~~~~~~a~~~i~~~i~e 159 (678)
.+-++++...+|..||++|++|+.|++..|-+|.|-+- +. ++...|...+..
T Consensus 33 ~vi~vV~~~~vG~~IG~~G~rI~~i~e~lgekIdVve~-----------s~-----------------d~~~fI~n~l~P 84 (140)
T PRK08406 33 RIIFVVKEGDMGLAIGKGGENVKRLEEKLGKDIELVEY-----------SD-----------------DPEEFIKNIFAP 84 (140)
T ss_pred EEEEEEeCCCccccCCcCchHHHHHHHHhCCceEEEEc-----------CC-----------------CHHHHHHHHcCC
Confidence 45678899999999999999999999999988887532 10 111122222111
Q ss_pred cCCCCCCCCCcccccCCCCCCCCCCcCCCCCceEEEEEEcccccceecccCchhHHHHHhccCceEEEe
Q 005758 160 SDGGGGFYGEEEEEYGGGGGVGGGGFRGGGNRVATRMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRIL 228 (678)
Q Consensus 160 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~vp~~~~g~iIGk~G~~I~~I~~~tg~~I~i~ 228 (678)
.....-.. .+ ......+.+.|+....+.+|||+|.+++.++.-++-.+.|.
T Consensus 85 a~V~~v~I--~~----------------~~~~~~~~V~V~~~d~g~aIGK~G~ni~la~~L~~~~~di~ 135 (140)
T PRK08406 85 AAVRSVTI--KK----------------KNGDKVAYVEVAPEDKGIAIGKNGKNIERAKDLAKRHFDID 135 (140)
T ss_pred CEEEEEEE--Ee----------------cCCcEEEEEEECccccchhhCCCCHHHHHHHHHhCCccCCe
Confidence 10000000 00 01234667789999999999999999999999998877663
No 43
>TIGR02696 pppGpp_PNP guanosine pentaphosphate synthetase I/polynucleotide phosphorylase. Sohlberg, et al. present characterization of two proteins from Streptomyces coelicolor. The protein in this family was shown to have poly(A) polymerase activity and may be responsible for polyadenylating RNA in this species. Reference 2 showed that a nearly identical plasmid-encoded protein from Streptomyces antibioticus is a bifunctional enzyme that acts also as a guanosine pentaphosphate synthetase.
Probab=97.43 E-value=0.00033 Score=80.19 Aligned_cols=94 Identities=22% Similarity=0.274 Sum_probs=72.8
Q ss_pred CchHHHHHHHHHHHhhccCCCCCCCCCcccccCCCCCCCCCCcCCCCCceEEEEEEcccccceecccCchhHHHHHhccC
Q 005758 143 FSPAQEALFLIHDRILESDGGGGFYGEEEEEYGGGGGVGGGGFRGGGNRVATRMVVSRMHVGCLLGKGGKIIEQMRMETK 222 (678)
Q Consensus 143 ~~~~~~a~~~i~~~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~vp~~~~g~iIGk~G~~I~~I~~~tg 222 (678)
+..+.++...|++.+.+.-... .+-..| ......+.||.+.++.|||++|++||.|.++||
T Consensus 548 L~~A~~g~~~Il~~m~~al~~p----~~~s~~---------------aP~~~~~~I~~~ki~~vIG~gGk~I~~i~~~tg 608 (719)
T TIGR02696 548 LKQARDARLAILDVMAEAIDTP----DEMSPY---------------APRIITVKIPVDKIGEVIGPKGKMINQIQDETG 608 (719)
T ss_pred HHHHHHHHHHHHHHHHHHHhCc----cccccC---------------CCeeEEEEeChHHhhheeCCCcHhHHHHHHHHC
Confidence 4556666677777765543211 111223 346788999999999999999999999999999
Q ss_pred ceEEEecCCCCCCCccCCCCceeeccCC-HHHHHHHHHHHHHHHhc
Q 005758 223 TQIRILPRDHSLPRCVSMSEEIVQVVGD-INNVKNAVAIISSRLRE 267 (678)
Q Consensus 223 ~~I~i~~~~~~~p~~~~~~~~~V~I~G~-~~~v~~A~~~I~~~~~e 267 (678)
++|.|. .+..|.|.+. .+++++|+.+|..++..
T Consensus 609 ~~Idi~------------d~G~V~I~a~d~~~~~~A~~~I~~i~~~ 642 (719)
T TIGR02696 609 AEISIE------------DDGTVYIGAADGPSAEAARAMINAIANP 642 (719)
T ss_pred CEEEEe------------cCcEEEEEeCCHHHHHHHHHHHHHhhCc
Confidence 999995 2577999986 89999999999999975
No 44
>TIGR02696 pppGpp_PNP guanosine pentaphosphate synthetase I/polynucleotide phosphorylase. Sohlberg, et al. present characterization of two proteins from Streptomyces coelicolor. The protein in this family was shown to have poly(A) polymerase activity and may be responsible for polyadenylating RNA in this species. Reference 2 showed that a nearly identical plasmid-encoded protein from Streptomyces antibioticus is a bifunctional enzyme that acts also as a guanosine pentaphosphate synthetase.
Probab=97.38 E-value=0.00032 Score=80.29 Aligned_cols=64 Identities=14% Similarity=0.306 Sum_probs=57.2
Q ss_pred cEEEEEecCCCcCeeecCCCchHHHHHHHcCCeEEEecCCCCCceeEEEEEcC-HHHHHHHHHHHHHHHhc
Q 005758 604 STLEVVLPDYAVPKLITKSKTLLTRFSEMSGASVSLVEGQPEGTQKIIQISGT-PEQVERAQSVLQGFILS 673 (678)
Q Consensus 604 ~t~~v~VP~~~vg~IIGkgG~~I~~Ir~~sGA~I~i~~~~~~~~~r~I~IsGt-~eqv~~Ak~lI~~~i~~ 673 (678)
...++.||.++++.|||.||.+|++|.++|||+|+|.+ +..|.|.+. .++.++|+.+|+.++..
T Consensus 578 ~~~~~~I~~~ki~~vIG~gGk~I~~i~~~tg~~Idi~d------~G~V~I~a~d~~~~~~A~~~I~~i~~~ 642 (719)
T TIGR02696 578 RIITVKIPVDKIGEVIGPKGKMINQIQDETGAEISIED------DGTVYIGAADGPSAEAARAMINAIANP 642 (719)
T ss_pred eeEEEEeChHHhhheeCCCcHhHHHHHHHHCCEEEEec------CcEEEEEeCCHHHHHHHHHHHHHhhCc
Confidence 46899999999999999999999999999999999954 247888885 99999999999998874
No 45
>TIGR03591 polynuc_phos polyribonucleotide nucleotidyltransferase. Members of this protein family are polyribonucleotide nucleotidyltransferase, also called polynucleotide phosphorylase. Some members have been shown also to have additional functions as guanosine pentaphosphate synthetase and as poly(A) polymerase (see model TIGR02696 for an exception clade, within this family).
Probab=97.09 E-value=0.00079 Score=78.41 Aligned_cols=65 Identities=20% Similarity=0.326 Sum_probs=56.6
Q ss_pred ceEEEEEEcccccceecccCchhHHHHHhccCceEEEecCCCCCCCccCCCCceeeccCC-HHHHHHHHHHHHHHHhc
Q 005758 191 RVATRMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRILPRDHSLPRCVSMSEEIVQVVGD-INNVKNAVAIISSRLRE 267 (678)
Q Consensus 191 ~~~~~l~vp~~~~g~iIGk~G~~I~~I~~~tg~~I~i~~~~~~~p~~~~~~~~~V~I~G~-~~~v~~A~~~I~~~~~e 267 (678)
.....+.||...++.|||++|++||+|+++|||+|.|.. +..|.|.+. .+.+.+|+.+|..+..+
T Consensus 550 p~~~~~~I~~~kI~~vIG~gGk~Ik~I~~~tg~~I~i~d------------dG~V~i~~~~~~~~~~a~~~I~~~~~~ 615 (684)
T TIGR03591 550 PRIETIKINPDKIRDVIGPGGKVIREITEETGAKIDIED------------DGTVKIAASDGEAAEAAIKMIEGITAE 615 (684)
T ss_pred CeEEEEecCHHHHHhhcCCCcHHHHHHHHHHCCEEEEec------------CeEEEEEECcHHHHHHHHHHHHhhhcc
Confidence 467889999999999999999999999999999999952 566777775 88999999999988754
No 46
>TIGR01952 nusA_arch NusA family KH domain protein, archaeal. This model represents a family of archaeal proteins found in a single copy per genome. It contains two KH domains (pfam00013) and is most closely related to the central region bacterial NusA, a transcription termination factor named for its iteraction with phage lambda protein N in E. coli. The proteins required for antitermination by N include NusA, NusB, nusE (ribosomal protein S10), and nusG. This system, on the whole, appears not to be present in the Archaea.
Probab=96.99 E-value=0.0023 Score=58.93 Aligned_cols=103 Identities=20% Similarity=0.267 Sum_probs=67.9
Q ss_pred EEEEEeeCceeceecccCchhHHhHHhHhCCEEEEccCCCCCCccEEEEecCCCCCCCCCCCCCchHHHHHHHHHHHhhc
Q 005758 80 TYRILCHDMKAGGVIGKSGSIIKSIRQHTGAWINVHELIPGDEERIIEISDTRRRDPEGRMPSFSPAQEALFLIHDRILE 159 (678)
Q Consensus 80 ~~~ilip~~~~g~IIGk~G~~Ik~i~~~tga~I~v~~~~~~~~ervv~i~G~~~~~~~~~~~~~~~~~~a~~~i~~~i~e 159 (678)
.+=+++....+|..||++|++|+.|++..|=+|.|-+-. ++ -...|...+.-
T Consensus 34 riifvV~~g~vG~~IG~~G~rIk~i~el~gekIdVVeys---~D-------------------------~~~fI~N~l~P 85 (141)
T TIGR01952 34 RVVFVVKEGEMGAAIGKGGENVKRLEELIGKSIELIEYS---EN-------------------------LEEFVANKLAP 85 (141)
T ss_pred EEEEEEcCCCccccCCCCchHHHHHHHhcCCeeEEEEcC---CC-------------------------HHHHHHHcCCC
Confidence 555688888999999999999999999899888885420 00 00111111100
Q ss_pred cCCCCCCCCCcccccCCCCCCCCCCcCCCCCceEEEEEEcccccceecccCchhHHHHHhccCceEEEe
Q 005758 160 SDGGGGFYGEEEEEYGGGGGVGGGGFRGGGNRVATRMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRIL 228 (678)
Q Consensus 160 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~vp~~~~g~iIGk~G~~I~~I~~~tg~~I~i~ 228 (678)
+.. ... ... + ........+.||....+..|||+|.+++...+-++-++.|.
T Consensus 86 A~V-~~V---~i~-------------~-~~~~~~a~V~V~~~d~~~AIGk~G~Ni~la~~l~~~~~dI~ 136 (141)
T TIGR01952 86 AEV-KNV---TVS-------------E-FNGKKVAYVEVHPRDKGIAIGKGGKNIERAKELAKRHHDID 136 (141)
T ss_pred ceE-EEE---EEE-------------c-CCCCEEEEEEEChhhhhhhhCCCchhHHHHHHHhcCccCCe
Confidence 000 000 000 0 01234677889999999999999999999999998877664
No 47
>TIGR03591 polynuc_phos polyribonucleotide nucleotidyltransferase. Members of this protein family are polyribonucleotide nucleotidyltransferase, also called polynucleotide phosphorylase. Some members have been shown also to have additional functions as guanosine pentaphosphate synthetase and as poly(A) polymerase (see model TIGR02696 for an exception clade, within this family).
Probab=96.87 E-value=0.0016 Score=75.95 Aligned_cols=64 Identities=14% Similarity=0.291 Sum_probs=54.9
Q ss_pred cEEEEEecCCCcCeeecCCCchHHHHHHHcCCeEEEecCCCCCceeEEEEEc-CHHHHHHHHHHHHHHHhc
Q 005758 604 STLEVVLPDYAVPKLITKSKTLLTRFSEMSGASVSLVEGQPEGTQKIIQISG-TPEQVERAQSVLQGFILS 673 (678)
Q Consensus 604 ~t~~v~VP~~~vg~IIGkgG~~I~~Ir~~sGA~I~i~~~~~~~~~r~I~IsG-t~eqv~~Ak~lI~~~i~~ 673 (678)
...++.||.++++.|||+||.+|++|.++|||+|+|.+ +..|.|.+ ..+.+++|+.+|..+...
T Consensus 551 ~~~~~~I~~~kI~~vIG~gGk~Ik~I~~~tg~~I~i~d------dG~V~i~~~~~~~~~~a~~~I~~~~~~ 615 (684)
T TIGR03591 551 RIETIKINPDKIRDVIGPGGKVIREITEETGAKIDIED------DGTVKIAASDGEAAEAAIKMIEGITAE 615 (684)
T ss_pred eEEEEecCHHHHHhhcCCCcHHHHHHHHHHCCEEEEec------CeEEEEEECcHHHHHHHHHHHHhhhcc
Confidence 46899999999999999999999999999999999953 23455555 589999999999988653
No 48
>TIGR01952 nusA_arch NusA family KH domain protein, archaeal. This model represents a family of archaeal proteins found in a single copy per genome. It contains two KH domains (pfam00013) and is most closely related to the central region bacterial NusA, a transcription termination factor named for its iteraction with phage lambda protein N in E. coli. The proteins required for antitermination by N include NusA, NusB, nusE (ribosomal protein S10), and nusG. This system, on the whole, appears not to be present in the Archaea.
Probab=96.71 E-value=0.0038 Score=57.44 Aligned_cols=100 Identities=13% Similarity=0.196 Sum_probs=68.9
Q ss_pred EEEEEeeccccceEEeCCchHHHHHHHHhCCeEEEeCCCCCCCCcEEEEecCCCCCCcchHHHHHHHHHHHHhhcc-CCC
Q 005758 349 VFRMLCPIDKVGRVIGESEGIVELLQNEIGVDLKVADPVDGSDEQIITISSEEGPDDELFPAQEALLHIQTRIVDL-GAD 427 (678)
Q Consensus 349 ~~~i~vp~~~vg~IIG~~G~~I~~I~~~tg~~I~i~~~~~~~~er~v~I~G~~g~~~~~~~a~~~i~~i~~~i~~~-~~~ 427 (678)
..-|.|....+|..||++|++|+.|++..|=+|.+-.-..+ -.-.| ..++.- .++... ..+
T Consensus 34 riifvV~~g~vG~~IG~~G~rIk~i~el~gekIdVVeys~D---~~~fI-------------~N~l~P--A~V~~V~i~~ 95 (141)
T TIGR01952 34 RVVFVVKEGEMGAAIGKGGENVKRLEELIGKSIELIEYSEN---LEEFV-------------ANKLAP--AEVKNVTVSE 95 (141)
T ss_pred EEEEEEcCCCccccCCCCchHHHHHHHhcCCeeEEEEcCCC---HHHHH-------------HHcCCC--ceEEEEEEEc
Confidence 78889999999999999999999999989988887431100 00000 000000 000010 001
Q ss_pred CCCceEEEEeecCCcceeeecCCch-hHHHHhhcCCeEEE
Q 005758 428 KDNIITTRLLVPSSEIGCLEGRDGS-LSEMRRSTGANIQI 466 (678)
Q Consensus 428 ~~~~~~~~l~VP~~~~g~iIGkgG~-Ik~I~~~tga~I~v 466 (678)
.+......+.||.+..+..|||+|. |+-..+.++-++.+
T Consensus 96 ~~~~~~a~V~V~~~d~~~AIGk~G~Ni~la~~l~~~~~dI 135 (141)
T TIGR01952 96 FNGKKVAYVEVHPRDKGIAIGKGGKNIERAKELAKRHHDI 135 (141)
T ss_pred CCCCEEEEEEEChhhhhhhhCCCchhHHHHHHHhcCccCC
Confidence 2334567788999999999999999 99999999988877
No 49
>KOG1588 consensus RNA-binding protein Sam68 and related KH domain proteins [RNA processing and modification]
Probab=96.64 E-value=0.0058 Score=61.03 Aligned_cols=81 Identities=20% Similarity=0.270 Sum_probs=57.7
Q ss_pred CCCceEEEEEEcc------cccceecccCchhHHHHHhccCceEEEecCCCC-----------CCCccCCCCc---eeec
Q 005758 188 GGNRVATRMVVSR------MHVGCLLGKGGKIIEQMRMETKTQIRILPRDHS-----------LPRCVSMSEE---IVQV 247 (678)
Q Consensus 188 ~~~~~~~~l~vp~------~~~g~iIGk~G~~I~~I~~~tg~~I~i~~~~~~-----------~p~~~~~~~~---~V~I 247 (678)
....++.+++||- ++||.|+|+.|.++|+|+++|+|+|.|..+..+ -|.++...+. .|..
T Consensus 88 ~~vk~~~Kv~vPv~~yP~fNFVGRILGPrGnSlkrLe~eTgCki~IrGrgSmrD~~KEE~lR~~p~yeHL~epLHVlIe~ 167 (259)
T KOG1588|consen 88 KPVKLTEKVLVPVKEYPKFNFVGRILGPRGNSLKRLEEETGCKIMIRGRGSMRDKAKEEELRGDPGYEHLNEPLHVLIET 167 (259)
T ss_pred CceeEEEEEEeccCCCCCCccccccccCCcchHHHHHHHHCCeEEEecCCcccchHHHHHhhcCcchHHhCCCcEEEEEE
Confidence 3566788899984 589999999999999999999999999765433 1222222333 3666
Q ss_pred cCCHHH----HHHHHHHHHHHHhcc
Q 005758 248 VGDINN----VKNAVAIISSRLRES 268 (678)
Q Consensus 248 ~G~~~~----v~~A~~~I~~~~~e~ 268 (678)
.+++.- +..|+..|.++|...
T Consensus 168 ~~p~~ea~~rl~~AleeI~klL~P~ 192 (259)
T KOG1588|consen 168 EAPPAEAYARLAYALEEIKKLLVPD 192 (259)
T ss_pred eCCHHHHHHHHHHHHHHHHHhcCCC
Confidence 676533 346888888887654
No 50
>PLN00207 polyribonucleotide nucleotidyltransferase; Provisional
Probab=96.58 E-value=0.0024 Score=75.02 Aligned_cols=95 Identities=20% Similarity=0.264 Sum_probs=71.7
Q ss_pred CchHHHHHHHHHHHhhccCCCCCCCCCcccccCCCCCCCCCCcCCCCCceEEEEEEcccccceecccCchhHHHHHhccC
Q 005758 143 FSPAQEALFLIHDRILESDGGGGFYGEEEEEYGGGGGVGGGGFRGGGNRVATRMVVSRMHVGCLLGKGGKIIEQMRMETK 222 (678)
Q Consensus 143 ~~~~~~a~~~i~~~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~vp~~~~g~iIGk~G~~I~~I~~~tg 222 (678)
+..+.++...|++.+.+.....- .+-..| ......|.||.+.++.|||++|.+|+.|.++||
T Consensus 654 L~~A~~g~~~Il~~M~~~i~~pr---~~~s~~---------------aP~i~~~~i~~~ki~~vIG~GGktIk~I~eetg 715 (891)
T PLN00207 654 LLQAKDGRKHILAEMSKCSPPPS---KRLSKY---------------APLIHIMKVKPEKVNMIIGSGGKKVKSIIEETG 715 (891)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhh---hhhccc---------------CCeeEEEEcCHHHHHHHhcCCchhHHHHHHHHC
Confidence 44556666667777766433221 111223 346788999999999999999999999999999
Q ss_pred ce-EEEecCCCCCCCccCCCCceeeccCC-HHHHHHHHHHHHHHHhc
Q 005758 223 TQ-IRILPRDHSLPRCVSMSEEIVQVVGD-INNVKNAVAIISSRLRE 267 (678)
Q Consensus 223 ~~-I~i~~~~~~~p~~~~~~~~~V~I~G~-~~~v~~A~~~I~~~~~e 267 (678)
+. |.+. .+-.|.|.+. .+++++|+.+|..++.+
T Consensus 716 ~~~Idi~------------ddg~V~I~a~d~~~i~~A~~~I~~l~~~ 750 (891)
T PLN00207 716 VEAIDTQ------------DDGTVKITAKDLSSLEKSKAIISSLTMV 750 (891)
T ss_pred CCccCcC------------CCeeEEEEeCCHHHHHHHHHHHHHHhcC
Confidence 98 8884 2567888885 89999999999998864
No 51
>COG1185 Pnp Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) [Translation, ribosomal structure and biogenesis]
Probab=96.49 E-value=0.004 Score=69.96 Aligned_cols=97 Identities=22% Similarity=0.238 Sum_probs=75.3
Q ss_pred CCchHHHHHHHHHHHhhccCCCCCCCCCcccccCCCCCCCCCCcCCCCCceEEEEEEcccccceecccCchhHHHHHhcc
Q 005758 142 SFSPAQEALFLIHDRILESDGGGGFYGEEEEEYGGGGGVGGGGFRGGGNRVATRMVVSRMHVGCLLGKGGKIIEQMRMET 221 (678)
Q Consensus 142 ~~~~~~~a~~~i~~~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~vp~~~~g~iIGk~G~~I~~I~~~t 221 (678)
++.+|..|...|+..+.+...... .+-..|. .....+.|+...+.-+||++|++|++|.++|
T Consensus 520 AL~QAk~aRlhIL~~M~~ai~~pr---~els~~a---------------Pri~t~~i~~dKI~dvIG~gGk~I~~I~eet 581 (692)
T COG1185 520 ALEQAKGARLHILIVMNEAISEPR---KELSPYA---------------PRIETIKIDPDKIRDVIGPGGKTIKAITEET 581 (692)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhh---hhhhccC---------------CceEEEccCHHHHhhccCCcccchhhhhhhh
Confidence 355677777778888766543221 1222233 3567788999999999999999999999999
Q ss_pred CceEEEecCCCCCCCccCCCCceeeccCC-HHHHHHHHHHHHHHHhcc
Q 005758 222 KTQIRILPRDHSLPRCVSMSEEIVQVVGD-INNVKNAVAIISSRLRES 268 (678)
Q Consensus 222 g~~I~i~~~~~~~p~~~~~~~~~V~I~G~-~~~v~~A~~~I~~~~~e~ 268 (678)
|++|.|. .+..|.|.+. .+.+.+|+..|..++++.
T Consensus 582 g~~Idie------------ddGtv~i~~s~~~~~~~ak~~I~~i~~e~ 617 (692)
T COG1185 582 GVKIDIE------------DDGTVKIAASDGESAKKAKERIEAITREV 617 (692)
T ss_pred CcEEEec------------CCCcEEEEecchHHHHHHHHHHHHHHhhc
Confidence 9999995 2567899998 588999999999999774
No 52
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=96.36 E-value=0.0085 Score=64.36 Aligned_cols=61 Identities=21% Similarity=0.299 Sum_probs=49.2
Q ss_pred CCcCeeecCCCchHHHHHHHcCCeEEEecC---------------CCCCcee-EEEEEcC-HHHHHHHHHHHHHHHhc
Q 005758 613 YAVPKLITKSKTLLTRFSEMSGASVSLVEG---------------QPEGTQK-IIQISGT-PEQVERAQSVLQGFILS 673 (678)
Q Consensus 613 ~~vg~IIGkgG~~I~~Ir~~sGA~I~i~~~---------------~~~~~~r-~I~IsGt-~eqv~~Ak~lI~~~i~~ 673 (678)
++||.|||-.|.+.++|+++|||+|.|--- .+...+. -+.|+.+ .|.|++|..+|+.+|.+
T Consensus 153 NFvGLiiGPRG~TqK~lE~etgAKI~IRGkgSvkEgk~~~~d~~~~~~~~epLH~~Isadt~eki~~Ai~vienli~~ 230 (554)
T KOG0119|consen 153 NFVGLIIGPRGNTQKRLERETGAKIAIRGKGSVKEGKGRSDDLSYIPKENEPLHCLISADTQEKIKKAIAVIENLIQS 230 (554)
T ss_pred ceeEEEecCCccHHHHHHHHhCCeEEEeccccccccccCCcccccccccccceeEEEecchHHHHHHHHHHHHHHHHh
Confidence 789999999999999999999999999731 0112222 3777775 89999999999999975
No 53
>KOG1588 consensus RNA-binding protein Sam68 and related KH domain proteins [RNA processing and modification]
Probab=96.34 E-value=0.0047 Score=61.66 Aligned_cols=45 Identities=22% Similarity=0.303 Sum_probs=39.8
Q ss_pred CCCCCCccEEEEEEeeCc------eeceecccCchhHHhHHhHhCCEEEEc
Q 005758 71 KDPSLMVTTTYRILCHDM------KAGGVIGKSGSIIKSIRQHTGAWINVH 115 (678)
Q Consensus 71 ~~~~~~~~~~~~ilip~~------~~g~IIGk~G~~Ik~i~~~tga~I~v~ 115 (678)
..+.....++.+|+||.+ +||.|+|..|.++|+|+++|+|+|.|-
T Consensus 84 ~~~~~~vk~~~Kv~vPv~~yP~fNFVGRILGPrGnSlkrLe~eTgCki~Ir 134 (259)
T KOG1588|consen 84 VYSGKPVKLTEKVLVPVKEYPKFNFVGRILGPRGNSLKRLEEETGCKIMIR 134 (259)
T ss_pred CccCCceeEEEEEEeccCCCCCCccccccccCCcchHHHHHHHHCCeEEEe
Confidence 445567788999999985 799999999999999999999999994
No 54
>KOG2814 consensus Transcription coactivator complex, P50 component (LigT RNA ligase/phosphodiesterase family) [Transcription]
Probab=96.31 E-value=0.0043 Score=63.62 Aligned_cols=70 Identities=24% Similarity=0.399 Sum_probs=58.0
Q ss_pred ceEEEEEEcccccceecccCchhHHHHHhccCceEEEecCCCCCCCccCCCCceeeccC-CHHHHHHHHHHHHHHHhcc
Q 005758 191 RVATRMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRILPRDHSLPRCVSMSEEIVQVVG-DINNVKNAVAIISSRLRES 268 (678)
Q Consensus 191 ~~~~~l~vp~~~~g~iIGk~G~~I~~I~~~tg~~I~i~~~~~~~p~~~~~~~~~V~I~G-~~~~v~~A~~~I~~~~~e~ 268 (678)
.....+.|++.+.++|||++|.+.++|+++|.|+|.++.+ + .....|.|.| ..++|.+|...|..++.+.
T Consensus 56 ~~~~si~v~s~~~~~lig~~g~trkkle~Etq~~i~lp~p-----~---~n~~~i~i~~~~~~~V~~a~~Ri~~~ids~ 126 (345)
T KOG2814|consen 56 DFSSSILVRSSFIGWLIGKQGKTRKKLEEETQTNIFLPRP-----N---TNKEEIKIIGISRNCVIQALERIAKLIDSD 126 (345)
T ss_pred cchhhhhhhHHHhhhhhcccchHHHHHHHhhccceEccCC-----C---CCcceEEEeehhHHHHHHHHHHHHHHHHhh
Confidence 4566788999999999999999999999999999999853 2 2344455555 5899999999999999775
No 55
>PF14611 SLS: Mitochondrial inner-membrane-bound regulator
Probab=96.29 E-value=0.15 Score=50.76 Aligned_cols=85 Identities=16% Similarity=0.216 Sum_probs=62.9
Q ss_pred HHHHHHHHHhhccCC--CCCCceEEEEeecCCcceeeecCCch-hHHHHhhcCCeEEEeccCCCCCCCCCCCeEEEEEec
Q 005758 412 EALLHIQTRIVDLGA--DKDNIITTRLLVPSSEIGCLEGRDGS-LSEMRRSTGANIQILSREEVPACVSGTDELVQIVGE 488 (678)
Q Consensus 412 ~~i~~i~~~i~~~~~--~~~~~~~~~l~VP~~~~g~iIGkgG~-Ik~I~~~tga~I~v~~~~~~p~~~~~~~~~V~I~G~ 488 (678)
..+.+|+..+..+.- ..+..-.+.+.++....-.|...+|. +++|....||+|.+.. .+..|.|+|+
T Consensus 4 ~l~~~Il~d~W~l~v~e~v~~~g~l~v~l~~~~~~LLl~~~~~~L~~l~~~~~~~I~~~~----------~~~~i~I~g~ 73 (210)
T PF14611_consen 4 KLAERILRDCWNLEVSEEVDELGDLDVWLQPDEFFLLLTGNGRILENLAARNGAKIEVSR----------SENRIRITGT 73 (210)
T ss_pred HHHHHHHHHhcCCcccceeeccceeEEEecchheeeeecCCchHHHHHHHhcCceEEEec----------CCcEEEEEcc
Confidence 344566666655422 12223445566678888999999999 9999888999999954 4557999999
Q ss_pred HHHHHHHHHHHHHHHHhh
Q 005758 489 IQAARDALVEVTTRLRSY 506 (678)
Q Consensus 489 ~~~v~~A~~~I~~~l~~~ 506 (678)
...++.+...|.+.+...
T Consensus 74 k~~~~~i~~~i~~~l~~i 91 (210)
T PF14611_consen 74 KSTAEYIEASINEILSNI 91 (210)
T ss_pred HHHHHHHHHHHHHHHhhc
Confidence 999999988888888653
No 56
>cd02134 NusA_KH NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of ribosomal rrn operons. During transcription of many other genes, NusA-induced RNAP pausing provides a mechanism for synchronizing transcription and translation . The N-terminal RNAP-binding domain (NTD) is connected through a flexible hinge helix to three globular domains, S1, KH1 and KH2. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices.
Probab=96.18 E-value=0.0078 Score=47.18 Aligned_cols=36 Identities=22% Similarity=0.285 Sum_probs=34.0
Q ss_pred cEEEEEecCCCcCeeecCCCchHHHHHHHcCCeEEE
Q 005758 604 STLEVVLPDYAVPKLITKSKTLLTRFSEMSGASVSL 639 (678)
Q Consensus 604 ~t~~v~VP~~~vg~IIGkgG~~I~~Ir~~sGA~I~i 639 (678)
....+.||.+..+.+|||+|.||+.+++.+|-+|+|
T Consensus 25 ~~~~v~V~~~~~~~aIGk~G~nI~~~~~l~~~~I~v 60 (61)
T cd02134 25 KRARVVVPDDQLGLAIGKGGQNVRLASKLLGEKIDI 60 (61)
T ss_pred cEEEEEECcccceeeECCCCHHHHHHHHHHCCCeEE
Confidence 578999999999999999999999999999988886
No 57
>TIGR03319 YmdA_YtgF conserved hypothetical protein YmdA/YtgF.
Probab=96.15 E-value=0.013 Score=66.13 Aligned_cols=67 Identities=18% Similarity=0.301 Sum_probs=58.1
Q ss_pred ccEEEEEecC-CCcCeeecCCCchHHHHHHHcCCeEEEecCCCCCceeEEEEEc-CHHHHHHHHHHHHHHHhcc
Q 005758 603 RSTLEVVLPD-YAVPKLITKSKTLLTRFSEMSGASVSLVEGQPEGTQKIIQISG-TPEQVERAQSVLQGFILST 674 (678)
Q Consensus 603 ~~t~~v~VP~-~~vg~IIGkgG~~I~~Ir~~sGA~I~i~~~~~~~~~r~I~IsG-t~eqv~~Ak~lI~~~i~~~ 674 (678)
.++..|.+|+ ++-|.||||.|.||+.+...||+.|-|++. ...|+||| +|---+-|+..|+.+|..+
T Consensus 203 ~~~~~v~lp~d~~kgriigreGrnir~~e~~tgvd~iiddt-----p~~v~ls~fdp~rreia~~~l~~li~dg 271 (514)
T TIGR03319 203 TTVSVVNLPNDEMKGRIIGREGRNIRALETLTGVDLIIDDT-----PEAVILSGFDPVRREIARMALEKLIQDG 271 (514)
T ss_pred heeeeEEcCChhhhccccCCCcchHHHHHHHhCceEEEcCC-----CCeEEecCCchHHHHHHHHHHHHHHHcC
Confidence 5677889999 699999999999999999999999999643 23788999 7988899999999888754
No 58
>PRK00106 hypothetical protein; Provisional
Probab=96.15 E-value=0.014 Score=65.45 Aligned_cols=67 Identities=21% Similarity=0.368 Sum_probs=58.3
Q ss_pred ccEEEEEecC-CCcCeeecCCCchHHHHHHHcCCeEEEecCCCCCceeEEEEEc-CHHHHHHHHHHHHHHHhcc
Q 005758 603 RSTLEVVLPD-YAVPKLITKSKTLLTRFSEMSGASVSLVEGQPEGTQKIIQISG-TPEQVERAQSVLQGFILST 674 (678)
Q Consensus 603 ~~t~~v~VP~-~~vg~IIGkgG~~I~~Ir~~sGA~I~i~~~~~~~~~r~I~IsG-t~eqv~~Ak~lI~~~i~~~ 674 (678)
.++..|.+|+ ++-|.||||.|.||+.+...||+.|-|++.+ ..|+||| +|---+-|+..|+.+|..+
T Consensus 224 ~tvs~v~lp~demkGriIGreGrNir~~E~~tGvdliiddtp-----~~v~lS~fdpvRReiAr~~le~Li~dg 292 (535)
T PRK00106 224 QTITTVHLPDDNMKGRIIGREGRNIRTLESLTGIDVIIDDTP-----EVVVLSGFDPIRREIARMTLESLIKDG 292 (535)
T ss_pred heeeeEEcCChHhhcceeCCCcchHHHHHHHhCceEEEcCCC-----CeEEEeCCChHHHHHHHHHHHHHHHcC
Confidence 4677889999 6999999999999999999999999996432 3788999 7999999999999888754
No 59
>PLN00207 polyribonucleotide nucleotidyltransferase; Provisional
Probab=96.11 E-value=0.0076 Score=70.89 Aligned_cols=88 Identities=16% Similarity=0.260 Sum_probs=64.3
Q ss_pred chHHHHHHHHHHHHhhccCC------CCCCceEEEEeecCCcceeeecCCch-hHHHHhhcCCe-EEEeccCCCCCCCCC
Q 005758 407 LFPAQEALLHIQTRIVDLGA------DKDNIITTRLLVPSSEIGCLEGRDGS-LSEMRRSTGAN-IQILSREEVPACVSG 478 (678)
Q Consensus 407 ~~~a~~~i~~i~~~i~~~~~------~~~~~~~~~l~VP~~~~g~iIGkgG~-Ik~I~~~tga~-I~v~~~~~~p~~~~~ 478 (678)
+..|.++..++.+.+.+... .........|.||.+.++.|||.||. ||+|.++||+. |.+.
T Consensus 654 L~~A~~g~~~Il~~M~~~i~~pr~~~s~~aP~i~~~~i~~~ki~~vIG~GGktIk~I~eetg~~~Idi~----------- 722 (891)
T PLN00207 654 LLQAKDGRKHILAEMSKCSPPPSKRLSKYAPLIHIMKVKPEKVNMIIGSGGKKVKSIIEETGVEAIDTQ----------- 722 (891)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhcccCCeeEEEEcCHHHHHHHhcCCchhHHHHHHHHCCCccCcC-----------
Confidence 34455555555544433211 22346778899999999999999999 99999999999 8872
Q ss_pred CCeEEEEEe-cHHHHHHHHHHHHHHHHh
Q 005758 479 TDELVQIVG-EIQAARDALVEVTTRLRS 505 (678)
Q Consensus 479 ~~~~V~I~G-~~~~v~~A~~~I~~~l~~ 505 (678)
++..|.|.+ ..+.+++|+.+|..++.+
T Consensus 723 ddg~V~I~a~d~~~i~~A~~~I~~l~~~ 750 (891)
T PLN00207 723 DDGTVKITAKDLSSLEKSKAIISSLTMV 750 (891)
T ss_pred CCeeEEEEeCCHHHHHHHHHHHHHHhcC
Confidence 355788887 678889998888877653
No 60
>COG0195 NusA Transcription elongation factor [Transcription]
Probab=95.95 E-value=0.01 Score=57.44 Aligned_cols=100 Identities=23% Similarity=0.345 Sum_probs=67.9
Q ss_pred EEEEEeeccccceEEeCCchHHHHHHHHhCCeEEEeCCCCCCCCcEEEEecCCCCCCcchHHHHHHHHHHHHhhcc-CCC
Q 005758 349 VFRMLCPIDKVGRVIGESEGIVELLQNEIGVDLKVADPVDGSDEQIITISSEEGPDDELFPAQEALLHIQTRIVDL-GAD 427 (678)
Q Consensus 349 ~~~i~vp~~~vg~IIG~~G~~I~~I~~~tg~~I~i~~~~~~~~er~v~I~G~~g~~~~~~~a~~~i~~i~~~i~~~-~~~ 427 (678)
...+.+-.+-+|..||++|++|+.|+++.|=+|.|-.-. .+...-+..++. -.++... ..+
T Consensus 77 v~~~~~~~d~vG~~iG~~G~rvk~i~~eLgekIdVVe~s----------------~d~~~fI~nal~--Pa~v~~V~~~~ 138 (190)
T COG0195 77 VVSNVVKIDPVGACIGKRGSRVKAVSEELGEKIDVVEWS----------------EDPAEFIKNALA--PAEVLSVNIKE 138 (190)
T ss_pred eEEeecCcCchhhhccCCChHHHHHHHHhCCceEEEEeC----------------CCHHHHHHHhcC--cceEeEEEEEe
Confidence 455666678899999999999999999999777763311 111111112111 0001110 001
Q ss_pred CCCceEEEEeecCCcceeeecCCch-hHHHHhhcCCeEEEe
Q 005758 428 KDNIITTRLLVPSSEIGCLEGRDGS-LSEMRRSTGANIQIL 467 (678)
Q Consensus 428 ~~~~~~~~l~VP~~~~g~iIGkgG~-Ik~I~~~tga~I~v~ 467 (678)
.+.. ...+.||.++.+..|||+|. ++-+.+.||-++.|.
T Consensus 139 ~d~~-~~~v~V~~~~~~~aIGk~G~Nvrla~~Ltg~~i~I~ 178 (190)
T COG0195 139 DDGH-VAIVVVPPDQLSLAIGKGGQNVRLASQLTGWEIDIE 178 (190)
T ss_pred CCCc-EEEEEECHHHHhhccCcccHHHHHHHHHhCCEEEEE
Confidence 1233 77888999999999999999 999999999999985
No 61
>COG0195 NusA Transcription elongation factor [Transcription]
Probab=95.92 E-value=0.026 Score=54.69 Aligned_cols=99 Identities=23% Similarity=0.284 Sum_probs=65.2
Q ss_pred EeeCceeceecccCchhHHhHHhHhCCEEEEccCCCCCCccEEEEecCCCCCCCCCCCCCchHHHHHHHHHHHhhccCCC
Q 005758 84 LCHDMKAGGVIGKSGSIIKSIRQHTGAWINVHELIPGDEERIIEISDTRRRDPEGRMPSFSPAQEALFLIHDRILESDGG 163 (678)
Q Consensus 84 lip~~~~g~IIGk~G~~Ik~i~~~tga~I~v~~~~~~~~ervv~i~G~~~~~~~~~~~~~~~~~~a~~~i~~~i~e~~~~ 163 (678)
..-...+|..||++|++|+.|.++.|=+|.|-+- +- +-...|...+.-.. -
T Consensus 81 ~~~~d~vG~~iG~~G~rvk~i~~eLgekIdVVe~-----------s~-----------------d~~~fI~nal~Pa~-v 131 (190)
T COG0195 81 VVKIDPVGACIGKRGSRVKAVSEELGEKIDVVEW-----------SE-----------------DPAEFIKNALAPAE-V 131 (190)
T ss_pred ecCcCchhhhccCCChHHHHHHHHhCCceEEEEe-----------CC-----------------CHHHHHHHhcCcce-E
Confidence 3444678999999999999999999977777432 10 01111111111000 0
Q ss_pred CCCCCCcccccCCCCCCCCCCcCCCCCceEEEEEEcccccceecccCchhHHHHHhccCceEEEec
Q 005758 164 GGFYGEEEEEYGGGGGVGGGGFRGGGNRVATRMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRILP 229 (678)
Q Consensus 164 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~vp~~~~g~iIGk~G~~I~~I~~~tg~~I~i~~ 229 (678)
.+..-.+ .+.....+.||....+..|||+|.+++.+.+-||-++.|..
T Consensus 132 ~~V~~~~------------------~d~~~~~v~V~~~~~~~aIGk~G~Nvrla~~Ltg~~i~I~~ 179 (190)
T COG0195 132 LSVNIKE------------------DDGHVAIVVVPPDQLSLAIGKGGQNVRLASQLTGWEIDIET 179 (190)
T ss_pred eEEEEEe------------------CCCcEEEEEECHHHHhhccCcccHHHHHHHHHhCCEEEEEe
Confidence 0000000 01126778899999999999999999999999999999963
No 62
>PRK12704 phosphodiesterase; Provisional
Probab=95.92 E-value=0.02 Score=64.63 Aligned_cols=66 Identities=17% Similarity=0.299 Sum_probs=56.1
Q ss_pred ccEEEEEecC-CCcCeeecCCCchHHHHHHHcCCeEEEecCCCCCceeEEEEEc-CHHHHHHHHHHHHHHHhc
Q 005758 603 RSTLEVVLPD-YAVPKLITKSKTLLTRFSEMSGASVSLVEGQPEGTQKIIQISG-TPEQVERAQSVLQGFILS 673 (678)
Q Consensus 603 ~~t~~v~VP~-~~vg~IIGkgG~~I~~Ir~~sGA~I~i~~~~~~~~~r~I~IsG-t~eqv~~Ak~lI~~~i~~ 673 (678)
.++..|.+|+ ++-|.||||.|.||+.+...||+.|-|++. ...|+||| +|---+-|+..|+.+|..
T Consensus 209 ~~~~~v~lp~d~mkgriigreGrnir~~e~~tgvd~iiddt-----p~~v~ls~~~~~rre~a~~~l~~l~~d 276 (520)
T PRK12704 209 TTVSVVNLPNDEMKGRIIGREGRNIRALETLTGVDLIIDDT-----PEAVILSGFDPIRREIARLALEKLVQD 276 (520)
T ss_pred hceeeeecCCchhhcceeCCCcchHHHHHHHhCCeEEEcCC-----CCeEEEecCChhhHHHHHHHHHHHHhc
Confidence 4667889999 699999999999999999999999999643 24799999 688878888888877754
No 63
>KOG2814 consensus Transcription coactivator complex, P50 component (LigT RNA ligase/phosphodiesterase family) [Transcription]
Probab=95.86 E-value=0.0095 Score=61.18 Aligned_cols=70 Identities=16% Similarity=0.116 Sum_probs=57.0
Q ss_pred ccEEEEEecCCCcCeeecCCCchHHHHHHHcCCeEEEecCCCCCceeEEEE-EcCHHHHHHHHHHHHHHHhcc
Q 005758 603 RSTLEVVLPDYAVPKLITKSKTLLTRFSEMSGASVSLVEGQPEGTQKIIQI-SGTPEQVERAQSVLQGFILST 674 (678)
Q Consensus 603 ~~t~~v~VP~~~vg~IIGkgG~~I~~Ir~~sGA~I~i~~~~~~~~~r~I~I-sGt~eqv~~Ak~lI~~~i~~~ 674 (678)
.....+.|++.+.+.|||+.|.+.+.|+++|+++|.+|.|. +....|+| -+..++|.+|...|.-+|.+.
T Consensus 56 ~~~~si~v~s~~~~~lig~~g~trkkle~Etq~~i~lp~p~--~n~~~i~i~~~~~~~V~~a~~Ri~~~ids~ 126 (345)
T KOG2814|consen 56 DFSSSILVRSSFIGWLIGKQGKTRKKLEEETQTNIFLPRPN--TNKEEIKIIGISRNCVIQALERIAKLIDSD 126 (345)
T ss_pred cchhhhhhhHHHhhhhhcccchHHHHHHHhhccceEccCCC--CCcceEEEeehhHHHHHHHHHHHHHHHHhh
Confidence 45677889999999999999999999999999999996554 33344444 456999999999998887653
No 64
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=95.79 E-value=0.011 Score=62.42 Aligned_cols=71 Identities=27% Similarity=0.365 Sum_probs=59.9
Q ss_pred CCCceEEEEEEcccccceecccCchhHHHHHhccCceEEEecCCCCCCCccCCCCceeeccCCHHHHHHHHHHHHHHHhc
Q 005758 188 GGNRVATRMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRILPRDHSLPRCVSMSEEIVQVVGDINNVKNAVAIISSRLRE 267 (678)
Q Consensus 188 ~~~~~~~~l~vp~~~~g~iIGk~G~~I~~I~~~tg~~I~i~~~~~~~p~~~~~~~~~V~I~G~~~~v~~A~~~I~~~~~e 267 (678)
......+.+.|.+++||.+||++|++|+.|+..|+++|+|..- ..+..|+|-|...--.+|+..|...+..
T Consensus 43 g~~e~plcf~iks~mvg~vigrggskik~iq~~tnt~iqii~~---------~~e~kv~ifg~~~m~~kaka~id~~~~k 113 (629)
T KOG0336|consen 43 GGGEFPLCFSIKSEMVGKVIGRGGSKIKRIQNDTNTRIQIIKC---------DLEVKVTIFGINHMRKKAKASIDRGQDK 113 (629)
T ss_pred CCCCCchhhhhhhhhhheeeccCcchhhhhhcccceeEEEecc---------CceeEEEEechHHHHHHHHhhHhhhhhh
Confidence 3456778889999999999999999999999999999999742 3467799999988778888888777655
No 65
>COG1185 Pnp Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) [Translation, ribosomal structure and biogenesis]
Probab=95.78 E-value=0.021 Score=64.36 Aligned_cols=68 Identities=19% Similarity=0.236 Sum_probs=58.1
Q ss_pred CceEEEEeecCCcceeeecCCch-hHHHHhhcCCeEEEeccCCCCCCCCCCCeEEEEEecH-HHHHHHHHHHHHHHHhhh
Q 005758 430 NIITTRLLVPSSEIGCLEGRDGS-LSEMRRSTGANIQILSREEVPACVSGTDELVQIVGEI-QAARDALVEVTTRLRSYL 507 (678)
Q Consensus 430 ~~~~~~l~VP~~~~g~iIGkgG~-Ik~I~~~tga~I~v~~~~~~p~~~~~~~~~V~I~G~~-~~v~~A~~~I~~~l~~~~ 507 (678)
..-...+.|+...+..+||++|. |++|.++|||.|++. .+..|.|.++. +.+.+|+..|..+.++..
T Consensus 550 aPri~t~~i~~dKI~dvIG~gGk~I~~I~eetg~~Idie-----------ddGtv~i~~s~~~~~~~ak~~I~~i~~e~e 618 (692)
T COG1185 550 APRIETIKIDPDKIRDVIGPGGKTIKAITEETGVKIDIE-----------DDGTVKIAASDGESAKKAKERIEAITREVE 618 (692)
T ss_pred CCceEEEccCHHHHhhccCCcccchhhhhhhhCcEEEec-----------CCCcEEEEecchHHHHHHHHHHHHHHhhcc
Confidence 34567788999999999999999 999999999999983 45578898887 778999999999887754
Q ss_pred h
Q 005758 508 Y 508 (678)
Q Consensus 508 ~ 508 (678)
.
T Consensus 619 v 619 (692)
T COG1185 619 V 619 (692)
T ss_pred c
Confidence 3
No 66
>cd02134 NusA_KH NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of ribosomal rrn operons. During transcription of many other genes, NusA-induced RNAP pausing provides a mechanism for synchronizing transcription and translation . The N-terminal RNAP-binding domain (NTD) is connected through a flexible hinge helix to three globular domains, S1, KH1 and KH2. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices.
Probab=95.55 E-value=0.017 Score=45.22 Aligned_cols=36 Identities=25% Similarity=0.391 Sum_probs=33.6
Q ss_pred EEEEEEeeCceeceecccCchhHHhHHhHhCCEEEE
Q 005758 79 TTYRILCHDMKAGGVIGKSGSIIKSIRQHTGAWINV 114 (678)
Q Consensus 79 ~~~~ilip~~~~g~IIGk~G~~Ik~i~~~tga~I~v 114 (678)
..+.+.++....|..|||+|.+|+.+++.++-+|.|
T Consensus 25 ~~~~v~V~~~~~~~aIGk~G~nI~~~~~l~~~~I~v 60 (61)
T cd02134 25 KRARVVVPDDQLGLAIGKGGQNVRLASKLLGEKIDI 60 (61)
T ss_pred cEEEEEECcccceeeECCCCHHHHHHHHHHCCCeEE
Confidence 678899999999999999999999999999988876
No 67
>PRK04163 exosome complex RNA-binding protein Rrp4; Provisional
Probab=95.29 E-value=0.032 Score=56.50 Aligned_cols=60 Identities=22% Similarity=0.297 Sum_probs=51.9
Q ss_pred EEEEecCCCcCeeecCCCchHHHHHHHcCCeEEEecCCCCCceeEEEEEcC-HHHHHHHHHHHHHHH
Q 005758 606 LEVVLPDYAVPKLITKSKTLLTRFSEMSGASVSLVEGQPEGTQKIIQISGT-PEQVERAQSVLQGFI 671 (678)
Q Consensus 606 ~~v~VP~~~vg~IIGkgG~~I~~Ir~~sGA~I~i~~~~~~~~~r~I~IsGt-~eqv~~Ak~lI~~~i 671 (678)
..+.||.++++.|||++|.+|+.|.+.+++.|.|.. +-.|.|+++ .+++++|+.+|+.+=
T Consensus 147 ~~~~V~~~~i~~lig~~g~~i~~l~~~~~~~I~ig~------NG~VwI~~~~~~~~~~a~~~I~~~e 207 (235)
T PRK04163 147 TIVEIKPVKVPRVIGKKGSMINMLKEETGCDIIVGQ------NGRIWIKGPDEEDEEIAIEAIKKIE 207 (235)
T ss_pred EEEEECHHHHHhhcCCCChhHhhhhhhhCcEEEEcC------CcEEEEeeCCHHHHHHHHHHHHHHH
Confidence 678899999999999999999999999999999943 246888887 669999999997653
No 68
>PRK11824 polynucleotide phosphorylase/polyadenylase; Provisional
Probab=95.11 E-value=0.021 Score=66.91 Aligned_cols=95 Identities=20% Similarity=0.242 Sum_probs=68.9
Q ss_pred CchHHHHHHHHHHHhhccCCCCCCCCCcccccCCCCCCCCCCcCCCCCceEEEEEEcccccceecccCchhHHHHHhccC
Q 005758 143 FSPAQEALFLIHDRILESDGGGGFYGEEEEEYGGGGGVGGGGFRGGGNRVATRMVVSRMHVGCLLGKGGKIIEQMRMETK 222 (678)
Q Consensus 143 ~~~~~~a~~~i~~~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~vp~~~~g~iIGk~G~~I~~I~~~tg 222 (678)
+..|.++...|++.+.+.....- .+-..+ ......+.||...++.+||++|.+|+.|.++||
T Consensus 523 l~~a~~g~~~I~~~M~~aI~~~r---~~~~~~---------------ap~~~~~~I~~~kI~~vIG~gg~~ik~I~~~~~ 584 (693)
T PRK11824 523 LEQAKEGRLHILGKMNEAISEPR---AELSPY---------------APRIETIKIPPDKIRDVIGPGGKTIREITEETG 584 (693)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCh---hhhccc---------------CchheeecCCHHHHHHHhcCCchhHHHHHHHHC
Confidence 34566677777777766533211 011111 234556778999999999999999999999999
Q ss_pred ceEEEecCCCCCCCccCCCCceeeccCC-HHHHHHHHHHHHHHHhc
Q 005758 223 TQIRILPRDHSLPRCVSMSEEIVQVVGD-INNVKNAVAIISSRLRE 267 (678)
Q Consensus 223 ~~I~i~~~~~~~p~~~~~~~~~V~I~G~-~~~v~~A~~~I~~~~~e 267 (678)
+.|.+. .+..|.|.+. .+++++|+..|..+..+
T Consensus 585 ~~idi~------------d~G~v~i~~~~~~~~~~a~~~I~~~~~~ 618 (693)
T PRK11824 585 AKIDIE------------DDGTVKIAATDGEAAEAAKERIEGITAE 618 (693)
T ss_pred CccccC------------CCceEEEEcccHHHHHHHHHHHHHhccc
Confidence 987773 2566888885 89999999999988854
No 69
>PRK04163 exosome complex RNA-binding protein Rrp4; Provisional
Probab=95.02 E-value=0.043 Score=55.55 Aligned_cols=64 Identities=22% Similarity=0.293 Sum_probs=55.5
Q ss_pred EEEEEcccccceecccCchhHHHHHhccCceEEEecCCCCCCCccCCCCceeeccCC-HHHHHHHHHHHHHHHhccc
Q 005758 194 TRMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRILPRDHSLPRCVSMSEEIVQVVGD-INNVKNAVAIISSRLRESQ 269 (678)
Q Consensus 194 ~~l~vp~~~~g~iIGk~G~~I~~I~~~tg~~I~i~~~~~~~p~~~~~~~~~V~I~G~-~~~v~~A~~~I~~~~~e~~ 269 (678)
+.+.||..+++.|||++|.+|+.|.++|+++|.|-. +..|.|.+. .+++..|+.+|..+-+++.
T Consensus 147 ~~~~V~~~~i~~lig~~g~~i~~l~~~~~~~I~ig~------------NG~VwI~~~~~~~~~~a~~~I~~~e~~~~ 211 (235)
T PRK04163 147 TIVEIKPVKVPRVIGKKGSMINMLKEETGCDIIVGQ------------NGRIWIKGPDEEDEEIAIEAIKKIEREAH 211 (235)
T ss_pred EEEEECHHHHHhhcCCCChhHhhhhhhhCcEEEEcC------------CcEEEEeeCCHHHHHHHHHHHHHHHhhhh
Confidence 568899999999999999999999999999999952 456899998 6789999999998877753
No 70
>TIGR01953 NusA transcription termination factor NusA. This model describes NusA, or N utilization substance protein A, a bacterial transcription termination factor. It binds to RNA polymerase alpha subunit and promotes termination at certain RNA hairpin structures. It is named for the interaction in E. coli of phage lambda antitermination protein N with the N-utilization substance, consisting of NusA, NusB, NusE (ribosomal protein S10), and nusG. This model represents a region of NusA shared in all bacterial forms, and including an S1 (pfam00575) and a KH (pfam00013) RNA binding domains. Proteobacterial forms have an additional C-terminal region, not included in this model, with two repeats of 50-residue domain rich in acidic amino acids.
Probab=94.96 E-value=0.082 Score=56.31 Aligned_cols=38 Identities=21% Similarity=0.274 Sum_probs=35.5
Q ss_pred eEEEEEEcccccceecccCchhHHHHHhccCceEEEec
Q 005758 192 VATRMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRILP 229 (678)
Q Consensus 192 ~~~~l~vp~~~~g~iIGk~G~~I~~I~~~tg~~I~i~~ 229 (678)
....+.||..+.+..|||+|.+++....-||.+|.|..
T Consensus 301 ~~~~v~V~~~~~~~aIGk~G~Nv~la~~l~g~~IdI~s 338 (341)
T TIGR01953 301 HSAEVVVPDDQLSLAIGKGGQNVRLASKLTGWNIDVKT 338 (341)
T ss_pred cEEEEEEChHHcchhhcCCChhHHHHHHHhCCEEEEEe
Confidence 37889999999999999999999999999999999975
No 71
>PRK12328 nusA transcription elongation factor NusA; Provisional
Probab=94.85 E-value=0.072 Score=56.77 Aligned_cols=39 Identities=18% Similarity=0.094 Sum_probs=36.1
Q ss_pred eEEEEEEcccccceecccCchhHHHHHhccCceEEEecC
Q 005758 192 VATRMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRILPR 230 (678)
Q Consensus 192 ~~~~l~vp~~~~g~iIGk~G~~I~~I~~~tg~~I~i~~~ 230 (678)
....+.||..+.+..|||+|.+++....-||.+|.|.+.
T Consensus 308 ~~~~V~V~~~qlslAIGk~GqNvrLA~~LtGwkIDI~s~ 346 (374)
T PRK12328 308 KKAIVTLLSDQKSKAIGKNGINIRLASMLTGYEIELNEI 346 (374)
T ss_pred cEEEEEEChHHhhhhhcCCChhHHHHHHHhCCEEEEEEC
Confidence 367889999999999999999999999999999999874
No 72
>COG5176 MSL5 Splicing factor (branch point binding protein) [RNA processing and modification]
Probab=94.65 E-value=0.051 Score=51.95 Aligned_cols=28 Identities=21% Similarity=0.247 Sum_probs=26.9
Q ss_pred CCcCeeecCCCchHHHHHHHcCCeEEEe
Q 005758 613 YAVPKLITKSKTLLTRFSEMSGASVSLV 640 (678)
Q Consensus 613 ~~vg~IIGkgG~~I~~Ir~~sGA~I~i~ 640 (678)
++||.|||..|+++++|++.|+|+|-|-
T Consensus 163 NFVGLliGPRG~Tlk~le~~s~akIaIR 190 (269)
T COG5176 163 NFVGLLIGPRGSTLKQLERISRAKIAIR 190 (269)
T ss_pred ceeEEEecCCcchHHHHHHHhCCeEEEe
Confidence 6899999999999999999999999995
No 73
>PRK12328 nusA transcription elongation factor NusA; Provisional
Probab=94.56 E-value=0.13 Score=54.77 Aligned_cols=97 Identities=18% Similarity=0.228 Sum_probs=64.0
Q ss_pred cccceEEeCCchHHHHHHHHh-CCeEEEeCCCCCCCCcEEEEecCCCCCCcchHHHHHHHHHHHHhhccCCCCCCceEEE
Q 005758 357 DKVGRVIGESEGIVELLQNEI-GVDLKVADPVDGSDEQIITISSEEGPDDELFPAQEALLHIQTRIVDLGADKDNIITTR 435 (678)
Q Consensus 357 ~~vg~IIG~~G~~I~~I~~~t-g~~I~i~~~~~~~~er~v~I~G~~g~~~~~~~a~~~i~~i~~~i~~~~~~~~~~~~~~ 435 (678)
+-+|..||.+|++|+.|.++. |=+|.|-.-.++ ....|. .++++| .+.....+ +..-...
T Consensus 251 DPvGacIG~~G~rI~~I~~eL~gEkIDvI~~s~D---~~~fI~------Nal~Pa---------~V~~V~i~-~~~~~~~ 311 (374)
T PRK12328 251 DPIGATVGVKGVRINAVSKELNGENIDCIEYSNV---PEIFIA------RALAPA---------IISSVKIE-EEEKKAI 311 (374)
T ss_pred ChHHhhcCCCcchHHHHHHHhCCCeEEEEEcCCC---HHHHHH------HhCCCc---------eeeEEEEc-CCCcEEE
Confidence 568999999999999998888 777776431111 000010 000000 00000001 2234678
Q ss_pred EeecCCcceeeecCCch-hHHHHhhcCCeEEEeccCCC
Q 005758 436 LLVPSSEIGCLEGRDGS-LSEMRRSTGANIQILSREEV 472 (678)
Q Consensus 436 l~VP~~~~g~iIGkgG~-Ik~I~~~tga~I~v~~~~~~ 472 (678)
+.||..+.+..|||+|. ++-..+.||.+|.|.+-+..
T Consensus 312 V~V~~~qlslAIGk~GqNvrLA~~LtGwkIDI~s~~~~ 349 (374)
T PRK12328 312 VTLLSDQKSKAIGKNGINIRLASMLTGYEIELNEIGSK 349 (374)
T ss_pred EEEChHHhhhhhcCCChhHHHHHHHhCCEEEEEECCCC
Confidence 89999999999999999 99999999999999875443
No 74
>PRK12327 nusA transcription elongation factor NusA; Provisional
Probab=94.54 E-value=0.11 Score=55.73 Aligned_cols=39 Identities=26% Similarity=0.259 Sum_probs=35.9
Q ss_pred eEEEEEEcccccceecccCchhHHHHHhccCceEEEecC
Q 005758 192 VATRMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRILPR 230 (678)
Q Consensus 192 ~~~~l~vp~~~~g~iIGk~G~~I~~I~~~tg~~I~i~~~ 230 (678)
..+.+.||..+.+..|||+|.+++.-..-||.+|.|.+.
T Consensus 303 ~~~~v~V~~~~~~~AIGk~G~Nv~la~~L~~~~idi~s~ 341 (362)
T PRK12327 303 KAARVVVPDYQLSLAIGKEGQNARLAARLTGWKIDIKSE 341 (362)
T ss_pred cEEEEEEChhhcchhhcCCChhHHHHHHHHCCeeeEEEH
Confidence 367899999999999999999999999999999999853
No 75
>PRK11824 polynucleotide phosphorylase/polyadenylase; Provisional
Probab=94.53 E-value=0.036 Score=64.97 Aligned_cols=86 Identities=24% Similarity=0.276 Sum_probs=61.5
Q ss_pred hHHHHHHHHHHHHhhccCC------CCCCceEEEEeecCCcceeeecCCch-hHHHHhhcCCeEEEeccCCCCCCCCCCC
Q 005758 408 FPAQEALLHIQTRIVDLGA------DKDNIITTRLLVPSSEIGCLEGRDGS-LSEMRRSTGANIQILSREEVPACVSGTD 480 (678)
Q Consensus 408 ~~a~~~i~~i~~~i~~~~~------~~~~~~~~~l~VP~~~~g~iIGkgG~-Ik~I~~~tga~I~v~~~~~~p~~~~~~~ 480 (678)
..|.++..++++.+.+... .........+.||.+.++.+||.||. ||+|.++||+.|.+. .+
T Consensus 524 ~~a~~g~~~I~~~M~~aI~~~r~~~~~~ap~~~~~~I~~~kI~~vIG~gg~~ik~I~~~~~~~idi~-----------d~ 592 (693)
T PRK11824 524 EQAKEGRLHILGKMNEAISEPRAELSPYAPRIETIKIPPDKIRDVIGPGGKTIREITEETGAKIDIE-----------DD 592 (693)
T ss_pred HHHHHHHHHHHHHHHHHhcCChhhhcccCchheeecCCHHHHHHHhcCCchhHHHHHHHHCCccccC-----------CC
Confidence 3455555555555443211 11223456777899999999999999 999999999988762 35
Q ss_pred eEEEEEe-cHHHHHHHHHHHHHHHH
Q 005758 481 ELVQIVG-EIQAARDALVEVTTRLR 504 (678)
Q Consensus 481 ~~V~I~G-~~~~v~~A~~~I~~~l~ 504 (678)
..|.|.+ ..+.+++|+.+|..+..
T Consensus 593 G~v~i~~~~~~~~~~a~~~I~~~~~ 617 (693)
T PRK11824 593 GTVKIAATDGEAAEAAKERIEGITA 617 (693)
T ss_pred ceEEEEcccHHHHHHHHHHHHHhcc
Confidence 5688887 67888889888877664
No 76
>KOG4369 consensus RTK signaling protein MASK/UNC-44 [Signal transduction mechanisms]
Probab=94.51 E-value=0.011 Score=68.85 Aligned_cols=69 Identities=17% Similarity=0.102 Sum_probs=59.9
Q ss_pred ccEEEEEecCCCcCeeecCCCchHHHHHHHcCCeEEEec-CCCCCceeEEEEEcCHHHHHHHHHHHHHHH
Q 005758 603 RSTLEVVLPDYAVPKLITKSKTLLTRFSEMSGASVSLVE-GQPEGTQKIIQISGTPEQVERAQSVLQGFI 671 (678)
Q Consensus 603 ~~t~~v~VP~~~vg~IIGkgG~~I~~Ir~~sGA~I~i~~-~~~~~~~r~I~IsGt~eqv~~Ak~lI~~~i 671 (678)
.....+.+|......|||+||+||+.+|.-|||.|+|.+ ..++..+|.+.+.|+|+.+.-|..+|.-.|
T Consensus 1339 ~~~~k~~~P~~a~SRVig~ggsnVna~r~~tga~ielekmq~~Nqaers~~~kg~p~~~r~a~~~I~~~i 1408 (2131)
T KOG4369|consen 1339 ANQGKGDGPLYASSRVIGDGGSNVNAARLGTGALIELEKMQPDNQAERSKAPKGRPPSQRVATSPIGLPI 1408 (2131)
T ss_pred ccccccccchhhhhhhhccCcchhhhHhhccceEEehhhcCCccchhhhcccCCCChhhhhhhcccccee
Confidence 345778899999999999999999999999999999976 234567899999999999999999886655
No 77
>TIGR01953 NusA transcription termination factor NusA. This model describes NusA, or N utilization substance protein A, a bacterial transcription termination factor. It binds to RNA polymerase alpha subunit and promotes termination at certain RNA hairpin structures. It is named for the interaction in E. coli of phage lambda antitermination protein N with the N-utilization substance, consisting of NusA, NusB, NusE (ribosomal protein S10), and nusG. This model represents a region of NusA shared in all bacterial forms, and including an S1 (pfam00575) and a KH (pfam00013) RNA binding domains. Proteobacterial forms have an additional C-terminal region, not included in this model, with two repeats of 50-residue domain rich in acidic amino acids.
Probab=94.49 E-value=0.1 Score=55.52 Aligned_cols=93 Identities=22% Similarity=0.432 Sum_probs=62.1
Q ss_pred cccceEEeCCchHHHHHHHHh-CCeEEEeCCCCCCCCcEEEEecCCCCCCcchHHHHHHHHHHHHhhcc-CCCCCCceEE
Q 005758 357 DKVGRVIGESEGIVELLQNEI-GVDLKVADPVDGSDEQIITISSEEGPDDELFPAQEALLHIQTRIVDL-GADKDNIITT 434 (678)
Q Consensus 357 ~~vg~IIG~~G~~I~~I~~~t-g~~I~i~~~~~~~~er~v~I~G~~g~~~~~~~a~~~i~~i~~~i~~~-~~~~~~~~~~ 434 (678)
+-+|..||.+|++|+.|.++. |=+|.|-.-..+ ....|. .++++| .+... ..+. .....
T Consensus 243 Dpvga~vG~~G~ri~~i~~el~ge~Idiv~~s~d---~~~fi~------nal~Pa---------~v~~v~i~~~-~~~~~ 303 (341)
T TIGR01953 243 DPVGACVGPKGSRIQAISKELNGEKIDIIEYSDD---PAEFIA------NALSPA---------KVISVEVLDE-DKHSA 303 (341)
T ss_pred CcceeeECCCCchHHHHHHHhCCCeEEEEEcCCC---HHHHHH------HhcCCc---------eEEEEEEEcC-CCcEE
Confidence 558999999999999999888 777776431111 000010 000110 00000 0011 22578
Q ss_pred EEeecCCcceeeecCCch-hHHHHhhcCCeEEEec
Q 005758 435 RLLVPSSEIGCLEGRDGS-LSEMRRSTGANIQILS 468 (678)
Q Consensus 435 ~l~VP~~~~g~iIGkgG~-Ik~I~~~tga~I~v~~ 468 (678)
.+.||..+.+..|||+|. ++-....||.+|.|.+
T Consensus 304 ~v~V~~~~~~~aIGk~G~Nv~la~~l~g~~IdI~s 338 (341)
T TIGR01953 304 EVVVPDDQLSLAIGKGGQNVRLASKLTGWNIDVKT 338 (341)
T ss_pred EEEEChHHcchhhcCCChhHHHHHHHhCCEEEEEe
Confidence 899999999999999999 9999999999999964
No 78
>PRK00468 hypothetical protein; Provisional
Probab=94.49 E-value=0.036 Score=45.20 Aligned_cols=33 Identities=30% Similarity=0.388 Sum_probs=29.2
Q ss_pred CccEEEEEEeeCceeceecccCchhHHhHHhHh
Q 005758 76 MVTTTYRILCHDMKAGGVIGKSGSIIKSIRQHT 108 (678)
Q Consensus 76 ~~~~~~~ilip~~~~g~IIGk~G~~Ik~i~~~t 108 (678)
+..+.+++.+....+|.||||+|.+|+.||.--
T Consensus 27 ~~~~~~~l~v~~~D~GrVIGk~Gr~i~AIRtvv 59 (75)
T PRK00468 27 EQSVILELKVAPEDMGKVIGKQGRIAKAIRTVV 59 (75)
T ss_pred CCeEEEEEEEChhhCcceecCCChhHHHHHHHH
Confidence 345889999999999999999999999998753
No 79
>COG5176 MSL5 Splicing factor (branch point binding protein) [RNA processing and modification]
Probab=94.39 E-value=0.078 Score=50.72 Aligned_cols=41 Identities=20% Similarity=0.404 Sum_probs=35.3
Q ss_pred CceEEEEEEc------ccccceecccCchhHHHHHhccCceEEEecC
Q 005758 190 NRVATRMVVS------RMHVGCLLGKGGKIIEQMRMETKTQIRILPR 230 (678)
Q Consensus 190 ~~~~~~l~vp------~~~~g~iIGk~G~~I~~I~~~tg~~I~i~~~ 230 (678)
...+-++.|| .+++|+|||+.|.++++|+..|+|+|-|-..
T Consensus 146 sk~q~KiYIPV~eyPe~NFVGLliGPRG~Tlk~le~~s~akIaIRG~ 192 (269)
T COG5176 146 SKYQNKIYIPVQEYPESNFVGLLIGPRGSTLKQLERISRAKIAIRGS 192 (269)
T ss_pred ccccceEEeehhhCcccceeEEEecCCcchHHHHHHHhCCeEEEecc
Confidence 4566777777 5789999999999999999999999999754
No 80
>PF14611 SLS: Mitochondrial inner-membrane-bound regulator
Probab=94.31 E-value=1.5 Score=43.62 Aligned_cols=65 Identities=18% Similarity=0.231 Sum_probs=56.0
Q ss_pred EEEEEEcccccceecccCchhHHHHHhccCceEEEecCCCCCCCccCCCCceeeccCCHHHHHHHHHHHHHHHhcc
Q 005758 193 ATRMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRILPRDHSLPRCVSMSEEIVQVVGDINNVKNAVAIISSRLRES 268 (678)
Q Consensus 193 ~~~l~vp~~~~g~iIGk~G~~I~~I~~~tg~~I~i~~~~~~~p~~~~~~~~~V~I~G~~~~v~~A~~~I~~~~~e~ 268 (678)
.+.+.++.....+|+..+|..++.|....||+|.+.. .+..|.|+|++..+..+...|.+++...
T Consensus 27 ~l~v~l~~~~~~LLl~~~~~~L~~l~~~~~~~I~~~~-----------~~~~i~I~g~k~~~~~i~~~i~~~l~~i 91 (210)
T PF14611_consen 27 DLDVWLQPDEFFLLLTGNGRILENLAARNGAKIEVSR-----------SENRIRITGTKSTAEYIEASINEILSNI 91 (210)
T ss_pred eeEEEecchheeeeecCCchHHHHHHHhcCceEEEec-----------CCcEEEEEccHHHHHHHHHHHHHHHhhc
Confidence 4455566888899999999999999888899999973 3668999999999999999999999774
No 81
>PRK12329 nusA transcription elongation factor NusA; Provisional
Probab=94.28 E-value=0.097 Score=56.75 Aligned_cols=37 Identities=19% Similarity=0.199 Sum_probs=34.4
Q ss_pred EEEEEEcccccceecccCchhHHHHHhccCceEEEec
Q 005758 193 ATRMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRILP 229 (678)
Q Consensus 193 ~~~l~vp~~~~g~iIGk~G~~I~~I~~~tg~~I~i~~ 229 (678)
.+.+.||..+.+..|||+|.+++.-..-||.+|.|..
T Consensus 336 ~a~V~V~~~qlslAIGK~GqNvrLAs~Ltg~~idI~s 372 (449)
T PRK12329 336 HAHVLVPPDQLSLAIGKEGQNVRLAARLTGWKIDIKD 372 (449)
T ss_pred EEEEEEChHhcchhhcCCChhHHHHHHHHCCEecccc
Confidence 5789999999999999999999999999999999963
No 82
>COG1837 Predicted RNA-binding protein (contains KH domain) [General function prediction only]
Probab=94.07 E-value=0.052 Score=44.12 Aligned_cols=32 Identities=34% Similarity=0.418 Sum_probs=29.0
Q ss_pred CccEEEEEEeeCceeceecccCchhHHhHHhH
Q 005758 76 MVTTTYRILCHDMKAGGVIGKSGSIIKSIRQH 107 (678)
Q Consensus 76 ~~~~~~~ilip~~~~g~IIGk~G~~Ik~i~~~ 107 (678)
+..+.+++-+....+|.||||+|.+|+.||.-
T Consensus 27 ~~~~~~~l~v~~~D~GkvIGk~GRti~AIRTl 58 (76)
T COG1837 27 EKTVTIELRVAPEDMGKVIGKQGRTIQAIRTL 58 (76)
T ss_pred CCeEEEEEEECcccccceecCCChhHHHHHHH
Confidence 45688999999999999999999999999875
No 83
>PRK00468 hypothetical protein; Provisional
Probab=93.77 E-value=0.13 Score=41.99 Aligned_cols=33 Identities=18% Similarity=0.384 Sum_probs=28.4
Q ss_pred CCCceEEEEeecCCcceeeecCCch-hHHHHhhc
Q 005758 428 KDNIITTRLLVPSSEIGCLEGRDGS-LSEMRRST 460 (678)
Q Consensus 428 ~~~~~~~~l~VP~~~~g~iIGkgG~-Ik~I~~~t 460 (678)
.+..+.++|.|..+.+|.||||+|. |+-||.--
T Consensus 26 ~~~~~~~~l~v~~~D~GrVIGk~Gr~i~AIRtvv 59 (75)
T PRK00468 26 GEQSVILELKVAPEDMGKVIGKQGRIAKAIRTVV 59 (75)
T ss_pred CCCeEEEEEEEChhhCcceecCCChhHHHHHHHH
Confidence 3456889999999999999999999 99888653
No 84
>PRK02821 hypothetical protein; Provisional
Probab=93.69 E-value=0.06 Score=44.10 Aligned_cols=34 Identities=26% Similarity=0.387 Sum_probs=29.5
Q ss_pred ccEEEEEEeeCceeceecccCchhHHhHHhHhCC
Q 005758 77 VTTTYRILCHDMKAGGVIGKSGSIIKSIRQHTGA 110 (678)
Q Consensus 77 ~~~~~~ilip~~~~g~IIGk~G~~Ik~i~~~tga 110 (678)
..+.+.+.+....+|.||||+|.+|+.||.--.+
T Consensus 29 ~~~~i~l~v~~~D~GrVIGk~Gr~i~AIRtlv~a 62 (77)
T PRK02821 29 RGRTLEVRVHPDDLGKVIGRGGRTATALRTVVAA 62 (77)
T ss_pred CcEEEEEEEChhhCcceeCCCCchHHHHHHHHHH
Confidence 3478899999999999999999999999987543
No 85
>PRK00106 hypothetical protein; Provisional
Probab=93.57 E-value=0.24 Score=55.75 Aligned_cols=66 Identities=20% Similarity=0.268 Sum_probs=53.0
Q ss_pred ceEEEEEEcc-cccceecccCchhHHHHHhccCceEEEecCCCCCCCccCCCCceeeccC-CHHHHHHHHHHHHHHHhc
Q 005758 191 RVATRMVVSR-MHVGCLLGKGGKIIEQMRMETKTQIRILPRDHSLPRCVSMSEEIVQVVG-DINNVKNAVAIISSRLRE 267 (678)
Q Consensus 191 ~~~~~l~vp~-~~~g~iIGk~G~~I~~I~~~tg~~I~i~~~~~~~p~~~~~~~~~V~I~G-~~~~v~~A~~~I~~~~~e 267 (678)
.+...+.+|+ .+-|+|||+.|.+|+.++.-||+.|-|.. +...|.|+| ++---+-|+..|..++.+
T Consensus 224 ~tvs~v~lp~demkGriIGreGrNir~~E~~tGvdliidd-----------tp~~v~lS~fdpvRReiAr~~le~Li~d 291 (535)
T PRK00106 224 QTITTVHLPDDNMKGRIIGREGRNIRTLESLTGIDVIIDD-----------TPEVVVLSGFDPIRREIARMTLESLIKD 291 (535)
T ss_pred heeeeEEcCChHhhcceeCCCcchHHHHHHHhCceEEEcC-----------CCCeEEEeCCChHHHHHHHHHHHHHHHc
Confidence 3445566887 78999999999999999999999999962 245678888 476667788888888876
No 86
>TIGR03319 YmdA_YtgF conserved hypothetical protein YmdA/YtgF.
Probab=93.55 E-value=0.26 Score=55.73 Aligned_cols=63 Identities=21% Similarity=0.303 Sum_probs=45.8
Q ss_pred ceEEEEeecC-CcceeeecCCch-hHHHHhhcCCeEEEeccCCCCCCCCCCCeEEEEEe-cHHHHHHHHHHHHHHH
Q 005758 431 IITTRLLVPS-SEIGCLEGRDGS-LSEMRRSTGANIQILSREEVPACVSGTDELVQIVG-EIQAARDALVEVTTRL 503 (678)
Q Consensus 431 ~~~~~l~VP~-~~~g~iIGkgG~-Ik~I~~~tga~I~v~~~~~~p~~~~~~~~~V~I~G-~~~~v~~A~~~I~~~l 503 (678)
..+..+.+|+ ++-|+||||.|. ||-+...||++|.|.. +...|+|++ .|---+.|...+..++
T Consensus 203 ~~~~~v~lp~d~~kgriigreGrnir~~e~~tgvd~iidd----------tp~~v~ls~fdp~rreia~~~l~~li 268 (514)
T TIGR03319 203 TTVSVVNLPNDEMKGRIIGREGRNIRALETLTGVDLIIDD----------TPEAVILSGFDPVRREIARMALEKLI 268 (514)
T ss_pred heeeeEEcCChhhhccccCCCcchHHHHHHHhCceEEEcC----------CCCeEEecCCchHHHHHHHHHHHHHH
Confidence 3445677888 567999999999 9999999999999942 344688888 5544455555444444
No 87
>KOG1067 consensus Predicted RNA-binding polyribonucleotide nucleotidyltransferase [General function prediction only]
Probab=93.41 E-value=0.14 Score=56.09 Aligned_cols=95 Identities=20% Similarity=0.295 Sum_probs=70.6
Q ss_pred CchHHHHHHHHHHHhhccCCCCCCCCCcccccCCCCCCCCCCcCCCCCceEEEEEEcccccceecccCchhHHHHHhccC
Q 005758 143 FSPAQEALFLIHDRILESDGGGGFYGEEEEEYGGGGGVGGGGFRGGGNRVATRMVVSRMHVGCLLGKGGKIIEQMRMETK 222 (678)
Q Consensus 143 ~~~~~~a~~~i~~~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~vp~~~~g~iIGk~G~~I~~I~~~tg 222 (678)
+.+|..|...|++.+.+..... +..+.+|+ .+...|.|+.+....+||++|...|+|+.+||
T Consensus 566 l~~a~~ar~~Il~~m~k~i~~P---r~~~~~y~---------------P~~~tlkv~~sk~~~lIGp~G~~~kki~~EtG 627 (760)
T KOG1067|consen 566 LQKAREARLQILDIMEKNINSP---RGSDKEYS---------------PVLETLKVSPSKRATLIGPGGVLKKKIEVETG 627 (760)
T ss_pred HHhhhHHHHHHHHHHHhhcCCc---ccCccccC---------------ceeeEEeecchhhheeecCccceeeeEeeecc
Confidence 4456666777887776543322 12233344 47888999999999999999999999999999
Q ss_pred ceEEEecCCCCCCCccCCCCceeeccCC-HHHHHHHHHHHHHHHhcc
Q 005758 223 TQIRILPRDHSLPRCVSMSEEIVQVVGD-INNVKNAVAIISSRLRES 268 (678)
Q Consensus 223 ~~I~i~~~~~~~p~~~~~~~~~V~I~G~-~~~v~~A~~~I~~~~~e~ 268 (678)
+.-.+. +..+.|... ..+.++|+..|..++...
T Consensus 628 ai~~vD-------------e~t~~i~A~~~~am~~Ak~~I~~i~~~~ 661 (760)
T KOG1067|consen 628 AISQVD-------------EGTFSIFAPTQAAMEEAKEFIDGIIKDD 661 (760)
T ss_pred ceeeec-------------CceEEEEecCHHHHHHHHHHHHHHhcCc
Confidence 654442 566777776 788899999999988764
No 88
>PRK12327 nusA transcription elongation factor NusA; Provisional
Probab=93.40 E-value=0.18 Score=54.17 Aligned_cols=94 Identities=24% Similarity=0.391 Sum_probs=62.5
Q ss_pred cccceEEeCCchHHHHHHHHh-CCeEEEeCCCCCCCCcEEEEecCCCCCCcchHHHHHHHHHHHHhhcc-CCCCCCceEE
Q 005758 357 DKVGRVIGESEGIVELLQNEI-GVDLKVADPVDGSDEQIITISSEEGPDDELFPAQEALLHIQTRIVDL-GADKDNIITT 434 (678)
Q Consensus 357 ~~vg~IIG~~G~~I~~I~~~t-g~~I~i~~~~~~~~er~v~I~G~~g~~~~~~~a~~~i~~i~~~i~~~-~~~~~~~~~~ 434 (678)
+-+|..||.+|.+|+.|.++. |=+|.|-.-..+ ....|. .++++| .+... ..+ +.....
T Consensus 245 DpvGa~iG~~G~rI~~i~~el~gekIdiv~~s~d---~~~fi~------nal~Pa---------~v~~v~i~~-~~~~~~ 305 (362)
T PRK12327 245 DAKGACVGPKGQRVQNIVSELKGEKIDIIDWSED---PAEFVA------NALSPA---------KVVSVEVDD-EEEKAA 305 (362)
T ss_pred CchheeECCCChhHHHHHHHhCCCeEEEEEcCCC---HHHHHH------HhCCCc---------eEEEEEEEc-CCCcEE
Confidence 568999999999999998888 777776431111 000010 000000 00000 001 223467
Q ss_pred EEeecCCcceeeecCCch-hHHHHhhcCCeEEEecc
Q 005758 435 RLLVPSSEIGCLEGRDGS-LSEMRRSTGANIQILSR 469 (678)
Q Consensus 435 ~l~VP~~~~g~iIGkgG~-Ik~I~~~tga~I~v~~~ 469 (678)
.+.||..+.+.-|||+|. |+-....||.+|.|.+.
T Consensus 306 ~v~V~~~~~~~AIGk~G~Nv~la~~L~~~~idi~s~ 341 (362)
T PRK12327 306 RVVVPDYQLSLAIGKEGQNARLAARLTGWKIDIKSE 341 (362)
T ss_pred EEEEChhhcchhhcCCChhHHHHHHHHCCeeeEEEH
Confidence 899999999999999999 99999999999999653
No 89
>PRK12704 phosphodiesterase; Provisional
Probab=93.35 E-value=0.28 Score=55.53 Aligned_cols=63 Identities=21% Similarity=0.308 Sum_probs=45.7
Q ss_pred eEEEEeecC-CcceeeecCCch-hHHHHhhcCCeEEEeccCCCCCCCCCCCeEEEEEe-cHHHHHHHHHHHHHHHH
Q 005758 432 ITTRLLVPS-SEIGCLEGRDGS-LSEMRRSTGANIQILSREEVPACVSGTDELVQIVG-EIQAARDALVEVTTRLR 504 (678)
Q Consensus 432 ~~~~l~VP~-~~~g~iIGkgG~-Ik~I~~~tga~I~v~~~~~~p~~~~~~~~~V~I~G-~~~~v~~A~~~I~~~l~ 504 (678)
.+..+.+|+ .+-|+||||.|. ||-+...||++|.|.. +...|.|+| .|-.-+.|...+..++.
T Consensus 210 ~~~~v~lp~d~mkgriigreGrnir~~e~~tgvd~iidd----------tp~~v~ls~~~~~rre~a~~~l~~l~~ 275 (520)
T PRK12704 210 TVSVVNLPNDEMKGRIIGREGRNIRALETLTGVDLIIDD----------TPEAVILSGFDPIRREIARLALEKLVQ 275 (520)
T ss_pred ceeeeecCCchhhcceeCCCcchHHHHHHHhCCeEEEcC----------CCCeEEEecCChhhHHHHHHHHHHHHh
Confidence 444567887 577999999999 9999999999999942 344688988 44443455555544443
No 90
>PRK09202 nusA transcription elongation factor NusA; Validated
Probab=93.32 E-value=0.19 Score=55.88 Aligned_cols=37 Identities=22% Similarity=0.296 Sum_probs=35.1
Q ss_pred EEEEEEcccccceecccCchhHHHHHhccCceEEEec
Q 005758 193 ATRMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRILP 229 (678)
Q Consensus 193 ~~~l~vp~~~~g~iIGk~G~~I~~I~~~tg~~I~i~~ 229 (678)
.+.+.||....+..|||+|.+++....-||.+|.|..
T Consensus 303 ~~~v~V~~~~~~~AIGk~G~Nvrla~~l~g~~idi~~ 339 (470)
T PRK09202 303 SADVVVPDDQLSLAIGKNGQNVRLASKLTGWKIDIMT 339 (470)
T ss_pred EEEEEECcchHHHhhCCCCeeHHHHHHHHCCeEEEEE
Confidence 7789999999999999999999999999999999975
No 91
>PRK02821 hypothetical protein; Provisional
Probab=93.31 E-value=0.16 Score=41.59 Aligned_cols=34 Identities=21% Similarity=0.311 Sum_probs=28.6
Q ss_pred CCCceEEEEeecCCcceeeecCCch-hHHHHhhcC
Q 005758 428 KDNIITTRLLVPSSEIGCLEGRDGS-LSEMRRSTG 461 (678)
Q Consensus 428 ~~~~~~~~l~VP~~~~g~iIGkgG~-Ik~I~~~tg 461 (678)
.+....+.|.|.++.+|.||||+|. |+.||.--.
T Consensus 27 ~~~~~~i~l~v~~~D~GrVIGk~Gr~i~AIRtlv~ 61 (77)
T PRK02821 27 NRRGRTLEVRVHPDDLGKVIGRGGRTATALRTVVA 61 (77)
T ss_pred CCCcEEEEEEEChhhCcceeCCCCchHHHHHHHHH
Confidence 3445788999999999999999999 998887643
No 92
>PRK01064 hypothetical protein; Provisional
Probab=92.74 E-value=0.12 Score=42.56 Aligned_cols=33 Identities=33% Similarity=0.482 Sum_probs=29.3
Q ss_pred CccEEEEEEeeCceeceecccCchhHHhHHhHh
Q 005758 76 MVTTTYRILCHDMKAGGVIGKSGSIIKSIRQHT 108 (678)
Q Consensus 76 ~~~~~~~ilip~~~~g~IIGk~G~~Ik~i~~~t 108 (678)
...+.+++.+.....|.+|||+|.+|+.||.-.
T Consensus 27 ~~~~~~~l~v~~~D~g~vIGk~G~~i~air~l~ 59 (78)
T PRK01064 27 THTIIYELTVAKPDIGKIIGKEGRTIKAIRTLL 59 (78)
T ss_pred CCEEEEEEEECcccceEEECCCCccHHHHHHHH
Confidence 456889999999999999999999999998753
No 93
>COG1837 Predicted RNA-binding protein (contains KH domain) [General function prediction only]
Probab=92.63 E-value=0.27 Score=40.01 Aligned_cols=32 Identities=22% Similarity=0.479 Sum_probs=28.6
Q ss_pred CCCceEEEEeecCCcceeeecCCch-hHHHHhh
Q 005758 428 KDNIITTRLLVPSSEIGCLEGRDGS-LSEMRRS 459 (678)
Q Consensus 428 ~~~~~~~~l~VP~~~~g~iIGkgG~-Ik~I~~~ 459 (678)
.+...+++|.|....+|.||||+|. |+-|+..
T Consensus 26 ~~~~~~~~l~v~~~D~GkvIGk~GRti~AIRTl 58 (76)
T COG1837 26 GEKTVTIELRVAPEDMGKVIGKQGRTIQAIRTL 58 (76)
T ss_pred cCCeEEEEEEECcccccceecCCChhHHHHHHH
Confidence 4667889999999999999999999 9988875
No 94
>PRK09202 nusA transcription elongation factor NusA; Validated
Probab=92.62 E-value=0.28 Score=54.57 Aligned_cols=94 Identities=22% Similarity=0.377 Sum_probs=62.0
Q ss_pred cccceEEeCCchHHHHHHHHh-CCeEEEeCCCCCCCCcEEEEecCCCCCCcchHHHHHHHHHHHHhhccCCCCCCceEEE
Q 005758 357 DKVGRVIGESEGIVELLQNEI-GVDLKVADPVDGSDEQIITISSEEGPDDELFPAQEALLHIQTRIVDLGADKDNIITTR 435 (678)
Q Consensus 357 ~~vg~IIG~~G~~I~~I~~~t-g~~I~i~~~~~~~~er~v~I~G~~g~~~~~~~a~~~i~~i~~~i~~~~~~~~~~~~~~ 435 (678)
+-+|..||.+|++|+.|.++. |=+|.|-.-. ++....|. .++.- ..+....-+.+ .-.+.
T Consensus 245 Dpvga~vG~~G~ri~~i~~el~ge~Idiv~~s---~d~~~fi~-------------nal~p--a~v~~v~~~~~-~~~~~ 305 (470)
T PRK09202 245 DPVGACVGMRGSRIQAISNELGGEKIDIILWS---DDPAQFII-------------NALSP--AEVSSVVVDED-EHSAD 305 (470)
T ss_pred ChhHccCCCCCchHHHHHHHhCCCeEEEEEcC---CCHHHHHH-------------HhCCC--CEEEEEEEeCC-CCEEE
Confidence 458999999999999999888 7777763311 11000110 11100 00000000111 24778
Q ss_pred EeecCCcceeeecCCch-hHHHHhhcCCeEEEecc
Q 005758 436 LLVPSSEIGCLEGRDGS-LSEMRRSTGANIQILSR 469 (678)
Q Consensus 436 l~VP~~~~g~iIGkgG~-Ik~I~~~tga~I~v~~~ 469 (678)
+.||..+.+.-|||+|. |+-..+.||.+|.|...
T Consensus 306 v~V~~~~~~~AIGk~G~Nvrla~~l~g~~idi~~~ 340 (470)
T PRK09202 306 VVVPDDQLSLAIGKNGQNVRLASKLTGWKIDIMTE 340 (470)
T ss_pred EEECcchHHHhhCCCCeeHHHHHHHHCCeEEEEEh
Confidence 99999999999999999 99999999999999753
No 95
>PRK01064 hypothetical protein; Provisional
Probab=92.47 E-value=0.33 Score=39.88 Aligned_cols=34 Identities=24% Similarity=0.398 Sum_probs=29.1
Q ss_pred CCCceEEEEeecCCcceeeecCCch-hHHHHhhcC
Q 005758 428 KDNIITTRLLVPSSEIGCLEGRDGS-LSEMRRSTG 461 (678)
Q Consensus 428 ~~~~~~~~l~VP~~~~g~iIGkgG~-Ik~I~~~tg 461 (678)
.+..+.+++.|.....|.+|||+|. |+.|+....
T Consensus 26 ~~~~~~~~l~v~~~D~g~vIGk~G~~i~air~l~~ 60 (78)
T PRK01064 26 GTHTIIYELTVAKPDIGKIIGKEGRTIKAIRTLLV 60 (78)
T ss_pred CCCEEEEEEEECcccceEEECCCCccHHHHHHHHH
Confidence 3567889999999999999999999 998887533
No 96
>PRK12329 nusA transcription elongation factor NusA; Provisional
Probab=92.39 E-value=0.28 Score=53.24 Aligned_cols=92 Identities=27% Similarity=0.391 Sum_probs=60.7
Q ss_pred cccceEEeCCchHHHHHHHHh-CCeEEEeCCCCCCCCcEEEEecCCCCCCcchHHHHHHHHHHHHhhcc-CCCCCCceEE
Q 005758 357 DKVGRVIGESEGIVELLQNEI-GVDLKVADPVDGSDEQIITISSEEGPDDELFPAQEALLHIQTRIVDL-GADKDNIITT 434 (678)
Q Consensus 357 ~~vg~IIG~~G~~I~~I~~~t-g~~I~i~~~~~~~~er~v~I~G~~g~~~~~~~a~~~i~~i~~~i~~~-~~~~~~~~~~ 434 (678)
+-+|..||.+|++|+.|.++. |=+|.|-.-.++ ....|. .++++| ++... ..+ +..-..
T Consensus 277 DPvGacVG~kG~RI~~I~~eL~gEkIDVI~ys~D---p~~fI~------NaLsPA---------~V~~V~i~~-~~~k~a 337 (449)
T PRK12329 277 DPVGACIGARGSRIQAVVNELRGEKIDVIRWSPD---PATYIA------NALSPA---------RVDEVRLVD-PEGRHA 337 (449)
T ss_pred ChhhccCCCCcchHHHHHHHhCCCeEEEEEcCCC---HHHHHH------HhcCCc---------eeeEEEEEc-CCCcEE
Confidence 568999999999999999988 777776331111 000010 000000 00000 001 122456
Q ss_pred EEeecCCcceeeecCCch-hHHHHhhcCCeEEEe
Q 005758 435 RLLVPSSEIGCLEGRDGS-LSEMRRSTGANIQIL 467 (678)
Q Consensus 435 ~l~VP~~~~g~iIGkgG~-Ik~I~~~tga~I~v~ 467 (678)
.+.||..+.+.-|||+|. |+-....||.+|.|.
T Consensus 338 ~V~V~~~qlslAIGK~GqNvrLAs~Ltg~~idI~ 371 (449)
T PRK12329 338 HVLVPPDQLSLAIGKEGQNVRLAARLTGWKIDIK 371 (449)
T ss_pred EEEEChHhcchhhcCCChhHHHHHHHHCCEeccc
Confidence 899999999999999999 999999999999984
No 97
>PRK12705 hypothetical protein; Provisional
Probab=91.36 E-value=0.25 Score=55.34 Aligned_cols=66 Identities=18% Similarity=0.269 Sum_probs=51.7
Q ss_pred ccEEEEEecC-CCcCeeecCCCchHHHHHHHcCCeEEEecCCCCCceeEEEEEcC-HHHHHHHHHHHHHHHhc
Q 005758 603 RSTLEVVLPD-YAVPKLITKSKTLLTRFSEMSGASVSLVEGQPEGTQKIIQISGT-PEQVERAQSVLQGFILS 673 (678)
Q Consensus 603 ~~t~~v~VP~-~~vg~IIGkgG~~I~~Ir~~sGA~I~i~~~~~~~~~r~I~IsGt-~eqv~~Ak~lI~~~i~~ 673 (678)
.++..|.+|. ++-|.||||.|.||+.+...||+.|-|++-+ +.|+|++- |.--+.|+..|..+|..
T Consensus 197 ~tvs~v~lp~demkGriIGreGrNir~~E~~tGvdliiddtp-----~~V~ls~fdp~rreia~~~l~~Li~d 264 (508)
T PRK12705 197 LSVSVVPIPSDAMKGRIIGREGRNIRAFEGLTGVDLIIDDTP-----EAVVISSFNPIRREIARLTLEKLLAD 264 (508)
T ss_pred heeeeeecCChHhhccccCccchhHHHHHHhhCCceEecCCc-----cchhhcccCccchHHHHHHHHHHHhc
Confidence 4567788898 6899999999999999999999999996432 24666664 66667777777766654
No 98
>PF13083 KH_4: KH domain; PDB: 3GKU_B.
Probab=88.45 E-value=0.26 Score=40.00 Aligned_cols=33 Identities=24% Similarity=0.349 Sum_probs=28.2
Q ss_pred cEEEEEEeeCceeceecccCchhHHhHHhHhCC
Q 005758 78 TTTYRILCHDMKAGGVIGKSGSIIKSIRQHTGA 110 (678)
Q Consensus 78 ~~~~~ilip~~~~g~IIGk~G~~Ik~i~~~tga 110 (678)
...+.+-|..+..|.||||.|.|++.||.-.+.
T Consensus 28 ~~~i~v~i~~ed~g~lIGk~G~tl~ALq~l~~~ 60 (73)
T PF13083_consen 28 GDTIVVNIDGEDAGRLIGKHGKTLNALQYLVNA 60 (73)
T ss_dssp TTEEEEEEESCCCHHHCTTHHHHHHHHHHHHHH
T ss_pred ceEEEEEECCCccceEECCCCeeHHHHHHHHHH
Confidence 467778889999999999999999999976554
No 99
>KOG1067 consensus Predicted RNA-binding polyribonucleotide nucleotidyltransferase [General function prediction only]
Probab=88.32 E-value=0.98 Score=49.85 Aligned_cols=66 Identities=20% Similarity=0.200 Sum_probs=53.3
Q ss_pred CCCceEEEEeecCCcceeeecCCch-hHHHHhhcCCeEEEeccCCCCCCCCCCCeEEEEEe-cHHHHHHHHHHHHHHHHh
Q 005758 428 KDNIITTRLLVPSSEIGCLEGRDGS-LSEMRRSTGANIQILSREEVPACVSGTDELVQIVG-EIQAARDALVEVTTRLRS 505 (678)
Q Consensus 428 ~~~~~~~~l~VP~~~~g~iIGkgG~-Ik~I~~~tga~I~v~~~~~~p~~~~~~~~~V~I~G-~~~~v~~A~~~I~~~l~~ 505 (678)
+...+...|.|+.+....+||.+|. .|.|..+||+.-++ ++..++|.- ++.+.++|+..|..++..
T Consensus 593 ~y~P~~~tlkv~~sk~~~lIGp~G~~~kki~~EtGai~~v------------De~t~~i~A~~~~am~~Ak~~I~~i~~~ 660 (760)
T KOG1067|consen 593 EYSPVLETLKVSPSKRATLIGPGGVLKKKIEVETGAISQV------------DEGTFSIFAPTQAAMEEAKEFIDGIIKD 660 (760)
T ss_pred ccCceeeEEeecchhhheeecCccceeeeEeeeccceeee------------cCceEEEEecCHHHHHHHHHHHHHHhcC
Confidence 4457888999999999999999999 99999999976665 344566654 567789999988877754
No 100
>KOG2874 consensus rRNA processing protein [Translation, ribosomal structure and biogenesis; Cell cycle control, cell division, chromosome partitioning]
Probab=88.13 E-value=0.67 Score=46.57 Aligned_cols=51 Identities=18% Similarity=0.377 Sum_probs=46.3
Q ss_pred ceecccCchhHHHHHhccCceEEEecCCCCCCCccCCCCceeeccCCHHHHHHHHHHHHHHHhc
Q 005758 204 GCLLGKGGKIIEQMRMETKTQIRILPRDHSLPRCVSMSEEIVQVVGDINNVKNAVAIISSRLRE 267 (678)
Q Consensus 204 g~iIGk~G~~I~~I~~~tg~~I~i~~~~~~~p~~~~~~~~~V~I~G~~~~v~~A~~~I~~~~~e 267 (678)
-+|||++|.+++.|+--|.|.|-|. -.+|.+.|....++.++..+.+++..
T Consensus 161 qRLiGpng~TLKAlelLT~CYilVq-------------G~TVsaiGpfkGlkevr~IV~DcM~N 211 (356)
T KOG2874|consen 161 QRLIGPNGSTLKALELLTNCYILVQ-------------GNTVSAIGPFKGLKEVRKIVEDCMKN 211 (356)
T ss_pred HHhcCCCchhHHHHHHHhhcEEEee-------------CcEEEeecCcchHHHHHHHHHHHHhc
Confidence 4699999999999999999999996 35699999999999999999999877
No 101
>KOG3273 consensus Predicted RNA-binding protein Pno1p interacting with Nob1p and involved in 26S proteasome assembly [Posttranslational modification, protein turnover, chaperones]
Probab=86.75 E-value=0.43 Score=45.58 Aligned_cols=159 Identities=17% Similarity=0.169 Sum_probs=91.5
Q ss_pred cEEEEEEeeCceeceecccCchhHHhHHhHhCCEEEEccCCCCCCccEEEEecCCCCCCCCCCCCCchHHHHHHHHHHHh
Q 005758 78 TTTYRILCHDMKAGGVIGKSGSIIKSIRQHTGAWINVHELIPGDEERIIEISDTRRRDPEGRMPSFSPAQEALFLIHDRI 157 (678)
Q Consensus 78 ~~~~~ilip~~~~g~IIGk~G~~Ik~i~~~tga~I~v~~~~~~~~ervv~i~G~~~~~~~~~~~~~~~~~~a~~~i~~~i 157 (678)
.-+-++.||.....-+=-.==..---|-+..+.+|.+.- ..|.|.+.-.++. ...+..+++...|...+
T Consensus 73 ~e~Rkvpvpp~r~tplk~~W~kIytPive~lklqiRmNl-----K~r~VelRt~~~t------~D~s~Lqk~adfv~Af~ 141 (252)
T KOG3273|consen 73 IETRKVPVPPHRYTPLKDNWMKIYTPIVEHLKLQIRMNL-----KARSVELRTCKDT------EDPSALQKGADFVRAFI 141 (252)
T ss_pred cceeeccCCcccCChHHHhhHhhhhHHHHhhhheeEeec-----ccceeEeecCCCC------CChHHHHHHHHHHHHHH
Confidence 345567777765432110000112235566777777752 3356766643321 13566777777777666
Q ss_pred hccCCCCCC--CCCcccccCCCCCCCCCCcCCCCCceEEEEEEcccccceecccCchhHHHHHhccCceEEEecCCCCCC
Q 005758 158 LESDGGGGF--YGEEEEEYGGGGGVGGGGFRGGGNRVATRMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRILPRDHSLP 235 (678)
Q Consensus 158 ~e~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~vp~~~~g~iIGk~G~~I~~I~~~tg~~I~i~~~~~~~p 235 (678)
......+.. .. .|+-|-- .| .-.+.-+++=.==+..+|+|+||+|.+--.|++-|.++|.+.
T Consensus 142 lGF~i~DAiALlr-lddlfle-------sF-Ei~dVKtL~GdHlsRAIGRiaGk~GkTkfaIEn~trtrIVla------- 205 (252)
T KOG3273|consen 142 LGFDIDDAIALLR-LDDLFLE-------SF-EIKDVKTLKGDHLSRAIGRIAGKGGKTKFAIENVTRTRIVLA------- 205 (252)
T ss_pred hCCcchhHHHHHh-hhhhhhe-------ee-eecccccccchhHHHHHHHhhcCCCcceeeeeccceeEEEec-------
Confidence 543322210 00 0000000 00 000011111111245689999999999999999999999886
Q ss_pred CccCCCCceeeccCCHHHHHHHHHHHHHHHhccc
Q 005758 236 RCVSMSEEIVQVVGDINNVKNAVAIISSRLRESQ 269 (678)
Q Consensus 236 ~~~~~~~~~V~I~G~~~~v~~A~~~I~~~~~e~~ 269 (678)
+..|.|-|..+++.-|+..|..++-.++
T Consensus 206 ------d~kIHiLG~~~niriAR~avcsLIlGsp 233 (252)
T KOG3273|consen 206 ------DSKIHILGAFQNIRIARDAVCSLILGSP 233 (252)
T ss_pred ------CceEEEeecchhhHHHHHhhHhhhccCC
Confidence 4569999999999999999999997753
No 102
>PRK12705 hypothetical protein; Provisional
Probab=85.67 E-value=1.7 Score=48.81 Aligned_cols=64 Identities=16% Similarity=0.140 Sum_probs=47.2
Q ss_pred EEEEEEcc-cccceecccCchhHHHHHhccCceEEEecCCCCCCCccCCCCceeeccCC-HHHHHHHHHHHHHHHhc
Q 005758 193 ATRMVVSR-MHVGCLLGKGGKIIEQMRMETKTQIRILPRDHSLPRCVSMSEEIVQVVGD-INNVKNAVAIISSRLRE 267 (678)
Q Consensus 193 ~~~l~vp~-~~~g~iIGk~G~~I~~I~~~tg~~I~i~~~~~~~p~~~~~~~~~V~I~G~-~~~v~~A~~~I~~~~~e 267 (678)
...+-+|+ ++-|+|||+.|.+|+.++..||+.|-|.. ..+.|.|.+- +.--+.|...+..++..
T Consensus 199 vs~v~lp~demkGriIGreGrNir~~E~~tGvdliidd-----------tp~~V~ls~fdp~rreia~~~l~~Li~d 264 (508)
T PRK12705 199 VSVVPIPSDAMKGRIIGREGRNIRAFEGLTGVDLIIDD-----------TPEAVVISSFNPIRREIARLTLEKLLAD 264 (508)
T ss_pred eeeeecCChHhhccccCccchhHHHHHHhhCCceEecC-----------CccchhhcccCccchHHHHHHHHHHHhc
Confidence 34455776 78899999999999999999999999963 1234556664 45556677777777655
No 103
>cd02409 KH-II KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional modifiers of mRNA (e.g. hnRNP K). There are two different KH domains that belong to different protein folds, but they share a single KH motif. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In addition to their KH core domain, KH-II proteins have an N-terminal alpha helical extension while KH-I proteins have a C-terminal alpha helical extension.
Probab=84.58 E-value=1.6 Score=34.20 Aligned_cols=34 Identities=9% Similarity=0.052 Sum_probs=27.4
Q ss_pred cEEEEEecCCCcCeeecCCCchHHHHHHHcCCeE
Q 005758 604 STLEVVLPDYAVPKLITKSKTLLTRFSEMSGASV 637 (678)
Q Consensus 604 ~t~~v~VP~~~vg~IIGkgG~~I~~Ir~~sGA~I 637 (678)
....+.+.....+.+||++|.+|+.|+..++-.+
T Consensus 25 ~~~~i~~~~~~~g~lIGk~G~~l~~l~~l~~~~~ 58 (68)
T cd02409 25 IEIIIVVARGQPGLVIGKKGQNIRALQKLLQKLL 58 (68)
T ss_pred EEEEEEECCCCCceEECCCCccHHHHHHHHHHHc
Confidence 4556666665789999999999999999997444
No 104
>COG5166 Uncharacterized conserved protein [Function unknown]
Probab=84.33 E-value=5 Score=44.05 Aligned_cols=100 Identities=11% Similarity=0.151 Sum_probs=64.5
Q ss_pred EEEEeeccccceEEeCCchHHHHHHHHh----CCeEEEeCCCCCCCCcEEEEecCCCCCCcchHHHHHHHHHHHHhhccC
Q 005758 350 FRMLCPIDKVGRVIGESEGIVELLQNEI----GVDLKVADPVDGSDEQIITISSEEGPDDELFPAQEALLHIQTRIVDLG 425 (678)
Q Consensus 350 ~~i~vp~~~vg~IIG~~G~~I~~I~~~t----g~~I~i~~~~~~~~er~v~I~G~~g~~~~~~~a~~~i~~i~~~i~~~~ 425 (678)
+-+.+|.+-.+.|+|++...+..+++.. ...|.|.+ ...++.++.+-. +.|.++.. ...
T Consensus 499 V~I~~PrKn~~ni~~~KNd~~~~V~~~c~f~~Kgdirf~~----~~~sI~~v~~~~----------~~I~rv~k---ne~ 561 (657)
T COG5166 499 VLIEAPRKNQDNISGKKNDKLDKVKQQCRFNLKGDIRFCP----QSTSIFTVDIYS----------DEIERVIK---NET 561 (657)
T ss_pred eEEECCccCccchhcccccHHHHHhhhcccccccceEEcC----CceEEEEEcccc----------cHHHHHhh---ccc
Confidence 4578999999999999999999998766 45677744 244588887542 12222221 100
Q ss_pred CCCCCceEEEEeecCCcceeeec---CCch-hHHHHhhcCCeEEE
Q 005758 426 ADKDNIITTRLLVPSSEIGCLEG---RDGS-LSEMRRSTGANIQI 466 (678)
Q Consensus 426 ~~~~~~~~~~l~VP~~~~g~iIG---kgG~-Ik~I~~~tga~I~v 466 (678)
--..-.....+.+|+..++..+| -.|+ |..+.....-.|..
T Consensus 562 v~~~~p~~~~~y~~se~h~~g~gena~R~~ni~~~t~~y~~~ie~ 606 (657)
T COG5166 562 VLLEFPAEMHFYVPSEIHKKGIGENAFRGENIQRVTKLYNSYIEF 606 (657)
T ss_pred eEEecccccccccchhhhhccCCcccccccchhhhhhhhhcccee
Confidence 01223456677889999999999 5566 66666555555554
No 105
>PF13083 KH_4: KH domain; PDB: 3GKU_B.
Probab=84.32 E-value=0.55 Score=38.09 Aligned_cols=33 Identities=18% Similarity=0.317 Sum_probs=28.0
Q ss_pred CceEEEEEEcccccceecccCchhHHHHHhccC
Q 005758 190 NRVATRMVVSRMHVGCLLGKGGKIIEQMRMETK 222 (678)
Q Consensus 190 ~~~~~~l~vp~~~~g~iIGk~G~~I~~I~~~tg 222 (678)
....+.+.+..+..|.||||+|.++++||.-.+
T Consensus 27 ~~~~i~v~i~~ed~g~lIGk~G~tl~ALq~l~~ 59 (73)
T PF13083_consen 27 DGDTIVVNIDGEDAGRLIGKHGKTLNALQYLVN 59 (73)
T ss_dssp TTTEEEEEEESCCCHHHCTTHHHHHHHHHHHHH
T ss_pred CceEEEEEECCCccceEECCCCeeHHHHHHHHH
Confidence 345788889999999999999999999986543
No 106
>cd02409 KH-II KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional modifiers of mRNA (e.g. hnRNP K). There are two different KH domains that belong to different protein folds, but they share a single KH motif. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In addition to their KH core domain, KH-II proteins have an N-terminal alpha helical extension while KH-I proteins have a C-terminal alpha helical extension.
Probab=83.62 E-value=1.5 Score=34.28 Aligned_cols=34 Identities=24% Similarity=0.333 Sum_probs=26.5
Q ss_pred EEEEEEeeCceeceecccCchhHHhHHhHhCCEE
Q 005758 79 TTYRILCHDMKAGGVIGKSGSIIKSIRQHTGAWI 112 (678)
Q Consensus 79 ~~~~ilip~~~~g~IIGk~G~~Ik~i~~~tga~I 112 (678)
..+.+.+.....|.+|||+|.+|+.|+..++-.+
T Consensus 25 ~~~~i~~~~~~~g~lIGk~G~~l~~l~~l~~~~~ 58 (68)
T cd02409 25 IEIIIVVARGQPGLVIGKKGQNIRALQKLLQKLL 58 (68)
T ss_pred EEEEEEECCCCCceEECCCCccHHHHHHHHHHHc
Confidence 4444555555689999999999999999998554
No 107
>COG1097 RRP4 RNA-binding protein Rrp4 and related proteins (contain S1 domain and KH domain) [Translation, ribosomal structure and biogenesis]
Probab=82.80 E-value=2.5 Score=42.23 Aligned_cols=35 Identities=26% Similarity=0.433 Sum_probs=33.2
Q ss_pred EEEEecCCCcCeeecCCCchHHHHHHHcCCeEEEe
Q 005758 606 LEVVLPDYAVPKLITKSKTLLTRFSEMSGASVSLV 640 (678)
Q Consensus 606 ~~v~VP~~~vg~IIGkgG~~I~~Ir~~sGA~I~i~ 640 (678)
.-|.|+...|..+||++|+.++-|.+.++|.|-|-
T Consensus 148 ~iv~i~p~kVpRvig~~~sm~~~l~~~~~~~I~VG 182 (239)
T COG1097 148 QIVKIPPSKVPRVIGKKGSMLNMLKEKTGCEIIVG 182 (239)
T ss_pred EEEEEchhhcceEecCCCcHHHHhhhhcCeEEEEe
Confidence 67889999999999999999999999999999995
No 108
>KOG3273 consensus Predicted RNA-binding protein Pno1p interacting with Nob1p and involved in 26S proteasome assembly [Posttranslational modification, protein turnover, chaperones]
Probab=82.70 E-value=0.9 Score=43.47 Aligned_cols=53 Identities=26% Similarity=0.366 Sum_probs=45.5
Q ss_pred CCcceeeecCCch-hHHHHhhcCCeEEEeccCCCCCCCCCCCeEEEEEecHHHHHHHHHHHHHHHH
Q 005758 440 SSEIGCLEGRDGS-LSEMRRSTGANIQILSREEVPACVSGTDELVQIVGEIQAARDALVEVTTRLR 504 (678)
Q Consensus 440 ~~~~g~iIGkgG~-Ik~I~~~tga~I~v~~~~~~p~~~~~~~~~V~I~G~~~~v~~A~~~I~~~l~ 504 (678)
+..+|+|+||+|. =--|++.|-.+|.+ .+..|.|-|..++++-|...||.++-
T Consensus 177 sRAIGRiaGk~GkTkfaIEn~trtrIVl------------ad~kIHiLG~~~niriAR~avcsLIl 230 (252)
T KOG3273|consen 177 SRAIGRIAGKGGKTKFAIENVTRTRIVL------------ADSKIHILGAFQNIRIARDAVCSLIL 230 (252)
T ss_pred HHHHHHhhcCCCcceeeeeccceeEEEe------------cCceEEEeecchhhHHHHHhhHhhhc
Confidence 4578999999999 55589999999998 34479999999999999999998773
No 109
>PF13184 KH_5: NusA-like KH domain; PDB: 1HH2_P 1L2F_A 2ATW_A 1K0R_B 2ASB_A.
Probab=82.33 E-value=1.1 Score=35.96 Aligned_cols=35 Identities=37% Similarity=0.547 Sum_probs=27.3
Q ss_pred EEEeeCce-----eceecccCchhHHhHHhHh-CCEEEEcc
Q 005758 82 RILCHDMK-----AGGVIGKSGSIIKSIRQHT-GAWINVHE 116 (678)
Q Consensus 82 ~ilip~~~-----~g~IIGk~G~~Ik~i~~~t-ga~I~v~~ 116 (678)
.+.+-+.. +|..||++|+.|+.|.++. |-+|.|-+
T Consensus 6 kvaV~~~~~~~d~vG~~iG~~G~rik~i~~~L~gekIdvV~ 46 (69)
T PF13184_consen 6 KVAVKSGDPNIDPVGACIGKKGSRIKAISEELNGEKIDVVE 46 (69)
T ss_dssp EEEEEESSTTS-HHHHHH-CCCCCHHHHHHHTTT-EEEEEE
T ss_pred EEEEEcCCCCcCcceecCccccHHHHHHHHHhCCCeEEEEE
Confidence 45555555 8999999999999999999 88888843
No 110
>COG1097 RRP4 RNA-binding protein Rrp4 and related proteins (contain S1 domain and KH domain) [Translation, ribosomal structure and biogenesis]
Probab=82.30 E-value=2.6 Score=42.09 Aligned_cols=62 Identities=19% Similarity=0.251 Sum_probs=45.9
Q ss_pred EEEEEcccccceecccCchhHHHHHhccCceEEEecCCCCCCCccCCCCceeeccCCHHH-HHHHHHHHHHHHhc
Q 005758 194 TRMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRILPRDHSLPRCVSMSEEIVQVVGDINN-VKNAVAIISSRLRE 267 (678)
Q Consensus 194 ~~l~vp~~~~g~iIGk~G~~I~~I~~~tg~~I~i~~~~~~~p~~~~~~~~~V~I~G~~~~-v~~A~~~I~~~~~e 267 (678)
.-+.|++..+.++||++|+.++-|.++++|+|-|-. ...|-|.|+.+. ...|...|..+=++
T Consensus 148 ~iv~i~p~kVpRvig~~~sm~~~l~~~~~~~I~VG~------------NG~IWV~~~~~~~e~~~~~aI~~ie~e 210 (239)
T COG1097 148 QIVKIPPSKVPRVIGKKGSMLNMLKEKTGCEIIVGQ------------NGRIWVDGENESLEELAIEAIRKIERE 210 (239)
T ss_pred EEEEEchhhcceEecCCCcHHHHhhhhcCeEEEEec------------CCEEEecCCCcchHHHHHHHHHHHhhh
Confidence 346699999999999999999999999999999963 234677777653 44455555444333
No 111
>COG1855 ATPase (PilT family) [General function prediction only]
Probab=80.86 E-value=1 Score=48.95 Aligned_cols=39 Identities=18% Similarity=0.314 Sum_probs=35.9
Q ss_pred ccEEEEEecCCCcCeeecCCCchHHHHHHHcCCeEEEec
Q 005758 603 RSTLEVVLPDYAVPKLITKSKTLLTRFSEMSGASVSLVE 641 (678)
Q Consensus 603 ~~t~~v~VP~~~vg~IIGkgG~~I~~Ir~~sGA~I~i~~ 641 (678)
.....|.||.++++.||||+|.+|++|+...|-+|+|-.
T Consensus 485 d~~avv~vpe~~i~~vigk~g~~i~~ie~klgi~I~v~~ 523 (604)
T COG1855 485 DGRAVVKVPEKYIPKVIGKGGKRIKEIEKKLGIKIDVKP 523 (604)
T ss_pred CCeEEEEeCHHHhhHHhhcccchHHHHHHHhCCceEEEE
Confidence 456889999999999999999999999999999999973
No 112
>KOG4369 consensus RTK signaling protein MASK/UNC-44 [Signal transduction mechanisms]
Probab=80.58 E-value=1 Score=53.50 Aligned_cols=57 Identities=23% Similarity=0.224 Sum_probs=47.3
Q ss_pred ccEEEEEEeeCceeceecccCchhHHhHHhHhCCEEEEccCCC-CCCccEEEEecCCC
Q 005758 77 VTTTYRILCHDMKAGGVIGKSGSIIKSIRQHTGAWINVHELIP-GDEERIIEISDTRR 133 (678)
Q Consensus 77 ~~~~~~ilip~~~~g~IIGk~G~~Ik~i~~~tga~I~v~~~~~-~~~ervv~i~G~~~ 133 (678)
.....++.+|..+..+|||++|++|..++.-|||.|.|.+-.+ +..||.+.+.|+..
T Consensus 1338 ~~~~~k~~~P~~a~SRVig~ggsnVna~r~~tga~ielekmq~~Nqaers~~~kg~p~ 1395 (2131)
T KOG4369|consen 1338 PANQGKGDGPLYASSRVIGDGGSNVNAARLGTGALIELEKMQPDNQAERSKAPKGRPP 1395 (2131)
T ss_pred cccccccccchhhhhhhhccCcchhhhHhhccceEEehhhcCCccchhhhcccCCCCh
Confidence 3455677889999999999999999999999999999987322 35889999998753
No 113
>PF13184 KH_5: NusA-like KH domain; PDB: 1HH2_P 1L2F_A 2ATW_A 1K0R_B 2ASB_A.
Probab=79.97 E-value=1.4 Score=35.37 Aligned_cols=38 Identities=26% Similarity=0.400 Sum_probs=30.1
Q ss_pred EEEEEEcccc-----cceecccCchhHHHHHhcc-CceEEEecC
Q 005758 193 ATRMVVSRMH-----VGCLLGKGGKIIEQMRMET-KTQIRILPR 230 (678)
Q Consensus 193 ~~~l~vp~~~-----~g~iIGk~G~~I~~I~~~t-g~~I~i~~~ 230 (678)
.+++.|-... +|..||++|.+|+.|+++. |-+|+|-.+
T Consensus 4 r~kvaV~~~~~~~d~vG~~iG~~G~rik~i~~~L~gekIdvV~~ 47 (69)
T PF13184_consen 4 RTKVAVKSGDPNIDPVGACIGKKGSRIKAISEELNGEKIDVVEY 47 (69)
T ss_dssp EEEEEEEESSTTS-HHHHHH-CCCCCHHHHHHHTTT-EEEEEE-
T ss_pred eEEEEEEcCCCCcCcceecCccccHHHHHHHHHhCCCeEEEEEc
Confidence 4566677766 8999999999999999999 899999754
No 114
>PRK13764 ATPase; Provisional
Probab=79.88 E-value=3.6 Score=47.30 Aligned_cols=64 Identities=17% Similarity=0.287 Sum_probs=46.5
Q ss_pred HHHHHHHHHHHhhccC--CCCCCceEEEEeecCCcceeeecCCch-hHHHHhhcCCeEEEeccCCCC
Q 005758 410 AQEALLHIQTRIVDLG--ADKDNIITTRLLVPSSEIGCLEGRDGS-LSEMRRSTGANIQILSREEVP 473 (678)
Q Consensus 410 a~~~i~~i~~~i~~~~--~~~~~~~~~~l~VP~~~~g~iIGkgG~-Ik~I~~~tga~I~v~~~~~~p 473 (678)
|.+.|.+...++.... -+....-...+.||.+.++.+|||+|. |++|.++.|.+|.|-+.+..+
T Consensus 457 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~k~~~~~~~~~~~~~~~i~v~~~~~~~ 523 (602)
T PRK13764 457 AEKEIEREIKRYLPGPVEVEVVSDNKAVVYVPEKDIPKVIGKGGKRIKKIEKKLGIDIDVRPLDEEP 523 (602)
T ss_pred HHHHHHHHHHHhcCCceEEEEecCCeEEEEEChhhhhHHhccCcchHHHHHHHhCCceEEEEccccc
Confidence 4455555444443210 012245567788999999999999999 999999999999998776654
No 115
>PRK13764 ATPase; Provisional
Probab=79.71 E-value=1.1 Score=51.39 Aligned_cols=40 Identities=20% Similarity=0.399 Sum_probs=37.4
Q ss_pred ccccEEEEEecCCCcCeeecCCCchHHHHHHHcCCeEEEe
Q 005758 601 VTRSTLEVVLPDYAVPKLITKSKTLLTRFSEMSGASVSLV 640 (678)
Q Consensus 601 ~~~~t~~v~VP~~~vg~IIGkgG~~I~~Ir~~sGA~I~i~ 640 (678)
....+..|.||.++++.+|||+|.+|++|.+..|..|+|-
T Consensus 478 ~~~~~~~v~~~~~~~~~~~~k~~~~~~~~~~~~~~~i~v~ 517 (602)
T PRK13764 478 VSDNKAVVYVPEKDIPKVIGKGGKRIKKIEKKLGIDIDVR 517 (602)
T ss_pred ecCCeEEEEEChhhhhHHhccCcchHHHHHHHhCCceEEE
Confidence 3567899999999999999999999999999999999997
No 116
>PF07650 KH_2: KH domain syndrome, contains KH motifs.; InterPro: IPR004044 The K homology (KH) domain was first identified in the human heterogeneous nuclear ribonucleoprotein (hnRNP) K. It is a domain of around 70 amino acids that is present in a wide variety of quite diverse nucleic acid-binding proteins []. It has been shown to bind RNA [, ]. Like many other RNA-binding motifs, KH motifs are found in one or multiple copies (14 copies in chicken vigilin) and, at least for hnRNP K (three copies) and FMR-1 (two copies), each motif is necessary for in vitro RNA binding activity, suggesting that they may function cooperatively or, in the case of single KH motif proteins (for example, Mer1p), independently []. According to structural [, , ] analysis the KH domain can be separated in two groups. The first group or type-1 contain a beta-alpha-alpha-beta-beta-alpha structure, whereas in the type-2 the two last beta-sheet are located in the N-terminal part of the domain (alpha-beta-beta-alpha-alpha-beta). Sequence similarity between these two folds are limited to a short region (VIGXXGXXI) in the RNA binding motif. This motif is located between helice 1 and 2 in type-1 and between helice 2 and 3 in type-2. Proteins known to contain a type-2 KH domain include eukaryotic and prokaryotic S3 family of ribosomal proteins, and the prokaryotic GTP-binding protein, era.; GO: 0003723 RNA binding; PDB: 2XR1_B 3OAR_C 3OFX_C 1VS7_C 3I1O_C 2WWL_C 3R8O_C 2QAL_C 3J00_C 3J0V_F ....
Probab=79.24 E-value=1.1 Score=36.68 Aligned_cols=34 Identities=35% Similarity=0.418 Sum_probs=28.4
Q ss_pred EEEEEeeCceeceecccCchhHHhHHhHhCCEEE
Q 005758 80 TYRILCHDMKAGGVIGKSGSIIKSIRQHTGAWIN 113 (678)
Q Consensus 80 ~~~ilip~~~~g~IIGk~G~~Ik~i~~~tga~I~ 113 (678)
.+.+.+.....+.|||++|++|+.|.+...-.+.
T Consensus 26 ~~~i~i~~~~~~ivIGk~G~~ik~i~~~~~k~l~ 59 (78)
T PF07650_consen 26 QIIIVIKASQPGIVIGKKGSNIKKIREELRKELE 59 (78)
T ss_dssp EEEEEEEESSHHHHHTGGGHHHHHHHHHHHHHHH
T ss_pred eEEEEEeCCCccHhHHhhhHHHHHHHHHHHHHHh
Confidence 3466788899999999999999999988766654
No 117
>cd02414 jag_KH jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In general, KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=79.15 E-value=1.8 Score=35.48 Aligned_cols=35 Identities=20% Similarity=0.268 Sum_probs=27.5
Q ss_pred EEEEEeeCceeceecccCchhHHhHHhHhCCEEEE
Q 005758 80 TYRILCHDMKAGGVIGKSGSIIKSIRQHTGAWINV 114 (678)
Q Consensus 80 ~~~ilip~~~~g~IIGk~G~~Ik~i~~~tga~I~v 114 (678)
.+.+-+.....|.+|||.|+++..||--++.-++-
T Consensus 25 ~i~i~i~~~~~g~LIGk~G~tL~AlQ~L~~~~~~~ 59 (77)
T cd02414 25 TVEVNISGDDIGLLIGKRGKTLDALQYLANLVLNR 59 (77)
T ss_pred EEEEEEecCCCCeEECCCCccHHHHHHHHHHHHhh
Confidence 34556667888999999999999999887755544
No 118
>COG1855 ATPase (PilT family) [General function prediction only]
Probab=76.56 E-value=2 Score=46.70 Aligned_cols=39 Identities=23% Similarity=0.399 Sum_probs=35.9
Q ss_pred EEEEEEcccccceecccCchhHHHHHhccCceEEEecCC
Q 005758 193 ATRMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRILPRD 231 (678)
Q Consensus 193 ~~~l~vp~~~~g~iIGk~G~~I~~I~~~tg~~I~i~~~~ 231 (678)
...+.||...++.+|||+|.+|++|+++.|.+|.|.+.+
T Consensus 487 ~avv~vpe~~i~~vigk~g~~i~~ie~klgi~I~v~~~e 525 (604)
T COG1855 487 RAVVKVPEKYIPKVIGKGGKRIKEIEKKLGIKIDVKPLE 525 (604)
T ss_pred eEEEEeCHHHhhHHhhcccchHHHHHHHhCCceEEEEcc
Confidence 567889999999999999999999999999999998753
No 119
>cd02410 archeal_CPSF_KH The archaeal cleavage and polyadenylation specificity factor (CPSF) contains an N-terminal K homology RNA-binding domain (KH). The archeal CPSFs are predicted to be metal-dependent RNases belonging to the beta-CASP family, a subgroup enzymes within the metallo-beta-lactamase fold. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In general, KH domains are known to bind single-stranded RNA or DNA and are found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=76.35 E-value=7.9 Score=35.71 Aligned_cols=37 Identities=24% Similarity=0.304 Sum_probs=32.3
Q ss_pred EEEEEeeccccceEEeCCchHHHHHHHHhCCeEEEeC
Q 005758 349 VFRMLCPIDKVGRVIGESEGIVELLQNEIGVDLKVAD 385 (678)
Q Consensus 349 ~~~i~vp~~~vg~IIG~~G~~I~~I~~~tg~~I~i~~ 385 (678)
+-++.|-.+.-|.+||++|.+++.|..++|-.-.+-.
T Consensus 77 tGEV~IeaeKPG~ViGk~g~~~reI~~~tgW~p~vvR 113 (145)
T cd02410 77 TGEVIIEAEKPGLVIGKGGSTLREITRETGWAPKVVR 113 (145)
T ss_pred CcEEEEEEcCCeEEEecCchhHHHHHHHhCCeeEEEe
Confidence 3468888899999999999999999999998877754
No 120
>cd02413 40S_S3_KH K homology RNA-binding (KH) domain of the eukaryotic 40S small ribosomal subunit protein S3. S3 is part of the head region of the 40S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In general, KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=76.10 E-value=2.7 Score=34.96 Aligned_cols=37 Identities=19% Similarity=0.332 Sum_probs=31.5
Q ss_pred EEEEEeeCceeceecccCchhHHhHHhHhCCEEEEcc
Q 005758 80 TYRILCHDMKAGGVIGKSGSIIKSIRQHTGAWINVHE 116 (678)
Q Consensus 80 ~~~ilip~~~~g~IIGk~G~~Ik~i~~~tga~I~v~~ 116 (678)
.+++.|....-|.|||++|+.|++|+++-.-...+++
T Consensus 31 ~i~I~I~tarPg~vIG~~G~~i~~L~~~L~k~~~~~~ 67 (81)
T cd02413 31 RTEIIIRATRTQNVLGEKGRRIRELTSLVQKRFNFPE 67 (81)
T ss_pred eEEEEEEeCCCceEECCCchhHHHHHHHHHHHhCCCC
Confidence 4778889999999999999999999998776666643
No 121
>cd02414 jag_KH jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In general, KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=74.04 E-value=3.9 Score=33.51 Aligned_cols=35 Identities=20% Similarity=0.235 Sum_probs=28.8
Q ss_pred cEEEEEecCCCcCeeecCCCchHHHHHHHcCCeEE
Q 005758 604 STLEVVLPDYAVPKLITKSKTLLTRFSEMSGASVS 638 (678)
Q Consensus 604 ~t~~v~VP~~~vg~IIGkgG~~I~~Ir~~sGA~I~ 638 (678)
....+.|..+..|.||||.|.+++.|+-.....+.
T Consensus 24 ~~i~i~i~~~~~g~LIGk~G~tL~AlQ~L~~~~~~ 58 (77)
T cd02414 24 DTVEVNISGDDIGLLIGKRGKTLDALQYLANLVLN 58 (77)
T ss_pred CEEEEEEecCCCCeEECCCCccHHHHHHHHHHHHh
Confidence 35678888899999999999999999988754443
No 122
>PF07650 KH_2: KH domain syndrome, contains KH motifs.; InterPro: IPR004044 The K homology (KH) domain was first identified in the human heterogeneous nuclear ribonucleoprotein (hnRNP) K. It is a domain of around 70 amino acids that is present in a wide variety of quite diverse nucleic acid-binding proteins []. It has been shown to bind RNA [, ]. Like many other RNA-binding motifs, KH motifs are found in one or multiple copies (14 copies in chicken vigilin) and, at least for hnRNP K (three copies) and FMR-1 (two copies), each motif is necessary for in vitro RNA binding activity, suggesting that they may function cooperatively or, in the case of single KH motif proteins (for example, Mer1p), independently []. According to structural [, , ] analysis the KH domain can be separated in two groups. The first group or type-1 contain a beta-alpha-alpha-beta-beta-alpha structure, whereas in the type-2 the two last beta-sheet are located in the N-terminal part of the domain (alpha-beta-beta-alpha-alpha-beta). Sequence similarity between these two folds are limited to a short region (VIGXXGXXI) in the RNA binding motif. This motif is located between helice 1 and 2 in type-1 and between helice 2 and 3 in type-2. Proteins known to contain a type-2 KH domain include eukaryotic and prokaryotic S3 family of ribosomal proteins, and the prokaryotic GTP-binding protein, era.; GO: 0003723 RNA binding; PDB: 2XR1_B 3OAR_C 3OFX_C 1VS7_C 3I1O_C 2WWL_C 3R8O_C 2QAL_C 3J00_C 3J0V_F ....
Probab=73.48 E-value=1.3 Score=36.29 Aligned_cols=34 Identities=12% Similarity=0.132 Sum_probs=29.1
Q ss_pred cEEEEEecCCCcCeeecCCCchHHHHHHHcCCeE
Q 005758 604 STLEVVLPDYAVPKLITKSKTLLTRFSEMSGASV 637 (678)
Q Consensus 604 ~t~~v~VP~~~vg~IIGkgG~~I~~Ir~~sGA~I 637 (678)
....+.+-+.+-+.|||++|++|++|++..+-.+
T Consensus 25 ~~~~i~i~~~~~~ivIGk~G~~ik~i~~~~~k~l 58 (78)
T PF07650_consen 25 DQIIIVIKASQPGIVIGKKGSNIKKIREELRKEL 58 (78)
T ss_dssp SEEEEEEEESSHHHHHTGGGHHHHHHHHHHHHHH
T ss_pred CeEEEEEeCCCccHhHHhhhHHHHHHHHHHHHHH
Confidence 4578888899999999999999999998875444
No 123
>cd02413 40S_S3_KH K homology RNA-binding (KH) domain of the eukaryotic 40S small ribosomal subunit protein S3. S3 is part of the head region of the 40S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In general, KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=71.62 E-value=5.1 Score=33.27 Aligned_cols=36 Identities=3% Similarity=0.194 Sum_probs=29.4
Q ss_pred cEEEEEecCCCcCeeecCCCchHHHHHHHcCCeEEE
Q 005758 604 STLEVVLPDYAVPKLITKSKTLLTRFSEMSGASVSL 639 (678)
Q Consensus 604 ~t~~v~VP~~~vg~IIGkgG~~I~~Ir~~sGA~I~i 639 (678)
...+|.|-...-|.|||++|++|++|++.---...+
T Consensus 30 ~~i~I~I~tarPg~vIG~~G~~i~~L~~~L~k~~~~ 65 (81)
T cd02413 30 TRTEIIIRATRTQNVLGEKGRRIRELTSLVQKRFNF 65 (81)
T ss_pred CeEEEEEEeCCCceEECCCchhHHHHHHHHHHHhCC
Confidence 347777878888999999999999999887555555
No 124
>KOG2874 consensus rRNA processing protein [Translation, ribosomal structure and biogenesis; Cell cycle control, cell division, chromosome partitioning]
Probab=71.13 E-value=6.8 Score=39.67 Aligned_cols=50 Identities=20% Similarity=0.292 Sum_probs=43.3
Q ss_pred eeeecCCch-hHHHHhhcCCeEEEeccCCCCCCCCCCCeEEEEEecHHHHHHHHHHHHHHHHh
Q 005758 444 GCLEGRDGS-LSEMRRSTGANIQILSREEVPACVSGTDELVQIVGEIQAARDALVEVTTRLRS 505 (678)
Q Consensus 444 g~iIGkgG~-Ik~I~~~tga~I~v~~~~~~p~~~~~~~~~V~I~G~~~~v~~A~~~I~~~l~~ 505 (678)
-+|||.+|+ ++.|+-.|.|-|-|. -.+|.+.|....++.+...+.+.+..
T Consensus 161 qRLiGpng~TLKAlelLT~CYilVq------------G~TVsaiGpfkGlkevr~IV~DcM~N 211 (356)
T KOG2874|consen 161 QRLIGPNGSTLKALELLTNCYILVQ------------GNTVSAIGPFKGLKEVRKIVEDCMKN 211 (356)
T ss_pred HHhcCCCchhHHHHHHHhhcEEEee------------CcEEEeecCcchHHHHHHHHHHHHhc
Confidence 579999999 999999999999983 23699999999999998888877754
No 125
>cd02410 archeal_CPSF_KH The archaeal cleavage and polyadenylation specificity factor (CPSF) contains an N-terminal K homology RNA-binding domain (KH). The archeal CPSFs are predicted to be metal-dependent RNases belonging to the beta-CASP family, a subgroup enzymes within the metallo-beta-lactamase fold. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In general, KH domains are known to bind single-stranded RNA or DNA and are found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=70.19 E-value=9.8 Score=35.08 Aligned_cols=90 Identities=18% Similarity=0.222 Sum_probs=54.7
Q ss_pred CCchHHHHHHHHhCCeEEEeCCCCCCCCcEEEEecCCCCCCcchHHHHHHHHHHHHhhccCCCCCCceEEEEeecCCcce
Q 005758 365 ESEGIVELLQNEIGVDLKVADPVDGSDEQIITISSEEGPDDELFPAQEALLHIQTRIVDLGADKDNIITTRLLVPSSEIG 444 (678)
Q Consensus 365 ~~G~~I~~I~~~tg~~I~i~~~~~~~~er~v~I~G~~g~~~~~~~a~~~i~~i~~~i~~~~~~~~~~~~~~l~VP~~~~g 444 (678)
.++..|++|-++.--+|.|-.. .. +. . .-..|.+.|.++...-.+..+-.-...+-.+.|-.+.-|
T Consensus 23 ~~~dli~~lAk~lrKRIvvR~d-----ps-~l-~-------~~e~A~~~I~~ivP~ea~i~di~Fd~~tGEV~IeaeKPG 88 (145)
T cd02410 23 EDGDLVKDLAKDLRKRIVIRPD-----PS-VL-K-------PPEEAIKIILEIVPEEAGITDIYFDDDTGEVIIEAEKPG 88 (145)
T ss_pred cccHHHHHHHHHHhceEEEcCC-----hh-hc-C-------CHHHHHHHHHHhCCCccCceeeEecCCCcEEEEEEcCCe
Confidence 4678899999888888777321 01 11 1 113455555544421111110011122344556667889
Q ss_pred eeecCCch-hHHHHhhcCCeEEEec
Q 005758 445 CLEGRDGS-LSEMRRSTGANIQILS 468 (678)
Q Consensus 445 ~iIGkgG~-Ik~I~~~tga~I~v~~ 468 (678)
.+||++|. +++|..+||-.-.+..
T Consensus 89 ~ViGk~g~~~reI~~~tgW~p~vvR 113 (145)
T cd02410 89 LVIGKGGSTLREITRETGWAPKVVR 113 (145)
T ss_pred EEEecCchhHHHHHHHhCCeeEEEe
Confidence 99999999 9999999999988864
No 126
>PRK06418 transcription elongation factor NusA-like protein; Validated
Probab=68.99 E-value=5 Score=38.10 Aligned_cols=34 Identities=29% Similarity=0.355 Sum_probs=29.2
Q ss_pred EEEeeCceeceecccCchhHHhHHhHhCCEEEEcc
Q 005758 82 RILCHDMKAGGVIGKSGSIIKSIRQHTGAWINVHE 116 (678)
Q Consensus 82 ~ilip~~~~g~IIGk~G~~Ik~i~~~tga~I~v~~ 116 (678)
-+++-... |.-|||+|.+|++|++..|-+|.|-+
T Consensus 64 IfvV~~gd-g~aIGk~G~~ik~l~~~lgk~VevVE 97 (166)
T PRK06418 64 ILLVTSGP-RIPIGKGGKIAKALSRKLGKKVRVVE 97 (166)
T ss_pred EEEEeCCC-cccccccchHHHHHHHHhCCcEEEEE
Confidence 35666666 99999999999999999999998854
No 127
>COG1782 Predicted metal-dependent RNase, consists of a metallo-beta-lactamase domain and an RNA-binding KH domain [General function prediction only]
Probab=68.79 E-value=21 Score=39.60 Aligned_cols=36 Identities=22% Similarity=0.287 Sum_probs=31.3
Q ss_pred EEEEEeeccccceEEeCCchHHHHHHHHhCCeEEEe
Q 005758 349 VFRMLCPIDKVGRVIGESEGIVELLQNEIGVDLKVA 384 (678)
Q Consensus 349 ~~~i~vp~~~vg~IIG~~G~~I~~I~~~tg~~I~i~ 384 (678)
+-++.|-.+.-|.+||++|++.+.|..++|-.-.|-
T Consensus 100 tGEViIea~KPGlvigk~g~~~reI~~~tgW~p~iv 135 (637)
T COG1782 100 TGEVIIEAKKPGLVIGKGGSTLREITAETGWAPKIV 135 (637)
T ss_pred CceEEEEecCCceEEecCchHHHHHHHHhCCcceee
Confidence 446888899999999999999999999999776654
No 128
>COG5166 Uncharacterized conserved protein [Function unknown]
Probab=66.01 E-value=6.4 Score=43.29 Aligned_cols=135 Identities=9% Similarity=0.049 Sum_probs=78.5
Q ss_pred EEEeeccccceEEeCCchHHHHHHHHhCCeE--EEeCCCCCCCCcEEEEecCCCCCCcchHHHHHHHHHHHHhhccCCCC
Q 005758 351 RMLCPIDKVGRVIGESEGIVELLQNEIGVDL--KVADPVDGSDEQIITISSEEGPDDELFPAQEALLHIQTRIVDLGADK 428 (678)
Q Consensus 351 ~i~vp~~~vg~IIG~~G~~I~~I~~~tg~~I--~i~~~~~~~~er~v~I~G~~g~~~~~~~a~~~i~~i~~~i~~~~~~~ 428 (678)
.+.+| +.-..|-|++...+.+|.+...|.+ .+.+. .+.++.++. . |..-..+++.. .+ ..
T Consensus 384 q~~~e-d~EdFl~gkkngK~TrIm~~v~c~~~~~i~~~---~gs~~~~~~-~-g~~~~F~k~~~-------~~-----~~ 445 (657)
T COG5166 384 QFGVE-DNEDFLRGKKNGKATRIMKGVSCSELSSIVSS---TGSIVETNG-I-GEKMSFSKKLS-------IP-----PT 445 (657)
T ss_pred eecCC-chHHHhccccCcchhhhhhhcccceeeEEEec---CCcEEEEec-c-CcchhhHHHhc-------CC-----cc
Confidence 34443 3334778888888999999988884 44332 122333332 1 11111221111 11 12
Q ss_pred CCceEEEEeecCCcceeeecCCch-hHHHHhhcCCeEEEeccCCCCCCCCCCCeEEEEEecHHH---HHHHHHHHHHHHH
Q 005758 429 DNIITTRLLVPSSEIGCLEGRDGS-LSEMRRSTGANIQILSREEVPACVSGTDELVQIVGEIQA---ARDALVEVTTRLR 504 (678)
Q Consensus 429 ~~~~~~~l~VP~~~~g~iIGkgG~-Ik~I~~~tga~I~v~~~~~~p~~~~~~~~~V~I~G~~~~---v~~A~~~I~~~l~ 504 (678)
+-...+.+.||.+.|..|||-||. |.+++.+.++.|++...-++|.... ...|.|.-+..+ +.-++--+.+++.
T Consensus 446 EFpae~~f~i~e~~h~~IIgtgG~~iQ~~m~kh~v~i~f~n~~~~~qs~~--~dNV~I~~PrKn~~ni~~~KNd~~~~V~ 523 (657)
T COG5166 446 EFPAEIAFIIMESGHEMIIGTGGIEIQENMVKHAVDIAFKNFYKFGQSQW--HDNVLIEAPRKNQDNISGKKNDKLDKVK 523 (657)
T ss_pred cCchheEEEeecccceeeeccCchhhHHhhhhhhhhhhhhhhhhcchhhh--hcceEEECCccCccchhcccccHHHHHh
Confidence 234567899999999999999999 9999999999999854444554321 222555544333 3334444455555
Q ss_pred h
Q 005758 505 S 505 (678)
Q Consensus 505 ~ 505 (678)
+
T Consensus 524 ~ 524 (657)
T COG5166 524 Q 524 (657)
T ss_pred h
Confidence 4
No 129
>cd02412 30S_S3_KH K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In general, KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=65.64 E-value=5.3 Score=35.20 Aligned_cols=31 Identities=26% Similarity=0.452 Sum_probs=26.1
Q ss_pred EEEEeeCceeceecccCchhHHhHHhHhCCE
Q 005758 81 YRILCHDMKAGGVIGKSGSIIKSIRQHTGAW 111 (678)
Q Consensus 81 ~~ilip~~~~g~IIGk~G~~Ik~i~~~tga~ 111 (678)
+++.|....-|.|||+.|++|++|++.....
T Consensus 63 i~I~I~t~rPg~vIG~~G~~i~~L~~~l~~~ 93 (109)
T cd02412 63 VEVTIHTARPGIIIGKKGAGIEKLRKELQKL 93 (109)
T ss_pred EEEEEEeCCCCcccCCchHHHHHHHHHHHHH
Confidence 5677888889999999999999999875443
No 130
>PRK06418 transcription elongation factor NusA-like protein; Validated
Probab=63.29 E-value=7.9 Score=36.77 Aligned_cols=36 Identities=22% Similarity=0.403 Sum_probs=31.5
Q ss_pred EEEEEEcccccceecccCchhHHHHHhccCceEEEec
Q 005758 193 ATRMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRILP 229 (678)
Q Consensus 193 ~~~l~vp~~~~g~iIGk~G~~I~~I~~~tg~~I~i~~ 229 (678)
.+-++|.... |.-|||+|.+++++++..|-+|.+-.
T Consensus 62 rvIfvV~~gd-g~aIGk~G~~ik~l~~~lgk~VevVE 97 (166)
T PRK06418 62 LVILLVTSGP-RIPIGKGGKIAKALSRKLGKKVRVVE 97 (166)
T ss_pred EEEEEEeCCC-cccccccchHHHHHHHHhCCcEEEEE
Confidence 4556777777 99999999999999999999999974
No 131
>cd02411 archeal_30S_S3_KH K homology RNA-binding domain (KH) of the archaeal 30S small ribosomal subunit S3 protein. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In general, KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=63.07 E-value=6.9 Score=32.75 Aligned_cols=28 Identities=25% Similarity=0.376 Sum_probs=23.6
Q ss_pred EEEEeeCceeceecccCchhHHhHHhHh
Q 005758 81 YRILCHDMKAGGVIGKSGSIIKSIRQHT 108 (678)
Q Consensus 81 ~~ilip~~~~g~IIGk~G~~Ik~i~~~t 108 (678)
+++.|....-|.+||++|.+|++|++.-
T Consensus 40 i~V~I~t~~pg~iIGk~G~~I~~l~~~l 67 (85)
T cd02411 40 TQITIYAERPGMVIGRGGKNIRELTEIL 67 (85)
T ss_pred EEEEEEECCCCceECCCchhHHHHHHHH
Confidence 5666677888999999999999998874
No 132
>cd02411 archeal_30S_S3_KH K homology RNA-binding domain (KH) of the archaeal 30S small ribosomal subunit S3 protein. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In general, KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=55.96 E-value=12 Score=31.22 Aligned_cols=28 Identities=7% Similarity=0.110 Sum_probs=22.0
Q ss_pred EEEEecCCCcCeeecCCCchHHHHHHHc
Q 005758 606 LEVVLPDYAVPKLITKSKTLLTRFSEMS 633 (678)
Q Consensus 606 ~~v~VP~~~vg~IIGkgG~~I~~Ir~~s 633 (678)
.++.|-...-|.+||++|++|++|++.-
T Consensus 40 i~V~I~t~~pg~iIGk~G~~I~~l~~~l 67 (85)
T cd02411 40 TQITIYAERPGMVIGRGGKNIRELTEIL 67 (85)
T ss_pred EEEEEEECCCCceECCCchhHHHHHHHH
Confidence 4444444788999999999999988764
No 133
>COG1782 Predicted metal-dependent RNase, consists of a metallo-beta-lactamase domain and an RNA-binding KH domain [General function prediction only]
Probab=55.76 E-value=17 Score=40.18 Aligned_cols=93 Identities=15% Similarity=0.205 Sum_probs=59.1
Q ss_pred EEeCCchHHHHHHHHhCCeEEEeCCCCCCCCcEEEEecCCCCCCcchHHHHHHHHHHHHhhccCCCCCCceEEEEeecCC
Q 005758 362 VIGESEGIVELLQNEIGVDLKVADPVDGSDEQIITISSEEGPDDELFPAQEALLHIQTRIVDLGADKDNIITTRLLVPSS 441 (678)
Q Consensus 362 IIG~~G~~I~~I~~~tg~~I~i~~~~~~~~er~v~I~G~~g~~~~~~~a~~~i~~i~~~i~~~~~~~~~~~~~~l~VP~~ 441 (678)
++-+.|..|++|-++.--+|.|-.. ..+. . .-..|.+.|.++...-....+..-...+-.+.|-.+
T Consensus 43 ~~~~~~dlik~lAk~lrKRI~iR~d------Psvl-~-------~~e~A~~~I~eivP~ea~i~~i~Fd~~tGEViIea~ 108 (637)
T COG1782 43 LFAKDGDLIKDLAKDLRKRIIIRPD------PSVL-K-------PPEEARKIILEIVPEEAGITDIYFDDDTGEVIIEAK 108 (637)
T ss_pred HhccchhHHHHHHHHHhhceEeccC------chhc-C-------CHHHHHHHHHHhCccccCceeEEecCCCceEEEEec
Confidence 3446889999999999888888431 1111 1 123455555555422122111111123445667778
Q ss_pred cceeeecCCch-hHHHHhhcCCeEEEec
Q 005758 442 EIGCLEGRDGS-LSEMRRSTGANIQILS 468 (678)
Q Consensus 442 ~~g~iIGkgG~-Ik~I~~~tga~I~v~~ 468 (678)
.-|.+|||+|+ .++|..+||-.-.+..
T Consensus 109 KPGlvigk~g~~~reI~~~tgW~p~ivR 136 (637)
T COG1782 109 KPGLVIGKGGSTLREITAETGWAPKIVR 136 (637)
T ss_pred CCceEEecCchHHHHHHHHhCCcceeee
Confidence 88999999999 9999999998877764
No 134
>COG0092 RpsC Ribosomal protein S3 [Translation, ribosomal structure and biogenesis]
Probab=55.30 E-value=9.5 Score=38.03 Aligned_cols=31 Identities=35% Similarity=0.523 Sum_probs=26.3
Q ss_pred EEEEEEeeCceeceecccCchhHHhHHhHhC
Q 005758 79 TTYRILCHDMKAGGVIGKSGSIIKSIRQHTG 109 (678)
Q Consensus 79 ~~~~ilip~~~~g~IIGk~G~~Ik~i~~~tg 109 (678)
..+++.|....-|.||||+|+.|++|++...
T Consensus 51 ~~~~V~I~aarPg~VIGk~G~~I~~L~~~l~ 81 (233)
T COG0092 51 KGTRVTIHAARPGLVIGKKGSNIEKLRKELE 81 (233)
T ss_pred CceEEEEEeCCCcceEcCCCccHHHHHHHHH
Confidence 4567888899999999999999999887643
No 135
>COG0092 RpsC Ribosomal protein S3 [Translation, ribosomal structure and biogenesis]
Probab=54.20 E-value=12 Score=37.32 Aligned_cols=30 Identities=10% Similarity=0.050 Sum_probs=25.3
Q ss_pred cEEEEEecCCCcCeeecCCCchHHHHHHHc
Q 005758 604 STLEVVLPDYAVPKLITKSKTLLTRFSEMS 633 (678)
Q Consensus 604 ~t~~v~VP~~~vg~IIGkgG~~I~~Ir~~s 633 (678)
....|+|-...=|.|||++|++|++|++..
T Consensus 51 ~~~~V~I~aarPg~VIGk~G~~I~~L~~~l 80 (233)
T COG0092 51 KGTRVTIHAARPGLVIGKKGSNIEKLRKEL 80 (233)
T ss_pred CceEEEEEeCCCcceEcCCCccHHHHHHHH
Confidence 457788888899999999999999987643
No 136
>cd02412 30S_S3_KH K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In general, KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=52.97 E-value=12 Score=32.99 Aligned_cols=30 Identities=13% Similarity=0.107 Sum_probs=24.7
Q ss_pred EEEEEecCCCcCeeecCCCchHHHHHHHcC
Q 005758 605 TLEVVLPDYAVPKLITKSKTLLTRFSEMSG 634 (678)
Q Consensus 605 t~~v~VP~~~vg~IIGkgG~~I~~Ir~~sG 634 (678)
..+|.|-...-|.|||++|++|++|++...
T Consensus 62 ~i~I~I~t~rPg~vIG~~G~~i~~L~~~l~ 91 (109)
T cd02412 62 RVEVTIHTARPGIIIGKKGAGIEKLRKELQ 91 (109)
T ss_pred CEEEEEEeCCCCcccCCchHHHHHHHHHHH
Confidence 366667777789999999999999988753
No 137
>TIGR03675 arCOG00543 arCOG00543 universal archaeal KH-domain/beta-lactamase-domain protein. This family of proteins is universal in the archaea and consistsof an N-terminal type-1 KH-domain (pfam00013) a central beta-lactamase-domain (pfam00753) with a C-terminal motif associated with RNA metabolism (pfam07521). KH-domains are associated with RNA-binding, so taken together, this protein is a likely metal-dependent RNAase. This family was defined in as arCOG01782.
Probab=47.28 E-value=27 Score=40.80 Aligned_cols=92 Identities=15% Similarity=0.214 Sum_probs=57.5
Q ss_pred EeCCchHHHHHHHHhCCeEEEeCCCCCCCCcEEEEecCCCCCCcchHHHHHHHHHHHHhhccCCCCCCceEEEEeecCCc
Q 005758 363 IGESEGIVELLQNEIGVDLKVADPVDGSDEQIITISSEEGPDDELFPAQEALLHIQTRIVDLGADKDNIITTRLLVPSSE 442 (678)
Q Consensus 363 IG~~G~~I~~I~~~tg~~I~i~~~~~~~~er~v~I~G~~g~~~~~~~a~~~i~~i~~~i~~~~~~~~~~~~~~l~VP~~~ 442 (678)
+-.++..|++|-++.--+|.|-.. .. +. . .-..|.+.|.++...-.+..+-.-...+-.+.|-.+.
T Consensus 38 ~~~~~~~~~~~~~~~~~r~~~~~~-----~~-~~-~-------~~~~~~~~i~~~~~~~~~~~~~~f~~~~~~v~i~~~~ 103 (630)
T TIGR03675 38 FAKDDDLVKELAKKLRKRIVIRPD-----PS-VL-L-------PPEEAIEKIKEIVPEEAGITDIYFDDVTGEVIIEAEK 103 (630)
T ss_pred hccchHHHHHHHHHhhceEEEecC-----hh-hc-C-------CHHHHHHHHHHhCCCcCCceeEEecCCCceEEEEEcC
Confidence 345778999999998888877421 11 11 1 1134555555444221111110112234456667788
Q ss_pred ceeeecCCch-hHHHHhhcCCeEEEec
Q 005758 443 IGCLEGRDGS-LSEMRRSTGANIQILS 468 (678)
Q Consensus 443 ~g~iIGkgG~-Ik~I~~~tga~I~v~~ 468 (678)
-|.+|||+|+ +++|..+||-.-.|..
T Consensus 104 p~~~~~~~~~~~~~i~~~~~w~~~~~~ 130 (630)
T TIGR03675 104 PGLVIGKGGSTLREITAETGWTPKVVR 130 (630)
T ss_pred CeEEEecCcchHHHHHHHhCCeeeEEe
Confidence 8999999999 9999999999988865
No 138
>TIGR03675 arCOG00543 arCOG00543 universal archaeal KH-domain/beta-lactamase-domain protein. This family of proteins is universal in the archaea and consistsof an N-terminal type-1 KH-domain (pfam00013) a central beta-lactamase-domain (pfam00753) with a C-terminal motif associated with RNA metabolism (pfam07521). KH-domains are associated with RNA-binding, so taken together, this protein is a likely metal-dependent RNAase. This family was defined in as arCOG01782.
Probab=46.35 E-value=47 Score=38.81 Aligned_cols=131 Identities=18% Similarity=0.294 Sum_probs=78.9
Q ss_pred ecccCchhHHhHHhHhCCEEEEccCCCCCCccEEEEecCCCCCCCCCCCCCchHHHHHHHHHHHhhccCCCCCCCCCccc
Q 005758 93 VIGKSGSIIKSIRQHTGAWINVHELIPGDEERIIEISDTRRRDPEGRMPSFSPAQEALFLIHDRILESDGGGGFYGEEEE 172 (678)
Q Consensus 93 IIGk~G~~Ik~i~~~tga~I~v~~~~~~~~ervv~i~G~~~~~~~~~~~~~~~~~~a~~~i~~~i~e~~~~~~~~~~~~~ 172 (678)
.+=..|..|+.|.++-.-+|.|-.. +. +.- .-.+|...|.+.+-+... - .+.
T Consensus 37 ~~~~~~~~~~~~~~~~~~r~~~~~~----~~----~~~--------------~~~~~~~~i~~~~~~~~~-~-----~~~ 88 (630)
T TIGR03675 37 LFAKDDDLVKELAKKLRKRIVIRPD----PS----VLL--------------PPEEAIEKIKEIVPEEAG-I-----TDI 88 (630)
T ss_pred HhccchHHHHHHHHHhhceEEEecC----hh----hcC--------------CHHHHHHHHHHhCCCcCC-c-----eeE
Confidence 3346789999999999999998421 11 111 123677777776633211 0 000
Q ss_pred ccCCCCCCCCCCcCCCCCceEEEEEEcccccceecccCchhHHHHHhccCceEEEecCCCCCCCccCCCCceeeccCCHH
Q 005758 173 EYGGGGGVGGGGFRGGGNRVATRMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRILPRDHSLPRCVSMSEEIVQVVGDIN 252 (678)
Q Consensus 173 ~~~~~~~~~~~~~~~~~~~~~~~l~vp~~~~g~iIGk~G~~I~~I~~~tg~~I~i~~~~~~~p~~~~~~~~~V~I~G~~~ 252 (678)
-+ ...+-.+.|-.+.-|.+|||+|.++++|..+||-.-+|... .|- ....+-.|.-...
T Consensus 89 ~f---------------~~~~~~v~i~~~~p~~~~~~~~~~~~~i~~~~~w~~~~~~~---~~~---~~~~~~~~~~~~~ 147 (630)
T TIGR03675 89 YF---------------DDVTGEVIIEAEKPGLVIGKGGSTLREITAETGWTPKVVRT---PPI---ESKTIKNIREYLR 147 (630)
T ss_pred Ee---------------cCCCceEEEEEcCCeEEEecCcchHHHHHHHhCCeeeEEec---CCC---CcHHHHHHHHHHH
Confidence 01 12345678888889999999999999999999988777542 121 1122223333344
Q ss_pred HHHHHHHHHHHHHhcccccC
Q 005758 253 NVKNAVAIISSRLRESQHRD 272 (678)
Q Consensus 253 ~v~~A~~~I~~~~~e~~~~~ 272 (678)
+...-++.+++.+-+..+++
T Consensus 148 ~~~~~r~~~l~~~~~~i~~~ 167 (630)
T TIGR03675 148 SESEERKEFLRKLGRRIHRD 167 (630)
T ss_pred HhHHHHHHHHHHHHHhhcCC
Confidence 44555666666666655554
No 139
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=41.76 E-value=51 Score=35.01 Aligned_cols=54 Identities=22% Similarity=0.254 Sum_probs=45.1
Q ss_pred CCCcCeeecCCCchHHHHHHHcCCeEEEecCCCCCceeEEEEEcCHHHHHHHHHHHH--HHHh
Q 005758 612 DYAVPKLITKSKTLLTRFSEMSGASVSLVEGQPEGTQKIIQISGTPEQVERAQSVLQ--GFIL 672 (678)
Q Consensus 612 ~~~vg~IIGkgG~~I~~Ir~~sGA~I~i~~~~~~~~~r~I~IsGt~eqv~~Ak~lI~--~~i~ 672 (678)
.+..-.|.|..+.+++.|.+..|++|... .+.++|+|+.+.|+.|...|+ +.+.
T Consensus 23 ~~~~~~l~G~~~~~l~l~e~~~gv~i~~r-------G~~~~i~g~~~~v~~A~~~l~~l~~~~ 78 (348)
T COG1702 23 DNELVALFGPTDTNLSLLEIALGVSIVAR-------GEAVRIIGARPLVDVATRVLLTLELLA 78 (348)
T ss_pred chhhhhhcCCCCccHHHHHHHhCcEEEeC-------CceEEEEechHHHHHHHHHHhHHHHHH
Confidence 45677889999999999999999888872 246999999889999999988 5443
No 140
>TIGR01008 rpsC_E_A ribosomal protein S3, eukaryotic/archaeal type. This model describes ribosomal protein S3 of the eukaryotic cytosol and of the archaea. TIGRFAMs model TIGR01009 describes the bacterial/organellar type, although the organellar types have a different architecture with long insertions and may score poorly.
Probab=30.63 E-value=44 Score=32.72 Aligned_cols=32 Identities=19% Similarity=0.356 Sum_probs=26.6
Q ss_pred EEEEEeeCceeceecccCchhHHhHHhHhCCE
Q 005758 80 TYRILCHDMKAGGVIGKSGSIIKSIRQHTGAW 111 (678)
Q Consensus 80 ~~~ilip~~~~g~IIGk~G~~Ik~i~~~tga~ 111 (678)
.+++.|....-|.|||++|..|++|++.-.-.
T Consensus 39 ~~~I~I~~~rPg~vIG~~g~~i~~l~~~l~k~ 70 (195)
T TIGR01008 39 GTKVIIFAERPGLVIGRGGRRIRELTEKLQKK 70 (195)
T ss_pred cEEEEEEECCCceEECCCchHHHHHHHHHHHH
Confidence 46778888889999999999999998875443
No 141
>PRK04191 rps3p 30S ribosomal protein S3P; Reviewed
Probab=29.87 E-value=45 Score=33.03 Aligned_cols=32 Identities=25% Similarity=0.324 Sum_probs=26.0
Q ss_pred EEEEeeCceeceecccCchhHHhHHhHhCCEE
Q 005758 81 YRILCHDMKAGGVIGKSGSIIKSIRQHTGAWI 112 (678)
Q Consensus 81 ~~ilip~~~~g~IIGk~G~~Ik~i~~~tga~I 112 (678)
+++.|....-|.+||++|++|++|++.-.-..
T Consensus 42 i~I~I~ta~PGivIGk~G~~I~klk~~Lkk~~ 73 (207)
T PRK04191 42 TRITIYAERPGMVIGRGGKNIRELTEILEKKF 73 (207)
T ss_pred EEEEEEECCCCeEECCCchhHHHHHHHHHHHh
Confidence 56666768889999999999999998865543
No 142
>TIGR00436 era GTP-binding protein Era. Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein.
Probab=29.58 E-value=53 Score=33.77 Aligned_cols=29 Identities=31% Similarity=0.329 Sum_probs=21.3
Q ss_pred EEEEEEeeC-ceeceecccCchhHHhHHhH
Q 005758 79 TTYRILCHD-MKAGGVIGKSGSIIKSIRQH 107 (678)
Q Consensus 79 ~~~~ilip~-~~~g~IIGk~G~~Ik~i~~~ 107 (678)
+...|+|.. +.-+.|||++|+.||+|..+
T Consensus 221 i~~~i~v~~~s~k~iiig~~g~~ik~i~~~ 250 (270)
T TIGR00436 221 IHALISVERESQKKIIIGKNGSMIKAIGIA 250 (270)
T ss_pred EEEEEEECcCCceeEEEcCCcHHHHHHHHH
Confidence 445555554 45688999999999988654
No 143
>CHL00048 rps3 ribosomal protein S3
Probab=29.42 E-value=46 Score=33.11 Aligned_cols=31 Identities=10% Similarity=0.068 Sum_probs=25.8
Q ss_pred EEEEEeeCceeceecccCchhHHhHHhHhCC
Q 005758 80 TYRILCHDMKAGGVIGKSGSIIKSIRQHTGA 110 (678)
Q Consensus 80 ~~~ilip~~~~g~IIGk~G~~Ik~i~~~tga 110 (678)
.+++.|....-|.|||++|.+|++|++.-.-
T Consensus 67 ~~~I~I~~~~Pg~vIG~~g~~i~~l~~~L~k 97 (214)
T CHL00048 67 LIQVIIYTGFPKLLIERKGRGIEELQINLQK 97 (214)
T ss_pred eEEEEEEECCCceEECCCcHhHHHHHHHHHH
Confidence 4667777888899999999999999987643
No 144
>PTZ00084 40S ribosomal protein S3; Provisional
Probab=27.93 E-value=50 Score=32.98 Aligned_cols=33 Identities=15% Similarity=0.281 Sum_probs=27.2
Q ss_pred EEEEeeCceeceecccCchhHHhHHhHhCCEEE
Q 005758 81 YRILCHDMKAGGVIGKSGSIIKSIRQHTGAWIN 113 (678)
Q Consensus 81 ~~ilip~~~~g~IIGk~G~~Ik~i~~~tga~I~ 113 (678)
+++.|....-|.|||++|..|++|++.-.-.+.
T Consensus 46 i~V~I~tarPg~vIG~~G~~i~~l~~~L~k~~~ 78 (220)
T PTZ00084 46 TEIIIRATRTREVLGDKGRRIRELTSLLQKRFG 78 (220)
T ss_pred EEEEEEECCCccEEcCCchHHHHHHHHHHHHhC
Confidence 667778888899999999999999988655543
No 145
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=26.93 E-value=1.1e+02 Score=32.51 Aligned_cols=58 Identities=17% Similarity=0.208 Sum_probs=47.1
Q ss_pred EEcccccceecccCchhHHHHHhccCceEEEecCCCCCCCccCCCCceeeccCCHHHHHHHHHHHH--HHHhc
Q 005758 197 VVSRMHVGCLLGKGGKIIEQMRMETKTQIRILPRDHSLPRCVSMSEEIVQVVGDINNVKNAVAIIS--SRLRE 267 (678)
Q Consensus 197 ~vp~~~~g~iIGk~G~~I~~I~~~tg~~I~i~~~~~~~p~~~~~~~~~V~I~G~~~~v~~A~~~I~--~~~~e 267 (678)
+-+....-.|.|..+.+++.|++.+|+.|... .+.++|+|+..+|..|...+. .++..
T Consensus 20 ~~~~~~~~~l~G~~~~~l~l~e~~~gv~i~~r-------------G~~~~i~g~~~~v~~A~~~l~~l~~~~~ 79 (348)
T COG1702 20 LSDDNELVALFGPTDTNLSLLEIALGVSIVAR-------------GEAVRIIGARPLVDVATRVLLTLELLAE 79 (348)
T ss_pred cCCchhhhhhcCCCCccHHHHHHHhCcEEEeC-------------CceEEEEechHHHHHHHHHHhHHHHHHH
Confidence 34467788899999999999999999887764 356899999889999998888 44443
No 146
>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]
Probab=26.10 E-value=63 Score=33.90 Aligned_cols=31 Identities=23% Similarity=0.230 Sum_probs=25.8
Q ss_pred ccEEEEEecC-CCcCeeecCCCchHHHHHHHc
Q 005758 603 RSTLEVVLPD-YAVPKLITKSKTLLTRFSEMS 633 (678)
Q Consensus 603 ~~t~~v~VP~-~~vg~IIGkgG~~I~~Ir~~s 633 (678)
.+..+|.+|. .+...|||+||..|.+|-+.-
T Consensus 327 ~I~~~v~~pK~s~~klliGkgG~ki~qI~~~a 358 (379)
T KOG1423|consen 327 FIQVEVVCPKNSQKKLLIGKGGKKISQIGTRA 358 (379)
T ss_pred EEEEEEEcCCCcceeEEEcCCCccHHHHHHHH
Confidence 5678999998 578889999999999886554
No 147
>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=26.05 E-value=1.4e+02 Score=28.30 Aligned_cols=58 Identities=14% Similarity=0.117 Sum_probs=44.3
Q ss_pred CCceEEEEEEcccccceecccCchhHHHHHhccCceEEEecCCCCCCCccCCCCceeeccCCHHHHHHHHHHHHHHH
Q 005758 189 GNRVATRMVVSRMHVGCLLGKGGKIIEQMRMETKTQIRILPRDHSLPRCVSMSEEIVQVVGDINNVKNAVAIISSRL 265 (678)
Q Consensus 189 ~~~~~~~l~vp~~~~g~iIGk~G~~I~~I~~~tg~~I~i~~~~~~~p~~~~~~~~~V~I~G~~~~v~~A~~~I~~~~ 265 (678)
.+..++|+.+|...+ =..+.+|.+-.|+-+.+. .+..|.|.|+.+.|.+|++.+..+-
T Consensus 110 ~~~~~iRv~l~~~i~-------~erl~ei~E~~gvI~Efe------------e~~~V~I~Gdke~Ik~aLKe~s~~w 167 (169)
T PF09869_consen 110 PGFETIRVKLKKPIQ-------EERLQEISEWHGVIFEFE------------EDDKVVIEGDKERIKKALKEFSSFW 167 (169)
T ss_pred CCceeEEEecCccch-------HHHHHHHHHHhceeEEec------------CCcEEEEeccHHHHHHHHHHHHHHh
Confidence 445567777776655 246688888899888872 2567999999999999999987653
No 148
>TIGR01008 rpsC_E_A ribosomal protein S3, eukaryotic/archaeal type. This model describes ribosomal protein S3 of the eukaryotic cytosol and of the archaea. TIGRFAMs model TIGR01009 describes the bacterial/organellar type, although the organellar types have a different architecture with long insertions and may score poorly.
Probab=25.79 E-value=69 Score=31.38 Aligned_cols=29 Identities=10% Similarity=0.072 Sum_probs=23.9
Q ss_pred EEEEEecCCCcCeeecCCCchHHHHHHHc
Q 005758 605 TLEVVLPDYAVPKLITKSKTLLTRFSEMS 633 (678)
Q Consensus 605 t~~v~VP~~~vg~IIGkgG~~I~~Ir~~s 633 (678)
..+|.|-...-+.|||++|.+|++|++.-
T Consensus 39 ~~~I~I~~~rPg~vIG~~g~~i~~l~~~l 67 (195)
T TIGR01008 39 GTKVIIFAERPGLVIGRGGRRIRELTEKL 67 (195)
T ss_pred cEEEEEEECCCceEECCCchHHHHHHHHH
Confidence 46677767778999999999999988764
No 149
>COG1847 Jag Predicted RNA-binding protein [General function prediction only]
Probab=25.62 E-value=51 Score=32.36 Aligned_cols=34 Identities=18% Similarity=0.351 Sum_probs=27.7
Q ss_pred EEEEEEcccccceecccCchhHHHHHhccCceEE
Q 005758 193 ATRMVVSRMHVGCLLGKGGKIIEQMRMETKTQIR 226 (678)
Q Consensus 193 ~~~l~vp~~~~g~iIGk~G~~I~~I~~~tg~~I~ 226 (678)
.+.+.|..+..+.|||+.|+++..||--+.+-++
T Consensus 92 ~v~~~i~~~~~~~LIG~~Gk~LdALQ~L~n~~l~ 125 (208)
T COG1847 92 RVVVSIEGEDAGRLIGKHGKTLDALQYLANLYLN 125 (208)
T ss_pred EEEEEecCCchhhhhccCCcchHHHHHHHHHHhh
Confidence 5667777888999999999999999977665433
No 150
>PF02749 QRPTase_N: Quinolinate phosphoribosyl transferase, N-terminal domain; InterPro: IPR022412 Quinolinate phosphoribosyl transferase (QPRTase) or nicotinate-nucleotide pyrophosphorylase 2.4.2.19 from EC is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid with 5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence of Mg2+ to give rise to nicotinic acid mononucleotide (NaMN), pyrophosphate and carbon dioxide [, ]. Unlike IPR004393 from INTERPRO, this domain also includes the molybdenum transport system protein ModD.; GO: 0016763 transferase activity, transferring pentosyl groups; PDB: 3L0G_B 1QAP_A 3C2O_A 3C2F_A 3C2E_A 3C2R_A 3C2V_A 2I14_C 1X1O_B 2B7Q_B ....
Probab=25.55 E-value=1.9e+02 Score=24.16 Aligned_cols=51 Identities=18% Similarity=0.184 Sum_probs=40.4
Q ss_pred CCchHHHHHHHcCCeEEEecCCC---CCceeEEEEEcCHHHHHHHHHHHHHHHh
Q 005758 622 SKTLLTRFSEMSGASVSLVEGQP---EGTQKIIQISGTPEQVERAQSVLQGFIL 672 (678)
Q Consensus 622 gG~~I~~Ir~~sGA~I~i~~~~~---~~~~r~I~IsGt~eqv~~Ak~lI~~~i~ 672 (678)
|=..+.++=+..|+.++..-+.. ..++.+++|+|+..++-.|...+++++.
T Consensus 32 G~~~~~~i~~~l~~~v~~~~~dG~~v~~g~~i~~i~G~a~~ll~~ER~~LN~l~ 85 (88)
T PF02749_consen 32 GLEEAEEIFEKLGLEVEWLVKDGDRVEPGDVILEIEGPARALLTAERTALNFLQ 85 (88)
T ss_dssp SHHHHHHHHHHCTEEEEESS-TT-EEETTCEEEEEEEEHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHhhccEEEEEEeCCCCCccCCcEEEEEEeCHHHHHHHHHHHHHHHH
Confidence 55667888888898888764322 2356789999999999999999999885
No 151
>PRK15494 era GTPase Era; Provisional
Probab=23.95 E-value=76 Score=33.97 Aligned_cols=37 Identities=24% Similarity=0.265 Sum_probs=24.9
Q ss_pred EEEEEEeeC-ceeceecccCchhHHhHHhH--------hCCEEEEc
Q 005758 79 TTYRILCHD-MKAGGVIGKSGSIIKSIRQH--------TGAWINVH 115 (678)
Q Consensus 79 ~~~~ilip~-~~~g~IIGk~G~~Ik~i~~~--------tga~I~v~ 115 (678)
+...|+|.. +.-+.|||++|+.||+|..+ .+++|.+.
T Consensus 273 i~~~i~v~~~sqk~iiiG~~g~~ik~i~~~ar~~le~~~~~~v~l~ 318 (339)
T PRK15494 273 INQVIVVSRESYKTIILGKNGSKIKEIGAKSRMQMERFFGFPVHLF 318 (339)
T ss_pred EEEEEEECCCCceeEEEcCCcHHHHHHHHHHHHHHHHHhCCCeEEE
Confidence 344455554 45678999999999987543 45555553
No 152
>TIGR00436 era GTP-binding protein Era. Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein.
Probab=23.59 E-value=79 Score=32.47 Aligned_cols=37 Identities=11% Similarity=0.087 Sum_probs=27.8
Q ss_pred ccEEEEEecC-CCcCeeecCCCchHHHHHHH--------cCCeEEE
Q 005758 603 RSTLEVVLPD-YAVPKLITKSKTLLTRFSEM--------SGASVSL 639 (678)
Q Consensus 603 ~~t~~v~VP~-~~vg~IIGkgG~~I~~Ir~~--------sGA~I~i 639 (678)
.+...|.|.. ++-+-|||++|+.|++|... .|++|.+
T Consensus 220 ~i~~~i~v~~~s~k~iiig~~g~~ik~i~~~ar~~l~~~~~~~v~l 265 (270)
T TIGR00436 220 KIHALISVERESQKKIIIGKNGSMIKAIGIAARKDILELFDCDVFL 265 (270)
T ss_pred EEEEEEEECcCCceeEEEcCCcHHHHHHHHHHHHHHHHHhCCCEEE
Confidence 3567888887 57788999999999887654 4665554
No 153
>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=23.17 E-value=2e+02 Score=23.01 Aligned_cols=49 Identities=18% Similarity=0.384 Sum_probs=35.0
Q ss_pred CCchHHHHHHHcCCeEEEecCC-----CCC-ceeEEEEEcCHHHHHHHHHHHHHH
Q 005758 622 SKTLLTRFSEMSGASVSLVEGQ-----PEG-TQKIIQISGTPEQVERAQSVLQGF 670 (678)
Q Consensus 622 gG~~I~~Ir~~sGA~I~i~~~~-----~~~-~~r~I~IsGt~eqv~~Ak~lI~~~ 670 (678)
..--|.+|.+.+|..+.|-... ..+ +.=.+.+.|+.+++++|...|.+.
T Consensus 15 ~~piis~l~~~~~v~~nIl~g~i~~i~~~~~G~l~l~l~g~~~~~~~a~~~L~~~ 69 (76)
T PF09383_consen 15 QEPIISQLIREFGVDVNILHGNIEEIQGTPFGILILELPGDDEEIEKAIAYLREQ 69 (76)
T ss_dssp SSCHHHHHHHHHT-EEEEEEEEEEEETTEEEEEEEEEEES-HHHHHHHHHHHHHT
T ss_pred CchHHHHHHHHhCCCEEEEEEEeEEcCCeeEEEEEEEEECCHHHHHHHHHHHHHC
Confidence 3456899999999999987321 111 223599999999999999998764
No 154
>PRK04191 rps3p 30S ribosomal protein S3P; Reviewed
Probab=23.07 E-value=81 Score=31.24 Aligned_cols=28 Identities=7% Similarity=0.095 Sum_probs=21.9
Q ss_pred EEEEecCCCcCeeecCCCchHHHHHHHc
Q 005758 606 LEVVLPDYAVPKLITKSKTLLTRFSEMS 633 (678)
Q Consensus 606 ~~v~VP~~~vg~IIGkgG~~I~~Ir~~s 633 (678)
.++.|-...-|.+||++|++|++|++.-
T Consensus 42 i~I~I~ta~PGivIGk~G~~I~klk~~L 69 (207)
T PRK04191 42 TRITIYAERPGMVIGRGGKNIRELTEIL 69 (207)
T ss_pred EEEEEEECCCCeEECCCchhHHHHHHHH
Confidence 4444444778999999999999988765
No 155
>COG1847 Jag Predicted RNA-binding protein [General function prediction only]
Probab=22.83 E-value=59 Score=31.95 Aligned_cols=36 Identities=19% Similarity=0.361 Sum_probs=28.6
Q ss_pred EEEEEEeeCceeceecccCchhHHhHHhHhCCEEEE
Q 005758 79 TTYRILCHDMKAGGVIGKSGSIIKSIRQHTGAWINV 114 (678)
Q Consensus 79 ~~~~ilip~~~~g~IIGk~G~~Ik~i~~~tga~I~v 114 (678)
-.+.+-|..+..+.|||+.|.++..||--+++-++-
T Consensus 91 ~~v~~~i~~~~~~~LIG~~Gk~LdALQ~L~n~~l~~ 126 (208)
T COG1847 91 RRVVVSIEGEDAGRLIGKHGKTLDALQYLANLYLNK 126 (208)
T ss_pred cEEEEEecCCchhhhhccCCcchHHHHHHHHHHhhh
Confidence 344555666679999999999999999988876665
No 156
>CHL00048 rps3 ribosomal protein S3
Probab=22.83 E-value=85 Score=31.26 Aligned_cols=29 Identities=10% Similarity=0.024 Sum_probs=23.8
Q ss_pred EEEEEecCCCcCeeecCCCchHHHHHHHc
Q 005758 605 TLEVVLPDYAVPKLITKSKTLLTRFSEMS 633 (678)
Q Consensus 605 t~~v~VP~~~vg~IIGkgG~~I~~Ir~~s 633 (678)
..+|.|-...-+.|||++|.+|++|++.-
T Consensus 67 ~~~I~I~~~~Pg~vIG~~g~~i~~l~~~L 95 (214)
T CHL00048 67 LIQVIIYTGFPKLLIERKGRGIEELQINL 95 (214)
T ss_pred eEEEEEEECCCceEECCCcHhHHHHHHHH
Confidence 46666666778999999999999998775
No 157
>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=22.49 E-value=1.9e+02 Score=27.39 Aligned_cols=39 Identities=26% Similarity=0.342 Sum_probs=32.3
Q ss_pred hHHHHhhcCCeEEEeccCCCCCCCCCCCeEEEEEecHHHHHHHHHHHHHH
Q 005758 453 LSEMRRSTGANIQILSREEVPACVSGTDELVQIVGEIQAARDALVEVTTR 502 (678)
Q Consensus 453 Ik~I~~~tga~I~v~~~~~~p~~~~~~~~~V~I~G~~~~v~~A~~~I~~~ 502 (678)
+.+|.+-.|+-+.+- ++.+|.|-|..+.|.+|+..+...
T Consensus 128 l~ei~E~~gvI~Efe-----------e~~~V~I~Gdke~Ik~aLKe~s~~ 166 (169)
T PF09869_consen 128 LQEISEWHGVIFEFE-----------EDDKVVIEGDKERIKKALKEFSSF 166 (169)
T ss_pred HHHHHHHhceeEEec-----------CCcEEEEeccHHHHHHHHHHHHHH
Confidence 578888899988871 455799999999999999988754
No 158
>PTZ00084 40S ribosomal protein S3; Provisional
Probab=22.35 E-value=80 Score=31.56 Aligned_cols=28 Identities=4% Similarity=0.191 Sum_probs=23.0
Q ss_pred EEEEecCCCcCeeecCCCchHHHHHHHc
Q 005758 606 LEVVLPDYAVPKLITKSKTLLTRFSEMS 633 (678)
Q Consensus 606 ~~v~VP~~~vg~IIGkgG~~I~~Ir~~s 633 (678)
.+|.|-...-|.|||++|..|++|++.-
T Consensus 46 i~V~I~tarPg~vIG~~G~~i~~l~~~L 73 (220)
T PTZ00084 46 TEIIIRATRTREVLGDKGRRIRELTSLL 73 (220)
T ss_pred EEEEEEECCCccEEcCCchHHHHHHHHH
Confidence 6666666778999999999999988664
No 159
>COG1159 Era GTPase [General function prediction only]
Probab=21.76 E-value=92 Score=32.48 Aligned_cols=37 Identities=14% Similarity=0.258 Sum_probs=28.5
Q ss_pred ccEEEEEecC-CCcCeeecCCCchHHHHH--------HHcCCeEEE
Q 005758 603 RSTLEVVLPD-YAVPKLITKSKTLLTRFS--------EMSGASVSL 639 (678)
Q Consensus 603 ~~t~~v~VP~-~~vg~IIGkgG~~I~~Ir--------~~sGA~I~i 639 (678)
.+...+.|+. ++-+-||||+|+.|++|- +..|++|.+
T Consensus 228 ~I~a~I~Ver~sQK~IiIGk~G~~iK~IG~~AR~~ie~l~~~kV~L 273 (298)
T COG1159 228 KIHATIYVERESQKGIIIGKNGAMIKKIGTAARKDIEKLLGCKVYL 273 (298)
T ss_pred EEEEEEEEecCCccceEECCCcHHHHHHHHHHHHHHHHHhCCceEE
Confidence 4567788887 578999999999998765 445777666
No 160
>PRK00089 era GTPase Era; Reviewed
Probab=21.59 E-value=90 Score=32.37 Aligned_cols=34 Identities=26% Similarity=0.455 Sum_probs=22.9
Q ss_pred EEEeeC-ceeceecccCchhHHhHHhH--------hCCEEEEc
Q 005758 82 RILCHD-MKAGGVIGKSGSIIKSIRQH--------TGAWINVH 115 (678)
Q Consensus 82 ~ilip~-~~~g~IIGk~G~~Ik~i~~~--------tga~I~v~ 115 (678)
.|.|.. +.-+.|||++|++||+|..+ .+++|.+.
T Consensus 229 ~i~v~~~~~k~i~ig~~g~~i~~i~~~ar~~l~~~~~~~v~l~ 271 (292)
T PRK00089 229 TIYVERDSQKGIIIGKGGAMLKKIGTEARKDIEKLLGKKVFLE 271 (292)
T ss_pred EEEEccCCceeEEEeCCcHHHHHHHHHHHHHHHHHhCCCEEEE
Confidence 344433 45688999999999987544 55655554
No 161
>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]
Probab=21.54 E-value=81 Score=33.13 Aligned_cols=32 Identities=22% Similarity=0.368 Sum_probs=24.7
Q ss_pred cEEEEEEeeCc-eeceecccCchhHHhHHhHhC
Q 005758 78 TTTYRILCHDM-KAGGVIGKSGSIIKSIRQHTG 109 (678)
Q Consensus 78 ~~~~~ilip~~-~~g~IIGk~G~~Ik~i~~~tg 109 (678)
.+..++.||.. ....||||+|..|++|-++-+
T Consensus 327 ~I~~~v~~pK~s~~klliGkgG~ki~qI~~~a~ 359 (379)
T KOG1423|consen 327 FIQVEVVCPKNSQKKLLIGKGGKKISQIGTRAN 359 (379)
T ss_pred EEEEEEEcCCCcceeEEEcCCCccHHHHHHHHH
Confidence 45667888874 456789999999999977644
No 162
>PRK00089 era GTPase Era; Reviewed
Probab=21.44 E-value=90 Score=32.36 Aligned_cols=38 Identities=18% Similarity=0.245 Sum_probs=29.0
Q ss_pred ccEEEEEecC-CCcCeeecCCCchHHHHH--------HHcCCeEEEe
Q 005758 603 RSTLEVVLPD-YAVPKLITKSKTLLTRFS--------EMSGASVSLV 640 (678)
Q Consensus 603 ~~t~~v~VP~-~~vg~IIGkgG~~I~~Ir--------~~sGA~I~i~ 640 (678)
.+..+|.|.. ++-+-|||++|+.|++|. +.+|++|.+.
T Consensus 225 ~i~~~i~v~~~~~k~i~ig~~g~~i~~i~~~ar~~l~~~~~~~v~l~ 271 (292)
T PRK00089 225 RIEATIYVERDSQKGIIIGKGGAMLKKIGTEARKDIEKLLGKKVFLE 271 (292)
T ss_pred EEEEEEEEccCCceeEEEeCCcHHHHHHHHHHHHHHHHHhCCCEEEE
Confidence 3667888887 467889999999998765 4567777764
No 163
>COG1159 Era GTPase [General function prediction only]
Probab=21.28 E-value=87 Score=32.67 Aligned_cols=28 Identities=25% Similarity=0.612 Sum_probs=21.6
Q ss_pred ceEEEEEEcc-cccceecccCchhHHHHH
Q 005758 191 RVATRMVVSR-MHVGCLLGKGGKIIEQMR 218 (678)
Q Consensus 191 ~~~~~l~vp~-~~~g~iIGk~G~~I~~I~ 218 (678)
.+...|.|+. ++-+.||||+|++||+|-
T Consensus 228 ~I~a~I~Ver~sQK~IiIGk~G~~iK~IG 256 (298)
T COG1159 228 KIHATIYVERESQKGIIIGKNGAMIKKIG 256 (298)
T ss_pred EEEEEEEEecCCccceEECCCcHHHHHHH
Confidence 3445567775 567899999999999864
No 164
>PRK15494 era GTPase Era; Provisional
Probab=21.25 E-value=91 Score=33.38 Aligned_cols=37 Identities=14% Similarity=0.166 Sum_probs=28.6
Q ss_pred cEEEEEecC-CCcCeeecCCCchHHHHHH--------HcCCeEEEe
Q 005758 604 STLEVVLPD-YAVPKLITKSKTLLTRFSE--------MSGASVSLV 640 (678)
Q Consensus 604 ~t~~v~VP~-~~vg~IIGkgG~~I~~Ir~--------~sGA~I~i~ 640 (678)
+...|.|.. ++-+-|||++|+.|++|.. .+|++|.+.
T Consensus 273 i~~~i~v~~~sqk~iiiG~~g~~ik~i~~~ar~~le~~~~~~v~l~ 318 (339)
T PRK15494 273 INQVIVVSRESYKTIILGKNGSKIKEIGAKSRMQMERFFGFPVHLF 318 (339)
T ss_pred EEEEEEECCCCceeEEEcCCcHHHHHHHHHHHHHHHHHhCCCeEEE
Confidence 567888887 5778899999999987654 557776663
No 165
>PRK15468 carboxysome structural protein EutS; Provisional
Probab=20.90 E-value=2.5e+02 Score=24.55 Aligned_cols=27 Identities=26% Similarity=0.373 Sum_probs=23.9
Q ss_pred eEEEEEecHHHHHHHHHHHHHHHHhhh
Q 005758 481 ELVQIVGEIQAARDALVEVTTRLRSYL 507 (678)
Q Consensus 481 ~~V~I~G~~~~v~~A~~~I~~~l~~~~ 507 (678)
..+.|+|...+|+.|+..+.+.+++.+
T Consensus 75 GslvitGdvs~Ve~Al~~V~~~l~~~L 101 (111)
T PRK15468 75 GALVIYGSVGAVEEALSQTVSGLGRLL 101 (111)
T ss_pred eeEEEEccHHHHHHHHHHHHHHHHhhc
Confidence 358899999999999999999998754
Done!