Query 001046
Match_columns 1176
No_of_seqs 924 out of 5312
Neff 7.3
Searched_HMMs 46136
Date Thu Mar 28 14:19:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001046.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001046hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0924 mRNA splicing factor A 100.0 6E-169 1E-173 1429.5 51.7 769 348-1144 198-977 (1042)
2 KOG0922 DEAH-box RNA helicase 100.0 1E-155 2E-160 1346.7 55.8 650 495-1146 22-673 (674)
3 KOG0923 mRNA splicing factor A 100.0 5E-153 1E-157 1300.5 50.2 633 513-1145 254-888 (902)
4 KOG0925 mRNA splicing factor A 100.0 2E-140 5E-145 1162.8 50.4 642 505-1153 29-681 (699)
5 PRK11131 ATP-dependent RNA hel 100.0 5E-119 1E-123 1135.8 61.1 623 518-1150 68-708 (1294)
6 TIGR01967 DEAH_box_HrpA ATP-de 100.0 6E-115 1E-119 1103.3 61.7 624 517-1151 60-699 (1283)
7 COG1643 HrpA HrpA-like helicas 100.0 5E-115 1E-119 1067.2 52.3 625 513-1143 39-717 (845)
8 KOG0926 DEAH-box RNA helicase 100.0 2E-112 5E-117 981.5 44.1 634 512-1146 244-1029(1172)
9 KOG0920 ATP-dependent RNA heli 100.0 2E-107 3E-112 993.9 46.1 626 512-1139 161-848 (924)
10 PRK11664 ATP-dependent RNA hel 100.0 4.8E-92 1E-96 882.0 58.6 573 522-1150 3-581 (812)
11 TIGR01970 DEAH_box_HrpB ATP-de 100.0 8.9E-92 1.9E-96 877.1 58.8 583 523-1150 1-588 (819)
12 KOG0921 Dosage compensation co 100.0 6.5E-63 1.4E-67 576.5 23.8 621 514-1140 368-1073(1282)
13 PHA02653 RNA helicase NPH-II; 100.0 1.8E-57 3.9E-62 556.5 39.1 394 527-956 167-595 (675)
14 PRK01172 ski2-like helicase; P 100.0 6.4E-41 1.4E-45 421.8 40.7 431 523-968 21-505 (674)
15 PRK02362 ski2-like helicase; P 100.0 2.2E-39 4.8E-44 410.7 40.0 428 525-968 24-529 (737)
16 KOG0331 ATP-dependent RNA heli 100.0 2.5E-40 5.4E-45 385.1 27.1 323 514-867 104-451 (519)
17 KOG0330 ATP-dependent RNA heli 100.0 2.5E-40 5.3E-45 361.2 20.6 307 527-866 86-409 (476)
18 PRK11776 ATP-dependent RNA hel 100.0 7.3E-38 1.6E-42 378.0 30.8 310 525-866 27-351 (460)
19 PTZ00110 helicase; Provisional 100.0 8.5E-38 1.8E-42 382.1 29.9 311 525-866 153-486 (545)
20 PRK00254 ski2-like helicase; P 100.0 1.3E-36 2.9E-41 384.4 40.7 425 524-970 23-523 (720)
21 COG0513 SrmB Superfamily II DN 100.0 2.4E-37 5.3E-42 374.7 28.7 307 526-864 53-380 (513)
22 PRK04837 ATP-dependent RNA hel 100.0 2.9E-37 6.2E-42 369.0 28.3 307 526-866 32-364 (423)
23 PLN00206 DEAD-box ATP-dependen 100.0 7.7E-37 1.7E-41 372.5 30.5 311 525-866 144-477 (518)
24 PRK10590 ATP-dependent RNA hel 100.0 1.1E-36 2.4E-41 366.6 30.3 309 525-866 24-354 (456)
25 PRK11634 ATP-dependent RNA hel 100.0 1.2E-36 2.6E-41 375.2 30.6 311 524-866 28-354 (629)
26 PRK11192 ATP-dependent RNA hel 100.0 1.5E-36 3.3E-41 364.1 30.3 311 525-867 24-355 (434)
27 KOG0333 U5 snRNP-like RNA heli 100.0 1.7E-37 3.6E-42 349.0 20.3 316 516-865 260-625 (673)
28 PRK04537 ATP-dependent RNA hel 100.0 1.4E-36 3E-41 372.7 29.4 308 525-866 32-366 (572)
29 PRK01297 ATP-dependent RNA hel 100.0 6.4E-36 1.4E-40 362.2 28.7 308 525-866 110-444 (475)
30 PTZ00424 helicase 45; Provisio 100.0 9.9E-36 2.1E-40 353.7 28.0 311 525-867 51-377 (401)
31 PLN03137 ATP-dependent DNA hel 100.0 6.9E-35 1.5E-39 362.5 31.2 327 505-867 441-790 (1195)
32 TIGR03817 DECH_helic helicase/ 100.0 1.9E-34 4.2E-39 362.2 34.1 316 524-863 36-385 (742)
33 KOG0338 ATP-dependent RNA heli 100.0 7.1E-36 1.5E-40 334.5 17.9 307 527-866 206-535 (691)
34 KOG0345 ATP-dependent RNA heli 100.0 5.7E-35 1.2E-39 325.8 24.3 326 527-883 31-385 (567)
35 TIGR00614 recQ_fam ATP-depende 100.0 2.4E-34 5.3E-39 347.4 30.6 306 525-867 12-336 (470)
36 KOG0342 ATP-dependent RNA heli 100.0 8.2E-35 1.8E-39 327.1 23.8 309 527-866 107-439 (543)
37 KOG0343 RNA Helicase [RNA proc 100.0 3.7E-35 7.9E-40 331.3 18.3 330 506-866 74-424 (758)
38 PRK11057 ATP-dependent DNA hel 100.0 8.9E-34 1.9E-38 351.3 30.1 306 525-867 26-346 (607)
39 COG1202 Superfamily II helicas 100.0 1.3E-33 2.8E-38 319.9 25.6 421 517-973 209-681 (830)
40 KOG0340 ATP-dependent RNA heli 100.0 7.5E-34 1.6E-38 307.3 21.7 307 527-866 32-363 (442)
41 KOG0336 ATP-dependent RNA heli 100.0 4.4E-34 9.6E-39 312.1 19.8 308 529-867 247-575 (629)
42 KOG0339 ATP-dependent RNA heli 100.0 1.6E-33 3.4E-38 315.0 23.1 308 527-867 248-578 (731)
43 KOG0348 ATP-dependent RNA heli 100.0 1.8E-33 4E-38 316.9 23.2 327 526-871 161-563 (708)
44 COG1204 Superfamily II helicas 100.0 1.1E-32 2.5E-37 342.5 31.2 416 525-956 32-526 (766)
45 KOG0328 Predicted ATP-dependen 100.0 2.3E-33 5E-38 294.6 20.6 309 527-867 52-376 (400)
46 KOG0334 RNA helicase [RNA proc 100.0 6.2E-34 1.3E-38 345.8 16.5 311 524-866 387-722 (997)
47 TIGR01389 recQ ATP-dependent D 100.0 2E-32 4.4E-37 339.9 29.3 302 525-867 14-334 (591)
48 PRK13767 ATP-dependent helicas 100.0 1.4E-32 3E-37 351.9 28.5 312 525-861 33-397 (876)
49 KOG0347 RNA helicase [RNA proc 100.0 2.7E-33 5.9E-38 316.4 15.9 340 490-866 176-572 (731)
50 KOG0335 ATP-dependent RNA heli 100.0 5.6E-33 1.2E-37 318.4 18.6 306 529-863 101-443 (482)
51 KOG0326 ATP-dependent RNA heli 100.0 6.3E-33 1.4E-37 295.5 15.9 305 529-866 112-431 (459)
52 KOG0350 DEAD-box ATP-dependent 100.0 2.2E-31 4.8E-36 298.7 20.4 319 520-866 155-542 (620)
53 KOG0332 ATP-dependent RNA heli 100.0 1.8E-31 4E-36 290.2 18.8 304 536-865 124-444 (477)
54 TIGR00580 mfd transcription-re 100.0 3.7E-30 8.1E-35 326.2 32.9 298 525-864 452-770 (926)
55 TIGR02621 cas3_GSU0051 CRISPR- 100.0 2.1E-30 4.6E-35 319.4 27.6 346 525-904 16-431 (844)
56 PRK09751 putative ATP-dependen 100.0 1.1E-30 2.4E-35 338.5 25.2 293 544-858 1-379 (1490)
57 KOG0341 DEAD-box protein abstr 100.0 3.6E-32 7.8E-37 295.4 8.9 308 528-866 196-530 (610)
58 PRK10917 ATP-dependent DNA hel 100.0 1E-29 2.2E-34 318.4 31.6 296 525-862 262-587 (681)
59 COG1201 Lhr Lhr-like helicases 100.0 4E-30 8.6E-35 315.3 27.0 302 526-861 24-361 (814)
60 PRK10689 transcription-repair 100.0 1.2E-29 2.7E-34 327.9 29.5 297 525-863 601-918 (1147)
61 TIGR00643 recG ATP-dependent D 100.0 1.7E-29 3.7E-34 314.4 28.5 299 525-862 236-564 (630)
62 TIGR01587 cas3_core CRISPR-ass 100.0 2.1E-29 4.4E-34 295.1 24.0 292 541-865 1-337 (358)
63 KOG0952 DNA/RNA helicase MER3/ 100.0 1.3E-28 2.8E-33 296.1 30.9 472 526-1009 112-683 (1230)
64 COG0514 RecQ Superfamily II DN 100.0 7.6E-29 1.6E-33 294.4 23.3 307 526-867 19-340 (590)
65 KOG0346 RNA helicase [RNA proc 100.0 4E-29 8.6E-34 276.7 19.2 307 527-866 44-412 (569)
66 KOG0344 ATP-dependent RNA heli 100.0 1.3E-28 2.8E-33 283.7 16.5 305 529-866 163-497 (593)
67 TIGR03158 cas3_cyano CRISPR-as 100.0 3.3E-27 7.2E-32 275.1 28.6 285 528-850 1-357 (357)
68 COG1111 MPH1 ERCC4-like helica 100.0 3.5E-27 7.7E-32 268.0 27.4 316 524-864 15-481 (542)
69 KOG4284 DEAD box protein [Tran 100.0 5.4E-28 1.2E-32 276.8 18.5 314 522-864 46-379 (980)
70 KOG0327 Translation initiation 99.9 5.2E-27 1.1E-31 258.7 18.9 331 491-868 27-374 (397)
71 KOG0354 DEAD-box like helicase 99.9 2.6E-26 5.7E-31 275.2 25.5 318 521-864 59-529 (746)
72 COG1205 Distinct helicase fami 99.9 1.7E-26 3.7E-31 291.4 24.8 322 520-862 66-420 (851)
73 PHA02558 uvsW UvsW helicase; P 99.9 1.5E-25 3.3E-30 272.5 28.5 296 523-856 113-443 (501)
74 KOG0951 RNA helicase BRR2, DEA 99.9 2.7E-25 5.8E-30 269.8 30.2 453 493-976 295-849 (1674)
75 PRK13766 Hef nuclease; Provisi 99.9 4E-25 8.6E-30 283.7 31.2 314 522-866 13-481 (773)
76 PRK09401 reverse gyrase; Revie 99.9 3.6E-25 7.8E-30 287.2 24.4 290 523-850 79-429 (1176)
77 KOG0948 Nuclear exosomal RNA h 99.9 1.2E-25 2.6E-30 261.6 16.0 319 523-864 128-539 (1041)
78 KOG0947 Cytoplasmic exosomal R 99.9 8.4E-25 1.8E-29 260.3 21.3 319 523-864 296-723 (1248)
79 KOG0337 ATP-dependent RNA heli 99.9 1.9E-25 4.1E-30 246.8 13.4 304 529-865 48-369 (529)
80 KOG0353 ATP-dependent DNA heli 99.9 1.1E-23 2.5E-28 228.3 25.7 383 426-865 15-468 (695)
81 KOG0352 ATP-dependent DNA heli 99.9 1.1E-24 2.4E-29 240.0 17.5 306 527-867 23-365 (641)
82 COG4581 Superfamily II RNA hel 99.9 4.3E-24 9.3E-29 265.4 24.0 325 520-863 115-536 (1041)
83 PRK14701 reverse gyrase; Provi 99.9 2.4E-24 5.2E-29 284.7 22.9 314 524-866 79-458 (1638)
84 TIGR00603 rad25 DNA repair hel 99.9 1.7E-23 3.6E-28 256.4 27.4 302 522-867 253-610 (732)
85 KOG0351 ATP-dependent DNA heli 99.9 2.1E-24 4.4E-29 270.3 18.9 313 520-867 260-595 (941)
86 TIGR03714 secA2 accessory Sec 99.9 7E-23 1.5E-27 250.9 31.1 308 520-866 64-539 (762)
87 PRK12898 secA preprotein trans 99.9 2.9E-23 6.2E-28 251.7 25.4 307 522-866 101-588 (656)
88 PRK09200 preprotein translocas 99.9 2E-23 4.3E-28 258.1 22.7 309 521-866 73-543 (790)
89 PRK09694 helicase Cas3; Provis 99.9 1.3E-22 2.8E-27 255.3 29.3 299 524-853 286-663 (878)
90 PRK05580 primosome assembly pr 99.9 7.1E-23 1.5E-27 256.0 25.4 314 523-859 143-544 (679)
91 TIGR01054 rgy reverse gyrase. 99.9 2.6E-22 5.7E-27 261.0 26.2 275 523-822 77-412 (1171)
92 TIGR00963 secA preprotein tran 99.9 2.4E-22 5.2E-27 244.7 21.6 308 522-866 52-519 (745)
93 TIGR00595 priA primosomal prot 99.9 2.6E-22 5.6E-27 242.7 20.4 293 543-858 1-375 (505)
94 COG4098 comFA Superfamily II D 99.9 2.9E-21 6.3E-26 209.4 25.7 290 529-858 106-410 (441)
95 PRK11448 hsdR type I restricti 99.9 2.7E-20 5.8E-25 240.7 30.4 316 523-863 412-814 (1123)
96 COG1197 Mfd Transcription-repa 99.9 9.6E-21 2.1E-25 235.6 25.0 295 529-865 599-914 (1139)
97 COG1200 RecG RecG-like helicas 99.9 1.6E-20 3.5E-25 222.7 25.4 308 520-864 256-591 (677)
98 KOG0950 DNA polymerase theta/e 99.9 5.4E-21 1.2E-25 230.6 21.5 332 517-865 216-612 (1008)
99 COG1061 SSL2 DNA or RNA helica 99.9 1.8E-20 3.9E-25 224.0 25.6 293 519-853 31-377 (442)
100 KOG0349 Putative DEAD-box RNA 99.8 2.9E-20 6.3E-25 205.2 11.0 268 570-862 288-613 (725)
101 PRK04914 ATP-dependent helicas 99.8 3.9E-18 8.6E-23 216.2 26.6 312 523-864 151-605 (956)
102 PF07717 OB_NTP_bind: Oligonuc 99.8 6.1E-20 1.3E-24 179.1 7.4 101 1038-1138 1-114 (114)
103 KOG0329 ATP-dependent RNA heli 99.8 2.8E-19 6E-24 186.3 11.9 273 527-866 67-357 (387)
104 PRK13104 secA preprotein trans 99.8 8.1E-18 1.8E-22 207.9 26.2 331 519-865 75-588 (896)
105 COG1203 CRISPR-associated heli 99.8 5.1E-18 1.1E-22 214.4 22.5 307 524-862 195-548 (733)
106 PRK12906 secA preprotein trans 99.8 5.2E-18 1.1E-22 208.8 21.0 109 729-866 438-555 (796)
107 KOG0921 Dosage compensation co 99.8 1.3E-20 2.7E-25 223.1 -3.6 438 519-968 401-887 (1282)
108 PRK12904 preprotein translocas 99.7 4.3E-17 9.4E-22 201.5 21.9 326 520-865 75-574 (830)
109 KOG0949 Predicted helicase, DE 99.7 2.4E-16 5.2E-21 189.1 21.9 162 523-688 510-682 (1330)
110 PF04408 HA2: Helicase associa 99.7 2.5E-17 5.4E-22 157.1 8.9 91 914-1004 1-102 (102)
111 PRK13107 preprotein translocas 99.7 6.6E-16 1.4E-20 190.5 21.3 125 520-646 76-212 (908)
112 PRK12899 secA preprotein trans 99.7 4.1E-15 9E-20 183.6 27.5 123 522-646 88-225 (970)
113 KOG0953 Mitochondrial RNA heli 99.7 5.7E-16 1.2E-20 177.4 18.4 275 538-864 190-477 (700)
114 PF00270 DEAD: DEAD/DEAH box h 99.7 5.6E-16 1.2E-20 161.2 14.5 154 527-683 2-166 (169)
115 COG1098 VacB Predicted RNA bin 99.6 1.5E-16 3.2E-21 149.4 5.5 77 220-298 2-79 (129)
116 cd00268 DEADc DEAD-box helicas 99.6 9.5E-15 2.1E-19 157.1 17.9 166 524-692 21-200 (203)
117 smart00847 HA2 Helicase associ 99.6 1.5E-15 3.3E-20 142.2 9.3 90 914-1004 1-92 (92)
118 COG4096 HsdR Type I site-speci 99.6 1.5E-13 3.2E-18 165.7 26.2 335 523-892 164-575 (875)
119 COG1198 PriA Primosomal protei 99.6 4.1E-14 8.9E-19 174.0 21.3 314 522-858 196-597 (730)
120 PRK12900 secA preprotein trans 99.6 3.9E-14 8.5E-19 175.5 19.8 109 729-866 596-713 (1025)
121 TIGR00348 hsdR type I site-spe 99.5 2.7E-13 5.8E-18 170.2 23.7 286 539-856 263-639 (667)
122 KOG4150 Predicted ATP-dependen 99.5 2.7E-14 5.8E-19 162.7 12.4 310 523-853 285-628 (1034)
123 COG1110 Reverse gyrase [DNA re 99.5 1.7E-12 3.7E-17 158.5 24.4 274 522-821 80-419 (1187)
124 TIGR00631 uvrb excinuclease AB 99.5 3.6E-13 7.8E-18 167.3 15.3 115 729-865 440-554 (655)
125 TIGR01407 dinG_rel DnaQ family 99.5 9.6E-12 2.1E-16 160.8 28.3 139 713-860 657-811 (850)
126 PTZ00248 eukaryotic translatio 99.5 1.4E-13 3E-18 153.8 9.7 97 220-322 14-112 (319)
127 PLN03142 Probable chromatin-re 99.5 4.6E-12 1E-16 162.0 24.7 307 524-868 169-603 (1033)
128 COG0539 RpsA Ribosomal protein 99.5 9.6E-14 2.1E-18 164.1 8.7 97 218-323 187-285 (541)
129 smart00487 DEXDc DEAD-like hel 99.4 2.6E-12 5.6E-17 135.8 17.1 164 523-689 7-183 (201)
130 TIGR02562 cas3_yersinia CRISPR 99.4 1.3E-11 2.8E-16 154.1 24.6 310 519-855 403-882 (1110)
131 PRK12326 preprotein translocas 99.4 2.6E-11 5.6E-16 147.2 24.8 122 521-646 73-208 (764)
132 cd00046 DEXDc DEAD-like helica 99.4 3.8E-12 8.3E-17 126.5 14.5 136 540-678 1-144 (144)
133 cd00079 HELICc Helicase superf 99.4 1.7E-12 3.8E-17 128.6 11.9 104 730-860 27-131 (131)
134 PRK05298 excinuclease ABC subu 99.4 2.3E-12 4.9E-17 161.3 15.7 113 729-863 444-556 (652)
135 COG0539 RpsA Ribosomal protein 99.4 7.7E-13 1.7E-17 156.5 8.1 99 217-323 271-371 (541)
136 PF07652 Flavi_DEAD: Flaviviru 99.4 3E-12 6.6E-17 126.6 10.8 135 537-679 2-137 (148)
137 cd05686 S1_pNO40 S1_pNO40: pNO 99.3 4.8E-12 1E-16 113.2 9.2 71 221-292 1-72 (73)
138 PF00271 Helicase_C: Helicase 99.3 1.7E-12 3.8E-17 117.4 5.8 73 763-853 6-78 (78)
139 cd05704 S1_Rrp5_repeat_hs13 S1 99.3 5.6E-12 1.2E-16 112.4 8.5 70 222-293 2-72 (72)
140 PRK08582 hypothetical protein; 99.3 1.1E-11 2.4E-16 124.4 10.4 76 221-298 3-79 (139)
141 PRK13103 secA preprotein trans 99.3 4.9E-11 1.1E-15 148.0 18.4 125 520-646 76-212 (913)
142 PRK07246 bifunctional ATP-depe 99.3 8.9E-10 1.9E-14 141.0 30.0 135 712-860 630-780 (820)
143 PRK12903 secA preprotein trans 99.3 2.7E-10 5.9E-15 140.1 23.9 117 717-865 414-540 (925)
144 cd05684 S1_DHX8_helicase S1_DH 99.3 1.9E-11 4.2E-16 111.1 10.3 77 224-300 1-79 (79)
145 COG0556 UvrB Helicase subunit 99.3 1.1E-09 2.3E-14 126.4 26.2 166 669-862 387-555 (663)
146 PHA02945 interferon resistance 99.3 2.4E-11 5.2E-16 108.3 9.1 76 220-298 8-87 (88)
147 PF04851 ResIII: Type III rest 99.2 1.9E-11 4.1E-16 128.5 9.6 146 523-679 2-183 (184)
148 KOG0951 RNA helicase BRR2, DEA 99.2 1.4E-10 3E-15 143.5 18.0 325 527-876 1146-1508(1674)
149 cd04452 S1_IF2_alpha S1_IF2_al 99.2 4.5E-11 9.8E-16 107.6 9.7 74 221-294 1-76 (76)
150 cd05705 S1_Rrp5_repeat_hs14 S1 99.2 4.2E-11 9.1E-16 107.2 8.3 69 221-291 1-74 (74)
151 PLN00207 polyribonucleotide nu 99.2 4.9E-11 1.1E-15 148.7 11.1 84 220-311 750-835 (891)
152 COG1093 SUI2 Translation initi 99.2 2.7E-11 5.8E-16 128.8 5.5 80 219-298 7-88 (269)
153 PRK07252 hypothetical protein; 99.1 1.7E-10 3.7E-15 112.7 10.1 75 222-298 2-78 (120)
154 cd04461 S1_Rrp5_repeat_hs8_sc7 99.1 1.1E-10 2.5E-15 107.1 8.2 72 219-292 10-83 (83)
155 CHL00122 secA preprotein trans 99.1 2.4E-09 5.3E-14 132.7 21.2 125 520-646 70-206 (870)
156 cd05696 S1_Rrp5_repeat_hs4 S1_ 99.1 1.8E-10 4E-15 102.3 8.4 67 224-292 1-71 (71)
157 PRK05807 hypothetical protein; 99.1 2.5E-10 5.3E-15 114.3 10.2 73 221-296 3-76 (136)
158 smart00490 HELICc helicase sup 99.1 8.4E-11 1.8E-15 106.4 6.1 72 764-853 11-82 (82)
159 cd05698 S1_Rrp5_repeat_hs6_sc5 99.1 2.2E-10 4.8E-15 101.5 8.3 68 224-293 1-70 (70)
160 PF00575 S1: S1 RNA binding do 99.1 3.6E-10 7.7E-15 101.3 9.7 72 220-293 1-74 (74)
161 PRK07899 rpsA 30S ribosomal pr 99.1 2.1E-10 4.6E-15 137.2 9.0 95 219-322 204-300 (486)
162 cd05706 S1_Rrp5_repeat_sc10 S1 99.1 6.6E-10 1.4E-14 99.3 9.8 70 222-293 2-73 (73)
163 PRK12269 bifunctional cytidyla 99.1 2.2E-10 4.8E-15 145.0 8.7 97 218-322 573-672 (863)
164 KOG1123 RNA polymerase II tran 99.1 9E-10 1.9E-14 125.3 12.5 302 523-866 301-655 (776)
165 cd05703 S1_Rrp5_repeat_hs12_sc 99.1 5.2E-10 1.1E-14 99.9 8.6 69 224-294 1-73 (73)
166 cd05697 S1_Rrp5_repeat_hs5 S1_ 99.1 5.2E-10 1.1E-14 98.9 8.4 67 224-292 1-69 (69)
167 cd05690 S1_RPS1_repeat_ec5 S1_ 99.1 4.3E-10 9.3E-15 99.3 7.8 66 224-291 1-69 (69)
168 cd05707 S1_Rrp5_repeat_sc11 S1 99.0 6E-10 1.3E-14 98.2 7.6 66 224-291 1-68 (68)
169 PRK13806 rpsA 30S ribosomal pr 99.0 6E-10 1.3E-14 135.2 9.8 98 218-323 287-387 (491)
170 PRK14873 primosome assembly pr 99.0 9.2E-09 2E-13 128.0 20.1 130 547-686 168-311 (665)
171 cd05694 S1_Rrp5_repeat_hs2_sc2 99.0 1.8E-09 3.9E-14 96.6 9.9 71 220-297 1-73 (74)
172 PRK12902 secA preprotein trans 99.0 1.5E-08 3.3E-13 125.5 21.3 125 520-646 79-215 (939)
173 cd05691 S1_RPS1_repeat_ec6 S1_ 99.0 1.8E-09 3.9E-14 96.3 9.3 70 224-295 1-72 (73)
174 PRK07400 30S ribosomal protein 99.0 1.2E-09 2.7E-14 124.9 10.2 81 219-308 192-274 (318)
175 cd05689 S1_RPS1_repeat_ec4 S1_ 99.0 1.6E-09 3.5E-14 96.5 8.6 68 221-290 1-71 (72)
176 cd05708 S1_Rrp5_repeat_sc12 S1 99.0 2.2E-09 4.8E-14 96.8 9.6 72 223-295 2-75 (77)
177 PRK03987 translation initiatio 99.0 1.8E-09 4E-14 119.4 10.4 80 219-298 4-85 (262)
178 cd04453 S1_RNase_E S1_RNase_E: 99.0 2.1E-09 4.6E-14 99.5 8.8 64 219-284 3-71 (88)
179 cd05692 S1_RPS1_repeat_hs4 S1_ 99.0 2.2E-09 4.8E-14 94.3 8.6 68 224-293 1-69 (69)
180 TIGR03117 cas_csf4 CRISPR-asso 99.0 3.1E-07 6.8E-12 113.2 30.3 134 714-860 454-613 (636)
181 PRK08059 general stress protei 99.0 2.9E-09 6.3E-14 105.1 10.1 77 220-298 4-82 (123)
182 PRK08074 bifunctional ATP-depe 98.9 2E-07 4.4E-12 121.6 29.3 141 712-860 734-890 (928)
183 TIGR02696 pppGpp_PNP guanosine 98.9 1.8E-09 3.9E-14 132.3 8.4 70 220-291 644-718 (719)
184 PF02399 Herpes_ori_bp: Origin 98.9 1.8E-07 3.9E-12 115.2 24.0 294 537-866 47-390 (824)
185 PRK13806 rpsA 30S ribosomal pr 98.9 3E-09 6.5E-14 129.2 8.4 96 220-323 199-300 (491)
186 PRK12269 bifunctional cytidyla 98.9 4E-09 8.8E-14 133.8 9.6 96 219-323 489-586 (863)
187 cd05687 S1_RPS1_repeat_ec1_hs1 98.9 8.2E-09 1.8E-13 91.4 8.7 68 224-293 1-70 (70)
188 cd04472 S1_PNPase S1_PNPase: P 98.9 7.1E-09 1.5E-13 91.0 8.2 67 224-292 1-68 (68)
189 cd05685 S1_Tex S1_Tex: The C-t 98.9 6.2E-09 1.4E-13 91.2 7.5 66 224-291 1-68 (68)
190 PRK07899 rpsA 30S ribosomal pr 98.8 8.2E-09 1.8E-13 123.7 10.2 87 219-307 289-380 (486)
191 COG1185 Pnp Polyribonucleotide 98.8 4.9E-09 1.1E-13 125.3 6.8 76 219-296 615-691 (692)
192 cd05789 S1_Rrp4 S1_Rrp4: Rrp4 98.8 1.4E-08 3E-13 93.9 7.9 74 220-295 3-81 (86)
193 PRK12901 secA preprotein trans 98.8 1.9E-07 4E-12 117.1 19.8 118 716-864 615-741 (1112)
194 PRK11824 polynucleotide phosph 98.8 1.4E-08 3.1E-13 127.5 10.0 75 219-295 617-692 (693)
195 cd05693 S1_Rrp5_repeat_hs1_sc1 98.8 1.3E-08 2.9E-13 96.5 7.4 72 221-294 1-96 (100)
196 PRK06299 rpsA 30S ribosomal pr 98.8 1.4E-08 3.1E-13 126.3 9.8 95 219-322 197-293 (565)
197 COG2183 Tex Transcriptional ac 98.8 1.1E-08 2.5E-13 124.2 7.8 78 219-298 654-733 (780)
198 cd05695 S1_Rrp5_repeat_hs3 S1_ 98.7 3E-08 6.6E-13 86.8 7.9 64 224-291 1-66 (66)
199 cd05688 S1_RPS1_repeat_ec3 S1_ 98.7 3.6E-08 7.8E-13 86.5 8.1 66 223-291 1-68 (68)
200 PRK11747 dinG ATP-dependent DN 98.7 3.6E-06 7.8E-11 106.8 28.7 135 712-860 517-671 (697)
201 cd04471 S1_RNase_R S1_RNase_R: 98.7 6E-08 1.3E-12 88.8 9.4 69 223-292 1-82 (83)
202 KOG0385 Chromatin remodeling c 98.7 6.5E-07 1.4E-11 107.4 20.2 312 523-867 166-602 (971)
203 PRK06676 rpsA 30S ribosomal pr 98.7 5.8E-08 1.3E-12 115.4 10.3 87 218-312 272-360 (390)
204 COG4889 Predicted helicase [Ge 98.7 1E-07 2.2E-12 114.7 11.9 311 524-858 161-578 (1518)
205 cd04465 S1_RPS1_repeat_ec2_hs2 98.7 8.6E-08 1.9E-12 84.2 8.5 65 224-293 1-67 (67)
206 PRK06676 rpsA 30S ribosomal pr 98.7 4.7E-08 1E-12 116.2 9.1 95 219-322 188-284 (390)
207 TIGR00604 rad3 DNA repair heli 98.6 1.1E-06 2.3E-11 112.3 20.3 184 670-860 443-671 (705)
208 cd04473 S1_RecJ_like S1_RecJ_l 98.6 1.6E-07 3.5E-12 84.9 9.3 64 219-292 12-76 (77)
209 PRK06299 rpsA 30S ribosomal pr 98.6 6.9E-08 1.5E-12 120.2 9.2 97 219-323 369-468 (565)
210 cd05702 S1_Rrp5_repeat_hs11_sc 98.6 1.2E-07 2.6E-12 84.0 7.6 61 224-286 1-63 (70)
211 KOG0387 Transcription-coupled 98.6 3.3E-06 7.1E-11 102.1 21.5 172 731-942 546-719 (923)
212 cd04454 S1_Rrp4_like S1_Rrp4_l 98.6 1.8E-07 3.9E-12 85.7 8.4 73 220-294 3-76 (82)
213 smart00316 S1 Ribosomal protei 98.6 2.6E-07 5.5E-12 81.4 8.8 69 223-293 2-72 (72)
214 TIGR03591 polynuc_phos polyrib 98.6 7.5E-08 1.6E-12 120.8 7.4 70 219-290 614-684 (684)
215 COG1419 FlhF Flagellar GTP-bin 98.6 1.4E-06 2.9E-11 100.5 16.8 172 537-742 201-376 (407)
216 KOG0390 DNA repair protein, SN 98.6 6.6E-06 1.4E-10 101.9 23.9 86 764-867 619-710 (776)
217 PRK00087 4-hydroxy-3-methylbut 98.6 1.2E-07 2.6E-12 119.2 8.8 94 220-322 474-569 (647)
218 TIGR00717 rpsA ribosomal prote 98.5 1.6E-07 3.5E-12 115.7 8.8 96 220-323 356-454 (516)
219 PRK07400 30S ribosomal protein 98.5 2.1E-07 4.5E-12 106.7 8.4 96 220-322 28-125 (318)
220 TIGR00717 rpsA ribosomal prote 98.5 2E-07 4.2E-12 115.0 8.8 96 219-323 183-280 (516)
221 COG1199 DinG Rad3-related DNA 98.5 2.3E-05 5.1E-10 99.6 26.1 136 713-860 462-614 (654)
222 cd04460 S1_RpoE S1_RpoE: RpoE, 98.5 8.1E-07 1.8E-11 84.4 9.6 76 225-309 1-94 (99)
223 PRK00087 4-hydroxy-3-methylbut 98.4 6.7E-07 1.5E-11 112.5 9.8 78 219-298 558-637 (647)
224 PF00448 SRP54: SRP54-type pro 98.4 1.8E-06 3.9E-11 92.5 11.5 158 540-724 2-165 (196)
225 PRK09521 exosome complex RNA-b 98.4 5.9E-07 1.3E-11 95.7 7.7 75 219-294 60-142 (189)
226 cd00164 S1_like S1_like: Ribos 98.4 9.2E-07 2E-11 76.2 6.7 63 227-291 1-65 (65)
227 KOG1000 Chromatin remodeling p 98.3 7.2E-05 1.6E-09 86.4 21.2 267 527-817 201-571 (689)
228 PRK04163 exosome complex RNA-b 98.3 2E-06 4.3E-11 94.6 8.4 74 219-294 59-137 (235)
229 KOG1067 Predicted RNA-binding 98.2 1.1E-06 2.3E-11 101.8 5.9 78 219-298 664-742 (760)
230 PRK11889 flhF flagellar biosyn 98.2 4E-05 8.6E-10 88.7 17.6 129 539-688 241-375 (436)
231 PRK12723 flagellar biosynthesi 98.2 3.4E-05 7.3E-10 90.7 17.1 156 539-723 174-336 (388)
232 PRK12726 flagellar biosynthesi 98.2 3.5E-05 7.6E-10 88.9 16.3 213 479-723 146-366 (407)
233 PRK14722 flhF flagellar biosyn 98.2 7.8E-05 1.7E-09 87.0 18.7 175 536-741 134-318 (374)
234 KOG0384 Chromodomain-helicase 98.2 3.4E-05 7.5E-10 97.3 16.5 138 728-892 696-836 (1373)
235 TIGR02063 RNase_R ribonuclease 98.1 5.5E-06 1.2E-10 105.6 9.9 71 221-292 625-708 (709)
236 COG1095 RPB7 DNA-directed RNA 98.1 5.4E-06 1.2E-10 85.1 7.8 74 220-296 78-169 (183)
237 TIGR00448 rpoE DNA-directed RN 98.1 1.2E-05 2.5E-10 85.0 9.4 73 220-295 78-168 (179)
238 cd05791 S1_CSL4 S1_CSL4: CSL4, 98.0 1.3E-05 2.8E-10 75.0 7.5 74 220-295 3-87 (92)
239 PRK11642 exoribonuclease R; Pr 98.0 1.3E-05 2.7E-10 102.5 9.5 71 222-293 642-725 (813)
240 PF13401 AAA_22: AAA domain; P 98.0 7E-06 1.5E-10 81.6 5.4 119 537-677 2-125 (131)
241 PF06862 DUF1253: Protein of u 98.0 0.00078 1.7E-08 79.8 23.0 229 612-867 130-418 (442)
242 PRK05703 flhF flagellar biosyn 98.0 0.00021 4.5E-09 85.6 17.8 169 537-742 219-395 (424)
243 TIGR00358 3_prime_RNase VacB a 97.9 2.1E-05 4.5E-10 99.2 9.6 70 222-292 571-653 (654)
244 PRK12727 flagellar biosynthesi 97.9 0.00043 9.2E-09 83.3 18.8 170 535-741 346-521 (559)
245 cd04455 S1_NusA S1_NusA: N-uti 97.9 5.1E-05 1.1E-09 66.6 8.4 61 222-291 2-66 (67)
246 PF13604 AAA_30: AAA domain; P 97.8 3.7E-05 8E-10 82.6 7.9 122 526-678 3-131 (196)
247 PRK12724 flagellar biosynthesi 97.8 0.0004 8.6E-09 81.7 16.7 152 538-722 222-382 (432)
248 PF00176 SNF2_N: SNF2 family N 97.8 7.5E-05 1.6E-09 85.0 10.4 130 538-678 24-172 (299)
249 COG0653 SecA Preprotein transl 97.8 0.00034 7.3E-09 87.5 15.9 100 521-622 75-178 (822)
250 TIGR02768 TraA_Ti Ti-type conj 97.8 0.0029 6.2E-08 81.2 24.5 124 522-676 350-475 (744)
251 PRK08563 DNA-directed RNA poly 97.8 9.1E-05 2E-09 78.9 9.2 73 220-295 78-168 (187)
252 PF13245 AAA_19: Part of AAA d 97.7 7.8E-05 1.7E-09 67.2 6.7 54 535-588 6-62 (76)
253 PRK13889 conjugal transfer rel 97.7 0.0041 9E-08 80.9 24.2 127 521-678 343-471 (988)
254 PRK14721 flhF flagellar biosyn 97.7 0.00078 1.7E-08 79.9 16.0 168 537-741 189-363 (420)
255 KOG1803 DNA helicase [Replicat 97.7 8.8E-05 1.9E-09 88.3 7.6 64 525-589 186-250 (649)
256 PRK14974 cell division protein 97.6 0.00038 8.2E-09 80.5 12.4 122 539-679 140-265 (336)
257 COG0610 Type I site-specific r 97.6 0.0013 2.8E-08 86.2 18.3 129 540-678 274-413 (962)
258 PRK14723 flhF flagellar biosyn 97.6 0.0009 2E-08 84.2 15.9 124 538-684 184-311 (767)
259 KOG0392 SNF2 family DNA-depend 97.6 0.0031 6.7E-08 80.2 20.1 113 732-868 1341-1458(1549)
260 TIGR01447 recD exodeoxyribonuc 97.6 0.00041 8.9E-09 86.1 12.8 135 527-675 148-293 (586)
261 PHA02858 EIF2a-like PKR inhibi 97.5 0.00019 4.1E-09 63.9 6.4 70 220-292 13-85 (86)
262 PRK06731 flhF flagellar biosyn 97.5 0.0024 5.3E-08 71.7 16.5 169 538-741 74-248 (270)
263 KOG0952 DNA/RNA helicase MER3/ 97.5 6.4E-05 1.4E-09 93.7 4.1 213 539-752 943-1174(1230)
264 TIGR01448 recD_rel helicase, p 97.5 0.00071 1.5E-08 86.4 13.5 127 520-678 319-453 (720)
265 PF02562 PhoH: PhoH-like prote 97.5 0.00033 7.1E-09 75.2 8.8 57 523-579 3-60 (205)
266 PRK10875 recD exonuclease V su 97.5 0.00062 1.4E-08 84.7 11.8 136 527-676 155-300 (615)
267 PRK06995 flhF flagellar biosyn 97.4 0.0028 6E-08 76.5 16.4 124 538-684 255-382 (484)
268 PRK13826 Dtr system oriT relax 97.4 0.014 3.1E-07 76.5 24.0 126 522-678 379-506 (1102)
269 PRK10536 hypothetical protein; 97.4 0.0006 1.3E-08 75.2 9.2 58 522-579 57-115 (262)
270 cd00009 AAA The AAA+ (ATPases 97.4 0.0013 2.9E-08 65.4 11.2 47 530-577 8-56 (151)
271 PRK06526 transposase; Provisio 97.4 0.0011 2.4E-08 74.1 11.3 38 536-574 95-132 (254)
272 PF09848 DUF2075: Uncharacteri 97.4 0.00056 1.2E-08 80.3 9.4 91 540-647 2-94 (352)
273 TIGR00757 RNaseEG ribonuclease 97.3 0.00046 9.9E-09 81.9 7.4 62 219-282 21-96 (414)
274 PF13086 AAA_11: AAA domain; P 97.3 0.00063 1.4E-08 74.2 7.8 66 525-590 2-75 (236)
275 PRK10416 signal recognition pa 97.3 0.0033 7.3E-08 72.5 13.9 124 538-680 113-246 (318)
276 KOG2916 Translation initiation 97.2 0.00021 4.5E-09 76.5 3.0 79 220-298 13-93 (304)
277 PRK05054 exoribonuclease II; P 97.2 0.0009 1.9E-08 84.2 9.2 68 224-292 562-643 (644)
278 PRK15483 type III restriction- 97.2 0.0026 5.6E-08 81.5 12.8 138 538-680 58-240 (986)
279 PRK04296 thymidine kinase; Pro 97.1 0.0014 3E-08 70.0 8.2 111 539-677 2-115 (190)
280 TIGR02760 TraI_TIGR conjugativ 97.1 0.049 1.1E-06 76.6 25.0 239 522-780 427-677 (1960)
281 PF05970 PIF1: PIF1-like helic 97.1 0.0018 4E-08 76.3 9.7 112 526-658 3-122 (364)
282 PF12340 DUF3638: Protein of u 97.1 0.0035 7.6E-08 68.0 10.8 129 516-647 15-183 (229)
283 TIGR00064 ftsY signal recognit 97.1 0.0053 1.1E-07 69.4 12.8 124 539-681 72-205 (272)
284 COG1096 Predicted RNA-binding 97.1 0.0014 2.9E-08 67.8 7.1 77 218-295 59-143 (188)
285 smart00382 AAA ATPases associa 97.0 0.0021 4.5E-08 63.3 8.3 39 539-578 2-40 (148)
286 KOG1070 rRNA processing protei 97.0 0.00061 1.3E-08 87.1 5.2 76 219-296 595-672 (1710)
287 PF07517 SecA_DEAD: SecA DEAD- 96.9 0.0018 3.9E-08 72.3 7.6 122 521-646 72-207 (266)
288 KOG1002 Nucleotide excision re 96.9 0.13 2.7E-06 60.4 21.8 120 521-646 181-326 (791)
289 smart00489 DEXDc3 DEAD-like he 96.9 0.0025 5.3E-08 72.7 8.2 64 525-588 9-81 (289)
290 smart00488 DEXDc2 DEAD-like he 96.9 0.0025 5.3E-08 72.7 8.2 64 525-588 9-81 (289)
291 PRK09202 nusA transcription el 96.9 0.0023 5E-08 76.9 8.3 64 223-295 134-201 (470)
292 TIGR01425 SRP54_euk signal rec 96.9 0.006 1.3E-07 72.5 11.6 122 540-679 101-225 (429)
293 PF10447 EXOSC1: Exosome compo 96.9 0.0027 5.9E-08 57.7 6.7 63 221-283 2-82 (82)
294 COG0557 VacB Exoribonuclease R 96.9 0.0022 4.9E-08 81.8 8.5 70 222-292 621-703 (706)
295 PF13173 AAA_14: AAA domain 96.9 0.0059 1.3E-07 60.8 9.7 99 538-678 1-99 (128)
296 smart00311 PWI PWI, domain in 96.9 0.0028 6E-08 56.8 6.5 67 13-79 4-70 (74)
297 PRK08181 transposase; Validate 96.8 0.014 3.1E-07 65.7 13.6 115 535-689 102-219 (269)
298 COG1097 RRP4 RNA-binding prote 96.8 0.0035 7.6E-08 67.5 8.2 73 220-294 61-138 (239)
299 PF05729 NACHT: NACHT domain 96.8 0.0055 1.2E-07 63.0 9.0 58 639-696 84-148 (166)
300 TIGR00959 ffh signal recogniti 96.8 0.011 2.3E-07 70.9 12.5 122 540-678 100-224 (428)
301 PF13872 AAA_34: P-loop contai 96.8 0.0039 8.5E-08 70.0 8.3 139 539-678 62-220 (303)
302 PRK10867 signal recognition pa 96.7 0.0083 1.8E-07 71.8 11.4 122 540-678 101-225 (433)
303 TIGR03499 FlhF flagellar biosy 96.7 0.0053 1.1E-07 69.8 9.3 86 538-645 193-281 (282)
304 PRK00771 signal recognition pa 96.7 0.0097 2.1E-07 71.3 11.6 121 539-679 95-218 (437)
305 cd05790 S1_Rrp40 S1_Rrp40: Rrp 96.7 0.0081 1.8E-07 55.2 8.3 72 220-294 3-75 (86)
306 TIGR00596 rad1 DNA repair prot 96.7 0.01 2.2E-07 76.1 12.2 66 613-679 7-73 (814)
307 PF00580 UvrD-helicase: UvrD/R 96.6 0.0033 7.1E-08 72.0 6.5 65 527-593 3-70 (315)
308 PRK07952 DNA replication prote 96.6 0.029 6.4E-07 62.2 13.6 114 540-688 100-214 (244)
309 KOG1802 RNA helicase nonsense 96.5 0.0035 7.6E-08 75.2 6.2 66 525-590 411-476 (935)
310 TIGR00376 DNA helicase, putati 96.5 0.0057 1.2E-07 77.1 8.5 66 524-590 157-223 (637)
311 PTZ00162 DNA-directed RNA poly 96.5 0.011 2.4E-07 62.1 9.1 72 220-294 78-165 (176)
312 PRK09183 transposase/IS protei 96.5 0.025 5.4E-07 63.6 12.2 39 536-575 99-137 (259)
313 TIGR03015 pepcterm_ATPase puta 96.4 0.0093 2E-07 67.1 8.9 24 539-562 43-66 (269)
314 KOG2340 Uncharacterized conser 96.4 0.026 5.6E-07 66.6 12.2 322 518-866 210-670 (698)
315 PF05127 Helicase_RecD: Helica 96.4 0.0024 5.1E-08 67.0 3.4 117 543-679 1-124 (177)
316 cd04462 S1_RNAPII_Rpb7 S1_RNAP 96.4 0.011 2.5E-07 54.8 7.6 59 223-284 1-70 (88)
317 TIGR02062 RNase_B exoribonucle 96.3 0.0078 1.7E-07 75.8 8.2 66 224-290 558-637 (639)
318 PRK07003 DNA polymerase III su 96.3 0.02 4.3E-07 71.8 10.9 32 532-563 28-62 (830)
319 COG1444 Predicted P-loop ATPas 96.3 0.14 3.1E-06 64.4 18.4 120 540-679 232-357 (758)
320 TIGR02881 spore_V_K stage V sp 96.1 0.027 5.9E-07 63.3 10.2 22 539-560 42-63 (261)
321 PRK14956 DNA polymerase III su 96.1 0.024 5.1E-07 68.3 9.9 32 532-563 30-64 (484)
322 cd01120 RecA-like_NTPases RecA 96.1 0.047 1E-06 55.6 11.1 35 541-576 1-35 (165)
323 TIGR03420 DnaA_homol_Hda DnaA 96.1 0.042 9.1E-07 60.0 11.2 26 537-562 36-61 (226)
324 KOG1070 rRNA processing protei 96.0 0.018 3.8E-07 74.4 8.9 77 218-296 1157-1235(1710)
325 PRK06835 DNA replication prote 96.0 0.044 9.6E-07 63.5 11.6 37 538-575 182-218 (329)
326 PRK08903 DnaA regulatory inact 96.0 0.058 1.3E-06 59.2 12.1 37 538-575 41-77 (227)
327 PRK08727 hypothetical protein; 96.0 0.034 7.3E-07 61.5 10.1 35 539-574 41-75 (233)
328 PF05621 TniB: Bacterial TniB 96.0 0.044 9.5E-07 61.9 10.7 119 540-679 62-190 (302)
329 KOG2146 Splicing coactivator S 95.9 0.032 6.9E-07 60.7 9.1 57 21-79 48-109 (354)
330 TIGR01953 NusA transcription t 95.9 0.021 4.5E-07 66.2 8.4 65 222-295 130-199 (341)
331 PRK12377 putative replication 95.9 0.23 4.9E-06 55.4 16.1 26 538-563 100-125 (248)
332 PF01695 IstB_IS21: IstB-like 95.9 0.013 2.9E-07 61.9 6.1 115 536-690 44-161 (178)
333 PRK07764 DNA polymerase III su 95.9 0.04 8.8E-07 71.1 11.5 32 532-563 27-61 (824)
334 PRK14949 DNA polymerase III su 95.9 0.042 9E-07 70.2 11.1 49 630-682 113-161 (944)
335 PRK06893 DNA replication initi 95.8 0.075 1.6E-06 58.6 11.9 47 634-682 89-138 (229)
336 PRK08939 primosomal protein Dn 95.8 0.13 2.9E-06 59.1 14.2 113 538-687 155-269 (306)
337 cd03115 SRP The signal recogni 95.8 0.048 1E-06 57.1 9.8 121 541-679 2-125 (173)
338 COG1107 Archaea-specific RecJ- 95.8 0.0072 1.6E-07 71.7 3.7 70 219-296 118-189 (715)
339 PHA03333 putative ATPase subun 95.8 0.24 5.3E-06 61.4 16.7 142 537-689 185-343 (752)
340 COG0552 FtsY Signal recognitio 95.7 0.095 2.1E-06 59.7 12.3 122 540-679 140-270 (340)
341 COG1875 NYN ribonuclease and A 95.7 0.042 9E-07 62.7 9.4 57 521-577 225-285 (436)
342 PRK14712 conjugal transfer nic 95.7 0.065 1.4E-06 72.7 12.8 124 524-678 835-968 (1623)
343 PRK08116 hypothetical protein; 95.7 0.16 3.4E-06 57.4 14.2 36 539-575 114-149 (268)
344 PRK12402 replication factor C 95.7 0.068 1.5E-06 62.2 11.7 35 529-563 24-60 (337)
345 PRK07994 DNA polymerase III su 95.7 0.025 5.3E-07 70.8 8.2 32 531-562 27-61 (647)
346 PRK12327 nusA transcription el 95.7 0.032 7E-07 65.0 8.6 64 222-294 133-200 (362)
347 PRK12323 DNA polymerase III su 95.7 0.05 1.1E-06 67.4 10.4 33 531-563 27-62 (700)
348 PRK14964 DNA polymerase III su 95.6 0.049 1.1E-06 66.2 10.1 48 625-674 105-152 (491)
349 cd03221 ABCF_EF-3 ABCF_EF-3 E 95.5 0.05 1.1E-06 55.4 8.4 105 536-678 23-127 (144)
350 PRK09112 DNA polymerase III su 95.5 0.085 1.9E-06 61.8 11.4 34 529-562 32-68 (351)
351 PRK10811 rne ribonuclease E; R 95.5 0.026 5.6E-07 71.4 7.1 63 220-284 35-108 (1068)
352 PRK14960 DNA polymerase III su 95.5 0.07 1.5E-06 66.3 10.8 33 531-563 26-61 (702)
353 cd00267 ABC_ATPase ABC (ATP-bi 95.5 0.042 9E-07 56.6 7.8 118 536-678 22-140 (157)
354 TIGR02880 cbbX_cfxQ probable R 95.5 0.075 1.6E-06 60.5 10.5 21 539-559 58-78 (284)
355 COG1484 DnaC DNA replication p 95.5 0.14 3.1E-06 57.3 12.5 118 532-688 98-218 (254)
356 PRK08084 DNA replication initi 95.5 0.13 2.7E-06 57.0 12.0 35 539-574 45-79 (235)
357 PRK06921 hypothetical protein; 95.5 0.16 3.5E-06 57.2 13.0 37 538-575 116-153 (266)
358 PF00004 AAA: ATPase family as 95.4 0.074 1.6E-06 52.4 9.2 21 542-562 1-21 (132)
359 PRK14952 DNA polymerase III su 95.4 0.14 3E-06 63.8 13.3 31 532-562 25-58 (584)
360 PRK05642 DNA replication initi 95.4 0.087 1.9E-06 58.3 10.5 35 540-575 46-80 (234)
361 PRK14958 DNA polymerase III su 95.4 0.046 1E-06 67.2 9.1 32 531-562 27-61 (509)
362 cd03247 ABCC_cytochrome_bd The 95.4 0.097 2.1E-06 55.2 10.4 129 536-678 25-157 (178)
363 KOG0391 SNF2 family DNA-depend 95.4 0.06 1.3E-06 68.5 9.6 118 727-868 1272-1391(1958)
364 COG2804 PulE Type II secretory 95.3 0.058 1.2E-06 64.6 9.1 42 522-563 239-282 (500)
365 TIGR02760 TraI_TIGR conjugativ 95.3 0.08 1.7E-06 74.6 12.0 125 522-677 1017-1149(1960)
366 PRK08691 DNA polymerase III su 95.3 0.059 1.3E-06 67.4 9.5 31 532-562 28-61 (709)
367 PRK00411 cdc6 cell division co 95.3 0.088 1.9E-06 62.8 10.9 23 540-562 56-78 (394)
368 COG0541 Ffh Signal recognition 95.3 0.11 2.3E-06 61.1 10.9 132 540-689 101-237 (451)
369 PRK06645 DNA polymerase III su 95.3 0.17 3.7E-06 62.0 13.3 30 534-563 35-67 (507)
370 CHL00181 cbbX CbbX; Provisiona 95.2 0.12 2.6E-06 59.0 11.2 24 538-561 58-81 (287)
371 cd01124 KaiC KaiC is a circadi 95.2 0.04 8.7E-07 58.2 6.9 52 541-595 1-52 (187)
372 KOG4439 RNA polymerase II tran 95.2 0.93 2E-05 55.8 18.6 90 763-867 769-861 (901)
373 COG1120 FepC ABC-type cobalami 95.2 0.028 6E-07 62.5 5.6 141 536-679 25-200 (258)
374 KOG0386 Chromatin remodeling c 95.2 0.09 2E-06 66.5 10.4 112 730-868 725-842 (1157)
375 PRK11712 ribonuclease G; Provi 95.1 0.037 7.9E-07 67.1 6.9 62 220-283 35-110 (489)
376 PRK13709 conjugal transfer nic 95.1 0.16 3.4E-06 70.1 13.3 126 522-678 965-1100(1747)
377 cd03228 ABCC_MRP_Like The MRP 95.1 0.088 1.9E-06 55.1 8.8 129 536-678 25-155 (171)
378 PRK14961 DNA polymerase III su 95.1 0.057 1.2E-06 63.8 8.2 31 532-562 28-61 (363)
379 PHA02533 17 large terminase pr 95.1 0.13 2.8E-06 63.5 11.5 154 521-687 56-219 (534)
380 PRK14969 DNA polymerase III su 95.0 0.11 2.5E-06 64.1 10.9 50 624-675 107-156 (527)
381 PRK14951 DNA polymerase III su 95.0 0.1 2.2E-06 65.2 10.5 31 532-562 28-61 (618)
382 PTZ00112 origin recognition co 94.9 0.26 5.6E-06 62.6 13.4 22 540-561 782-803 (1164)
383 PF13509 S1_2: S1 domain; PDB: 94.9 0.094 2E-06 45.2 7.0 61 223-293 1-61 (61)
384 PRK00149 dnaA chromosomal repl 94.9 0.17 3.8E-06 61.5 12.0 36 540-575 149-185 (450)
385 PRK14955 DNA polymerase III su 94.9 0.099 2.1E-06 62.5 9.6 31 532-562 28-61 (397)
386 cd03238 ABC_UvrA The excision 94.9 0.098 2.1E-06 55.2 8.5 119 536-679 18-150 (176)
387 PRK14957 DNA polymerase III su 94.9 0.095 2.1E-06 64.6 9.5 31 532-562 28-61 (546)
388 cd03222 ABC_RNaseL_inhibitor T 94.8 0.13 2.9E-06 54.3 9.2 108 536-678 22-132 (177)
389 PRK14962 DNA polymerase III su 94.8 0.21 4.5E-06 60.9 12.1 31 532-562 26-59 (472)
390 PRK09111 DNA polymerase III su 94.8 0.28 6.2E-06 61.4 13.5 50 624-675 120-169 (598)
391 cd03216 ABC_Carb_Monos_I This 94.7 0.095 2.1E-06 54.5 7.9 116 536-678 23-142 (163)
392 KOG0989 Replication factor C, 94.7 0.1 2.2E-06 58.5 8.2 25 539-563 57-81 (346)
393 COG2996 Predicted RNA-bindinin 94.7 0.076 1.6E-06 58.1 7.2 66 223-298 155-221 (287)
394 PHA02544 44 clamp loader, smal 94.7 0.27 5.8E-06 56.8 12.4 32 531-562 32-66 (316)
395 PRK06620 hypothetical protein; 94.7 0.13 2.9E-06 56.0 9.2 19 540-558 45-63 (214)
396 TIGR02782 TrbB_P P-type conjug 94.6 0.073 1.6E-06 61.1 7.3 93 530-650 123-216 (299)
397 PRK05707 DNA polymerase III su 94.6 0.16 3.6E-06 58.9 10.1 39 524-562 3-45 (328)
398 TIGR03345 VI_ClpV1 type VI sec 94.6 0.19 4E-06 65.7 11.7 119 541-687 598-727 (852)
399 PRK14963 DNA polymerase III su 94.5 0.21 4.5E-06 61.5 11.3 29 534-562 28-59 (504)
400 PRK09087 hypothetical protein; 94.5 0.23 5E-06 54.6 10.7 38 638-678 89-126 (226)
401 PF13307 Helicase_C_2: Helicas 94.5 0.019 4E-07 60.1 1.9 123 729-860 7-147 (167)
402 cd03214 ABC_Iron-Siderophores_ 94.4 0.073 1.6E-06 56.3 6.3 127 536-679 22-159 (180)
403 TIGR02928 orc1/cdc6 family rep 94.3 0.18 3.9E-06 59.5 10.0 23 540-562 41-63 (365)
404 PLN03025 replication factor C 94.3 0.24 5.2E-06 57.4 10.8 23 540-562 35-57 (319)
405 PF05496 RuvB_N: Holliday junc 94.3 0.1 2.2E-06 56.6 7.0 23 540-562 51-73 (233)
406 COG3587 Restriction endonuclea 94.3 0.13 2.8E-06 64.3 8.7 52 790-859 483-537 (985)
407 PRK07471 DNA polymerase III su 94.3 0.35 7.6E-06 57.0 12.1 53 624-678 129-181 (365)
408 cd01122 GP4d_helicase GP4d_hel 94.3 0.3 6.6E-06 55.0 11.3 41 535-575 26-66 (271)
409 PRK04195 replication factor C 94.3 0.44 9.5E-06 58.6 13.5 25 539-563 39-63 (482)
410 PF00308 Bac_DnaA: Bacterial d 94.3 0.54 1.2E-05 51.5 12.8 117 540-694 35-162 (219)
411 PRK11331 5-methylcytosine-spec 94.3 0.18 3.9E-06 60.3 9.6 34 528-561 183-216 (459)
412 cd03246 ABCC_Protease_Secretio 94.3 0.14 3E-06 53.8 7.9 127 536-678 25-156 (173)
413 cd03229 ABC_Class3 This class 94.2 0.029 6.3E-07 59.2 2.8 131 536-678 23-161 (178)
414 cd03230 ABC_DR_subfamily_A Thi 94.2 0.11 2.5E-06 54.4 7.1 127 536-678 23-155 (173)
415 KOG1805 DNA replication helica 94.2 0.092 2E-06 66.3 7.2 65 525-590 670-735 (1100)
416 PRK13833 conjugal transfer pro 94.1 0.08 1.7E-06 61.1 6.2 54 527-580 131-186 (323)
417 COG1219 ClpX ATP-dependent pro 94.1 0.11 2.4E-06 58.4 6.9 19 538-556 96-114 (408)
418 cd05699 S1_Rrp5_repeat_hs7 S1_ 94.1 0.16 3.5E-06 44.9 6.6 68 224-293 1-72 (72)
419 KOG1856 Transcription elongati 94.1 0.056 1.2E-06 68.9 5.1 77 216-294 978-1059(1299)
420 TIGR00362 DnaA chromosomal rep 94.1 0.33 7.2E-06 58.2 11.7 35 540-575 137-173 (405)
421 PRK14965 DNA polymerase III su 94.0 0.25 5.4E-06 61.9 10.8 33 530-562 26-61 (576)
422 cd03223 ABCD_peroxisomal_ALDP 94.0 0.14 3E-06 53.4 7.2 118 536-678 24-148 (166)
423 PRK07133 DNA polymerase III su 94.0 0.4 8.6E-06 60.8 12.4 52 623-677 105-156 (725)
424 KOG2036 Predicted P-loop ATPas 94.0 1.2 2.5E-05 54.7 15.4 315 531-892 264-640 (1011)
425 TIGR00678 holB DNA polymerase 94.0 0.34 7.4E-06 51.5 10.3 32 531-562 3-37 (188)
426 PRK10865 protein disaggregatio 94.0 0.45 9.7E-06 62.4 13.3 82 541-647 600-681 (857)
427 PF01480 PWI: PWI domain; Int 93.9 0.12 2.6E-06 46.8 5.6 63 18-80 4-71 (77)
428 PRK14087 dnaA chromosomal repl 93.9 0.52 1.1E-05 57.3 12.8 101 540-676 142-247 (450)
429 PRK14953 DNA polymerase III su 93.9 0.22 4.8E-06 60.9 9.7 32 531-562 27-61 (486)
430 PF00437 T2SE: Type II/IV secr 93.9 0.065 1.4E-06 60.5 4.8 44 535-579 123-166 (270)
431 PRK13851 type IV secretion sys 93.9 0.079 1.7E-06 61.8 5.6 46 533-580 156-201 (344)
432 PRK11823 DNA repair protein Ra 93.9 0.093 2E-06 63.6 6.4 55 537-594 78-132 (446)
433 PRK10919 ATP-dependent DNA hel 93.9 0.093 2E-06 67.0 6.7 67 525-593 3-72 (672)
434 PRK06067 flagellar accessory p 93.8 0.19 4.1E-06 55.5 8.2 37 538-575 24-60 (234)
435 PRK07940 DNA polymerase III su 93.8 0.45 9.8E-06 56.7 11.8 52 624-678 105-156 (394)
436 KOG2373 Predicted mitochondria 93.8 0.018 3.9E-07 64.7 0.0 130 529-664 263-412 (514)
437 PF01637 Arch_ATPase: Archaeal 93.8 0.11 2.4E-06 56.5 6.2 32 531-562 10-43 (234)
438 PRK08533 flagellar accessory p 93.6 0.093 2E-06 57.9 5.2 39 536-575 21-59 (230)
439 COG2256 MGS1 ATPase related to 93.6 0.27 5.8E-06 57.2 9.0 27 535-561 42-70 (436)
440 TIGR02868 CydC thiol reductant 93.6 0.31 6.8E-06 60.6 10.5 57 619-676 471-527 (529)
441 PRK14959 DNA polymerase III su 93.6 0.26 5.6E-06 61.5 9.5 32 531-562 27-61 (624)
442 PF00931 NB-ARC: NB-ARC domain 93.6 0.086 1.9E-06 59.8 5.1 66 530-595 6-77 (287)
443 PRK12422 chromosomal replicati 93.5 0.49 1.1E-05 57.3 11.7 36 540-576 142-177 (445)
444 PRK14950 DNA polymerase III su 93.5 0.41 8.9E-06 60.2 11.4 31 532-562 28-61 (585)
445 COG3973 Superfamily I DNA and 93.5 0.14 3.1E-06 61.8 6.8 65 528-594 216-285 (747)
446 PRK13894 conjugal transfer ATP 93.5 0.12 2.5E-06 59.9 6.0 54 527-580 135-190 (319)
447 PRK05896 DNA polymerase III su 93.4 0.24 5.2E-06 61.4 8.9 32 531-562 27-61 (605)
448 PTZ00293 thymidine kinase; Pro 93.4 0.26 5.6E-06 53.3 8.0 39 538-577 3-41 (211)
449 cd01393 recA_like RecA is a b 93.4 0.16 3.4E-06 55.6 6.6 40 537-576 17-61 (226)
450 cd03282 ABC_MSH4_euk MutS4 hom 93.3 0.13 2.9E-06 55.5 5.9 23 538-560 28-50 (204)
451 PF13177 DNA_pol3_delta2: DNA 93.3 0.19 4.1E-06 52.3 6.7 53 624-678 90-142 (162)
452 COG4962 CpaF Flp pilus assembl 93.3 0.14 3.1E-06 58.5 6.1 53 526-580 159-212 (355)
453 PF03354 Terminase_1: Phage Te 93.2 0.28 6E-06 60.2 9.0 146 528-679 2-165 (477)
454 PRK14971 DNA polymerase III su 93.2 0.39 8.4E-06 60.5 10.4 50 625-677 110-159 (614)
455 PRK13900 type IV secretion sys 93.2 0.13 2.8E-06 59.9 5.7 47 532-580 153-199 (332)
456 KOG3938 RGS-GAIP interacting p 93.2 0.1 2.2E-06 56.5 4.4 61 20-80 262-325 (334)
457 PRK08451 DNA polymerase III su 93.1 0.53 1.1E-05 58.0 11.2 43 631-675 112-154 (535)
458 PRK13342 recombination factor 93.1 0.39 8.4E-06 57.8 10.0 21 541-561 38-58 (413)
459 TIGR02688 conserved hypothetic 93.1 0.43 9.3E-06 56.5 9.8 31 532-562 202-232 (449)
460 PRK14954 DNA polymerase III su 93.1 0.5 1.1E-05 59.4 11.1 31 532-562 28-61 (620)
461 PRK14088 dnaA chromosomal repl 93.1 0.75 1.6E-05 55.8 12.3 37 540-576 131-168 (440)
462 TIGR01074 rep ATP-dependent DN 93.0 0.17 3.7E-06 64.7 7.1 66 526-593 3-71 (664)
463 COG1119 ModF ABC-type molybden 92.9 0.22 4.7E-06 54.4 6.6 60 618-678 171-233 (257)
464 PRK11054 helD DNA helicase IV; 92.9 0.25 5.3E-06 63.0 8.1 71 521-593 193-266 (684)
465 cd01130 VirB11-like_ATPase Typ 92.8 0.23 5E-06 52.8 6.7 32 529-560 14-46 (186)
466 cd01131 PilT Pilus retraction 92.7 0.14 3.1E-06 55.0 5.0 35 541-575 3-37 (198)
467 PRK05563 DNA polymerase III su 92.7 0.3 6.6E-06 60.9 8.5 37 624-662 107-143 (559)
468 COG4555 NatA ABC-type Na+ tran 92.7 0.18 4E-06 53.4 5.4 148 536-685 25-201 (245)
469 PRK14086 dnaA chromosomal repl 92.7 0.7 1.5E-05 57.5 11.3 36 540-575 315-351 (617)
470 COG2805 PilT Tfp pilus assembl 92.7 0.13 2.7E-06 57.6 4.4 37 538-574 124-160 (353)
471 PHA00729 NTP-binding motif con 92.7 0.36 7.7E-06 52.8 7.9 23 540-562 18-40 (226)
472 TIGR01547 phage_term_2 phage t 92.6 0.57 1.2E-05 56.0 10.5 132 540-679 2-141 (396)
473 COG1435 Tdk Thymidine kinase [ 92.6 0.63 1.4E-05 49.3 9.3 116 539-679 4-119 (201)
474 COG1474 CDC6 Cdc6-related prot 92.6 0.57 1.2E-05 55.3 10.2 20 541-560 44-63 (366)
475 cd03239 ABC_SMC_head The struc 92.6 0.76 1.6E-05 48.6 10.2 59 619-678 95-158 (178)
476 cd01125 repA Hexameric Replica 92.6 1 2.2E-05 49.8 11.8 37 539-575 1-48 (239)
477 KOG0151 Predicted splicing reg 92.6 0.078 1.7E-06 64.3 2.8 17 64-80 556-572 (877)
478 COG1702 PhoH Phosphate starvat 92.5 0.21 4.5E-06 57.0 6.1 55 522-576 126-181 (348)
479 PF03266 NTPase_1: NTPase; In 92.5 0.9 1.9E-05 47.6 10.4 22 541-562 1-22 (168)
480 TIGR02397 dnaX_nterm DNA polym 92.5 0.86 1.9E-05 53.4 11.6 37 624-662 105-141 (355)
481 PRK14948 DNA polymerase III su 92.4 0.32 6.9E-06 61.3 8.2 32 532-563 28-62 (620)
482 cd03215 ABC_Carb_Monos_II This 92.4 0.4 8.6E-06 50.7 7.8 129 536-678 23-164 (182)
483 PF01443 Viral_helicase1: Vira 92.4 0.12 2.6E-06 56.7 4.0 22 542-563 1-22 (234)
484 COG0470 HolB ATPase involved i 92.4 0.35 7.6E-06 55.8 8.0 22 541-562 26-47 (325)
485 cd03213 ABCG_EPDR ABCG transpo 92.4 0.32 6.9E-06 52.1 7.1 126 536-678 32-171 (194)
486 TIGR02858 spore_III_AA stage I 92.3 0.98 2.1E-05 51.0 11.2 23 540-562 112-134 (270)
487 TIGR02012 tigrfam_recA protein 92.3 0.35 7.6E-06 55.8 7.7 42 536-578 52-93 (321)
488 PRK14970 DNA polymerase III su 92.3 0.58 1.3E-05 55.4 9.9 30 531-560 28-60 (367)
489 COG3267 ExeA Type II secretory 92.2 0.88 1.9E-05 50.1 10.1 125 532-675 43-171 (269)
490 COG1127 Ttg2A ABC-type transpo 92.2 0.45 9.8E-06 51.9 7.8 142 536-679 31-207 (263)
491 cd01121 Sms Sms (bacterial rad 92.2 0.23 5E-06 58.6 6.3 89 536-646 79-168 (372)
492 KOG0780 Signal recognition par 92.2 0.82 1.8E-05 52.8 10.2 131 540-687 102-236 (483)
493 KOG0058 Peptide exporter, ABC 92.2 0.3 6.4E-06 60.7 7.2 27 620-646 606-632 (716)
494 PRK13695 putative NTPase; Prov 92.2 0.59 1.3E-05 49.0 8.7 21 541-561 2-22 (174)
495 PRK13541 cytochrome c biogenes 92.2 0.1 2.2E-06 55.9 2.9 60 618-678 123-183 (195)
496 cd03233 ABC_PDR_domain1 The pl 92.1 0.094 2E-06 56.6 2.6 114 536-662 30-164 (202)
497 TIGR01075 uvrD DNA helicase II 92.1 0.25 5.4E-06 63.8 6.9 67 525-593 5-74 (715)
498 PRK00440 rfc replication facto 92.1 1.3 2.7E-05 51.1 12.2 109 530-675 27-139 (319)
499 PRK11174 cysteine/glutathione 92.0 0.66 1.4E-05 58.6 10.4 127 536-675 373-541 (588)
500 PRK04841 transcriptional regul 92.0 0.65 1.4E-05 61.7 10.9 156 531-696 24-180 (903)
No 1
>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=6.1e-169 Score=1429.47 Aligned_cols=769 Identities=50% Similarity=0.871 Sum_probs=705.4
Q ss_pred CCccCCCChhhHHhhhhhhcCCccccCC-CCCCcccCCccccCCCcccceeeeecCCCCccccCceeecccCCCcccccC
Q 001046 348 RPLKRMSSPEKWEAKQLIASGVLSVEDY-PMYDEEGDGLAYQEEGAEEELEIELNEDEPAFLQGQTRYSVDMSPVKIFKN 426 (1176)
Q Consensus 348 ~~~~~~~s~e~we~~ql~~sg~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~fl~g~~~~~~~~~~~~~~k~ 426 (1176)
+.+|...++++||.+||+.|||+...+. ++|+++ ++ .++.|++..||||+|...++++++||.+++|
T Consensus 198 ~~~ki~~dn~~we~nrl~~sgvv~~~e~~~~f~~~---------e~---~~llv~~i~~~fld~r~~~~k~~~~v~pv~d 265 (1042)
T KOG0924|consen 198 KIQKINNDNALWETNRLLTSGVVQRMEVISDFLSD---------EA---RELLVHNIVPPFLDGREVFTKQAEPVIPVRD 265 (1042)
T ss_pred HHHhhcchhhhhhhhcccchhhhhcccccCccchh---------hH---HHhhhhcccCCccccceeeecccccccccCC
Confidence 4445678999999999999999988765 333322 12 2289999999999999999999999999999
Q ss_pred CCCchHHHHHHhHHHHHHHHHHHHHHHhhhhccCCcCCCCCCCCCCCCccchhHHHHhhcCCCCCC-----C--c-hhHH
Q 001046 427 PEGSLSRAAALQSALIKERREVREQQQRTMLDSIPKDLNRPWEDPMPETGERHLAQELRGVGLSAY-----D--M-PEWK 498 (1176)
Q Consensus 427 ~~~~l~~~a~~~~~l~k~~re~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~--~-~~~~ 498 (1176)
|+++|+..|++||++++++|+..+.++.. .++|+-..+..++ ..+++.+.. . - ..+.
T Consensus 266 ~~sd~a~~a~~gs~lv~~~r~~~~~~k~~---------~~~~~~~~~~lgn------~~glek~~~ed~~~~~~~~~~~a 330 (1042)
T KOG0924|consen 266 PTSDLAISARRGSKLVRERREKEERKKAQ---------KKHWKLAGTALGN------VMGLEKKNDEDGKVAYRGSVKFA 330 (1042)
T ss_pred CchhhhhhhhccccHHHHHHHhhhhhhhh---------hhhhhhcchhhcc------ccccccCcccccccccccchhhh
Confidence 99999999999999999999988776543 2333322211111 001110000 0 0 0011
Q ss_pred HhhhcccccccccChHHHHHHHhcCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHH
Q 001046 499 KDAFGKALTFGQRSKLSIQEQRQSLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRR 578 (1176)
Q Consensus 499 ~~~~~~~~~~~~~~~~~l~~~r~~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR 578 (1176)
.+.-.....-.....+++.+||+.|||+.++.+++..|..|++|||+|+||||||||++|||++.++..+|.|.||||||
T Consensus 331 ~h~k~~~a~~~fa~~k~i~eqrq~LPvf~~R~~ll~~ir~n~vvvivgETGSGKTTQl~QyL~edGY~~~GmIGcTQPRR 410 (1042)
T KOG0924|consen 331 SHMKKSEAVSEFASKKSIREQRQYLPVFACRDQLLSVIRENQVVVIVGETGSGKTTQLAQYLYEDGYADNGMIGCTQPRR 410 (1042)
T ss_pred hccccccccccccccchHHHHHhhcchHHHHHHHHHHHhhCcEEEEEecCCCCchhhhHHHHHhcccccCCeeeecCchH
Confidence 11100001111123346899999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHH
Q 001046 579 VAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGL 658 (1176)
Q Consensus 579 ~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~l 658 (1176)
++|+++|+||++|||..+|..|||.|||++++++.|.|.|||+|+||++.+.+..|.+|++||+||||||++++|+++++
T Consensus 411 vAAiSVAkrVa~EM~~~lG~~VGYsIRFEdvT~~~T~IkymTDGiLLrEsL~d~~L~kYSviImDEAHERslNtDilfGl 490 (1042)
T KOG0924|consen 411 VAAISVAKRVAEEMGVTLGDTVGYSIRFEDVTSEDTKIKYMTDGILLRESLKDRDLDKYSVIIMDEAHERSLNTDILFGL 490 (1042)
T ss_pred HHHHHHHHHHHHHhCCccccccceEEEeeecCCCceeEEEeccchHHHHHhhhhhhhheeEEEechhhhcccchHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhCCCccEEEEcCCCCHHHHHhhhcCCCeEecCCceeeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEe
Q 001046 659 LKQLVKRRPDLRLIVTSATLDAEKFSGYFFNCNIFTIPGRTFPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFL 738 (1176)
Q Consensus 659 lk~~~~~r~~~kvIlmSATl~~~~~~~~f~~~~v~~i~gr~~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl 738 (1176)
|+.++..|.|+|+|++|||||+++|++||++||.|+||||+|||++.|...+..||+++++...++||...++|+||||+
T Consensus 491 lk~~larRrdlKliVtSATm~a~kf~nfFgn~p~f~IpGRTyPV~~~~~k~p~eDYVeaavkq~v~Ihl~~~~GdilIfm 570 (1042)
T KOG0924|consen 491 LKKVLARRRDLKLIVTSATMDAQKFSNFFGNCPQFTIPGRTYPVEIMYTKTPVEDYVEAAVKQAVQIHLSGPPGDILIFM 570 (1042)
T ss_pred HHHHHHhhccceEEEeeccccHHHHHHHhCCCceeeecCCccceEEEeccCchHHHHHHHHhhheEeeccCCCCCEEEec
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCHHHHHHHHHHHHHHHhccCCC-CCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCc
Q 001046 739 TGQEEIDFACQSLYERMKGLGKN-VPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGF 817 (1176)
Q Consensus 739 ~~~~ei~~l~~~L~~~~~~l~~~-~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~ 817 (1176)
+|+++|+.+|..+.+.+..+... ..++.|+|+|++||.+.|.+||++.+.|.+||||||||||++||||||.||||+|+
T Consensus 571 tGqediE~t~~~i~~~l~ql~~~~~~~L~vlpiYSQLp~dlQ~kiFq~a~~~vRK~IvATNIAETSLTi~gI~yVID~Gy 650 (1042)
T KOG0924|consen 571 TGQEDIECTCDIIKEKLEQLDSAPTTDLAVLPIYSQLPADLQAKIFQKAEGGVRKCIVATNIAETSLTIPGIRYVIDTGY 650 (1042)
T ss_pred CCCcchhHHHHHHHHHHHhhhcCCCCceEEEeehhhCchhhhhhhcccCCCCceeEEEeccchhhceeecceEEEEecCc
Confidence 99999999999999988776432 24899999999999999999999999999999999999999999999999999999
Q ss_pred ccceeccCCCCCccccccccCHHHHHHHhcccCCCCCcEEEEecChHHHhhhCCCCCchhhhhcChHHHHHHHHHcCCCc
Q 001046 818 AKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTGPGKCYRLYTESAYRNEMSPTSIPEIQRINLGFTTLTMKAMGIND 897 (1176)
Q Consensus 818 ~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g~G~c~~L~t~~~~~~~l~~~~~pEI~r~~L~~~~L~lk~~gi~~ 897 (1176)
+|.++|||+.||+.|.+.|||+|++.||+|||||+|||.||||||+.+|.++|.+.++|||+|+||.+++|+|+++|++|
T Consensus 651 ~K~kvyn~~~G~D~L~~~pIS~AnA~QRaGRAGRt~pG~cYRlYTe~ay~~eml~stvPEIqRTNl~nvVLlLkslgV~d 730 (1042)
T KOG0924|consen 651 CKLKVYNPRIGMDALQIVPISQANADQRAGRAGRTGPGTCYRLYTEDAYKNEMLPSTVPEIQRTNLSNVVLLLKSLGVDD 730 (1042)
T ss_pred eeeeecccccccceeEEEechhccchhhccccCCCCCcceeeehhhhHHHhhcccCCCchhhhcchhhHHHHHHhcChhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccCCCCCCCCHHHHHHHHHHHHHcCccccCCcccHHHHHHhcCCCChHHHHHHHHhhhcCCHHHHHHHHHHhcCCCCCC
Q 001046 898 LLSFDFMDPPSPQALISAMEQLYSLGALDEEGLLTKLGRKMAEFPLDPPLSKMLLASVDLGCSDEILTIIAMIQTGNIFY 977 (1176)
Q Consensus 898 ~~~f~~~~pP~~~~l~~al~~L~~lgald~~g~lT~lG~~~a~lpl~p~l~k~ll~~~~~~c~~~~l~i~a~ls~~~~f~ 977 (1176)
++.|+|||||+.+.+..|+..|+.|||||+.|.||++|+.|++|||||.|+||||.|+.+||++|||+||+|||+..+|+
T Consensus 731 ll~FdFmD~Pped~~~~sly~Lw~LGAl~~~g~LT~lG~~MvefpLDP~lsKmll~a~~~Gc~dEilsIvSmLSvp~VF~ 810 (1042)
T KOG0924|consen 731 LLKFDFMDPPPEDNLLNSLYQLWTLGALDNTGQLTPLGRKMVEFPLDPPLSKMLLMAARMGCSDEILSIVSMLSVPAVFY 810 (1042)
T ss_pred hhCCCcCCCCHHHHHHHHHHHHHHhhccccCCccchhhHHhhhCCCCchHHHHHHHHhccCcHHHHHHHHHHhcccceee
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CchhHHHHHHHHHhhcCCCCCcHHHHHHHHHHHHHhccCCCcccccccchhhhHHHHHHHHHHHHHHHHcCCCccccCcc
Q 001046 978 RPREKQAQADQKRAKFFQPEGDHLTLLAVYEAWKAKNFSGPWCFENFVQSRSLRRAQDVRKQLLSIMDKYKLDVMSAGKN 1057 (1176)
Q Consensus 978 ~p~~~~~~~~~~~~~~~~~~~D~l~~l~~~~~~~~~~~~~~~c~~~~l~~~~l~~~~~~r~ql~~~~~~~~~~~~~~~~~ 1057 (1176)
+|+++.++++++|.+|.+++||||||||||++|+.++++..||.+||||.++|++|+++|.||+.||+++++++.|| .+
T Consensus 811 rpker~eead~ar~Kf~~~~sDhLTlLNVf~qw~~~~~~~~WCnd~~l~~kaL~~arevR~ql~~il~~l~~~l~S~-~d 889 (1042)
T KOG0924|consen 811 RPKEREEEADAAREKFQVPESDHLTLLNVFNQWRKNKYSSMWCNDHYLQVKALKKAREVRRQLLEILKQLKLPLISS-DD 889 (1042)
T ss_pred ccccchhhhhhHHhhhcCCCCchhhHHHHHHHHHhcCCchhhhhhhhhhHHHHHHHHHHHHHHHHHHHHcCCCcccC-ch
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999 89
Q ss_pred hHHHHHHhhcccccccceeCCCCCeeeeecCccEEECCCCcCCCC-CCCEEEEEeeccchhhhcceecccCHHHHHhhcc
Q 001046 1058 FTKIRKAITAGFFFHAARKDPQEGYRTLVENQPVYIHPSSALFQR-QPDWVIYHELVMTTKEYMREVTVIDPKWLVDLAP 1136 (1176)
Q Consensus 1058 ~~~i~~~l~~g~~~n~a~~~~~~~y~~~~~~~~v~ihpsS~l~~~-~~~~vvy~e~~~t~~~~~~~vt~i~~~wl~~~~~ 1136 (1176)
|+.|++|||+|||+|+|++.+.+.|.++.+|.+++|||+|+|++. .|+||||||+++|+++||+|||.|+|+||.|++|
T Consensus 890 wdivrKCIcs~~fhn~Arlkg~g~YV~~~tg~~c~lHPsS~L~g~y~p~Yivyhel~~T~keym~cvT~v~~~wl~E~gp 969 (1042)
T KOG0924|consen 890 WDIVRKCICSAYFHNAARLKGIGEYVNLSTGIPCHLHPSSVLHGLYTPDYIVYHELLMTTKEYMQCVTSVSPEWLAELGP 969 (1042)
T ss_pred HHHHHHHHHHHHHHHHHHhccCceEEEccCCcceeecchHhhhcCCCCCeeeehHHHHhHHHHHHHHhhCCHHHHHHhCc
Confidence 999999999999999999999999999999999999999999998 8999999999999999999999999999999999
Q ss_pred ccccccCc
Q 001046 1137 RFFKVADP 1144 (1176)
Q Consensus 1137 ~~~~~~~~ 1144 (1176)
.||...+.
T Consensus 970 ~~y~ik~~ 977 (1042)
T KOG0924|consen 970 MFYSIKEA 977 (1042)
T ss_pred eeEecccc
Confidence 99987654
No 2
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=100.00 E-value=9.8e-156 Score=1346.67 Aligned_cols=650 Identities=67% Similarity=1.112 Sum_probs=633.3
Q ss_pred hhHHHhhhcccccccccChHHHHHHHhcCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEe
Q 001046 495 PEWKKDAFGKALTFGQRSKLSIQEQRQSLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCT 574 (1176)
Q Consensus 495 ~~~~~~~~~~~~~~~~~~~~~l~~~r~~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~ 574 (1176)
++|+.........++.....++.+||..|||++++.+++.++.+++++||+|+||||||||+|||+++.++...|+|.||
T Consensus 22 ~~~~~~~~~~~~~~~~~~~~~i~~qR~~LPI~~~r~~il~~ve~nqvlIviGeTGsGKSTQipQyL~eaG~~~~g~I~~T 101 (674)
T KOG0922|consen 22 PEWKGAVPNGAQSYGKSTNLSIQEQRESLPIYKYRDQILYAVEDNQVLIVIGETGSGKSTQIPQYLAEAGFASSGKIACT 101 (674)
T ss_pred chhcccccccccccccccccCHHHhhccCCHHHHHHHHHHHHHHCCEEEEEcCCCCCccccHhHHHHhcccccCCcEEee
Confidence 78887766655667778888999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhH
Q 001046 575 QPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDV 654 (1176)
Q Consensus 575 ~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ 654 (1176)
||||++|+++|+|||+|+|+.+|..|||+|||+++++..|+|+|||+|+|||+++.||.|++|++|||||||||+++||+
T Consensus 102 QPRRVAavslA~RVAeE~~~~lG~~VGY~IRFed~ts~~TrikymTDG~LLRE~l~Dp~LskYsvIIlDEAHERsl~TDi 181 (674)
T KOG0922|consen 102 QPRRVAAVSLAKRVAEEMGCQLGEEVGYTIRFEDSTSKDTRIKYMTDGMLLREILKDPLLSKYSVIILDEAHERSLHTDI 181 (674)
T ss_pred cCchHHHHHHHHHHHHHhCCCcCceeeeEEEecccCCCceeEEEecchHHHHHHhcCCccccccEEEEechhhhhhHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhhCCCccEEEEcCCCCHHHHHhhhcCCCeEecCCceeeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCE
Q 001046 655 LFGLLKQLVKRRPDLRLIVTSATLDAEKFSGYFFNCNIFTIPGRTFPVEILYTKQPESDYLDASLITVLQIHLTEPEGDI 734 (1176)
Q Consensus 655 ll~llk~~~~~r~~~kvIlmSATl~~~~~~~~f~~~~v~~i~gr~~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~i 734 (1176)
|+++||.++..|+++|+|+||||+|+++|++||.+||++.|+||.|||+++|.+.+..||+++++.++++||..+++|+|
T Consensus 182 LlGlLKki~~~R~~LklIimSATlda~kfS~yF~~a~i~~i~GR~fPVei~y~~~p~~dYv~a~~~tv~~Ih~~E~~GDI 261 (674)
T KOG0922|consen 182 LLGLLKKILKKRPDLKLIIMSATLDAEKFSEYFNNAPILTIPGRTFPVEILYLKEPTADYVDAALITVIQIHLTEPPGDI 261 (674)
T ss_pred HHHHHHHHHhcCCCceEEEEeeeecHHHHHHHhcCCceEeecCCCCceeEEeccCCchhhHHHHHHHHHHHHccCCCCCE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEe
Q 001046 735 LLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVID 814 (1176)
Q Consensus 735 LVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId 814 (1176)
|||++|++||+.+|+.|.+..+.+..+.+. .++|+||+||.++|.+||++.+.|.||||+||||||+|||||||.||||
T Consensus 262 LvFLtGqeEIe~~~~~l~e~~~~~~~~~~~-~~lply~aL~~e~Q~rvF~p~p~g~RKvIlsTNIAETSlTI~GI~YVVD 340 (674)
T KOG0922|consen 262 LVFLTGQEEIEAACELLRERAKSLPEDCPE-LILPLYGALPSEEQSRVFDPAPPGKRKVILSTNIAETSLTIDGIRYVVD 340 (674)
T ss_pred EEEeCCHHHHHHHHHHHHHHhhhccccCcc-eeeeecccCCHHHhhccccCCCCCcceEEEEcceeeeeEEecceEEEEc
Confidence 999999999999999999999888877776 8999999999999999999999999999999999999999999999999
Q ss_pred CCcccceeccCCCCCccccccccCHHHHHHHhcccCCCCCcEEEEecChHHHhhhCCCCCchhhhhcChHHHHHHHHHcC
Q 001046 815 PGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTGPGKCYRLYTESAYRNEMSPTSIPEIQRINLGFTTLTMKAMG 894 (1176)
Q Consensus 815 ~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g~G~c~~L~t~~~~~~~l~~~~~pEI~r~~L~~~~L~lk~~g 894 (1176)
+|++|++.|||++|++.|.+.|+|++++.||+|||||++||+|||||++++| +.|++.++|||+|++|+.++|+||+||
T Consensus 341 sG~vK~~~y~p~~g~~~L~v~~ISkasA~QRaGRAGRt~pGkcyRLYte~~~-~~~~~~~~PEI~R~~Ls~~vL~Lkalg 419 (674)
T KOG0922|consen 341 SGFVKQKKYNPRTGLDSLIVVPISKASANQRAGRAGRTGPGKCYRLYTESAY-DKMPLQTVPEIQRVNLSSAVLQLKALG 419 (674)
T ss_pred CCceEEEeeccccCccceeEEechHHHHhhhcccCCCCCCceEEEeeeHHHH-hhcccCCCCceeeechHHHHHHHHhcC
Confidence 9999999999999999999999999999999999999999999999999999 569999999999999999999999999
Q ss_pred CCccccCCCCCCCCHHHHHHHHHHHHHcCccccCCcccH-HHHHHhcCCCChHHHHHHHHhhhcCCHHHHHHHHHHhcCC
Q 001046 895 INDLLSFDFMDPPSPQALISAMEQLYSLGALDEEGLLTK-LGRKMAEFPLDPPLSKMLLASVDLGCSDEILTIIAMIQTG 973 (1176)
Q Consensus 895 i~~~~~f~~~~pP~~~~l~~al~~L~~lgald~~g~lT~-lG~~~a~lpl~p~l~k~ll~~~~~~c~~~~l~i~a~ls~~ 973 (1176)
++|++.|+|+|||+.+++..|++.|+.+||||++|.||. +|+.|+.||++|.++|||+.|..+||++|+++||||||++
T Consensus 420 i~d~l~F~f~d~P~~~~l~~AL~~L~~lgald~~g~lt~p~G~~ma~~Pl~p~lsk~ll~s~~~gc~~e~l~i~a~Lsv~ 499 (674)
T KOG0922|consen 420 INDPLRFPFIDPPPPEALEEALEELYSLGALDDRGKLTSPLGRQMAELPLEPHLSKMLLKSSELGCSEEILTIAAMLSVQ 499 (674)
T ss_pred CCCcccCCCCCCCChHHHHHHHHHHHhcCcccCcCCcCchHHhhhhhcCCCcchhhhhhhccccCCcchhhhheeeeecc
Confidence 999999999999999999999999999999999999999 9999999999999999999999999999999999999999
Q ss_pred CCCCCchhHHHH-HHHHHhhcCCCCCcHHHHHHHHHHHHHhccCCCcccccccchhhhHHHHHHHHHHHHHHHHcCCCcc
Q 001046 974 NIFYRPREKQAQ-ADQKRAKFFQPEGDHLTLLAVYEAWKAKNFSGPWCFENFVQSRSLRRAQDVRKQLLSIMDKYKLDVM 1052 (1176)
Q Consensus 974 ~~f~~p~~~~~~-~~~~~~~~~~~~~D~l~~l~~~~~~~~~~~~~~~c~~~~l~~~~l~~~~~~r~ql~~~~~~~~~~~~ 1052 (1176)
++|++|.+++.+ ++.+|.+|.+++|||+|+|++|+.|.+++.+..||.+||||+++|++|.+||+||..++++++++..
T Consensus 500 ~~f~~p~~~~~~~a~~~~~kf~~~eGDh~tlL~vy~~~~~~~~~~~wC~en~i~~r~l~~a~~ir~QL~~i~~~~~~~~~ 579 (674)
T KOG0922|consen 500 SVFSRPKDKKAEDADRKRAKFANPEGDHLTLLNVYESWKENGTSKKWCKENFINARSLKRAKDIRKQLRRILDKFGLPVS 579 (674)
T ss_pred ceecCccchhhhhhhHHHHhhcCcccCHHHHHHHHHHHHhcCChhhHHHHhcccHHHHHHHHHHHHHHHHHHHHcCCCcc
Confidence 999999998887 9999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCcchHHHHHHhhcccccccceeCCCCCeeeeecCccEEECCCCcCCCCCCCEEEEEeeccchhhhcceecccCHHHHH
Q 001046 1053 SAGKNFTKIRKAITAGFFFHAARKDPQEGYRTLVENQPVYIHPSSALFQRQPDWVIYHELVMTTKEYMREVTVIDPKWLV 1132 (1176)
Q Consensus 1053 ~~~~~~~~i~~~l~~g~~~n~a~~~~~~~y~~~~~~~~v~ihpsS~l~~~~~~~vvy~e~~~t~~~~~~~vt~i~~~wl~ 1132 (1176)
+|+.+.+.|++|||+|||.|+|+++.+++|+|+.+|++|+|||||+||.++|+||||||++.|+|.|||+||.|+++||.
T Consensus 580 s~~~d~~~i~k~l~aGff~N~A~~~~~~~Yrti~~~~~v~IHPSS~l~~~~p~~viy~el~~Ttk~Y~r~Vt~i~~~wL~ 659 (674)
T KOG0922|consen 580 SCGGDMEKIRKCLCAGFFRNVAERDYQDGYRTIRGGQPVYIHPSSVLFRRKPEWVIYHELLQTTKEYMRNVTAIDPEWLL 659 (674)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHhhcCCCeEEccCCcEEEEechHHhhcCCCCEEEEEEEeecchHhHhheeecCHHHHH
Confidence 99999999999999999999999986666999999999999999999999999999999999999999999999999999
Q ss_pred hhccccccccCccc
Q 001046 1133 DLAPRFFKVADPTK 1146 (1176)
Q Consensus 1133 ~~~~~~~~~~~~~~ 1146 (1176)
++||+||+..+.+.
T Consensus 660 e~ap~~~~~~~~~~ 673 (674)
T KOG0922|consen 660 ELAPHFFKQSDETR 673 (674)
T ss_pred HhCchHhhcccccc
Confidence 99999998877653
No 3
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=5.5e-153 Score=1300.50 Aligned_cols=633 Identities=61% Similarity=1.060 Sum_probs=621.2
Q ss_pred hHHHHHHHhcCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCE-EEEeccHHHHHHHHHHHHHHH
Q 001046 513 KLSIQEQRQSLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGK-IGCTQPRRVAAMSVAKRVAEE 591 (1176)
Q Consensus 513 ~~~l~~~r~~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~-Ilv~~PrR~lA~qva~rva~e 591 (1176)
..++++.|++||||.++.+++.+|..+|++||+|+||||||||+||||.+.++..+++ |.||||||++|+++|.||+++
T Consensus 254 ~~~iee~RksLPVy~ykdell~av~e~QVLiI~GeTGSGKTTQiPQyL~EaGytk~gk~IgcTQPRRVAAmSVAaRVA~E 333 (902)
T KOG0923|consen 254 RESIEEVRKSLPVYPYKDELLKAVKEHQVLIIVGETGSGKTTQIPQYLYEAGYTKGGKKIGCTQPRRVAAMSVAARVAEE 333 (902)
T ss_pred HHHHHHHHhcCCchhhHHHHHHHHHhCcEEEEEcCCCCCccccccHHHHhcccccCCceEeecCcchHHHHHHHHHHHHH
Confidence 4678899999999999999999999999999999999999999999999999999887 999999999999999999999
Q ss_pred hCCccCCeeEEEeecccccCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccE
Q 001046 592 FGCRLGEEVGYAIRFEDCTGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRL 671 (1176)
Q Consensus 592 ~g~~~G~~vGy~ir~~~~~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kv 671 (1176)
||+.+|..|||.|||++|++..|.|.|||+|||||+++.+|.|..|++|||||||||++++|+|+++++.+...||++|+
T Consensus 334 MgvkLG~eVGYsIRFEdcTSekTvlKYMTDGmLlREfL~epdLasYSViiiDEAHERTL~TDILfgLvKDIar~RpdLKl 413 (902)
T KOG0923|consen 334 MGVKLGHEVGYSIRFEDCTSEKTVLKYMTDGMLLREFLSEPDLASYSVIIVDEAHERTLHTDILFGLVKDIARFRPDLKL 413 (902)
T ss_pred hCcccccccceEEEeccccCcceeeeeecchhHHHHHhccccccceeEEEeehhhhhhhhhhHHHHHHHHHHhhCCcceE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEcCCCCHHHHHhhhcCCCeEecCCceeeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHH
Q 001046 672 IVTSATLDAEKFSGYFFNCNIFTIPGRTFPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSL 751 (1176)
Q Consensus 672 IlmSATl~~~~~~~~f~~~~v~~i~gr~~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L 751 (1176)
+++|||+|+++|+.||.++|||.+|||.|||+++|...|+.||+++++.++++||.+++.|+||||++|+++|+.+.+.|
T Consensus 414 lIsSAT~DAekFS~fFDdapIF~iPGRRyPVdi~Yt~~PEAdYldAai~tVlqIH~tqp~GDILVFltGQeEIEt~~e~l 493 (902)
T KOG0923|consen 414 LISSATMDAEKFSAFFDDAPIFRIPGRRYPVDIFYTKAPEADYLDAAIVTVLQIHLTQPLGDILVFLTGQEEIETVKENL 493 (902)
T ss_pred EeeccccCHHHHHHhccCCcEEeccCcccceeeecccCCchhHHHHHHhhheeeEeccCCccEEEEeccHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCcc
Q 001046 752 YERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDS 831 (1176)
Q Consensus 752 ~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~ 831 (1176)
.+++..||.....+.++|+|++||.+.|.+||++.|+|.+|||+||||||+||||+||.||||+||+|++.|||++||.+
T Consensus 494 ~~~~~~LGski~eliv~PiYaNLPselQakIFePtP~gaRKVVLATNIAETSlTIdgI~yViDpGf~K~nsynprtGmes 573 (902)
T KOG0923|consen 494 KERCRRLGSKIRELIVLPIYANLPSELQAKIFEPTPPGARKVVLATNIAETSLTIDGIKYVIDPGFVKQNSYNPRTGMES 573 (902)
T ss_pred HHHHHHhccccceEEEeeccccCChHHHHhhcCCCCCCceeEEEeecchhhceeecCeEEEecCccccccCcCCCcCcee
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccCHHHHHHHhcccCCCCCcEEEEecChHHHhhhCCCCCchhhhhcChHHHHHHHHHcCCCccccCCCCCCCCHHH
Q 001046 832 LVITPISQASAKQRAGRAGRTGPGKCYRLYTESAYRNEMSPTSIPEIQRINLGFTTLTMKAMGINDLLSFDFMDPPSPQA 911 (1176)
Q Consensus 832 l~~~p~S~as~~QR~GRAGR~g~G~c~~L~t~~~~~~~l~~~~~pEI~r~~L~~~~L~lk~~gi~~~~~f~~~~pP~~~~ 911 (1176)
|.+.|+|++++.||+|||||+|||+||||||...|.+++...++|||+|+||.+++|.||++||+|+.+|+||||||.++
T Consensus 574 L~v~piSKAsA~QRaGRAGRtgPGKCfRLYt~~aY~~eLE~~t~PEIqRtnL~nvVL~LkSLGI~Dl~~FdFmDpPp~et 653 (902)
T KOG0923|consen 574 LLVTPISKASANQRAGRAGRTGPGKCFRLYTAWAYEHELEEMTVPEIQRTNLGNVVLLLKSLGIHDLIHFDFLDPPPTET 653 (902)
T ss_pred EEEeeechhhhhhhccccCCCCCCceEEeechhhhhhhhccCCCcceeeccchhHHHHHHhcCcchhcccccCCCCChHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHcCccccCCcccHHHHHHhcCCCChHHHHHHHHhhhcCCHHHHHHHHHHhcCC-CCCCCchhHHHHHHHHH
Q 001046 912 LISAMEQLYSLGALDEEGLLTKLGRKMAEFPLDPPLSKMLLASVDLGCSDEILTIIAMIQTG-NIFYRPREKQAQADQKR 990 (1176)
Q Consensus 912 l~~al~~L~~lgald~~g~lT~lG~~~a~lpl~p~l~k~ll~~~~~~c~~~~l~i~a~ls~~-~~f~~p~~~~~~~~~~~ 990 (1176)
+..|++.|+.||||+..|.||.+|+.|++||+||+++|||+.+..++|++||++||||||+. ++|++|++++..+|.++
T Consensus 654 L~~aLE~LyaLGALn~~GeLTk~GrrMaEfP~dPmlsKmi~as~ky~cs~EiitiaamlS~~~svfyrpk~~~v~ad~a~ 733 (902)
T KOG0923|consen 654 LLKALEQLYALGALNHLGELTKLGRRMAEFPVDPMLSKMIVASEKYKCSEEIITIAAMLSVGASVFYRPKDKQVHADNAR 733 (902)
T ss_pred HHHHHHHHHHhhccccccchhhhhhhhhhcCCCHHHHhHHhhhccccchHHHHHHHHHHhcCchheecchhhhhhhhhhh
Confidence 99999999999999999999999999999999999999999999999999999999999985 69999999999999999
Q ss_pred hhcCCCCCcHHHHHHHHHHHHHhccCCCcccccccchhhhHHHHHHHHHHHHHHHHcCCCccccCcchHHHHHHhhcccc
Q 001046 991 AKFFQPEGDHLTLLAVYEAWKAKNFSGPWCFENFVQSRSLRRAQDVRKQLLSIMDKYKLDVMSAGKNFTKIRKAITAGFF 1070 (1176)
Q Consensus 991 ~~~~~~~~D~l~~l~~~~~~~~~~~~~~~c~~~~l~~~~l~~~~~~r~ql~~~~~~~~~~~~~~~~~~~~i~~~l~~g~~ 1070 (1176)
..|..+.|||+++|++|++|+..+++.+||.+||+++++|.+|++||.||..++.+.++...+|..+...|++||.+|||
T Consensus 734 ~~f~~~~gDhi~~L~vyn~w~es~~s~~wC~e~~iq~~sm~rardir~qL~gll~~v~~~~~s~~~~~~~irk~i~aGff 813 (902)
T KOG0923|consen 734 KNFEEPVGDHIVLLNVYNQWKESKYSTQWCYENFIQYRSMKRARDIRDQLEGLLERVEIDLSSNQNDLDKIRKAITAGFF 813 (902)
T ss_pred hccCCCCcchhhhhHHHHHHhhcchhhHHHHHhhhhHHHHHHHHHHHHHHHHHhhhccccccCChHHHHHHHHHHhcccc
Confidence 99999999999999999999999999999999999999999999999999999999999888887788899999999999
Q ss_pred cccceeCCCCCeeeeecCccEEECCCCcCCCCCCCEEEEEeeccchhhhcceecccCHHHHHhhccccccccCcc
Q 001046 1071 FHAARKDPQEGYRTLVENQPVYIHPSSALFQRQPDWVIYHELVMTTKEYMREVTVIDPKWLVDLAPRFFKVADPT 1145 (1176)
Q Consensus 1071 ~n~a~~~~~~~y~~~~~~~~v~ihpsS~l~~~~~~~vvy~e~~~t~~~~~~~vt~i~~~wl~~~~~~~~~~~~~~ 1145 (1176)
+|+|+...++.|+++...+.|++||.|+||+..|.||+||++|.|+++|||.++.|.++||.|+|||||+..+-.
T Consensus 814 ~h~a~l~~~g~y~tvk~~~tv~~hp~S~l~~~~P~wvvy~eLv~tske~mr~~~e~e~~Wlie~aphyyk~kdle 888 (902)
T KOG0923|consen 814 YHTAKLSKGGHYRTVKHPQTVSIHPNSGLFEQLPRWVVYHELVLTSKEFMRQVIEIEEEWLIEVAPHYYKLKDLE 888 (902)
T ss_pred ccceeccCCCcceeeccCcceeecCcccccccCCceEEEeehhcChHHHHHHHHhhhhhHHHHhchhhhhhhhcc
Confidence 999999999899999999999999999999999999999999999999999999999999999999999976654
No 4
>KOG0925 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=2.2e-140 Score=1162.85 Aligned_cols=642 Identities=53% Similarity=0.924 Sum_probs=612.7
Q ss_pred cccccccChHHHHHHHhcCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHH
Q 001046 505 ALTFGQRSKLSIQEQRQSLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSV 584 (1176)
Q Consensus 505 ~~~~~~~~~~~l~~~r~~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qv 584 (1176)
+.+|+.+. ..|.+.|..||+|.++.++++.+.+||.++++|+||||||||+|||+++......+.|.|+||+|++|+++
T Consensus 29 ~~p~s~rY-~~ilk~R~~LPvw~~k~~F~~~l~~nQ~~v~vGetgsGKttQiPq~~~~~~~~~~~~v~CTQprrvaamsv 107 (699)
T KOG0925|consen 29 GKPYSQRY-YDILKKRRELPVWEQKEEFLKLLLNNQIIVLVGETGSGKTTQIPQFVLEYELSHLTGVACTQPRRVAAMSV 107 (699)
T ss_pred CCcCcHHH-HHHHHHHhcCchHHhHHHHHHHHhcCceEEEEecCCCCccccCcHHHHHHHHhhccceeecCchHHHHHHH
Confidence 35566554 56778899999999999999999999999999999999999999999998777778899999999999999
Q ss_pred HHHHHHHhCCccCCeeEEEeecccccCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHh
Q 001046 585 AKRVAEEFGCRLGEEVGYAIRFEDCTGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVK 664 (1176)
Q Consensus 585 a~rva~e~g~~~G~~vGy~ir~~~~~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~ 664 (1176)
|.||++||...+|.+|||.|+|++|++++|.+.|||+|||+|+.++++.|..|++||+||||||++.+|+|+++|++++.
T Consensus 108 a~RVadEMDv~lG~EVGysIrfEdC~~~~T~Lky~tDgmLlrEams~p~l~~y~viiLDeahERtlATDiLmGllk~v~~ 187 (699)
T KOG0925|consen 108 AQRVADEMDVTLGEEVGYSIRFEDCTSPNTLLKYCTDGMLLREAMSDPLLGRYGVIILDEAHERTLATDILMGLLKEVVR 187 (699)
T ss_pred HHHHHHHhccccchhccccccccccCChhHHHHHhcchHHHHHHhhCcccccccEEEechhhhhhHHHHHHHHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hCCCccEEEEcCCCCHHHHHhhhcCCCeEecCCceeeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHH
Q 001046 665 RRPDLRLIVTSATLDAEKFSGYFFNCNIFTIPGRTFPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEEI 744 (1176)
Q Consensus 665 ~r~~~kvIlmSATl~~~~~~~~f~~~~v~~i~gr~~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei 744 (1176)
.||++|+|+||||+++.+|..||+++|++.+|| ++||+++|..+++.||+++++.++++||..+.+|+||||++|.++|
T Consensus 188 ~rpdLk~vvmSatl~a~Kfq~yf~n~Pll~vpg-~~PvEi~Yt~e~erDylEaairtV~qih~~ee~GDilvFLtgeeeI 266 (699)
T KOG0925|consen 188 NRPDLKLVVMSATLDAEKFQRYFGNAPLLAVPG-THPVEIFYTPEPERDYLEAAIRTVLQIHMCEEPGDILVFLTGEEEI 266 (699)
T ss_pred hCCCceEEEeecccchHHHHHHhCCCCeeecCC-CCceEEEecCCCChhHHHHHHHHHHHHHhccCCCCEEEEecCHHHH
Confidence 999999999999999999999999999999999 9999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCC-----CceEEEEcchhhhccCCCCeeEEEeCCccc
Q 001046 745 DFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPG-----KRKVVVATNIAEASLTIDGIFYVIDPGFAK 819 (1176)
Q Consensus 745 ~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g-----~~kVlVATniae~GIdIp~V~~VId~g~~k 819 (1176)
+.+|+.+......++.+...+.++|+| +.+|.+||++.+.. .+||||+||+||++++|++|.||||.|+.|
T Consensus 267 e~aC~~i~re~~~L~~~~g~l~v~PLy----P~~qq~iFep~p~~~~~~~~RkvVvstniaetsltidgiv~VIDpGf~k 342 (699)
T KOG0925|consen 267 EDACRKISREVDNLGPQVGPLKVVPLY----PAQQQRIFEPAPEKRNGAYGRKVVVSTNIAETSLTIDGIVFVIDPGFSK 342 (699)
T ss_pred HHHHHHHHHHHHhhccccCCceEEecC----chhhccccCCCCcccCCCccceEEEEecchheeeeeccEEEEecCchhh
Confidence 999999998888899888999999999 77888999998743 489999999999999999999999999999
Q ss_pred ceeccCCCCCccccccccCHHHHHHHhcccCCCCCcEEEEecChHHHhhhCCCCCchhhhhcChHHHHHHHHHcCCCccc
Q 001046 820 QNVYNPKQGLDSLVITPISQASAKQRAGRAGRTGPGKCYRLYTESAYRNEMSPTSIPEIQRINLGFTTLTMKAMGINDLL 899 (1176)
Q Consensus 820 ~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g~G~c~~L~t~~~~~~~l~~~~~pEI~r~~L~~~~L~lk~~gi~~~~ 899 (1176)
+++|||+....+|.+.|||++++.||+|||||+.||+||+|||++.|..+|.+.+.|||+|+||++++|+||.+||.++.
T Consensus 343 qkVYNPRIRvesllv~PISkasA~qR~gragrt~pGkcfrLYte~~~~~em~~~typeilrsNL~s~VL~LKklgI~dlv 422 (699)
T KOG0925|consen 343 QKVYNPRIRVESLLVSPISKASAQQRAGRAGRTRPGKCFRLYTEEAFEKEMQPQTYPEILRSNLSSTVLQLKKLGIDDLV 422 (699)
T ss_pred hcccCcceeeeeeeeccchHhHHHHHhhhccCCCCCceEEeecHHhhhhcCCCCCcHHHHHHhhHHHHHHHHhcCccccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCCCCHHHHHHHHHHHHHcCccccCCcccHHHHHHhcCCCChHHHHHHHHhhhcCCHHHHHHHHHHhcCCCCCCCc
Q 001046 900 SFDFMDPPSPQALISAMEQLYSLGALDEEGLLTKLGRKMAEFPLDPPLSKMLLASVDLGCSDEILTIIAMIQTGNIFYRP 979 (1176)
Q Consensus 900 ~f~~~~pP~~~~l~~al~~L~~lgald~~g~lT~lG~~~a~lpl~p~l~k~ll~~~~~~c~~~~l~i~a~ls~~~~f~~p 979 (1176)
+|+|||||.++++.+|++.|..++|||++|+||++|..|++||+||.+|||||.++.|.|++|+|+|+||||+++.|.+|
T Consensus 423 hfdfmDpPAPEtLMrALE~LnYLaaLdDdGnLT~lG~imSEFPLdPqLAkmLi~S~efnCsnEiLsisAMLsvPncFvRp 502 (699)
T KOG0925|consen 423 HFDFMDPPAPETLMRALEVLNYLAALDDDGNLTSLGEIMSEFPLDPQLAKMLIGSCEFNCSNEILSISAMLSVPNCFVRP 502 (699)
T ss_pred CCcCCCCCChHHHHHHHHHhhhhhhhCCCcccchhhhhhhcCCCChHHHHHHhhcCCCCchHHHHHHHhcccCCccccCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred h-hHHHHHHHHHhhcCCCCCcHHHHHHHHHHHHHhccCCCcccccccchhhhHHHHHHHHHHHHHHHHcCCCccccC---
Q 001046 980 R-EKQAQADQKRAKFFQPEGDHLTLLAVYEAWKAKNFSGPWCFENFVQSRSLRRAQDVRKQLLSIMDKYKLDVMSAG--- 1055 (1176)
Q Consensus 980 ~-~~~~~~~~~~~~~~~~~~D~l~~l~~~~~~~~~~~~~~~c~~~~l~~~~l~~~~~~r~ql~~~~~~~~~~~~~~~--- 1055 (1176)
. +.++.|+.+++.|.|++|||+||||+|.+|+++.....||++||||+++|+.|..+|.||.++|++++++..+..
T Consensus 503 ~~~a~kaAdeak~~faH~dGDHlTLlnVYhAfkq~~~~~~WC~~~flN~ral~~Ad~vR~qL~rim~R~~L~~~st~F~S 582 (699)
T KOG0925|consen 503 TSSASKAADEAKETFAHIDGDHLTLLNVYHAFKQNNEDPNWCYDNFLNYRALKSADNVRQQLLRIMDRFNLPLCSTDFGS 582 (699)
T ss_pred ChhHHHHHHHHHHHhccCCcchHHHHHHHHHHHhcCCChhHHHHhcccHHHHHhHHHHHHHHHHHHHHhcCcccCCCCCC
Confidence 9 788899999999999999999999999999999988999999999999999999999999999999999876542
Q ss_pred -cchHHHHHHhhcccccccceeCCCCCeeeeecCccEEECCCCcCCCCCCCEEEEEeeccchhhhcceecccCHHHHHhh
Q 001046 1056 -KNFTKIRKAITAGFFFHAARKDPQEGYRTLVENQPVYIHPSSALFQRQPDWVIYHELVMTTKEYMREVTVIDPKWLVDL 1134 (1176)
Q Consensus 1056 -~~~~~i~~~l~~g~~~n~a~~~~~~~y~~~~~~~~v~ihpsS~l~~~~~~~vvy~e~~~t~~~~~~~vt~i~~~wl~~~ 1134 (1176)
.++..|+|||++|||++||+....++|.|+.+++.|+|||+++|- +.|+||+|||++.|+++|||.||.|.|+||+++
T Consensus 583 ~~y~~nirKALvsgyFmqVA~~~~~~~Ylt~kdnqvvqLhps~~l~-~~PeWVlyneFvlt~~N~ir~vt~I~pewlv~l 661 (699)
T KOG0925|consen 583 RDYYVNIRKALVSGYFMQVAHLERGGHYLTVKDNQVVQLHPSTCLD-HKPEWVLYNEFVLTTKNFIRTVTDIRPEWLVEL 661 (699)
T ss_pred hhHHHHHHHHHHHHHHHHHHhhccCCceEEEecCceEEeccccccC-CCCCeEEEeeEEeeccceeeeecccCHHHHHHh
Confidence 356789999999999999998777799999999999999999985 789999999999999999999999999999999
Q ss_pred cccccccc-CccccchHhhh
Q 001046 1135 APRFFKVA-DPTKMSKRKRQ 1153 (1176)
Q Consensus 1135 ~~~~~~~~-~~~~~~~~~~~ 1153 (1176)
||+||... -|...+|+...
T Consensus 662 aP~YydlsNfp~~e~k~~L~ 681 (699)
T KOG0925|consen 662 APQYYDLSNFPPSEAKRALE 681 (699)
T ss_pred chhhcccccCCchHHHHHHH
Confidence 99999544 45556666544
No 5
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=100.00 E-value=4.8e-119 Score=1135.79 Aligned_cols=623 Identities=39% Similarity=0.639 Sum_probs=575.5
Q ss_pred HHHhcCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccC
Q 001046 518 EQRQSLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLG 597 (1176)
Q Consensus 518 ~~r~~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G 597 (1176)
.++..|||+.++.+|++++.+++++||+|+||||||||+|+++++.+....+.|+|+||||++|+++|.||++++++.+|
T Consensus 68 ~~~~~LPi~~~r~~Il~ai~~~~VviI~GeTGSGKTTqlPq~lle~g~g~~g~I~~TQPRRlAArsLA~RVA~El~~~lG 147 (1294)
T PRK11131 68 TYPENLPVSQKKQDILEAIRDHQVVIVAGETGSGKTTQLPKICLELGRGVKGLIGHTQPRRLAARTVANRIAEELETELG 147 (1294)
T ss_pred CCCCCCCHHHHHHHHHHHHHhCCeEEEECCCCCCHHHHHHHHHHHcCCCCCCceeeCCCcHHHHHHHHHHHHHHHhhhhc
Confidence 45678999999999999999999999999999999999999999977666678999999999999999999999999999
Q ss_pred CeeEEEeecccccCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCC
Q 001046 598 EEVGYAIRFEDCTGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSAT 677 (1176)
Q Consensus 598 ~~vGy~ir~~~~~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSAT 677 (1176)
..|||.++++++.+.+|.|+|||+|+|++++..++.|.+|++|||||||||++++|+++++++.++..+|++|+|+||||
T Consensus 148 ~~VGY~vrf~~~~s~~t~I~v~TpG~LL~~l~~d~~Ls~~~~IIIDEAHERsLn~DfLLg~Lk~lL~~rpdlKvILmSAT 227 (1294)
T PRK11131 148 GCVGYKVRFNDQVSDNTMVKLMTDGILLAEIQQDRLLMQYDTIIIDEAHERSLNIDFILGYLKELLPRRPDLKVIITSAT 227 (1294)
T ss_pred ceeceeecCccccCCCCCEEEEChHHHHHHHhcCCccccCcEEEecCccccccccchHHHHHHHhhhcCCCceEEEeeCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999988899999999999
Q ss_pred CCHHHHHhhhcCCCeEecCCceeeeEEEEecCCC------chhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHH
Q 001046 678 LDAEKFSGYFFNCNIFTIPGRTFPVEILYTKQPE------SDYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSL 751 (1176)
Q Consensus 678 l~~~~~~~~f~~~~v~~i~gr~~pv~~~~~~~~~------~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L 751 (1176)
++.+.|+++|+++|++.++|+.|||+++|..... .+++...+..+..++ ..++|+|||||||+.+|+.+++.|
T Consensus 228 id~e~fs~~F~~apvI~V~Gr~~pVei~y~p~~~~~~~~~~d~l~~ll~~V~~l~-~~~~GdILVFLpg~~EIe~lae~L 306 (1294)
T PRK11131 228 IDPERFSRHFNNAPIIEVSGRTYPVEVRYRPIVEEADDTERDQLQAIFDAVDELG-REGPGDILIFMSGEREIRDTADAL 306 (1294)
T ss_pred CCHHHHHHHcCCCCEEEEcCccccceEEEeecccccchhhHHHHHHHHHHHHHHh-cCCCCCEEEEcCCHHHHHHHHHHH
Confidence 9999999999999999999999999999987543 234454444444443 456799999999999999999999
Q ss_pred HHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCcc
Q 001046 752 YERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDS 831 (1176)
Q Consensus 752 ~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~ 831 (1176)
.+. +.+.+.++++||+|++++|.++|++ .|.++|||||||||+|||||+|+||||+|++|++.||+.+|++.
T Consensus 307 ~~~------~~~~~~VlpLhg~Ls~~eQ~~Vf~~--~g~rkIIVATNIAEtSITIpgI~yVID~Gl~k~~~Yd~~~~~~~ 378 (1294)
T PRK11131 307 NKL------NLRHTEILPLYARLSNSEQNRVFQS--HSGRRIVLATNVAETSLTVPGIKYVIDPGTARISRYSYRTKVQR 378 (1294)
T ss_pred Hhc------CCCcceEeecccCCCHHHHHHHhcc--cCCeeEEEeccHHhhccccCcceEEEECCCccccccccccCccc
Confidence 763 2345678999999999999999997 47899999999999999999999999999999999999999999
Q ss_pred ccccccCHHHHHHHhcccCCCCCcEEEEecChHHHhhhCCCCCchhhhhcChHHHHHHHHHcCCCccccCCCCCCCCHHH
Q 001046 832 LVITPISQASAKQRAGRAGRTGPGKCYRLYTESAYRNEMSPTSIPEIQRINLGFTTLTMKAMGINDLLSFDFMDPPSPQA 911 (1176)
Q Consensus 832 l~~~p~S~as~~QR~GRAGR~g~G~c~~L~t~~~~~~~l~~~~~pEI~r~~L~~~~L~lk~~gi~~~~~f~~~~pP~~~~ 911 (1176)
|...|+|+++|.||+|||||.++|+||+||++++|.. +++++.|||+|++|..++|+++++|+.++..|+|++||+..+
T Consensus 379 Lp~~~iSkasa~QRaGRAGR~~~G~c~rLyte~d~~~-~~~~~~PEIlR~~L~~viL~lk~lgl~di~~F~fldpP~~~~ 457 (1294)
T PRK11131 379 LPIEPISQASANQRKGRCGRVSEGICIRLYSEDDFLS-RPEFTDPEILRTNLASVILQMTALGLGDIAAFPFVEAPDKRN 457 (1294)
T ss_pred CCeeecCHhhHhhhccccCCCCCcEEEEeCCHHHHHh-hhcccCCccccCCHHHHHHHHHHcCCCCcceeeCCCCCCHHH
Confidence 9999999999999999999999999999999999975 899999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHcCccccC-----CcccHHHHHHhcCCCChHHHHHHHHhhhcCCHHHHHHHHHHhcCCCCCCCchhHHHHH
Q 001046 912 LISAMEQLYSLGALDEE-----GLLTKLGRKMAEFPLDPPLSKMLLASVDLGCSDEILTIIAMIQTGNIFYRPREKQAQA 986 (1176)
Q Consensus 912 l~~al~~L~~lgald~~-----g~lT~lG~~~a~lpl~p~l~k~ll~~~~~~c~~~~l~i~a~ls~~~~f~~p~~~~~~~ 986 (1176)
|..|++.|+.+||||.+ ++||++|+.|+.||+||++||||+.|+.+||++++++||||||++++|.+|.++++++
T Consensus 458 i~~al~~L~~LgAld~~~~~~~~~LT~lG~~la~LPldPrlakmLl~a~~~~c~~evl~IaA~Lsv~dpf~~p~~~~~~a 537 (1294)
T PRK11131 458 IQDGVRLLEELGAITTDEQASAYKLTPLGRQLAQLPVDPRLARMVLEAQKHGCVREVMIITSALSIQDPRERPMDKQQAS 537 (1294)
T ss_pred HHHHHHHHHHCCCCCccccCCCccCcHHHHHHHhCCCChHHHHHHHHhhhcCCHHHHHHHHHHHcCCCcccCCchhHHHH
Confidence 99999999999999864 5799999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhcCCCCCcHHHHHHHHHHHHHhcc--C----CCcccccccchhhhHHHHHHHHHHHHHHHHcCCCccccCcchHH
Q 001046 987 DQKRAKFFQPEGDHLTLLAVYEAWKAKNF--S----GPWCFENFVQSRSLRRAQDVRKQLLSIMDKYKLDVMSAGKNFTK 1060 (1176)
Q Consensus 987 ~~~~~~~~~~~~D~l~~l~~~~~~~~~~~--~----~~~c~~~~l~~~~l~~~~~~r~ql~~~~~~~~~~~~~~~~~~~~ 1060 (1176)
+.++.+|.+++|||+|+||+|+.|.+... + ..||.+||||+.+|+++.+++.||..++.++++..+++..+++.
T Consensus 538 ~~~~~~f~~~~sD~lt~ln~~~~~~~~~~~~s~~~~~~~C~~~~L~~~~l~e~~~i~~QL~~~~~~~g~~~~~~~~~~~~ 617 (1294)
T PRK11131 538 DEKHRRFADKESDFLAFVNLWNYLQEQQKALSSNQFRRLCRTDYLNYLRVREWQDIYTQLRQVVKELGIPVNSEPAEYRE 617 (1294)
T ss_pred HHHHHhhCCCCCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHcCCCCCCCcccHHH
Confidence 99999999999999999999999975422 1 36999999999999999999999999999999998888889999
Q ss_pred HHHHhhcccccccceeCCCCCeeeeecCccEEECCCCcCCCCCCCEEEEEeeccchhhhcceecccCHHHHHhhcccccc
Q 001046 1061 IRKAITAGFFFHAARKDPQEGYRTLVENQPVYIHPSSALFQRQPDWVIYHELVMTTKEYMREVTVIDPKWLVDLAPRFFK 1140 (1176)
Q Consensus 1061 i~~~l~~g~~~n~a~~~~~~~y~~~~~~~~v~ihpsS~l~~~~~~~vvy~e~~~t~~~~~~~vt~i~~~wl~~~~~~~~~ 1140 (1176)
|++|||+|||.|+|+++..++++....+..|+|||+|+|++.+|+||||+|++.|++.|||+|+.|+|+||.++||++|+
T Consensus 618 i~~all~G~~~nva~~~~~~~~y~~~~~~~~~ihP~S~L~~~~p~wvv~~Elv~Tsr~y~r~va~I~p~Wl~~~a~~l~~ 697 (1294)
T PRK11131 618 IHTALLTGLLSHIGMKDAEKQEYTGARNARFSIFPGSGLFKKPPKWVMVAELVETSRLWGRIAARIEPEWIEPLAQHLIK 697 (1294)
T ss_pred HHHHHHhhcHHHHeeccCCCCeEEccCCcEEEEcCCccccCCCCCEEEEEeeeccChhhhhhhcccCHHHHHHHHHHhcc
Confidence 99999999999999987665544455688999999999999999999999999999999999999999999999999987
Q ss_pred ccCcc-ccchH
Q 001046 1141 VADPT-KMSKR 1150 (1176)
Q Consensus 1141 ~~~~~-~~~~~ 1150 (1176)
..-.. .|+++
T Consensus 698 ~~y~ePhw~~~ 708 (1294)
T PRK11131 698 RSYSEPHWEKA 708 (1294)
T ss_pred ccCCCCccccc
Confidence 54432 45554
No 6
>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA. This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=100.00 E-value=6.1e-115 Score=1103.26 Aligned_cols=624 Identities=41% Similarity=0.674 Sum_probs=576.3
Q ss_pred HHHHhcCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCcc
Q 001046 517 QEQRQSLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRL 596 (1176)
Q Consensus 517 ~~~r~~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~ 596 (1176)
..++..|||+.++.+|+++|.+++++||+|+||||||||+|+++++.+....++|+|+||||++|.++|.||++++|+.+
T Consensus 60 ~~~~~~LPi~~~~~~Il~~l~~~~vvii~g~TGSGKTTqlPq~lle~~~~~~~~I~~tQPRRlAA~svA~RvA~elg~~l 139 (1283)
T TIGR01967 60 IRYPDNLPVSAKREDIAEAIAENQVVIIAGETGSGKTTQLPKICLELGRGSHGLIGHTQPRRLAARTVAQRIAEELGTPL 139 (1283)
T ss_pred ccCCCCCCHHHHHHHHHHHHHhCceEEEeCCCCCCcHHHHHHHHHHcCCCCCceEecCCccHHHHHHHHHHHHHHhCCCc
Confidence 34567899999999999999999999999999999999999999998776678999999999999999999999999999
Q ss_pred CCeeEEEeecccccCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcC
Q 001046 597 GEEVGYAIRFEDCTGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSA 676 (1176)
Q Consensus 597 G~~vGy~ir~~~~~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSA 676 (1176)
|..|||.++++++.+.+|+|+|||+|+|++++..++.|.+|++|||||||||++++|+++++++.++..++++|+|+|||
T Consensus 140 G~~VGY~vR~~~~~s~~T~I~~~TdGiLLr~l~~d~~L~~~~~IIIDEaHERsL~~D~LL~lLk~il~~rpdLKlIlmSA 219 (1283)
T TIGR01967 140 GEKVGYKVRFHDQVSSNTLVKLMTDGILLAETQQDRFLSRYDTIIIDEAHERSLNIDFLLGYLKQLLPRRPDLKIIITSA 219 (1283)
T ss_pred ceEEeeEEcCCcccCCCceeeeccccHHHHHhhhCcccccCcEEEEcCcchhhccchhHHHHHHHHHhhCCCCeEEEEeC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCHHHHHhhhcCCCeEecCCceeeeEEEEecCCC------chhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHH
Q 001046 677 TLDAEKFSGYFFNCNIFTIPGRTFPVEILYTKQPE------SDYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQS 750 (1176)
Q Consensus 677 Tl~~~~~~~~f~~~~v~~i~gr~~pv~~~~~~~~~------~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~ 750 (1176)
|++.+.|++||+++|++.++|+.|||+++|..... .++....+..+..++ ...+|+|||||||+.+|+.+++.
T Consensus 220 Tld~~~fa~~F~~apvI~V~Gr~~PVev~Y~~~~~~~~~~~~~~~~~i~~~I~~l~-~~~~GdILVFLpg~~EI~~l~~~ 298 (1283)
T TIGR01967 220 TIDPERFSRHFNNAPIIEVSGRTYPVEVRYRPLVEEQEDDDLDQLEAILDAVDELF-AEGPGDILIFLPGEREIRDAAEI 298 (1283)
T ss_pred CcCHHHHHHHhcCCCEEEECCCcccceeEEecccccccchhhhHHHHHHHHHHHHH-hhCCCCEEEeCCCHHHHHHHHHH
Confidence 99999999999999999999999999999976432 134444444444443 34679999999999999999999
Q ss_pred HHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCc
Q 001046 751 LYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLD 830 (1176)
Q Consensus 751 L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~ 830 (1176)
|.+. ..+++.++++||+|+.++|.++|.++ +.++|||||||||+|||||+|+||||+|++|.+.||+.+|++
T Consensus 299 L~~~------~~~~~~VlpLhg~Ls~~eQ~~vf~~~--~~rkIVLATNIAEtSLTIpgV~yVIDsGl~r~~~yd~~~~~~ 370 (1283)
T TIGR01967 299 LRKR------NLRHTEILPLYARLSNKEQQRVFQPH--SGRRIVLATNVAETSLTVPGIHYVIDTGTARISRYSYRTKVQ 370 (1283)
T ss_pred HHhc------CCCCcEEEeccCCCCHHHHHHHhCCC--CCceEEEeccHHHhccccCCeeEEEeCCCccccccccccCcc
Confidence 9763 22467899999999999999999875 358999999999999999999999999999999999999999
Q ss_pred cccccccCHHHHHHHhcccCCCCCcEEEEecChHHHhhhCCCCCchhhhhcChHHHHHHHHHcCCCccccCCCCCCCCHH
Q 001046 831 SLVITPISQASAKQRAGRAGRTGPGKCYRLYTESAYRNEMSPTSIPEIQRINLGFTTLTMKAMGINDLLSFDFMDPPSPQ 910 (1176)
Q Consensus 831 ~l~~~p~S~as~~QR~GRAGR~g~G~c~~L~t~~~~~~~l~~~~~pEI~r~~L~~~~L~lk~~gi~~~~~f~~~~pP~~~ 910 (1176)
.|.+.|+|+++|.||+|||||.++|+||+||++++|.. +++++.|||+|++|..++|+++++|+.++..|+|++||+..
T Consensus 371 ~L~~~~ISkasa~QRaGRAGR~~~G~cyRLyte~~~~~-~~~~~~PEIlR~~L~~viL~l~~lg~~di~~f~fldpP~~~ 449 (1283)
T TIGR01967 371 RLPIEPISQASANQRKGRCGRVAPGICIRLYSEEDFNS-RPEFTDPEILRTNLASVILQMLALRLGDIAAFPFIEAPDPR 449 (1283)
T ss_pred ccCCccCCHHHHHHHhhhhCCCCCceEEEecCHHHHHh-hhhccCcccccccHHHHHHHHHhcCCCCcccccCCCCCCHH
Confidence 99999999999999999999999999999999999975 89999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHcCccccCC---cccHHHHHHhcCCCChHHHHHHHHhhhcCCHHHHHHHHHHhcCCCCCCCchhHHHHHH
Q 001046 911 ALISAMEQLYSLGALDEEG---LLTKLGRKMAEFPLDPPLSKMLLASVDLGCSDEILTIIAMIQTGNIFYRPREKQAQAD 987 (1176)
Q Consensus 911 ~l~~al~~L~~lgald~~g---~lT~lG~~~a~lpl~p~l~k~ll~~~~~~c~~~~l~i~a~ls~~~~f~~p~~~~~~~~ 987 (1176)
++..|++.|+.+||||++| .||++|+.|+.||++|++|+||+.|..+||++++++|||+||++++|.+|.+++.+++
T Consensus 450 ~i~~A~~~L~~LGAld~~~~~~~LT~lGr~ma~LPldPrlarmLl~a~~~gcl~e~l~IaA~Ls~~dp~~~p~~~~~~a~ 529 (1283)
T TIGR01967 450 AIRDGFRLLEELGALDDDEAEPQLTPIGRQLAQLPVDPRLARMLLEAHRLGCLQEVLIIASALSIQDPRERPMEKQQAAD 529 (1283)
T ss_pred HHHHHHHHHHHCCCCCCCCCCccccHHHHHHhhcCCChHHHHHHHHhhhcCCHHHHHHHHHHHcCCCcCCCcchhHHHHH
Confidence 9999999999999999998 7999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhcCCCCCcHHHHHHHHHHHHHhc--c----CCCcccccccchhhhHHHHHHHHHHHHHHHHcCCCccccCcchHHH
Q 001046 988 QKRAKFFQPEGDHLTLLAVYEAWKAKN--F----SGPWCFENFVQSRSLRRAQDVRKQLLSIMDKYKLDVMSAGKNFTKI 1061 (1176)
Q Consensus 988 ~~~~~~~~~~~D~l~~l~~~~~~~~~~--~----~~~~c~~~~l~~~~l~~~~~~r~ql~~~~~~~~~~~~~~~~~~~~i 1061 (1176)
+++.+|.++.|||++++|+|+.|.... . ...||.+||||+.+|+++.++++||..++.++++...++..+++.|
T Consensus 530 ~~~~~f~~~~sD~l~~L~~~~~~~~~~~~~~~~~~~~~C~~~fL~~~~l~~~~~i~~QL~~~~~~~~~~~~~~~~~~~~i 609 (1283)
T TIGR01967 530 QAHARFKDPRSDFLSRVNLWRHIEEQRQALSANQFRNACRKQYLNYLRVREWQDIYRQLTQVVKELGLKLNEEPADYDAI 609 (1283)
T ss_pred HHHHHhcCCCCCHHHHHHHHHHHHHhhhhccchHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHHHcCCCcCCCCccHHHH
Confidence 999999999999999999999997642 1 2479999999999999999999999999999988777666677789
Q ss_pred HHHhhcccccccceeCCCCCeeeeecCccEEECCCCcCCCCCCCEEEEEeeccchhhhcceecccCHHHHHhhccccccc
Q 001046 1062 RKAITAGFFFHAARKDPQEGYRTLVENQPVYIHPSSALFQRQPDWVIYHELVMTTKEYMREVTVIDPKWLVDLAPRFFKV 1141 (1176)
Q Consensus 1062 ~~~l~~g~~~n~a~~~~~~~y~~~~~~~~v~ihpsS~l~~~~~~~vvy~e~~~t~~~~~~~vt~i~~~wl~~~~~~~~~~ 1141 (1176)
++|||+|||+|||++...+.|.+. +|..++|||+|+|++.+|+||||+|++.|++.||++|++|+|+||.+++|++|+.
T Consensus 610 ~~~l~~g~~~~iA~~~~~~~y~~~-~g~~~~ihP~S~L~~~~p~wvv~~elv~t~~~~ir~~a~I~p~wl~~~~~~~~~~ 688 (1283)
T TIGR01967 610 HKALLSGLLSQIGMKDEKHEYDGA-RGRKFHIFPGSPLFKKPPKWVMAAELVETSKLYARLVAKIEPEWVEPVAGHLIKK 688 (1283)
T ss_pred HHHHHHhhHHHHheeCCCCcEEec-CCcEEEECCCccccCCCCCEEEEeeecccchheEeeeccCCHHHHHHHhHHHhEe
Confidence 999999999999998765567664 5788999999999988899999999999999999999999999999999999987
Q ss_pred c-CccccchHh
Q 001046 1142 A-DPTKMSKRK 1151 (1176)
Q Consensus 1142 ~-~~~~~~~~~ 1151 (1176)
. ....|++++
T Consensus 689 ~~~~~~w~~~~ 699 (1283)
T TIGR01967 689 NYFEPHWEKKR 699 (1283)
T ss_pred ccCceeeccCC
Confidence 7 556676643
No 7
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=100.00 E-value=4.9e-115 Score=1067.22 Aligned_cols=625 Identities=47% Similarity=0.737 Sum_probs=579.0
Q ss_pred hHHHHHHHhcCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHh
Q 001046 513 KLSIQEQRQSLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEF 592 (1176)
Q Consensus 513 ~~~l~~~r~~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~ 592 (1176)
...+.+++..|||+..+.++++++.+++++||+||||||||||+|+++++.++...++|+|+||||++|+++|+||++++
T Consensus 39 ~~~~~~~~~~LPv~~~~~~i~~ai~~~~vvii~getGsGKTTqlP~~lle~g~~~~g~I~~tQPRRlAArsvA~RvAeel 118 (845)
T COG1643 39 VPDILEYRSGLPVTAVRDEILKAIEQNQVVIIVGETGSGKTTQLPQFLLEEGLGIAGKIGCTQPRRLAARSVAERVAEEL 118 (845)
T ss_pred cchhhhccccCCcHHHHHHHHHHHHhCCEEEEeCCCCCChHHHHHHHHHhhhcccCCeEEecCchHHHHHHHHHHHHHHh
Confidence 44567889999999999999999999999999999999999999999999999888899999999999999999999999
Q ss_pred CCccCCeeEEEeecccccCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCC-CccE
Q 001046 593 GCRLGEEVGYAIRFEDCTGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRP-DLRL 671 (1176)
Q Consensus 593 g~~~G~~vGy~ir~~~~~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~-~~kv 671 (1176)
|+.+|..|||.+||++.++++|+|.|||+|+|+++++.|+.|+.|++|||||||||++++|+++++++.++..++ |+|+
T Consensus 119 ~~~~G~~VGY~iRfe~~~s~~Trik~mTdGiLlrei~~D~~Ls~ys~vIiDEaHERSl~tDilLgllk~~~~~rr~DLKi 198 (845)
T COG1643 119 GEKLGETVGYSIRFESKVSPRTRIKVMTDGILLREIQNDPLLSGYSVVIIDEAHERSLNTDILLGLLKDLLARRRDDLKL 198 (845)
T ss_pred CCCcCceeeEEEEeeccCCCCceeEEeccHHHHHHHhhCcccccCCEEEEcchhhhhHHHHHHHHHHHHHHhhcCCCceE
Confidence 999999999999999999999999999999999999999999999999999999999999999999999887555 8999
Q ss_pred EEEcCCCCHHHHHhhhcCCCeEecCCceeeeEEEEecCCCchh-HHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHH
Q 001046 672 IVTSATLDAEKFSGYFFNCNIFTIPGRTFPVEILYTKQPESDY-LDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQS 750 (1176)
Q Consensus 672 IlmSATl~~~~~~~~f~~~~v~~i~gr~~pv~~~~~~~~~~~~-~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~ 750 (1176)
|+||||+|++.|++||+++|++.++||+|||+++|.+....+| +...+..+++++..++.|+||||+||+++|+.+++.
T Consensus 199 IimSATld~~rfs~~f~~apvi~i~GR~fPVei~Y~~~~~~d~~l~~ai~~~v~~~~~~~~GdILvFLpG~~EI~~~~~~ 278 (845)
T COG1643 199 IIMSATLDAERFSAYFGNAPVIEIEGRTYPVEIRYLPEAEADYILLDAIVAAVDIHLREGSGSILVFLPGQREIERTAEW 278 (845)
T ss_pred EEEecccCHHHHHHHcCCCCEEEecCCccceEEEecCCCCcchhHHHHHHHHHHHhccCCCCCEEEECCcHHHHHHHHHH
Confidence 9999999999999999999999999999999999999988899 999999999999999999999999999999999999
Q ss_pred HHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCc
Q 001046 751 LYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLD 830 (1176)
Q Consensus 751 L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~ 830 (1176)
|.+ ..++ +.+.|+|+||.|+.++|.++|++.+.|++|||+||||||||||||||+||||+|++|++.||+++|++
T Consensus 279 L~~--~~l~---~~~~i~PLy~~L~~~eQ~rvF~p~~~~~RKVVlATNIAETSLTI~gIr~VIDsG~ak~~~y~~~~g~~ 353 (845)
T COG1643 279 LEK--AELG---DDLEILPLYGALSAEEQVRVFEPAPGGKRKVVLATNIAETSLTIPGIRYVIDSGLAKEKRYDPRTGLT 353 (845)
T ss_pred HHh--cccc---CCcEEeeccccCCHHHHHhhcCCCCCCcceEEEEccccccceeeCCeEEEecCCcccccccccccCce
Confidence 987 2222 57899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccccCHHHHHHHhcccCCCCCcEEEEecChHHHhhhCCCCCchhhhhcChHHHHHHHHHcCCC-ccccCCCCCCCCH
Q 001046 831 SLVITPISQASAKQRAGRAGRTGPGKCYRLYTESAYRNEMSPTSIPEIQRINLGFTTLTMKAMGIN-DLLSFDFMDPPSP 909 (1176)
Q Consensus 831 ~l~~~p~S~as~~QR~GRAGR~g~G~c~~L~t~~~~~~~l~~~~~pEI~r~~L~~~~L~lk~~gi~-~~~~f~~~~pP~~ 909 (1176)
.|.++|+|++++.||+|||||++||+|||||++++|. .|+.++.|||+|+||+.++|+|++||+. |+..|+|+|||+.
T Consensus 354 ~L~~~~ISqAsA~QRaGRAGR~~pGicyRLyse~~~~-~~~~~t~PEIlrtdLs~~vL~l~~~G~~~d~~~f~fld~P~~ 432 (845)
T COG1643 354 RLETEPISKASADQRAGRAGRTGPGICYRLYSEEDFL-AFPEFTLPEILRTDLSGLVLQLKSLGIGQDIAPFPFLDPPPE 432 (845)
T ss_pred eeeEEEechhhhhhhccccccCCCceEEEecCHHHHH-hcccCCChhhhhcchHHHHHHHHhcCCCCCcccCccCCCCCh
Confidence 9999999999999999999999999999999999998 7999999999999999999999999995 9999999999999
Q ss_pred HHHHHHHHHHHHcCccccCCcccHHHHHHhcCCCChHHHHHHHHhhhcCCHHHHHHHHHHhcCCC---CCCCchhHHH--
Q 001046 910 QALISAMEQLYSLGALDEEGLLTKLGRKMAEFPLDPPLSKMLLASVDLGCSDEILTIIAMIQTGN---IFYRPREKQA-- 984 (1176)
Q Consensus 910 ~~l~~al~~L~~lgald~~g~lT~lG~~~a~lpl~p~l~k~ll~~~~~~c~~~~l~i~a~ls~~~---~f~~p~~~~~-- 984 (1176)
.++..|++.|+.+||||++|.||++|+.|+.||++|++|+||+.+..+||++++++||||||+++ .|+++.+...
T Consensus 433 ~~i~~A~~~L~~LGAld~~g~LT~lG~~ms~lpldprLA~mLl~a~~~g~~~e~~~Ias~Ls~~~~~s~~~~~~~~~~~~ 512 (845)
T COG1643 433 AAIQAALTLLQELGALDDSGKLTPLGKQMSLLPLDPRLARMLLTAPEGGCLGEAATIASMLSEQDRESDFSRDVKLRKQR 512 (845)
T ss_pred HHHHHHHHHHHHcCCcCCCCCCCHHHHHHHhCCCChHHHHHHHhccccCcHHHHHHHHHhhccCCCcchhccccchhhHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999 6887775544
Q ss_pred -HHHHH-HhhcCC---CCCcHHHHHHHHHHHHHhc------cCCCcccccccchhhhHHHHHHHHHHHHHHHH-cCCCcc
Q 001046 985 -QADQK-RAKFFQ---PEGDHLTLLAVYEAWKAKN------FSGPWCFENFVQSRSLRRAQDVRKQLLSIMDK-YKLDVM 1052 (1176)
Q Consensus 985 -~~~~~-~~~~~~---~~~D~l~~l~~~~~~~~~~------~~~~~c~~~~l~~~~l~~~~~~r~ql~~~~~~-~~~~~~ 1052 (1176)
..+.. +..+.+ +.+||+++|++|..|.... ....||..++++.++|.++..++.+++..+.+ .+....
T Consensus 513 ~~~~~~~~l~~~~~~~~~~d~~~ll~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~i~~~~l~~~~~~~~~~~~ 592 (845)
T COG1643 513 TAQDLLKRLKRRNAADPRGDHLLLLEAFPDRIARKRAKGEYLRANGCRAMLFPTKALSRAPWIIAALLVQTSALAGRILA 592 (845)
T ss_pred HHHHHHHHHHhccCCCcchHHHHHHHHHHHHHHhhhccchhhHhcChhhhcCChhHHHhhHHHHHHHHHhhhccccchhh
Confidence 33333 355665 7899999999999998776 45689999999999999999999999888776 443322
Q ss_pred ccCc------------------chHHHHHHhhcccccccceeCCCCC-eeeeecCccEEECCCC-cCCCCCCCEEEEEee
Q 001046 1053 SAGK------------------NFTKIRKAITAGFFFHAARKDPQEG-YRTLVENQPVYIHPSS-ALFQRQPDWVIYHEL 1112 (1176)
Q Consensus 1053 ~~~~------------------~~~~i~~~l~~g~~~n~a~~~~~~~-y~~~~~~~~v~ihpsS-~l~~~~~~~vvy~e~ 1112 (1176)
.... .|+.+++|+++|++.|+++...... |.++.++..|++||+| ......++|++|++.
T Consensus 593 ~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~l~a~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~v~~~~~~~~~~~~~~~ 672 (845)
T COG1643 593 AAEIDEDEWAAQHLPEHCYSEPIWDDIRGALAAGRKLNIAQLQLDGRPYVTLSDNTPVFAHPSSVRLGLVLLEWIKYAEF 672 (845)
T ss_pred hcccCcchhhhhhhhhhhccchhHHHHhhhhhhheecceeeeeccccccccCCCCceeEecchhHhhcccCcchHHHHHH
Confidence 2221 3688999999999999999876554 8999999999999999 666678999999999
Q ss_pred ccchhhhcc-----------eecccCHHHHHhhcc---ccccccC
Q 001046 1113 VMTTKEYMR-----------EVTVIDPKWLVDLAP---RFFKVAD 1143 (1176)
Q Consensus 1113 ~~t~~~~~~-----------~vt~i~~~wl~~~~~---~~~~~~~ 1143 (1176)
+.|++.|++ .++.+.+.||.+.++ +++...+
T Consensus 673 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~wL~~~~~~~~~~~~~~~ 717 (845)
T COG1643 673 LRTRKGYLREGRGERWPDVQTLIELLKLWLKEQVKGLRGLDGLTK 717 (845)
T ss_pred HHHHHHHHhhcccccCcccchHhhhHHHhhhhhccccchhhhhhh
Confidence 999999999 599999999999988 5555433
No 8
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.1e-112 Score=981.46 Aligned_cols=634 Identities=42% Similarity=0.676 Sum_probs=574.9
Q ss_pred ChHHHHHHHhcCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCC-----CEEEEeccHHHHHHHHHH
Q 001046 512 SKLSIQEQRQSLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTR-----GKIGCTQPRRVAAMSVAK 586 (1176)
Q Consensus 512 ~~~~l~~~r~~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~-----~~Ilv~~PrR~lA~qva~ 586 (1176)
....+++.|..|||+...++|+++|..|.+|||||+||||||||+||||+++++... |.|.+|||||++|+.+|+
T Consensus 244 R~~EIQ~sR~~LPI~aeEq~IMEaIn~n~vvIIcGeTGsGKTTQvPQFLYEAGf~s~~~~~~gmIGITqPRRVAaiamAk 323 (1172)
T KOG0926|consen 244 RPAEIQESRLDLPIVAEEQRIMEAINENPVVIICGETGSGKTTQVPQFLYEAGFASEQSSSPGMIGITQPRRVAAIAMAK 323 (1172)
T ss_pred CcHHHHHHHhcCchhHHHHHHHHHhhcCCeEEEecCCCCCccccchHHHHHcccCCccCCCCCeeeecCchHHHHHHHHH
Confidence 456899999999999999999999999999999999999999999999999998764 689999999999999999
Q ss_pred HHHHHhCCccCCeeEEEeecccccCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhC
Q 001046 587 RVAEEFGCRLGEEVGYAIRFEDCTGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRR 666 (1176)
Q Consensus 587 rva~e~g~~~G~~vGy~ir~~~~~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r 666 (1176)
||+.|+|. +|..|||+|||+...++.|.|+|||+|+||+++.+|..|..|++|||||||||+++||+|+++|.+++..|
T Consensus 324 RVa~EL~~-~~~eVsYqIRfd~ti~e~T~IkFMTDGVLLrEi~~DflL~kYSvIIlDEAHERSvnTDILiGmLSRiV~LR 402 (1172)
T KOG0926|consen 324 RVAFELGV-LGSEVSYQIRFDGTIGEDTSIKFMTDGVLLREIENDFLLTKYSVIILDEAHERSVNTDILIGMLSRIVPLR 402 (1172)
T ss_pred HHHHHhcc-CccceeEEEEeccccCCCceeEEecchHHHHHHHHhHhhhhceeEEechhhhccchHHHHHHHHHHHHHHH
Confidence 99999998 99999999999999999999999999999999999999999999999999999999999999999998744
Q ss_pred ----------CCccEEEEcCCCCHHHHHh---hhc-CCCeEecCCceeeeEEEEecCCCchhHHHHHHHHHHHHhcCCCC
Q 001046 667 ----------PDLRLIVTSATLDAEKFSG---YFF-NCNIFTIPGRTFPVEILYTKQPESDYLDASLITVLQIHLTEPEG 732 (1176)
Q Consensus 667 ----------~~~kvIlmSATl~~~~~~~---~f~-~~~v~~i~gr~~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g 732 (1176)
..+|+|+||||+-...|.. .|. ..|++.++.|.|||.+||.+....||+..++...+.||...|+|
T Consensus 403 ~k~~ke~~~~kpLKLIIMSATLRVsDFtenk~LFpi~pPlikVdARQfPVsIHF~krT~~DYi~eAfrKtc~IH~kLP~G 482 (1172)
T KOG0926|consen 403 QKYYKEQCQIKPLKLIIMSATLRVSDFTENKRLFPIPPPLIKVDARQFPVSIHFNKRTPDDYIAEAFRKTCKIHKKLPPG 482 (1172)
T ss_pred HHHhhhhcccCceeEEEEeeeEEecccccCceecCCCCceeeeecccCceEEEeccCCCchHHHHHHHHHHHHhhcCCCC
Confidence 3789999999998888873 343 46799999999999999999999999999999999999999999
Q ss_pred CEEEEeCCHHHHHHHHHHHHHHHhc-------------------------------------------------------
Q 001046 733 DILLFLTGQEEIDFACQSLYERMKG------------------------------------------------------- 757 (1176)
Q Consensus 733 ~iLVFl~~~~ei~~l~~~L~~~~~~------------------------------------------------------- 757 (1176)
.||||++|+.+++.+|+.|.+++..
T Consensus 483 ~ILVFvTGQqEV~qL~~kLRK~~p~~f~~~k~~k~~k~~~e~k~~~s~~~~~~k~~dfe~Ed~~~~~ed~d~~~~~~~~~ 562 (1172)
T KOG0926|consen 483 GILVFVTGQQEVDQLCEKLRKRFPESFGGVKMKKNVKAFKELKENPSDIGDSNKTDDFEEEDMYESDEDIDQELVDSGFA 562 (1172)
T ss_pred cEEEEEeChHHHHHHHHHHHhhCccccccchhhhhhhhccccccchhhhccCcccccchhcccccchhhhhhhhhcccch
Confidence 9999999999999999999887310
Q ss_pred --------c--------C-------------------CCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhh
Q 001046 758 --------L--------G-------------------KNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEA 802 (1176)
Q Consensus 758 --------l--------~-------------------~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~ 802 (1176)
+ | .....+.++|||+-|+.+.|.+||+..+.|.+-||||||+|||
T Consensus 563 ~~raa~~~~~De~~~~nge~e~d~~e~~~E~~~~~~~~~~~pLyvLPLYSLLs~~~Q~RVF~~~p~g~RLcVVaTNVAET 642 (1172)
T KOG0926|consen 563 SLRAAFNALADENGSVNGEPEKDESEEGQEAEQGKGKFSPGPLYVLPLYSLLSTEKQMRVFDEVPKGERLCVVATNVAET 642 (1172)
T ss_pred hhhhhhhccccccccccCCcccchhhhchhhhhccCCCCCCceEEeehhhhcCHHHhhhhccCCCCCceEEEEeccchhc
Confidence 0 0 0112578999999999999999999999999999999999999
Q ss_pred ccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCCCcEEEEecChHHHhhhCCCCCchhhhhcC
Q 001046 803 SLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTGPGKCYRLYTESAYRNEMSPTSIPEIQRIN 882 (1176)
Q Consensus 803 GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g~G~c~~L~t~~~~~~~l~~~~~pEI~r~~ 882 (1176)
|||||+|+||||+|.+|...||..+|++++.+.|+|+|++.||+|||||+|||+|||||+...|.+.|..++.|||++.+
T Consensus 643 SLTIPgIkYVVD~Gr~K~R~Yd~~TGV~~FeV~wiSkASadQRAGRAGRtgpGHcYRLYSSAVf~~~Fe~fS~PEIlk~P 722 (1172)
T KOG0926|consen 643 SLTIPGIKYVVDCGRVKERLYDSKTGVSSFEVDWISKASADQRAGRAGRTGPGHCYRLYSSAVFSNDFEEFSLPEILKKP 722 (1172)
T ss_pred ccccCCeeEEEeccchhhhccccccCceeEEEEeeeccccchhccccCCCCCCceeehhhhHHhhcchhhhccHHHhhCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHcCCCccccCCCCCCCCHHHHHHHHHHHHHcCccccCCcccHHHHHHhcCCCChHHHHHHHHhhhcCCHHH
Q 001046 883 LGFTTLTMKAMGINDLLSFDFMDPPSPQALISAMEQLYSLGALDEEGLLTKLGRKMAEFPLDPPLSKMLLASVDLGCSDE 962 (1176)
Q Consensus 883 L~~~~L~lk~~gi~~~~~f~~~~pP~~~~l~~al~~L~~lgald~~g~lT~lG~~~a~lpl~p~l~k~ll~~~~~~c~~~ 962 (1176)
.+.++|+||+|+|..+.+|||++||...++..|...|..|||||.+|.||+||+.|+.|||.|+++|||+.+.+.+|+.-
T Consensus 723 ve~lvLqMKsMnI~kVvnFPFPtpPd~~~L~~Aer~L~~LgALd~~g~lT~lGk~mS~FPlsPrfsKmL~~~~Q~~~lpy 802 (1172)
T KOG0926|consen 723 VESLVLQMKSMNIDKVVNFPFPTPPDRSALEKAERRLKALGALDSNGGLTKLGKAMSLFPLSPRFSKMLATSDQHNLLPY 802 (1172)
T ss_pred HHHHHHHHHhcCccceecCCCCCCccHHHHHHHHHHHHHhccccccCCcccccchhcccccChhHHHHHHHHHhhcchhH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhcCCCCCCC--------------chhH------------------HHHHHHHHhhcCCCCCcHHHHHHHHHHH
Q 001046 963 ILTIIAMIQTGNIFYR--------------PREK------------------QAQADQKRAKFFQPEGDHLTLLAVYEAW 1010 (1176)
Q Consensus 963 ~l~i~a~ls~~~~f~~--------------p~~~------------------~~~~~~~~~~~~~~~~D~l~~l~~~~~~ 1010 (1176)
++.++++||++.+|.. |-++ +.....++.+|....||-|+||.+..++
T Consensus 803 ~i~lvsaLsv~e~~i~~~~ll~n~~~r~~~~eE~d~~~~de~~~d~~~K~~rr~~~~aa~~rf~~l~sd~l~Ll~Av~a~ 882 (1172)
T KOG0926|consen 803 NIALVSALSVYEVLIVAASLLPNPLIREFEPEEKDLIKDDETVEDKELKKRRREKSKAARSRFSNLDSDALVLLSAVSAA 882 (1172)
T ss_pred HHHHHHHHhccchhhhhhhcccccccccCCcchhhccccccccccHHHHHHHHHHHHHHHhhhccCCccHHHHHHHHHHH
Confidence 9999999999887752 1110 0111224556777789999999999998
Q ss_pred HHhccCCCcccccccchhhhHHHHHHHHHHHHHHHHcCCCc-------ccc-C--cchHHHHHHhhcccccccceeCCCC
Q 001046 1011 KAKNFSGPWCFENFVQSRSLRRAQDVRKQLLSIMDKYKLDV-------MSA-G--KNFTKIRKAITAGFFFHAARKDPQE 1080 (1176)
Q Consensus 1011 ~~~~~~~~~c~~~~l~~~~l~~~~~~r~ql~~~~~~~~~~~-------~~~-~--~~~~~i~~~l~~g~~~n~a~~~~~~ 1080 (1176)
........||..|||..++|.+++++|+||..++.+.++.. ... . .....+++.|||||-+++|++-+..
T Consensus 883 ey~~~~~rfc~~ngLr~Kam~Ev~KLR~QL~~lv~~~~i~~v~~~~d~~l~ppt~~q~~lLrQ~i~Ag~~DrVArk~~~~ 962 (1172)
T KOG0926|consen 883 EYAENGMRFCEANGLRLKAMEEVRKLRKQLTNLVNHGNIQDVEKSWDLTLKPPTDTQAKLLRQMICAGFADRVARKVDAT 962 (1172)
T ss_pred HhhhhcchhHHhcchHHHHHHHHHHHHHHHHHHHHHhHHHHHHHhcccCCCCCchHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 88777778999999999999999999999999987554321 111 1 1234689999999999999976665
Q ss_pred CeeeeecCccEEECCCCcCCCCCCCEEEEEeeccchhhhcc-eecccCHHHHHhhccccccccCccc
Q 001046 1081 GYRTLVENQPVYIHPSSALFQRQPDWVIYHELVMTTKEYMR-EVTVIDPKWLVDLAPRFFKVADPTK 1146 (1176)
Q Consensus 1081 ~y~~~~~~~~v~ihpsS~l~~~~~~~vvy~e~~~t~~~~~~-~vt~i~~~wl~~~~~~~~~~~~~~~ 1146 (1176)
.|-+..-+.+|+|||+|+|++..|+||||.|++.|...||. ++|.|.|+||..+++.++...++.+
T Consensus 963 ~y~~~~i~~~~fl~~~svl~~~ape~viY~el~~~~~~~~~~~v~~v~pewl~~~~~slcn~~e~~k 1029 (1172)
T KOG0926|consen 963 EYDAAKIQEPVFLHRWSVLINSAPELVIYQELLLTNRPYMHGGVTAVRPEWLLNHAKSLCNFSEPLK 1029 (1172)
T ss_pred ccchhhhcCceeeeehhhhhccCccceehhhhhhcCCcccccceEEEchHHHHhhhhhhcccccccc
Confidence 68777778899999999999999999999999999987765 5999999999999999988877653
No 9
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=100.00 E-value=1.5e-107 Score=993.89 Aligned_cols=626 Identities=39% Similarity=0.599 Sum_probs=560.7
Q ss_pred ChHHHHHHHhcCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccC--CCEEEEeccHHHHHHHHHHHHH
Q 001046 512 SKLSIQEQRQSLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTT--RGKIGCTQPRRVAAMSVAKRVA 589 (1176)
Q Consensus 512 ~~~~l~~~r~~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~--~~~Ilv~~PrR~lA~qva~rva 589 (1176)
....+...|.+||+|.+++++++++.++++++|+|+||||||||+||++++..+.. ..+|+||||||+.|+++|+||+
T Consensus 161 ~~~~~~~~R~~LPa~~~r~~Il~~i~~~qVvvIsGeTGcGKTTQvpQfiLd~~~~~~~~~~IicTQPRRIsAIsvAeRVa 240 (924)
T KOG0920|consen 161 SYKEMLRFRESLPAYKMRDTILDAIEENQVVVISGETGCGKTTQVPQFILDEAIESGAACNIICTQPRRISAISVAERVA 240 (924)
T ss_pred HHHHHHHHHHhCccHHHHHHHHHHHHhCceEEEeCCCCCCchhhhhHHHHHHHHhcCCCCeEEecCCchHHHHHHHHHHH
Confidence 45678899999999999999999999999999999999999999999999964433 4589999999999999999999
Q ss_pred HHhCCccCCeeEEEeecccccCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCc
Q 001046 590 EEFGCRLGEEVGYAIRFEDCTGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDL 669 (1176)
Q Consensus 590 ~e~g~~~G~~vGy~ir~~~~~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~ 669 (1176)
.|++..+|..|||+||.+...+..|.+.|||+|+||+.|+.++.+.+++|||+||+|||++++|+++.+++.++..+|++
T Consensus 241 ~ER~~~~g~~VGYqvrl~~~~s~~t~L~fcTtGvLLr~L~~~~~l~~vthiivDEVHER~i~~DflLi~lk~lL~~~p~L 320 (924)
T KOG0920|consen 241 KERGESLGEEVGYQVRLESKRSRETRLLFCTTGVLLRRLQSDPTLSGVTHIIVDEVHERSINTDFLLILLKDLLPRNPDL 320 (924)
T ss_pred HHhccccCCeeeEEEeeecccCCceeEEEecHHHHHHHhccCcccccCceeeeeeEEEccCCcccHHHHHHHHhhhCCCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cEEEEcCCCCHHHHHhhhcCCCeEecCCceeeeEEEEecCC----------Cchh---------------------HHHH
Q 001046 670 RLIVTSATLDAEKFSGYFFNCNIFTIPGRTFPVEILYTKQP----------ESDY---------------------LDAS 718 (1176)
Q Consensus 670 kvIlmSATl~~~~~~~~f~~~~v~~i~gr~~pv~~~~~~~~----------~~~~---------------------~~~~ 718 (1176)
|+|+||||+|++.|+.||++||+++++|++|||..+|+.+. ...+ .+..
T Consensus 321 kvILMSAT~dae~fs~YF~~~pvi~i~grtfpV~~~fLEDil~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~id~~Li 400 (924)
T KOG0920|consen 321 KVILMSATLDAELFSDYFGGCPVITIPGRTFPVKEYFLEDILSKTGYVSEDDSARSGPERSQLRLARLKLWEPEIDYDLI 400 (924)
T ss_pred eEEEeeeecchHHHHHHhCCCceEeecCCCcchHHHHHHHHHHHhcccccccccccccccCccccccchhccccccHHHH
Confidence 99999999999999999999999999999999998876431 0001 1112
Q ss_pred HHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcc
Q 001046 719 LITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATN 798 (1176)
Q Consensus 719 l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATn 798 (1176)
...+..|+.....|.||||+||+++|..+++.|...... .+...+.++|+||.|+.++|+.||...+.|.+|||+|||
T Consensus 401 ~~li~~I~~~~~~GaILVFLPG~~eI~~~~~~L~~~~~f--~~~~~~~ilplHs~~~s~eQ~~VF~~pp~g~RKIIlaTN 478 (924)
T KOG0920|consen 401 EDLIEYIDEREFEGAILVFLPGWEEILQLKELLEVNLPF--ADSLKFAILPLHSSIPSEEQQAVFKRPPKGTRKIILATN 478 (924)
T ss_pred HHHHHhcccCCCCceEEEEcCCHHHHHHHHHHhhhcccc--ccccceEEEeccccCChHHHHHhcCCCCCCcchhhhhhh
Confidence 233445566667899999999999999999988643211 112468999999999999999999999999999999999
Q ss_pred hhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCCCcEEEEecChHHHhhhCCCCCchhh
Q 001046 799 IAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTGPGKCYRLYTESAYRNEMSPTSIPEI 878 (1176)
Q Consensus 799 iae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g~G~c~~L~t~~~~~~~l~~~~~pEI 878 (1176)
|||+|||||+|.||||+|.+|++.|||..++.+|...|+|++++.||+|||||..+|.||+||+...|+..+..+++|||
T Consensus 479 IAETSITIdDVvyVIDsG~~Ke~~yD~~~~~s~l~~~wvSkAna~QR~GRAGRv~~G~cy~L~~~~~~~~~~~~~q~PEi 558 (924)
T KOG0920|consen 479 IAETSITIDDVVYVIDSGLVKEKSYDPERKVSCLLLSWVSKANAKQRRGRAGRVRPGICYHLYTRSRYEKLMLAYQLPEI 558 (924)
T ss_pred hHhhcccccCeEEEEecCeeeeeeecccCCcchhheeeccccchHHhcccccCccCCeeEEeechhhhhhcccccCChHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999886666999999
Q ss_pred hhcChHHHHHHHHHcCCCccccC--CCCCCCCHHHHHHHHHHHHHcCccccCCcccHHHHHHhcCCCChHHHHHHHHhhh
Q 001046 879 QRINLGFTTLTMKAMGINDLLSF--DFMDPPSPQALISAMEQLYSLGALDEEGLLTKLGRKMAEFPLDPPLSKMLLASVD 956 (1176)
Q Consensus 879 ~r~~L~~~~L~lk~~gi~~~~~f--~~~~pP~~~~l~~al~~L~~lgald~~g~lT~lG~~~a~lpl~p~l~k~ll~~~~ 956 (1176)
+|.+|.++||++|.+++.++..| ..++||+.+++..|+..|..+||||.++.||+||+.|+.||+||.+||||+.|..
T Consensus 559 lR~pL~~l~L~iK~l~~~~~~~fLskaldpP~~~~v~~a~~~L~~igaL~~~e~LT~LG~~la~lPvd~~igK~ll~g~i 638 (924)
T KOG0920|consen 559 LRTPLEELCLHIKVLEQGSIKAFLSKALDPPPADAVDLAIERLKQIGALDESEELTPLGLHLASLPVDVRIGKLLLFGAI 638 (924)
T ss_pred HhChHHHhhheeeeccCCCHHHHHHHhcCCCChHHHHHHHHHHHHhccccCcccchHHHHHHHhCCCccccchhheehhh
Confidence 99999999999999988877655 6799999999999999999999999999999999999999999999999999999
Q ss_pred cCCHHHHHHHHHHhcCCCCCCCchhHHHHHHHHHhhcCCC-CCcHHHHHHHHHHHHHhccC-----CCcccccccchhhh
Q 001046 957 LGCSDEILTIIAMIQTGNIFYRPREKQAQADQKRAKFFQP-EGDHLTLLAVYEAWKAKNFS-----GPWCFENFVQSRSL 1030 (1176)
Q Consensus 957 ~~c~~~~l~i~a~ls~~~~f~~p~~~~~~~~~~~~~~~~~-~~D~l~~l~~~~~~~~~~~~-----~~~c~~~~l~~~~l 1030 (1176)
|+|++++++|||+|+.++||+.|.++.+.+++.+..|... .||||+++++|+.|.....+ ..||.+|||+..+|
T Consensus 639 f~cLdp~l~iaa~Ls~k~PF~~~~~~~~~~~~~~~~~~~~~~SD~la~~~ay~~w~~~~~~~~~~~~~fc~~~fLs~~~l 718 (924)
T KOG0920|consen 639 FGCLDPALTIAAALSFKSPFVSPLGKREEADKAKKLLALDSISDHLAVVRAYAGWREILRSGPSAEKDFCEENFLSSNTL 718 (924)
T ss_pred ccccchhhhHHHHhccCCCcccCCCchhHHHHHHHHhccCCcchHHHHHHHHHHHHHHHhccchHHHHHHHHhhccHHHH
Confidence 9999999999999999999999999999999998888755 49999999999999876444 47999999999999
Q ss_pred HHHHHHHHHHHHHHHHcCCCcc------------ccCcchHHHHHHhhcccccccceeCC---CCCeeeeecC--ccEEE
Q 001046 1031 RRAQDVRKQLLSIMDKYKLDVM------------SAGKNFTKIRKAITAGFFFHAARKDP---QEGYRTLVEN--QPVYI 1093 (1176)
Q Consensus 1031 ~~~~~~r~ql~~~~~~~~~~~~------------~~~~~~~~i~~~l~~g~~~n~a~~~~---~~~y~~~~~~--~~v~i 1093 (1176)
+++.+++.|+...+.++++-.. ..+.+++.++++||+|||||+|+... ...-.+..++ ..|+|
T Consensus 719 ~~i~~l~~q~~~~l~~~g~~~~~~~~~~~~~~~n~~s~~~~~iravl~a~lyP~i~~~~~~~~~~~~~~~~~~~~~~v~i 798 (924)
T KOG0920|consen 719 QEISSLRVQFLELLSDIGLIPISSTAALTDSECNHNSQNPELVRAVLCAGLYPNIAFVRRMEPKSKSVTFVTKADGRVII 798 (924)
T ss_pred HHHHHHHHHHHHHhhhcccccCCcccccCchhhhhcCCCHHHHHHHHhccCCCceeeeecccCCcCcceeecCCceeEEE
Confidence 9999999999999998876322 12356789999999999999998653 2222233333 36999
Q ss_pred CCCCcCCCC---CCCEEEEEeeccchh-hhcceecccCHHHHHhhccccc
Q 001046 1094 HPSSALFQR---QPDWVIYHELVMTTK-EYMREVTVIDPKWLVDLAPRFF 1139 (1176)
Q Consensus 1094 hpsS~l~~~---~~~~vvy~e~~~t~~-~~~~~vt~i~~~wl~~~~~~~~ 1139 (1176)
||+|+.++. ..+|++|++.+.|++ .|+|++|.+.+-.++.++...+
T Consensus 799 ~~~sv~~~~~~~~~p~l~~~~k~~t~~~~~~rd~T~v~~~~~llfgg~~~ 848 (924)
T KOG0920|consen 799 HPSSVNEQSTGFQSPFLVFPEKVKSTRLVSLRDTTSVSSSALLLFGGGIS 848 (924)
T ss_pred ecchhhccccccCCcceEEeeecccCCcceeeecCCCCcHHheeecCCce
Confidence 999998753 344999999999999 9999999999999998887655
No 10
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=100.00 E-value=4.8e-92 Score=881.99 Aligned_cols=573 Identities=34% Similarity=0.507 Sum_probs=504.2
Q ss_pred cCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeE
Q 001046 522 SLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVG 601 (1176)
Q Consensus 522 ~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vG 601 (1176)
.|||+.+..++++++.+++++|++|+|||||||++|+++++.... .++|+|++|||++|.|++++++++++..+|..||
T Consensus 3 ~LPi~~~~~~i~~~l~~~~~vvv~A~TGSGKTt~~pl~lL~~~~~-~~~ilvlqPrR~aA~qia~rva~~l~~~~g~~VG 81 (812)
T PRK11664 3 SLPVAAVLPELLTALKTAPQVLLKAPTGAGKSTWLPLQLLQHGGI-NGKIIMLEPRRLAARNVAQRLAEQLGEKPGETVG 81 (812)
T ss_pred CCCHHHHHHHHHHHHHhCCCEEEEcCCCCCHHHHHHHHHHHcCCc-CCeEEEECChHHHHHHHHHHHHHHhCcccCceEE
Confidence 499999999999999999999999999999999999999987543 4699999999999999999999999999999999
Q ss_pred EEeecccccCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHh-hCCCccEEEEcCCCCH
Q 001046 602 YAIRFEDCTGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVK-RRPDLRLIVTSATLDA 680 (1176)
Q Consensus 602 y~ir~~~~~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~-~r~~~kvIlmSATl~~ 680 (1176)
|.+++++..+..++|+|+|+|+|++++..++.|.+|++|||||||||++++|+++++++.+.. .++++|+|+||||++.
T Consensus 82 y~vr~~~~~~~~t~I~v~T~G~Llr~l~~d~~L~~v~~IIlDEaHER~l~~Dl~L~ll~~i~~~lr~~lqlilmSATl~~ 161 (812)
T PRK11664 82 YRMRAESKVGPNTRLEVVTEGILTRMIQRDPELSGVGLVILDEFHERSLQADLALALLLDVQQGLRDDLKLLIMSATLDN 161 (812)
T ss_pred EEecCccccCCCCcEEEEChhHHHHHHhhCCCcCcCcEEEEcCCCccccccchHHHHHHHHHHhCCccceEEEEecCCCH
Confidence 999999999999999999999999999999999999999999999999999999999888776 5789999999999999
Q ss_pred HHHHhhhcCCCeEecCCceeeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCC
Q 001046 681 EKFSGYFFNCNIFTIPGRTFPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGK 760 (1176)
Q Consensus 681 ~~~~~~f~~~~v~~i~gr~~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~ 760 (1176)
+.|+.||.+++++.++|+.|||+++|...+..+++...+..++........|++||||||+.+|+.+++.|.+.+.
T Consensus 162 ~~l~~~~~~~~~I~~~gr~~pV~~~y~~~~~~~~~~~~v~~~l~~~l~~~~g~iLVFlpg~~ei~~l~~~L~~~~~---- 237 (812)
T PRK11664 162 DRLQQLLPDAPVIVSEGRSFPVERRYQPLPAHQRFDEAVARATAELLRQESGSLLLFLPGVGEIQRVQEQLASRVA---- 237 (812)
T ss_pred HHHHHhcCCCCEEEecCccccceEEeccCchhhhHHHHHHHHHHHHHHhCCCCEEEEcCCHHHHHHHHHHHHHhcc----
Confidence 9999999999999999999999999988776666665554444444455679999999999999999999986321
Q ss_pred CCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHH
Q 001046 761 NVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQA 840 (1176)
Q Consensus 761 ~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~a 840 (1176)
.++.++++||+|+.++|.+++..|++|+++|||||||||+|||||+|+||||+|+.|...||+.+|++.|.+.|+|++
T Consensus 238 --~~~~v~~Lhg~l~~~eq~~~~~~~~~G~rkVlvATnIAErsLtIp~V~~VID~Gl~r~~~yd~~~g~~~L~~~~iSka 315 (812)
T PRK11664 238 --SDVLLCPLYGALSLAEQQKAILPAPAGRRKVVLATNIAETSLTIEGIRLVVDSGLERVARFDPKTGLTRLVTQRISQA 315 (812)
T ss_pred --CCceEEEeeCCCCHHHHHHHhccccCCCeEEEEecchHHhcccccCceEEEECCCcccccccccCCcceeEEEeechh
Confidence 357899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhcccCCCCCcEEEEecChHHHhhhCCCCCchhhhhcChHHHHHHHHHcCCCccccCCCCCCCCHHHHHHHHHHHH
Q 001046 841 SAKQRAGRAGRTGPGKCYRLYTESAYRNEMSPTSIPEIQRINLGFTTLTMKAMGINDLLSFDFMDPPSPQALISAMEQLY 920 (1176)
Q Consensus 841 s~~QR~GRAGR~g~G~c~~L~t~~~~~~~l~~~~~pEI~r~~L~~~~L~lk~~gi~~~~~f~~~~pP~~~~l~~al~~L~ 920 (1176)
+|.||+|||||.++|.||+||++.+|.. |.++..|||++++|++++|.++++|+.++..|+|+|||+..++..|++.|+
T Consensus 316 sa~QR~GRaGR~~~G~cyrL~t~~~~~~-l~~~~~PEI~r~dL~~~~L~l~~~g~~~~~~~~~ld~P~~~~~~~A~~~L~ 394 (812)
T PRK11664 316 SMTQRAGRAGRLEPGICLHLYSKEQAER-AAAQSEPEILHSDLSGLLLELLQWGCHDPAQLSWLDQPPAAALAAAKRLLQ 394 (812)
T ss_pred hhhhhccccCCCCCcEEEEecCHHHHhh-CccCCCCceeccchHHHHHHHHHcCCCCHHhCCCCCCCCHHHHHHHHHHHH
Confidence 9999999999999999999999999965 999999999999999999999999999999999999999999999999999
Q ss_pred HcCccccCCcccHHHHHHhcCCCChHHHHHHHHhhhcCCHH--HHHHHHHHhcCCCCCCCchhHHHHHHHHHhhcCCCCC
Q 001046 921 SLGALDEEGLLTKLGRKMAEFPLDPPLSKMLLASVDLGCSD--EILTIIAMIQTGNIFYRPREKQAQADQKRAKFFQPEG 998 (1176)
Q Consensus 921 ~lgald~~g~lT~lG~~~a~lpl~p~l~k~ll~~~~~~c~~--~~l~i~a~ls~~~~f~~p~~~~~~~~~~~~~~~~~~~ 998 (1176)
.+||||++|+||++|+.|+.||++|++|+||+.|..+||.. .++.|||+|+.++. .. .+
T Consensus 395 ~lgald~~g~lT~~G~~m~~lp~~Prla~~ll~a~~~~~~~l~~a~~laall~e~~~--~~-----------------~~ 455 (812)
T PRK11664 395 QLGALDGQGRLTARGRKMAALGNDPRLAAMLVAAKEDDEAALATAAKLAAILEEPPR--SG-----------------SS 455 (812)
T ss_pred HCCCCCCCCCcCHHHHHHHhcCCchHHHHHHHHHHhcCchhhHHHHHHHHhhccCCC--CC-----------------cc
Confidence 99999999999999999999999999999999999999753 67777888876531 00 24
Q ss_pred cHHHHHHHHHHHHHhccCCCcccccccchhhhHHHHHHHHHHHHHHHHcCCCccccCcchHHHHHHhhcccccccceeCC
Q 001046 999 DHLTLLAVYEAWKAKNFSGPWCFENFVQSRSLRRAQDVRKQLLSIMDKYKLDVMSAGKNFTKIRKAITAGFFFHAARKDP 1078 (1176)
Q Consensus 999 D~l~~l~~~~~~~~~~~~~~~c~~~~l~~~~l~~~~~~r~ql~~~~~~~~~~~~~~~~~~~~i~~~l~~g~~~n~a~~~~ 1078 (1176)
|....+..+. ..|+ +.+..+.+|+.... + . .+.+.+..|||+||+++||++.+
T Consensus 456 d~~~~l~~~~--------~~~~----------~~~~~~~~~~~~~~---~-~-----~~~~~~~~~la~aypdriA~~r~ 508 (812)
T PRK11664 456 DLGVALSRKQ--------PHWQ----------QRAQQLLKRLNVRG---G-E-----ADSSLIAPLLALAFPDRIARRRG 508 (812)
T ss_pred cHHHHHHHHH--------HHHH----------HHHHHHHHHHHhhc---c-c-----CChHHHHHHHHHHCHHHHhhhcC
Confidence 5433333221 1232 33555555553311 1 1 13345889999999999999876
Q ss_pred CCCeeeeecCccEEECCCCcCCCCCCCEEEEEeeccch-h--hhcceecccCHHHHHhhccccccccCccccchH
Q 001046 1079 QEGYRTLVENQPVYIHPSSALFQRQPDWVIYHELVMTT-K--EYMREVTVIDPKWLVDLAPRFFKVADPTKMSKR 1150 (1176)
Q Consensus 1079 ~~~y~~~~~~~~v~ihpsS~l~~~~~~~vvy~e~~~t~-~--~~~~~vt~i~~~wl~~~~~~~~~~~~~~~~~~~ 1150 (1176)
..+|+.+.+|..++|||+|+|++ .+|+|+++++.++ + ..|+.+++|+++||.+++|.+|...+...+++.
T Consensus 509 ~~~~~~l~~G~~a~l~~~~~l~~--~~~lv~a~~~~~~~~~~~ri~~a~~l~~~~l~~~~~~~~~~~~~~~~d~~ 581 (812)
T PRK11664 509 QDGRYQLANGMGAMLDADDALSR--HEWLIAPLLLQGSASPDARILLALPLDIDELVQRCPQLVQQSDTVEWDEA 581 (812)
T ss_pred CCCeEEeeCCCeEEECCCCcccC--CCeEEEEEhhccCccccceeeEeeccCHHHHHHHHHHhceeeeEEEEecC
Confidence 66788999999999999999984 6999999997663 3 458899999999999999999988777777653
No 11
>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB. This model represents HrpB, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria, but also in a few species of other lineages. The member from Rhizobium meliloti has been designated HelO. HrpB is typically about 800 residues in length, while its paralog HrpA (TIGR01967), also uncharacterized, is about 1300 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=100.00 E-value=8.9e-92 Score=877.14 Aligned_cols=583 Identities=32% Similarity=0.475 Sum_probs=506.9
Q ss_pred CCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEE
Q 001046 523 LPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGY 602 (1176)
Q Consensus 523 LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy 602 (1176)
|||+.+..++++++.+++++||+|+|||||||++|+++++... .+++|+|++|||++|.|+++++++++++.+|..|||
T Consensus 1 LPi~~~~~~i~~~l~~~~~vIi~a~TGSGKTT~vpl~lL~~~~-~~~~ilvlqPrR~aA~qiA~rva~~~~~~~g~~VGy 79 (819)
T TIGR01970 1 LPIHAVLPALRDALAAHPQVVLEAPPGAGKSTAVPLALLDAPG-IGGKIIMLEPRRLAARSAAQRLASQLGEAVGQTVGY 79 (819)
T ss_pred CCchHHHHHHHHHHHcCCcEEEECCCCCCHHHHHHHHHHHhhc-cCCeEEEEeCcHHHHHHHHHHHHHHhCCCcCcEEEE
Confidence 7999999999999999999999999999999999999998753 457999999999999999999999999999999999
Q ss_pred EeecccccCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHh-hCCCccEEEEcCCCCHH
Q 001046 603 AIRFEDCTGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVK-RRPDLRLIVTSATLDAE 681 (1176)
Q Consensus 603 ~ir~~~~~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~-~r~~~kvIlmSATl~~~ 681 (1176)
.++++...+.+++|+|+|+|+|++++..++.|.+|++|||||||||++++|+++++++.+.. .++++|+|+||||++.+
T Consensus 80 ~vr~~~~~s~~t~I~v~T~G~Llr~l~~d~~L~~v~~VIiDEaHER~L~~Dl~L~ll~~i~~~lr~dlqlIlmSATl~~~ 159 (819)
T TIGR01970 80 RVRGENKVSRRTRLEVVTEGILTRMIQDDPELDGVGALIFDEFHERSLDADLGLALALDVQSSLREDLKILAMSATLDGE 159 (819)
T ss_pred EEccccccCCCCcEEEECCcHHHHHHhhCcccccCCEEEEeccchhhhccchHHHHHHHHHHhcCCCceEEEEeCCCCHH
Confidence 99999999999999999999999999999999999999999999999999999999888775 57899999999999999
Q ss_pred HHHhhhcCCCeEecCCceeeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCC
Q 001046 682 KFSGYFFNCNIFTIPGRTFPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKN 761 (1176)
Q Consensus 682 ~~~~~f~~~~v~~i~gr~~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~ 761 (1176)
.|..||.+++++.++|+.|||+++|......+++...+...+..+.....|+|||||||+.+|+.+++.|.+.+.
T Consensus 160 ~l~~~l~~~~vI~~~gr~~pVe~~y~~~~~~~~~~~~v~~~l~~~l~~~~g~iLVFlpg~~eI~~l~~~L~~~~~----- 234 (819)
T TIGR01970 160 RLSSLLPDAPVVESEGRSFPVEIRYLPLRGDQRLEDAVSRAVEHALASETGSILVFLPGQAEIRRVQEQLAERLD----- 234 (819)
T ss_pred HHHHHcCCCcEEEecCcceeeeeEEeecchhhhHHHHHHHHHHHHHHhcCCcEEEEECCHHHHHHHHHHHHhhcC-----
Confidence 999999999999999999999999987765555544443333333444579999999999999999999976431
Q ss_pred CCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHH
Q 001046 762 VPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQAS 841 (1176)
Q Consensus 762 ~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as 841 (1176)
+++.++++||+|++++|.++|+.|++|.++|||||||||+|||||+|+||||+|+.|...||+.+|++.|.+.|+|+++
T Consensus 235 -~~~~v~pLHg~L~~~eq~~~~~~~~~G~rkVlVATnIAErgItIp~V~~VID~Gl~r~~~yd~~~g~~~L~~~~iSkas 313 (819)
T TIGR01970 235 -SDVLICPLYGELSLAAQDRAIKPDPQGRRKVVLATNIAETSLTIEGIRVVIDSGLARVARFDPKTGITRLETVRISQAS 313 (819)
T ss_pred -CCcEEEEecCCCCHHHHHHHHhhcccCCeEEEEecchHhhcccccCceEEEEcCcccccccccccCCceeeEEEECHHH
Confidence 3688999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhcccCCCCCcEEEEecChHHHhhhCCCCCchhhhhcChHHHHHHHHHcCCCccccCCCCCCCCHHHHHHHHHHHHH
Q 001046 842 AKQRAGRAGRTGPGKCYRLYTESAYRNEMSPTSIPEIQRINLGFTTLTMKAMGINDLLSFDFMDPPSPQALISAMEQLYS 921 (1176)
Q Consensus 842 ~~QR~GRAGR~g~G~c~~L~t~~~~~~~l~~~~~pEI~r~~L~~~~L~lk~~gi~~~~~f~~~~pP~~~~l~~al~~L~~ 921 (1176)
|.||+|||||.++|.||+||++++|.. |.++..|||++++|+.++|+++++|+.++..|+|++||+..++..|++.|+.
T Consensus 314 a~QR~GRAGR~~~G~cyrL~t~~~~~~-l~~~~~PEI~r~~L~~~~L~l~~~g~~~~~~~~~l~~P~~~~i~~a~~~L~~ 392 (819)
T TIGR01970 314 ATQRAGRAGRLEPGVCYRLWSEEQHQR-LPAQDEPEILQADLSGLALELAQWGAKDPSDLRWLDAPPSVALAAARQLLQR 392 (819)
T ss_pred HHhhhhhcCCCCCCEEEEeCCHHHHHh-hhcCCCcceeccCcHHHHHHHHHcCCCChhhCCCCCCcCHHHHHHHHHHHHH
Confidence 999999999999999999999999864 9999999999999999999999999999999999999999999999999999
Q ss_pred cCccccCCcccHHHHHHhcCCCChHHHHHHHHhhhcCCHHHHHHHHHHhcCCCCCCCchhHHHHHHHHHhhcCCCCCcHH
Q 001046 922 LGALDEEGLLTKLGRKMAEFPLDPPLSKMLLASVDLGCSDEILTIIAMIQTGNIFYRPREKQAQADQKRAKFFQPEGDHL 1001 (1176)
Q Consensus 922 lgald~~g~lT~lG~~~a~lpl~p~l~k~ll~~~~~~c~~~~l~i~a~ls~~~~f~~p~~~~~~~~~~~~~~~~~~~D~l 1001 (1176)
+||||.+|+||++|+.|+.||++|++|+||+.|..+||.+++++|||+|++++++.. ..+|..
T Consensus 393 lgald~~~~lT~~G~~~~~lp~~p~l~~~ll~~~~~~~~~~~~~iaa~ls~~~~~~~-----------------~~~d~~ 455 (819)
T TIGR01970 393 LGALDAQGRLTAHGKAMAALGCHPRLAAMLLSAHSTGLAALACDLAALLEERGLPRQ-----------------GGADLM 455 (819)
T ss_pred CCCCCCCCCcCHHHHHHHhcCCCHHHHHHHHHhhhcCCHHHHHHHHHHHcCCCCCCC-----------------CcccHH
Confidence 999999999999999999999999999999999999999999999999999986531 136766
Q ss_pred HHHHHHHHHHHhccCCCcccccccchhhhHHHHHHHHHHHHHHHHcCCC-ccccCcchHHHHHHhhcccccccceeCCCC
Q 001046 1002 TLLAVYEAWKAKNFSGPWCFENFVQSRSLRRAQDVRKQLLSIMDKYKLD-VMSAGKNFTKIRKAITAGFFFHAARKDPQE 1080 (1176)
Q Consensus 1002 ~~l~~~~~~~~~~~~~~~c~~~~l~~~~l~~~~~~r~ql~~~~~~~~~~-~~~~~~~~~~i~~~l~~g~~~n~a~~~~~~ 1080 (1176)
..+..+.. . ....| ..+.++.+|+...+ +.. ......+...+-.+++.||+++||++.++.
T Consensus 456 ~~~~~~~~---~--~~~~~----------~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~g~lla~a~pdria~~r~~~ 517 (819)
T TIGR01970 456 NRLHRLQQ---G--RQGRG----------QRAQQLAKKLRRRL---RFSQADSGAIASHALGLLLALAFPDRIAKRRGQP 517 (819)
T ss_pred HHHHHHhh---c--chhhH----------HHHHHHHHHHHHHh---CcCcCCCcccccchHhHHHhhhChHhheeccCCC
Confidence 65554432 1 01111 23444555554432 111 000111111266789999999999977554
Q ss_pred CeeeeecCccEEECCCCcCCCCCCCEEEEEeeccch---hhhcceecccCHHHHHhhccccccccCccccchH
Q 001046 1081 GYRTLVENQPVYIHPSSALFQRQPDWVIYHELVMTT---KEYMREVTVIDPKWLVDLAPRFFKVADPTKMSKR 1150 (1176)
Q Consensus 1081 ~y~~~~~~~~v~ihpsS~l~~~~~~~vvy~e~~~t~---~~~~~~vt~i~~~wl~~~~~~~~~~~~~~~~~~~ 1150 (1176)
+.+.+.+|..+.|+|.|.|.+ .+|++..++..++ ...|+.+++|+++||.+++++.+...+...++++
T Consensus 518 ~~y~l~~G~~~~l~~~~~l~~--~~~l~~a~~~~~~~~~~~~i~~a~~i~~~~~~~~~~~~~~~~~~~~wd~~ 588 (819)
T TIGR01970 518 GRYQLANGRGAVLSAEDALAR--EPWLVAADLGEGQGKTAARILLAAPVDEALLRQVLPDLVVQVDQVDWDET 588 (819)
T ss_pred CeEECCCCCeeEeCCCCcccC--CCeEEEEEeeccCCccccceeeeccCCHHHHHHHhHHHceEEEEEEEecC
Confidence 556889999999999999984 5899999997442 3578899999999999999988877776667654
No 12
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=100.00 E-value=6.5e-63 Score=576.49 Aligned_cols=621 Identities=29% Similarity=0.466 Sum_probs=514.7
Q ss_pred HHHHHHHhcCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCC----EEEEeccHHHHHHHHHHHHH
Q 001046 514 LSIQEQRQSLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRG----KIGCTQPRRVAAMSVAKRVA 589 (1176)
Q Consensus 514 ~~l~~~r~~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~----~Ilv~~PrR~lA~qva~rva 589 (1176)
..+..+|..||+..+..++++++.++.+++|-++|||||||++.++|++....... .+.++||||+.|++++++|+
T Consensus 368 ~~~~a~re~lpva~~~~~i~q~v~dn~v~~I~getgcgk~tq~aq~iLe~~~~ns~g~~~na~v~qprrisaisiaerva 447 (1282)
T KOG0921|consen 368 DKITAQREELPVAQYRSEILQAVAENRVVIIKGETGCGKSTQVAQFLLESFLENSNGASFNAVVSQPRRISAISLAERVA 447 (1282)
T ss_pred hhhhhhhhhCcHHHHHHHHHHHHhcCceeeEeecccccchhHHHHHHHHHHhhccccccccceeccccccchHHHHHHHH
Confidence 34568899999999999999999999999999999999999999999997554321 57899999999999999999
Q ss_pred HHhCCccCCeeEEEeecccccC-CCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCC
Q 001046 590 EEFGCRLGEEVGYAIRFEDCTG-PDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPD 668 (1176)
Q Consensus 590 ~e~g~~~G~~vGy~ir~~~~~~-~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~ 668 (1176)
.+.+..+|.+|||++||++.++ +...|.+||.|.|++.+.+ .+..++|+|+||+|+|+.++|+++.+++.+....++
T Consensus 448 ~er~e~~g~tvgy~vRf~Sa~prpyg~i~fctvgvllr~~e~--glrg~sh~i~deiherdv~~dfll~~lr~m~~ty~d 525 (1282)
T KOG0921|consen 448 NERGEEVGETCGYNVRFDSATPRPYGSIMFCTVGVLLRMMEN--GLRGISHVIIDEIHERDVDTDFVLIVLREMISTYRD 525 (1282)
T ss_pred HhhHHhhcccccccccccccccccccceeeeccchhhhhhhh--cccccccccchhhhhhccchHHHHHHHHhhhccchh
Confidence 9999999999999999999876 5678999999999999864 588999999999999999999999999999999999
Q ss_pred ccEEEEcCCCCHHHHHhhhcCCCeEecCCceeeeEEEEecCC-------------------------Cch----------
Q 001046 669 LRLIVTSATLDAEKFSGYFFNCNIFTIPGRTFPVEILYTKQP-------------------------ESD---------- 713 (1176)
Q Consensus 669 ~kvIlmSATl~~~~~~~~f~~~~v~~i~gr~~pv~~~~~~~~-------------------------~~~---------- 713 (1176)
+++++||||+|.+.|..||..+|.+++.|++||+..+|.... ..+
T Consensus 526 l~v~lmsatIdTd~f~~~f~~~p~~~~~grt~pvq~F~led~~~~~~~vp~~~~~~k~k~~~~~~~~~~ddK~~n~n~~~ 605 (1282)
T KOG0921|consen 526 LRVVLMSATIDTDLFTNFFSSIPDVTVHGRTFPVQSFFLEDIIQMTQFVPSEPSQKKRKKDDDEEDEEVDDKGRNMNILC 605 (1282)
T ss_pred hhhhhhhcccchhhhhhhhccccceeeccccccHHHHHHHHhhhhhhccCCCcCccchhhcccccCchhhhccccccccc
Confidence 999999999999999999999999999999999865543210 000
Q ss_pred ---hH----------------HHHHHHH-HHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCC
Q 001046 714 ---YL----------------DASLITV-LQIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSA 773 (1176)
Q Consensus 714 ---~~----------------~~~l~~v-~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~ 773 (1176)
|- ...+..+ ..+....-.|.||||+|++.+|..+|..|...- .-.+...+.++|+|+.
T Consensus 606 dd~~~~~~~~am~~~se~d~~f~l~Eal~~~i~s~~i~gailvflpgwa~i~~L~~~ll~~~--~fg~~~~y~ilp~Hsq 683 (1282)
T KOG0921|consen 606 DPSYNESTRTAMSRLSEKDIPFGLIEALLNDIASRNIDGAVLVFLPGWAEIMTLCNRLLEHQ--EFGQANKYEILPLHSQ 683 (1282)
T ss_pred ChhhcchhhhhhhcchhhcchhHHHHHHHhhhcccCCccceeeecCchHHhhhhhhhhhhhh--hhccchhcccccchhh
Confidence 00 0001111 122223346899999999999999999987642 1223456789999999
Q ss_pred CCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC
Q 001046 774 LPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG 853 (1176)
Q Consensus 774 l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g 853 (1176)
++..+|.+||++.+.|..++|++||++++++||+++.||||.+.++.+.|-....+....+.|.|+-+..||.||+||..
T Consensus 684 ~~~~eqrkvf~~~p~gv~kii~stniaetsiTidd~v~vid~cka~~~~~~s~nn~~~~Atvw~sktn~eqr~gr~grvR 763 (1282)
T KOG0921|consen 684 LTSQEQRKVFEPVPEGVTKIILSTNIAETSITIDDVVYVIDSCKAKEKLFTSHNNMTHYATVWASKTNLEQRKGRAGRVR 763 (1282)
T ss_pred cccHhhhhccCcccccccccccccceeeEeeeecceeEEEeeeeeeeeeeccccceeeeeeecccccchHhhcccCceec
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcEEEEecChHHHhhhCCCCCchhhhhcChHHHHHHHHHcCCCccccC--CCCCCCCHHHHHHHHHHHHHcCccccCCcc
Q 001046 854 PGKCYRLYTESAYRNEMSPTSIPEIQRINLGFTTLTMKAMGINDLLSF--DFMDPPSPQALISAMEQLYSLGALDEEGLL 931 (1176)
Q Consensus 854 ~G~c~~L~t~~~~~~~l~~~~~pEI~r~~L~~~~L~lk~~gi~~~~~f--~~~~pP~~~~l~~al~~L~~lgald~~g~l 931 (1176)
+|.|++|.+...|.. +..+-.||+.+++|.+..|.+|.+.+..+..| --+.||+.+++..+-..|..++++|.++.+
T Consensus 764 ~G~~f~lcs~arF~~-l~~~~t~em~r~plhemalTikll~l~SI~~fl~kal~~~p~dav~e~e~~l~~m~~ld~n~el 842 (1282)
T KOG0921|consen 764 PGFCFHLCSRARFEA-LEDHGTAEMFRTPLHEIALTIKLLRLGSIGEFLGKALQPPPYDAVIEAEAVLREMGALDANDEL 842 (1282)
T ss_pred ccccccccHHHHHHH-HHhcCcHhhhcCccHHHHhhHHHHHhhhHHHHHhhccCCCchhhccCchHHHHHhhhhhccCcc
Confidence 999999999999974 88899999999999999988887654444333 568999999999999999999999999999
Q ss_pred cHHHHHHhcCCCChHHHHHHHHhhhcCCHHHHHHHHHHhcCCCCCCCchhHHHHHHHHHhhcCCC------CCcHHHHHH
Q 001046 932 TKLGRKMAEFPLDPPLSKMLLASVDLGCSDEILTIIAMIQTGNIFYRPREKQAQADQKRAKFFQP------EGDHLTLLA 1005 (1176)
Q Consensus 932 T~lG~~~a~lpl~p~l~k~ll~~~~~~c~~~~l~i~a~ls~~~~f~~p~~~~~~~~~~~~~~~~~------~~D~l~~l~ 1005 (1176)
|++|+.++.+|++|.++||++.+..++|..-|+.+|+.++...+|..-.-......-.+..|.+. -+||.+++.
T Consensus 843 t~lg~~la~l~iep~~~k~~~lg~~~g~~~~m~~~as~~s~~~~~~~~~~~~~rl~g~q~~~~g~kfsdhva~~~v~q~~ 922 (1282)
T KOG0921|consen 843 TPLGRMLARLPIEPRIGKMMILGTALGAGSVMCDVASAMSFPTPFVPREKHHSRLSGTQRKFAGNKFSDHVAIVSVIQGY 922 (1282)
T ss_pred cchhhhhhhccCcccccceeeechhhccchhhhhhhcccccccccccccccccccccchhhccccccccchhhhhhhhhh
Confidence 99999999999999999999999999999999999999888777653211111112223344332 245555566
Q ss_pred HHHHHHHhccCCCcccccccchhhhHHHHHHHHHHHHHHHHcCCCc--------cccC--cchHHHHHHhhcccccccce
Q 001046 1006 VYEAWKAKNFSGPWCFENFVQSRSLRRAQDVRKQLLSIMDKYKLDV--------MSAG--KNFTKIRKAITAGFFFHAAR 1075 (1176)
Q Consensus 1006 ~~~~~~~~~~~~~~c~~~~l~~~~l~~~~~~r~ql~~~~~~~~~~~--------~~~~--~~~~~i~~~l~~g~~~n~a~ 1075 (1176)
+|+.|........||....++...|......+.||..+|++..++- ...+ .+...++..||+++|+|+|.
T Consensus 923 r~~~q~ga~~e~efc~r~~l~~~~~~~t~~a~~ql~d~L~q~~fpe~~~~~~~v~~ng~d~~l~~~~~lL~~~lypn~~~ 1002 (1282)
T KOG0921|consen 923 REAVQMGAAAEREFCERYSLSNPVLKMTDGARRQLIDVLRQCSFPEDILFDISVNVNGPDRELNLMRSLLVMALYPNVAY 1002 (1282)
T ss_pred HHHhhhhhhhhhhHhHhhhhcchhhhhhhhhHHHHHHHHHhccCccccccceeeccCCCCchhHHHHHHHHhhcCCccce
Confidence 6666655544457999999999999999999999999999766531 1122 34566788899999999987
Q ss_pred eCCCCCeeeeecCccEEECCCCcCC--C-----CCCCEEEEEeeccchhhhcceecccCHHHHHhhcccccc
Q 001046 1076 KDPQEGYRTLVENQPVYIHPSSALF--Q-----RQPDWVIYHELVMTTKEYMREVTVIDPKWLVDLAPRFFK 1140 (1176)
Q Consensus 1076 ~~~~~~y~~~~~~~~v~ihpsS~l~--~-----~~~~~vvy~e~~~t~~~~~~~vt~i~~~wl~~~~~~~~~ 1140 (1176)
...... ..+.++....||-.|++. . -+.+|+||.|.++|...-.+..|.|.|-.|+-++..-..
T Consensus 1003 y~ekrk-vLtTe~~~alihk~Svncp~S~qdM~fPsPFFVFGEKIRTRAIS~K~MslVsPLQLLLF~SrKVq 1073 (1282)
T KOG0921|consen 1003 YVEKRK-VLTTEQSSALIHKYSVNCPNSRQEMDFPSPFFVFGEKIRTRAISCKQMSLVSPLQLLLFGSRKVQ 1073 (1282)
T ss_pred ecccee-EEeecchhhhhhhhcccCCCcccccCCCCceeeechhhhhheecccCccccChHHHhhhhhhhcc
Confidence 654432 334455667788888764 2 257899999999999999999999999999988775443
No 13
>PHA02653 RNA helicase NPH-II; Provisional
Probab=100.00 E-value=1.8e-57 Score=556.53 Aligned_cols=394 Identities=20% Similarity=0.274 Sum_probs=314.8
Q ss_pred HHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhc-----cc---------CCCEEEEeccHHHHHHHHHHHHHHHh
Q 001046 527 KLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAG-----YT---------TRGKIGCTQPRRVAAMSVAKRVAEEF 592 (1176)
Q Consensus 527 ~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~-----~~---------~~~~Ilv~~PrR~lA~qva~rva~e~ 592 (1176)
..|+++++.+.+++++|++|+||||||+|+||++++.. +. ..++|+|++|||+||.|++.++.+..
T Consensus 167 ~iQ~qil~~i~~gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~PrreLa~qi~~~i~~~v 246 (675)
T PHA02653 167 DVQLKIFEAWISRKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPRVALVRLHSITLLKSL 246 (675)
T ss_pred HHHHHHHHHHHhCCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCcEEEEECcHHHHHHHHHHHHHHHh
Confidence 46899999999999999999999999999999998631 11 23589999999999999999988877
Q ss_pred CCccCCeeEEEeecccccC-------CCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhh
Q 001046 593 GCRLGEEVGYAIRFEDCTG-------PDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKR 665 (1176)
Q Consensus 593 g~~~G~~vGy~ir~~~~~~-------~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~ 665 (1176)
|......+...++++.... ....|+++|++. ..+.|.++++|||||||||+..+|+++++++.+...
T Consensus 247 g~~~~~g~~v~v~~Gg~~~~~~~t~~k~~~Ilv~T~~L------~l~~L~~v~~VVIDEaHEr~~~~DllL~llk~~~~~ 320 (675)
T PHA02653 247 GFDEIDGSPISLKYGSIPDELINTNPKPYGLVFSTHKL------TLNKLFDYGTVIIDEVHEHDQIGDIIIAVARKHIDK 320 (675)
T ss_pred CccccCCceEEEEECCcchHHhhcccCCCCEEEEeCcc------cccccccCCEEEccccccCccchhHHHHHHHHhhhh
Confidence 6532222334555554432 235689999764 235689999999999999999999999999876543
Q ss_pred CCCccEEEEcCCCC--HHHHHhhhcCCCeEecCCce-eeeEEEEecCCC-----chhHHHHHHHHHHHHh---cCCCCCE
Q 001046 666 RPDLRLIVTSATLD--AEKFSGYFFNCNIFTIPGRT-FPVEILYTKQPE-----SDYLDASLITVLQIHL---TEPEGDI 734 (1176)
Q Consensus 666 r~~~kvIlmSATl~--~~~~~~~f~~~~v~~i~gr~-~pv~~~~~~~~~-----~~~~~~~l~~v~~i~~---~~~~g~i 734 (1176)
. .|+|+||||++ .+.|..||.+++++.++|++ +||+.+|..... .+|+......++.++. ...+|++
T Consensus 321 ~--rq~ILmSATl~~dv~~l~~~~~~p~~I~I~grt~~pV~~~yi~~~~~~~~~~~y~~~~k~~~l~~L~~~~~~~~g~i 398 (675)
T PHA02653 321 I--RSLFLMTATLEDDRDRIKEFFPNPAFVHIPGGTLFPISEVYVKNKYNPKNKRAYIEEEKKNIVTALKKYTPPKGSSG 398 (675)
T ss_pred c--CEEEEEccCCcHhHHHHHHHhcCCcEEEeCCCcCCCeEEEEeecCcccccchhhhHHHHHHHHHHHHHhhcccCCcE
Confidence 2 38999999994 66899999999999999986 999999976542 2333333223333332 2346799
Q ss_pred EEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCC-CCCCceEEEEcchhhhccCCCCeeEEE
Q 001046 735 LLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPA-PPGKRKVVVATNIAEASLTIDGIFYVI 813 (1176)
Q Consensus 735 LVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f-~~g~~kVlVATniae~GIdIp~V~~VI 813 (1176)
||||||+++|+.+++.|.+.. +++.++++||+|++.++ +++.| ++|+++|||||||||+|||||+|++||
T Consensus 399 LVFlpg~~ei~~l~~~L~~~~-------~~~~v~~LHG~Lsq~eq--~l~~ff~~gk~kILVATdIAERGIDIp~V~~VI 469 (675)
T PHA02653 399 IVFVASVSQCEEYKKYLEKRL-------PIYDFYIIHGKVPNIDE--ILEKVYSSKNPSIIISTPYLESSVTIRNATHVY 469 (675)
T ss_pred EEEECcHHHHHHHHHHHHhhc-------CCceEEeccCCcCHHHH--HHHHHhccCceeEEeccChhhccccccCeeEEE
Confidence 999999999999999997642 36889999999998643 33344 679999999999999999999999999
Q ss_pred eCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCCCcEEEEecChHHHhhhCCCCCchhhhhcChHHHHHHHHHc
Q 001046 814 DPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTGPGKCYRLYTESAYRNEMSPTSIPEIQRINLGFTTLTMKAM 893 (1176)
Q Consensus 814 d~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g~G~c~~L~t~~~~~~~l~~~~~pEI~r~~L~~~~L~lk~~ 893 (1176)
|+|+++... +..|+ ..|+|+++|.||+|||||.++|.||+||+++++. + ++++...+|..++|++++|
T Consensus 470 D~G~~k~p~--~~~g~----~~~iSkasa~QRaGRAGR~~~G~c~rLyt~~~~~----p--I~ri~~~~L~~~vL~lk~~ 537 (675)
T PHA02653 470 DTGRVYVPE--PFGGK----EMFISKSMRTQRKGRVGRVSPGTYVYFYDLDLLK----P--IKRIDSEFLHNYILYAKYF 537 (675)
T ss_pred ECCCccCCC--cccCc----ccccCHHHHHHhccCcCCCCCCeEEEEECHHHhH----H--HHHHhHHHHHHHHHHHHHc
Confidence 999877653 44554 3599999999999999999999999999998741 1 3333334489999999999
Q ss_pred CCCccccCCCCCCCCHHHHHHHHHHHHHcCccccCCcccHH--HHHHhcCCCChHHHHHHHHhhh
Q 001046 894 GINDLLSFDFMDPPSPQALISAMEQLYSLGALDEEGLLTKL--GRKMAEFPLDPPLSKMLLASVD 956 (1176)
Q Consensus 894 gi~~~~~f~~~~pP~~~~l~~al~~L~~lgald~~g~lT~l--G~~~a~lpl~p~l~k~ll~~~~ 956 (1176)
|++.. .+.|+|||+.+++..|++.|..+||+|+ +||.| |+.|+.+ +.||+++.|..
T Consensus 538 g~~~~-~~~~ldpP~~~~l~~A~~~L~~lga~~~--~l~~l~~~~~~~~~----~~~k~~~~g~~ 595 (675)
T PHA02653 538 NLTLP-EDLFVIPSNLDRLRKTEEYIDSFNISIE--KWYEILSNYYVNML----EYAKIYVKGGI 595 (675)
T ss_pred CCCCc-ccccCCCCCHHHHHHHHHHHHHcCCCch--hhhhhhccccHHHH----HHhHHHhcccH
Confidence 99654 4559999999999999999999998865 79999 9999999 99999998753
No 14
>PRK01172 ski2-like helicase; Provisional
Probab=100.00 E-value=6.4e-41 Score=421.83 Aligned_cols=431 Identities=20% Similarity=0.193 Sum_probs=298.8
Q ss_pred CCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEE
Q 001046 523 LPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGY 602 (1176)
Q Consensus 523 LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy 602 (1176)
..++++|.++++++.++++++++||||||||+++.+++++... .+++++++.|+++||.|+++.+.... ..|..|+.
T Consensus 21 ~~l~~~Q~~ai~~l~~~~nvlv~apTGSGKTl~a~lail~~l~-~~~k~v~i~P~raLa~q~~~~~~~l~--~~g~~v~~ 97 (674)
T PRK01172 21 FELYDHQRMAIEQLRKGENVIVSVPTAAGKTLIAYSAIYETFL-AGLKSIYIVPLRSLAMEKYEELSRLR--SLGMRVKI 97 (674)
T ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCchHHHHHHHHHHHHHH-hCCcEEEEechHHHHHHHHHHHHHHh--hcCCeEEE
Confidence 3478999999999999999999999999999999999887643 35789999999999999999886532 34555655
Q ss_pred Eeeccccc---CCCceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCCcCC--CchhHHHHHHHHHHhhCCCccEEEEcC
Q 001046 603 AIRFEDCT---GPDTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAHERT--IHTDVLFGLLKQLVKRRPDLRLIVTSA 676 (1176)
Q Consensus 603 ~ir~~~~~---~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaHeR~--~~~d~ll~llk~~~~~r~~~kvIlmSA 676 (1176)
.+...+.. ....+|+++|++.+...+..++ .+.++++|||||||..+ .....+..++..+...++++++|+|||
T Consensus 98 ~~G~~~~~~~~~~~~dIiv~Tpek~~~l~~~~~~~l~~v~lvViDEaH~l~d~~rg~~le~ll~~~~~~~~~~riI~lSA 177 (674)
T PRK01172 98 SIGDYDDPPDFIKRYDVVILTSEKADSLIHHDPYIINDVGLIVADEIHIIGDEDRGPTLETVLSSARYVNPDARILALSA 177 (674)
T ss_pred EeCCCCCChhhhccCCEEEECHHHHHHHHhCChhHHhhcCEEEEecchhccCCCccHHHHHHHHHHHhcCcCCcEEEEeC
Confidence 44322111 1357899999999877776665 58999999999999643 122234444555545567899999999
Q ss_pred CC-CHHHHHhhhcCCCeEecCCceeeeEEEEecCC--Cch-h--HHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHH
Q 001046 677 TL-DAEKFSGYFFNCNIFTIPGRTFPVEILYTKQP--ESD-Y--LDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQS 750 (1176)
Q Consensus 677 Tl-~~~~~~~~f~~~~v~~i~gr~~pv~~~~~~~~--~~~-~--~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~ 750 (1176)
|+ +...+++|++ ++.+....++.|+.+...... ..+ . ....+..++.- ....++++||||+++++++.++..
T Consensus 178 Tl~n~~~la~wl~-~~~~~~~~r~vpl~~~i~~~~~~~~~~~~~~~~~~~~~i~~-~~~~~~~vLVF~~sr~~~~~~a~~ 255 (674)
T PRK01172 178 TVSNANELAQWLN-ASLIKSNFRPVPLKLGILYRKRLILDGYERSQVDINSLIKE-TVNDGGQVLVFVSSRKNAEDYAEM 255 (674)
T ss_pred ccCCHHHHHHHhC-CCccCCCCCCCCeEEEEEecCeeeecccccccccHHHHHHH-HHhCCCcEEEEeccHHHHHHHHHH
Confidence 99 6888999874 566666777777764322110 000 0 00011111111 124578999999999999999999
Q ss_pred HHHHHhccCCC----------------CCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEe
Q 001046 751 LYERMKGLGKN----------------VPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVID 814 (1176)
Q Consensus 751 L~~~~~~l~~~----------------~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId 814 (1176)
|.+.+.....- .-...+..+||+|++++|..+++.|++|.++|||||+++++|||+|+..+||+
T Consensus 256 L~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~gv~~~hagl~~~eR~~ve~~f~~g~i~VLvaT~~la~Gvnipa~~VII~ 335 (674)
T PRK01172 256 LIQHFPEFNDFKVSSENNNVYDDSLNEMLPHGVAFHHAGLSNEQRRFIEEMFRNRYIKVIVATPTLAAGVNLPARLVIVR 335 (674)
T ss_pred HHHhhhhcccccccccccccccHHHHHHHhcCEEEecCCCCHHHHHHHHHHHHcCCCeEEEecchhhccCCCcceEEEEc
Confidence 98764322100 00124778999999999999999999999999999999999999999887774
Q ss_pred CCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC---CcEEEEecC-hH---HHhhhCCCCCc--------hhhh
Q 001046 815 PGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG---PGKCYRLYT-ES---AYRNEMSPTSI--------PEIQ 879 (1176)
Q Consensus 815 ~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g---~G~c~~L~t-~~---~~~~~l~~~~~--------pEI~ 879 (1176)
|. ..|+. ....|+|..+|.||+|||||.| .|.|+.+.. .. .+...+...+. +++.
T Consensus 336 -~~---~~~~~------~~~~~~s~~~~~Qm~GRAGR~g~d~~g~~~i~~~~~~~~~~~~~~l~~~~~pi~S~l~~~~~~ 405 (674)
T PRK01172 336 -DI---TRYGN------GGIRYLSNMEIKQMIGRAGRPGYDQYGIGYIYAASPASYDAAKKYLSGEPEPVISYMGSQRKV 405 (674)
T ss_pred -Cc---eEeCC------CCceeCCHHHHHHHhhcCCCCCCCCcceEEEEecCcccHHHHHHHHcCCCCceeecCCCcccH
Confidence 22 33432 2234899999999999999998 677776643 22 12222222211 2333
Q ss_pred hcChHHHHHHHHHcCCCccccC---CCC--CCCC---HHHHHHHHHHHHHcCccccCC--cccHHHHHHhcCCCChHHHH
Q 001046 880 RINLGFTTLTMKAMGINDLLSF---DFM--DPPS---PQALISAMEQLYSLGALDEEG--LLTKLGRKMAEFPLDPPLSK 949 (1176)
Q Consensus 880 r~~L~~~~L~lk~~gi~~~~~f---~~~--~pP~---~~~l~~al~~L~~lgald~~g--~lT~lG~~~a~lpl~p~l~k 949 (1176)
+.++...+......+..|+..| .|+ +.++ .+.+..|++.|...|+|+.++ .+|++|+.++.+|++|..++
T Consensus 406 ~~~~l~~i~~g~~~~~~d~~~~l~~tf~~~~~~~~~l~~~v~~~l~~L~~~~~i~~~~~~~~t~lG~~~s~~~l~~~t~~ 485 (674)
T PRK01172 406 RFNTLAAISMGLASSMEDLILFYNETLMAIQNGVDEIDYYIESSLKFLKENGFIKGDVTLRATRLGKLTSDLYIDPESAL 485 (674)
T ss_pred HHHHHHHHHhcccCCHHHHHHHHHhhhhHhcCchHHHHHHHHHHHHHHHHCCCcccCCcEeECHHHHHHHHhCCCHHHHH
Confidence 3333222222222233444443 444 4332 577899999999999998654 57999999999999999999
Q ss_pred HHHHhhhcC-CHHHHHHHHH
Q 001046 950 MLLASVDLG-CSDEILTIIA 968 (1176)
Q Consensus 950 ~ll~~~~~~-c~~~~l~i~a 968 (1176)
+++.++.-. ....++.+++
T Consensus 486 ~~~~~l~~~~~~~~~l~~~~ 505 (674)
T PRK01172 486 ILKSAFDHDYDEDLALYYIS 505 (674)
T ss_pred HHHHHhhccCCHHHHHHHhh
Confidence 998877543 2333444443
No 15
>PRK02362 ski2-like helicase; Provisional
Probab=100.00 E-value=2.2e-39 Score=410.70 Aligned_cols=428 Identities=21% Similarity=0.219 Sum_probs=296.9
Q ss_pred chHHHHHHHHH-HHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEE
Q 001046 525 IYKLKKELIQA-VHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYA 603 (1176)
Q Consensus 525 i~~~q~~ii~a-i~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ 603 (1176)
++++|.+++++ +.+++++++++|||||||.++.++++.... .++++++++|+++||.|+++++.. ++ ..|..|+..
T Consensus 24 l~p~Q~~ai~~~~~~g~nvlv~APTGSGKTlia~lail~~l~-~~~kal~i~P~raLa~q~~~~~~~-~~-~~g~~v~~~ 100 (737)
T PRK02362 24 LYPPQAEAVEAGLLDGKNLLAAIPTASGKTLIAELAMLKAIA-RGGKALYIVPLRALASEKFEEFER-FE-ELGVRVGIS 100 (737)
T ss_pred CCHHHHHHHHHHHhCCCcEEEECCCcchHHHHHHHHHHHHHh-cCCcEEEEeChHHHHHHHHHHHHH-hh-cCCCEEEEE
Confidence 67889999998 789999999999999999999999888643 567999999999999999998874 42 124444322
Q ss_pred eecc---cccCCCceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCCcCC--CchhHHHHHHHHHHhhCCCccEEEEcCC
Q 001046 604 IRFE---DCTGPDTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAHERT--IHTDVLFGLLKQLVKRRPDLRLIVTSAT 677 (1176)
Q Consensus 604 ir~~---~~~~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaHeR~--~~~d~ll~llk~~~~~r~~~kvIlmSAT 677 (1176)
.... .......+|+++||+.+...+.... ++.++++|||||||.-+ .....+..++.++....++.|+|+||||
T Consensus 101 tGd~~~~~~~l~~~~IiV~Tpek~~~llr~~~~~l~~v~lvViDE~H~l~d~~rg~~le~il~rl~~~~~~~qii~lSAT 180 (737)
T PRK02362 101 TGDYDSRDEWLGDNDIIVATSEKVDSLLRNGAPWLDDITCVVVDEVHLIDSANRGPTLEVTLAKLRRLNPDLQVVALSAT 180 (737)
T ss_pred eCCcCccccccCCCCEEEECHHHHHHHHhcChhhhhhcCEEEEECccccCCCcchHHHHHHHHHHHhcCCCCcEEEEccc
Confidence 2111 1112357899999999877665433 68999999999999421 1222333445555555678999999999
Q ss_pred C-CHHHHHhhhcCCCeEecCCceeeeEEEEecCC------CchhH-----HHHHHHHHHHHhcCCCCCEEEEeCCHHHHH
Q 001046 678 L-DAEKFSGYFFNCNIFTIPGRTFPVEILYTKQP------ESDYL-----DASLITVLQIHLTEPEGDILLFLTGQEEID 745 (1176)
Q Consensus 678 l-~~~~~~~~f~~~~v~~i~gr~~pv~~~~~~~~------~~~~~-----~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~ 745 (1176)
+ |++.++.|+. +..+....|+.|+........ ....+ ...+..+...+ ..++++||||+++.+++
T Consensus 181 l~n~~~la~wl~-~~~~~~~~rpv~l~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~LVF~~sr~~~~ 257 (737)
T PRK02362 181 IGNADELADWLD-AELVDSEWRPIDLREGVFYGGAIHFDDSQREVEVPSKDDTLNLVLDTL--EEGGQCLVFVSSRRNAE 257 (737)
T ss_pred CCCHHHHHHHhC-CCcccCCCCCCCCeeeEecCCeeccccccccCCCccchHHHHHHHHHH--HcCCCeEEEEeCHHHHH
Confidence 9 6888998885 333444444444433211000 00000 12222333322 35789999999999999
Q ss_pred HHHHHHHHHHhc----------------cCCCC-----------CCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcc
Q 001046 746 FACQSLYERMKG----------------LGKNV-----------PELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATN 798 (1176)
Q Consensus 746 ~l~~~L~~~~~~----------------l~~~~-----------~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATn 798 (1176)
.++..|...+.. +.... -...+..+||+|++++|..|++.|++|.++|||||+
T Consensus 258 ~~a~~L~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~L~~~l~~gva~hHagl~~~eR~~ve~~Fr~G~i~VLvaT~ 337 (737)
T PRK02362 258 GFAKRAASALKKTLTAAERAELAELAEEIREVSDTETSKDLADCVAKGAAFHHAGLSREHRELVEDAFRDRLIKVISSTP 337 (737)
T ss_pred HHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhccCccccHHHHHHHHhCEEeecCCCCHHHHHHHHHHHHcCCCeEEEech
Confidence 999988765321 00000 013578899999999999999999999999999999
Q ss_pred hhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC---CcEEEEecChHH----HhhhCC
Q 001046 799 IAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG---PGKCYRLYTESA----YRNEMS 871 (1176)
Q Consensus 799 iae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g---~G~c~~L~t~~~----~~~~l~ 871 (1176)
++++|||+|++++||+. ...||+..|+ .|++..+|.||+|||||.| .|.||.++.... +...+.
T Consensus 338 tla~GvnlPa~~VVI~~----~~~yd~~~g~-----~~~s~~~y~Qm~GRAGR~g~d~~G~~ii~~~~~~~~~~~~~~~l 408 (737)
T PRK02362 338 TLAAGLNLPARRVIIRD----YRRYDGGAGM-----QPIPVLEYHQMAGRAGRPGLDPYGEAVLLAKSYDELDELFERYI 408 (737)
T ss_pred hhhhhcCCCceEEEEec----ceeecCCCCc-----eeCCHHHHHHHhhcCCCCCCCCCceEEEEecCchhHHHHHHHHH
Confidence 99999999999999954 4578876554 3999999999999999998 499999986531 111111
Q ss_pred CCCchhhhhc------ChHHHHHHHHHcCC----Ccc---ccCCCCCCC------CHHHHHHHHHHHHHcCccccCCc--
Q 001046 872 PTSIPEIQRI------NLGFTTLTMKAMGI----NDL---LSFDFMDPP------SPQALISAMEQLYSLGALDEEGL-- 930 (1176)
Q Consensus 872 ~~~~pEI~r~------~L~~~~L~lk~~gi----~~~---~~f~~~~pP------~~~~l~~al~~L~~lgald~~g~-- 930 (1176)
. ..|+...+ .|...++...+.|. .++ +...|+..+ ..+.+..+++.|...|+|+.++.
T Consensus 409 ~-~~~~~i~S~l~~~~~l~~~lla~I~~~~~~~~~d~~~~l~~Tf~~~~~~~~~~l~~~v~~~l~~L~~~~~i~~~~~~~ 487 (737)
T PRK02362 409 W-ADPEDVRSKLATEPALRTHVLSTIASGFARTRDGLLEFLEATFYATQTDDTGRLERVVDDVLDFLERNGMIEEDGETL 487 (737)
T ss_pred h-CCCCceeecCCChhhHHHHHHHHHHhCccCCHHHHHHHHHhChHHhhccchHHHHHHHHHHHHHHHHCCCeeecCCeE
Confidence 1 11222221 24444555555442 222 222444333 23568899999999999987754
Q ss_pred -ccHHHHHHhcCCCChHHHHHHHHhhhcC---CHHHHHHHHH
Q 001046 931 -LTKLGRKMAEFPLDPPLSKMLLASVDLG---CSDEILTIIA 968 (1176)
Q Consensus 931 -lT~lG~~~a~lpl~p~l~k~ll~~~~~~---c~~~~l~i~a 968 (1176)
+|++|+.++.++++|..+..+..+.... ....++.+++
T Consensus 488 ~~t~lG~~~s~~~l~~~t~~~~~~~l~~~~~~~~~~~l~~i~ 529 (737)
T PRK02362 488 EATELGHLVSRLYIDPLSAAEIIDGLEAAKKPTDLGLLHLVC 529 (737)
T ss_pred eEChHHHHHHHhcCCHHHHHHHHHHhhhcccCchHHHHHHhh
Confidence 8999999999999999999998876532 2234554544
No 16
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=2.5e-40 Score=385.11 Aligned_cols=323 Identities=22% Similarity=0.248 Sum_probs=249.8
Q ss_pred HHHHHHHhcCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhccc--------CCCEEEEeccHHHHHHHHH
Q 001046 514 LSIQEQRQSLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYT--------TRGKIGCTQPRRVAAMSVA 585 (1176)
Q Consensus 514 ~~l~~~r~~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~--------~~~~Ilv~~PrR~lA~qva 585 (1176)
..+..+-..-|. ++|.+.++.+++|+++|.+|.||||||+++.++++.+... .+..++|+.|||+||.|+.
T Consensus 104 ~~lk~~g~~~Pt-pIQaq~wp~~l~GrD~v~iA~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P~vLVL~PTRELA~QV~ 182 (519)
T KOG0331|consen 104 KALKEQGFEKPT-PIQAQGWPIALSGRDLVGIARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGPIVLVLAPTRELAVQVQ 182 (519)
T ss_pred HHHHhcCCCCCc-hhhhcccceeccCCceEEEeccCCcchhhhhhHHHHHHHhccccccCCCCCeEEEEcCcHHHHHHHH
Confidence 333343333333 5577888889999999999999999999998888775443 1447999999999999999
Q ss_pred HHHHHHhCCccCC--eeEEE-eec---ccccCCCceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCCcCCCchhHHHHH
Q 001046 586 KRVAEEFGCRLGE--EVGYA-IRF---EDCTGPDTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAHERTIHTDVLFGL 658 (1176)
Q Consensus 586 ~rva~e~g~~~G~--~vGy~-ir~---~~~~~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaHeR~~~~d~ll~l 658 (1176)
+. +.+++..++. .+-|. ... ......+..|+++|||+|+.++.... .|++++++|+|||| |+++++|--.+
T Consensus 183 ~~-~~~~~~~~~~~~~cvyGG~~~~~Q~~~l~~gvdiviaTPGRl~d~le~g~~~l~~v~ylVLDEAD-rMldmGFe~qI 260 (519)
T KOG0331|consen 183 AE-AREFGKSLRLRSTCVYGGAPKGPQLRDLERGVDVVIATPGRLIDLLEEGSLNLSRVTYLVLDEAD-RMLDMGFEPQI 260 (519)
T ss_pred HH-HHHHcCCCCccEEEEeCCCCccHHHHHHhcCCcEEEeCChHHHHHHHcCCccccceeEEEeccHH-hhhccccHHHH
Confidence 85 5666666552 12121 000 11233568899999999999998766 79999999999999 99999988777
Q ss_pred HHHHHhh-CCCccEEEEcCCCC--HHHHHhhhcCCCeEecCCce------eeeEEEEecCCCchhHHHHHHHHHHHHhcC
Q 001046 659 LKQLVKR-RPDLRLIVTSATLD--AEKFSGYFFNCNIFTIPGRT------FPVEILYTKQPESDYLDASLITVLQIHLTE 729 (1176)
Q Consensus 659 lk~~~~~-r~~~kvIlmSATl~--~~~~~~~f~~~~v~~i~gr~------~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~ 729 (1176)
-+.+... +++.|+|++|||++ ...|+.-|.+.|+-..-|.. ..+..+.... ...-....+..++..+...
T Consensus 261 ~~Il~~i~~~~rQtlm~saTwp~~v~~lA~~fl~~~~~i~ig~~~~~~a~~~i~qive~~-~~~~K~~~l~~lL~~~~~~ 339 (519)
T KOG0331|consen 261 RKILSQIPRPDRQTLMFSATWPKEVRQLAEDFLNNPIQINVGNKKELKANHNIRQIVEVC-DETAKLRKLGKLLEDISSD 339 (519)
T ss_pred HHHHHhcCCCcccEEEEeeeccHHHHHHHHHHhcCceEEEecchhhhhhhcchhhhhhhc-CHHHHHHHHHHHHHHHhcc
Confidence 7777676 66778999999997 66788777765543222211 1111111111 1111233455555555567
Q ss_pred CCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCe
Q 001046 730 PEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGI 809 (1176)
Q Consensus 730 ~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V 809 (1176)
.++++||||.++..|+.++..|... .+.+.++||+.++.+|..+++.|++|...||||||+|++|||||+|
T Consensus 340 ~~~KvIIFc~tkr~~~~l~~~l~~~---------~~~a~~iHGd~sQ~eR~~~L~~FreG~~~vLVATdVAaRGLDi~dV 410 (519)
T KOG0331|consen 340 SEGKVIIFCETKRTCDELARNLRRK---------GWPAVAIHGDKSQSERDWVLKGFREGKSPVLVATDVAARGLDVPDV 410 (519)
T ss_pred CCCcEEEEecchhhHHHHHHHHHhc---------CcceeeecccccHHHHHHHHHhcccCCcceEEEcccccccCCCccc
Confidence 7899999999999999999998762 4779999999999999999999999999999999999999999999
Q ss_pred eEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC-CcEEEEecChHHHh
Q 001046 810 FYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTESAYR 867 (1176)
Q Consensus 810 ~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~~ 867 (1176)
++||||++ |.+.++|+||+||+||+| .|.+|.+|+...+.
T Consensus 411 ~lVInydf------------------P~~vEdYVHRiGRTGRa~~~G~A~tfft~~~~~ 451 (519)
T KOG0331|consen 411 DLVINYDF------------------PNNVEDYVHRIGRTGRAGKKGTAITFFTSDNAK 451 (519)
T ss_pred cEEEeCCC------------------CCCHHHHHhhcCccccCCCCceEEEEEeHHHHH
Confidence 99999999 999999999999999988 79999999998775
No 17
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=2.5e-40 Score=361.22 Aligned_cols=307 Identities=21% Similarity=0.243 Sum_probs=246.9
Q ss_pred HHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCC--EEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEe
Q 001046 527 KLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRG--KIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAI 604 (1176)
Q Consensus 527 ~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~--~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~i 604 (1176)
++|.++|+.++.|++||+.|+||||||.++.++|++..+..+. .++|+.|+|+||.|++.. .+.+|...|..+...+
T Consensus 86 ~IQ~~aiP~~L~g~dvIglAeTGSGKT~afaLPIl~~LL~~p~~~~~lVLtPtRELA~QI~e~-fe~Lg~~iglr~~~lv 164 (476)
T KOG0330|consen 86 KIQSEAIPVALGGRDVIGLAETGSGKTGAFALPILQRLLQEPKLFFALVLTPTRELAQQIAEQ-FEALGSGIGLRVAVLV 164 (476)
T ss_pred hhhhhhcchhhCCCcEEEEeccCCCchhhhHHHHHHHHHcCCCCceEEEecCcHHHHHHHHHH-HHHhccccCeEEEEEe
Confidence 5588888889999999999999999999999999998776543 689999999999999995 5777777777776655
Q ss_pred ecccc------cCCCceEEEeChHHHHHHHhhCC--CCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcC
Q 001046 605 RFEDC------TGPDTVIKYMTDGMLLREILIDD--NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSA 676 (1176)
Q Consensus 605 r~~~~------~~~~t~I~~~T~g~Llr~l~~~~--~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSA 676 (1176)
.+.+. .+...+|+++|||.|..++.... .|.++.++|+|||+ |-++.||...+=+.+....+..+.+++||
T Consensus 165 GG~~m~~q~~~L~kkPhilVaTPGrL~dhl~~Tkgf~le~lk~LVlDEAD-rlLd~dF~~~ld~ILk~ip~erqt~LfsA 243 (476)
T KOG0330|consen 165 GGMDMMLQANQLSKKPHILVATPGRLWDHLENTKGFSLEQLKFLVLDEAD-RLLDMDFEEELDYILKVIPRERQTFLFSA 243 (476)
T ss_pred cCchHHHHHHHhhcCCCEEEeCcHHHHHHHHhccCccHHHhHHHhhchHH-hhhhhhhHHHHHHHHHhcCccceEEEEEe
Confidence 55443 35788999999999999998443 78999999999999 89999887655544444567899999999
Q ss_pred CCC--HHHHHhhhcCCCe-EecCCcee---eeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHH
Q 001046 677 TLD--AEKFSGYFFNCNI-FTIPGRTF---PVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQS 750 (1176)
Q Consensus 677 Tl~--~~~~~~~f~~~~v-~~i~gr~~---pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~ 750 (1176)
||+ ..++...-...|+ +.++...- .+..+|...+.. |-+..+. .+.....++++||||++....+.++-.
T Consensus 244 TMt~kv~kL~rasl~~p~~v~~s~ky~tv~~lkQ~ylfv~~k-~K~~yLV---~ll~e~~g~s~iVF~~t~~tt~~la~~ 319 (476)
T KOG0330|consen 244 TMTKKVRKLQRASLDNPVKVAVSSKYQTVDHLKQTYLFVPGK-DKDTYLV---YLLNELAGNSVIVFCNTCNTTRFLALL 319 (476)
T ss_pred ecchhhHHHHhhccCCCeEEeccchhcchHHhhhheEecccc-ccchhHH---HHHHhhcCCcEEEEEeccchHHHHHHH
Confidence 995 5666655444444 33332211 123444444332 2222222 333344568999999999999999888
Q ss_pred HHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCc
Q 001046 751 LYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLD 830 (1176)
Q Consensus 751 L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~ 830 (1176)
|.. .++..+++||+|++..|.-.|+.|++|.+.||||||+|++|+|||.|++||||++
T Consensus 320 L~~---------lg~~a~~LhGqmsq~~Rlg~l~~Fk~~~r~iLv~TDVaSRGLDip~Vd~VVNyDi------------- 377 (476)
T KOG0330|consen 320 LRN---------LGFQAIPLHGQMSQSKRLGALNKFKAGARSILVCTDVASRGLDIPHVDVVVNYDI------------- 377 (476)
T ss_pred HHh---------cCcceecccchhhHHHHHHHHHHHhccCCcEEEecchhcccCCCCCceEEEecCC-------------
Confidence 875 3788999999999999999999999999999999999999999999999999999
Q ss_pred cccccccCHHHHHHHhcccCCCC-CcEEEEecChHHH
Q 001046 831 SLVITPISQASAKQRAGRAGRTG-PGKCYRLYTESAY 866 (1176)
Q Consensus 831 ~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~ 866 (1176)
|.+..+|+||+||+||+| +|+++.|++..+.
T Consensus 378 -----P~~skDYIHRvGRtaRaGrsG~~ItlVtqyDv 409 (476)
T KOG0330|consen 378 -----PTHSKDYIHRVGRTARAGRSGKAITLVTQYDV 409 (476)
T ss_pred -----CCcHHHHHHHcccccccCCCcceEEEEehhhh
Confidence 999999999999999999 8999999998443
No 18
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=100.00 E-value=7.3e-38 Score=378.00 Aligned_cols=310 Identities=18% Similarity=0.175 Sum_probs=235.9
Q ss_pred chHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccC--CCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEE
Q 001046 525 IYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTT--RGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGY 602 (1176)
Q Consensus 525 i~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~--~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy 602 (1176)
.+++|.++++.+.+++++|++||||||||+++.+++++..... ..+++++.|||+||.|+++.+........+..+..
T Consensus 27 ~t~iQ~~ai~~~l~g~dvi~~a~TGsGKT~a~~lpil~~l~~~~~~~~~lil~PtreLa~Q~~~~~~~~~~~~~~~~v~~ 106 (460)
T PRK11776 27 MTPIQAQSLPAILAGKDVIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQALVLCPTRELADQVAKEIRRLARFIPNIKVLT 106 (460)
T ss_pred CCHHHHHHHHHHhcCCCEEEECCCCCcHHHHHHHHHHHHhhhccCCceEEEEeCCHHHHHHHHHHHHHHHhhCCCcEEEE
Confidence 4577999999999999999999999999999999998864322 33789999999999999987654332111223322
Q ss_pred Eeeccc------ccCCCceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEc
Q 001046 603 AIRFED------CTGPDTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTS 675 (1176)
Q Consensus 603 ~ir~~~------~~~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmS 675 (1176)
...... ....+++|+++|||.|++.+.... .+.++++||||||| +.+...+...+...+....++.++|+||
T Consensus 107 ~~Gg~~~~~~~~~l~~~~~IvV~Tp~rl~~~l~~~~~~l~~l~~lViDEad-~~l~~g~~~~l~~i~~~~~~~~q~ll~S 185 (460)
T PRK11776 107 LCGGVPMGPQIDSLEHGAHIIVGTPGRILDHLRKGTLDLDALNTLVLDEAD-RMLDMGFQDAIDAIIRQAPARRQTLLFS 185 (460)
T ss_pred EECCCChHHHHHHhcCCCCEEEEChHHHHHHHHcCCccHHHCCEEEEECHH-HHhCcCcHHHHHHHHHhCCcccEEEEEE
Confidence 111111 123567999999999999887654 68999999999999 4555544433333333345678999999
Q ss_pred CCCC--HHHHHhhhcCCCe-EecCCc--eeeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHH
Q 001046 676 ATLD--AEKFSGYFFNCNI-FTIPGR--TFPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQS 750 (1176)
Q Consensus 676 ATl~--~~~~~~~f~~~~v-~~i~gr--~~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~ 750 (1176)
||++ ...+...+...|. +.+... ...++.+|......+ .+..+..+.....++++||||+++..++.+++.
T Consensus 186 AT~~~~~~~l~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~~~----k~~~l~~ll~~~~~~~~lVF~~t~~~~~~l~~~ 261 (460)
T PRK11776 186 ATYPEGIAAISQRFQRDPVEVKVESTHDLPAIEQRFYEVSPDE----RLPALQRLLLHHQPESCVVFCNTKKECQEVADA 261 (460)
T ss_pred ecCcHHHHHHHHHhcCCCEEEEECcCCCCCCeeEEEEEeCcHH----HHHHHHHHHHhcCCCceEEEECCHHHHHHHHHH
Confidence 9996 4566666665554 333221 122444444433322 233334444445678899999999999999999
Q ss_pred HHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCc
Q 001046 751 LYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLD 830 (1176)
Q Consensus 751 L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~ 830 (1176)
|.+. ++.+.++||+|++.+|..+++.|+.|..+|||||+++++|||||+|++||++|+
T Consensus 262 L~~~---------~~~v~~~hg~~~~~eR~~~l~~F~~g~~~vLVaTdv~~rGiDi~~v~~VI~~d~------------- 319 (460)
T PRK11776 262 LNAQ---------GFSALALHGDLEQRDRDQVLVRFANRSCSVLVATDVAARGLDIKALEAVINYEL------------- 319 (460)
T ss_pred HHhC---------CCcEEEEeCCCCHHHHHHHHHHHHcCCCcEEEEecccccccchhcCCeEEEecC-------------
Confidence 9763 577899999999999999999999999999999999999999999999999999
Q ss_pred cccccccCHHHHHHHhcccCCCC-CcEEEEecChHHH
Q 001046 831 SLVITPISQASAKQRAGRAGRTG-PGKCYRLYTESAY 866 (1176)
Q Consensus 831 ~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~ 866 (1176)
|.+..+|+||+|||||.| .|.||.|+++.+.
T Consensus 320 -----p~~~~~yiqR~GRtGR~g~~G~ai~l~~~~e~ 351 (460)
T PRK11776 320 -----ARDPEVHVHRIGRTGRAGSKGLALSLVAPEEM 351 (460)
T ss_pred -----CCCHhHhhhhcccccCCCCcceEEEEEchhHH
Confidence 999999999999999999 7999999998764
No 19
>PTZ00110 helicase; Provisional
Probab=100.00 E-value=8.5e-38 Score=382.13 Aligned_cols=311 Identities=21% Similarity=0.234 Sum_probs=231.8
Q ss_pred chHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhccc-------CCCEEEEeccHHHHHHHHHHHHHHHhCCccC
Q 001046 525 IYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYT-------TRGKIGCTQPRRVAAMSVAKRVAEEFGCRLG 597 (1176)
Q Consensus 525 i~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~-------~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G 597 (1176)
.+++|.++++.+++++++|++||||||||+++.++++..... .+..++|++|||+||.|+.+.+. .++...+
T Consensus 153 pt~iQ~~aip~~l~G~dvI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~~gp~~LIL~PTreLa~Qi~~~~~-~~~~~~~ 231 (545)
T PTZ00110 153 PTPIQVQGWPIALSGRDMIGIAETGSGKTLAFLLPAIVHINAQPLLRYGDGPIVLVLAPTRELAEQIREQCN-KFGASSK 231 (545)
T ss_pred CCHHHHHHHHHHhcCCCEEEEeCCCChHHHHHHHHHHHHHHhcccccCCCCcEEEEECChHHHHHHHHHHHH-HHhcccC
Confidence 447799999999999999999999999999988877664322 23478999999999999988654 4444333
Q ss_pred CeeEEEeeccc------ccCCCceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCcc
Q 001046 598 EEVGYAIRFED------CTGPDTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLR 670 (1176)
Q Consensus 598 ~~vGy~ir~~~------~~~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~k 670 (1176)
..+........ .......|+|+|||+|++.+.... .|.++++||||||| +.+..++...+.+.+...+++.+
T Consensus 232 i~~~~~~gg~~~~~q~~~l~~~~~IlVaTPgrL~d~l~~~~~~l~~v~~lViDEAd-~mld~gf~~~i~~il~~~~~~~q 310 (545)
T PTZ00110 232 IRNTVAYGGVPKRGQIYALRRGVEILIACPGRLIDFLESNVTNLRRVTYLVLDEAD-RMLDMGFEPQIRKIVSQIRPDRQ 310 (545)
T ss_pred ccEEEEeCCCCHHHHHHHHHcCCCEEEECHHHHHHHHHcCCCChhhCcEEEeehHH-hhhhcchHHHHHHHHHhCCCCCe
Confidence 33322221111 112457899999999999987654 68999999999999 67777666555555555678999
Q ss_pred EEEEcCCCC--HHHHHhhhcC-CCeE-ecCCc----eeeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHH
Q 001046 671 LIVTSATLD--AEKFSGYFFN-CNIF-TIPGR----TFPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQE 742 (1176)
Q Consensus 671 vIlmSATl~--~~~~~~~f~~-~~v~-~i~gr----~~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ 742 (1176)
+|++|||++ ...++..+.. .++. .+... ...+...+......+ ....+..++.... ...+++||||++++
T Consensus 311 ~l~~SAT~p~~v~~l~~~l~~~~~v~i~vg~~~l~~~~~i~q~~~~~~~~~-k~~~L~~ll~~~~-~~~~k~LIF~~t~~ 388 (545)
T PTZ00110 311 TLMWSATWPKEVQSLARDLCKEEPVHVNVGSLDLTACHNIKQEVFVVEEHE-KRGKLKMLLQRIM-RDGDKILIFVETKK 388 (545)
T ss_pred EEEEEeCCCHHHHHHHHHHhccCCEEEEECCCccccCCCeeEEEEEEechh-HHHHHHHHHHHhc-ccCCeEEEEecChH
Confidence 999999996 3456655543 3432 22110 011221111111111 1122222322211 25679999999999
Q ss_pred HHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCccccee
Q 001046 743 EIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNV 822 (1176)
Q Consensus 743 ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~ 822 (1176)
.++.++..|.. .++.+..+||++++++|..+++.|+.|..+|||||+++++|||||+|++||++++
T Consensus 389 ~a~~l~~~L~~---------~g~~~~~ihg~~~~~eR~~il~~F~~G~~~ILVaTdv~~rGIDi~~v~~VI~~d~----- 454 (545)
T PTZ00110 389 GADFLTKELRL---------DGWPALCIHGDKKQEERTWVLNEFKTGKSPIMIATDVASRGLDVKDVKYVINFDF----- 454 (545)
T ss_pred HHHHHHHHHHH---------cCCcEEEEECCCcHHHHHHHHHHHhcCCCcEEEEcchhhcCCCcccCCEEEEeCC-----
Confidence 99999998864 2567889999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCCccccccccCHHHHHHHhcccCCCC-CcEEEEecChHHH
Q 001046 823 YNPKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTESAY 866 (1176)
Q Consensus 823 yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~ 866 (1176)
|.+.++|+||+|||||.| +|.||.||++.+.
T Consensus 455 -------------P~s~~~yvqRiGRtGR~G~~G~ai~~~~~~~~ 486 (545)
T PTZ00110 455 -------------PNQIEDYVHRIGRTGRAGAKGASYTFLTPDKY 486 (545)
T ss_pred -------------CCCHHHHHHHhcccccCCCCceEEEEECcchH
Confidence 999999999999999999 8999999998765
No 20
>PRK00254 ski2-like helicase; Provisional
Probab=100.00 E-value=1.3e-36 Score=384.43 Aligned_cols=425 Identities=18% Similarity=0.151 Sum_probs=285.2
Q ss_pred CchHHHHHHHHH-HHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEE
Q 001046 524 PIYKLKKELIQA-VHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGY 602 (1176)
Q Consensus 524 Pi~~~q~~ii~a-i~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy 602 (1176)
-++++|.++++. +.+++++++++|||||||+++.++++......++++++++|+++||.|+++++.. +. .+|..|+.
T Consensus 23 ~l~~~Q~~ai~~~~~~g~nvlv~apTGsGKT~~~~l~il~~l~~~~~~~l~l~P~~aLa~q~~~~~~~-~~-~~g~~v~~ 100 (720)
T PRK00254 23 ELYPPQAEALKSGVLEGKNLVLAIPTASGKTLVAEIVMVNKLLREGGKAVYLVPLKALAEEKYREFKD-WE-KLGLRVAM 100 (720)
T ss_pred CCCHHHHHHHHHHHhCCCcEEEECCCCcHHHHHHHHHHHHHHHhcCCeEEEEeChHHHHHHHHHHHHH-Hh-hcCCEEEE
Confidence 367889999986 7999999999999999999999998887665677999999999999999988764 32 24444543
Q ss_pred Eeeccc---ccCCCceEEEeChHHHHHHHhhC-CCCCCCceEEEcCCCcCCC--chhHHHHHHHHHHhhCCCccEEEEcC
Q 001046 603 AIRFED---CTGPDTVIKYMTDGMLLREILID-DNLSQYSVIMLDEAHERTI--HTDVLFGLLKQLVKRRPDLRLIVTSA 676 (1176)
Q Consensus 603 ~ir~~~---~~~~~t~I~~~T~g~Llr~l~~~-~~L~~~s~IIiDEaHeR~~--~~d~ll~llk~~~~~r~~~kvIlmSA 676 (1176)
.....+ ......+|+++||+.+...+... .++.++++|||||+|.-+- ....+..++.. ...+.|+|+|||
T Consensus 101 ~~Gd~~~~~~~~~~~~IiV~Tpe~~~~ll~~~~~~l~~l~lvViDE~H~l~~~~rg~~le~il~~---l~~~~qiI~lSA 177 (720)
T PRK00254 101 TTGDYDSTDEWLGKYDIIIATAEKFDSLLRHGSSWIKDVKLVVADEIHLIGSYDRGATLEMILTH---MLGRAQILGLSA 177 (720)
T ss_pred EeCCCCCchhhhccCCEEEEcHHHHHHHHhCCchhhhcCCEEEEcCcCccCCccchHHHHHHHHh---cCcCCcEEEEEc
Confidence 221111 11235789999999987766544 3789999999999994221 11122222222 245789999999
Q ss_pred CC-CHHHHHhhhcCCCeEecCCceeeeEE--EEe-----cCCCc-hhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHH
Q 001046 677 TL-DAEKFSGYFFNCNIFTIPGRTFPVEI--LYT-----KQPES-DYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFA 747 (1176)
Q Consensus 677 Tl-~~~~~~~~f~~~~v~~i~gr~~pv~~--~~~-----~~~~~-~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l 747 (1176)
|+ |+..++.|++ ++.+....++.|+.. ++. ..... .+.......+.... ..++++||||+++..++.+
T Consensus 178 Tl~n~~~la~wl~-~~~~~~~~rpv~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i--~~~~~vLVF~~sr~~~~~~ 254 (720)
T PRK00254 178 TVGNAEELAEWLN-AELVVSDWRPVKLRKGVFYQGFLFWEDGKIERFPNSWESLVYDAV--KKGKGALVFVNTRRSAEKE 254 (720)
T ss_pred cCCCHHHHHHHhC-CccccCCCCCCcceeeEecCCeeeccCcchhcchHHHHHHHHHHH--HhCCCEEEEEcChHHHHHH
Confidence 99 6889999875 444444455555432 211 11110 11111112222221 2467999999999999998
Q ss_pred HHHHHHHHhccC----------------CCC--------CCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhc
Q 001046 748 CQSLYERMKGLG----------------KNV--------PELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEAS 803 (1176)
Q Consensus 748 ~~~L~~~~~~l~----------------~~~--------~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~G 803 (1176)
+..|...+...- ... -...+.++||+|++++|..+++.|++|.++|||||+++++|
T Consensus 255 a~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~gv~~hHagl~~~eR~~ve~~F~~G~i~VLvaT~tLa~G 334 (720)
T PRK00254 255 ALELAKKIKRFLTKPELRALKELADSLEENPTNEKLKKALRGGVAFHHAGLGRTERVLIEDAFREGLIKVITATPTLSAG 334 (720)
T ss_pred HHHHHHHHHHhcCchhHHHHHHHHHHHhcCCCcHHHHHHHhhCEEEeCCCCCHHHHHHHHHHHHCCCCeEEEeCcHHhhh
Confidence 877765432110 000 01248899999999999999999999999999999999999
Q ss_pred cCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC---CcEEEEecChHH---HhhhC-------
Q 001046 804 LTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG---PGKCYRLYTESA---YRNEM------- 870 (1176)
Q Consensus 804 IdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g---~G~c~~L~t~~~---~~~~l------- 870 (1176)
||+|++++||... ..|+ ..++ .+.+..+|.||+|||||.| .|.||.+.+... +...+
T Consensus 335 vnipa~~vVI~~~----~~~~-~~~~-----~~~~~~~~~Qm~GRAGR~~~d~~G~~ii~~~~~~~~~~~~~~~~~~pe~ 404 (720)
T PRK00254 335 INLPAFRVIIRDT----KRYS-NFGW-----EDIPVLEIQQMMGRAGRPKYDEVGEAIIVATTEEPSKLMERYIFGKPEK 404 (720)
T ss_pred cCCCceEEEECCc----eEcC-CCCc-----eeCCHHHHHHhhhccCCCCcCCCceEEEEecCcchHHHHHHHHhCCchh
Confidence 9999999999433 3454 2222 3567889999999999986 699998886432 11111
Q ss_pred --CCCCchhhhhcChHHHHHHHHHcC-CCc------ccc--CCCCCCCC----HHHHHHHHHHHHHcCccccC--C--cc
Q 001046 871 --SPTSIPEIQRINLGFTTLTMKAMG-IND------LLS--FDFMDPPS----PQALISAMEQLYSLGALDEE--G--LL 931 (1176)
Q Consensus 871 --~~~~~pEI~r~~L~~~~L~lk~~g-i~~------~~~--f~~~~pP~----~~~l~~al~~L~~lgald~~--g--~l 931 (1176)
...+.+++++.. ++...+.+ +.+ ++. |.+...|. .+.+..++..|...|+|+.+ + ..
T Consensus 405 l~s~l~~es~l~~~----ll~~i~~~~~~~~~~~~~~l~~Tf~~~~~~~~~~~~~~v~~~l~~L~~~~~i~~~~~~~~~~ 480 (720)
T PRK00254 405 LFSMLSNESAFRSQ----VLALITNFGVSNFKELVNFLERTFYAHQRKDLYSLEEKAKEIVYFLLENEFIDIDLEDRFIP 480 (720)
T ss_pred hhccCCchHHHHHH----HHHHHHhCCCCCHHHHHHHHHhCHHHHhhcChHhHHHHHHHHHHHHHHCCCeEEcCCCCEee
Confidence 122223344333 33333332 222 111 22222233 35677889999999999643 2 47
Q ss_pred cHHHHHHhcCCCChHHHHHHHHhhhc----CCHHHHHHHHHHh
Q 001046 932 TKLGRKMAEFPLDPPLSKMLLASVDL----GCSDEILTIIAMI 970 (1176)
Q Consensus 932 T~lG~~~a~lpl~p~l~k~ll~~~~~----~c~~~~l~i~a~l 970 (1176)
|++|++++.++++|..++++..++.- .....++.+++..
T Consensus 481 t~lG~~~s~~~i~~~t~~~~~~~l~~~~~~~~~~~~l~~~~~~ 523 (720)
T PRK00254 481 LPLGIRTSQLYIDPLTAKKFKDAFPKIEKNPNPLGIFQLIAST 523 (720)
T ss_pred ChHHHHHHHHhCCHHHHHHHHHHHHhhccCCCHHHHHHHhhCC
Confidence 99999999999999999998877642 3445566655543
No 21
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.4e-37 Score=374.75 Aligned_cols=307 Identities=23% Similarity=0.316 Sum_probs=242.9
Q ss_pred hHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcc--cCCC-E-EEEeccHHHHHHHHHHHHHHHhCCcc-CCee
Q 001046 526 YKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGY--TTRG-K-IGCTQPRRVAAMSVAKRVAEEFGCRL-GEEV 600 (1176)
Q Consensus 526 ~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~--~~~~-~-Ilv~~PrR~lA~qva~rva~e~g~~~-G~~v 600 (1176)
.++|.++|+.+..|++++++|+||||||.+|.+++++... .... . ++|+.|||+||.|++..+. .++... +..+
T Consensus 53 t~IQ~~~IP~~l~g~Dvi~~A~TGsGKT~Af~lP~l~~l~~~~~~~~~~aLil~PTRELA~Qi~~~~~-~~~~~~~~~~~ 131 (513)
T COG0513 53 TPIQLAAIPLILAGRDVLGQAQTGTGKTAAFLLPLLQKILKSVERKYVSALILAPTRELAVQIAEELR-KLGKNLGGLRV 131 (513)
T ss_pred CHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhcccccCCCceEEECCCHHHHHHHHHHHH-HHHhhcCCccE
Confidence 3669999999999999999999999999999999999744 2222 2 8999999999999998653 443433 3333
Q ss_pred EEEeecccc------cCCCceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEE
Q 001046 601 GYAIRFEDC------TGPDTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIV 673 (1176)
Q Consensus 601 Gy~ir~~~~------~~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIl 673 (1176)
...+.+.+. ...+.+|+|+|||+|++++.... .+.++.++|+|||+ |.++.+|.-.+-+.+....++.++++
T Consensus 132 ~~i~GG~~~~~q~~~l~~~~~ivVaTPGRllD~i~~~~l~l~~v~~lVlDEAD-rmLd~Gf~~~i~~I~~~~p~~~qtll 210 (513)
T COG0513 132 AVVYGGVSIRKQIEALKRGVDIVVATPGRLLDLIKRGKLDLSGVETLVLDEAD-RMLDMGFIDDIEKILKALPPDRQTLL 210 (513)
T ss_pred EEEECCCCHHHHHHHHhcCCCEEEECccHHHHHHHcCCcchhhcCEEEeccHh-hhhcCCCHHHHHHHHHhCCcccEEEE
Confidence 333333221 12358999999999999988774 79999999999999 78888777666666555666899999
Q ss_pred EcCCCCH--HHHHhhhcCCCe-EecC--C---ceeeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHH
Q 001046 674 TSATLDA--EKFSGYFFNCNI-FTIP--G---RTFPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEEID 745 (1176)
Q Consensus 674 mSATl~~--~~~~~~f~~~~v-~~i~--g---r~~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~ 745 (1176)
+|||++. ..++.-+...|+ +.+. . ..-.++.+|......+ ..+..+..+......+.+||||+++..++
T Consensus 211 fSAT~~~~i~~l~~~~l~~p~~i~v~~~~~~~~~~~i~q~~~~v~~~~---~k~~~L~~ll~~~~~~~~IVF~~tk~~~~ 287 (513)
T COG0513 211 FSATMPDDIRELARRYLNDPVEIEVSVEKLERTLKKIKQFYLEVESEE---EKLELLLKLLKDEDEGRVIVFVRTKRLVE 287 (513)
T ss_pred EecCCCHHHHHHHHHHccCCcEEEEccccccccccCceEEEEEeCCHH---HHHHHHHHHHhcCCCCeEEEEeCcHHHHH
Confidence 9999974 455555555443 3333 1 1133445554443322 34555555555566678999999999999
Q ss_pred HHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccC
Q 001046 746 FACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNP 825 (1176)
Q Consensus 746 ~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~ 825 (1176)
.++..|... ++.+..+||+|++++|.++++.|+.|..+|||||++|++|||||+|.+||||++
T Consensus 288 ~l~~~l~~~---------g~~~~~lhG~l~q~~R~~~l~~F~~g~~~vLVaTDvaaRGiDi~~v~~VinyD~-------- 350 (513)
T COG0513 288 ELAESLRKR---------GFKVAALHGDLPQEERDRALEKFKDGELRVLVATDVAARGLDIPDVSHVINYDL-------- 350 (513)
T ss_pred HHHHHHHHC---------CCeEEEecCCCCHHHHHHHHHHHHcCCCCEEEEechhhccCCccccceeEEccC--------
Confidence 999888763 688999999999999999999999999999999999999999999999999999
Q ss_pred CCCCccccccccCHHHHHHHhcccCCCC-CcEEEEecChH
Q 001046 826 KQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTES 864 (1176)
Q Consensus 826 ~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~ 864 (1176)
|.+.++|+||+||+||.| .|.++.|+++.
T Consensus 351 ----------p~~~e~yvHRiGRTgRaG~~G~ai~fv~~~ 380 (513)
T COG0513 351 ----------PLDPEDYVHRIGRTGRAGRKGVAISFVTEE 380 (513)
T ss_pred ----------CCCHHHheeccCccccCCCCCeEEEEeCcH
Confidence 999999999999999999 79999999974
No 22
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=100.00 E-value=2.9e-37 Score=368.95 Aligned_cols=307 Identities=18% Similarity=0.186 Sum_probs=227.2
Q ss_pred hHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhccc---------CCCEEEEeccHHHHHHHHHHHHHHHhCCcc
Q 001046 526 YKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYT---------TRGKIGCTQPRRVAAMSVAKRVAEEFGCRL 596 (1176)
Q Consensus 526 ~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~---------~~~~Ilv~~PrR~lA~qva~rva~e~g~~~ 596 (1176)
.++|.++++.+.+|++++++||||||||+++.+++++.... .+.+++|++|+|+||.|+++.+ ..+....
T Consensus 32 t~iQ~~aip~il~g~dvi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~~~~lil~PtreLa~Qi~~~~-~~l~~~~ 110 (423)
T PRK04837 32 TPIQALALPLTLAGRDVAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQPRALIMAPTRELAVQIHADA-EPLAQAT 110 (423)
T ss_pred CHHHHHHHHHHhCCCcEEEECCCCchHHHHHHHHHHHHHHhcccccccccCCceEEEECCcHHHHHHHHHHH-HHHhccC
Confidence 46799999999999999999999999999999888765432 2357999999999999998864 4444445
Q ss_pred CCeeEEEeeccc------ccCCCceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCC--
Q 001046 597 GEEVGYAIRFED------CTGPDTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRP-- 667 (1176)
Q Consensus 597 G~~vGy~ir~~~------~~~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~-- 667 (1176)
|..++....... ....+.+|+|+|||.|++.+.... .+.++.+|||||||. .+...+... ++.+....+
T Consensus 111 ~~~v~~~~gg~~~~~~~~~l~~~~~IlV~TP~~l~~~l~~~~~~l~~v~~lViDEad~-l~~~~f~~~-i~~i~~~~~~~ 188 (423)
T PRK04837 111 GLKLGLAYGGDGYDKQLKVLESGVDILIGTTGRLIDYAKQNHINLGAIQVVVLDEADR-MFDLGFIKD-IRWLFRRMPPA 188 (423)
T ss_pred CceEEEEECCCCHHHHHHHhcCCCCEEEECHHHHHHHHHcCCcccccccEEEEecHHH-HhhcccHHH-HHHHHHhCCCc
Confidence 555554443322 123457899999999999886544 689999999999993 444333322 333333333
Q ss_pred -CccEEEEcCCCCH--HHHHhhhcCCC-eEecCCce---eeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCC
Q 001046 668 -DLRLIVTSATLDA--EKFSGYFFNCN-IFTIPGRT---FPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTG 740 (1176)
Q Consensus 668 -~~kvIlmSATl~~--~~~~~~f~~~~-v~~i~gr~---~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~ 740 (1176)
..+.+++|||++. ..+...+.+.| .+.+.... ..+...+..... ......+..+......+++||||++
T Consensus 189 ~~~~~~l~SAT~~~~~~~~~~~~~~~p~~i~v~~~~~~~~~i~~~~~~~~~----~~k~~~l~~ll~~~~~~~~lVF~~t 264 (423)
T PRK04837 189 NQRLNMLFSATLSYRVRELAFEHMNNPEYVEVEPEQKTGHRIKEELFYPSN----EEKMRLLQTLIEEEWPDRAIIFANT 264 (423)
T ss_pred cceeEEEEeccCCHHHHHHHHHHCCCCEEEEEcCCCcCCCceeEEEEeCCH----HHHHHHHHHHHHhcCCCeEEEEECC
Confidence 4467999999973 33433333333 33332211 112222211111 1222333333334456899999999
Q ss_pred HHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccc
Q 001046 741 QEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQ 820 (1176)
Q Consensus 741 ~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~ 820 (1176)
+..++.++..|.. .++.+..+||+|++.+|..+++.|+.|+++|||||+++++|||||+|++||++++
T Consensus 265 ~~~~~~l~~~L~~---------~g~~v~~lhg~~~~~~R~~~l~~F~~g~~~vLVaTdv~~rGiDip~v~~VI~~d~--- 332 (423)
T PRK04837 265 KHRCEEIWGHLAA---------DGHRVGLLTGDVAQKKRLRILEEFTRGDLDILVATDVAARGLHIPAVTHVFNYDL--- 332 (423)
T ss_pred HHHHHHHHHHHHh---------CCCcEEEecCCCChhHHHHHHHHHHcCCCcEEEEechhhcCCCccccCEEEEeCC---
Confidence 9999999988865 2677899999999999999999999999999999999999999999999999999
Q ss_pred eeccCCCCCccccccccCHHHHHHHhcccCCCC-CcEEEEecChHHH
Q 001046 821 NVYNPKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTESAY 866 (1176)
Q Consensus 821 ~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~ 866 (1176)
|.+.++|+||+|||||.| .|.|+.|+++++.
T Consensus 333 ---------------P~s~~~yiqR~GR~gR~G~~G~ai~~~~~~~~ 364 (423)
T PRK04837 333 ---------------PDDCEDYVHRIGRTGRAGASGHSISLACEEYA 364 (423)
T ss_pred ---------------CCchhheEeccccccCCCCCeeEEEEeCHHHH
Confidence 999999999999999999 8999999998754
No 23
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=100.00 E-value=7.7e-37 Score=372.54 Aligned_cols=311 Identities=19% Similarity=0.193 Sum_probs=229.6
Q ss_pred chHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhccc---------CCCEEEEeccHHHHHHHHHHHHHHHhCCc
Q 001046 525 IYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYT---------TRGKIGCTQPRRVAAMSVAKRVAEEFGCR 595 (1176)
Q Consensus 525 i~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~---------~~~~Ilv~~PrR~lA~qva~rva~e~g~~ 595 (1176)
.+++|.++++++.+|+++|++||||||||.++.++++..... .+.+++|++|||+||.|+.+.+ ..++..
T Consensus 144 ptpiQ~~aip~il~g~dviv~ApTGSGKTlayllPil~~l~~~~~~~~~~~~~~~aLIL~PTreLa~Qi~~~~-~~l~~~ 222 (518)
T PLN00206 144 PTPIQMQAIPAALSGRSLLVSADTGSGKTASFLVPIISRCCTIRSGHPSEQRNPLAMVLTPTRELCVQVEDQA-KVLGKG 222 (518)
T ss_pred CCHHHHHHHHHHhcCCCEEEEecCCCCccHHHHHHHHHHHHhhccccccccCCceEEEEeCCHHHHHHHHHHH-HHHhCC
Confidence 457799999999999999999999999999999888764321 2457999999999999988764 444444
Q ss_pred cCCeeEEEeeccc------ccCCCceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCC
Q 001046 596 LGEEVGYAIRFED------CTGPDTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPD 668 (1176)
Q Consensus 596 ~G~~vGy~ir~~~------~~~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~ 668 (1176)
++..+...+.++. ....+..|+++|||+|+..+.... .+.++++||||||| +.+...+.. .+..++...++
T Consensus 223 ~~~~~~~~~gG~~~~~q~~~l~~~~~IiV~TPgrL~~~l~~~~~~l~~v~~lViDEad-~ml~~gf~~-~i~~i~~~l~~ 300 (518)
T PLN00206 223 LPFKTALVVGGDAMPQQLYRIQQGVELIVGTPGRLIDLLSKHDIELDNVSVLVLDEVD-CMLERGFRD-QVMQIFQALSQ 300 (518)
T ss_pred CCceEEEEECCcchHHHHHHhcCCCCEEEECHHHHHHHHHcCCccchheeEEEeecHH-HHhhcchHH-HHHHHHHhCCC
Confidence 4433332222221 123467899999999999887654 78999999999999 444433322 23344444578
Q ss_pred ccEEEEcCCCC--HHHHHhhhcCCCeEecCCc-ee---eeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHH
Q 001046 669 LRLIVTSATLD--AEKFSGYFFNCNIFTIPGR-TF---PVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQE 742 (1176)
Q Consensus 669 ~kvIlmSATl~--~~~~~~~f~~~~v~~i~gr-~~---pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ 742 (1176)
.+++++|||++ .+.++..+...+++...+. .. .+...+......+. ...+..++.. .....+++||||+++.
T Consensus 301 ~q~l~~SATl~~~v~~l~~~~~~~~~~i~~~~~~~~~~~v~q~~~~~~~~~k-~~~l~~~l~~-~~~~~~~~iVFv~s~~ 378 (518)
T PLN00206 301 PQVLLFSATVSPEVEKFASSLAKDIILISIGNPNRPNKAVKQLAIWVETKQK-KQKLFDILKS-KQHFKPPAVVFVSSRL 378 (518)
T ss_pred CcEEEEEeeCCHHHHHHHHHhCCCCEEEEeCCCCCCCcceeEEEEeccchhH-HHHHHHHHHh-hcccCCCEEEEcCCch
Confidence 89999999996 4577777766554332221 11 12222221111111 1122222221 1123468999999999
Q ss_pred HHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCccccee
Q 001046 743 EIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNV 822 (1176)
Q Consensus 743 ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~ 822 (1176)
.++.++..|... .++.+..+||++++++|..+++.|+.|..+|||||+++++|||+|+|++||++++
T Consensus 379 ~a~~l~~~L~~~--------~g~~~~~~Hg~~~~~eR~~il~~Fr~G~~~ILVaTdvl~rGiDip~v~~VI~~d~----- 445 (518)
T PLN00206 379 GADLLANAITVV--------TGLKALSIHGEKSMKERREVMKSFLVGEVPVIVATGVLGRGVDLLRVRQVIIFDM----- 445 (518)
T ss_pred hHHHHHHHHhhc--------cCcceEEeeCCCCHHHHHHHHHHHHCCCCCEEEEecHhhccCCcccCCEEEEeCC-----
Confidence 999988887642 3577899999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCCccccccccCHHHHHHHhcccCCCC-CcEEEEecChHHH
Q 001046 823 YNPKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTESAY 866 (1176)
Q Consensus 823 yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~ 866 (1176)
|.+..+|+||+|||||.| .|.||.|+++++.
T Consensus 446 -------------P~s~~~yihRiGRaGR~g~~G~ai~f~~~~~~ 477 (518)
T PLN00206 446 -------------PNTIKEYIHQIGRASRMGEKGTAIVFVNEEDR 477 (518)
T ss_pred -------------CCCHHHHHHhccccccCCCCeEEEEEEchhHH
Confidence 999999999999999999 7999999998764
No 24
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=100.00 E-value=1.1e-36 Score=366.56 Aligned_cols=309 Identities=19% Similarity=0.186 Sum_probs=228.3
Q ss_pred chHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccC--------CCEEEEeccHHHHHHHHHHHHHHHhCCcc
Q 001046 525 IYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTT--------RGKIGCTQPRRVAAMSVAKRVAEEFGCRL 596 (1176)
Q Consensus 525 i~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~--------~~~Ilv~~PrR~lA~qva~rva~e~g~~~ 596 (1176)
.+++|.++++.+.+++++|++||||||||.++.+++++..... ..+++|++|||+||.|+.+.+.... ...
T Consensus 24 pt~iQ~~ai~~il~g~dvlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aLil~PtreLa~Qi~~~~~~~~-~~~ 102 (456)
T PRK10590 24 PTPIQQQAIPAVLEGRDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALILTPTRELAAQIGENVRDYS-KYL 102 (456)
T ss_pred CCHHHHHHHHHHhCCCCEEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEEEEeCcHHHHHHHHHHHHHHh-ccC
Confidence 4478999999999999999999999999999999888754321 2379999999999999998876543 222
Q ss_pred CCeeEEEeeccc------ccCCCceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCc
Q 001046 597 GEEVGYAIRFED------CTGPDTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDL 669 (1176)
Q Consensus 597 G~~vGy~ir~~~------~~~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~ 669 (1176)
+..+...+.... ......+|+|+||++|+..+.... .+.++++||||||| +.+...++..+...+....+..
T Consensus 103 ~~~~~~~~gg~~~~~~~~~l~~~~~IiV~TP~rL~~~~~~~~~~l~~v~~lViDEah-~ll~~~~~~~i~~il~~l~~~~ 181 (456)
T PRK10590 103 NIRSLVVFGGVSINPQMMKLRGGVDVLVATPGRLLDLEHQNAVKLDQVEILVLDEAD-RMLDMGFIHDIRRVLAKLPAKR 181 (456)
T ss_pred CCEEEEEECCcCHHHHHHHHcCCCcEEEEChHHHHHHHHcCCcccccceEEEeecHH-HHhccccHHHHHHHHHhCCccC
Confidence 222221111111 123467899999999999887655 68999999999999 4554444333333333344567
Q ss_pred cEEEEcCCCCH--HHHHhhhcCCCe-EecCCce---eeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHH
Q 001046 670 RLIVTSATLDA--EKFSGYFFNCNI-FTIPGRT---FPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEE 743 (1176)
Q Consensus 670 kvIlmSATl~~--~~~~~~f~~~~v-~~i~gr~---~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~e 743 (1176)
++++||||++. ..+...+...+. +.+..+. -.+..++..... . .....+..+.......++||||+++.+
T Consensus 182 q~l~~SAT~~~~~~~l~~~~~~~~~~i~~~~~~~~~~~i~~~~~~~~~-~---~k~~~l~~l~~~~~~~~~lVF~~t~~~ 257 (456)
T PRK10590 182 QNLLFSATFSDDIKALAEKLLHNPLEIEVARRNTASEQVTQHVHFVDK-K---RKRELLSQMIGKGNWQQVLVFTRTKHG 257 (456)
T ss_pred eEEEEeCCCcHHHHHHHHHHcCCCeEEEEecccccccceeEEEEEcCH-H---HHHHHHHHHHHcCCCCcEEEEcCcHHH
Confidence 89999999964 455555544443 3332221 112222221111 1 111222233333455789999999999
Q ss_pred HHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceec
Q 001046 744 IDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVY 823 (1176)
Q Consensus 744 i~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~y 823 (1176)
++.+++.|.. .++.+..+||+|++++|..+++.|+.|..+|||||+++++|||||+|++||++++
T Consensus 258 ~~~l~~~L~~---------~g~~~~~lhg~~~~~~R~~~l~~F~~g~~~iLVaTdv~~rGiDip~v~~VI~~~~------ 322 (456)
T PRK10590 258 ANHLAEQLNK---------DGIRSAAIHGNKSQGARTRALADFKSGDIRVLVATDIAARGLDIEELPHVVNYEL------ 322 (456)
T ss_pred HHHHHHHHHH---------CCCCEEEEECCCCHHHHHHHHHHHHcCCCcEEEEccHHhcCCCcccCCEEEEeCC------
Confidence 9999998865 2567889999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCccccccccCHHHHHHHhcccCCCC-CcEEEEecChHHH
Q 001046 824 NPKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTESAY 866 (1176)
Q Consensus 824 d~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~ 866 (1176)
|.+..+|+||+|||||.| .|.|+.|++..+.
T Consensus 323 ------------P~~~~~yvqR~GRaGR~g~~G~ai~l~~~~d~ 354 (456)
T PRK10590 323 ------------PNVPEDYVHRIGRTGRAAATGEALSLVCVDEH 354 (456)
T ss_pred ------------CCCHHHhhhhccccccCCCCeeEEEEecHHHH
Confidence 999999999999999999 7999999988764
No 25
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=100.00 E-value=1.2e-36 Score=375.25 Aligned_cols=311 Identities=18% Similarity=0.199 Sum_probs=234.0
Q ss_pred CchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhccc--CCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeE
Q 001046 524 PIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYT--TRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVG 601 (1176)
Q Consensus 524 Pi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~--~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vG 601 (1176)
..+++|.++++.+.+++++|++||||||||+++.+++++.... ...+++|++|||+||.|++..+....+...+..+.
T Consensus 28 ~ptpiQ~~ai~~ll~g~dvl~~ApTGsGKT~af~lpll~~l~~~~~~~~~LIL~PTreLa~Qv~~~l~~~~~~~~~i~v~ 107 (629)
T PRK11634 28 KPSPIQAECIPHLLNGRDVLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILVLAPTRELAVQVAEAMTDFSKHMRGVNVV 107 (629)
T ss_pred CCCHHHHHHHHHHHcCCCEEEEcCCCCcHHHHHHHHHHHHhhhccCCCeEEEEeCcHHHHHHHHHHHHHHHhhcCCceEE
Confidence 3567899999999999999999999999999999988875432 23589999999999999999876655433344443
Q ss_pred EEeeccc------ccCCCceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEE
Q 001046 602 YAIRFED------CTGPDTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVT 674 (1176)
Q Consensus 602 y~ir~~~------~~~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlm 674 (1176)
....... .....+.|+|+||+.|++.+.... .+.++.+|||||||+ .+...+...+...+.......++++|
T Consensus 108 ~~~gG~~~~~q~~~l~~~~~IVVgTPgrl~d~l~r~~l~l~~l~~lVlDEAd~-ml~~gf~~di~~Il~~lp~~~q~llf 186 (629)
T PRK11634 108 ALYGGQRYDVQLRALRQGPQIVVGTPGRLLDHLKRGTLDLSKLSGLVLDEADE-MLRMGFIEDVETIMAQIPEGHQTALF 186 (629)
T ss_pred EEECCcCHHHHHHHhcCCCCEEEECHHHHHHHHHcCCcchhhceEEEeccHHH-HhhcccHHHHHHHHHhCCCCCeEEEE
Confidence 3222221 123467899999999999987665 689999999999995 33333333333322234457899999
Q ss_pred cCCCC--HHHHHhhhcC-CCeEecCCce---eeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHH
Q 001046 675 SATLD--AEKFSGYFFN-CNIFTIPGRT---FPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFAC 748 (1176)
Q Consensus 675 SATl~--~~~~~~~f~~-~~v~~i~gr~---~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~ 748 (1176)
|||++ ...+...|.. ...+.+.... ..+...|......+ ....+..+........+||||+++..++.++
T Consensus 187 SAT~p~~i~~i~~~~l~~~~~i~i~~~~~~~~~i~q~~~~v~~~~----k~~~L~~~L~~~~~~~~IVF~~tk~~a~~l~ 262 (629)
T PRK11634 187 SATMPEAIRRITRRFMKEPQEVRIQSSVTTRPDISQSYWTVWGMR----KNEALVRFLEAEDFDAAIIFVRTKNATLEVA 262 (629)
T ss_pred EccCChhHHHHHHHHcCCCeEEEccCccccCCceEEEEEEechhh----HHHHHHHHHHhcCCCCEEEEeccHHHHHHHH
Confidence 99996 3445544443 3344443322 12233333222111 2223333334455678999999999999999
Q ss_pred HHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCC
Q 001046 749 QSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQG 828 (1176)
Q Consensus 749 ~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g 828 (1176)
..|.. .++.+..+||+|++.+|..+++.|+.|+.+|||||+++++|||+|+|.+||++++
T Consensus 263 ~~L~~---------~g~~~~~lhgd~~q~~R~~il~~Fr~G~~~ILVATdv~arGIDip~V~~VI~~d~----------- 322 (629)
T PRK11634 263 EALER---------NGYNSAALNGDMNQALREQTLERLKDGRLDILIATDVAARGLDVERISLVVNYDI----------- 322 (629)
T ss_pred HHHHh---------CCCCEEEeeCCCCHHHHHHHHHHHhCCCCCEEEEcchHhcCCCcccCCEEEEeCC-----------
Confidence 98875 2578899999999999999999999999999999999999999999999999999
Q ss_pred CccccccccCHHHHHHHhcccCCCC-CcEEEEecChHHH
Q 001046 829 LDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTESAY 866 (1176)
Q Consensus 829 ~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~ 866 (1176)
|.+.++|+||+|||||.| .|.|+.++++.+.
T Consensus 323 -------P~~~e~yvqRiGRtGRaGr~G~ai~~v~~~e~ 354 (629)
T PRK11634 323 -------PMDSESYVHRIGRTGRAGRAGRALLFVENRER 354 (629)
T ss_pred -------CCCHHHHHHHhccccCCCCcceEEEEechHHH
Confidence 999999999999999999 6999999987654
No 26
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=100.00 E-value=1.5e-36 Score=364.11 Aligned_cols=311 Identities=19% Similarity=0.209 Sum_probs=232.6
Q ss_pred chHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhccc------CCCEEEEeccHHHHHHHHHHHHHHHhCCccCC
Q 001046 525 IYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYT------TRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGE 598 (1176)
Q Consensus 525 i~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~------~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~ 598 (1176)
.+++|.++++++.++++++++||||||||+++.++++..... ...+++|++|+++||.|+++.+.. ++...+.
T Consensus 24 p~~iQ~~ai~~~~~g~d~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~Pt~eLa~Q~~~~~~~-l~~~~~~ 102 (434)
T PRK11192 24 PTAIQAEAIPPALDGRDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILTPTRELAMQVADQARE-LAKHTHL 102 (434)
T ss_pred CCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEECCcHHHHHHHHHHHHH-HHccCCc
Confidence 457899999999999999999999999999998888765321 235899999999999999886543 3333444
Q ss_pred eeEEEeecc------cccCCCceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccE
Q 001046 599 EVGYAIRFE------DCTGPDTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRL 671 (1176)
Q Consensus 599 ~vGy~ir~~------~~~~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kv 671 (1176)
.++...... .....+.+|+|+|||+|++.+.... .+.++.+||||||| +.+...+...+.......+...++
T Consensus 103 ~v~~~~gg~~~~~~~~~l~~~~~IlV~Tp~rl~~~~~~~~~~~~~v~~lViDEah-~~l~~~~~~~~~~i~~~~~~~~q~ 181 (434)
T PRK11192 103 DIATITGGVAYMNHAEVFSENQDIVVATPGRLLQYIKEENFDCRAVETLILDEAD-RMLDMGFAQDIETIAAETRWRKQT 181 (434)
T ss_pred EEEEEECCCCHHHHHHHhcCCCCEEEEChHHHHHHHHcCCcCcccCCEEEEECHH-HHhCCCcHHHHHHHHHhCccccEE
Confidence 444322211 1223567899999999999887665 58899999999999 454444333322222234456799
Q ss_pred EEEcCCCC---HHHHHhhhcCCCeE-ecCCce---eeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHH
Q 001046 672 IVTSATLD---AEKFSGYFFNCNIF-TIPGRT---FPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEEI 744 (1176)
Q Consensus 672 IlmSATl~---~~~~~~~f~~~~v~-~i~gr~---~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei 744 (1176)
++||||++ ...|..++...++. .+.... ..+...|..... .......+..+......+++||||++++++
T Consensus 182 ~~~SAT~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~i~~~~~~~~~---~~~k~~~l~~l~~~~~~~~~lVF~~s~~~~ 258 (434)
T PRK11192 182 LLFSATLEGDAVQDFAERLLNDPVEVEAEPSRRERKKIHQWYYRADD---LEHKTALLCHLLKQPEVTRSIVFVRTRERV 258 (434)
T ss_pred EEEEeecCHHHHHHHHHHHccCCEEEEecCCcccccCceEEEEEeCC---HHHHHHHHHHHHhcCCCCeEEEEeCChHHH
Confidence 99999996 34666666555542 221111 112222222111 122333334444444678999999999999
Q ss_pred HHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceecc
Q 001046 745 DFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYN 824 (1176)
Q Consensus 745 ~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd 824 (1176)
+.++..|.+ .++.+..+||+|++.+|..+++.|+.|..+|||||+++++|||+|+|++||++++
T Consensus 259 ~~l~~~L~~---------~~~~~~~l~g~~~~~~R~~~l~~f~~G~~~vLVaTd~~~~GiDip~v~~VI~~d~------- 322 (434)
T PRK11192 259 HELAGWLRK---------AGINCCYLEGEMVQAKRNEAIKRLTDGRVNVLVATDVAARGIDIDDVSHVINFDM------- 322 (434)
T ss_pred HHHHHHHHh---------CCCCEEEecCCCCHHHHHHHHHHHhCCCCcEEEEccccccCccCCCCCEEEEECC-------
Confidence 999999875 3577899999999999999999999999999999999999999999999999999
Q ss_pred CCCCCccccccccCHHHHHHHhcccCCCC-CcEEEEecChHHHh
Q 001046 825 PKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTESAYR 867 (1176)
Q Consensus 825 ~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~~ 867 (1176)
|.|...|+||+|||||.| .|.|+.|++..++.
T Consensus 323 -----------p~s~~~yiqr~GR~gR~g~~g~ai~l~~~~d~~ 355 (434)
T PRK11192 323 -----------PRSADTYLHRIGRTGRAGRKGTAISLVEAHDHL 355 (434)
T ss_pred -----------CCCHHHHhhcccccccCCCCceEEEEecHHHHH
Confidence 999999999999999998 79999999887764
No 27
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=100.00 E-value=1.7e-37 Score=349.02 Aligned_cols=316 Identities=22% Similarity=0.262 Sum_probs=241.9
Q ss_pred HHHHHhcCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcc-----------cCCCEEEEeccHHHHHHHH
Q 001046 516 IQEQRQSLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGY-----------TTRGKIGCTQPRRVAAMSV 584 (1176)
Q Consensus 516 l~~~r~~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~-----------~~~~~Ilv~~PrR~lA~qv 584 (1176)
+.......|- ++|.+++....+++++|.+|+||||||.+++.+|+.... ..+...+++.|||+||.|+
T Consensus 260 I~~~~y~ept-pIqR~aipl~lQ~rD~igvaETgsGktaaf~ipLl~~IsslP~~~~~en~~~gpyaiilaptReLaqqI 338 (673)
T KOG0333|consen 260 IKKPGYKEPT-PIQRQAIPLGLQNRDPIGVAETGSGKTAAFLIPLLIWISSLPPMARLENNIEGPYAIILAPTRELAQQI 338 (673)
T ss_pred HHhcCCCCCc-hHHHhhccchhccCCeeeEEeccCCccccchhhHHHHHHcCCCcchhhhcccCceeeeechHHHHHHHH
Confidence 3333444443 668888888999999999999999999888887765321 2245789999999999999
Q ss_pred HHHHHHHhCCccCCeeEEEe---eccc---ccCCCceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCCcCCCchhHHHH
Q 001046 585 AKRVAEEFGCRLGEEVGYAI---RFED---CTGPDTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAHERTIHTDVLFG 657 (1176)
Q Consensus 585 a~rva~e~g~~~G~~vGy~i---r~~~---~~~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaHeR~~~~d~ll~ 657 (1176)
... ...+++.+|..+--.| +++. ..+.++.|+++|||.|+..|-... .|+++.+||+|||+ |++++.|-..
T Consensus 339 eeE-t~kf~~~lg~r~vsvigg~s~EEq~fqls~gceiviatPgrLid~Lenr~lvl~qctyvvldead-rmiDmgfE~d 416 (673)
T KOG0333|consen 339 EEE-TNKFGKPLGIRTVSVIGGLSFEEQGFQLSMGCEIVIATPGRLIDSLENRYLVLNQCTYVVLDEAD-RMIDMGFEPD 416 (673)
T ss_pred HHH-HHHhcccccceEEEEecccchhhhhhhhhccceeeecCchHHHHHHHHHHHHhccCceEeccchh-hhhcccccHH
Confidence 875 4556666665443333 3333 356789999999999999886554 58999999999999 7888877666
Q ss_pred HHHHHHhh---C--C--------------------CccEEEEcCCCC--HHHHHh-hhcCCCeEecC--Cceeee-EEEE
Q 001046 658 LLKQLVKR---R--P--------------------DLRLIVTSATLD--AEKFSG-YFFNCNIFTIP--GRTFPV-EILY 706 (1176)
Q Consensus 658 llk~~~~~---r--~--------------------~~kvIlmSATl~--~~~~~~-~f~~~~v~~i~--gr~~pv-~~~~ 706 (1176)
+.+.+-.. . | -.+.++||||++ ++.++. ||..+-++++. |+..|. +..+
T Consensus 417 v~~iL~~mPssn~k~~tde~~~~~~~~~~~~~~k~yrqT~mftatm~p~verlar~ylr~pv~vtig~~gk~~~rveQ~v 496 (673)
T KOG0333|consen 417 VQKILEQMPSSNAKPDTDEKEGEERVRKNFSSSKKYRQTVMFTATMPPAVERLARSYLRRPVVVTIGSAGKPTPRVEQKV 496 (673)
T ss_pred HHHHHHhCCccccCCCccchhhHHHHHhhcccccceeEEEEEecCCChHHHHHHHHHhhCCeEEEeccCCCCccchheEE
Confidence 65554331 1 1 167999999996 556665 44444445543 333332 2222
Q ss_pred ecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCC
Q 001046 707 TKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPA 786 (1176)
Q Consensus 707 ~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f 786 (1176)
.-..+. .....++.+.......+||||+|+++.|+.+++.|.+ .++.+..|||+-++++|..+++.|
T Consensus 497 ~m~~ed----~k~kkL~eil~~~~~ppiIIFvN~kk~~d~lAk~LeK---------~g~~~~tlHg~k~qeQRe~aL~~f 563 (673)
T KOG0333|consen 497 EMVSED----EKRKKLIEILESNFDPPIIIFVNTKKGADALAKILEK---------AGYKVTTLHGGKSQEQRENALADF 563 (673)
T ss_pred EEecch----HHHHHHHHHHHhCCCCCEEEEEechhhHHHHHHHHhh---------ccceEEEeeCCccHHHHHHHHHHH
Confidence 111111 2234444444445677999999999999999999976 368999999999999999999999
Q ss_pred CCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC-CcEEEEecChHH
Q 001046 787 PPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTESA 865 (1176)
Q Consensus 787 ~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~ 865 (1176)
+.|...|+||||+|++|||||+|.+||||++ +.|..+|.||+||+||+| .|+++.|||+++
T Consensus 564 r~~t~dIlVaTDvAgRGIDIpnVSlVinydm------------------aksieDYtHRIGRTgRAGk~GtaiSflt~~d 625 (673)
T KOG0333|consen 564 REGTGDILVATDVAGRGIDIPNVSLVINYDM------------------AKSIEDYTHRIGRTGRAGKSGTAISFLTPAD 625 (673)
T ss_pred HhcCCCEEEEecccccCCCCCccceeeecch------------------hhhHHHHHHHhccccccccCceeEEEeccch
Confidence 9999999999999999999999999999999 999999999999999999 799999999987
No 28
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=100.00 E-value=1.4e-36 Score=372.73 Aligned_cols=308 Identities=18% Similarity=0.226 Sum_probs=229.8
Q ss_pred chHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccC---------CCEEEEeccHHHHHHHHHHHHHHHhCCc
Q 001046 525 IYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTT---------RGKIGCTQPRRVAAMSVAKRVAEEFGCR 595 (1176)
Q Consensus 525 i~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~---------~~~Ilv~~PrR~lA~qva~rva~e~g~~ 595 (1176)
.+++|.++|+.+++++++|++||||||||+++.+++++..... ..+++|++|+|+||.|+++.+ ..++..
T Consensus 32 ptpiQ~~~ip~~l~G~Dvi~~ApTGSGKTlafllpil~~l~~~~~~~~~~~~~~raLIl~PTreLa~Qi~~~~-~~l~~~ 110 (572)
T PRK04537 32 CTPIQALTLPVALPGGDVAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDPRALILAPTRELAIQIHKDA-VKFGAD 110 (572)
T ss_pred CCHHHHHHHHHHhCCCCEEEEcCCCCcHHHHHHHHHHHHHHhcccccccccCCceEEEEeCcHHHHHHHHHHH-HHHhcc
Confidence 4577999999999999999999999999999999988754321 358999999999999999875 455555
Q ss_pred cCCeeEEEeeccc------ccCCCceEEEeChHHHHHHHhhCC--CCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhC-
Q 001046 596 LGEEVGYAIRFED------CTGPDTVIKYMTDGMLLREILIDD--NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRR- 666 (1176)
Q Consensus 596 ~G~~vGy~ir~~~------~~~~~t~I~~~T~g~Llr~l~~~~--~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r- 666 (1176)
++..++....... ....+.+|+|+||++|++.+.... .+..+++|||||||. .+...+... +..++...
T Consensus 111 ~~i~v~~l~Gg~~~~~q~~~l~~~~dIiV~TP~rL~~~l~~~~~~~l~~v~~lViDEAh~-lld~gf~~~-i~~il~~lp 188 (572)
T PRK04537 111 LGLRFALVYGGVDYDKQRELLQQGVDVIIATPGRLIDYVKQHKVVSLHACEICVLDEADR-MFDLGFIKD-IRFLLRRMP 188 (572)
T ss_pred CCceEEEEECCCCHHHHHHHHhCCCCEEEECHHHHHHHHHhccccchhheeeeEecCHHH-HhhcchHHH-HHHHHHhcc
Confidence 6655554433222 122457899999999999887643 578899999999994 333333222 22333322
Q ss_pred --CCccEEEEcCCCCH--HHHHhhhcCCC-eEecCCcee---eeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEe
Q 001046 667 --PDLRLIVTSATLDA--EKFSGYFFNCN-IFTIPGRTF---PVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFL 738 (1176)
Q Consensus 667 --~~~kvIlmSATl~~--~~~~~~f~~~~-v~~i~gr~~---pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl 738 (1176)
.+.++++||||++. ..+...+...+ .+.+..... .+...+..... ...+..++.+.......++||||
T Consensus 189 ~~~~~q~ll~SATl~~~v~~l~~~~l~~p~~i~v~~~~~~~~~i~q~~~~~~~----~~k~~~L~~ll~~~~~~k~LVF~ 264 (572)
T PRK04537 189 ERGTRQTLLFSATLSHRVLELAYEHMNEPEKLVVETETITAARVRQRIYFPAD----EEKQTLLLGLLSRSEGARTMVFV 264 (572)
T ss_pred cccCceEEEEeCCccHHHHHHHHHHhcCCcEEEeccccccccceeEEEEecCH----HHHHHHHHHHHhcccCCcEEEEe
Confidence 36799999999964 33333333333 232222111 12222222111 12233344444445677999999
Q ss_pred CCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcc
Q 001046 739 TGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFA 818 (1176)
Q Consensus 739 ~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~ 818 (1176)
+++..++.+++.|.+. ++.+..+||+|++.+|..+++.|++|..+|||||+++++|||||+|++||++++
T Consensus 265 nt~~~ae~l~~~L~~~---------g~~v~~lhg~l~~~eR~~il~~Fr~G~~~VLVaTdv~arGIDip~V~~VInyd~- 334 (572)
T PRK04537 265 NTKAFVERVARTLERH---------GYRVGVLSGDVPQKKRESLLNRFQKGQLEILVATDVAARGLHIDGVKYVYNYDL- 334 (572)
T ss_pred CCHHHHHHHHHHHHHc---------CCCEEEEeCCCCHHHHHHHHHHHHcCCCeEEEEehhhhcCCCccCCCEEEEcCC-
Confidence 9999999999988652 567999999999999999999999999999999999999999999999999999
Q ss_pred cceeccCCCCCccccccccCHHHHHHHhcccCCCC-CcEEEEecChHHH
Q 001046 819 KQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTESAY 866 (1176)
Q Consensus 819 k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~ 866 (1176)
|.+..+|+||+|||||.| .|.|+.|+++.+.
T Consensus 335 -----------------P~s~~~yvqRiGRaGR~G~~G~ai~~~~~~~~ 366 (572)
T PRK04537 335 -----------------PFDAEDYVHRIGRTARLGEEGDAISFACERYA 366 (572)
T ss_pred -----------------CCCHHHHhhhhcccccCCCCceEEEEecHHHH
Confidence 999999999999999999 7999999987643
No 29
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=100.00 E-value=6.4e-36 Score=362.21 Aligned_cols=308 Identities=20% Similarity=0.235 Sum_probs=227.1
Q ss_pred chHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccC---------CCEEEEeccHHHHHHHHHHHHHHHhCCc
Q 001046 525 IYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTT---------RGKIGCTQPRRVAAMSVAKRVAEEFGCR 595 (1176)
Q Consensus 525 i~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~---------~~~Ilv~~PrR~lA~qva~rva~e~g~~ 595 (1176)
.+++|.++++.+.+|+++|+++|||||||+++.+++++..... ..+++|++||++||.|+++.+.. +...
T Consensus 110 ~~~iQ~~ai~~~~~G~dvi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~~aLil~PtreLa~Q~~~~~~~-l~~~ 188 (475)
T PRK01297 110 CTPIQAQVLGYTLAGHDAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEPRALIIAPTRELVVQIAKDAAA-LTKY 188 (475)
T ss_pred CCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHHhcCcccccccCCceEEEEeCcHHHHHHHHHHHHH-hhcc
Confidence 5788999999999999999999999999999999988764432 35799999999999999987654 3333
Q ss_pred cCCeeEEEeeccc-------ccCCCceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCCcCCCchhHHHHHHHHHHhh--
Q 001046 596 LGEEVGYAIRFED-------CTGPDTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKR-- 665 (1176)
Q Consensus 596 ~G~~vGy~ir~~~-------~~~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~-- 665 (1176)
.|..+...+...+ ......+|+++||++|+..+.... .+.++++|||||||. .....++ ..++.++..
T Consensus 189 ~~~~v~~~~gg~~~~~~~~~~~~~~~~Iiv~TP~~Ll~~~~~~~~~l~~l~~lViDEah~-l~~~~~~-~~l~~i~~~~~ 266 (475)
T PRK01297 189 TGLNVMTFVGGMDFDKQLKQLEARFCDILVATPGRLLDFNQRGEVHLDMVEVMVLDEADR-MLDMGFI-PQVRQIIRQTP 266 (475)
T ss_pred CCCEEEEEEccCChHHHHHHHhCCCCCEEEECHHHHHHHHHcCCcccccCceEEechHHH-HHhcccH-HHHHHHHHhCC
Confidence 3433332222111 123457899999999988776543 789999999999994 2222222 233444443
Q ss_pred -CCCccEEEEcCCCC--HHHHHhhhcCCCe-EecCCcee---eeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEe
Q 001046 666 -RPDLRLIVTSATLD--AEKFSGYFFNCNI-FTIPGRTF---PVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFL 738 (1176)
Q Consensus 666 -r~~~kvIlmSATl~--~~~~~~~f~~~~v-~~i~gr~~---pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl 738 (1176)
..+.++|++|||++ ...+...|...++ +.+..... .+..++......+ ....+..+.......++||||
T Consensus 267 ~~~~~q~i~~SAT~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~----k~~~l~~ll~~~~~~~~IVF~ 342 (475)
T PRK01297 267 RKEERQTLLFSATFTDDVMNLAKQWTTDPAIVEIEPENVASDTVEQHVYAVAGSD----KYKLLYNLVTQNPWERVMVFA 342 (475)
T ss_pred CCCCceEEEEEeecCHHHHHHHHHhccCCEEEEeccCcCCCCcccEEEEEecchh----HHHHHHHHHHhcCCCeEEEEe
Confidence 23579999999995 3455555544443 33322111 1222222111111 122233333344567899999
Q ss_pred CCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcc
Q 001046 739 TGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFA 818 (1176)
Q Consensus 739 ~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~ 818 (1176)
++++.++.+++.|.. .++.+..+||+++.++|..+++.|+.|.++|||||+++++|||||+|++||++|+
T Consensus 343 ~s~~~~~~l~~~L~~---------~~~~~~~~~g~~~~~~R~~~~~~Fr~G~~~vLvaT~~l~~GIDi~~v~~VI~~~~- 412 (475)
T PRK01297 343 NRKDEVRRIEERLVK---------DGINAAQLSGDVPQHKRIKTLEGFREGKIRVLVATDVAGRGIHIDGISHVINFTL- 412 (475)
T ss_pred CCHHHHHHHHHHHHH---------cCCCEEEEECCCCHHHHHHHHHHHhCCCCcEEEEccccccCCcccCCCEEEEeCC-
Confidence 999999999988864 2567889999999999999999999999999999999999999999999999999
Q ss_pred cceeccCCCCCccccccccCHHHHHHHhcccCCCC-CcEEEEecChHHH
Q 001046 819 KQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTESAY 866 (1176)
Q Consensus 819 k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~ 866 (1176)
|.|.++|+||+|||||.| .|.++.++++++.
T Consensus 413 -----------------P~s~~~y~Qr~GRaGR~g~~g~~i~~~~~~d~ 444 (475)
T PRK01297 413 -----------------PEDPDDYVHRIGRTGRAGASGVSISFAGEDDA 444 (475)
T ss_pred -----------------CCCHHHHHHhhCccCCCCCCceEEEEecHHHH
Confidence 999999999999999999 7999999998754
No 30
>PTZ00424 helicase 45; Provisional
Probab=100.00 E-value=9.9e-36 Score=353.71 Aligned_cols=311 Identities=16% Similarity=0.207 Sum_probs=228.5
Q ss_pred chHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhccc--CCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEE
Q 001046 525 IYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYT--TRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGY 602 (1176)
Q Consensus 525 i~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~--~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy 602 (1176)
.+++|.++++.+.++++++++||||||||+++.++++..... .+.++++++|+++||.|+.+.+.. ++...+..++.
T Consensus 51 ~~~~Q~~ai~~i~~~~d~ii~apTGsGKT~~~~l~~l~~~~~~~~~~~~lil~Pt~~L~~Q~~~~~~~-~~~~~~~~~~~ 129 (401)
T PTZ00424 51 PSAIQQRGIKPILDGYDTIGQAQSGTGKTATFVIAALQLIDYDLNACQALILAPTRELAQQIQKVVLA-LGDYLKVRCHA 129 (401)
T ss_pred CCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHhcCCCCCceEEEECCCHHHHHHHHHHHHH-HhhhcCceEEE
Confidence 457899999999999999999999999999998888775322 345899999999999999875543 33333333322
Q ss_pred Eeecc------cccCCCceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEc
Q 001046 603 AIRFE------DCTGPDTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTS 675 (1176)
Q Consensus 603 ~ir~~------~~~~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmS 675 (1176)
.+... .....+..|+++|++.|.+.+.... .+.++++|||||||. .....+...+...+....++.++|++|
T Consensus 130 ~~g~~~~~~~~~~~~~~~~Ivv~Tp~~l~~~l~~~~~~l~~i~lvViDEah~-~~~~~~~~~~~~i~~~~~~~~~~i~~S 208 (401)
T PTZ00424 130 CVGGTVVRDDINKLKAGVHMVVGTPGRVYDMIDKRHLRVDDLKLFILDEADE-MLSRGFKGQIYDVFKKLPPDVQVALFS 208 (401)
T ss_pred EECCcCHHHHHHHHcCCCCEEEECcHHHHHHHHhCCcccccccEEEEecHHH-HHhcchHHHHHHHHhhCCCCcEEEEEE
Confidence 22111 1122456899999999999887665 689999999999994 222222222222223345789999999
Q ss_pred CCCCH--HHHHhhhcCCCe-EecCCce---eeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHH
Q 001046 676 ATLDA--EKFSGYFFNCNI-FTIPGRT---FPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQ 749 (1176)
Q Consensus 676 ATl~~--~~~~~~f~~~~v-~~i~gr~---~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~ 749 (1176)
||++. ..+...+...+. +.+.... ..+..+|.......+. ...+..+........+||||++++.++.+++
T Consensus 209 AT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~ivF~~t~~~~~~l~~ 285 (401)
T PTZ00424 209 ATMPNEILELTTKFMRDPKRILVKKDELTLEGIRQFYVAVEKEEWK---FDTLCDLYETLTITQAIIYCNTRRKVDYLTK 285 (401)
T ss_pred ecCCHHHHHHHHHHcCCCEEEEeCCCCcccCCceEEEEecChHHHH---HHHHHHHHHhcCCCeEEEEecCcHHHHHHHH
Confidence 99964 334444443332 2222211 1123333332222222 2233333344456789999999999999998
Q ss_pred HHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCC
Q 001046 750 SLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGL 829 (1176)
Q Consensus 750 ~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~ 829 (1176)
.|.+. ++.+..+||+|+.++|..+++.|+.|.++|||||+++++|||+|++++||++|+
T Consensus 286 ~l~~~---------~~~~~~~h~~~~~~~R~~i~~~f~~g~~~vLvaT~~l~~GiDip~v~~VI~~~~------------ 344 (401)
T PTZ00424 286 KMHER---------DFTVSCMHGDMDQKDRDLIMREFRSGSTRVLITTDLLARGIDVQQVSLVINYDL------------ 344 (401)
T ss_pred HHHHC---------CCcEEEEeCCCCHHHHHHHHHHHHcCCCCEEEEcccccCCcCcccCCEEEEECC------------
Confidence 88652 567899999999999999999999999999999999999999999999999998
Q ss_pred ccccccccCHHHHHHHhcccCCCC-CcEEEEecChHHHh
Q 001046 830 DSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTESAYR 867 (1176)
Q Consensus 830 ~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~~ 867 (1176)
|.|..+|+||+|||||.| .|.||.|+++.+..
T Consensus 345 ------p~s~~~y~qr~GRagR~g~~G~~i~l~~~~~~~ 377 (401)
T PTZ00424 345 ------PASPENYIHRIGRSGRFGRKGVAINFVTPDDIE 377 (401)
T ss_pred ------CCCHHHEeecccccccCCCCceEEEEEcHHHHH
Confidence 999999999999999999 89999999988754
No 31
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=100.00 E-value=6.9e-35 Score=362.52 Aligned_cols=327 Identities=14% Similarity=0.121 Sum_probs=227.0
Q ss_pred cccccccChHHHHHHHhcCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHH
Q 001046 505 ALTFGQRSKLSIQEQRQSLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSV 584 (1176)
Q Consensus 505 ~~~~~~~~~~~l~~~r~~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qv 584 (1176)
.++|.......+......--+++.|.++|++++.|+++++++|||+|||.++.++++.. .+.++|+.|+++|+.++
T Consensus 441 ~fpw~~~L~~~lk~~FG~~sFRp~Q~eaI~aiL~GrDVLVimPTGSGKSLcYQLPAL~~----~GiTLVISPLiSLmqDQ 516 (1195)
T PLN03137 441 NFPWTKKLEVNNKKVFGNHSFRPNQREIINATMSGYDVFVLMPTGGGKSLTYQLPALIC----PGITLVISPLVSLIQDQ 516 (1195)
T ss_pred CCCchHHHHHHHHHHcCCCCCCHHHHHHHHHHHcCCCEEEEcCCCccHHHHHHHHHHHc----CCcEEEEeCHHHHHHHH
Confidence 35554433333444444446788999999999999999999999999999988888754 46899999999999866
Q ss_pred HHHHHHHhCCccCCeeEEEeecc------cc--cCCCceEEEeChHHHHH------HHhhCCCCCCCceEEEcCCCcCCC
Q 001046 585 AKRVAEEFGCRLGEEVGYAIRFE------DC--TGPDTVIKYMTDGMLLR------EILIDDNLSQYSVIMLDEAHERTI 650 (1176)
Q Consensus 585 a~rva~e~g~~~G~~vGy~ir~~------~~--~~~~t~I~~~T~g~Llr------~l~~~~~L~~~s~IIiDEaHeR~~ 650 (1176)
...+.. .|.......|..-..+ .. .....+|+|+||++|.. .+..-.....+++|||||||+-.-
T Consensus 517 V~~L~~-~GI~Aa~L~s~~s~~eq~~ilr~l~s~~g~~~ILyvTPERL~~~d~ll~~L~~L~~~~~LslIVIDEAHcVSq 595 (1195)
T PLN03137 517 IMNLLQ-ANIPAASLSAGMEWAEQLEILQELSSEYSKYKLLYVTPEKVAKSDSLLRHLENLNSRGLLARFVIDEAHCVSQ 595 (1195)
T ss_pred HHHHHh-CCCeEEEEECCCCHHHHHHHHHHHHhcCCCCCEEEEChHHhhcchHHHHHHHhhhhccccceeccCcchhhhh
Confidence 555432 2332211111100000 01 11467999999998752 222112345589999999996322
Q ss_pred c-hhHHH--HHHHHHHhhCCCccEEEEcCCCCHH---HHHhhhcC-CCeEecCCceeeeEEEEecCCCchhHHHHHHHHH
Q 001046 651 H-TDVLF--GLLKQLVKRRPDLRLIVTSATLDAE---KFSGYFFN-CNIFTIPGRTFPVEILYTKQPESDYLDASLITVL 723 (1176)
Q Consensus 651 ~-~d~ll--~llk~~~~~r~~~kvIlmSATl~~~---~~~~~f~~-~~v~~i~gr~~pv~~~~~~~~~~~~~~~~l~~v~ 723 (1176)
. .||-. ..|..+....++.+++++|||++.. .+...+.. .+++...+...| .++|...+.... .+..+.
T Consensus 596 WGhDFRpdYr~L~~Lr~~fp~vPilALTATAT~~V~eDI~~~L~l~~~~vfr~Sf~Rp-NL~y~Vv~k~kk---~le~L~ 671 (1195)
T PLN03137 596 WGHDFRPDYQGLGILKQKFPNIPVLALTATATASVKEDVVQALGLVNCVVFRQSFNRP-NLWYSVVPKTKK---CLEDID 671 (1195)
T ss_pred cccchHHHHHHHHHHHHhCCCCCeEEEEecCCHHHHHHHHHHcCCCCcEEeecccCcc-ceEEEEeccchh---HHHHHH
Confidence 1 12221 2233444567889999999999743 44554432 222222222112 233332222211 111222
Q ss_pred HHH-hcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhh
Q 001046 724 QIH-LTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEA 802 (1176)
Q Consensus 724 ~i~-~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~ 802 (1176)
.+. .....+..||||.++.+++.++..|.. .++.+.++||+|++++|..+++.|..|..+|||||+++++
T Consensus 672 ~~I~~~~~~esgIIYC~SRke~E~LAe~L~~---------~Gika~~YHAGLs~eeR~~vqe~F~~Gei~VLVATdAFGM 742 (1195)
T PLN03137 672 KFIKENHFDECGIIYCLSRMDCEKVAERLQE---------FGHKAAFYHGSMDPAQRAFVQKQWSKDEINIICATVAFGM 742 (1195)
T ss_pred HHHHhcccCCCceeEeCchhHHHHHHHHHHH---------CCCCeeeeeCCCCHHHHHHHHHHHhcCCCcEEEEechhhc
Confidence 221 222356789999999999999998875 2677999999999999999999999999999999999999
Q ss_pred ccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC-CcEEEEecChHHHh
Q 001046 803 SLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTESAYR 867 (1176)
Q Consensus 803 GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~~ 867 (1176)
|||+|+|++||++++ |.|.++|+||+|||||.| +|.|+.||+..++.
T Consensus 743 GIDkPDVR~VIHydl------------------PkSiEsYyQriGRAGRDG~~g~cILlys~~D~~ 790 (1195)
T PLN03137 743 GINKPDVRFVIHHSL------------------PKSIEGYHQECGRAGRDGQRSSCVLYYSYSDYI 790 (1195)
T ss_pred CCCccCCcEEEEcCC------------------CCCHHHHHhhhcccCCCCCCceEEEEecHHHHH
Confidence 999999999999999 999999999999999999 89999999987764
No 32
>TIGR03817 DECH_helic helicase/secretion neighborhood putative DEAH-box helicase. A conserved gene neighborhood widely spread in the Actinobacteria contains this uncharacterized DEAH-box family helicase encoded convergently towards an operon of genes for protein homologous to type II secretion and pilus formation proteins. The context suggests that this helicase may play a role in conjugal transfer of DNA.
Probab=100.00 E-value=1.9e-34 Score=362.18 Aligned_cols=316 Identities=18% Similarity=0.190 Sum_probs=229.3
Q ss_pred CchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhccc-CCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEE
Q 001046 524 PIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYT-TRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGY 602 (1176)
Q Consensus 524 Pi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~-~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy 602 (1176)
..+++|.++++++.+|+++++++|||||||.++.+++++.... .+.+++++.|+|+||.|+...+... + ..+..++.
T Consensus 36 ~p~~~Q~~ai~~il~G~nvvv~apTGSGKTla~~LPiL~~l~~~~~~~aL~l~PtraLa~q~~~~l~~l-~-~~~i~v~~ 113 (742)
T TIGR03817 36 RPWQHQARAAELAHAGRHVVVATGTASGKSLAYQLPVLSALADDPRATALYLAPTKALAADQLRAVREL-T-LRGVRPAT 113 (742)
T ss_pred cCCHHHHHHHHHHHCCCCEEEECCCCCcHHHHHHHHHHHHHhhCCCcEEEEEcChHHHHHHHHHHHHHh-c-cCCeEEEE
Confidence 4778999999999999999999999999999999999886543 3458999999999999999987654 3 22323321
Q ss_pred Eeeccc------ccCCCceEEEeChHHHHHHHhhC-----CCCCCCceEEEcCCCc-CCCch---hHHHHHHHHHHhh-C
Q 001046 603 AIRFED------CTGPDTVIKYMTDGMLLREILID-----DNLSQYSVIMLDEAHE-RTIHT---DVLFGLLKQLVKR-R 666 (1176)
Q Consensus 603 ~ir~~~------~~~~~t~I~~~T~g~Llr~l~~~-----~~L~~~s~IIiDEaHe-R~~~~---d~ll~llk~~~~~-r 666 (1176)
..++. ....+.+|+++||++|...++.. ..++++++|||||||. ++... ..++..++.+... .
T Consensus 114 -~~Gdt~~~~r~~i~~~~~IivtTPd~L~~~~L~~~~~~~~~l~~l~~vViDEah~~~g~fg~~~~~il~rL~ri~~~~g 192 (742)
T TIGR03817 114 -YDGDTPTEERRWAREHARYVLTNPDMLHRGILPSHARWARFLRRLRYVVIDECHSYRGVFGSHVALVLRRLRRLCARYG 192 (742)
T ss_pred -EeCCCCHHHHHHHhcCCCEEEEChHHHHHhhccchhHHHHHHhcCCEEEEeChhhccCccHHHHHHHHHHHHHHHHhcC
Confidence 11111 12245789999999997655432 1488999999999996 22222 2233334444332 3
Q ss_pred CCccEEEEcCCC-CHHHHHhhhcCCCeEecCCceee---eEEEEecCCC------------chhHHHHHHHHHHHHhcCC
Q 001046 667 PDLRLIVTSATL-DAEKFSGYFFNCNIFTIPGRTFP---VEILYTKQPE------------SDYLDASLITVLQIHLTEP 730 (1176)
Q Consensus 667 ~~~kvIlmSATl-~~~~~~~~f~~~~v~~i~gr~~p---v~~~~~~~~~------------~~~~~~~l~~v~~i~~~~~ 730 (1176)
.+.|+|++|||+ ++..+..++.+.++..+.....| ..+.+...+. ..........+..+. ..
T Consensus 193 ~~~q~i~~SATi~n~~~~~~~l~g~~~~~i~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~r~~~~~~~~~~l~~l~--~~ 270 (742)
T TIGR03817 193 ASPVFVLASATTADPAAAASRLIGAPVVAVTEDGSPRGARTVALWEPPLTELTGENGAPVRRSASAEAADLLADLV--AE 270 (742)
T ss_pred CCCEEEEEecCCCCHHHHHHHHcCCCeEEECCCCCCcCceEEEEecCCccccccccccccccchHHHHHHHHHHHH--HC
Confidence 568999999999 46667777766665544332211 2222211110 001111222222222 23
Q ss_pred CCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCee
Q 001046 731 EGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIF 810 (1176)
Q Consensus 731 ~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~ 810 (1176)
..++||||++++.++.++..|.+.+...... ....+..+||++++++|.++++.|++|+.+||||||++|+||||++|+
T Consensus 271 ~~~~IVF~~sr~~ae~l~~~l~~~l~~~~~~-l~~~v~~~hgg~~~~eR~~ie~~f~~G~i~vLVaTd~lerGIDI~~vd 349 (742)
T TIGR03817 271 GARTLTFVRSRRGAELVAAIARRLLGEVDPD-LAERVAAYRAGYLPEDRRELERALRDGELLGVATTNALELGVDISGLD 349 (742)
T ss_pred CCCEEEEcCCHHHHHHHHHHHHHHHHhhccc-cccchhheecCCCHHHHHHHHHHHHcCCceEEEECchHhccCCccccc
Confidence 6799999999999999999988765432211 135678999999999999999999999999999999999999999999
Q ss_pred EEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC-CcEEEEecCh
Q 001046 811 YVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTE 863 (1176)
Q Consensus 811 ~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~ 863 (1176)
+||++|+ |.+.++|+||+|||||.| .|.++.+.+.
T Consensus 350 ~VI~~~~------------------P~s~~~y~qRiGRaGR~G~~g~ai~v~~~ 385 (742)
T TIGR03817 350 AVVIAGF------------------PGTRASLWQQAGRAGRRGQGALVVLVARD 385 (742)
T ss_pred EEEEeCC------------------CCCHHHHHHhccccCCCCCCcEEEEEeCC
Confidence 9999999 999999999999999999 6999988863
No 33
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=7.1e-36 Score=334.49 Aligned_cols=307 Identities=20% Similarity=0.261 Sum_probs=230.9
Q ss_pred HHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCC-----EEEEeccHHHHHHHHHHHHHHHhCCccCCeeE
Q 001046 527 KLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRG-----KIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVG 601 (1176)
Q Consensus 527 ~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~-----~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vG 601 (1176)
++|...|+..+-|++++.||.||||||.+|.+++++..+.... +|+|++|||+||+|++. |.+.+...+...||
T Consensus 206 pIQ~a~IPvallgkDIca~A~TGsGKTAAF~lPiLERLlYrPk~~~~TRVLVL~PTRELaiQv~s-V~~qlaqFt~I~~~ 284 (691)
T KOG0338|consen 206 PIQVATIPVALLGKDICACAATGSGKTAAFALPILERLLYRPKKVAATRVLVLVPTRELAIQVHS-VTKQLAQFTDITVG 284 (691)
T ss_pred chhhhcccHHhhcchhhheecccCCchhhhHHHHHHHHhcCcccCcceeEEEEeccHHHHHHHHH-HHHHHHhhccceee
Confidence 3488888889999999999999999999999999997655432 79999999999999875 33333222334445
Q ss_pred EEeeccc------ccCCCceEEEeChHHHHHHHhhCC--CCCCCceEEEcCCCcCCCchhHHHHHHHHHHh-hCCCccEE
Q 001046 602 YAIRFED------CTGPDTVIKYMTDGMLLREILIDD--NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVK-RRPDLRLI 672 (1176)
Q Consensus 602 y~ir~~~------~~~~~t~I~~~T~g~Llr~l~~~~--~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~-~r~~~kvI 672 (1176)
.++.+-+ ......+|+++|||+|+++|.+.| .|.++.++|+|||+ |++...|.- .++.++. ...+.|.+
T Consensus 285 L~vGGL~lk~QE~~LRs~PDIVIATPGRlIDHlrNs~sf~ldsiEVLvlDEAD-RMLeegFad-emnEii~lcpk~RQTm 362 (691)
T KOG0338|consen 285 LAVGGLDLKAQEAVLRSRPDIVIATPGRLIDHLRNSPSFNLDSIEVLVLDEAD-RMLEEGFAD-EMNEIIRLCPKNRQTM 362 (691)
T ss_pred eeecCccHHHHHHHHhhCCCEEEecchhHHHHhccCCCccccceeEEEechHH-HHHHHHHHH-HHHHHHHhccccccce
Confidence 4444432 234678999999999999999887 68999999999999 888776543 3445544 44578999
Q ss_pred EEcCCCC--HHHHHhhhcCCCe--EecCCceee--eEEEEec-CCCchhH-HHHHHHHHHHHhcCCCCCEEEEeCCHHHH
Q 001046 673 VTSATLD--AEKFSGYFFNCNI--FTIPGRTFP--VEILYTK-QPESDYL-DASLITVLQIHLTEPEGDILLFLTGQEEI 744 (1176)
Q Consensus 673 lmSATl~--~~~~~~~f~~~~v--~~i~gr~~p--v~~~~~~-~~~~~~~-~~~l~~v~~i~~~~~~g~iLVFl~~~~ei 744 (1176)
+|||||. +..++..-.+.|+ +.-+....+ +...|.. .+..+.. .+.+..++. ..-...++||+.+++.+
T Consensus 363 LFSATMteeVkdL~slSL~kPvrifvd~~~~~a~~LtQEFiRIR~~re~dRea~l~~l~~---rtf~~~~ivFv~tKk~A 439 (691)
T KOG0338|consen 363 LFSATMTEEVKDLASLSLNKPVRIFVDPNKDTAPKLTQEFIRIRPKREGDREAMLASLIT---RTFQDRTIVFVRTKKQA 439 (691)
T ss_pred eehhhhHHHHHHHHHhhcCCCeEEEeCCccccchhhhHHHheeccccccccHHHHHHHHH---HhcccceEEEEehHHHH
Confidence 9999995 6677777666654 222221111 1111111 1111111 122222221 12256899999999998
Q ss_pred HHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceecc
Q 001046 745 DFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYN 824 (1176)
Q Consensus 745 ~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd 824 (1176)
..+--+| - +.++.+.-+||+|++++|...++.|+.+.+.|||||++|++||||++|..||||.+
T Consensus 440 HRl~Ill-G--------Llgl~agElHGsLtQ~QRlesL~kFk~~eidvLiaTDvAsRGLDI~gV~tVINy~m------- 503 (691)
T KOG0338|consen 440 HRLRILL-G--------LLGLKAGELHGSLTQEQRLESLEKFKKEEIDVLIATDVASRGLDIEGVQTVINYAM------- 503 (691)
T ss_pred HHHHHHH-H--------HhhchhhhhcccccHHHHHHHHHHHHhccCCEEEEechhhccCCccceeEEEeccC-------
Confidence 8764443 2 23677888999999999999999999999999999999999999999999999999
Q ss_pred CCCCCccccccccCHHHHHHHhcccCCCC-CcEEEEecChHHH
Q 001046 825 PKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTESAY 866 (1176)
Q Consensus 825 ~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~ 866 (1176)
|.+...|+||+||+.|+| .|.++.|..+.+-
T Consensus 504 -----------P~t~e~Y~HRVGRTARAGRaGrsVtlvgE~dR 535 (691)
T KOG0338|consen 504 -----------PKTIEHYLHRVGRTARAGRAGRSVTLVGESDR 535 (691)
T ss_pred -----------chhHHHHHHHhhhhhhcccCcceEEEeccccH
Confidence 999999999999999999 7999999998854
No 34
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=5.7e-35 Score=325.80 Aligned_cols=326 Identities=21% Similarity=0.241 Sum_probs=244.1
Q ss_pred HHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccC-----CC--EEEEeccHHHHHHHHHHHHHHHhCCc----
Q 001046 527 KLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTT-----RG--KIGCTQPRRVAAMSVAKRVAEEFGCR---- 595 (1176)
Q Consensus 527 ~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~-----~~--~Ilv~~PrR~lA~qva~rva~e~g~~---- 595 (1176)
+.|...|+.++.+++|++.++||||||.++..++++..+.. .+ ..+++.|||+||.|+.. |+..+-..
T Consensus 31 pVQa~tIPlll~~KDVvveavTGSGKTlAFllP~le~i~rr~~~~~~~~vgalIIsPTRELa~QI~~-V~~~F~~~l~~l 109 (567)
T KOG0345|consen 31 PVQAATIPLLLKNKDVVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGALIISPTRELARQIRE-VAQPFLEHLPNL 109 (567)
T ss_pred HHHHhhhHHHhcCCceEEEcCCCCCchhhHHHHHHHHHHhhccCCCccceeEEEecCcHHHHHHHHH-HHHHHHHhhhcc
Confidence 55999999999999999999999999999999999865332 23 46899999999999987 44444332
Q ss_pred -cCCeeEEEeeccc---ccCCCceEEEeChHHHHHHHhhCC---CCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCC
Q 001046 596 -LGEEVGYAIRFED---CTGPDTVIKYMTDGMLLREILIDD---NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPD 668 (1176)
Q Consensus 596 -~G~~vGy~ir~~~---~~~~~t~I~~~T~g~Llr~l~~~~---~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~ 668 (1176)
.-..||...-.++ ....+..|+++|||+|++.+.... .+..++++|||||+ |-+++.|.-.+-..+......
T Consensus 110 ~~~l~vGG~~v~~Di~~fkee~~nIlVgTPGRL~di~~~~~~~l~~rsLe~LVLDEAD-rLldmgFe~~~n~ILs~LPKQ 188 (567)
T KOG0345|consen 110 NCELLVGGRSVEEDIKTFKEEGPNILVGTPGRLLDILQREAEKLSFRSLEILVLDEAD-RLLDMGFEASVNTILSFLPKQ 188 (567)
T ss_pred ceEEEecCccHHHHHHHHHHhCCcEEEeCchhHHHHHhchhhhccccccceEEecchH-hHhcccHHHHHHHHHHhcccc
Confidence 2222332111111 123578899999999999998743 35599999999999 778777765554444444456
Q ss_pred ccEEEEcCCCC--HHHHHhhhcCCCe-EecCCce---ee--eEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCC
Q 001046 669 LRLIVTSATLD--AEKFSGYFFNCNI-FTIPGRT---FP--VEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTG 740 (1176)
Q Consensus 669 ~kvIlmSATl~--~~~~~~~f~~~~v-~~i~gr~---~p--v~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~ 740 (1176)
.+.=++|||.+ .+.+.......|+ +.+.... .| +..+|..... +..+..++.+......+.+|||++|
T Consensus 189 RRTGLFSATq~~~v~dL~raGLRNpv~V~V~~k~~~~tPS~L~~~Y~v~~a----~eK~~~lv~~L~~~~~kK~iVFF~T 264 (567)
T KOG0345|consen 189 RRTGLFSATQTQEVEDLARAGLRNPVRVSVKEKSKSATPSSLALEYLVCEA----DEKLSQLVHLLNNNKDKKCIVFFPT 264 (567)
T ss_pred cccccccchhhHHHHHHHHhhccCceeeeecccccccCchhhcceeeEecH----HHHHHHHHHHHhccccccEEEEecC
Confidence 68889999995 5566666655444 3333322 34 5556655432 2344455555566677899999999
Q ss_pred HHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccc
Q 001046 741 QEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQ 820 (1176)
Q Consensus 741 ~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~ 820 (1176)
...++.....|...+ ....++++||.|.+..|.++++.|......|++||+||++|||||+|++||+++.
T Consensus 265 CasVeYf~~~~~~~l-------~~~~i~~iHGK~~q~~R~k~~~~F~~~~~~vl~~TDVaARGlDip~iD~VvQ~Dp--- 334 (567)
T KOG0345|consen 265 CASVEYFGKLFSRLL-------KKREIFSIHGKMSQKARAKVLEAFRKLSNGVLFCTDVAARGLDIPGIDLVVQFDP--- 334 (567)
T ss_pred cchHHHHHHHHHHHh-------CCCcEEEecchhcchhHHHHHHHHHhccCceEEeehhhhccCCCCCceEEEecCC---
Confidence 999999888887642 4678999999999999999999999988999999999999999999999999888
Q ss_pred eeccCCCCCccccccccCHHHHHHHhcccCCCC-CcEEEEecC--hHHHhhhCCCCCchhhhhcCh
Q 001046 821 NVYNPKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYT--ESAYRNEMSPTSIPEIQRINL 883 (1176)
Q Consensus 821 ~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t--~~~~~~~l~~~~~pEI~r~~L 883 (1176)
|...++++||+||+||.| .|.++.|.. +++|.+-|.-...|++-+...
T Consensus 335 ---------------P~~~~~FvHR~GRTaR~gr~G~Aivfl~p~E~aYveFl~i~~~v~le~~~~ 385 (567)
T KOG0345|consen 335 ---------------PKDPSSFVHRCGRTARAGREGNAIVFLNPREEAYVEFLRIKGKVELERIDT 385 (567)
T ss_pred ---------------CCChhHHHhhcchhhhccCccceEEEecccHHHHHHHHHhcCccchhhhcc
Confidence 999999999999999999 677665554 556766555566677666443
No 35
>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=100.00 E-value=2.4e-34 Score=347.38 Aligned_cols=306 Identities=18% Similarity=0.161 Sum_probs=218.8
Q ss_pred chHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEe
Q 001046 525 IYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAI 604 (1176)
Q Consensus 525 i~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~i 604 (1176)
.+++|.++++++.+++++++++|||||||+++.++++.. ++.++|+.|+++|+.++..++. .+|.......|...
T Consensus 12 ~r~~Q~~ai~~~l~g~dvlv~apTGsGKTl~y~lp~l~~----~~~~lVi~P~~~L~~dq~~~l~-~~gi~~~~l~~~~~ 86 (470)
T TIGR00614 12 FRPVQLEVINAVLLGRDCFVVMPTGGGKSLCYQLPALCS----DGITLVISPLISLMEDQVLQLK-ASGIPATFLNSSQS 86 (470)
T ss_pred CCHHHHHHHHHHHcCCCEEEEcCCCCcHhHHHHHHHHHc----CCcEEEEecHHHHHHHHHHHHH-HcCCcEEEEeCCCC
Confidence 467899999999999999999999999999887776653 4678999999999999988774 34443221111100
Q ss_pred ec------ccccCCCceEEEeChHHHHHHH--hhCC-CCCCCceEEEcCCCcCCCch-hH--HHHHHHHHHhhCCCccEE
Q 001046 605 RF------EDCTGPDTVIKYMTDGMLLREI--LIDD-NLSQYSVIMLDEAHERTIHT-DV--LFGLLKQLVKRRPDLRLI 672 (1176)
Q Consensus 605 r~------~~~~~~~t~I~~~T~g~Llr~l--~~~~-~L~~~s~IIiDEaHeR~~~~-d~--ll~llk~~~~~r~~~kvI 672 (1176)
.. ........+|+|+||+.+.... .... .+.++++|||||||.-.-.. ++ .+..+..+....|+.+++
T Consensus 87 ~~~~~~i~~~~~~~~~~il~~TPe~l~~~~~~~~~l~~~~~i~~iViDEaH~i~~~g~~fr~~~~~l~~l~~~~~~~~~l 166 (470)
T TIGR00614 87 KEQQKNVLTDLKDGKIKLLYVTPEKCSASNRLLQTLEERKGITLIAVDEAHCISQWGHDFRPDYKALGSLKQKFPNVPIM 166 (470)
T ss_pred HHHHHHHHHHHhcCCCCEEEECHHHHcCchhHHHHHHhcCCcCEEEEeCCcccCccccccHHHHHHHHHHHHHcCCCceE
Confidence 00 0112345789999999875321 1111 46889999999999533211 12 223344455567899999
Q ss_pred EEcCCCCHH---HHHhhhc-CCCeEecCCceeeeEEEEecCCC-chhHHHHHHHHHHHHh-cCCCCCEEEEeCCHHHHHH
Q 001046 673 VTSATLDAE---KFSGYFF-NCNIFTIPGRTFPVEILYTKQPE-SDYLDASLITVLQIHL-TEPEGDILLFLTGQEEIDF 746 (1176)
Q Consensus 673 lmSATl~~~---~~~~~f~-~~~v~~i~gr~~pv~~~~~~~~~-~~~~~~~l~~v~~i~~-~~~~g~iLVFl~~~~ei~~ 746 (1176)
++|||++.. .+...+. ..+.+.......|. ++|..... .+.+. .++.... ..++..+||||+++++++.
T Consensus 167 ~lTAT~~~~~~~di~~~l~l~~~~~~~~s~~r~n-l~~~v~~~~~~~~~----~l~~~l~~~~~~~~~IIF~~s~~~~e~ 241 (470)
T TIGR00614 167 ALTATASPSVREDILRQLNLKNPQIFCTSFDRPN-LYYEVRRKTPKILE----DLLRFIRKEFKGKSGIIYCPSRKKSEQ 241 (470)
T ss_pred EEecCCCHHHHHHHHHHcCCCCCcEEeCCCCCCC-cEEEEEeCCccHHH----HHHHHHHHhcCCCceEEEECcHHHHHH
Confidence 999999754 3444432 23333222211121 12211111 12222 2222222 2334566999999999999
Q ss_pred HHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCC
Q 001046 747 ACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPK 826 (1176)
Q Consensus 747 l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~ 826 (1176)
++..|... ++.+.++||+|++++|..+++.|..|..+|||||+++++|||+|+|++||++++
T Consensus 242 la~~L~~~---------g~~~~~~H~~l~~~eR~~i~~~F~~g~~~vLVaT~~~~~GID~p~V~~VI~~~~--------- 303 (470)
T TIGR00614 242 VTASLQNL---------GIAAGAYHAGLEISARDDVHHKFQRDEIQVVVATVAFGMGINKPDVRFVIHYSL--------- 303 (470)
T ss_pred HHHHHHhc---------CCCeeEeeCCCCHHHHHHHHHHHHcCCCcEEEEechhhccCCcccceEEEEeCC---------
Confidence 99998752 577899999999999999999999999999999999999999999999999999
Q ss_pred CCCccccccccCHHHHHHHhcccCCCC-CcEEEEecChHHHh
Q 001046 827 QGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTESAYR 867 (1176)
Q Consensus 827 ~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~~ 867 (1176)
|.|.++|+||+|||||.| +|.|+.+|+..+..
T Consensus 304 ---------P~s~~~y~Qr~GRaGR~G~~~~~~~~~~~~d~~ 336 (470)
T TIGR00614 304 ---------PKSMESYYQESGRAGRDGLPSECHLFYAPADIN 336 (470)
T ss_pred ---------CCCHHHHHhhhcCcCCCCCCceEEEEechhHHH
Confidence 999999999999999999 89999999988764
No 36
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=100.00 E-value=8.2e-35 Score=327.12 Aligned_cols=309 Identities=19% Similarity=0.205 Sum_probs=234.6
Q ss_pred HHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccC------CCEEEEeccHHHHHHHHHHHHHHHhCCccCCee
Q 001046 527 KLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTT------RGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEV 600 (1176)
Q Consensus 527 ~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~------~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~v 600 (1176)
++|+..|.-++.|+++++.|.||||||.++.++..+..+.. +-.++++.|||+||+|++....+.+...-+..|
T Consensus 107 ~VQ~~ti~pll~gkDvl~~AKTGtGKTlAFLiPaie~l~k~~~~~r~~~~vlIi~PTRELA~Q~~~eak~Ll~~h~~~~v 186 (543)
T KOG0342|consen 107 PVQQKTIPPLLEGKDVLAAAKTGTGKTLAFLLPAIELLRKLKFKPRNGTGVLIICPTRELAMQIFAEAKELLKYHESITV 186 (543)
T ss_pred HHHHhhcCccCCCccceeeeccCCCceeeehhHHHHHHHhcccCCCCCeeEEEecccHHHHHHHHHHHHHHHhhCCCcce
Confidence 44666666689999999999999999999999988864432 226899999999999999866555544447778
Q ss_pred EEEeecccc------cCCCceEEEeChHHHHHHHhhCC--CCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEE
Q 001046 601 GYAIRFEDC------TGPDTVIKYMTDGMLLREILIDD--NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLI 672 (1176)
Q Consensus 601 Gy~ir~~~~------~~~~t~I~~~T~g~Llr~l~~~~--~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvI 672 (1176)
|+.+.+... ......|+++|||+|++++.+.+ ...+..++|||||+ |-++..|--.+.+.+-......|.+
T Consensus 187 ~~viGG~~~~~e~~kl~k~~niliATPGRLlDHlqNt~~f~~r~~k~lvlDEAD-rlLd~GF~~di~~Ii~~lpk~rqt~ 265 (543)
T KOG0342|consen 187 GIVIGGNNFSVEADKLVKGCNILIATPGRLLDHLQNTSGFLFRNLKCLVLDEAD-RLLDIGFEEDVEQIIKILPKQRQTL 265 (543)
T ss_pred EEEeCCccchHHHHHhhccccEEEeCCchHHhHhhcCCcchhhccceeEeecch-hhhhcccHHHHHHHHHhccccceee
Confidence 877766543 22478999999999999999876 46777899999999 7777666555555544455678999
Q ss_pred EEcCCCC--HHHHHhhhcCC-CeE-ec-CCce----eeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHH
Q 001046 673 VTSATLD--AEKFSGYFFNC-NIF-TI-PGRT----FPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEE 743 (1176)
Q Consensus 673 lmSATl~--~~~~~~~f~~~-~v~-~i-~gr~----~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~e 743 (1176)
++|||.+ ++.++...... |++ .+ .+.. --++.-|...+....+.. +...+.-+ .....|+|||+|...
T Consensus 266 LFSAT~~~kV~~l~~~~L~~d~~~v~~~d~~~~~The~l~Qgyvv~~~~~~f~l-l~~~LKk~--~~~~KiiVF~sT~~~ 342 (543)
T KOG0342|consen 266 LFSATQPSKVKDLARGALKRDPVFVNVDDGGERETHERLEQGYVVAPSDSRFSL-LYTFLKKN--IKRYKIIVFFSTCMS 342 (543)
T ss_pred EeeCCCcHHHHHHHHHhhcCCceEeecCCCCCcchhhcccceEEeccccchHHH-HHHHHHHh--cCCceEEEEechhhH
Confidence 9999996 45666554433 332 11 1111 112333433333222221 12222222 222799999999999
Q ss_pred HHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceec
Q 001046 744 IDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVY 823 (1176)
Q Consensus 744 i~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~y 823 (1176)
+...|+.|.. -++.|+.+||.+++..|..++..|...+.-|||||||+++|+|||+|+.||++|.
T Consensus 343 vk~~~~lL~~---------~dlpv~eiHgk~~Q~kRT~~~~~F~kaesgIL~cTDVaARGlD~P~V~~VvQ~~~------ 407 (543)
T KOG0342|consen 343 VKFHAELLNY---------IDLPVLEIHGKQKQNKRTSTFFEFCKAESGILVCTDVAARGLDIPDVDWVVQYDP------ 407 (543)
T ss_pred HHHHHHHHhh---------cCCchhhhhcCCcccccchHHHHHhhcccceEEecchhhccCCCCCceEEEEeCC------
Confidence 9999998874 3678999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCccccccccCHHHHHHHhcccCCCC-CcEEEEecChHHH
Q 001046 824 NPKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTESAY 866 (1176)
Q Consensus 824 d~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~ 866 (1176)
|-...+|+||+||+||.| .|..+.|..+.+.
T Consensus 408 ------------P~d~~~YIHRvGRTaR~gk~G~alL~l~p~El 439 (543)
T KOG0342|consen 408 ------------PSDPEQYIHRVGRTAREGKEGKALLLLAPWEL 439 (543)
T ss_pred ------------CCCHHHHHHHhccccccCCCceEEEEeChhHH
Confidence 999999999999999999 7999999887654
No 37
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=100.00 E-value=3.7e-35 Score=331.27 Aligned_cols=330 Identities=17% Similarity=0.231 Sum_probs=252.6
Q ss_pred ccccccChHHHHHHHhcCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccC------CCEEEEeccHHH
Q 001046 506 LTFGQRSKLSIQEQRQSLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTT------RGKIGCTQPRRV 579 (1176)
Q Consensus 506 ~~~~~~~~~~l~~~r~~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~------~~~Ilv~~PrR~ 579 (1176)
+|++.++...|.+... .-+..+|.+.|...++|++|+..|.||||||++|..++++..+.. +--++|+.|||+
T Consensus 74 lpls~~t~kgLke~~f-v~~teiQ~~~Ip~aL~G~DvlGAAkTGSGKTLAFlvPvlE~L~r~kWs~~DGlGalIISPTRE 152 (758)
T KOG0343|consen 74 LPLSQKTLKGLKEAKF-VKMTEIQRDTIPMALQGHDVLGAAKTGSGKTLAFLVPVLEALYRLKWSPTDGLGALIISPTRE 152 (758)
T ss_pred CCCchHHHHhHhhcCC-ccHHHHHHhhcchhccCcccccccccCCCceeeehHHHHHHHHHcCCCCCCCceeEEecchHH
Confidence 4555555555555433 334578888898899999999999999999999999999875432 236899999999
Q ss_pred HHHHHHHHHHH---HhCCccCCeeEE-EeecccccCCCceEEEeChHHHHHHHhhCCC--CCCCceEEEcCCCcCCCchh
Q 001046 580 AAMSVAKRVAE---EFGCRLGEEVGY-AIRFEDCTGPDTVIKYMTDGMLLREILIDDN--LSQYSVIMLDEAHERTIHTD 653 (1176)
Q Consensus 580 lA~qva~rva~---e~g~~~G~~vGy-~ir~~~~~~~~t~I~~~T~g~Llr~l~~~~~--L~~~s~IIiDEaHeR~~~~d 653 (1176)
||.|+..-+.+ ..+...|..+|. .+.++...-....|++||||+||++|...+. -.++.++|+|||+ |.+++.
T Consensus 153 LA~QtFevL~kvgk~h~fSaGLiiGG~~~k~E~eRi~~mNILVCTPGRLLQHmde~~~f~t~~lQmLvLDEAD-R~LDMG 231 (758)
T KOG0343|consen 153 LALQTFEVLNKVGKHHDFSAGLIIGGKDVKFELERISQMNILVCTPGRLLQHMDENPNFSTSNLQMLVLDEAD-RMLDMG 231 (758)
T ss_pred HHHHHHHHHHHHhhccccccceeecCchhHHHHHhhhcCCeEEechHHHHHHhhhcCCCCCCcceEEEeccHH-HHHHHh
Confidence 99999874432 333344444442 2333444446789999999999999998885 4678899999999 888887
Q ss_pred HHHHHHHHHHhhCCCccEEEEcCCC--CHHHHHhhhcCCCeE-ecC-----CceeeeEEEEecCCCchhHHHHHHHHHHH
Q 001046 654 VLFGLLKQLVKRRPDLRLIVTSATL--DAEKFSGYFFNCNIF-TIP-----GRTFPVEILYTKQPESDYLDASLITVLQI 725 (1176)
Q Consensus 654 ~ll~llk~~~~~r~~~kvIlmSATl--~~~~~~~~f~~~~v~-~i~-----gr~~pv~~~~~~~~~~~~~~~~l~~v~~i 725 (1176)
|--.+-..+-...+..|.+++|||. .+..+++.-...|.+ .+. +.+-.+..+|...+.. ..+..+...
T Consensus 232 Fk~tL~~Ii~~lP~~RQTLLFSATqt~svkdLaRLsL~dP~~vsvhe~a~~atP~~L~Q~y~~v~l~----~Ki~~L~sF 307 (758)
T KOG0343|consen 232 FKKTLNAIIENLPKKRQTLLFSATQTKSVKDLARLSLKDPVYVSVHENAVAATPSNLQQSYVIVPLE----DKIDMLWSF 307 (758)
T ss_pred HHHHHHHHHHhCChhheeeeeecccchhHHHHHHhhcCCCcEEEEeccccccChhhhhheEEEEehh----hHHHHHHHH
Confidence 6544433333455678999999999 477888876655543 222 1112233444443333 334444444
Q ss_pred HhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccC
Q 001046 726 HLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLT 805 (1176)
Q Consensus 726 ~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GId 805 (1176)
..+.....+|||+.+..++..+|+.+.+. .|++.++.|||.|.+..|..++..|-...--|++||+++++|+|
T Consensus 308 I~shlk~K~iVF~SscKqvkf~~e~F~rl-------rpg~~l~~L~G~~~Q~~R~ev~~~F~~~~~~vLF~TDv~aRGLD 380 (758)
T KOG0343|consen 308 IKSHLKKKSIVFLSSCKQVKFLYEAFCRL-------RPGIPLLALHGTMSQKKRIEVYKKFVRKRAVVLFCTDVAARGLD 380 (758)
T ss_pred HHhccccceEEEEehhhHHHHHHHHHHhc-------CCCCceeeeccchhHHHHHHHHHHHHHhcceEEEeehhhhccCC
Confidence 45566789999999999999999888763 27889999999999999999999999888999999999999999
Q ss_pred CCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC-CcEEEEecChHHH
Q 001046 806 IDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTESAY 866 (1176)
Q Consensus 806 Ip~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~ 866 (1176)
+|.|++||++++ |...++|+||+||+.|.. .|.|+.+.++.+.
T Consensus 381 FpaVdwViQ~DC------------------Pedv~tYIHRvGRtAR~~~~G~sll~L~psEe 424 (758)
T KOG0343|consen 381 FPAVDWVIQVDC------------------PEDVDTYIHRVGRTARYKERGESLLMLTPSEE 424 (758)
T ss_pred CcccceEEEecC------------------chhHHHHHHHhhhhhcccCCCceEEEEcchhH
Confidence 999999999999 999999999999999999 7999999887763
No 38
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=100.00 E-value=8.9e-34 Score=351.30 Aligned_cols=306 Identities=18% Similarity=0.209 Sum_probs=223.1
Q ss_pred chHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEe
Q 001046 525 IYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAI 604 (1176)
Q Consensus 525 i~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~i 604 (1176)
.+++|.++++++.+++++++++|||||||+++.++++.. .+.++|+.|+++|+.++...+.. .|.......+...
T Consensus 26 ~r~~Q~~ai~~il~g~dvlv~apTGsGKTl~y~lpal~~----~g~tlVisPl~sL~~dqv~~l~~-~gi~~~~~~s~~~ 100 (607)
T PRK11057 26 FRPGQQEIIDAVLSGRDCLVVMPTGGGKSLCYQIPALVL----DGLTLVVSPLISLMKDQVDQLLA-NGVAAACLNSTQT 100 (607)
T ss_pred CCHHHHHHHHHHHcCCCEEEEcCCCchHHHHHHHHHHHc----CCCEEEEecHHHHHHHHHHHHHH-cCCcEEEEcCCCC
Confidence 557899999999999999999999999999887776643 46789999999999999887643 3433211111000
Q ss_pred e------cccccCCCceEEEeChHHHHHHHh-hCCCCCCCceEEEcCCCcCCCch-hH--HHHHHHHHHhhCCCccEEEE
Q 001046 605 R------FEDCTGPDTVIKYMTDGMLLREIL-IDDNLSQYSVIMLDEAHERTIHT-DV--LFGLLKQLVKRRPDLRLIVT 674 (1176)
Q Consensus 605 r------~~~~~~~~t~I~~~T~g~Llr~l~-~~~~L~~~s~IIiDEaHeR~~~~-d~--ll~llk~~~~~r~~~kvIlm 674 (1176)
. +........+++|+||+.|+.... ......++++|||||||+..-.. ++ .+..+..+....|+.++++|
T Consensus 101 ~~~~~~~~~~~~~g~~~il~~tPe~l~~~~~~~~l~~~~l~~iVIDEaH~i~~~G~~fr~~y~~L~~l~~~~p~~~~v~l 180 (607)
T PRK11057 101 REQQLEVMAGCRTGQIKLLYIAPERLMMDNFLEHLAHWNPALLAVDEAHCISQWGHDFRPEYAALGQLRQRFPTLPFMAL 180 (607)
T ss_pred HHHHHHHHHHHhCCCCcEEEEChHHhcChHHHHHHhhCCCCEEEEeCccccccccCcccHHHHHHHHHHHhCCCCcEEEE
Confidence 0 111233457899999999874322 22234579999999999643221 12 22345555566789999999
Q ss_pred cCCCCHHH---HHhhh-cCCCeEecCCceeeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHH
Q 001046 675 SATLDAEK---FSGYF-FNCNIFTIPGRTFPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQS 750 (1176)
Q Consensus 675 SATl~~~~---~~~~f-~~~~v~~i~gr~~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~ 750 (1176)
|||++... +...+ ...|.+.+.....|. +.|........ +..++.......++++||||+++++++.++..
T Consensus 181 TAT~~~~~~~di~~~l~l~~~~~~~~~~~r~n-l~~~v~~~~~~----~~~l~~~l~~~~~~~~IIFc~tr~~~e~la~~ 255 (607)
T PRK11057 181 TATADDTTRQDIVRLLGLNDPLIQISSFDRPN-IRYTLVEKFKP----LDQLMRYVQEQRGKSGIIYCNSRAKVEDTAAR 255 (607)
T ss_pred ecCCChhHHHHHHHHhCCCCeEEEECCCCCCc-ceeeeeeccch----HHHHHHHHHhcCCCCEEEEECcHHHHHHHHHH
Confidence 99997542 33333 234444443322221 12221111111 12233333345678999999999999999999
Q ss_pred HHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCc
Q 001046 751 LYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLD 830 (1176)
Q Consensus 751 L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~ 830 (1176)
|.+ .++.+.++||+|++++|..+++.|..|..+|||||+++++|||+|+|++||++++
T Consensus 256 L~~---------~g~~v~~~Ha~l~~~~R~~i~~~F~~g~~~VLVaT~a~~~GIDip~V~~VI~~d~------------- 313 (607)
T PRK11057 256 LQS---------RGISAAAYHAGLDNDVRADVQEAFQRDDLQIVVATVAFGMGINKPNVRFVVHFDI------------- 313 (607)
T ss_pred HHh---------CCCCEEEecCCCCHHHHHHHHHHHHCCCCCEEEEechhhccCCCCCcCEEEEeCC-------------
Confidence 976 2577899999999999999999999999999999999999999999999999999
Q ss_pred cccccccCHHHHHHHhcccCCCC-CcEEEEecChHHHh
Q 001046 831 SLVITPISQASAKQRAGRAGRTG-PGKCYRLYTESAYR 867 (1176)
Q Consensus 831 ~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~~ 867 (1176)
|.|.++|+||+|||||.| +|.|+.||+..++.
T Consensus 314 -----P~s~~~y~Qr~GRaGR~G~~~~~ill~~~~d~~ 346 (607)
T PRK11057 314 -----PRNIESYYQETGRAGRDGLPAEAMLFYDPADMA 346 (607)
T ss_pred -----CCCHHHHHHHhhhccCCCCCceEEEEeCHHHHH
Confidence 999999999999999999 89999999988753
No 39
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=100.00 E-value=1.3e-33 Score=319.95 Aligned_cols=421 Identities=20% Similarity=0.199 Sum_probs=306.4
Q ss_pred HHHHhcCCchHHHHHHHHH-HHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCc
Q 001046 517 QEQRQSLPIYKLKKELIQA-VHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCR 595 (1176)
Q Consensus 517 ~~~r~~LPi~~~q~~ii~a-i~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~ 595 (1176)
.+++..--+.|.|.-++++ +.+|.+++|+.+|+||||...-+.=+...+..+++.++++|..+||+|....+.+.+ .+
T Consensus 209 lk~~G~~eLlPVQ~laVe~GLLeG~nllVVSaTasGKTLIgElAGi~~~l~~g~KmlfLvPLVALANQKy~dF~~rY-s~ 287 (830)
T COG1202 209 LKREGIEELLPVQVLAVEAGLLEGENLLVVSATASGKTLIGELAGIPRLLSGGKKMLFLVPLVALANQKYEDFKERY-SK 287 (830)
T ss_pred HHhcCcceecchhhhhhhhccccCCceEEEeccCCCcchHHHhhCcHHHHhCCCeEEEEehhHHhhcchHHHHHHHh-hc
Confidence 3444333333448888877 789999999999999999988877666667778899999999999999999887766 55
Q ss_pred cCCeeEEEeecc----------cccCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCC-----cCCCchhHHHHHHH
Q 001046 596 LGEEVGYAIRFE----------DCTGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAH-----ERTIHTDVLFGLLK 660 (1176)
Q Consensus 596 ~G~~vGy~ir~~----------~~~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaH-----eR~~~~d~ll~llk 660 (1176)
+|..|...|... ..++++.+|++.|.+-+-..|.....+.+++.|||||+| ||+...|-|.+.|+
T Consensus 288 LglkvairVG~srIk~~~~pv~~~t~~dADIIVGTYEGiD~lLRtg~~lgdiGtVVIDEiHtL~deERG~RLdGLI~RLr 367 (830)
T COG1202 288 LGLKVAIRVGMSRIKTREEPVVVDTSPDADIIVGTYEGIDYLLRTGKDLGDIGTVVIDEIHTLEDEERGPRLDGLIGRLR 367 (830)
T ss_pred ccceEEEEechhhhcccCCccccCCCCCCcEEEeechhHHHHHHcCCcccccceEEeeeeeeccchhcccchhhHHHHHH
Confidence 565554333221 234578999999987766666666789999999999999 68998887766666
Q ss_pred HHHhhCCCccEEEEcCCC-CHHHHHhhhcCCCeEecCCceeeeEEEEecCCCchhHHHHHHHH-----HHHHhcCCCCCE
Q 001046 661 QLVKRRPDLRLIVTSATL-DAEKFSGYFFNCNIFTIPGRTFPVEILYTKQPESDYLDASLITV-----LQIHLTEPEGDI 734 (1176)
Q Consensus 661 ~~~~~r~~~kvIlmSATl-~~~~~~~~f~~~~v~~i~gr~~pv~~~~~~~~~~~~~~~~l~~v-----~~i~~~~~~g~i 734 (1176)
. ..|+.|+|.+|||+ |++.++.++ ++..+....|+.|++-|........--...+..+ .......-.|++
T Consensus 368 ~---l~~~AQ~i~LSATVgNp~elA~~l-~a~lV~y~~RPVplErHlvf~~~e~eK~~ii~~L~k~E~~~~sskg~rGQt 443 (830)
T COG1202 368 Y---LFPGAQFIYLSATVGNPEELAKKL-GAKLVLYDERPVPLERHLVFARNESEKWDIIARLVKREFSTESSKGYRGQT 443 (830)
T ss_pred H---hCCCCeEEEEEeecCChHHHHHHh-CCeeEeecCCCCChhHeeeeecCchHHHHHHHHHHHHHHhhhhccCcCCce
Confidence 5 57799999999999 899999988 5777788899999886654432211111111111 122233346999
Q ss_pred EEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEe
Q 001046 735 LLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVID 814 (1176)
Q Consensus 735 LVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId 814 (1176)
|||.+++..|+.++..|..+ ++.+.|+|++|+..+|+.+...|..+.+.+||+|..++.|+|+|.-.+|..
T Consensus 444 IVFT~SRrr~h~lA~~L~~k---------G~~a~pYHaGL~y~eRk~vE~~F~~q~l~~VVTTAAL~AGVDFPASQVIFE 514 (830)
T COG1202 444 IVFTYSRRRCHELADALTGK---------GLKAAPYHAGLPYKERKSVERAFAAQELAAVVTTAALAAGVDFPASQVIFE 514 (830)
T ss_pred EEEecchhhHHHHHHHhhcC---------CcccccccCCCcHHHHHHHHHHHhcCCcceEeehhhhhcCCCCchHHHHHH
Confidence 99999999999999999753 788999999999999999999999999999999999999999996655543
Q ss_pred CCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC---CcEEEEecChHH-HhhhCCC----------CCchhhhh
Q 001046 815 PGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG---PGKCYRLYTESA-YRNEMSP----------TSIPEIQR 880 (1176)
Q Consensus 815 ~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g---~G~c~~L~t~~~-~~~~l~~----------~~~pEI~r 880 (1176)
+=. +...|.|...|.||.|||||.+ .|++|.|.-+.. |...|.. ...||-.-
T Consensus 515 sLa--------------MG~~WLs~~EF~QM~GRAGRp~yHdrGkVyllvepg~~Y~~~m~~TEdevA~kLL~s~~e~V~ 580 (830)
T COG1202 515 SLA--------------MGIEWLSVREFQQMLGRAGRPDYHDRGKVYLLVEPGKKYHASMEETEDEVAFKLLESEPEPVI 580 (830)
T ss_pred HHH--------------cccccCCHHHHHHHhcccCCCCcccCceEEEEecCChhhcccccccHHHHHHHHhcCCCCcce
Confidence 322 3455999999999999999999 799999976542 2222221 12222221
Q ss_pred cC------hHHHHHHHHHcCCC-------ccccCCCCCCCCHHHHHHHHHHHHHcCccccCC---cccHHHHHHhcCCCC
Q 001046 881 IN------LGFTTLTMKAMGIN-------DLLSFDFMDPPSPQALISAMEQLYSLGALDEEG---LLTKLGRKMAEFPLD 944 (1176)
Q Consensus 881 ~~------L~~~~L~lk~~gi~-------~~~~f~~~~pP~~~~l~~al~~L~~lgald~~g---~lT~lG~~~a~lpl~ 944 (1176)
.+ +++++. ..|+. .+.+..+- ..-....++..|...|+|+.+| ++|+.|+.++..-+.
T Consensus 581 vey~ee~e~e~vLA---~~~v~~s~~~i~~v~~~~~g---~~~~~~k~l~~Lee~g~i~~~G~~v~~T~yGrava~~Fl~ 654 (830)
T COG1202 581 VEYDEEDEEENVLA---SAGVTNSLSVIERVNSLMLG---AAFDPKKALSKLEEYGMIKKKGNIVRPTPYGRAVAMSFLG 654 (830)
T ss_pred eccCcHHHHHHHHH---HhhhcCcHHHHhhcChhhcc---ccCCHHHHHHHHHhcCCeeccCCEeeeccccceeEEeecC
Confidence 11 122222 22211 11111110 0122567899999999999887 599999999999999
Q ss_pred hHHHHHHHHhhhcCCHHHHHHHHHHhcCC
Q 001046 945 PPLSKMLLASVDLGCSDEILTIIAMIQTG 973 (1176)
Q Consensus 945 p~l~k~ll~~~~~~c~~~~l~i~a~ls~~ 973 (1176)
|.-|-.|..++ .. ....+.|++.|.--
T Consensus 655 p~~a~~Ir~~v-~~-~~~pl~i~~~l~pf 681 (830)
T COG1202 655 PSEAEFIREGV-LA-SMDPLRIAAELEPF 681 (830)
T ss_pred chHHHHHHHhh-hc-cCChHhHhhccccc
Confidence 99999998886 22 33456677776543
No 40
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=7.5e-34 Score=307.33 Aligned_cols=307 Identities=20% Similarity=0.277 Sum_probs=234.5
Q ss_pred HHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccC-CC-EEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEe
Q 001046 527 KLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTT-RG-KIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAI 604 (1176)
Q Consensus 527 ~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~-~~-~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~i 604 (1176)
++|..+|++|+.|+++|.+|.||||||++|.+++++..... .+ -.+++.|||+||.|+++++ ..+|...+..+..-+
T Consensus 32 piQ~~cIpkILeGrdcig~AkTGsGKT~AFaLPil~rLsedP~giFalvlTPTrELA~QiaEQF-~alGk~l~lK~~viv 110 (442)
T KOG0340|consen 32 PIQQACIPKILEGRDCIGCAKTGSGKTAAFALPILNRLSEDPYGIFALVLTPTRELALQIAEQF-IALGKLLNLKVSVIV 110 (442)
T ss_pred chHhhhhHHHhcccccccccccCCCcchhhhHHHHHhhccCCCcceEEEecchHHHHHHHHHHH-HHhcccccceEEEEE
Confidence 34999999999999999999999999999999999864433 22 4689999999999999987 456776766666555
Q ss_pred ecccc------cCCCceEEEeChHHHHHHHhhCC-----CCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCC-CccEE
Q 001046 605 RFEDC------TGPDTVIKYMTDGMLLREILIDD-----NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRP-DLRLI 672 (1176)
Q Consensus 605 r~~~~------~~~~t~I~~~T~g~Llr~l~~~~-----~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~-~~kvI 672 (1176)
.+.+. .+.+.+++++|||+|-..+.+++ .+.++.++|||||+ |.+..++- ..|..+...-| ..+.+
T Consensus 111 GG~d~i~qa~~L~~rPHvVvatPGRlad~l~sn~~~~~~~~~rlkflVlDEAD-rvL~~~f~-d~L~~i~e~lP~~RQtL 188 (442)
T KOG0340|consen 111 GGTDMIMQAAILSDRPHVVVATPGRLADHLSSNLGVCSWIFQRLKFLVLDEAD-RVLAGCFP-DILEGIEECLPKPRQTL 188 (442)
T ss_pred ccHHHhhhhhhcccCCCeEecCccccccccccCCccchhhhhceeeEEecchh-hhhccchh-hHHhhhhccCCCccceE
Confidence 55543 35688999999999999988774 58899999999999 66666432 33333333333 45999
Q ss_pred EEcCCCCHHHHHhhhcCCCeEe--------cCCceee--eEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHH
Q 001046 673 VTSATLDAEKFSGYFFNCNIFT--------IPGRTFP--VEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQE 742 (1176)
Q Consensus 673 lmSATl~~~~~~~~f~~~~v~~--------i~gr~~p--v~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ 742 (1176)
++|||++.. +...+ ++|+-. +++-..+ +...|...+ .+-.++.+..++.....++.+.++||+++..
T Consensus 189 lfSATitd~-i~ql~-~~~i~k~~a~~~e~~~~vstvetL~q~yI~~~-~~vkdaYLv~~Lr~~~~~~~~simIFvnttr 265 (442)
T KOG0340|consen 189 LFSATITDT-IKQLF-GCPITKSIAFELEVIDGVSTVETLYQGYILVS-IDVKDAYLVHLLRDFENKENGSIMIFVNTTR 265 (442)
T ss_pred EEEeehhhH-HHHhh-cCCcccccceEEeccCCCCchhhhhhheeecc-hhhhHHHHHHHHhhhhhccCceEEEEeehhH
Confidence 999999421 22222 233211 1111110 111122211 1223334445555555557899999999999
Q ss_pred HHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCccccee
Q 001046 743 EIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNV 822 (1176)
Q Consensus 743 ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~ 822 (1176)
+++.++..|... ++.+..+||.|++.+|...+..|+++..+|||||++|.+|+|||.|..|||+++
T Consensus 266 ~cQ~l~~~l~~l---------e~r~~~lHs~m~Q~eR~~aLsrFrs~~~~iliaTDVAsRGLDIP~V~LVvN~di----- 331 (442)
T KOG0340|consen 266 ECQLLSMTLKNL---------EVRVVSLHSQMPQKERLAALSRFRSNAARILIATDVASRGLDIPTVELVVNHDI----- 331 (442)
T ss_pred HHHHHHHHHhhh---------ceeeeehhhcchHHHHHHHHHHHhhcCccEEEEechhhcCCCCCceeEEEecCC-----
Confidence 998888877653 789999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCCccccccccCHHHHHHHhcccCCCC-CcEEEEecChHHH
Q 001046 823 YNPKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTESAY 866 (1176)
Q Consensus 823 yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~ 866 (1176)
|.++..|+||+||+.|+| .|.++.++++.+.
T Consensus 332 -------------Pr~P~~yiHRvGRtARAGR~G~aiSivt~rDv 363 (442)
T KOG0340|consen 332 -------------PRDPKDYIHRVGRTARAGRKGMAISIVTQRDV 363 (442)
T ss_pred -------------CCCHHHHHHhhcchhcccCCcceEEEechhhH
Confidence 999999999999999999 7999999997665
No 41
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=4.4e-34 Score=312.11 Aligned_cols=308 Identities=19% Similarity=0.214 Sum_probs=240.4
Q ss_pred HHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhccc--------CCCEEEEeccHHHHHHHHHHHHHHHhCCccCCee
Q 001046 529 KKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYT--------TRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEV 600 (1176)
Q Consensus 529 q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~--------~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~v 600 (1176)
|.++.+.+++|+++|.+|.||+|||.+++++-+.+... .+..++++.|||+||.|+.-.+.++.--.+-..+
T Consensus 247 qSQaWPI~LQG~DliGVAQTgtgKtL~~L~pg~ihi~aqp~~~~qr~~p~~lvl~ptreLalqie~e~~kysyng~ksvc 326 (629)
T KOG0336|consen 247 QSQAWPILLQGIDLIGVAQTGTGKTLAFLLPGFIHIDAQPKRREQRNGPGVLVLTPTRELALQIEGEVKKYSYNGLKSVC 326 (629)
T ss_pred hhcccceeecCcceEEEEecCCCcCHHHhccceeeeeccchhhhccCCCceEEEeccHHHHHHHHhHHhHhhhcCcceEE
Confidence 66666669999999999999999999888765543222 1347899999999999998776665421111111
Q ss_pred EEE--eeccc--ccCCCceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEc
Q 001046 601 GYA--IRFED--CTGPDTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTS 675 (1176)
Q Consensus 601 Gy~--ir~~~--~~~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmS 675 (1176)
-|. -|.+. ....+..|+++|||.|.+....+. +|..++++|||||+ |++++.|-.++.+.++..|||.+++++|
T Consensus 327 ~ygggnR~eqie~lkrgveiiiatPgrlndL~~~n~i~l~siTYlVlDEAD-rMLDMgFEpqIrkilldiRPDRqtvmTS 405 (629)
T KOG0336|consen 327 VYGGGNRNEQIEDLKRGVEIIIATPGRLNDLQMDNVINLASITYLVLDEAD-RMLDMGFEPQIRKILLDIRPDRQTVMTS 405 (629)
T ss_pred EecCCCchhHHHHHhcCceEEeeCCchHhhhhhcCeeeeeeeEEEEecchh-hhhcccccHHHHHHhhhcCCcceeeeec
Confidence 121 12221 234678999999999998887666 89999999999999 9999999999999999999999999999
Q ss_pred CCCC--HHHHHhhhcCCCeEecCCce-----eeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHH
Q 001046 676 ATLD--AEKFSGYFFNCNIFTIPGRT-----FPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFAC 748 (1176)
Q Consensus 676 ATl~--~~~~~~~f~~~~v~~i~gr~-----~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~ 748 (1176)
||.+ +..++.-+...|++...|.. ..|...+.-..+.+.+. .+...+. ...+..++||||..+.-++.+.
T Consensus 406 ATWP~~VrrLa~sY~Kep~~v~vGsLdL~a~~sVkQ~i~v~~d~~k~~-~~~~f~~--~ms~ndKvIiFv~~K~~AD~LS 482 (629)
T KOG0336|consen 406 ATWPEGVRRLAQSYLKEPMIVYVGSLDLVAVKSVKQNIIVTTDSEKLE-IVQFFVA--NMSSNDKVIIFVSRKVMADHLS 482 (629)
T ss_pred ccCchHHHHHHHHhhhCceEEEecccceeeeeeeeeeEEecccHHHHH-HHHHHHH--hcCCCceEEEEEechhhhhhcc
Confidence 9996 56777777777777666643 23343343333333331 1222222 3355689999999988777766
Q ss_pred HHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCC
Q 001046 749 QSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQG 828 (1176)
Q Consensus 749 ~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g 828 (1176)
.-|. ..++..-.+||+-.+.+|...++.|+.|..+|||||++|.+|||+++|++|+||+|
T Consensus 483 Sd~~---------l~gi~~q~lHG~r~Q~DrE~al~~~ksG~vrILvaTDlaSRGlDv~DiTHV~NyDF----------- 542 (629)
T KOG0336|consen 483 SDFC---------LKGISSQSLHGNREQSDREMALEDFKSGEVRILVATDLASRGLDVPDITHVYNYDF----------- 542 (629)
T ss_pred chhh---------hcccchhhccCChhhhhHHHHHHhhhcCceEEEEEechhhcCCCchhcceeeccCC-----------
Confidence 5553 24677889999999999999999999999999999999999999999999999999
Q ss_pred CccccccccCHHHHHHHhcccCCCC-CcEEEEecChHHHh
Q 001046 829 LDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTESAYR 867 (1176)
Q Consensus 829 ~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~~ 867 (1176)
|...+.|+||+||+||+| .|..+.+++..+..
T Consensus 543 -------P~nIeeYVHRvGrtGRaGr~G~sis~lt~~D~~ 575 (629)
T KOG0336|consen 543 -------PRNIEEYVHRVGRTGRAGRTGTSISFLTRNDWS 575 (629)
T ss_pred -------CccHHHHHHHhcccccCCCCcceEEEEehhhHH
Confidence 999999999999999999 79999999988764
No 42
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1.6e-33 Score=314.99 Aligned_cols=308 Identities=21% Similarity=0.233 Sum_probs=244.7
Q ss_pred HHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccC-------CCEEEEeccHHHHHHHHHHHHHHHhCCccCCe
Q 001046 527 KLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTT-------RGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEE 599 (1176)
Q Consensus 527 ~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~-------~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~ 599 (1176)
+.|.++++....+++||.+|-||||||.++..+++.+...+ +...++++|+|+||.|+.. .++.+|...|..
T Consensus 248 piq~qalptalsgrdvigIAktgSgktaAfi~pm~~himdq~eL~~g~gPi~vilvPTrela~Qi~~-eaKkf~K~ygl~ 326 (731)
T KOG0339|consen 248 PIQCQALPTALSGRDVIGIAKTGSGKTAAFIWPMIVHIMDQPELKPGEGPIGVILVPTRELASQIFS-EAKKFGKAYGLR 326 (731)
T ss_pred cccccccccccccccchheeeccCcchhHHHHHHHHHhcchhhhcCCCCCeEEEEeccHHHHHHHHH-HHHHhhhhccce
Confidence 44999999999999999999999999999998887654432 3356899999999999987 466666555544
Q ss_pred eEEEeeccc------ccCCCceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEE
Q 001046 600 VGYAIRFED------CTGPDTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLI 672 (1176)
Q Consensus 600 vGy~ir~~~------~~~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvI 672 (1176)
+.....+.. ....++.|+|||||+|+.++.... ++.+++++|||||+ |.+++.++.++-......+|+.|.|
T Consensus 327 ~v~~ygGgsk~eQ~k~Lk~g~EivVaTPgRlid~VkmKatn~~rvS~LV~DEad-rmfdmGfe~qVrSI~~hirpdrQtl 405 (731)
T KOG0339|consen 327 VVAVYGGGSKWEQSKELKEGAEIVVATPGRLIDMVKMKATNLSRVSYLVLDEAD-RMFDMGFEPQVRSIKQHIRPDRQTL 405 (731)
T ss_pred EEEeecCCcHHHHHHhhhcCCeEEEechHHHHHHHHhhcccceeeeEEEEechh-hhhccccHHHHHHHHhhcCCcceEE
Confidence 432222221 122678999999999999987655 89999999999999 9999999887776666789999999
Q ss_pred EEcCCCC--HHHHHhhhcCCCeEecCCce----eeeE-EEEecCCCchhHHHHHHH-HHHHHhcCCCCCEEEEeCCHHHH
Q 001046 673 VTSATLD--AEKFSGYFFNCNIFTIPGRT----FPVE-ILYTKQPESDYLDASLIT-VLQIHLTEPEGDILLFLTGQEEI 744 (1176)
Q Consensus 673 lmSATl~--~~~~~~~f~~~~v~~i~gr~----~pv~-~~~~~~~~~~~~~~~l~~-v~~i~~~~~~g~iLVFl~~~~ei 744 (1176)
+||||+. .+.+++-++..||-.+.|.. -.+. +.+.-.... ..+.. +..+......|++|||++...++
T Consensus 406 lFsaTf~~kIe~lard~L~dpVrvVqg~vgean~dITQ~V~V~~s~~----~Kl~wl~~~L~~f~S~gkvlifVTKk~~~ 481 (731)
T KOG0339|consen 406 LFSATFKKKIEKLARDILSDPVRVVQGEVGEANEDITQTVSVCPSEE----KKLNWLLRHLVEFSSEGKVLIFVTKKADA 481 (731)
T ss_pred EeeccchHHHHHHHHHHhcCCeeEEEeehhccccchhheeeeccCcH----HHHHHHHHHhhhhccCCcEEEEEeccCCH
Confidence 9999995 78888888888876655521 0111 111111111 11111 22222345579999999999999
Q ss_pred HHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceecc
Q 001046 745 DFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYN 824 (1176)
Q Consensus 745 ~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd 824 (1176)
+.++..|.- .++.+..+||++.+.+|.+++..|+.+...|+|||++|++|+||+++..||+|++
T Consensus 482 e~i~a~Lkl---------k~~~v~llhgdkdqa~rn~~ls~fKkk~~~VlvatDvaargldI~~ikTVvnyD~------- 545 (731)
T KOG0339|consen 482 EEIAANLKL---------KGFNVSLLHGDKDQAERNEVLSKFKKKRKPVLVATDVAARGLDIPSIKTVVNYDF------- 545 (731)
T ss_pred HHHHHHhcc---------ccceeeeecCchhhHHHHHHHHHHhhcCCceEEEeeHhhcCCCccccceeecccc-------
Confidence 999988853 4788999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCccccccccCHHHHHHHhcccCCCC-CcEEEEecChHHHh
Q 001046 825 PKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTESAYR 867 (1176)
Q Consensus 825 ~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~~ 867 (1176)
..+...+.||+||+||.| .|.+|.|+|+.+-+
T Consensus 546 -----------ardIdththrigrtgRag~kGvayTlvTeKDa~ 578 (731)
T KOG0339|consen 546 -----------ARDIDTHTHRIGRTGRAGEKGVAYTLVTEKDAE 578 (731)
T ss_pred -----------cchhHHHHHHhhhcccccccceeeEEechhhHH
Confidence 888999999999999999 79999999998753
No 43
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1.8e-33 Score=316.89 Aligned_cols=327 Identities=20% Similarity=0.236 Sum_probs=238.9
Q ss_pred hHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccC--------CCEEEEeccHHHHHHHHHHHHHHHhCCccC
Q 001046 526 YKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTT--------RGKIGCTQPRRVAAMSVAKRVAEEFGCRLG 597 (1176)
Q Consensus 526 ~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~--------~~~Ilv~~PrR~lA~qva~rva~e~g~~~G 597 (1176)
..+|.+.|+.|+++++++|-++||||||.++.+++.+..... +.-.+|++|||+||.|++..+.+...+..=
T Consensus 161 TsVQkq~IP~lL~grD~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki~Rs~G~~ALVivPTREL~~Q~y~~~qKLl~~~hW 240 (708)
T KOG0348|consen 161 TSVQKQAIPVLLEGRDALVRAQTGSGKTLAYLLPIVQSLQAMEPKIQRSDGPYALVIVPTRELALQIYETVQKLLKPFHW 240 (708)
T ss_pred chHhhcchhhhhcCcceEEEcCCCCcccHHHHHHHHHHHHhcCccccccCCceEEEEechHHHHHHHHHHHHHHhcCceE
Confidence 466888888899999999999999999999999998854332 235799999999999999988777665433
Q ss_pred CeeEEEeecccccC------CCceEEEeChHHHHHHHhhCC--CCCCCceEEEcCCCcCCCchhH---HHHHHHHHH---
Q 001046 598 EEVGYAIRFEDCTG------PDTVIKYMTDGMLLREILIDD--NLSQYSVIMLDEAHERTIHTDV---LFGLLKQLV--- 663 (1176)
Q Consensus 598 ~~vGy~ir~~~~~~------~~t~I~~~T~g~Llr~l~~~~--~L~~~s~IIiDEaHeR~~~~d~---ll~llk~~~--- 663 (1176)
..-|+.+.++...+ .+..|++.|||+|+++|.+.. .++++.+||+||++ |-+...+ +-.+++.+-
T Consensus 241 IVPg~lmGGEkkKSEKARLRKGiNILIgTPGRLvDHLknT~~i~~s~LRwlVlDEaD-rlleLGfekdit~Il~~v~~~~ 319 (708)
T KOG0348|consen 241 IVPGVLMGGEKKKSEKARLRKGINILIGTPGRLVDHLKNTKSIKFSRLRWLVLDEAD-RLLELGFEKDITQILKAVHSIQ 319 (708)
T ss_pred EeeceeecccccccHHHHHhcCceEEEcCchHHHHHHhccchheeeeeeEEEecchh-HHHhccchhhHHHHHHHHhhcc
Confidence 33466677776655 468999999999999998765 57889999999999 4333322 122333331
Q ss_pred -hhC------CCccEEEEcCCCC--HHHHHhhhcCCCeEecCCce----e----------------e---------eEEE
Q 001046 664 -KRR------PDLRLIVTSATLD--AEKFSGYFFNCNIFTIPGRT----F----------------P---------VEIL 705 (1176)
Q Consensus 664 -~~r------~~~kvIlmSATl~--~~~~~~~f~~~~v~~i~gr~----~----------------p---------v~~~ 705 (1176)
... +.++-+++|||+. +..++..-...|++.--... . + +...
T Consensus 320 ~~e~~~~~lp~q~q~mLlSATLtd~V~rLa~~sLkDpv~I~ld~s~~~~~p~~~a~~ev~~~~~~~~l~~~~iPeqL~qr 399 (708)
T KOG0348|consen 320 NAECKDPKLPHQLQNMLLSATLTDGVNRLADLSLKDPVYISLDKSHSQLNPKDKAVQEVDDGPAGDKLDSFAIPEQLLQR 399 (708)
T ss_pred chhcccccccHHHHhHhhhhhhHHHHHHHhhccccCceeeeccchhhhcCcchhhhhhcCCcccccccccccCcHHhhhc
Confidence 111 1367899999994 67777766655554321000 0 0 1112
Q ss_pred EecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhc----c-C--------CCCCCeEEEEecC
Q 001046 706 YTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYERMKG----L-G--------KNVPELIILPVYS 772 (1176)
Q Consensus 706 ~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~----l-~--------~~~~~~~v~~lhs 772 (1176)
|...|..--+-.....+.+....+...+++||+.+.+.++.=+..+.+.+-. . + +-..++.++-|||
T Consensus 400 y~vVPpKLRLV~Laa~L~~~~k~~~~qk~iVF~S~~d~VeFHy~lf~~~l~~~~e~~s~~~~s~g~~~l~~~~k~~rLHG 479 (708)
T KOG0348|consen 400 YTVVPPKLRLVALAALLLNKVKFEEKQKMIVFFSCSDSVEFHYSLFSEALLSHLEGSSGAPDSEGLPPLFMDLKFYRLHG 479 (708)
T ss_pred eEecCCchhHHHHHHHHHHHhhhhhhceeEEEEechhHHHHHHHHHHhhhhcccccccCCcccCCChhhhhcceEEEecC
Confidence 3323333333334445555556666779999999999999888888765532 0 0 0112467899999
Q ss_pred CCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCC
Q 001046 773 ALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRT 852 (1176)
Q Consensus 773 ~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~ 852 (1176)
+|++++|..+|+.|......|++||++|++|||+|+|++||.|+. |.+.++|+||+||+.|.
T Consensus 480 sm~QeeRts~f~~Fs~~~~~VLLcTDVAaRGLDlP~V~~vVQYd~------------------P~s~adylHRvGRTARa 541 (708)
T KOG0348|consen 480 SMEQEERTSVFQEFSHSRRAVLLCTDVAARGLDLPHVGLVVQYDP------------------PFSTADYLHRVGRTARA 541 (708)
T ss_pred chhHHHHHHHHHhhccccceEEEehhhhhccCCCCCcCeEEEeCC------------------CCCHHHHHHHhhhhhhc
Confidence 999999999999999999999999999999999999999998887 99999999999999999
Q ss_pred C-CcEEEEec--ChHHHhhhCC
Q 001046 853 G-PGKCYRLY--TESAYRNEMS 871 (1176)
Q Consensus 853 g-~G~c~~L~--t~~~~~~~l~ 871 (1176)
| .|.+..+. ++.+|.+.+.
T Consensus 542 G~kG~alLfL~P~Eaey~~~l~ 563 (708)
T KOG0348|consen 542 GEKGEALLFLLPSEAEYVNYLK 563 (708)
T ss_pred cCCCceEEEecccHHHHHHHHH
Confidence 9 67765544 4556665333
No 44
>COG1204 Superfamily II helicase [General function prediction only]
Probab=100.00 E-value=1.1e-32 Score=342.51 Aligned_cols=416 Identities=22% Similarity=0.273 Sum_probs=283.2
Q ss_pred chHHHHHHHHH-HHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHH--HHhCCccCCeeE
Q 001046 525 IYKLKKELIQA-VHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVA--EEFGCRLGEEVG 601 (1176)
Q Consensus 525 i~~~q~~ii~a-i~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva--~e~g~~~G~~vG 601 (1176)
+++.|++.+.. +.+++++||++|||||||..+.+.++......++++++++|+|+||.+.++.+. +.+|..++..+|
T Consensus 32 l~~~qq~av~~~~~~~~N~li~aPTgsGKTlIA~lai~~~l~~~~~k~vYivPlkALa~Ek~~~~~~~~~~GirV~~~Tg 111 (766)
T COG1204 32 LFNPQQEAVEKGLLSDENVLISAPTGSGKTLIALLAILSTLLEGGGKVVYIVPLKALAEEKYEEFSRLEELGIRVGISTG 111 (766)
T ss_pred hhHHHHHHhhccccCCCcEEEEcCCCCchHHHHHHHHHHHHHhcCCcEEEEeChHHHHHHHHHHhhhHHhcCCEEEEecC
Confidence 34445555555 456799999999999999999999988766657899999999999999999988 566666655555
Q ss_pred EEeecccccCCCceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCCc-----CCCchhHHHHHHHHHHhhCCCccEEEEc
Q 001046 602 YAIRFEDCTGPDTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAHE-----RTIHTDVLFGLLKQLVKRRPDLRLIVTS 675 (1176)
Q Consensus 602 y~ir~~~~~~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaHe-----R~~~~d~ll~llk~~~~~r~~~kvIlmS 675 (1176)
-. ......-.++.|+|+|++-+-..+...+ ++..+++|||||+|- |+...+.+ +.++....+.+++|++|
T Consensus 112 D~-~~~~~~l~~~~ViVtT~EK~Dsl~R~~~~~~~~V~lvViDEiH~l~d~~RG~~lE~i---v~r~~~~~~~~rivgLS 187 (766)
T COG1204 112 DY-DLDDERLARYDVIVTTPEKLDSLTRKRPSWIEEVDLVVIDEIHLLGDRTRGPVLESI---VARMRRLNELIRIVGLS 187 (766)
T ss_pred Cc-ccchhhhccCCEEEEchHHhhHhhhcCcchhhcccEEEEeeeeecCCcccCceehhH---HHHHHhhCcceEEEEEe
Confidence 21 1111223678999999998866665555 688999999999992 66655554 44444456679999999
Q ss_pred CCC-CHHHHHhhhcCCCeEecCCceeee--------EEEEecCCCc----hhHHHHHHHHHHHHhcCCCCCEEEEeCCHH
Q 001046 676 ATL-DAEKFSGYFFNCNIFTIPGRTFPV--------EILYTKQPES----DYLDASLITVLQIHLTEPEGDILLFLTGQE 742 (1176)
Q Consensus 676 ATl-~~~~~~~~f~~~~v~~i~gr~~pv--------~~~~~~~~~~----~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ 742 (1176)
||+ |.+.++.|++..++ ....+..|. .+++...... ..-...+..++. ....+|++||||+++.
T Consensus 188 ATlpN~~evA~wL~a~~~-~~~~rp~~l~~~v~~~~~~~~~~~~~k~~~~~~~~~~~~~v~~--~~~~~~qvLvFv~sR~ 264 (766)
T COG1204 188 ATLPNAEEVADWLNAKLV-ESDWRPVPLRRGVPYVGAFLGADGKKKTWPLLIDNLALELVLE--SLAEGGQVLVFVHSRK 264 (766)
T ss_pred eecCCHHHHHHHhCCccc-ccCCCCcccccCCccceEEEEecCccccccccchHHHHHHHHH--HHhcCCeEEEEEecCc
Confidence 999 69999999865544 333332221 1111111111 111222222222 2356889999999999
Q ss_pred HHHHHHHHHHHHHhccC------------CCCC----------------CeEEEEecCCCCHHHHHhhcCCCCCCCceEE
Q 001046 743 EIDFACQSLYERMKGLG------------KNVP----------------ELIILPVYSALPSEMQSRIFDPAPPGKRKVV 794 (1176)
Q Consensus 743 ei~~l~~~L~~~~~~l~------------~~~~----------------~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVl 794 (1176)
.+..++..|...+.... .... ...+..+|++|+.++|..+.+.|+.|.++||
T Consensus 265 ~a~~~A~~l~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~l~e~v~~GvafHhAGL~~~~R~~vE~~Fr~g~ikVl 344 (766)
T COG1204 265 EAEKTAKKLRIKMSATLSDDEKIVLDEGASPILIPETPTSEDEELAELVLRGVAFHHAGLPREDRQLVEDAFRKGKIKVL 344 (766)
T ss_pred hHHHHHHHHHHHHhhcCChhhhhhccccccccccccccccchHHHHHHHHhCccccccCCCHHHHHHHHHHHhcCCceEE
Confidence 99999999986442110 0000 1236678999999999999999999999999
Q ss_pred EEcchhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC---CcEEEEec-C--hHHHhh
Q 001046 795 VATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG---PGKCYRLY-T--ESAYRN 868 (1176)
Q Consensus 795 VATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g---~G~c~~L~-t--~~~~~~ 868 (1176)
+||++++.|+|.|.-++|| ....+||+..|+ .+++.-++.|++|||||.| -|..+.+. + +..+..
T Consensus 345 v~TpTLA~GVNLPA~~VII----k~~~~y~~~~g~-----~~i~~~dv~QM~GRAGRPg~d~~G~~~i~~~~~~~~~~~~ 415 (766)
T COG1204 345 VSTPTLAAGVNLPARTVII----KDTRRYDPKGGI-----VDIPVLDVLQMAGRAGRPGYDDYGEAIILATSHDELEYLA 415 (766)
T ss_pred EechHHhhhcCCcceEEEE----eeeEEEcCCCCe-----EECchhhHhhccCcCCCCCcCCCCcEEEEecCccchhHHH
Confidence 9999999999999888887 456789985553 4899999999999999999 45555554 2 223333
Q ss_pred hCCCCCchhhhhcCh------HHHHHHHHHcC-------CCccccCCCCC------CCCHHHHHHHHHHHHHcC-ccccC
Q 001046 869 EMSPTSIPEIQRINL------GFTTLTMKAMG-------INDLLSFDFMD------PPSPQALISAMEQLYSLG-ALDEE 928 (1176)
Q Consensus 869 ~l~~~~~pEI~r~~L------~~~~L~lk~~g-------i~~~~~f~~~~------pP~~~~l~~al~~L~~lg-ald~~ 928 (1176)
+......||...+-| ...++.+.+.| ..++..--|.. --....+..+++.|.+.+ +++..
T Consensus 416 ~~~~~~~~e~~~s~l~~~~~~~~~l~~v~~~~~~v~~~~~~~f~~~t~~~~~~~~~~~~~~~i~~~~~~L~~~~~~~~~~ 495 (766)
T COG1204 416 ELYIQSEPEPIESKLGDELNLRTFLLGVISVGDAVSWLELTDFYERTFYNPQTYGEGMLREEILASLRYLEENGLILDAD 495 (766)
T ss_pred HHhhccCcchHHHhhcccccchheEEEEEeccchhhHHHHHHHHHHHHhhhhhccccchHHHHHHHHHHHHhccceeecc
Confidence 344555566522211 11111111111 00000000111 123466778899999986 66543
Q ss_pred C---cccHHHHHHhcCCCChHHHHHHHHhhh
Q 001046 929 G---LLTKLGRKMAEFPLDPPLSKMLLASVD 956 (1176)
Q Consensus 929 g---~lT~lG~~~a~lpl~p~l~k~ll~~~~ 956 (1176)
. ..|.+|+.++.+.++|..++.+.....
T Consensus 496 ~~~~~ate~g~~~s~~yi~~~sa~~~~~~l~ 526 (766)
T COG1204 496 WEALHATELGKLVSRLYIDPESAKIFRDLLA 526 (766)
T ss_pred ccccchhHHHHHhhhccCCHHHHHHHHHHHH
Confidence 3 579999999999999999998887654
No 45
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.3e-33 Score=294.57 Aligned_cols=309 Identities=16% Similarity=0.253 Sum_probs=233.3
Q ss_pred HHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhccc--CCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEe
Q 001046 527 KLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYT--TRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAI 604 (1176)
Q Consensus 527 ~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~--~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~i 604 (1176)
.+|+.++..|..|++||.++..|+|||..+..-++...-. ...+++|+.|||+||.|+.+-+ ..+|...+..+--++
T Consensus 52 ~IQqrAi~~IlkGrdViaQaqSGTGKTa~~si~vlq~~d~~~r~tQ~lilsPTRELa~Qi~~vi-~alg~~mnvq~haci 130 (400)
T KOG0328|consen 52 AIQQRAIPQILKGRDVIAQAQSGTGKTATFSISVLQSLDISVRETQALILSPTRELAVQIQKVI-LALGDYMNVQCHACI 130 (400)
T ss_pred HHHhhhhhhhhcccceEEEecCCCCceEEEEeeeeeecccccceeeEEEecChHHHHHHHHHHH-HHhcccccceEEEEe
Confidence 3466667778999999999999999997766655553211 1247999999999999998854 445555544443333
Q ss_pred eccc------ccCCCceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCC
Q 001046 605 RFED------CTGPDTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSAT 677 (1176)
Q Consensus 605 r~~~------~~~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSAT 677 (1176)
.+.+ ....+..++..|||..++++.... .-..+.++|+|||+| .++-.+--.+........|+.|++++|||
T Consensus 131 gg~n~gedikkld~G~hvVsGtPGrv~dmikr~~L~tr~vkmlVLDEaDe-mL~kgfk~Qiydiyr~lp~~~Qvv~~SAT 209 (400)
T KOG0328|consen 131 GGKNLGEDIKKLDYGQHVVSGTPGRVLDMIKRRSLRTRAVKMLVLDEADE-MLNKGFKEQIYDIYRYLPPGAQVVLVSAT 209 (400)
T ss_pred cCCccchhhhhhcccceEeeCCCchHHHHHHhccccccceeEEEeccHHH-HHHhhHHHHHHHHHHhCCCCceEEEEecc
Confidence 3222 223567899999999999987665 467899999999996 22223333344444445679999999999
Q ss_pred CCHH--HHHhhhcCCCeEecCCce-ee---eEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHH
Q 001046 678 LDAE--KFSGYFFNCNIFTIPGRT-FP---VEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSL 751 (1176)
Q Consensus 678 l~~~--~~~~~f~~~~v~~i~gr~-~p---v~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L 751 (1176)
++-+ ...+.|...|+-....|. .+ ++.+|......+| .+.++..++....-.+.+|||+|+..++++.+.+
T Consensus 210 lp~eilemt~kfmtdpvrilvkrdeltlEgIKqf~v~ve~Eew---KfdtLcdLYd~LtItQavIFcnTk~kVdwLtekm 286 (400)
T KOG0328|consen 210 LPHEILEMTEKFMTDPVRILVKRDELTLEGIKQFFVAVEKEEW---KFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKM 286 (400)
T ss_pred CcHHHHHHHHHhcCCceeEEEecCCCchhhhhhheeeechhhh---hHhHHHHHhhhhehheEEEEecccchhhHHHHHH
Confidence 9744 556677766653332221 22 2344443322222 3445555555555678999999999999988888
Q ss_pred HHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCcc
Q 001046 752 YERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDS 831 (1176)
Q Consensus 752 ~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~ 831 (1176)
.+ .++.+..+||+|++++|.+++..|+.|+.+||++|++-++|+|+|.|.+||||++
T Consensus 287 ~~---------~nftVssmHGDm~qkERd~im~dFRsg~SrvLitTDVwaRGiDv~qVslviNYDL-------------- 343 (400)
T KOG0328|consen 287 RE---------ANFTVSSMHGDMEQKERDKIMNDFRSGKSRVLITTDVWARGIDVQQVSLVINYDL-------------- 343 (400)
T ss_pred Hh---------hCceeeeccCCcchhHHHHHHHHhhcCCceEEEEechhhccCCcceeEEEEecCC--------------
Confidence 76 4788999999999999999999999999999999999999999999999999999
Q ss_pred ccccccCHHHHHHHhcccCCCC-CcEEEEecChHHHh
Q 001046 832 LVITPISQASAKQRAGRAGRTG-PGKCYRLYTESAYR 867 (1176)
Q Consensus 832 l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~~ 867 (1176)
|...+.|+||+||+||.| .|.++.+...++..
T Consensus 344 ----P~nre~YIHRIGRSGRFGRkGvainFVk~~d~~ 376 (400)
T KOG0328|consen 344 ----PNNRELYIHRIGRSGRFGRKGVAINFVKSDDLR 376 (400)
T ss_pred ----CccHHHHhhhhccccccCCcceEEEEecHHHHH
Confidence 999999999999999999 79999999988764
No 46
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=100.00 E-value=6.2e-34 Score=345.78 Aligned_cols=311 Identities=20% Similarity=0.226 Sum_probs=242.3
Q ss_pred CchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccC-------CCEEEEeccHHHHHHHHHHHHHHHhCCcc
Q 001046 524 PIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTT-------RGKIGCTQPRRVAAMSVAKRVAEEFGCRL 596 (1176)
Q Consensus 524 Pi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~-------~~~Ilv~~PrR~lA~qva~rva~e~g~~~ 596 (1176)
+..++|.++|++|++|++||.+|.||||||..|.++++.+...+ +...+++.|||+||.|+.+.+.... +.+
T Consensus 387 k~~~IQ~qAiP~ImsGrdvIgvakTgSGKT~af~LPmirhi~dQr~~~~gdGPi~li~aPtrela~QI~r~~~kf~-k~l 465 (997)
T KOG0334|consen 387 KPTPIQAQAIPAIMSGRDVIGVAKTGSGKTLAFLLPMIRHIKDQRPLEEGDGPIALILAPTRELAMQIHREVRKFL-KLL 465 (997)
T ss_pred CCcchhhhhcchhccCcceEEeeccCCccchhhhcchhhhhhcCCChhhCCCceEEEEcCCHHHHHHHHHHHHHHH-hhc
Confidence 44566999999999999999999999999999988887654433 3467999999999999998775544 445
Q ss_pred CCeeEEEeeccc------ccCCCceEEEeChHHHHHHHhhCC----CCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhC
Q 001046 597 GEEVGYAIRFED------CTGPDTVIKYMTDGMLLREILIDD----NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRR 666 (1176)
Q Consensus 597 G~~vGy~ir~~~------~~~~~t~I~~~T~g~Llr~l~~~~----~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r 666 (1176)
|..+........ ....++.|+|||+|+++..+..+. .|.++.++|+|||+ |.++..+.....+.+...+
T Consensus 466 ~ir~v~vygg~~~~~qiaelkRg~eIvV~tpGRmiD~l~~n~grvtnlrR~t~lv~deaD-rmfdmgfePq~~~Ii~nlr 544 (997)
T KOG0334|consen 466 GIRVVCVYGGSGISQQIAELKRGAEIVVCTPGRMIDILCANSGRVTNLRRVTYLVLDEAD-RMFDMGFEPQITRILQNLR 544 (997)
T ss_pred CceEEEecCCccHHHHHHHHhcCCceEEeccchhhhhHhhcCCccccccccceeeechhh-hhheeccCcccchHHhhcc
Confidence 554432222211 122569999999999999887655 57888899999999 8888888777777666679
Q ss_pred CCccEEEEcCCCC--HHHHHhhhcCCCeE-ecCCceee---eEEEEecCC-CchhHHHHHHHHHHHHhcCCCCCEEEEeC
Q 001046 667 PDLRLIVTSATLD--AEKFSGYFFNCNIF-TIPGRTFP---VEILYTKQP-ESDYLDASLITVLQIHLTEPEGDILLFLT 739 (1176)
Q Consensus 667 ~~~kvIlmSATl~--~~~~~~~f~~~~v~-~i~gr~~p---v~~~~~~~~-~~~~~~~~l~~v~~i~~~~~~g~iLVFl~ 739 (1176)
|+.|++++|||++ .+.++.-....|+- .+.|+..- |...+...+ +..-+. ..+..+......+++||||.
T Consensus 545 pdrQtvlfSatfpr~m~~la~~vl~~Pveiiv~~~svV~k~V~q~v~V~~~e~eKf~---kL~eLl~e~~e~~~tiiFv~ 621 (997)
T KOG0334|consen 545 PDRQTVLFSATFPRSMEALARKVLKKPVEIIVGGRSVVCKEVTQVVRVCAIENEKFL---KLLELLGERYEDGKTIIFVD 621 (997)
T ss_pred hhhhhhhhhhhhhHHHHHHHHHhhcCCeeEEEccceeEeccceEEEEEecCchHHHH---HHHHHHHHHhhcCCEEEEEc
Confidence 9999999999997 56677666666663 33444321 222222222 222122 22222333445899999999
Q ss_pred CHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCccc
Q 001046 740 GQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAK 819 (1176)
Q Consensus 740 ~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k 819 (1176)
.++.+..|...|.+ .++.+..+||+.++.+|..+++.|+++...++|||+++++|+|+.++..||+|++
T Consensus 622 ~qe~~d~l~~~L~~---------ag~~~~slHGgv~q~dR~sti~dfK~~~~~LLvaTsvvarGLdv~~l~Lvvnyd~-- 690 (997)
T KOG0334|consen 622 KQEKADALLRDLQK---------AGYNCDSLHGGVDQHDRSSTIEDFKNGVVNLLVATSVVARGLDVKELILVVNYDF-- 690 (997)
T ss_pred CchHHHHHHHHHHh---------cCcchhhhcCCCchHHHHhHHHHHhccCceEEEehhhhhcccccccceEEEEccc--
Confidence 99999999988875 3677777999999999999999999999999999999999999999999999999
Q ss_pred ceeccCCCCCccccccccCHHHHHHHhcccCCCC-CcEEEEecChHHH
Q 001046 820 QNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTESAY 866 (1176)
Q Consensus 820 ~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~ 866 (1176)
|...+.|+||+|||||+| .|.||.|.++++.
T Consensus 691 ----------------pnh~edyvhR~gRTgragrkg~AvtFi~p~q~ 722 (997)
T KOG0334|consen 691 ----------------PNHYEDYVHRVGRTGRAGRKGAAVTFITPDQL 722 (997)
T ss_pred ----------------chhHHHHHHHhcccccCCccceeEEEeChHHh
Confidence 999999999999999999 6999999998543
No 47
>TIGR01389 recQ ATP-dependent DNA helicase RecQ. The ATP-dependent DNA helicase RecQ of E. coli is about 600 residues long. This model represents bacterial proteins with a high degree of similarity in domain architecture and in primary sequence to E. coli RecQ. The model excludes eukaryotic and archaeal proteins with RecQ-like regions, as well as more distantly related bacterial helicases related to RecQ.
Probab=100.00 E-value=2e-32 Score=339.92 Aligned_cols=302 Identities=19% Similarity=0.198 Sum_probs=220.0
Q ss_pred chHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEe
Q 001046 525 IYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAI 604 (1176)
Q Consensus 525 i~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~i 604 (1176)
..+.|.++++++.+|+++++++|||+|||+++.++++.. .+.++|+.|+++|+.++...+.. +|.. +++..
T Consensus 14 fr~~Q~~~i~~il~g~dvlv~~PTG~GKTl~y~lpal~~----~g~~lVisPl~sL~~dq~~~l~~-~gi~----~~~~~ 84 (591)
T TIGR01389 14 FRPGQEEIISHVLDGRDVLVVMPTGGGKSLCYQVPALLL----KGLTVVISPLISLMKDQVDQLRA-AGVA----AAYLN 84 (591)
T ss_pred CCHHHHHHHHHHHcCCCEEEEcCCCccHhHHHHHHHHHc----CCcEEEEcCCHHHHHHHHHHHHH-cCCc----EEEEe
Confidence 567899999999999999999999999999887776643 46789999999999999887754 4433 33211
Q ss_pred e---cc-------cccCCCceEEEeChHHHHHHHhh-CCCCCCCceEEEcCCCcCCCc---hhHHHHHHHHHHhhCCCcc
Q 001046 605 R---FE-------DCTGPDTVIKYMTDGMLLREILI-DDNLSQYSVIMLDEAHERTIH---TDVLFGLLKQLVKRRPDLR 670 (1176)
Q Consensus 605 r---~~-------~~~~~~t~I~~~T~g~Llr~l~~-~~~L~~~s~IIiDEaHeR~~~---~d~ll~llk~~~~~r~~~k 670 (1176)
. .. .......+|+|+||+.|...... .....++++|||||||.-+.. ....+..+..+....|+.+
T Consensus 85 s~~~~~~~~~~~~~l~~~~~~il~~tpe~l~~~~~~~~l~~~~l~~iViDEaH~i~~~g~~frp~y~~l~~l~~~~~~~~ 164 (591)
T TIGR01389 85 STLSAKEQQDIEKALVNGELKLLYVAPERLEQDYFLNMLQRIPIALVAVDEAHCVSQWGHDFRPEYQRLGSLAERFPQVP 164 (591)
T ss_pred CCCCHHHHHHHHHHHhCCCCCEEEEChhHhcChHHHHHHhcCCCCEEEEeCCcccccccCccHHHHHHHHHHHHhCCCCC
Confidence 1 11 11234578999999998643322 224578999999999964322 2222334445555667788
Q ss_pred EEEEcCCCCHH---HHHhhhc-CCCeEecCCceeeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHH
Q 001046 671 LIVTSATLDAE---KFSGYFF-NCNIFTIPGRTFPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEEIDF 746 (1176)
Q Consensus 671 vIlmSATl~~~---~~~~~f~-~~~v~~i~gr~~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~ 746 (1176)
+|++|||++.. .+..++. ..+...+.+...| .+.|......+.. ..+........++++||||+++.+++.
T Consensus 165 vi~lTAT~~~~~~~~i~~~l~~~~~~~~~~~~~r~-nl~~~v~~~~~~~----~~l~~~l~~~~~~~~IIf~~sr~~~e~ 239 (591)
T TIGR01389 165 RIALTATADAETRQDIRELLRLADANEFITSFDRP-NLRFSVVKKNNKQ----KFLLDYLKKHRGQSGIIYASSRKKVEE 239 (591)
T ss_pred EEEEEeCCCHHHHHHHHHHcCCCCCCeEecCCCCC-CcEEEEEeCCCHH----HHHHHHHHhcCCCCEEEEECcHHHHHH
Confidence 99999999754 3444443 1222222221111 2222211111111 122222223346789999999999999
Q ss_pred HHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCC
Q 001046 747 ACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPK 826 (1176)
Q Consensus 747 l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~ 826 (1176)
+++.|.. .++.+.++||+|+.++|..+++.|..|.++|||||+++++|||+|+|++||++++
T Consensus 240 la~~L~~---------~g~~~~~~H~~l~~~~R~~i~~~F~~g~~~vlVaT~a~~~GID~p~v~~VI~~~~--------- 301 (591)
T TIGR01389 240 LAERLES---------QGISALAYHAGLSNKVRAENQEDFLYDDVKVMVATNAFGMGIDKPNVRFVIHYDM--------- 301 (591)
T ss_pred HHHHHHh---------CCCCEEEEECCCCHHHHHHHHHHHHcCCCcEEEEechhhccCcCCCCCEEEEcCC---------
Confidence 9998865 2567899999999999999999999999999999999999999999999999999
Q ss_pred CCCccccccccCHHHHHHHhcccCCCC-CcEEEEecChHHHh
Q 001046 827 QGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTESAYR 867 (1176)
Q Consensus 827 ~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~~ 867 (1176)
|.|.++|.||+|||||.| +|.|+.+|+..+..
T Consensus 302 ---------p~s~~~y~Q~~GRaGR~G~~~~~il~~~~~d~~ 334 (591)
T TIGR01389 302 ---------PGNLESYYQEAGRAGRDGLPAEAILLYSPADIA 334 (591)
T ss_pred ---------CCCHHHHhhhhccccCCCCCceEEEecCHHHHH
Confidence 999999999999999999 89999999988753
No 48
>PRK13767 ATP-dependent helicase; Provisional
Probab=100.00 E-value=1.4e-32 Score=351.91 Aligned_cols=312 Identities=20% Similarity=0.221 Sum_probs=217.9
Q ss_pred chHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhccc--------CCCEEEEeccHHHHHHHHHHHHHH------
Q 001046 525 IYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYT--------TRGKIGCTQPRRVAAMSVAKRVAE------ 590 (1176)
Q Consensus 525 i~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~--------~~~~Ilv~~PrR~lA~qva~rva~------ 590 (1176)
.+++|.++++.+.+|++++|+||||||||.++.++++..... .+.+++++.|+|+||.|+.+++..
T Consensus 33 ~tpiQ~~Ai~~il~g~nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtraLa~di~~~L~~~l~~i~ 112 (876)
T PRK13767 33 FTPPQRYAIPLIHEGKNVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRALNNDIHRNLEEPLTEIR 112 (876)
T ss_pred CCHHHHHHHHHHHcCCCEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHHHHHHHHHHHHHHHHHHH
Confidence 567899999999999999999999999999999988865432 234699999999999999876542
Q ss_pred ----HhCCcc-CCeeEEEeeccc------ccCCCceEEEeChHHHHHHHhhCC---CCCCCceEEEcCCCc-----CCCc
Q 001046 591 ----EFGCRL-GEEVGYAIRFED------CTGPDTVIKYMTDGMLLREILIDD---NLSQYSVIMLDEAHE-----RTIH 651 (1176)
Q Consensus 591 ----e~g~~~-G~~vGy~ir~~~------~~~~~t~I~~~T~g~Llr~l~~~~---~L~~~s~IIiDEaHe-----R~~~ 651 (1176)
.+|..+ +..++....... ......+|+++||+.|...+.... .|.++++|||||||+ |+..
T Consensus 113 ~~~~~~g~~~~~i~v~v~~Gdt~~~~r~~~l~~~p~IlVtTPE~L~~ll~~~~~~~~l~~l~~VVIDE~H~l~~~~RG~~ 192 (876)
T PRK13767 113 EIAKERGEELPEIRVAIRTGDTSSYEKQKMLKKPPHILITTPESLAILLNSPKFREKLRTVKWVIVDEIHSLAENKRGVH 192 (876)
T ss_pred HHHHhcCCCcCCeeEEEEcCCCCHHHHHHHHhCCCCEEEecHHHHHHHhcChhHHHHHhcCCEEEEechhhhccCccHHH
Confidence 223333 223332111100 112356899999999975553321 478999999999995 2222
Q ss_pred hhHHHHHHHHHHhhCCCccEEEEcCCC-CHHHHHhhhcCC-------CeEecCC---ceeeeEEEEec-----CCCchhH
Q 001046 652 TDVLFGLLKQLVKRRPDLRLIVTSATL-DAEKFSGYFFNC-------NIFTIPG---RTFPVEILYTK-----QPESDYL 715 (1176)
Q Consensus 652 ~d~ll~llk~~~~~r~~~kvIlmSATl-~~~~~~~~f~~~-------~v~~i~g---r~~pv~~~~~~-----~~~~~~~ 715 (1176)
....+..+..+. .++.++|++|||+ +.+.++.|+.+. ++..+.. +.+.+.+.... .......
T Consensus 193 l~~~L~rL~~l~--~~~~q~IglSATl~~~~~va~~L~~~~~~~~~r~~~iv~~~~~k~~~i~v~~p~~~l~~~~~~~~~ 270 (876)
T PRK13767 193 LSLSLERLEELA--GGEFVRIGLSATIEPLEEVAKFLVGYEDDGEPRDCEIVDARFVKPFDIKVISPVDDLIHTPAEEIS 270 (876)
T ss_pred HHHHHHHHHHhc--CCCCeEEEEecccCCHHHHHHHhcCccccCCCCceEEEccCCCccceEEEeccCccccccccchhH
Confidence 233333333332 3678999999999 467888877542 1222222 12222222110 0001111
Q ss_pred HHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEE
Q 001046 716 DASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVV 795 (1176)
Q Consensus 716 ~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlV 795 (1176)
......+..+. ...+++||||+|+..++.++..|.+.+.. ......+..+||+|++++|..+++.|++|.++|||
T Consensus 271 ~~l~~~L~~~i--~~~~~~LVF~nTr~~ae~la~~L~~~~~~---~~~~~~i~~hHg~ls~~~R~~ve~~fk~G~i~vLV 345 (876)
T PRK13767 271 EALYETLHELI--KEHRTTLIFTNTRSGAERVLYNLRKRFPE---EYDEDNIGAHHSSLSREVRLEVEEKLKRGELKVVV 345 (876)
T ss_pred HHHHHHHHHHH--hcCCCEEEEeCCHHHHHHHHHHHHHhchh---hccccceeeeeCCCCHHHHHHHHHHHHcCCCeEEE
Confidence 11222222221 23578999999999999999999765321 11245688999999999999999999999999999
Q ss_pred EcchhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC----CcEEEEec
Q 001046 796 ATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG----PGKCYRLY 861 (1176)
Q Consensus 796 ATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g----~G~c~~L~ 861 (1176)
||+++++|||||+|++||++|. |.|.++|+||+|||||.+ .|.+|.+.
T Consensus 346 aTs~Le~GIDip~Vd~VI~~~~------------------P~sv~~ylQRiGRaGR~~g~~~~g~ii~~~ 397 (876)
T PRK13767 346 SSTSLELGIDIGYIDLVVLLGS------------------PKSVSRLLQRIGRAGHRLGEVSKGRIIVVD 397 (876)
T ss_pred ECChHHhcCCCCCCcEEEEeCC------------------CCCHHHHHHhcccCCCCCCCCCcEEEEEcC
Confidence 9999999999999999999998 999999999999999874 47777653
No 49
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=100.00 E-value=2.7e-33 Score=316.37 Aligned_cols=340 Identities=23% Similarity=0.230 Sum_probs=234.4
Q ss_pred CCCCchhHHHhhhcccccccccChHHHHHHHhcCCchHHHHHHHHHHHcC-CeEEEEcCCCCcHHHHHHHHHHHhccc--
Q 001046 490 SAYDMPEWKKDAFGKALTFGQRSKLSIQEQRQSLPIYKLKKELIQAVHDN-QVLVVIGETGSGKTTQVTQYLAEAGYT-- 566 (1176)
Q Consensus 490 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~r~~LPi~~~q~~ii~ai~~~-~~vIv~apTGSGKTt~~~~~lle~~~~-- 566 (1176)
+..++++|+.- ..+.....+|.++..+-|. ++|.-.|+++..+ .+++..|+||||||++|-++|++....
T Consensus 176 ~~~DvsAW~~l------~lp~~iL~aL~~~gFs~Pt-~IQsl~lp~ai~gk~DIlGaAeTGSGKTLAFGIPiv~~l~~~s 248 (731)
T KOG0347|consen 176 SKVDVSAWKNL------FLPMEILRALSNLGFSRPT-EIQSLVLPAAIRGKVDILGAAETGSGKTLAFGIPIVERLLESS 248 (731)
T ss_pred cccChHHHhcC------CCCHHHHHHHHhcCCCCCc-cchhhcccHhhccchhcccccccCCCceeeecchhhhhhhhcc
Confidence 45678888643 2222333445555444444 5688888888777 899999999999999999998872211
Q ss_pred -----------CCCE--EEEeccHHHHHHHHHHHHHHHh---CCccCCeeEE-Ee-ecccccCCCceEEEeChHHHHHHH
Q 001046 567 -----------TRGK--IGCTQPRRVAAMSVAKRVAEEF---GCRLGEEVGY-AI-RFEDCTGPDTVIKYMTDGMLLREI 628 (1176)
Q Consensus 567 -----------~~~~--Ilv~~PrR~lA~qva~rva~e~---g~~~G~~vGy-~i-r~~~~~~~~t~I~~~T~g~Llr~l 628 (1176)
.+.+ .+|+.|||+||.|+.+.+.... +..+...+|. .+ ..+...+....|+|+|||+|+..+
T Consensus 249 ~~s~e~~~~~~k~~k~~~LV~tPTRELa~QV~~Hl~ai~~~t~i~v~si~GGLavqKQqRlL~~~p~IVVATPGRlweli 328 (731)
T KOG0347|consen 249 DDSQELSNTSAKYVKPIALVVTPTRELAHQVKQHLKAIAEKTQIRVASITGGLAVQKQQRLLNQRPDIVVATPGRLWELI 328 (731)
T ss_pred chHhhhhhHHhccCcceeEEecChHHHHHHHHHHHHHhccccCeEEEEeechhHHHHHHHHHhcCCCEEEecchHHHHHH
Confidence 1223 7999999999999998764432 2222222331 11 112334467899999999999999
Q ss_pred hhCC----CCCCCceEEEcCCCcCCCchh---HHHHHHHHHHh--hCCCccEEEEcCCCCHHHHHhhhc-----------
Q 001046 629 LIDD----NLSQYSVIMLDEAHERTIHTD---VLFGLLKQLVK--RRPDLRLIVTSATLDAEKFSGYFF----------- 688 (1176)
Q Consensus 629 ~~~~----~L~~~s~IIiDEaHeR~~~~d---~ll~llk~~~~--~r~~~kvIlmSATl~~~~~~~~f~----------- 688 (1176)
..+. .+.++.|+|||||+ |.+.-. -|-.+|+.+.. .++..|.+++|||++...+...-.
T Consensus 329 ~e~n~~l~~~k~vkcLVlDEaD-RmvekghF~Els~lL~~L~e~~~~~qrQTlVFSATlt~~~~~~~~~~~k~~~k~~~~ 407 (731)
T KOG0347|consen 329 EEDNTHLGNFKKVKCLVLDEAD-RMVEKGHFEELSKLLKHLNEEQKNRQRQTLVFSATLTLVLQQPLSSSRKKKDKEDEL 407 (731)
T ss_pred HhhhhhhhhhhhceEEEEccHH-HHhhhccHHHHHHHHHHhhhhhcccccceEEEEEEeehhhcChhHHhhhccchhhhh
Confidence 8765 57889999999999 665433 34445555542 446789999999996332221100
Q ss_pred CCCe---E-ecCCceeeeEEEEecCCCchhHHHHHHHHH-----------HHHhcCCCCCEEEEeCCHHHHHHHHHHHHH
Q 001046 689 NCNI---F-TIPGRTFPVEILYTKQPESDYLDASLITVL-----------QIHLTEPEGDILLFLTGQEEIDFACQSLYE 753 (1176)
Q Consensus 689 ~~~v---~-~i~gr~~pv~~~~~~~~~~~~~~~~l~~v~-----------~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~ 753 (1176)
+.++ + .+.-+.-|.-+-.. ++..-........+ ...+...+|.+|||||+...|..++-.|..
T Consensus 408 ~~kiq~Lmk~ig~~~kpkiiD~t--~q~~ta~~l~Es~I~C~~~eKD~ylyYfl~ryPGrTlVF~NsId~vKRLt~~L~~ 485 (731)
T KOG0347|consen 408 NAKIQHLMKKIGFRGKPKIIDLT--PQSATASTLTESLIECPPLEKDLYLYYFLTRYPGRTLVFCNSIDCVKRLTVLLNN 485 (731)
T ss_pred hHHHHHHHHHhCccCCCeeEecC--cchhHHHHHHHHhhcCCccccceeEEEEEeecCCceEEEechHHHHHHHHHHHhh
Confidence 0000 0 00011112111111 11111111111111 112345689999999999999998888764
Q ss_pred HHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCcccc
Q 001046 754 RMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLV 833 (1176)
Q Consensus 754 ~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~ 833 (1176)
-++..+++|+.|.+.+|.+-++.|+...-.|||||++|++|||||+|.+||+|-.
T Consensus 486 ---------L~i~p~~LHA~M~QKqRLknLEkF~~~~~~VLiaTDVAARGLDIp~V~HVIHYqV---------------- 540 (731)
T KOG0347|consen 486 ---------LDIPPLPLHASMIQKQRLKNLEKFKQSPSGVLIATDVAARGLDIPGVQHVIHYQV---------------- 540 (731)
T ss_pred ---------cCCCCchhhHHHHHHHHHHhHHHHhcCCCeEEEeehhhhccCCCCCcceEEEeec----------------
Confidence 2566789999999999999999999999999999999999999999999999999
Q ss_pred ccccCHHHHHHHhcccCCCC-CcEEEEecChHHH
Q 001046 834 ITPISQASAKQRAGRAGRTG-PGKCYRLYTESAY 866 (1176)
Q Consensus 834 ~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~ 866 (1176)
|.+.+.|+||+||+.|++ .|..+.|+.+.+.
T Consensus 541 --PrtseiYVHRSGRTARA~~~Gvsvml~~P~e~ 572 (731)
T KOG0347|consen 541 --PRTSEIYVHRSGRTARANSEGVSVMLCGPQEV 572 (731)
T ss_pred --CCccceeEecccccccccCCCeEEEEeChHHh
Confidence 999999999999999999 7999999988764
No 50
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=5.6e-33 Score=318.43 Aligned_cols=306 Identities=20% Similarity=0.186 Sum_probs=225.6
Q ss_pred HHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccC------------CCEEEEeccHHHHHHHHHHHHHHHhCCcc
Q 001046 529 KKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTT------------RGKIGCTQPRRVAAMSVAKRVAEEFGCRL 596 (1176)
Q Consensus 529 q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~------------~~~Ilv~~PrR~lA~qva~rva~e~g~~~ 596 (1176)
|+-.|+.|..|++++++|+||||||.+++.+++...+.. .+.++++.|||+||.|+..+..+..+...
T Consensus 101 Qk~sip~i~~Grdl~acAqTGsGKT~aFLiPii~~~~~~~~~~~~~~~~~~~P~~lIlapTReL~~Qi~nea~k~~~~s~ 180 (482)
T KOG0335|consen 101 QKYSIPIISGGRDLMACAQTGSGKTAAFLIPIISYLLDEGPEDRGESGGGVYPRALILAPTRELVDQIYNEARKFSYLSG 180 (482)
T ss_pred eeeccceeecCCceEEEccCCCcchHHHHHHHHHHHHhcCcccCcccCCCCCCceEEEeCcHHHhhHHHHHHHhhccccc
Confidence 555555599999999999999999999999998865443 25789999999999999998766543322
Q ss_pred CC-eeEEEee----cccccCCCceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCCcCCCc-hhHHHHHHHHHHhh----
Q 001046 597 GE-EVGYAIR----FEDCTGPDTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAHERTIH-TDVLFGLLKQLVKR---- 665 (1176)
Q Consensus 597 G~-~vGy~ir----~~~~~~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaHeR~~~-~d~ll~llk~~~~~---- 665 (1176)
-. .++|.-+ .......+++|+++|+|.|...+.... .|.++.++|||||+ |+++ +.|...+=+.+...
T Consensus 181 ~~~~~~ygg~~~~~q~~~~~~gcdIlvaTpGrL~d~~e~g~i~l~~~k~~vLDEAD-rMlD~mgF~p~Ir~iv~~~~~~~ 259 (482)
T KOG0335|consen 181 MKSVVVYGGTDLGAQLRFIKRGCDILVATPGRLKDLIERGKISLDNCKFLVLDEAD-RMLDEMGFEPQIRKIVEQLGMPP 259 (482)
T ss_pred ceeeeeeCCcchhhhhhhhccCccEEEecCchhhhhhhcceeehhhCcEEEecchH-HhhhhccccccHHHHhcccCCCC
Confidence 11 1223210 011234679999999999999887655 79999999999999 7777 66655554444332
Q ss_pred CCCccEEEEcCCCC--HHHHHhhhcCC-CeE----ecCCceeeeEEEEecCCCchhHHHHHHHHHHHHh-cCCCC-----
Q 001046 666 RPDLRLIVTSATLD--AEKFSGYFFNC-NIF----TIPGRTFPVEILYTKQPESDYLDASLITVLQIHL-TEPEG----- 732 (1176)
Q Consensus 666 r~~~kvIlmSATl~--~~~~~~~f~~~-~v~----~i~gr~~pv~~~~~~~~~~~~~~~~l~~v~~i~~-~~~~g----- 732 (1176)
....+.++||||.+ ...++.+|... .++ .+.+..-.+..........+... .+..++.... ....+
T Consensus 260 ~~~~qt~mFSAtfp~~iq~l~~~fl~~~yi~laV~rvg~~~~ni~q~i~~V~~~~kr~-~Lldll~~~~~~~~~~~~~~e 338 (482)
T KOG0335|consen 260 KNNRQTLLFSATFPKEIQRLAADFLKDNYIFLAVGRVGSTSENITQKILFVNEMEKRS-KLLDLLNKDDGPPSDGEPKWE 338 (482)
T ss_pred ccceeEEEEeccCChhhhhhHHHHhhccceEEEEeeeccccccceeEeeeecchhhHH-HHHHHhhcccCCcccCCcccc
Confidence 23689999999996 44566666543 222 11111112221111111222222 2222222111 11234
Q ss_pred CEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEE
Q 001046 733 DILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYV 812 (1176)
Q Consensus 733 ~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~V 812 (1176)
.+||||.+++.+..++..|.. .++.+.++||..++.+|.+.+..|+.|...|+||||||++|+|||+|++|
T Consensus 339 ~tlvFvEt~~~~d~l~~~l~~---------~~~~~~sIhg~~tq~er~~al~~Fr~g~~pvlVaT~VaaRGlDi~~V~hV 409 (482)
T KOG0335|consen 339 KTLVFVETKRGADELAAFLSS---------NGYPAKSIHGDRTQIEREQALNDFRNGKAPVLVATNVAARGLDIPNVKHV 409 (482)
T ss_pred eEEEEeeccchhhHHHHHHhc---------CCCCceeecchhhhhHHHHHHHHhhcCCcceEEEehhhhcCCCCCCCcee
Confidence 799999999999999998875 47888999999999999999999999999999999999999999999999
Q ss_pred EeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC-CcEEEEecCh
Q 001046 813 IDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTE 863 (1176)
Q Consensus 813 Id~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~ 863 (1176)
|+|++ |....+|+||+||+||.| .|.+..||..
T Consensus 410 InyDm------------------P~d~d~YvHRIGRTGR~Gn~G~atsf~n~ 443 (482)
T KOG0335|consen 410 INYDM------------------PADIDDYVHRIGRTGRVGNGGRATSFFNE 443 (482)
T ss_pred EEeec------------------CcchhhHHHhccccccCCCCceeEEEecc
Confidence 99999 999999999999999999 7999999983
No 51
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=6.3e-33 Score=295.45 Aligned_cols=305 Identities=18% Similarity=0.217 Sum_probs=232.3
Q ss_pred HHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCC--EEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeec
Q 001046 529 KKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRG--KIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRF 606 (1176)
Q Consensus 529 q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~--~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~ 606 (1176)
|++.|+..+.|++++.-|..|+|||.++..++++..-.... +.+|++|+|+||.|+.+ ++.+++..+|..|-....+
T Consensus 112 QeesIPiaLtGrdiLaRaKNGTGKT~a~~IP~Lekid~~~~~IQ~~ilVPtrelALQtSq-vc~~lskh~~i~vmvttGG 190 (459)
T KOG0326|consen 112 QEESIPIALTGRDILARAKNGTGKTAAYCIPVLEKIDPKKNVIQAIILVPTRELALQTSQ-VCKELSKHLGIKVMVTTGG 190 (459)
T ss_pred cccccceeecchhhhhhccCCCCCccceechhhhhcCccccceeEEEEeecchhhHHHHH-HHHHHhcccCeEEEEecCC
Confidence 66666668999999999999999999999999997544333 56899999999999876 5677766666544433322
Q ss_pred c----cc--cCCCceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCCCC
Q 001046 607 E----DC--TGPDTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSATLD 679 (1176)
Q Consensus 607 ~----~~--~~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSATl~ 679 (1176)
. +. .....++++.|||++++.+...- .++++.++|+|||+ .-+..||-..+-+.+.-..++.|++++|||.+
T Consensus 191 T~lrDDI~Rl~~~VH~~vgTPGRIlDL~~KgVa~ls~c~~lV~DEAD-KlLs~~F~~~~e~li~~lP~~rQillySATFP 269 (459)
T KOG0326|consen 191 TSLRDDIMRLNQTVHLVVGTPGRILDLAKKGVADLSDCVILVMDEAD-KLLSVDFQPIVEKLISFLPKERQILLYSATFP 269 (459)
T ss_pred cccccceeeecCceEEEEcCChhHHHHHhcccccchhceEEEechhh-hhhchhhhhHHHHHHHhCCccceeeEEecccc
Confidence 2 21 23567899999999999987665 79999999999999 56666665444333333556789999999997
Q ss_pred --HHHHHhhhcCCCe-EecCCce--eeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHH
Q 001046 680 --AEKFSGYFFNCNI-FTIPGRT--FPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYER 754 (1176)
Q Consensus 680 --~~~~~~~f~~~~v-~~i~gr~--~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~ 754 (1176)
+..|...+...|. +.+-... .-|..+|....+.. .+..+-.+.....-.+.+|||++...++.+|..+.+.
T Consensus 270 ~tVk~Fm~~~l~kPy~INLM~eLtl~GvtQyYafV~e~q----KvhCLntLfskLqINQsIIFCNS~~rVELLAkKITel 345 (459)
T KOG0326|consen 270 LTVKGFMDRHLKKPYEINLMEELTLKGVTQYYAFVEERQ----KVHCLNTLFSKLQINQSIIFCNSTNRVELLAKKITEL 345 (459)
T ss_pred hhHHHHHHHhccCcceeehhhhhhhcchhhheeeechhh----hhhhHHHHHHHhcccceEEEeccchHhHHHHHHHHhc
Confidence 5566665554442 3222211 12344554332221 2222222223333467899999999999998888763
Q ss_pred HhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCccccc
Q 001046 755 MKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVI 834 (1176)
Q Consensus 755 ~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~ 834 (1176)
++.++.+|+.|.++.|.++|..|++|..+.+|||+.+-+||||++|++|||++|
T Consensus 346 ---------GyscyyiHakM~Q~hRNrVFHdFr~G~crnLVctDL~TRGIDiqavNvVINFDf----------------- 399 (459)
T KOG0326|consen 346 ---------GYSCYYIHAKMAQEHRNRVFHDFRNGKCRNLVCTDLFTRGIDIQAVNVVINFDF----------------- 399 (459)
T ss_pred ---------cchhhHHHHHHHHhhhhhhhhhhhccccceeeehhhhhcccccceeeEEEecCC-----------------
Confidence 677889999999999999999999999999999999999999999999999999
Q ss_pred cccCHHHHHHHhcccCCCC-CcEEEEecChHHH
Q 001046 835 TPISQASAKQRAGRAGRTG-PGKCYRLYTESAY 866 (1176)
Q Consensus 835 ~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~ 866 (1176)
|.+.++|.||+||+||.| .|.++.|.+-++-
T Consensus 400 -pk~aEtYLHRIGRsGRFGhlGlAInLityedr 431 (459)
T KOG0326|consen 400 -PKNAETYLHRIGRSGRFGHLGLAINLITYEDR 431 (459)
T ss_pred -CCCHHHHHHHccCCccCCCcceEEEEEehhhh
Confidence 999999999999999999 8999999987654
No 52
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.97 E-value=2.2e-31 Score=298.73 Aligned_cols=319 Identities=18% Similarity=0.232 Sum_probs=230.1
Q ss_pred HhcCCchHHHHHHHHHHHc---------CCeEEEEcCCCCcHHHHHHHHHHHhcccC---CCEEEEeccHHHHHHHHHHH
Q 001046 520 RQSLPIYKLKKELIQAVHD---------NQVLVVIGETGSGKTTQVTQYLAEAGYTT---RGKIGCTQPRRVAAMSVAKR 587 (1176)
Q Consensus 520 r~~LPi~~~q~~ii~ai~~---------~~~vIv~apTGSGKTt~~~~~lle~~~~~---~~~Ilv~~PrR~lA~qva~r 587 (1176)
-..--.|++|..++..+.. .+++.|.||||||||.++.++|.+..... .-+.+|++|+|.||.|++..
T Consensus 155 ~~is~~FPVQ~aVlp~ll~~~~~p~~~r~rDIcV~ApTGSGKTLaY~iPIVQ~L~~R~v~~LRavVivPtr~L~~QV~~~ 234 (620)
T KOG0350|consen 155 MAISRLFPVQYAVLPSLLEEIRSPPPSRPRDICVNAPTGSGKTLAYVIPIVQLLSSRPVKRLRAVVIVPTRELALQVYDT 234 (620)
T ss_pred hhcccccchHHHHHHHHHHhhcCCCCCCCCceEEecCCCCCceeeehhHHHHHHccCCccceEEEEEeeHHHHHHHHHHH
Confidence 3445577889999998732 57999999999999999998888864433 23789999999999999996
Q ss_pred HHHHhCCccCCeeEEEeecccc-------cC----CCceEEEeChHHHHHHHhhCC--CCCCCceEEEcCCCcCCCch--
Q 001046 588 VAEEFGCRLGEEVGYAIRFEDC-------TG----PDTVIKYMTDGMLLREILIDD--NLSQYSVIMLDEAHERTIHT-- 652 (1176)
Q Consensus 588 va~e~g~~~G~~vGy~ir~~~~-------~~----~~t~I~~~T~g~Llr~l~~~~--~L~~~s~IIiDEaHeR~~~~-- 652 (1176)
+ +.+....|..|+......+. .+ ...+|+++|||+|.+++.+.+ .|.++.++|||||+ |.++.
T Consensus 235 f-~~~~~~tgL~V~~~sgq~sl~~E~~qL~~~~~~~~~DIlVaTPGRLVDHl~~~k~f~Lk~LrfLVIDEAD-Rll~qsf 312 (620)
T KOG0350|consen 235 F-KRLNSGTGLAVCSLSGQNSLEDEARQLASDPPECRIDILVATPGRLVDHLNNTKSFDLKHLRFLVIDEAD-RLLDQSF 312 (620)
T ss_pred H-HHhccCCceEEEecccccchHHHHHHHhcCCCccccceEEcCchHHHHhccCCCCcchhhceEEEechHH-HHHHHHH
Confidence 6 44545566666644332221 11 135899999999999998655 79999999999999 33221
Q ss_pred ----hHHHHHHH------------------------HHHh----hCCCccEEEEcCCC--CHHHHHhhhcCCC-eEecCC
Q 001046 653 ----DVLFGLLK------------------------QLVK----RRPDLRLIVTSATL--DAEKFSGYFFNCN-IFTIPG 697 (1176)
Q Consensus 653 ----d~ll~llk------------------------~~~~----~r~~~kvIlmSATl--~~~~~~~~f~~~~-v~~i~g 697 (1176)
|.++..++ .+.. ..+.+.-+++|||+ ++.++.++-.+.| ++.+.+
T Consensus 313 Q~Wl~~v~~~~~~~k~~~~~~nii~~~~~~~pt~~~e~~t~~~~~~~~l~kL~~satLsqdP~Kl~~l~l~~Prl~~v~~ 392 (620)
T KOG0350|consen 313 QEWLDTVMSLCKTMKRVACLDNIIRQRQAPQPTVLSELLTKLGKLYPPLWKLVFSATLSQDPSKLKDLTLHIPRLFHVSK 392 (620)
T ss_pred HHHHHHHHHHhCCchhhcChhhhhhhcccCCchhhHHHHhhcCCcCchhHhhhcchhhhcChHHHhhhhcCCCceEEeec
Confidence 11111111 1111 13455678899999 6888888877666 555543
Q ss_pred ceeeeEEEEecCCCc--hhH----HHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEec
Q 001046 698 RTFPVEILYTKQPES--DYL----DASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVY 771 (1176)
Q Consensus 698 r~~pv~~~~~~~~~~--~~~----~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lh 771 (1176)
. .-..|.-.+.. .++ .-....+...........+|+|+++.+.+.+++..|.-.+.. .+..+-.+.
T Consensus 393 ~---~~~ryslp~~l~~~~vv~~~~~kpl~~~~lI~~~k~~r~lcf~~S~~sa~Rl~~~L~v~~~~-----~~~~~s~~t 464 (620)
T KOG0350|consen 393 P---LIGRYSLPSSLSHRLVVTEPKFKPLAVYALITSNKLNRTLCFVNSVSSANRLAHVLKVEFCS-----DNFKVSEFT 464 (620)
T ss_pred c---cceeeecChhhhhceeecccccchHhHHHHHHHhhcceEEEEecchHHHHHHHHHHHHHhcc-----ccchhhhhh
Confidence 1 11122111100 000 001112222233345678999999999999999998743322 345555688
Q ss_pred CCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCC
Q 001046 772 SALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGR 851 (1176)
Q Consensus 772 s~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR 851 (1176)
|+|....|.+.++.|..|.+.|||||+++++|||+.+|+.||||+. |.+..+|+||+||+||
T Consensus 465 ~~l~~k~r~k~l~~f~~g~i~vLIcSD~laRGiDv~~v~~VINYd~------------------P~~~ktyVHR~GRTAR 526 (620)
T KOG0350|consen 465 GQLNGKRRYKMLEKFAKGDINVLICSDALARGIDVNDVDNVINYDP------------------PASDKTYVHRAGRTAR 526 (620)
T ss_pred hhhhHHHHHHHHHHHhcCCceEEEehhhhhcCCcccccceEeecCC------------------CchhhHHHHhhccccc
Confidence 9999999999999999999999999999999999999999999999 9999999999999999
Q ss_pred CC-CcEEEEecChHHH
Q 001046 852 TG-PGKCYRLYTESAY 866 (1176)
Q Consensus 852 ~g-~G~c~~L~t~~~~ 866 (1176)
+| .|.||.|.+....
T Consensus 527 Agq~G~a~tll~~~~~ 542 (620)
T KOG0350|consen 527 AGQDGYAITLLDKHEK 542 (620)
T ss_pred ccCCceEEEeeccccc
Confidence 99 7999999987654
No 53
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.97 E-value=1.8e-31 Score=290.20 Aligned_cols=304 Identities=21% Similarity=0.241 Sum_probs=232.9
Q ss_pred HHc--CCeEEEEcCCCCcHHHHHHHHHHHhccc--CCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccC
Q 001046 536 VHD--NQVLVVIGETGSGKTTQVTQYLAEAGYT--TRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTG 611 (1176)
Q Consensus 536 i~~--~~~vIv~apTGSGKTt~~~~~lle~~~~--~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~ 611 (1176)
++. .+++|.++..|+|||++|.+.++...-. ...+.+|+.|+|+||.|+.+ |..++|...+....|.++......
T Consensus 124 ll~~Pp~nlIaQsqsGtGKTaaFvL~MLsrvd~~~~~PQ~iCLaPtrELA~Q~~e-Vv~eMGKf~~ita~yair~sk~~r 202 (477)
T KOG0332|consen 124 LLAEPPQNLIAQSQSGTGKTAAFVLTMLSRVDPDVVVPQCICLAPTRELAPQTGE-VVEEMGKFTELTASYAIRGSKAKR 202 (477)
T ss_pred hhcCCchhhhhhhcCCCchhHHHHHHHHHhcCccccCCCceeeCchHHHHHHHHH-HHHHhcCceeeeEEEEecCccccc
Confidence 554 4799999999999999999998874321 23478999999999999998 668999988888899998763322
Q ss_pred ---CCceEEEeChHHHHHHHhhC--CCCCCCceEEEcCCCcCCCchhHHHHHHHHHHh-hCCCccEEEEcCCCC--HHHH
Q 001046 612 ---PDTVIKYMTDGMLLREILID--DNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVK-RRPDLRLIVTSATLD--AEKF 683 (1176)
Q Consensus 612 ---~~t~I~~~T~g~Llr~l~~~--~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~-~r~~~kvIlmSATl~--~~~~ 683 (1176)
-...|++.|||.+++++..- -.+..+.++|+|||+. +++++-+-..--.+.. ..++.++|++|||.. ...|
T Consensus 203 G~~i~eqIviGTPGtv~Dlm~klk~id~~kikvfVlDEAD~-Mi~tqG~~D~S~rI~~~lP~~~QllLFSATf~e~V~~F 281 (477)
T KOG0332|consen 203 GNKLTEQIVIGTPGTVLDLMLKLKCIDLEKIKVFVLDEADV-MIDTQGFQDQSIRIMRSLPRNQQLLLFSATFVEKVAAF 281 (477)
T ss_pred CCcchhheeeCCCccHHHHHHHHHhhChhhceEEEecchhh-hhhcccccccchhhhhhcCCcceEEeeechhHHHHHHH
Confidence 24689999999999998762 3788999999999983 3333211111111222 235899999999995 5667
Q ss_pred Hhhhc-CCCeEecCCc---eeeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccC
Q 001046 684 SGYFF-NCNIFTIPGR---TFPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGLG 759 (1176)
Q Consensus 684 ~~~f~-~~~v~~i~gr---~~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~ 759 (1176)
+..+. ++.++.+..+ .++|..+|...+..+. ....+..+...-.-|+.+|||.++..+.+++..+.+.
T Consensus 282 a~kivpn~n~i~Lk~eel~L~~IkQlyv~C~~~~~---K~~~l~~lyg~~tigqsiIFc~tk~ta~~l~~~m~~~----- 353 (477)
T KOG0332|consen 282 ALKIVPNANVIILKREELALDNIKQLYVLCACRDD---KYQALVNLYGLLTIGQSIIFCHTKATAMWLYEEMRAE----- 353 (477)
T ss_pred HHHhcCCCceeeeehhhccccchhhheeeccchhh---HHHHHHHHHhhhhhhheEEEEeehhhHHHHHHHHHhc-----
Confidence 66554 4555554433 3677777776655432 3344444555556689999999999999888888763
Q ss_pred CCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCH
Q 001046 760 KNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQ 839 (1176)
Q Consensus 760 ~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~ 839 (1176)
+..+..+||.|..++|..+++.|+.|.-||||+||+.++|||++.|.+||||++. ..|+ .-.+.
T Consensus 354 ----Gh~V~~l~G~l~~~~R~~ii~~Fr~g~~kVLitTnV~ARGiDv~qVs~VvNydlP--~~~~----------~~pD~ 417 (477)
T KOG0332|consen 354 ----GHQVSLLHGDLTVEQRAAIIDRFREGKEKVLITTNVCARGIDVAQVSVVVNYDLP--VKYT----------GEPDY 417 (477)
T ss_pred ----CceeEEeeccchhHHHHHHHHHHhcCcceEEEEechhhcccccceEEEEEecCCc--cccC----------CCCCH
Confidence 6788999999999999999999999999999999999999999999999999991 1111 12578
Q ss_pred HHHHHHhcccCCCC-CcEEEEecChHH
Q 001046 840 ASAKQRAGRAGRTG-PGKCYRLYTESA 865 (1176)
Q Consensus 840 as~~QR~GRAGR~g-~G~c~~L~t~~~ 865 (1176)
+.|.||+||+||.| .|.+|.|.....
T Consensus 418 etYlHRiGRtGRFGkkG~a~n~v~~~~ 444 (477)
T KOG0332|consen 418 ETYLHRIGRTGRFGKKGLAINLVDDKD 444 (477)
T ss_pred HHHHHHhcccccccccceEEEeecccC
Confidence 99999999999999 799999886543
No 54
>TIGR00580 mfd transcription-repair coupling factor (mfd). All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transacribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families.
Probab=99.97 E-value=3.7e-30 Score=326.23 Aligned_cols=298 Identities=18% Similarity=0.208 Sum_probs=217.3
Q ss_pred chHHHHHHHHHHHcC------CeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCC
Q 001046 525 IYKLKKELIQAVHDN------QVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGE 598 (1176)
Q Consensus 525 i~~~q~~ii~ai~~~------~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~ 598 (1176)
..+.|.++++.+.++ .+++++|+||||||.++..+++... ..+.++++++||++||.|++..+.+.++ ..+.
T Consensus 452 ~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al-~~g~qvlvLvPT~~LA~Q~~~~f~~~~~-~~~i 529 (926)
T TIGR00580 452 ETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAV-LDGKQVAVLVPTTLLAQQHFETFKERFA-NFPV 529 (926)
T ss_pred CCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHH-HhCCeEEEEeCcHHHHHHHHHHHHHHhc-cCCc
Confidence 467899999999875 6899999999999999888877653 3457899999999999999998877653 2344
Q ss_pred eeEEEeeccc----------ccCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCC
Q 001046 599 EVGYAIRFED----------CTGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPD 668 (1176)
Q Consensus 599 ~vGy~ir~~~----------~~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~ 668 (1176)
.++...++.. ......+|+++|+..+ ..+-.+.++++|||||+|.-+.. ....+....++
T Consensus 530 ~v~~Lsg~~~~~e~~~~~~~l~~g~~dIVIGTp~ll----~~~v~f~~L~llVIDEahrfgv~------~~~~L~~~~~~ 599 (926)
T TIGR00580 530 TIELLSRFRSAKEQNEILKELASGKIDILIGTHKLL----QKDVKFKDLGLLIIDEEQRFGVK------QKEKLKELRTS 599 (926)
T ss_pred EEEEEeccccHHHHHHHHHHHHcCCceEEEchHHHh----hCCCCcccCCEEEeecccccchh------HHHHHHhcCCC
Confidence 4443322211 1123578999999533 33446899999999999963221 12222334568
Q ss_pred ccEEEEcCCCCHHHHHhhhc---CCCeEec-CCceeeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHH
Q 001046 669 LRLIVTSATLDAEKFSGYFF---NCNIFTI-PGRTFPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEEI 744 (1176)
Q Consensus 669 ~kvIlmSATl~~~~~~~~f~---~~~v~~i-~gr~~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei 744 (1176)
.++++||||+.+..+...+. +..++.. +....|+..++..... ..+.. .+.. ....+++++||||+.+++
T Consensus 600 ~~vL~~SATpiprtl~~~l~g~~d~s~I~~~p~~R~~V~t~v~~~~~-~~i~~---~i~~--el~~g~qv~if~n~i~~~ 673 (926)
T TIGR00580 600 VDVLTLSATPIPRTLHMSMSGIRDLSIIATPPEDRLPVRTFVMEYDP-ELVRE---AIRR--ELLRGGQVFYVHNRIESI 673 (926)
T ss_pred CCEEEEecCCCHHHHHHHHhcCCCcEEEecCCCCccceEEEEEecCH-HHHHH---HHHH--HHHcCCeEEEEECCcHHH
Confidence 89999999987665543322 2223333 2234567666553321 11111 1111 112468999999999999
Q ss_pred HHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceecc
Q 001046 745 DFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYN 824 (1176)
Q Consensus 745 ~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd 824 (1176)
+.+++.|.+.+ +++.+..+||+|++++|..+++.|..|+.+|||||+++|+|||||++++||.++.
T Consensus 674 e~l~~~L~~~~-------p~~~v~~lHG~m~~~eRe~im~~F~~Gk~~ILVaT~iie~GIDIp~v~~VIi~~a------- 739 (926)
T TIGR00580 674 EKLATQLRELV-------PEARIAIAHGQMTENELEEVMLEFYKGEFQVLVCTTIIETGIDIPNANTIIIERA------- 739 (926)
T ss_pred HHHHHHHHHhC-------CCCeEEEecCCCCHHHHHHHHHHHHcCCCCEEEECChhhcccccccCCEEEEecC-------
Confidence 99998887642 5678999999999999999999999999999999999999999999999996554
Q ss_pred CCCCCccccccccCHHHHHHHhcccCCCC-CcEEEEecChH
Q 001046 825 PKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTES 864 (1176)
Q Consensus 825 ~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~ 864 (1176)
. ..+.++|.||+||+||.| .|.||.|++..
T Consensus 740 -~---------~~gls~l~Qr~GRvGR~g~~g~aill~~~~ 770 (926)
T TIGR00580 740 -D---------KFGLAQLYQLRGRVGRSKKKAYAYLLYPHQ 770 (926)
T ss_pred -C---------CCCHHHHHHHhcCCCCCCCCeEEEEEECCc
Confidence 0 124568999999999999 89999999754
No 55
>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype. This model describes a CRISPR-associated putative DEAH-box helicase, or Cas3, of a subtype found in Actinomyces naeslundii MG1, Geobacter sulfurreducens PCA, Gemmata obscuriglobus UQM 2246, and Desulfotalea psychrophila. This protein includes both DEAH and HD motifs.
Probab=99.97 E-value=2.1e-30 Score=319.43 Aligned_cols=346 Identities=16% Similarity=0.162 Sum_probs=217.3
Q ss_pred chHHHHHHHHHHHcCC-eEEEEcCCCCcHHHHHHHHHHHhcc--cCCCEEEEeccHHHHHHHHHHHHHHHhCCcc-----
Q 001046 525 IYKLKKELIQAVHDNQ-VLVVIGETGSGKTTQVTQYLAEAGY--TTRGKIGCTQPRRVAAMSVAKRVAEEFGCRL----- 596 (1176)
Q Consensus 525 i~~~q~~ii~ai~~~~-~vIv~apTGSGKTt~~~~~lle~~~--~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~----- 596 (1176)
.+++|.++++.+..|+ ++++++|||||||.++..+++.... ....++++++|||+||.|+++.+.. ++..+
T Consensus 16 PtpiQ~~~i~~il~G~~~v~~~apTGSGKTaa~aafll~~~~~~~~~~rLv~~vPtReLa~Qi~~~~~~-~~k~l~~~~~ 94 (844)
T TIGR02621 16 PFPWQLSLAERFVAGQPPESCSTPTGLGKTSIIAAWLLAVEIGAKVPRRLVYVVNRRTVVDQVTEEAEK-IGERLPDVPE 94 (844)
T ss_pred CCHHHHHHHHHHHcCCCcceEecCCCCcccHHHHHhhccccccccccceEEEeCchHHHHHHHHHHHHH-HHHHhcccch
Confidence 6789999999999998 6777899999999876655553211 1123567788999999999986544 33222
Q ss_pred ------------------CCeeEEEeecccc------cCCCceEEEeChHHHHHHHhhC-------------CCCCCCce
Q 001046 597 ------------------GEEVGYAIRFEDC------TGPDTVIKYMTDGMLLREILID-------------DNLSQYSV 639 (1176)
Q Consensus 597 ------------------G~~vGy~ir~~~~------~~~~t~I~~~T~g~Llr~l~~~-------------~~L~~~s~ 639 (1176)
+..+...+.+... ......|+++|..++.+.++.. ..|.++++
T Consensus 95 ~~~~~~~~~~~~~~~~~~~l~v~~l~GG~~~~~q~~~l~~~p~IIVgT~D~i~sr~L~~gYg~~~~~~pi~ag~L~~v~~ 174 (844)
T TIGR02621 95 VEAALWALCSTRPEKKDRPLAISTLRGQFADNDEWMLDPHRPAVIVGTVDMIGSRLLFSGYGCGFKSRPLHAGFLGQDAL 174 (844)
T ss_pred hhhhhhhhhccccccccCCeEEEEEECCCChHHHHHhcCCCCcEEEECHHHHcCCccccccccccccccchhhhhccceE
Confidence 1222222222111 2245789999977765554421 13788999
Q ss_pred EEEcCCCcCCCchhHHHHHHHHHHhh--CCCccEEEEcCCCCH--HHHHhhhcCCCe-EecCCceeee--EEEEecCCCc
Q 001046 640 IMLDEAHERTIHTDVLFGLLKQLVKR--RPDLRLIVTSATLDA--EKFSGYFFNCNI-FTIPGRTFPV--EILYTKQPES 712 (1176)
Q Consensus 640 IIiDEaHeR~~~~d~ll~llk~~~~~--r~~~kvIlmSATl~~--~~~~~~f~~~~v-~~i~gr~~pv--~~~~~~~~~~ 712 (1176)
|||||||..+...+.+..+++.+... ..++|+++||||++. ..+...+...+. +.+....... ...|......
T Consensus 175 LVLDEADLd~gF~~~l~~Il~~l~rp~~~rprQtLLFSAT~p~ei~~l~~~~~~~p~~i~V~~~~l~a~ki~q~v~v~~e 254 (844)
T TIGR02621 175 IVHDEAHLEPAFQELLKQIMNEQQRPPDFLPLRVVELTATSRTDGPDRTTLLSAEDYKHPVLKKRLAAKKIVKLVPPSDE 254 (844)
T ss_pred EEEehhhhccccHHHHHHHHHhcccCcccccceEEEEecCCCccHHHHHHHHccCCceeecccccccccceEEEEecChH
Confidence 99999996666556555555543111 123799999999963 344444543332 2222211111 1123222222
Q ss_pred hhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHH-----hhcCCCC
Q 001046 713 DYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQS-----RIFDPAP 787 (1176)
Q Consensus 713 ~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~-----~i~~~f~ 787 (1176)
..+...+..+..+ ....++++||||||++.++.+++.|.+. ++ ..+||.|++.+|. .+++.|.
T Consensus 255 ~Kl~~lv~~L~~l-l~e~g~~vLVF~NTv~~Aq~L~~~L~~~---------g~--~lLHG~m~q~dR~~~~~~~il~~Fk 322 (844)
T TIGR02621 255 KFLSTMVKELNLL-MKDSGGAILVFCRTVKHVRKVFAKLPKE---------KF--ELLTGTLRGAERDDLVKKEIFNRFL 322 (844)
T ss_pred HHHHHHHHHHHHH-HhhCCCcEEEEECCHHHHHHHHHHHHhc---------CC--eEeeCCCCHHHHhhHHHHHHHHHHh
Confidence 2222223333222 2345789999999999999999998652 22 7899999999999 7788887
Q ss_pred C----CC-------ceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCCC--
Q 001046 788 P----GK-------RKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTGP-- 854 (1176)
Q Consensus 788 ~----g~-------~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g~-- 854 (1176)
+ |. .+|||||+++|+||||+. ++||+... | .++|+||+||+||.|.
T Consensus 323 ~~~~~g~~~~~~~g~~ILVATdVaerGLDId~-d~VI~d~a------------------P--~esyIQRiGRtgR~G~~~ 381 (844)
T TIGR02621 323 PQMLSGSRARPQQGTVYLVCTSAGEVGVNISA-DHLVCDLA------------------P--FESMQQRFGRVNRFGELQ 381 (844)
T ss_pred ccccccccccccccceEEeccchhhhcccCCc-ceEEECCC------------------C--HHHHHHHhcccCCCCCCC
Confidence 6 43 689999999999999997 67774323 4 5899999999999983
Q ss_pred cEEEEecChHHHhhhCCCCCchhhhhcChHHHHHHHHHcCCCccccCCCC
Q 001046 855 GKCYRLYTESAYRNEMSPTSIPEIQRINLGFTTLTMKAMGINDLLSFDFM 904 (1176)
Q Consensus 855 G~c~~L~t~~~~~~~l~~~~~pEI~r~~L~~~~L~lk~~gi~~~~~f~~~ 904 (1176)
|..+.+++...-...-....-|+++...+..+.+..+..|..+...|.++
T Consensus 382 ~~~i~vv~~~~~~~~~~~vY~~~~l~~t~~~L~~~~~~~~~~~~~al~~l 431 (844)
T TIGR02621 382 ACQIAVVHLDLGKDQDFDVYGKKIDKSTWSTLKKLQQLKGKNKRAALGVL 431 (844)
T ss_pred CceEEEEeeccCCCcccCCCCHHHHHHHHHHHHHHHhccccCCHHHHhhc
Confidence 33344443311111011122478888777666655555454343333333
No 56
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=99.97 E-value=1.1e-30 Score=338.47 Aligned_cols=293 Identities=21% Similarity=0.212 Sum_probs=203.5
Q ss_pred EEcCCCCcHHHHHHHHHHHhccc------------CCCEEEEeccHHHHHHHHHHHHHHH----------hCC-ccCCee
Q 001046 544 VIGETGSGKTTQVTQYLAEAGYT------------TRGKIGCTQPRRVAAMSVAKRVAEE----------FGC-RLGEEV 600 (1176)
Q Consensus 544 v~apTGSGKTt~~~~~lle~~~~------------~~~~Ilv~~PrR~lA~qva~rva~e----------~g~-~~G~~v 600 (1176)
|++|||||||.++.+++++..+. .+.+++|+.|+|+|+.|+.+++... +|. ..+..|
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~~~~~~~~~~~~~~~~raLYISPLKALa~Dv~~~L~~pl~~i~~~~~~~g~~~~~i~V 80 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNLQIPLKGIADERRRRGETEVNLRV 80 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHhcccccccccccCCCCEEEEEeChHHHHHHHHHHHHHHHHhhhhhhhhcccccCceEE
Confidence 58999999999999988775442 2358999999999999999887531 111 234444
Q ss_pred EEEeeccc------ccCCCceEEEeChHHHHHHHhhC--CCCCCCceEEEcCCCc-----CCCchhHHHHHHHHHHhhCC
Q 001046 601 GYAIRFED------CTGPDTVIKYMTDGMLLREILID--DNLSQYSVIMLDEAHE-----RTIHTDVLFGLLKQLVKRRP 667 (1176)
Q Consensus 601 Gy~ir~~~------~~~~~t~I~~~T~g~Llr~l~~~--~~L~~~s~IIiDEaHe-----R~~~~d~ll~llk~~~~~r~ 667 (1176)
+....... ......+|+++||+.|..++... ..|+++++|||||+|. |+.+....+..|..++ ..
T Consensus 81 ~vrtGDt~~~eR~rll~~ppdILVTTPEsL~~LLtsk~r~~L~~Vr~VIVDE~H~L~g~kRG~~Lel~LeRL~~l~--~~ 158 (1490)
T PRK09751 81 GIRTGDTPAQERSKLTRNPPDILITTPESLYLMLTSRARETLRGVETVIIDEVHAVAGSKRGAHLALSLERLDALL--HT 158 (1490)
T ss_pred EEEECCCCHHHHHHHhcCCCCEEEecHHHHHHHHhhhhhhhhccCCEEEEecHHHhcccccccHHHHHHHHHHHhC--CC
Confidence 42221111 11245799999999998776543 2689999999999994 3444444444444442 34
Q ss_pred CccEEEEcCCC-CHHHHHhhhcCC-Ce--EecC-CceeeeEEEEecCCCchh------------------HH-HHHHHHH
Q 001046 668 DLRLIVTSATL-DAEKFSGYFFNC-NI--FTIP-GRTFPVEILYTKQPESDY------------------LD-ASLITVL 723 (1176)
Q Consensus 668 ~~kvIlmSATl-~~~~~~~~f~~~-~v--~~i~-gr~~pv~~~~~~~~~~~~------------------~~-~~l~~v~ 723 (1176)
+.|+|++|||+ |.+.+++|+.+. ++ +..+ .+..++.+++......+. +. .....++
T Consensus 159 ~~QrIgLSATI~n~eevA~~L~g~~pv~Iv~~~~~r~~~l~v~vp~~d~~~~~~~~~~~~~~~~~~r~~~i~~~v~~~il 238 (1490)
T PRK09751 159 SAQRIGLSATVRSASDVAAFLGGDRPVTVVNPPAMRHPQIRIVVPVANMDDVSSVASGTGEDSHAGREGSIWPYIETGIL 238 (1490)
T ss_pred CCeEEEEEeeCCCHHHHHHHhcCCCCEEEECCCCCcccceEEEEecCchhhccccccccccccchhhhhhhhHHHHHHHH
Confidence 78999999999 678899988653 33 2211 123344433221110000 00 0111122
Q ss_pred HHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhcc------------------C------CCCCCeEEEEecCCCCHHHH
Q 001046 724 QIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGL------------------G------KNVPELIILPVYSALPSEMQ 779 (1176)
Q Consensus 724 ~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l------------------~------~~~~~~~v~~lhs~l~~~~r 779 (1176)
.. .....++||||||+..++.++..|.+..... + .+...+.+..+||+|+.++|
T Consensus 239 ~~--i~~~~stLVFvNSR~~AE~La~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ia~~HHGsLSkeeR 316 (1490)
T PRK09751 239 DE--VLRHRSTIVFTNSRGLAEKLTARLNELYAARLQRSPSIAVDAAHFESTSGATSNRVQSSDVFIARSHHGSVSKEQR 316 (1490)
T ss_pred HH--HhcCCCEEEECCCHHHHHHHHHHHHHhhhhhccccccccchhhhhhhccccchhccccccceeeeeccccCCHHHH
Confidence 21 1245789999999999999999997653210 0 00112446789999999999
Q ss_pred HhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCCC--cEE
Q 001046 780 SRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTGP--GKC 857 (1176)
Q Consensus 780 ~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g~--G~c 857 (1176)
..|++.|++|.++|||||+++|+||||++|++||++|. |.|.++|+||+|||||... +.+
T Consensus 317 ~~IE~~fK~G~LrvLVATssLELGIDIg~VDlVIq~gs------------------P~sVas~LQRiGRAGR~~gg~s~g 378 (1490)
T PRK09751 317 AITEQALKSGELRCVVATSSLELGIDMGAVDLVIQVAT------------------PLSVASGLQRIGRAGHQVGGVSKG 378 (1490)
T ss_pred HHHHHHHHhCCceEEEeCcHHHccCCcccCCEEEEeCC------------------CCCHHHHHHHhCCCCCCCCCccEE
Confidence 99999999999999999999999999999999999998 9999999999999999743 444
Q ss_pred E
Q 001046 858 Y 858 (1176)
Q Consensus 858 ~ 858 (1176)
+
T Consensus 379 l 379 (1490)
T PRK09751 379 L 379 (1490)
T ss_pred E
Confidence 4
No 57
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=99.97 E-value=3.6e-32 Score=295.35 Aligned_cols=308 Identities=20% Similarity=0.216 Sum_probs=223.3
Q ss_pred HHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHH----Hhc----c--cCCCEEEEeccHHHHHHHHHHHHHHHh-----
Q 001046 528 LKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLA----EAG----Y--TTRGKIGCTQPRRVAAMSVAKRVAEEF----- 592 (1176)
Q Consensus 528 ~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~ll----e~~----~--~~~~~Ilv~~PrR~lA~qva~rva~e~----- 592 (1176)
+|-+-++.+++|++.|.+|-||||||..|.+++. +.- + ..+.--++++|.|+||.|...-+.+..
T Consensus 196 IQvQGlPvvLsGRDmIGIAfTGSGKTlvFvLP~imf~LeqE~~lPf~~~EGP~gLiicPSRELArQt~~iie~~~~~L~e 275 (610)
T KOG0341|consen 196 IQVQGLPVVLSGRDMIGIAFTGSGKTLVFVLPVIMFALEQEMMLPFARGEGPYGLIICPSRELARQTHDIIEQYVAALQE 275 (610)
T ss_pred eeecCcceEeecCceeeEEeecCCceEEEeHHHHHHHHHHHhcCccccCCCCeeEEEcCcHHHHHHHHHHHHHHHHHHHh
Confidence 3666666699999999999999999966555443 221 1 123456889999999999987554322
Q ss_pred -CCc---cCCeeE-EEeec-ccccCCCceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCCcCCCchhHHHHHHHHHHhh
Q 001046 593 -GCR---LGEEVG-YAIRF-EDCTGPDTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKR 665 (1176)
Q Consensus 593 -g~~---~G~~vG-y~ir~-~~~~~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~ 665 (1176)
|.+ .+..+| ..++- -+....+.+|+++|||+|.++|...- .|.-+.++.+|||+ |.+++.|--.+-..+...
T Consensus 276 ~g~P~lRs~LciGG~~v~eql~~v~~GvHivVATPGRL~DmL~KK~~sLd~CRyL~lDEAD-RmiDmGFEddir~iF~~F 354 (610)
T KOG0341|consen 276 AGYPELRSLLCIGGVPVREQLDVVRRGVHIVVATPGRLMDMLAKKIMSLDACRYLTLDEAD-RMIDMGFEDDIRTIFSFF 354 (610)
T ss_pred cCChhhhhhhhhcCccHHHHHHHHhcCeeEEEcCcchHHHHHHHhhccHHHHHHhhhhhHH-HHhhccchhhHHHHHHHH
Confidence 111 011111 11111 12345688999999999999987655 68889999999999 887776543332222223
Q ss_pred CCCccEEEEcCCCC--HHHHHhhhcCCCeEecCCceeeeEEEEecCCCchhHHH--HHHHHHHHHhcCCCCCEEEEeCCH
Q 001046 666 RPDLRLIVTSATLD--AEKFSGYFFNCNIFTIPGRTFPVEILYTKQPESDYLDA--SLITVLQIHLTEPEGDILLFLTGQ 741 (1176)
Q Consensus 666 r~~~kvIlmSATl~--~~~~~~~f~~~~v~~i~gr~~pv~~~~~~~~~~~~~~~--~l~~v~~i~~~~~~g~iLVFl~~~ 741 (1176)
....|.+++|||++ ...|+.--.-.|+..--||.-........ +-.|+.. .+..++. ++.....++|||+..+
T Consensus 355 K~QRQTLLFSATMP~KIQ~FAkSALVKPvtvNVGRAGAAsldViQ--evEyVkqEaKiVylLe-CLQKT~PpVLIFaEkK 431 (610)
T KOG0341|consen 355 KGQRQTLLFSATMPKKIQNFAKSALVKPVTVNVGRAGAASLDVIQ--EVEYVKQEAKIVYLLE-CLQKTSPPVLIFAEKK 431 (610)
T ss_pred hhhhheeeeeccccHHHHHHHHhhcccceEEecccccccchhHHH--HHHHHHhhhhhhhHHH-HhccCCCceEEEeccc
Confidence 34678999999997 45666655555555444543222211111 2234432 2333333 2445567999999999
Q ss_pred HHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccce
Q 001046 742 EEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQN 821 (1176)
Q Consensus 742 ~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~ 821 (1176)
.+++.+.++|.- .++.++.+||+-.+++|...++.|+.|+..|+|||++|..|+|+|+|.+||||++
T Consensus 432 ~DVD~IhEYLLl---------KGVEavaIHGGKDQedR~~ai~afr~gkKDVLVATDVASKGLDFp~iqHVINyDM---- 498 (610)
T KOG0341|consen 432 ADVDDIHEYLLL---------KGVEAVAIHGGKDQEDRHYAIEAFRAGKKDVLVATDVASKGLDFPDIQHVINYDM---- 498 (610)
T ss_pred cChHHHHHHHHH---------ccceeEEeecCcchhHHHHHHHHHhcCCCceEEEecchhccCCCccchhhccCCC----
Confidence 999999988853 3788999999999999999999999999999999999999999999999999999
Q ss_pred eccCCCCCccccccccCHHHHHHHhcccCCCC-CcEEEEecChHHH
Q 001046 822 VYNPKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTESAY 866 (1176)
Q Consensus 822 ~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~ 866 (1176)
|-..++|+||+||+||.| .|.+.+|..+..-
T Consensus 499 --------------P~eIENYVHRIGRTGRsg~~GiATTfINK~~~ 530 (610)
T KOG0341|consen 499 --------------PEEIENYVHRIGRTGRSGKTGIATTFINKNQE 530 (610)
T ss_pred --------------hHHHHHHHHHhcccCCCCCcceeeeeecccch
Confidence 999999999999999999 7999999887654
No 58
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=99.97 E-value=1e-29 Score=318.39 Aligned_cols=296 Identities=16% Similarity=0.196 Sum_probs=212.0
Q ss_pred chHHHHHHHHHHHcC------CeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCC
Q 001046 525 IYKLKKELIQAVHDN------QVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGE 598 (1176)
Q Consensus 525 i~~~q~~ii~ai~~~------~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~ 598 (1176)
+.+.|.++++.|..+ .+++++|+||||||.++..+++... ..+.++++++||++||.|++..+.+.+ ...|.
T Consensus 262 lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~-~~g~q~lilaPT~~LA~Q~~~~l~~l~-~~~~i 339 (681)
T PRK10917 262 LTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAI-EAGYQAALMAPTEILAEQHYENLKKLL-EPLGI 339 (681)
T ss_pred CCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHH-HcCCeEEEEeccHHHHHHHHHHHHHHH-hhcCc
Confidence 578899999998776 4899999999999999988887753 446789999999999999999887655 33445
Q ss_pred eeEEEeeccc----------ccCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCC
Q 001046 599 EVGYAIRFED----------CTGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPD 668 (1176)
Q Consensus 599 ~vGy~ir~~~----------~~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~ 668 (1176)
.++....... .......|+++|++.+.. ...+.++++|||||+|.-+.. ....+......
T Consensus 340 ~v~ll~G~~~~~~r~~~~~~l~~g~~~IvVgT~~ll~~----~v~~~~l~lvVIDE~Hrfg~~------qr~~l~~~~~~ 409 (681)
T PRK10917 340 RVALLTGSLKGKERREILEAIASGEADIVIGTHALIQD----DVEFHNLGLVIIDEQHRFGVE------QRLALREKGEN 409 (681)
T ss_pred EEEEEcCCCCHHHHHHHHHHHhCCCCCEEEchHHHhcc----cchhcccceEEEechhhhhHH------HHHHHHhcCCC
Confidence 5554433322 123468999999987643 235789999999999953221 11222233446
Q ss_pred ccEEEEcCCCCHHHHHhh-hcCCCeEe---cCCceeeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHH-
Q 001046 669 LRLIVTSATLDAEKFSGY-FFNCNIFT---IPGRTFPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEE- 743 (1176)
Q Consensus 669 ~kvIlmSATl~~~~~~~~-f~~~~v~~---i~gr~~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~e- 743 (1176)
.++++||||+.+..++.. ++...+.. .+....|+...+...... ...+..+.... ..+.+++||||..++
T Consensus 410 ~~iL~~SATp~prtl~~~~~g~~~~s~i~~~p~~r~~i~~~~~~~~~~---~~~~~~i~~~~--~~g~q~~v~~~~ie~s 484 (681)
T PRK10917 410 PHVLVMTATPIPRTLAMTAYGDLDVSVIDELPPGRKPITTVVIPDSRR---DEVYERIREEI--AKGRQAYVVCPLIEES 484 (681)
T ss_pred CCEEEEeCCCCHHHHHHHHcCCCceEEEecCCCCCCCcEEEEeCcccH---HHHHHHHHHHH--HcCCcEEEEEcccccc
Confidence 789999999876554432 33322222 233234666655543322 22222222221 356799999996543
Q ss_pred -------HHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCC
Q 001046 744 -------IDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPG 816 (1176)
Q Consensus 744 -------i~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g 816 (1176)
++.+++.|.+. .+++.+..+||+|++++|..+++.|+.|+.+|||||+++|+|||+|++++||.++
T Consensus 485 ~~l~~~~~~~~~~~L~~~-------~~~~~v~~lHG~m~~~eR~~i~~~F~~g~~~ILVaT~vie~GiDip~v~~VIi~~ 557 (681)
T PRK10917 485 EKLDLQSAEETYEELQEA-------FPELRVGLLHGRMKPAEKDAVMAAFKAGEIDILVATTVIEVGVDVPNATVMVIEN 557 (681)
T ss_pred cchhHHHHHHHHHHHHHH-------CCCCcEEEEeCCCCHHHHHHHHHHHHcCCCCEEEECcceeeCcccCCCcEEEEeC
Confidence 33445555432 2347799999999999999999999999999999999999999999999999777
Q ss_pred cccceeccCCCCCccccccc-cCHHHHHHHhcccCCCC-CcEEEEecC
Q 001046 817 FAKQNVYNPKQGLDSLVITP-ISQASAKQRAGRAGRTG-PGKCYRLYT 862 (1176)
Q Consensus 817 ~~k~~~yd~~~g~~~l~~~p-~S~as~~QR~GRAGR~g-~G~c~~L~t 862 (1176)
. | .+.+++.||+|||||.| +|.||.+++
T Consensus 558 ~------------------~r~gls~lhQ~~GRvGR~g~~g~~ill~~ 587 (681)
T PRK10917 558 A------------------ERFGLAQLHQLRGRVGRGAAQSYCVLLYK 587 (681)
T ss_pred C------------------CCCCHHHHHHHhhcccCCCCceEEEEEEC
Confidence 6 3 24678999999999999 899999995
No 59
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=99.97 E-value=4e-30 Score=315.32 Aligned_cols=302 Identities=22% Similarity=0.217 Sum_probs=231.3
Q ss_pred hHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCC-------CEEEEeccHHHHHHHHHHHHHHHhCCccCC
Q 001046 526 YKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTR-------GKIGCTQPRRVAAMSVAKRVAEEFGCRLGE 598 (1176)
Q Consensus 526 ~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~-------~~Ilv~~PrR~lA~qva~rva~e~g~~~G~ 598 (1176)
.+.|.++++.|.+|++++|+||||||||.++.++++...+..+ -.++|+.|.|+|++.+-.++.. ++...|.
T Consensus 24 t~~Q~~a~~~i~~G~nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkALn~Di~~rL~~-~~~~~G~ 102 (814)
T COG1201 24 TPPQRYAIPEIHSGENVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKALNNDIRRRLEE-PLRELGI 102 (814)
T ss_pred CHHHHHHHHHHhCCCceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHHHHHHHHHHHHHH-HHHHcCC
Confidence 4669999999999999999999999999999999887655441 1579999999999999988743 3334444
Q ss_pred eeEEEeecccc--------cCCCceEEEeChHHHHHHHhhCC---CCCCCceEEEcCCCc-----CCCchhHHHHHHHHH
Q 001046 599 EVGYAIRFEDC--------TGPDTVIKYMTDGMLLREILIDD---NLSQYSVIMLDEAHE-----RTIHTDVLFGLLKQL 662 (1176)
Q Consensus 599 ~vGy~ir~~~~--------~~~~t~I~~~T~g~Llr~l~~~~---~L~~~s~IIiDEaHe-----R~~~~d~ll~llk~~ 662 (1176)
.| .+|..+. ...-.+|+++||+.|.-.+.... .|.++.+|||||+|+ |+...-+.+..|+.+
T Consensus 103 ~v--~vRhGDT~~~er~r~~~~PPdILiTTPEsL~lll~~~~~r~~l~~vr~VIVDEiHel~~sKRG~~Lsl~LeRL~~l 180 (814)
T COG1201 103 EV--AVRHGDTPQSEKQKMLKNPPHILITTPESLAILLNSPKFRELLRDVRYVIVDEIHALAESKRGVQLALSLERLREL 180 (814)
T ss_pred cc--ceecCCCChHHhhhccCCCCcEEEeChhHHHHHhcCHHHHHHhcCCcEEEeehhhhhhccccchhhhhhHHHHHhh
Confidence 44 3333322 22457899999999977665433 699999999999995 777766666666665
Q ss_pred HhhCCCccEEEEcCCC-CHHHHHhhhcCC----CeEecCC-ceeeeEEEEecCCCc---hhHHHHHHHHHHHHhcCCCCC
Q 001046 663 VKRRPDLRLIVTSATL-DAEKFSGYFFNC----NIFTIPG-RTFPVEILYTKQPES---DYLDASLITVLQIHLTEPEGD 733 (1176)
Q Consensus 663 ~~~r~~~kvIlmSATl-~~~~~~~~f~~~----~v~~i~g-r~~pv~~~~~~~~~~---~~~~~~l~~v~~i~~~~~~g~ 733 (1176)
.. +++.|++|||. +.+..++|+.+. .++.+.+ +...+++........ ......+..+..+.. ....
T Consensus 181 ~~---~~qRIGLSATV~~~~~varfL~g~~~~~~Iv~~~~~k~~~i~v~~p~~~~~~~~~~~~~~~~~i~~~v~--~~~t 255 (814)
T COG1201 181 AG---DFQRIGLSATVGPPEEVAKFLVGFGDPCEIVDVSAAKKLEIKVISPVEDLIYDEELWAALYERIAELVK--KHRT 255 (814)
T ss_pred Cc---ccEEEeehhccCCHHHHHHHhcCCCCceEEEEcccCCcceEEEEecCCccccccchhHHHHHHHHHHHh--hcCc
Confidence 43 89999999999 788999998654 4555554 334455444332211 112223333433322 3348
Q ss_pred EEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEE
Q 001046 734 ILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVI 813 (1176)
Q Consensus 734 iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VI 813 (1176)
+|||+||+..++.++..|.+.. ...+..+||+|+.++|..+.+.|++|..++||||+.+|-||||.+|+.||
T Consensus 256 tLIF~NTR~~aE~l~~~L~~~~--------~~~i~~HHgSlSre~R~~vE~~lk~G~lravV~TSSLELGIDiG~vdlVI 327 (814)
T COG1201 256 TLIFTNTRSGAERLAFRLKKLG--------PDIIEVHHGSLSRELRLEVEERLKEGELKAVVATSSLELGIDIGDIDLVI 327 (814)
T ss_pred EEEEEeChHHHHHHHHHHHHhc--------CCceeeecccccHHHHHHHHHHHhcCCceEEEEccchhhccccCCceEEE
Confidence 9999999999999999998752 26788899999999999999999999999999999999999999999999
Q ss_pred eCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC----CcEEEEec
Q 001046 814 DPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG----PGKCYRLY 861 (1176)
Q Consensus 814 d~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g----~G~c~~L~ 861 (1176)
+++- |.|.+.+.||+||+|+.- .|..|...
T Consensus 328 q~~S------------------P~sV~r~lQRiGRsgHr~~~~Skg~ii~~~ 361 (814)
T COG1201 328 QLGS------------------PKSVNRFLQRIGRAGHRLGEVSKGIIIAED 361 (814)
T ss_pred EeCC------------------cHHHHHHhHhccccccccCCcccEEEEecC
Confidence 9988 999999999999999865 45555444
No 60
>PRK10689 transcription-repair coupling factor; Provisional
Probab=99.97 E-value=1.2e-29 Score=327.87 Aligned_cols=297 Identities=19% Similarity=0.196 Sum_probs=210.6
Q ss_pred chHHHHHHHHHHHcC------CeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCC
Q 001046 525 IYKLKKELIQAVHDN------QVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGE 598 (1176)
Q Consensus 525 i~~~q~~ii~ai~~~------~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~ 598 (1176)
..+.|.++++.+..+ .+++++|+||||||.++..+++.. ...+.+++|++||++||.|+++.+.+.++. .+.
T Consensus 601 ~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~-~~~g~qvlvLvPT~eLA~Q~~~~f~~~~~~-~~v 678 (1147)
T PRK10689 601 TTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLA-VENHKQVAVLVPTTLLAQQHYDNFRDRFAN-WPV 678 (1147)
T ss_pred CCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHH-HHcCCeEEEEeCcHHHHHHHHHHHHHhhcc-CCc
Confidence 456799999999886 799999999999998877665544 334678999999999999999988765532 233
Q ss_pred eeEEEeecccc----------cCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCC
Q 001046 599 EVGYAIRFEDC----------TGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPD 668 (1176)
Q Consensus 599 ~vGy~ir~~~~----------~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~ 668 (1176)
.++...++... .....+|+|+|++.+ ..+..+.++++|||||+|.-+.. ....+....++
T Consensus 679 ~i~~l~g~~s~~e~~~il~~l~~g~~dIVVgTp~lL----~~~v~~~~L~lLVIDEahrfG~~------~~e~lk~l~~~ 748 (1147)
T PRK10689 679 RIEMLSRFRSAKEQTQILAEAAEGKIDILIGTHKLL----QSDVKWKDLGLLIVDEEHRFGVR------HKERIKAMRAD 748 (1147)
T ss_pred eEEEEECCCCHHHHHHHHHHHHhCCCCEEEECHHHH----hCCCCHhhCCEEEEechhhcchh------HHHHHHhcCCC
Confidence 34333332211 123578999999754 23346789999999999963221 12223334678
Q ss_pred ccEEEEcCCCCHHHH--Hhhh-cCCCeEecCC-ceeeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHH
Q 001046 669 LRLIVTSATLDAEKF--SGYF-FNCNIFTIPG-RTFPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEEI 744 (1176)
Q Consensus 669 ~kvIlmSATl~~~~~--~~~f-~~~~v~~i~g-r~~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei 744 (1176)
.++++||||+.+..+ +... .+..++..+. ...++..++..... ..+ ...++.. ...+|.++||||+.+.+
T Consensus 749 ~qvLl~SATpiprtl~l~~~gl~d~~~I~~~p~~r~~v~~~~~~~~~-~~~---k~~il~e--l~r~gqv~vf~n~i~~i 822 (1147)
T PRK10689 749 VDILTLTATPIPRTLNMAMSGMRDLSIIATPPARRLAVKTFVREYDS-LVV---REAILRE--ILRGGQVYYLYNDVENI 822 (1147)
T ss_pred CcEEEEcCCCCHHHHHHHHhhCCCcEEEecCCCCCCCceEEEEecCc-HHH---HHHHHHH--HhcCCeEEEEECCHHHH
Confidence 999999999865433 2222 2333444332 23455554433211 111 1111111 12368999999999999
Q ss_pred HHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceecc
Q 001046 745 DFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYN 824 (1176)
Q Consensus 745 ~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd 824 (1176)
+.+++.|.+.+ +++.+..+||+|++++|.+++..|++|+.+|||||+++|+|||||+|++||-..
T Consensus 823 e~la~~L~~~~-------p~~~v~~lHG~m~q~eRe~im~~Fr~Gk~~VLVaTdIierGIDIP~v~~VIi~~-------- 887 (1147)
T PRK10689 823 QKAAERLAELV-------PEARIAIGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIER-------- 887 (1147)
T ss_pred HHHHHHHHHhC-------CCCcEEEEeCCCCHHHHHHHHHHHHhcCCCEEEECchhhcccccccCCEEEEec--------
Confidence 99999987643 466788999999999999999999999999999999999999999999999211
Q ss_pred CCCCCccccccccCHHHHHHHhcccCCCC-CcEEEEecCh
Q 001046 825 PKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTE 863 (1176)
Q Consensus 825 ~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~ 863 (1176)
+. ..+.++|.||+||+||.| .|.||.++..
T Consensus 888 ad---------~fglaq~~Qr~GRvGR~g~~g~a~ll~~~ 918 (1147)
T PRK10689 888 AD---------HFGLAQLHQLRGRVGRSHHQAYAWLLTPH 918 (1147)
T ss_pred CC---------CCCHHHHHHHhhccCCCCCceEEEEEeCC
Confidence 10 123367999999999999 7999998864
No 61
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=99.97 E-value=1.7e-29 Score=314.42 Aligned_cols=299 Identities=15% Similarity=0.197 Sum_probs=208.0
Q ss_pred chHHHHHHHHHHHcC------CeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCC
Q 001046 525 IYKLKKELIQAVHDN------QVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGE 598 (1176)
Q Consensus 525 i~~~q~~ii~ai~~~------~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~ 598 (1176)
+.+.|.++++.|..+ .+.+++|+||||||.++..+++... ..+.++++++||++||.|+++.+.+.++ ..|.
T Consensus 236 lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~-~~g~qvlilaPT~~LA~Q~~~~~~~l~~-~~gi 313 (630)
T TIGR00643 236 LTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAI-EAGYQVALMAPTEILAEQHYNSLRNLLA-PLGI 313 (630)
T ss_pred CCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHH-HcCCcEEEECCHHHHHHHHHHHHHHHhc-ccCc
Confidence 467799999988765 3689999999999999888877653 4467899999999999999998876553 2344
Q ss_pred eeEEEeecc----------cccCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCC
Q 001046 599 EVGYAIRFE----------DCTGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPD 668 (1176)
Q Consensus 599 ~vGy~ir~~----------~~~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~ 668 (1176)
.++...... ........|+++|++.+.. ...+.++++|||||+|.-+... ...+.........
T Consensus 314 ~v~lltg~~~~~~r~~~~~~i~~g~~~IiVgT~~ll~~----~~~~~~l~lvVIDEaH~fg~~q---r~~l~~~~~~~~~ 386 (630)
T TIGR00643 314 EVALLTGSLKGKRRKELLETIASGQIHLVVGTHALIQE----KVEFKRLALVIIDEQHRFGVEQ---RKKLREKGQGGFT 386 (630)
T ss_pred EEEEEecCCCHHHHHHHHHHHhCCCCCEEEecHHHHhc----cccccccceEEEechhhccHHH---HHHHHHhcccCCC
Confidence 444322221 1123457999999987643 2357899999999999533221 1112111111126
Q ss_pred ccEEEEcCCCCHHHHHhh-hcCCC---eEecCCceeeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHH-
Q 001046 669 LRLIVTSATLDAEKFSGY-FFNCN---IFTIPGRTFPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEE- 743 (1176)
Q Consensus 669 ~kvIlmSATl~~~~~~~~-f~~~~---v~~i~gr~~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~e- 743 (1176)
.++++||||+.+..++.. ++... +-..+....|+...+...... ...+..+... ...+.+++|||+..++
T Consensus 387 ~~~l~~SATp~prtl~l~~~~~l~~~~i~~~p~~r~~i~~~~~~~~~~---~~~~~~i~~~--l~~g~q~~v~~~~i~~s 461 (630)
T TIGR00643 387 PHVLVMSATPIPRTLALTVYGDLDTSIIDELPPGRKPITTVLIKHDEK---DIVYEFIEEE--IAKGRQAYVVYPLIEES 461 (630)
T ss_pred CCEEEEeCCCCcHHHHHHhcCCcceeeeccCCCCCCceEEEEeCcchH---HHHHHHHHHH--HHhCCcEEEEEcccccc
Confidence 789999999865544432 22221 122333335666665543221 2222222111 1346789999997643
Q ss_pred -------HHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCC
Q 001046 744 -------IDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPG 816 (1176)
Q Consensus 744 -------i~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g 816 (1176)
++.+++.|.+. .+++.+..+||+|++++|..+++.|+.|+.+|||||+++|+|||+|++++||.++
T Consensus 462 ~~~~~~~a~~~~~~L~~~-------~~~~~v~~lHG~m~~~eR~~i~~~F~~g~~~ILVaT~vie~GvDiP~v~~VIi~~ 534 (630)
T TIGR00643 462 EKLDLKAAEALYERLKKA-------FPKYNVGLLHGRMKSDEKEAVMEEFREGEVDILVATTVIEVGVDVPNATVMVIED 534 (630)
T ss_pred ccchHHHHHHHHHHHHhh-------CCCCcEEEEeCCCCHHHHHHHHHHHHcCCCCEEEECceeecCcccCCCcEEEEeC
Confidence 34444444432 2467899999999999999999999999999999999999999999999999766
Q ss_pred cccceeccCCCCCccccccc-cCHHHHHHHhcccCCCC-CcEEEEecC
Q 001046 817 FAKQNVYNPKQGLDSLVITP-ISQASAKQRAGRAGRTG-PGKCYRLYT 862 (1176)
Q Consensus 817 ~~k~~~yd~~~g~~~l~~~p-~S~as~~QR~GRAGR~g-~G~c~~L~t 862 (1176)
. | .+.+++.||+|||||.| +|.||.++.
T Consensus 535 ~------------------~r~gls~lhQ~~GRvGR~g~~g~~il~~~ 564 (630)
T TIGR00643 535 A------------------ERFGLSQLHQLRGRVGRGDHQSYCLLVYK 564 (630)
T ss_pred C------------------CcCCHHHHHHHhhhcccCCCCcEEEEEEC
Confidence 5 2 35688999999999999 899999983
No 62
>TIGR01587 cas3_core CRISPR-associated helicase Cas3. This model represents the highly conserved core region of an alignment of Cas3, a protein found in association with CRISPR repeat elements in a broad range of bacteria and archaea. Cas3 appears to be a helicase, with regions found by pfam00270 (DEAD/DEAH box helicase) and pfam00271 (Helicase conserved C-terminal domain). Some but not all members have an N-terminal HD domain region (pfam01966) that is not included within this model.
Probab=99.97 E-value=2.1e-29 Score=295.07 Aligned_cols=292 Identities=22% Similarity=0.222 Sum_probs=194.0
Q ss_pred eEEEEcCCCCcHHHHHHHHHHHhcc-cCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEe------e-----ccc
Q 001046 541 VLVVIGETGSGKTTQVTQYLAEAGY-TTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAI------R-----FED 608 (1176)
Q Consensus 541 ~vIv~apTGSGKTt~~~~~lle~~~-~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~i------r-----~~~ 608 (1176)
+++|+||||||||+++.++++.... ...++++|+.|+++|+.|+++++...+|..+|...|... . .+.
T Consensus 1 ~vvi~apTGsGKT~~~~~~~l~~~~~~~~~~ii~v~P~~~L~~q~~~~l~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (358)
T TIGR01587 1 LLVIEAPTGYGKTEAALLWALHSIKSQKADRVIIALPTRATINAMYRRAKELFGSNLGLLHSSSSFKRIKEMGDSEEFEH 80 (358)
T ss_pred CEEEEeCCCCCHHHHHHHHHHHHHhhCCCCeEEEEeehHHHHHHHHHHHHHHhCcccEEeeccHHHHHHhccCCchhHHH
Confidence 4899999999999999999887532 234689999999999999999999888765543322110 0 000
Q ss_pred ---------ccCCCceEEEeChHHHHHHHhhCC-------CCCCCceEEEcCCCcCCCc-hhHHHHHHHHHHhhCCCccE
Q 001046 609 ---------CTGPDTVIKYMTDGMLLREILIDD-------NLSQYSVIMLDEAHERTIH-TDVLFGLLKQLVKRRPDLRL 671 (1176)
Q Consensus 609 ---------~~~~~t~I~~~T~g~Llr~l~~~~-------~L~~~s~IIiDEaHeR~~~-~d~ll~llk~~~~~r~~~kv 671 (1176)
.......|+++|++.++..+.... ..-.+++|||||||..... .+.+..+++.+. ..+.++
T Consensus 81 ~~~~~~~~~~~~~~~~I~v~T~~~l~~~~~~~~~~~~~~~~~~~~~~iViDE~h~~~~~~~~~l~~~l~~l~--~~~~~~ 158 (358)
T TIGR01587 81 LFPLYIHSNDKLFLDPITVCTIDQVLKSVFGEFGHYEFTLASIANSLLIFDEVHFYDEYTLALILAVLEVLK--DNDVPI 158 (358)
T ss_pred HHHHHhhchhhhhhCCeeeCCHHHHHHHHhcccchHHHHHHHhcCCEEEEeCCCCCCHHHHHHHHHHHHHHH--HcCCCE
Confidence 001235799999999988776521 1123489999999953322 234444444443 357899
Q ss_pred EEEcCCCCHHHHHhhhcCCCeEe----cCCcee-eeE-EEE-ecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHH
Q 001046 672 IVTSATLDAEKFSGYFFNCNIFT----IPGRTF-PVE-ILY-TKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEEI 744 (1176)
Q Consensus 672 IlmSATl~~~~~~~~f~~~~v~~----i~gr~~-pv~-~~~-~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei 744 (1176)
|+||||++ +.+..++....... .+.... ... ..+ ............+..++. ....++++||||++++++
T Consensus 159 i~~SATlp-~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~--~~~~~~~~lVf~~t~~~~ 235 (358)
T TIGR01587 159 LLMSATLP-KFLKEYAEKIGYVEFNEPLDLKEERRFERHRFIKIESDKVGEISSLERLLE--FIKKGGKIAIIVNTVDRA 235 (358)
T ss_pred EEEecCch-HHHHHHHhcCCCcccccCCCCccccccccccceeeccccccCHHHHHHHHH--HhhCCCeEEEEECCHHHH
Confidence 99999997 44555543221110 110000 000 011 000000011112222222 223568999999999999
Q ss_pred HHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHh----hcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccc
Q 001046 745 DFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSR----IFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQ 820 (1176)
Q Consensus 745 ~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~----i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~ 820 (1176)
+.+++.|.+.. +...+..+||++++.+|.+ +++.|+.|..+|||||+++++||||+ +.+||++.
T Consensus 236 ~~~~~~L~~~~-------~~~~~~~~h~~~~~~~r~~~~~~~~~~f~~~~~~ilvaT~~~~~GiDi~-~~~vi~~~---- 303 (358)
T TIGR01587 236 QEFYQQLKENA-------PEEEIMLLHSRFTEKDRAKKEAELLEEMKKNEKFVIVATQVIEASLDIS-ADVMITEL---- 303 (358)
T ss_pred HHHHHHHHhhc-------CCCeEEEEECCCCHHHHHHHHHHHHHHhcCCCCeEEEECcchhceeccC-CCEEEEcC----
Confidence 99999987642 2346899999999999876 48899999999999999999999996 77777543
Q ss_pred eeccCCCCCccccccccCHHHHHHHhcccCCCC--C---cEEEEecChHH
Q 001046 821 NVYNPKQGLDSLVITPISQASAKQRAGRAGRTG--P---GKCYRLYTESA 865 (1176)
Q Consensus 821 ~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g--~---G~c~~L~t~~~ 865 (1176)
.+.++|+||+||+||.| . |.+|.++....
T Consensus 304 ----------------~~~~~~iqr~GR~gR~g~~~~~~~~~~v~~~~~~ 337 (358)
T TIGR01587 304 ----------------APIDSLIQRLGRLHRYGRKNGENFEVYIITIAPE 337 (358)
T ss_pred ----------------CCHHHHHHHhccccCCCCCCCCCCeEEEEeecCC
Confidence 34689999999999988 2 36777766543
No 63
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=99.97 E-value=1.3e-28 Score=296.08 Aligned_cols=472 Identities=20% Similarity=0.244 Sum_probs=312.4
Q ss_pred hHHHHHHHHHH-HcCCeEEEEcCCCCcHHHHHHHHHHHhccc---------CCCEEEEeccHHHHHHHHHHHHHHHhCCc
Q 001046 526 YKLKKELIQAV-HDNQVLVVIGETGSGKTTQVTQYLAEAGYT---------TRGKIGCTQPRRVAAMSVAKRVAEEFGCR 595 (1176)
Q Consensus 526 ~~~q~~ii~ai-~~~~~vIv~apTGSGKTt~~~~~lle~~~~---------~~~~Ilv~~PrR~lA~qva~rva~e~g~~ 595 (1176)
..+|.++++.+ .++.+.|||||||||||-.+.+.|+..... ..-+|++++|.++||.++++.+.+.++ +
T Consensus 112 N~iQS~vFp~aY~SneNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~~~~~kkl~-~ 190 (1230)
T KOG0952|consen 112 NRIQSEVFPVAYKSNENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVDKFSKKLA-P 190 (1230)
T ss_pred HHHHHHhhhhhhcCCCCEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHHHHHHhhhcc-c
Confidence 45577777766 678899999999999999888888875432 234899999999999999998888763 2
Q ss_pred cCCeeEEEeeccccc----CCCceEEEeChHH---HHHHHhhCC-CCCCCceEEEcCCC----cCCCchhHHHHHHHHHH
Q 001046 596 LGEEVGYAIRFEDCT----GPDTVIKYMTDGM---LLREILIDD-NLSQYSVIMLDEAH----ERTIHTDVLFGLLKQLV 663 (1176)
Q Consensus 596 ~G~~vGy~ir~~~~~----~~~t~I~~~T~g~---Llr~l~~~~-~L~~~s~IIiDEaH----eR~~~~d~ll~llk~~~ 663 (1176)
+|..|+- ..++... -..|+|+++||+- +.|....+. .++.+.+|||||+| +|+...+.+.+.+.+..
T Consensus 191 ~gi~v~E-LTGD~ql~~tei~~tqiiVTTPEKwDvvTRk~~~d~~l~~~V~LviIDEVHlLhd~RGpvlEtiVaRtlr~v 269 (1230)
T KOG0952|consen 191 LGISVRE-LTGDTQLTKTEIADTQIIVTTPEKWDVVTRKSVGDSALFSLVRLVIIDEVHLLHDDRGPVLETIVARTLRLV 269 (1230)
T ss_pred ccceEEE-ecCcchhhHHHHHhcCEEEecccceeeeeeeeccchhhhhheeeEEeeeehhhcCcccchHHHHHHHHHHHH
Confidence 3443431 1112221 3579999999964 334333333 57889999999999 58888887777776665
Q ss_pred h-hCCCccEEEEcCCC-CHHHHHhhhcC---CCeEecCC--ceeeeEEEEecCCCc--hh----H-HHHHHHHHHHHhcC
Q 001046 664 K-RRPDLRLIVTSATL-DAEKFSGYFFN---CNIFTIPG--RTFPVEILYTKQPES--DY----L-DASLITVLQIHLTE 729 (1176)
Q Consensus 664 ~-~r~~~kvIlmSATl-~~~~~~~~f~~---~~v~~i~g--r~~pv~~~~~~~~~~--~~----~-~~~l~~v~~i~~~~ 729 (1176)
. ....+++|++|||+ |.++++.|+.- ..++...+ |+.|++..+...... .. + ......+... ..
T Consensus 270 essqs~IRivgLSATlPN~eDvA~fL~vn~~~glfsFd~~yRPvpL~~~~iG~k~~~~~~~~~~~d~~~~~kv~e~--~~ 347 (1230)
T KOG0952|consen 270 ESSQSMIRIVGLSATLPNYEDVARFLRVNPYAGLFSFDQRYRPVPLTQGFIGIKGKKNRQQKKNIDEVCYDKVVEF--LQ 347 (1230)
T ss_pred HhhhhheEEEEeeccCCCHHHHHHHhcCCCccceeeecccccccceeeeEEeeecccchhhhhhHHHHHHHHHHHH--HH
Confidence 5 44679999999999 58899999864 33555554 445555555433222 11 1 1122233332 23
Q ss_pred CCCCEEEEeCCHHHHHHHHHHHHHHHhccCCC-----CC--C-------eEEEEecCCCCHHHHHhhcCCCCCCCceEEE
Q 001046 730 PEGDILLFLTGQEEIDFACQSLYERMKGLGKN-----VP--E-------LIILPVYSALPSEMQSRIFDPAPPGKRKVVV 795 (1176)
Q Consensus 730 ~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~-----~~--~-------~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlV 795 (1176)
.+.+++|||+++.+...+|+.|.+.....+.. .+ + ..+..+|+||...+|..+..-|..|.++|++
T Consensus 348 ~g~qVlvFvhsR~~Ti~tA~~l~~~a~~~g~~~~f~~~~~~k~l~elf~~g~~iHhAGm~r~DR~l~E~~F~~G~i~vL~ 427 (1230)
T KOG0952|consen 348 EGHQVLVFVHSRNETIRTAKKLRERAETNGEKDLFLPSPRNKQLKELFQQGMGIHHAGMLRSDRQLVEKEFKEGHIKVLC 427 (1230)
T ss_pred cCCeEEEEEecChHHHHHHHHHHHHHHhcCcccccCCChhhHHHHHHHHhhhhhcccccchhhHHHHHHHHhcCCceEEE
Confidence 56799999999999999999998876443311 01 1 3356689999999999999999999999999
Q ss_pred EcchhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC---CcEEEEecChH---HHhhh
Q 001046 796 ATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG---PGKCYRLYTES---AYRNE 869 (1176)
Q Consensus 796 ATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g---~G~c~~L~t~~---~~~~~ 869 (1176)
||.++++|+++|+--++| -.+.+||+..|.- .-.+.-+..|..|||||.+ .|..+.+-+.+ .|.+.
T Consensus 428 cTaTLAwGVNLPA~aViI----KGT~~ydsskg~f----~dlgilDVlQifGRAGRPqFd~~G~giIiTt~dkl~~Y~sL 499 (1230)
T KOG0952|consen 428 CTATLAWGVNLPAYAVII----KGTQVYDSSKGSF----VDLGILDVLQIFGRAGRPQFDSSGEGIIITTRDKLDHYESL 499 (1230)
T ss_pred ecceeeeccCCcceEEEe----cCCcccccccCce----eeehHHHHHHHHhccCCCCCCCCceEEEEecccHHHHHHHH
Confidence 999999999999877777 5678999988642 2567788999999999998 57666555433 23221
Q ss_pred --------------CCCCCchhhhh---cChHHHHHHHHH------cCCCcc---ccCCCCC-CCCH-----HHHHHHHH
Q 001046 870 --------------MSPTSIPEIQR---INLGFTTLTMKA------MGINDL---LSFDFMD-PPSP-----QALISAME 917 (1176)
Q Consensus 870 --------------l~~~~~pEI~r---~~L~~~~L~lk~------~gi~~~---~~f~~~~-pP~~-----~~l~~al~ 917 (1176)
+.++-..||.- ++++..+-.|+. |+.+.. .....+. -|.. +.+..|+.
T Consensus 500 l~~~~piES~~~~~L~dnLnAEi~LgTVt~VdeAVeWL~yTylYVRm~KNP~~Ygi~~~~l~~dp~l~s~~~~l~~~~~~ 579 (1230)
T KOG0952|consen 500 LTGQNPIESQLLPCLIDNLNAEISLGTVTNVDEAVEWLKYTYLYVRMRKNPMAYGISYEELEPDPRLESHRRELCLVAAM 579 (1230)
T ss_pred HcCCChhHHHHHHHHHHhhhhheeeceeecHHHHHHHhhceeEEEEeccChHHhhhhhhcccCCchHHHHHHHHHHHHHH
Confidence 11222233322 344444444442 222211 0111111 2222 44556777
Q ss_pred HHHHcCcc--ccCC---cccHHHHHHhcCCCChHHHHHHHHhhh-cCCHHHHHHHHHHhcCCC-CCCCchhHHHHHHH--
Q 001046 918 QLYSLGAL--DEEG---LLTKLGRKMAEFPLDPPLSKMLLASVD-LGCSDEILTIIAMIQTGN-IFYRPREKQAQADQ-- 988 (1176)
Q Consensus 918 ~L~~lgal--d~~g---~lT~lG~~~a~lpl~p~l~k~ll~~~~-~~c~~~~l~i~a~ls~~~-~f~~p~~~~~~~~~-- 988 (1176)
.|.....+ |..+ ..|.+||.|+.+.+....-+.++.... +--.+++|.|+++-+.=+ +=.|-.++.+-.+.
T Consensus 580 ~L~~~qmi~~D~~t~~~~stdlGR~aS~yYik~ETme~~nn~~k~~~se~~iL~lis~aeEfs~ik~R~eE~k~l~el~~ 659 (1230)
T KOG0952|consen 580 ELDKVQMIRFDERTGYLKSTDLGRVASNYYIKYETMETFNNLPKSFYSEDDILALISMAEEFSQIKVREEEKKELKELNE 659 (1230)
T ss_pred HhhhhheEEEecccceEcccchhhhhhhhhhhhHHHHHHHhcccccCCHHHHHHHHHhhHhhhhhhhhhhhHHHHHHHHh
Confidence 77666444 4433 579999999999999999999999988 667788888887754322 11222222221111
Q ss_pred ---HHhhcCCCCCcHHHHHHHHHH
Q 001046 989 ---KRAKFFQPEGDHLTLLAVYEA 1009 (1176)
Q Consensus 989 ---~~~~~~~~~~D~l~~l~~~~~ 1009 (1176)
.+..|....|+--.++.+|..
T Consensus 660 ~~~~~~~~~~~~gk~nil~q~~Is 683 (1230)
T KOG0952|consen 660 DSCEKYPFGGEKGKVNILLQAYIS 683 (1230)
T ss_pred cccccccccccchhHHHHHHhhhh
Confidence 122333335777777777754
No 64
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=99.96 E-value=7.6e-29 Score=294.42 Aligned_cols=307 Identities=18% Similarity=0.161 Sum_probs=217.9
Q ss_pred hHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEee
Q 001046 526 YKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIR 605 (1176)
Q Consensus 526 ~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir 605 (1176)
.+-|.++|+++.++++++++.|||+|||.++.++.+-. .|-.+|+.|..+|...+...+ ...|......-.....
T Consensus 19 R~gQ~evI~~~l~g~d~lvvmPTGgGKSlCyQiPAll~----~G~TLVVSPLiSLM~DQV~~l-~~~Gi~A~~lnS~l~~ 93 (590)
T COG0514 19 RPGQQEIIDALLSGKDTLVVMPTGGGKSLCYQIPALLL----EGLTLVVSPLISLMKDQVDQL-EAAGIRAAYLNSTLSR 93 (590)
T ss_pred CCCHHHHHHHHHcCCcEEEEccCCCCcchHhhhHHHhc----CCCEEEECchHHHHHHHHHHH-HHcCceeehhhcccCH
Confidence 34589999999999999999999999996665554432 457899999999998887765 3333221100000000
Q ss_pred cc------cccCCCceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCCcCCCch---hHHHHHHHHHHhhCCCccEEEEc
Q 001046 606 FE------DCTGPDTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAHERTIHT---DVLFGLLKQLVKRRPDLRLIVTS 675 (1176)
Q Consensus 606 ~~------~~~~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaHeR~~~~---d~ll~llk~~~~~r~~~kvIlmS 675 (1176)
.+ .......+++|.+|++|...-..+. .-..+++++|||||+-+-.. ---...+..+....|+++++.+|
T Consensus 94 ~e~~~v~~~l~~g~~klLyisPErl~~~~f~~~L~~~~i~l~vIDEAHCiSqWGhdFRP~Y~~lg~l~~~~~~~p~~AlT 173 (590)
T COG0514 94 EERQQVLNQLKSGQLKLLYISPERLMSPRFLELLKRLPISLVAIDEAHCISQWGHDFRPDYRRLGRLRAGLPNPPVLALT 173 (590)
T ss_pred HHHHHHHHHHhcCceeEEEECchhhcChHHHHHHHhCCCceEEechHHHHhhcCCccCHhHHHHHHHHhhCCCCCEEEEe
Confidence 01 1112357899999998864322221 25678999999999633222 12234455666677899999999
Q ss_pred CCCCHH---HHHhhhc-CCCeEecCCceeeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHH
Q 001046 676 ATLDAE---KFSGYFF-NCNIFTIPGRTFPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSL 751 (1176)
Q Consensus 676 ATl~~~---~~~~~f~-~~~v~~i~gr~~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L 751 (1176)
||.+.. .+...+. +.+.+.+.+...| .++|.-.+..+...... .+.. ......+..||||.|+..++.+++.|
T Consensus 174 ATA~~~v~~DI~~~L~l~~~~~~~~sfdRp-Ni~~~v~~~~~~~~q~~-fi~~-~~~~~~~~GIIYc~sRk~~E~ia~~L 250 (590)
T COG0514 174 ATATPRVRDDIREQLGLQDANIFRGSFDRP-NLALKVVEKGEPSDQLA-FLAT-VLPQLSKSGIIYCLTRKKVEELAEWL 250 (590)
T ss_pred CCCChHHHHHHHHHhcCCCcceEEecCCCc-hhhhhhhhcccHHHHHH-HHHh-hccccCCCeEEEEeeHHhHHHHHHHH
Confidence 999743 3444332 3332222221111 12222211111111111 2221 23556778999999999999999999
Q ss_pred HHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCcc
Q 001046 752 YERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDS 831 (1176)
Q Consensus 752 ~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~ 831 (1176)
.. .++.+.++|++|+.++|..+.+.|..+..+|||||+.+++|||.|||++|||+++
T Consensus 251 ~~---------~g~~a~~YHaGl~~~eR~~~q~~f~~~~~~iiVAT~AFGMGIdKpdVRfViH~~l-------------- 307 (590)
T COG0514 251 RK---------NGISAGAYHAGLSNEERERVQQAFLNDEIKVMVATNAFGMGIDKPDVRFVIHYDL-------------- 307 (590)
T ss_pred HH---------CCCceEEecCCCCHHHHHHHHHHHhcCCCcEEEEeccccCccCCCCceEEEEecC--------------
Confidence 86 2788999999999999999999999999999999999999999999999999999
Q ss_pred ccccccCHHHHHHHhcccCCCC-CcEEEEecChHHHh
Q 001046 832 LVITPISQASAKQRAGRAGRTG-PGKCYRLYTESAYR 867 (1176)
Q Consensus 832 l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~~ 867 (1176)
|.|.++|.|-+|||||.| |..|+.||++.+..
T Consensus 308 ----P~s~EsYyQE~GRAGRDG~~a~aill~~~~D~~ 340 (590)
T COG0514 308 ----PGSIESYYQETGRAGRDGLPAEAILLYSPEDIR 340 (590)
T ss_pred ----CCCHHHHHHHHhhccCCCCcceEEEeeccccHH
Confidence 999999999999999999 99999999988754
No 65
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=99.96 E-value=4e-29 Score=276.73 Aligned_cols=307 Identities=19% Similarity=0.184 Sum_probs=224.9
Q ss_pred HHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccC--------CCEEEEeccHHHHHHHHHHHHHHHhCCccCC
Q 001046 527 KLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTT--------RGKIGCTQPRRVAAMSVAKRVAEEFGCRLGE 598 (1176)
Q Consensus 527 ~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~--------~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~ 598 (1176)
-+|+.+|+.+++|++++..|.||||||.++.+++++..+.. +...++++|||+||.|+.+-+.+.. ..++.
T Consensus 44 lIQs~aIplaLEgKDvvarArTGSGKT~AYliPllqkll~~k~t~~~e~~~sa~iLvPTkEL~qQvy~viekL~-~~c~k 122 (569)
T KOG0346|consen 44 LIQSSAIPLALEGKDVVARARTGSGKTAAYLIPLLQKLLAEKKTNDGEQGPSAVILVPTKELAQQVYKVIEKLV-EYCSK 122 (569)
T ss_pred hhhhcccchhhcCcceeeeeccCCCchHHHHHHHHHHHHHhhhcccccccceeEEEechHHHHHHHHHHHHHHH-HHHHH
Confidence 34777777799999999999999999999999988754432 2357999999999999998665422 11111
Q ss_pred ee---EEEeecc-----cccCCCceEEEeChHHHHHHHhhCC--CCCCCceEEEcCCCcCCCchhHHHHHHHHHHh-hCC
Q 001046 599 EV---GYAIRFE-----DCTGPDTVIKYMTDGMLLREILIDD--NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVK-RRP 667 (1176)
Q Consensus 599 ~v---Gy~ir~~-----~~~~~~t~I~~~T~g~Llr~l~~~~--~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~-~r~ 667 (1176)
.+ -.+.... ........|+++||+.+++++..+. .+..++++|+|||+. .+..++- .-++.+.. ..+
T Consensus 123 ~lr~~nl~s~~sdsv~~~~L~d~pdIvV~TP~~ll~~~~~~~~~~~~~l~~LVvDEADL-llsfGYe-edlk~l~~~LPr 200 (569)
T KOG0346|consen 123 DLRAINLASSMSDSVNSVALMDLPDIVVATPAKLLRHLAAGVLEYLDSLSFLVVDEADL-LLSFGYE-EDLKKLRSHLPR 200 (569)
T ss_pred hhhhhhhhcccchHHHHHHHccCCCeEEeChHHHHHHHhhccchhhhheeeEEechhhh-hhhcccH-HHHHHHHHhCCc
Confidence 00 0000000 1122568999999999999999887 688999999999983 1111111 11333333 345
Q ss_pred CccEEEEcCCC--CHHHHHhhhcCCCeE-ecCCcee----eeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCC
Q 001046 668 DLRLIVTSATL--DAEKFSGYFFNCNIF-TIPGRTF----PVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTG 740 (1176)
Q Consensus 668 ~~kvIlmSATl--~~~~~~~~f~~~~v~-~i~gr~~----pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~ 740 (1176)
..|.++||||+ |...+...|...|++ .+..... .+..++....+.|-. +.....+.+.--.|++|||+|+
T Consensus 201 ~~Q~~LmSATl~dDv~~LKkL~l~nPviLkl~e~el~~~dqL~Qy~v~cse~DKf---lllyallKL~LI~gKsliFVNt 277 (569)
T KOG0346|consen 201 IYQCFLMSATLSDDVQALKKLFLHNPVILKLTEGELPNPDQLTQYQVKCSEEDKF---LLLYALLKLRLIRGKSLIFVNT 277 (569)
T ss_pred hhhheeehhhhhhHHHHHHHHhccCCeEEEeccccCCCcccceEEEEEeccchhH---HHHHHHHHHHHhcCceEEEEec
Confidence 78999999999 588999999887764 3332222 234445444333321 1222222233347999999999
Q ss_pred HHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcc----------------------
Q 001046 741 QEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATN---------------------- 798 (1176)
Q Consensus 741 ~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATn---------------------- 798 (1176)
.+.+..+.-.|.+. ++..+.+.|.||...|.-|++.|..|...|||||+
T Consensus 278 Idr~YrLkLfLeqF---------GiksciLNseLP~NSR~Hii~QFNkG~YdivIAtD~s~~~~~~eee~kgk~~e~~~k 348 (569)
T KOG0346|consen 278 IDRCYRLKLFLEQF---------GIKSCILNSELPANSRCHIIEQFNKGLYDIVIATDDSADGDKLEEEVKGKSDEKNPK 348 (569)
T ss_pred hhhhHHHHHHHHHh---------CcHhhhhcccccccchhhHHHHhhCcceeEEEEccCccchhhhhccccccccccCCC
Confidence 99988877777653 56677899999999999999999999999999999
Q ss_pred -------------hhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC-CcEEEEecChH
Q 001046 799 -------------IAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTES 864 (1176)
Q Consensus 799 -------------iae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~ 864 (1176)
-+.+|||+..|..|||+++ |.+..+|+||+||++|.+ +|.+..++.+.
T Consensus 349 ndkkskkK~D~E~GVsRGIDF~~V~~VlNFD~------------------P~t~~sYIHRvGRTaRg~n~GtalSfv~P~ 410 (569)
T KOG0346|consen 349 NDKKSKKKLDKESGVSRGIDFHHVSNVLNFDF------------------PETVTSYIHRVGRTARGNNKGTALSFVSPK 410 (569)
T ss_pred CccccccccCchhchhccccchheeeeeecCC------------------CCchHHHHHhccccccCCCCCceEEEecch
Confidence 2358999999999999999 999999999999999999 89999998876
Q ss_pred HH
Q 001046 865 AY 866 (1176)
Q Consensus 865 ~~ 866 (1176)
..
T Consensus 411 e~ 412 (569)
T KOG0346|consen 411 EE 412 (569)
T ss_pred HH
Confidence 54
No 66
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.96 E-value=1.3e-28 Score=283.69 Aligned_cols=305 Identities=19% Similarity=0.248 Sum_probs=225.9
Q ss_pred HHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccC-------CCEEEEeccHHHHHHHHHHHHHHHhCCccC---C
Q 001046 529 KKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTT-------RGKIGCTQPRRVAAMSVAKRVAEEFGCRLG---E 598 (1176)
Q Consensus 529 q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~-------~~~Ilv~~PrR~lA~qva~rva~e~g~~~G---~ 598 (1176)
|.+++..+..+++++.|||||||||+++..+++...... +-+.+|+.|+|+||.|++..+.+.- ..-| .
T Consensus 163 q~~aipvfl~~r~~lAcapTGsgKtlaf~~Pil~~L~~~~~~~~~~gl~a~Il~ptreLa~Qi~re~~k~~-~~~~t~~~ 241 (593)
T KOG0344|consen 163 QKQAIPVFLEKRDVLACAPTGSGKTLAFNLPILQHLKDLSQEKHKVGLRALILSPTRELAAQIYREMRKYS-IDEGTSLR 241 (593)
T ss_pred cchhhhhhhcccceEEeccCCCcchhhhhhHHHHHHHHhhcccCccceEEEEecchHHHHHHHHHHHHhcC-CCCCCchh
Confidence 888999999999999999999999999999888754332 2378999999999999998764432 1111 1
Q ss_pred eeEEEee------cccccCCCceEEEeChHHHHHHHhhCC---CCCCCceEEEcCCCcCCCchhHHHHHHHHHHh--hCC
Q 001046 599 EVGYAIR------FEDCTGPDTVIKYMTDGMLLREILIDD---NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVK--RRP 667 (1176)
Q Consensus 599 ~vGy~ir------~~~~~~~~t~I~~~T~g~Llr~l~~~~---~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~--~r~ 667 (1176)
..+.... .........+|++.||-.+...+...+ .+..+.++|+|||+ +-+.-.++...+..+.. ..|
T Consensus 242 a~~~~~~~~~~qk~a~~~~~k~dili~TP~ri~~~~~~~~~~idl~~V~~lV~dEaD-~lfe~~~f~~Qla~I~sac~s~ 320 (593)
T KOG0344|consen 242 AAQFSKPAYPSQKPAFLSDEKYDILISTPMRIVGLLGLGKLNIDLSKVEWLVVDEAD-LLFEPEFFVEQLADIYSACQSP 320 (593)
T ss_pred hhhcccccchhhccchhHHHHHHHHhcCHHHHHHHhcCCCccchhheeeeEeechHH-hhhChhhHHHHHHHHHHHhcCc
Confidence 1111100 001112357889999999888887766 78999999999999 33333344444444443 458
Q ss_pred CccEEEEcCCCC--HHHHHhhhcCCCeEecCCce-ee---e--EEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeC
Q 001046 668 DLRLIVTSATLD--AEKFSGYFFNCNIFTIPGRT-FP---V--EILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLT 739 (1176)
Q Consensus 668 ~~kvIlmSATl~--~~~~~~~f~~~~v~~i~gr~-~p---v--~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~ 739 (1176)
++++=++|||++ .+.++......++..+-|.. -. | +..|.... ...+..+.++....-..++|||+-
T Consensus 321 ~i~~a~FSat~~~~VEE~~~~i~~~~~~vivg~~~sa~~~V~QelvF~gse-----~~K~lA~rq~v~~g~~PP~lIfVQ 395 (593)
T KOG0344|consen 321 DIRVALFSATISVYVEEWAELIKSDLKRVIVGLRNSANETVDQELVFCGSE-----KGKLLALRQLVASGFKPPVLIFVQ 395 (593)
T ss_pred chhhhhhhccccHHHHHHHHHhhccceeEEEecchhHhhhhhhhheeeecc-----hhHHHHHHHHHhccCCCCeEEEEe
Confidence 999999999995 66776665444333222211 10 1 11111111 123444555555556779999999
Q ss_pred CHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCccc
Q 001046 740 GQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAK 819 (1176)
Q Consensus 740 ~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k 819 (1176)
+.+.+..+...|. ..+++.+-.+||..++.+|..+++.|+.|++.|++||+++++|||+-||+.||||++
T Consensus 396 s~eRak~L~~~L~--------~~~~i~v~vIh~e~~~~qrde~~~~FR~g~IwvLicTdll~RGiDf~gvn~VInyD~-- 465 (593)
T KOG0344|consen 396 SKERAKQLFEELE--------IYDNINVDVIHGERSQKQRDETMERFRIGKIWVLICTDLLARGIDFKGVNLVINYDF-- 465 (593)
T ss_pred cHHHHHHHHHHhh--------hccCcceeeEecccchhHHHHHHHHHhccCeeEEEehhhhhccccccCcceEEecCC--
Confidence 9998888877774 135788999999999999999999999999999999999999999999999999999
Q ss_pred ceeccCCCCCccccccccCHHHHHHHhcccCCCC-CcEEEEecChHHH
Q 001046 820 QNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTESAY 866 (1176)
Q Consensus 820 ~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~ 866 (1176)
|.|.-+|+||+||+||+| +|++|.+|+.++.
T Consensus 466 ----------------p~s~~syihrIGRtgRag~~g~Aitfytd~d~ 497 (593)
T KOG0344|consen 466 ----------------PQSDLSYIHRIGRTGRAGRSGKAITFYTDQDM 497 (593)
T ss_pred ----------------CchhHHHHHHhhccCCCCCCcceEEEeccccc
Confidence 999999999999999999 7999999999665
No 67
>TIGR03158 cas3_cyano CRISPR-associated helicase, Cyano-type. subtype of CRISPR/Cas locus, found in several species of Cyanobacteria and several archaeal species. It contains helicase motifs and appears to represent the Cas3 protein of the Cyano subtype of CRISPR/Cas system.
Probab=99.96 E-value=3.3e-27 Score=275.08 Aligned_cols=285 Identities=16% Similarity=0.195 Sum_probs=189.3
Q ss_pred HHHHHHHHHHcCC--eEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhC-------CccCC
Q 001046 528 LKKELIQAVHDNQ--VLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFG-------CRLGE 598 (1176)
Q Consensus 528 ~q~~ii~ai~~~~--~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g-------~~~G~ 598 (1176)
+|.++++++.+++ +++++||||||||.++..+++.. ..+++++.|+++|+.++++++...+. ..++.
T Consensus 1 hQ~~~~~~~~~~~~~~~~i~apTGsGKT~~~~~~~l~~----~~~~~~~~P~~aL~~~~~~~~~~~~~~~~~~~~~~v~~ 76 (357)
T TIGR03158 1 HQVATFEALQSKDADIIFNTAPTGAGKTLAWLTPLLHG----ENDTIALYPTNALIEDQTEAIKEFVDVFKPERDVNLLH 76 (357)
T ss_pred CHHHHHHHHHcCCCCEEEEECCCCCCHHHHHHHHHHHc----CCCEEEEeChHHHHHHHHHHHHHHHHhcCCCCCceEEE
Confidence 5899999998776 58899999999999988887753 35689999999999999998877652 11111
Q ss_pred eeEEEee----cc----------c--------ccCCCceEEEeChHHHHHHHhh---CC------CCCCCceEEEcCCCc
Q 001046 599 EVGYAIR----FE----------D--------CTGPDTVIKYMTDGMLLREILI---DD------NLSQYSVIMLDEAHE 647 (1176)
Q Consensus 599 ~vGy~ir----~~----------~--------~~~~~t~I~~~T~g~Llr~l~~---~~------~L~~~s~IIiDEaHe 647 (1176)
..|.... .. . .......|+++||++|...+.. .+ .+.++++|||||+|.
T Consensus 77 ~~g~~~~d~~~~~~~~~~~~~g~~~~~~~r~~~~~~~p~illT~p~~l~~llr~~~~~~~~~~~~~~~~~~~iV~DE~H~ 156 (357)
T TIGR03158 77 VSKATLKDIKEYANDKVGSSKGEKLYNLLRNPIGTSTPIILLTNPDIFVYLTRFAYIDRGDIAAGFYTKFSTVIFDEFHL 156 (357)
T ss_pred ecCCchHHHHHhhhhhcccCccchhhhhHHHHHhcCCCCEEEecHHHHHHHHhhhccCcccchhhhhcCCCEEEEecccc
Confidence 1111000 00 0 0012345666677777544321 22 268999999999998
Q ss_pred CCCchh-HH---HHHHHHHHhhCCCccEEEEcCCCCHH---HHHhh-hcCCCeEecCCc--ee-----------------
Q 001046 648 RTIHTD-VL---FGLLKQLVKRRPDLRLIVTSATLDAE---KFSGY-FFNCNIFTIPGR--TF----------------- 700 (1176)
Q Consensus 648 R~~~~d-~l---l~llk~~~~~r~~~kvIlmSATl~~~---~~~~~-f~~~~v~~i~gr--~~----------------- 700 (1176)
.+.... .+ +..+..+.......++|+||||++.. .+... +.+.++..+.|+ .+
T Consensus 157 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~i~lSAT~~~~~~~~l~~~~~~~~~~~~v~g~~~~~~~~~~~~~~~~~~~~~~ 236 (357)
T TIGR03158 157 YDAKQLVGMLFLLAYMQLIRFFECRRKFVFLSATPDPALILRLQNAKQAGVKIAPIDGEKYQFPDNPELEADNKTQSFRP 236 (357)
T ss_pred cCcccchhhhhhhHHHHHHHhhhcCCcEEEEecCCCHHHHHHHHhccccCceeeeecCcccccCCChhhhccccccccce
Confidence 664332 22 23333222223357999999999754 23232 135677777776 11
Q ss_pred ---eeEEEEecCCC--chhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCC
Q 001046 701 ---PVEILYTKQPE--SDYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALP 775 (1176)
Q Consensus 701 ---pv~~~~~~~~~--~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~ 775 (1176)
++++.+..... ...+...+..+.......+++++||||+++..++.++..|.+. + .++.+..+||.++
T Consensus 237 ~~~~i~~~~~~~~~~~~~~l~~l~~~i~~~~~~~~~~k~LIf~nt~~~~~~l~~~L~~~----~---~~~~~~~l~g~~~ 309 (357)
T TIGR03158 237 VLPPVELELIPAPDFKEEELSELAEEVIERFRQLPGERGAIILDSLDEVNRLSDLLQQQ----G---LGDDIGRITGFAP 309 (357)
T ss_pred eccceEEEEEeCCchhHHHHHHHHHHHHHHHhccCCCeEEEEECCHHHHHHHHHHHhhh----C---CCceEEeeecCCC
Confidence 34444443211 1122222233333333345679999999999999999999753 1 2356788999999
Q ss_pred HHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccC
Q 001046 776 SEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAG 850 (1176)
Q Consensus 776 ~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAG 850 (1176)
+.+|.++. +..|||||+++++||||+++ +|| + - |.+.++|+||+||+|
T Consensus 310 ~~~R~~~~------~~~iLVaTdv~~rGiDi~~~-~vi-~-~------------------p~~~~~yiqR~GR~g 357 (357)
T TIGR03158 310 KKDRERAM------QFDILLGTSTVDVGVDFKRD-WLI-F-S------------------ARDAAAFWQRLGRLG 357 (357)
T ss_pred HHHHHHhc------cCCEEEEecHHhcccCCCCc-eEE-E-C------------------CCCHHHHhhhcccCC
Confidence 99988764 67899999999999999987 555 1 1 678899999999998
No 68
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=99.96 E-value=3.5e-27 Score=268.02 Aligned_cols=316 Identities=20% Similarity=0.200 Sum_probs=225.6
Q ss_pred CchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEE
Q 001046 524 PIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYA 603 (1176)
Q Consensus 524 Pi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ 603 (1176)
-.+.||..+......+ +++|+.|||=|||+.+...++......+++++++.||+-|+.|.+..+.+.+|.+....+...
T Consensus 15 e~R~YQ~~i~a~al~~-NtLvvlPTGLGKT~IA~~V~~~~l~~~~~kvlfLAPTKPLV~Qh~~~~~~v~~ip~~~i~~lt 93 (542)
T COG1111 15 EPRLYQLNIAAKALFK-NTLVVLPTGLGKTFIAAMVIANRLRWFGGKVLFLAPTKPLVLQHAEFCRKVTGIPEDEIAALT 93 (542)
T ss_pred cHHHHHHHHHHHHhhc-CeEEEecCCccHHHHHHHHHHHHHHhcCCeEEEecCCchHHHHHHHHHHHHhCCChhheeeec
Confidence 3456788888777666 789999999999999988888654444568999999999999999999999998776555432
Q ss_pred --eecccc--cCCCceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCCC
Q 001046 604 --IRFEDC--TGPDTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSATL 678 (1176)
Q Consensus 604 --ir~~~~--~~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSATl 678 (1176)
++.+.. .-...+|+|+||.++.+-+.... ++.+++|||+|||| |..-.-.+.-+.+..+....+..+++||||+
T Consensus 94 Gev~p~~R~~~w~~~kVfvaTPQvveNDl~~Grid~~dv~~lifDEAH-RAvGnyAYv~Va~~y~~~~k~~~ilgLTASP 172 (542)
T COG1111 94 GEVRPEEREELWAKKKVFVATPQVVENDLKAGRIDLDDVSLLIFDEAH-RAVGNYAYVFVAKEYLRSAKNPLILGLTASP 172 (542)
T ss_pred CCCChHHHHHHHhhCCEEEeccHHHHhHHhcCccChHHceEEEechhh-hccCcchHHHHHHHHHHhccCceEEEEecCC
Confidence 221111 12467899999999999888766 89999999999999 7777767777778777777888999999999
Q ss_pred --CHHHHHhhhcCCCe----EecCCc------eeeeEEEEecCCC-----------------------------------
Q 001046 679 --DAEKFSGYFFNCNI----FTIPGR------TFPVEILYTKQPE----------------------------------- 711 (1176)
Q Consensus 679 --~~~~~~~~f~~~~v----~~i~gr------~~pv~~~~~~~~~----------------------------------- 711 (1176)
+.+.+.....+-.+ +..+.. ...+++.+.+...
T Consensus 173 Gs~~ekI~eV~~nLgIe~vevrTE~d~DV~~Yv~~~kve~ikV~lp~e~~~ir~~l~~~l~~~Lk~L~~~g~~~~~~~~~ 252 (542)
T COG1111 173 GSDLEKIQEVVENLGIEKVEVRTEEDPDVRPYVKKIKVEWIKVDLPEEIKEIRDLLRDALKPRLKPLKELGVIESSSPVS 252 (542)
T ss_pred CCCHHHHHHHHHhCCcceEEEecCCCccHHHhhccceeEEEeccCcHHHHHHHHHHHHHHHHHHHHHHHcCceeccCccc
Confidence 46666554432211 111100 0111222111000
Q ss_pred -ch-------------------------------------------------hHH------------------------H
Q 001046 712 -SD-------------------------------------------------YLD------------------------A 717 (1176)
Q Consensus 712 -~~-------------------------------------------------~~~------------------------~ 717 (1176)
.+ |+. .
T Consensus 253 ~kdl~~~~~~~~~~a~~~~~~~~~~l~~~a~~~kl~~a~elletqGi~~~~~Yl~~l~e~~~~~~sk~a~~l~~d~~~~~ 332 (542)
T COG1111 253 KKDLLELRQIRLIMAKNEDSDKFRLLSVLAEAIKLAHALELLETQGIRPFYQYLEKLEEEATKGGSKAAKSLLADPYFKR 332 (542)
T ss_pred HhHHHHHHHHHHHhccCccHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHHhcccchHHHHHHhcChhhHH
Confidence 00 000 0
Q ss_pred HHHHH-------------------H-HHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEE-----ecC
Q 001046 718 SLITV-------------------L-QIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILP-----VYS 772 (1176)
Q Consensus 718 ~l~~v-------------------~-~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~-----lhs 772 (1176)
++..+ + ......+...+|||+.-++.++.+...|.+. +.... ..++. ...
T Consensus 333 al~~~~~~~~~~v~HPKl~~l~eilke~~~k~~~~RvIVFT~yRdTae~i~~~L~~~----~~~~~-~rFiGQa~r~~~~ 407 (542)
T COG1111 333 ALRLLIRADESGVEHPKLEKLREILKEQLEKNGDSRVIVFTEYRDTAEEIVNFLKKI----GIKAR-VRFIGQASREGDK 407 (542)
T ss_pred HHHHHHHhccccCCCccHHHHHHHHHHHHhcCCCceEEEEehhHhHHHHHHHHHHhc----CCcce-eEEeecccccccc
Confidence 00000 0 0011233468999999999998888887653 22211 11111 136
Q ss_pred CCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCC
Q 001046 773 ALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRT 852 (1176)
Q Consensus 773 ~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~ 852 (1176)
||++.+|..+++.|+.|...|||||+|+|.|+|||++++||-|.. -.|.--++||.||+||.
T Consensus 408 GMsQkeQ~eiI~~Fr~Ge~nVLVaTSVgEEGLDIp~vDlVifYEp------------------vpSeIR~IQR~GRTGR~ 469 (542)
T COG1111 408 GMSQKEQKEIIDQFRKGEYNVLVATSVGEEGLDIPEVDLVIFYEP------------------VPSEIRSIQRKGRTGRK 469 (542)
T ss_pred ccCHHHHHHHHHHHhcCCceEEEEcccccccCCCCcccEEEEecC------------------CcHHHHHHHhhCccccC
Confidence 799999999999999999999999999999999999999994443 55778899999999999
Q ss_pred CCcEEEEecChH
Q 001046 853 GPGKCYRLYTES 864 (1176)
Q Consensus 853 g~G~c~~L~t~~ 864 (1176)
.+|..|.|+++.
T Consensus 470 r~Grv~vLvt~g 481 (542)
T COG1111 470 RKGRVVVLVTEG 481 (542)
T ss_pred CCCeEEEEEecC
Confidence 999999999977
No 69
>KOG4284 consensus DEAD box protein [Transcription]
Probab=99.95 E-value=5.4e-28 Score=276.81 Aligned_cols=314 Identities=18% Similarity=0.237 Sum_probs=241.8
Q ss_pred cCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccC--CCEEEEeccHHHHHHHHHHHHHHHh----CCc
Q 001046 522 SLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTT--RGKIGCTQPRRVAAMSVAKRVAEEF----GCR 595 (1176)
Q Consensus 522 ~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~--~~~Ilv~~PrR~lA~qva~rva~e~----g~~ 595 (1176)
.+|. ++|..+|+++..+-++||++..|+|||.++..++++..-.. ...++++.|||++|+|+...|...- |..
T Consensus 46 ~~pt-kiQaaAIP~~~~kmDliVQaKSGTGKTlVfsv~av~sl~~~~~~~q~~Iv~PTREiaVQI~~tv~~v~~sf~g~~ 124 (980)
T KOG4284|consen 46 ALPT-KIQAAAIPAIFSKMDLIVQAKSGTGKTLVFSVLAVESLDSRSSHIQKVIVTPTREIAVQIKETVRKVAPSFTGAR 124 (980)
T ss_pred cCCC-chhhhhhhhhhcccceEEEecCCCCceEEEEeeeehhcCcccCcceeEEEecchhhhhHHHHHHHHhcccccCcc
Confidence 3444 66999999999999999999999999988777776653222 3478999999999999998775532 222
Q ss_pred cCCeeEEE-eecccccCCCceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhC-CCccEE
Q 001046 596 LGEEVGYA-IRFEDCTGPDTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRR-PDLRLI 672 (1176)
Q Consensus 596 ~G~~vGy~-ir~~~~~~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r-~~~kvI 672 (1176)
+..-+|.. +..+...-..++|++.|||+++.+...+. +.+.+.++|||||+ .-..+..+..-+..++... ...|++
T Consensus 125 csvfIGGT~~~~d~~rlk~~rIvIGtPGRi~qL~el~~~n~s~vrlfVLDEAD-kL~~t~sfq~~In~ii~slP~~rQv~ 203 (980)
T KOG4284|consen 125 CSVFIGGTAHKLDLIRLKQTRIVIGTPGRIAQLVELGAMNMSHVRLFVLDEAD-KLMDTESFQDDINIIINSLPQIRQVA 203 (980)
T ss_pred eEEEecCchhhhhhhhhhhceEEecCchHHHHHHHhcCCCccceeEEEeccHH-hhhchhhHHHHHHHHHHhcchhheee
Confidence 22223321 11122233678999999999999887776 78999999999999 4555566666666666644 457899
Q ss_pred EEcCCCC---HHHHHhhhcCCCeEecCCce---eeeEEEEecCCCc----hhHHHHHHHHHHHHhcCCCCCEEEEeCCHH
Q 001046 673 VTSATLD---AEKFSGYFFNCNIFTIPGRT---FPVEILYTKQPES----DYLDASLITVLQIHLTEPEGDILLFLTGQE 742 (1176)
Q Consensus 673 lmSATl~---~~~~~~~f~~~~v~~i~gr~---~pv~~~~~~~~~~----~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ 742 (1176)
++|||.+ .+.++.|+.++.++....+. +-+..+|...+.. ..+...+..+-++...-+-.+.||||+...
T Consensus 204 a~SATYp~nLdn~Lsk~mrdp~lVr~n~~d~~L~GikQyv~~~~s~nnsveemrlklq~L~~vf~~ipy~QAlVF~~~~s 283 (980)
T KOG4284|consen 204 AFSATYPRNLDNLLSKFMRDPALVRFNADDVQLFGIKQYVVAKCSPNNSVEEMRLKLQKLTHVFKSIPYVQALVFCDQIS 283 (980)
T ss_pred EEeccCchhHHHHHHHHhcccceeecccCCceeechhheeeeccCCcchHHHHHHHHHHHHHHHhhCchHHHHhhhhhhh
Confidence 9999996 56777777666666655443 3344444433332 223344555566666677788999999999
Q ss_pred HHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCccccee
Q 001046 743 EIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNV 822 (1176)
Q Consensus 743 ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~ 822 (1176)
.++.++..|.. .++.+..+.|.|.+.+|..+++.++.-..+|||+|++-++|||-|+|+.|||.+.
T Consensus 284 ra~~~a~~L~s---------sG~d~~~ISgaM~Q~~Rl~a~~~lr~f~~rILVsTDLtaRGIDa~~vNLVVNiD~----- 349 (980)
T KOG4284|consen 284 RAEPIATHLKS---------SGLDVTFISGAMSQKDRLLAVDQLRAFRVRILVSTDLTARGIDADNVNLVVNIDA----- 349 (980)
T ss_pred hhhHHHHHhhc---------cCCCeEEeccccchhHHHHHHHHhhhceEEEEEecchhhccCCccccceEEecCC-----
Confidence 99998888864 4788899999999999999999999999999999999999999999999999988
Q ss_pred ccCCCCCccccccccCHHHHHHHhcccCCCC-CcEEEEecChH
Q 001046 823 YNPKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTES 864 (1176)
Q Consensus 823 yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~ 864 (1176)
|.+-..|.||+|||||.| .|.+++|+...
T Consensus 350 -------------p~d~eTY~HRIGRAgRFG~~G~aVT~~~~~ 379 (980)
T KOG4284|consen 350 -------------PADEETYFHRIGRAGRFGAHGAAVTLLEDE 379 (980)
T ss_pred -------------CcchHHHHHHhhhcccccccceeEEEeccc
Confidence 999999999999999999 69999887654
No 70
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=99.95 E-value=5.2e-27 Score=258.71 Aligned_cols=331 Identities=16% Similarity=0.234 Sum_probs=245.5
Q ss_pred CCCchhHHHhhhcccccccccChHHHHHHHhcCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhccc--CC
Q 001046 491 AYDMPEWKKDAFGKALTFGQRSKLSIQEQRQSLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYT--TR 568 (1176)
Q Consensus 491 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~r~~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~--~~ 568 (1176)
.++..+.++.++...+.|+...+. -.+||..+|+ ..|.++++++.+|+|||.++...++...-. ..
T Consensus 27 sfddm~L~e~LLrgiy~yGFekPS-aIQqraI~p~-----------i~G~dv~~qaqsgTgKt~af~i~iLq~iD~~~ke 94 (397)
T KOG0327|consen 27 SFDDMNLKESLLRGIYAYGFEKPS-AIQQRAILPC-----------IKGHDVIAQAQSGTGKTAAFLISILQQIDMSVKE 94 (397)
T ss_pred hhhhcCCCHHHHhHHHhhccCCch-HHHhcccccc-----------ccCCceeEeeeccccchhhhHHHHHhhcCcchHH
Confidence 344445556666666666665543 3456777776 689999999999999998888888775321 13
Q ss_pred CEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeeccc----c---cCCCceEEEeChHHHHHHHhhCC-CCCCCceE
Q 001046 569 GKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFED----C---TGPDTVIKYMTDGMLLREILIDD-NLSQYSVI 640 (1176)
Q Consensus 569 ~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~----~---~~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~I 640 (1176)
..++++.|+|+||.|+.+ +...+|...+..+--.+.+.. + ......|++.|||..+..+.... ....+.++
T Consensus 95 ~qalilaPtreLa~qi~~-v~~~lg~~~~~~v~~~igg~~~~~~~~~i~~~~~hivvGTpgrV~dml~~~~l~~~~iKmf 173 (397)
T KOG0327|consen 95 TQALILAPTRELAQQIQK-VVRALGDHMDVSVHACIGGTNVRREDQALLKDKPHIVVGTPGRVFDMLNRGSLSTDGIKMF 173 (397)
T ss_pred HHHHHhcchHHHHHHHHH-HHHhhhcccceeeeeecCcccchhhhhhhhccCceeecCCchhHHHhhccccccccceeEE
Confidence 368999999999999994 566666655444433332221 1 12347899999999999987665 35568999
Q ss_pred EEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCCCC--HHHHHhhhcCCCeEecCCce----eeeEEEEecCCCchh
Q 001046 641 MLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSATLD--AEKFSGYFFNCNIFTIPGRT----FPVEILYTKQPESDY 714 (1176)
Q Consensus 641 IiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSATl~--~~~~~~~f~~~~v~~i~gr~----~pv~~~~~~~~~~~~ 714 (1176)
|+|||+|. +..++.-.+...+....++.|++++|||++ ...+++-|...|+...-.+. --+..+|.......
T Consensus 174 vlDEaDEm-Ls~gfkdqI~~if~~lp~~vQv~l~SAT~p~~vl~vt~~f~~~pv~i~vkk~~ltl~gikq~~i~v~k~~- 251 (397)
T KOG0327|consen 174 VLDEADEM-LSRGFKDQIYDIFQELPSDVQVVLLSATMPSDVLEVTKKFMREPVRILVKKDELTLEGIKQFYINVEKEE- 251 (397)
T ss_pred eecchHhh-hccchHHHHHHHHHHcCcchhheeecccCcHHHHHHHHHhccCceEEEecchhhhhhheeeeeeeccccc-
Confidence 99999963 333333333333334677899999999996 55677788777764332211 01122332221111
Q ss_pred HHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEE
Q 001046 715 LDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVV 794 (1176)
Q Consensus 715 ~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVl 794 (1176)
.+.++..++. ...+.+|||+|++.+..+...|.. .++.+..+|+.|.+.+|..+...|+.|..+||
T Consensus 252 ---k~~~l~dl~~--~~~q~~if~nt~r~v~~l~~~L~~---------~~~~~s~~~~d~~q~~R~~~~~ef~~gssrvl 317 (397)
T KOG0327|consen 252 ---KLDTLCDLYR--RVTQAVIFCNTRRKVDNLTDKLRA---------HGFTVSAIHGDMEQNERDTLMREFRSGSSRVL 317 (397)
T ss_pred ---cccHHHHHHH--hhhcceEEecchhhHHHHHHHHhh---------CCceEEEeecccchhhhhHHHHHhhcCCceEE
Confidence 5566666665 567889999999999999998854 37889999999999999999999999999999
Q ss_pred EEcchhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC-CcEEEEecChHHHhh
Q 001046 795 VATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTESAYRN 868 (1176)
Q Consensus 795 VATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~~~ 868 (1176)
|.|+.+++|+|+-.+..||++.+ |..+++|.||+||+||.| +|.++.++++++...
T Consensus 318 Ittdl~argidv~~~slvinydl------------------P~~~~~yihR~gr~gr~grkg~~in~v~~~d~~~ 374 (397)
T KOG0327|consen 318 ITTDLLARGIDVQQVSLVVNYDL------------------PARKENYIHRIGRAGRFGRKGVAINFVTEEDVRD 374 (397)
T ss_pred eeccccccccchhhcceeeeecc------------------ccchhhhhhhcccccccCCCceeeeeehHhhHHH
Confidence 99999999999999999999999 999999999999999999 899999999887643
No 71
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=99.95 E-value=2.6e-26 Score=275.19 Aligned_cols=318 Identities=21% Similarity=0.289 Sum_probs=214.9
Q ss_pred hcCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhc-ccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCe
Q 001046 521 QSLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAG-YTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEE 599 (1176)
Q Consensus 521 ~~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~-~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~ 599 (1176)
..++++.||.+++...+ ++++||++|||+|||.++...++++. +...++|++++|++-|+.|+...+ ..++.+.. .
T Consensus 59 ~~~~lR~YQ~eivq~AL-gkNtii~lPTG~GKTfIAa~Vm~nh~rw~p~~KiVF~aP~~pLv~QQ~a~~-~~~~~~~~-~ 135 (746)
T KOG0354|consen 59 TNLELRNYQEELVQPAL-GKNTIIALPTGSGKTFIAAVIMKNHFEWRPKGKVVFLAPTRPLVNQQIACF-SIYLIPYS-V 135 (746)
T ss_pred CcccccHHHHHHhHHhh-cCCeEEEeecCCCccchHHHHHHHHHhcCCcceEEEeeCCchHHHHHHHHH-hhccCccc-c
Confidence 56889999999999999 99999999999999998888887753 334589999999999999988543 44443311 1
Q ss_pred eEEEeecccc------cCCCceEEEeChHHHHHHHhhCC--CCCCCceEEEcCCCcCCCchhHHHHHHHHHHhh-CCCcc
Q 001046 600 VGYAIRFEDC------TGPDTVIKYMTDGMLLREILIDD--NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKR-RPDLR 670 (1176)
Q Consensus 600 vGy~ir~~~~------~~~~t~I~~~T~g~Llr~l~~~~--~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~-r~~~k 670 (1176)
.|. ...+.. .-...++.|+||.+|...|.... .|+.+++||||||| |+.-.-.+-.+++.++.. +...|
T Consensus 136 T~~-l~~~~~~~~r~~i~~s~~vff~TpQil~ndL~~~~~~~ls~fs~iv~DE~H-ra~kn~~Y~~Vmr~~l~~k~~~~q 213 (746)
T KOG0354|consen 136 TGQ-LGDTVPRSNRGEIVASKRVFFRTPQILENDLKSGLHDELSDFSLIVFDECH-RTSKNHPYNNIMREYLDLKNQGNQ 213 (746)
T ss_pred eee-ccCccCCCchhhhhcccceEEeChHhhhhhcccccccccceEEEEEEcccc-cccccccHHHHHHHHHHhhhcccc
Confidence 111 111111 11367899999999988887543 47889999999999 665555555566555543 33349
Q ss_pred EEEEcCCC--CHHHHHhhhcCCCe-EecC--------------CceeeeEE-----------------------------
Q 001046 671 LIVTSATL--DAEKFSGYFFNCNI-FTIP--------------GRTFPVEI----------------------------- 704 (1176)
Q Consensus 671 vIlmSATl--~~~~~~~~f~~~~v-~~i~--------------gr~~pv~~----------------------------- 704 (1176)
||++|||+ +.+....+..+--+ +.+. -...|+++
T Consensus 214 ILgLTASpG~~~~~v~~~I~~L~asldvr~~ssi~~~y~~lr~~~~i~v~~~~~~~~~~~~f~~~i~p~l~~l~~~~l~~ 293 (746)
T KOG0354|consen 214 ILGLTASPGSKLEQVQNVIDNLCASLDVRTESSIKSNYEELREHVQIPVDLSLCERDIEDPFGMIIEPLLQQLQEEGLIE 293 (746)
T ss_pred EEEEecCCCccHHHHHHHHHhhheecccchhhhhhhhHHHHhccCcccCcHHHhhhhhhhhHHHHHHHHHHHHHhcCccc
Confidence 99999999 34444443321000 0000 00011110
Q ss_pred ------EEec------------CC--Cc---------------------------h-------------h----------
Q 001046 705 ------LYTK------------QP--ES---------------------------D-------------Y---------- 714 (1176)
Q Consensus 705 ------~~~~------------~~--~~---------------------------~-------------~---------- 714 (1176)
.|.. .+ .. + |
T Consensus 294 ~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~f~~~~~~~~~~~ll~~~gir~~~~l~~~~~f~~e~~~~k~~~~~~e~~~~ 373 (746)
T KOG0354|consen 294 ISDKSTSYEQWVVQAEKAAAPNGPENQRNCFYALHLRKYNLALLISDGIRFVDALDYLEDFYEEVALKKYLKLELEARLI 373 (746)
T ss_pred cccccccccchhhhhhhhhccCCCccchhhHHHHHHHHHHHHHHhhcchhhHHHHhhhhhhccccchhHHHHHHhcchhh
Confidence 0000 00 00 0 0
Q ss_pred -----------------------HHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEec
Q 001046 715 -----------------------LDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVY 771 (1176)
Q Consensus 715 -----------------------~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lh 771 (1176)
++.....++......+...+|||+.+++.+..+...|.+ +..++- .+.+.+..-+
T Consensus 374 ~~~~~~m~~~~~l~~~~~~~npkle~l~~~l~e~f~~~~dsR~IIFve~R~sa~~l~~~l~~-~~~~~i-r~~~fiGq~~ 451 (746)
T KOG0354|consen 374 RNFTENMNELEHLSLDPPKENPKLEKLVEILVEQFEQNPDSRTIIFVETRESALALKKWLLQ-LHELGI-KAEIFIGQGK 451 (746)
T ss_pred HHHHHHHHhhhhhhcCCCccChhHHHHHHHHHHHhhcCCCccEEEEEehHHHHHHHHHHHHh-hhhccc-ccceeeeccc
Confidence 000001111122234456899999999999999998875 222211 1222222222
Q ss_pred ----CCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhc
Q 001046 772 ----SALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAG 847 (1176)
Q Consensus 772 ----s~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~G 847 (1176)
.+|++.+|..+++.|+.|..+|||||+|+|.||||+.++.||-||+ ..+.-..+||.|
T Consensus 452 s~~~~gmtqk~Q~evl~~Fr~G~~NvLVATSV~EEGLDI~ec~lVIcYd~------------------~snpIrmIQrrG 513 (746)
T KOG0354|consen 452 STQSTGMTQKEQKEVLDKFRDGEINVLVATSVAEEGLDIGECNLVICYDY------------------SSNPIRMVQRRG 513 (746)
T ss_pred cccccccCHHHHHHHHHHHhCCCccEEEEecchhccCCcccccEEEEecC------------------CccHHHHHHHhc
Confidence 4899999999999999999999999999999999999999998888 667889999999
Q ss_pred ccCCCCCcEEEEecChH
Q 001046 848 RAGRTGPGKCYRLYTES 864 (1176)
Q Consensus 848 RAGR~g~G~c~~L~t~~ 864 (1176)
| ||...|+|+.|++..
T Consensus 514 R-gRa~ns~~vll~t~~ 529 (746)
T KOG0354|consen 514 R-GRARNSKCVLLTTGS 529 (746)
T ss_pred c-ccccCCeEEEEEcch
Confidence 9 999999999999943
No 72
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=99.95 E-value=1.7e-26 Score=291.38 Aligned_cols=322 Identities=23% Similarity=0.270 Sum_probs=234.6
Q ss_pred HhcCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccC-CCEEEEeccHHHHHHHHHHHHHHHhCCccCC
Q 001046 520 RQSLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTT-RGKIGCTQPRRVAAMSVAKRVAEEFGCRLGE 598 (1176)
Q Consensus 520 r~~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~-~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~ 598 (1176)
+....+|.+|.++++.+.+|++|||+.+||||||.+|.++|+++.+.. ..+.+++.|+++||+++++++.+.... +|.
T Consensus 66 ~g~~~lY~HQ~~A~~~~~~G~~vvVtTgTgSGKTe~FllPIld~~l~~~~a~AL~lYPtnALa~DQ~~rl~~~~~~-~~~ 144 (851)
T COG1205 66 AGIERLYSHQVDALRLIREGRNVVVTTGTGSGKTESFLLPILDHLLRDPSARALLLYPTNALANDQAERLRELISD-LPG 144 (851)
T ss_pred hccccccHHHHHHHHHHHCCCCEEEECCCCCchhHHHHHHHHHHHhhCcCccEEEEechhhhHhhHHHHHHHHHHh-CCC
Confidence 444559999999999999999999999999999999999999976654 347899999999999999998776533 332
Q ss_pred eeEEEe-eccc-------ccCCCceEEEeChHHHHHHHhhCC-----CCCCCceEEEcCCCc-CCCchhHHHHHHHHHHh
Q 001046 599 EVGYAI-RFED-------CTGPDTVIKYMTDGMLLREILIDD-----NLSQYSVIMLDEAHE-RTIHTDVLFGLLKQLVK 664 (1176)
Q Consensus 599 ~vGy~i-r~~~-------~~~~~t~I~~~T~g~Llr~l~~~~-----~L~~~s~IIiDEaHe-R~~~~d~ll~llk~~~~ 664 (1176)
.|+..+ .++. ......+|++++|.||...++... .++++.+||+||+|- |+...--+..+++++..
T Consensus 145 ~v~~~~y~Gdt~~~~r~~~~~~pp~IllTNpdMLh~~llr~~~~~~~~~~~Lk~lVvDElHtYrGv~GS~vA~llRRL~~ 224 (851)
T COG1205 145 KVTFGRYTGDTPPEERRAIIRNPPDILLTNPDMLHYLLLRNHDAWLWLLRNLKYLVVDELHTYRGVQGSEVALLLRRLLR 224 (851)
T ss_pred cceeeeecCCCChHHHHHHHhCCCCEEEeCHHHHHHHhccCcchHHHHHhcCcEEEEecceeccccchhHHHHHHHHHHH
Confidence 333222 1111 124568999999999988666443 478899999999996 66665555555555554
Q ss_pred h----CCCccEEEEcCCC-CHHHHHhhhcCCCeEe-cCCceee--eEEEEecCCCchh--------HHHHHHHHHHHHhc
Q 001046 665 R----RPDLRLIVTSATL-DAEKFSGYFFNCNIFT-IPGRTFP--VEILYTKQPESDY--------LDASLITVLQIHLT 728 (1176)
Q Consensus 665 ~----r~~~kvIlmSATl-~~~~~~~~f~~~~v~~-i~gr~~p--v~~~~~~~~~~~~--------~~~~l~~v~~i~~~ 728 (1176)
. ..++++|.+|||+ ++..++.-+.+..... +.+...| ...++...+..-+ .......+... ..
T Consensus 225 ~~~~~~~~~q~i~~SAT~~np~e~~~~l~~~~f~~~v~~~g~~~~~~~~~~~~p~~~~~~~~~r~s~~~~~~~~~~~-~~ 303 (851)
T COG1205 225 RLRRYGSPLQIICTSATLANPGEFAEELFGRDFEVPVDEDGSPRGLRYFVRREPPIRELAESIRRSALAELATLAAL-LV 303 (851)
T ss_pred HHhccCCCceEEEEeccccChHHHHHHhcCCcceeeccCCCCCCCceEEEEeCCcchhhhhhcccchHHHHHHHHHH-HH
Confidence 2 2379999999999 6666666555544333 4433322 2222222221000 01111112111 22
Q ss_pred CCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCC
Q 001046 729 EPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDG 808 (1176)
Q Consensus 729 ~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~ 808 (1176)
..+-++|||+.++..++.+.......+...+ ......+..++++|..++|.++...|+.|...++++||.+|.||||.+
T Consensus 304 ~~~~~tL~F~~sr~~~e~~~~~~~~~~~~~~-~~l~~~v~~~~~~~~~~er~~ie~~~~~g~~~~~~st~AlelgidiG~ 382 (851)
T COG1205 304 RNGIQTLVFFRSRKQVELLYLSPRRRLVREG-GKLLDAVSTYRAGLHREERRRIEAEFKEGELLGVIATNALELGIDIGS 382 (851)
T ss_pred HcCceEEEEEehhhhhhhhhhchhHHHhhcc-hhhhhheeeccccCCHHHHHHHHHHHhcCCccEEecchhhhhceeehh
Confidence 3567899999999999998766666554444 223356888999999999999999999999999999999999999999
Q ss_pred eeEEEeCCcccceeccCCCCCcccccccc-CHHHHHHHhcccCCCC-CcEEEEecC
Q 001046 809 IFYVIDPGFAKQNVYNPKQGLDSLVITPI-SQASAKQRAGRAGRTG-PGKCYRLYT 862 (1176)
Q Consensus 809 V~~VId~g~~k~~~yd~~~g~~~l~~~p~-S~as~~QR~GRAGR~g-~G~c~~L~t 862 (1176)
+..||.+|+ |. |..+++||+|||||.+ .+..+..+.
T Consensus 383 ldavi~~g~------------------P~~s~~~~~Q~~GRaGR~~~~~l~~~v~~ 420 (851)
T COG1205 383 LDAVIAYGY------------------PGVSVLSFRQRAGRAGRRGQESLVLVVLR 420 (851)
T ss_pred hhhHhhcCC------------------CCchHHHHHHhhhhccCCCCCceEEEEeC
Confidence 999999999 88 9999999999999999 455444443
No 73
>PHA02558 uvsW UvsW helicase; Provisional
Probab=99.94 E-value=1.5e-25 Score=272.46 Aligned_cols=296 Identities=15% Similarity=0.107 Sum_probs=199.1
Q ss_pred CCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEE
Q 001046 523 LPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGY 602 (1176)
Q Consensus 523 LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy 602 (1176)
..++++|.+++..+..++..++++|||+|||..+...+....-...++++|++||++|+.|+.+++.+......+ .++.
T Consensus 113 ~~~r~~Q~~av~~~l~~~~~il~apTGsGKT~i~~~l~~~~~~~~~~~vLilvpt~eL~~Q~~~~l~~~~~~~~~-~~~~ 191 (501)
T PHA02558 113 IEPHWYQYDAVYEGLKNNRRLLNLPTSAGKSLIQYLLSRYYLENYEGKVLIIVPTTSLVTQMIDDFVDYRLFPRE-AMHK 191 (501)
T ss_pred CCCCHHHHHHHHHHHhcCceEEEeCCCCCHHHHHHHHHHHHHhcCCCeEEEEECcHHHHHHHHHHHHHhcccccc-ceeE
Confidence 567889999999998999999999999999987654332211122348999999999999999988664432221 1211
Q ss_pred EeecccccCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCCCCHH-
Q 001046 603 AIRFEDCTGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSATLDAE- 681 (1176)
Q Consensus 603 ~ir~~~~~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSATl~~~- 681 (1176)
... .........|+++|++.+.+.. ...+.++++||+||||. .... .+..+++.+ .+..++++||||+...
T Consensus 192 i~~-g~~~~~~~~I~VaT~qsl~~~~--~~~~~~~~~iIvDEaH~-~~~~-~~~~il~~~---~~~~~~lGLTATp~~~~ 263 (501)
T PHA02558 192 IYS-GTAKDTDAPIVVSTWQSAVKQP--KEWFDQFGMVIVDECHL-FTGK-SLTSIITKL---DNCKFKFGLTGSLRDGK 263 (501)
T ss_pred Eec-CcccCCCCCEEEeeHHHHhhch--hhhccccCEEEEEchhc-ccch-hHHHHHHhh---hccceEEEEeccCCCcc
Confidence 111 1122245789999999987653 23578999999999994 3322 223333322 2345799999999421
Q ss_pred ----HHHhhhcCCCeEecC-------CceeeeEEE--EecCC--------CchhHH------------HHHHHHHHHHhc
Q 001046 682 ----KFSGYFFNCNIFTIP-------GRTFPVEIL--YTKQP--------ESDYLD------------ASLITVLQIHLT 728 (1176)
Q Consensus 682 ----~~~~~f~~~~v~~i~-------gr~~pv~~~--~~~~~--------~~~~~~------------~~l~~v~~i~~~ 728 (1176)
.+..+|+.. ...+. |...++.+. +...+ ..+|-. ..+..+... ..
T Consensus 264 ~~~~~~~~~fG~i-~~~v~~~~li~~g~l~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Rn~~I~~~~~~-~~ 341 (501)
T PHA02558 264 ANILQYVGLFGDI-FKPVTTSQLMEEGQVTDLKINSIFLRYPDEDRVKLKGEDYQEEIKYITSHTKRNKWIANLALK-LA 341 (501)
T ss_pred ccHHHHHHhhCCc-eEEecHHHHHhCCCcCCceEEEEeccCCHHHhhhhcccchHHHHHHHhccHHHHHHHHHHHHH-HH
Confidence 123344421 11111 211122211 11111 011110 011111111 12
Q ss_pred CCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEc-chhhhccCCC
Q 001046 729 EPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVAT-NIAEASLTID 807 (1176)
Q Consensus 729 ~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVAT-niae~GIdIp 807 (1176)
..++.+|||+...++++.+++.|.+. +..+..+||+++.++|..+++.|+.|...||||| +++++|+|+|
T Consensus 342 ~~~~~~lV~~~~~~h~~~L~~~L~~~---------g~~v~~i~G~~~~~eR~~i~~~~~~~~~~vLvaT~~~l~eG~Dip 412 (501)
T PHA02558 342 KKGENTFVMFKYVEHGKPLYEMLKKV---------YDKVYYVSGEVDTEDRNEMKKIAEGGKGIIIVASYGVFSTGISIK 412 (501)
T ss_pred hcCCCEEEEEEEHHHHHHHHHHHHHc---------CCCEEEEeCCCCHHHHHHHHHHHhCCCCeEEEEEcceeccccccc
Confidence 35678999999999998888888762 4578899999999999999999999999999999 8999999999
Q ss_pred CeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCCCcE
Q 001046 808 GIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTGPGK 856 (1176)
Q Consensus 808 ~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g~G~ 856 (1176)
++++||.... +.|...|+||+||+||.++|+
T Consensus 413 ~ld~vIl~~p------------------~~s~~~~~QriGR~~R~~~~K 443 (501)
T PHA02558 413 NLHHVIFAHP------------------SKSKIIVLQSIGRVLRKHGSK 443 (501)
T ss_pred cccEEEEecC------------------CcchhhhhhhhhccccCCCCC
Confidence 9999995554 678899999999999999765
No 74
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=99.94 E-value=2.7e-25 Score=269.84 Aligned_cols=453 Identities=17% Similarity=0.184 Sum_probs=294.0
Q ss_pred CchhHHHhhhcccccccccChHHHHHHHhcCCchHHHHHHHHHHH-cCCeEEEEcCCCCcHHHHHHHHHHHhcccC----
Q 001046 493 DMPEWKKDAFGKALTFGQRSKLSIQEQRQSLPIYKLKKELIQAVH-DNQVLVVIGETGSGKTTQVTQYLAEAGYTT---- 567 (1176)
Q Consensus 493 ~~~~~~~~~~~~~~~~~~~~~~~l~~~r~~LPi~~~q~~ii~ai~-~~~~vIv~apTGSGKTt~~~~~lle~~~~~---- 567 (1176)
..|+|...+|.+..+ +...|..+..+.. ...++++|||||+|||-.+.+-+++..-..
T Consensus 295 elP~Wnq~aF~g~~s-----------------LNrIQS~v~daAl~~~EnmLlCAPTGaGKTNVAvLtiLqel~~h~r~d 357 (1674)
T KOG0951|consen 295 ELPKWNQPAFFGKQS-----------------LNRIQSKVYDAALRGDENMLLCAPTGAGKTNVAVLTILQELGNHLRED 357 (1674)
T ss_pred CCcchhhhhcccchh-----------------hhHHHHHHHHHHhcCcCcEEEeccCCCCchHHHHHHHHHHHhcccccc
Confidence 468888877664322 3455777777764 456999999999999988888887743211
Q ss_pred ------CCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecc---cccCCCceEEEeChHHH---HHHHhhCCCCC
Q 001046 568 ------RGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFE---DCTGPDTVIKYMTDGML---LREILIDDNLS 635 (1176)
Q Consensus 568 ------~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~---~~~~~~t~I~~~T~g~L---lr~l~~~~~L~ 635 (1176)
..+|+++.|..+|+..+...+++.+ ..+|..|+-..+-. ...-..|.|+++||+-. .|.--.+...+
T Consensus 358 gs~nl~~fKIVYIAPmKaLvqE~VgsfSkRl-a~~GI~V~ElTgD~~l~~~qieeTqVIV~TPEK~DiITRk~gdraY~q 436 (1674)
T KOG0951|consen 358 GSVNLAPFKIVYIAPMKALVQEMVGSFSKRL-APLGITVLELTGDSQLGKEQIEETQVIVTTPEKWDIITRKSGDRAYEQ 436 (1674)
T ss_pred cceecccceEEEEeeHHHHHHHHHHHHHhhc-cccCcEEEEecccccchhhhhhcceeEEeccchhhhhhcccCchhHHH
Confidence 2389999999999999998887755 34455554322211 12236799999999643 33322223456
Q ss_pred CCceEEEcCCCc----CCCchhHHHHHHH-HHHhhCCCccEEEEcCCC-CHHHHHhhhcCCC----eEecCCceeeeEEE
Q 001046 636 QYSVIMLDEAHE----RTIHTDVLFGLLK-QLVKRRPDLRLIVTSATL-DAEKFSGYFFNCN----IFTIPGRTFPVEIL 705 (1176)
Q Consensus 636 ~~s~IIiDEaHe----R~~~~d~ll~llk-~~~~~r~~~kvIlmSATl-~~~~~~~~f~~~~----v~~i~gr~~pv~~~ 705 (1176)
-|+++||||+|. |+.-.+...+... +........+++++|||+ |-+..+.|+...+ .+.-.-|+.|++..
T Consensus 437 lvrLlIIDEIHLLhDdRGpvLESIVaRt~r~ses~~e~~RlVGLSATLPNy~DV~~Fl~v~~~glf~fd~syRpvPL~qq 516 (1674)
T KOG0951|consen 437 LVRLLIIDEIHLLHDDRGPVLESIVARTFRRSESTEEGSRLVGLSATLPNYEDVASFLRVDPEGLFYFDSSYRPVPLKQQ 516 (1674)
T ss_pred HHHHHhhhhhhhcccccchHHHHHHHHHHHHhhhcccCceeeeecccCCchhhhHHHhccCcccccccCcccCcCCccce
Confidence 789999999983 5555443333322 222344688999999999 4666666654333 23335677888888
Q ss_pred EecCCCchhHHH-------HHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHH----------hccC---------
Q 001046 706 YTKQPESDYLDA-------SLITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYERM----------KGLG--------- 759 (1176)
Q Consensus 706 ~~~~~~~~~~~~-------~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~----------~~l~--------- 759 (1176)
|....+..-+.. ....++ .....+++|||+.++++...+|..++..+ +.-.
T Consensus 517 ~Igi~ek~~~~~~qamNe~~yeKVm---~~agk~qVLVFVHsRkET~ktA~aIRd~~le~dtls~fmre~s~s~eilrte 593 (1674)
T KOG0951|consen 517 YIGITEKKPLKRFQAMNEACYEKVL---EHAGKNQVLVFVHSRKETAKTARAIRDKALEEDTLSRFMREDSASREILRTE 593 (1674)
T ss_pred EeccccCCchHHHHHHHHHHHHHHH---HhCCCCcEEEEEEechHHHHHHHHHHHHHhhhhHHHHHHhcccchhhhhhhh
Confidence 876654433222 222232 23445899999999999999999987432 2110
Q ss_pred ---------CCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCc
Q 001046 760 ---------KNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLD 830 (1176)
Q Consensus 760 ---------~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~ 830 (1176)
.++-.+.+..+|+||...+|..+.+.|..|.++|+|+|-++++|+++|+-+++| ....+|||..|.-
T Consensus 594 a~~~kn~dLkdLLpygfaIHhAGl~R~dR~~~EdLf~~g~iqvlvstatlawgvnlpahtVii----kgtqvy~pekg~w 669 (1674)
T KOG0951|consen 594 AGQAKNPDLKDLLPYGFAIHHAGLNRKDRELVEDLFADGHIQVLVSTATLAWGVNLPAHTVII----KGTQVYDPEKGRW 669 (1674)
T ss_pred hhcccChhHHHHhhccceeeccCCCcchHHHHHHHHhcCceeEEEeehhhhhhcCCCcceEEe----cCccccCcccCcc
Confidence 112245677889999999999999999999999999999999999999999998 6678999999854
Q ss_pred cccccccCHHHHHHHhcccCCCC-----CcEEEEecChHHHhhhCCCCCc--hhhhhcChHHHHHHHHHcCCCcccc-CC
Q 001046 831 SLVITPISQASAKQRAGRAGRTG-----PGKCYRLYTESAYRNEMSPTSI--PEIQRINLGFTTLTMKAMGINDLLS-FD 902 (1176)
Q Consensus 831 ~l~~~p~S~as~~QR~GRAGR~g-----~G~c~~L~t~~~~~~~l~~~~~--pEI~r~~L~~~~L~lk~~gi~~~~~-f~ 902 (1176)
.+.|+-+..||.|||||.+ .|+.+.=+++-.|.-.+...+. ++-.-..|...+=.=..+|+..+.. .+
T Consensus 670 ----~elsp~dv~qmlgragrp~~D~~gegiiit~~se~qyyls~mn~qLpiesq~~~rl~d~lnaeiv~Gv~~~~d~~~ 745 (1674)
T KOG0951|consen 670 ----TELSPLDVMQMLGRAGRPQYDTCGEGIIITDHSELQYYLSLMNQQLPIESQFVSRLADCLNAEIVLGVRSARDAVD 745 (1674)
T ss_pred ----ccCCHHHHHHHHhhcCCCccCcCCceeeccCchHhhhhHHhhhhcCCChHHHHHHhhhhhhhhhhcchhhHHHHHh
Confidence 3799999999999999987 5666666666555433332222 2222222221111111222221100 01
Q ss_pred C----------C-------------CCCC----HHHHHHHHHHHHHcCccccC---C--cccHHHHHHhcCCCChHHHHH
Q 001046 903 F----------M-------------DPPS----PQALISAMEQLYSLGALDEE---G--LLTKLGRKMAEFPLDPPLSKM 950 (1176)
Q Consensus 903 ~----------~-------------~pP~----~~~l~~al~~L~~lgald~~---g--~lT~lG~~~a~lpl~p~l~k~ 950 (1176)
| + |++. .+.+..|.-.|...|.|--+ | ..|.+|+..+.+.+.-.-...
T Consensus 746 wl~yTylyvRm~~~p~ly~~~~~~~d~~le~~r~~lvhsa~~ll~~~~li~yd~~s~~~~~telg~ias~yyi~~~s~~~ 825 (1674)
T KOG0951|consen 746 WLGYTYLYVRMVRNPTLYGVSPEASDRLLEQRRADLVHSAATLLDKAGLIKYDRKSGAIQATELGRIASSYYITHGSMAT 825 (1674)
T ss_pred hhcceeeEEeeccCchhccCCcccchHHHHHHHhhhHHHHHhhHhhcCccccccccCcccchhhccccceeeeecchHHH
Confidence 1 1 1111 15677788888888888422 3 579999999999887665544
Q ss_pred HHHhhhcCCHHHHHHHHHHhcCCCCC
Q 001046 951 LLASVDLGCSDEILTIIAMIQTGNIF 976 (1176)
Q Consensus 951 ll~~~~~~c~~~~l~i~a~ls~~~~f 976 (1176)
.-....-.|.+. .+..+++-..-|
T Consensus 826 yn~~L~~~~~~i--~lfrifs~seEf 849 (1674)
T KOG0951|consen 826 YNELLKETMSEI--DLFRIFSKSEEF 849 (1674)
T ss_pred HHhhhhhhhccc--hhhhhhhhcccc
Confidence 444443334332 234444444444
No 75
>PRK13766 Hef nuclease; Provisional
Probab=99.94 E-value=4e-25 Score=283.68 Aligned_cols=314 Identities=19% Similarity=0.214 Sum_probs=214.8
Q ss_pred cCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeE
Q 001046 522 SLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVG 601 (1176)
Q Consensus 522 ~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vG 601 (1176)
.+..+.||.+++..+..+ +++|++|||+|||.++...+.......+++++++.|++.|+.|.++.+...++... ..++
T Consensus 13 ~~~~r~yQ~~~~~~~l~~-n~lv~~ptG~GKT~~a~~~i~~~l~~~~~~vLvl~Pt~~L~~Q~~~~~~~~~~~~~-~~v~ 90 (773)
T PRK13766 13 TIEARLYQQLLAATALKK-NTLVVLPTGLGKTAIALLVIAERLHKKGGKVLILAPTKPLVEQHAEFFRKFLNIPE-EKIV 90 (773)
T ss_pred cCCccHHHHHHHHHHhcC-CeEEEcCCCccHHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHHHHHHHHHHhCCCC-ceEE
Confidence 356688999999888777 78999999999999887777765444567999999999999999998877766531 1222
Q ss_pred EEeecccc------cCCCceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEE
Q 001046 602 YAIRFEDC------TGPDTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVT 674 (1176)
Q Consensus 602 y~ir~~~~------~~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlm 674 (1176)
. +.++.. ......|+++|++++...++... .+.++++|||||||. .........+++......+...+++|
T Consensus 91 ~-~~g~~~~~~r~~~~~~~~iiv~T~~~l~~~l~~~~~~~~~~~liVvDEaH~-~~~~~~~~~i~~~~~~~~~~~~il~l 168 (773)
T PRK13766 91 V-FTGEVSPEKRAELWEKAKVIVATPQVIENDLIAGRISLEDVSLLIFDEAHR-AVGNYAYVYIAERYHEDAKNPLVLGL 168 (773)
T ss_pred E-EeCCCCHHHHHHHHhCCCEEEECHHHHHHHHHcCCCChhhCcEEEEECCcc-ccccccHHHHHHHHHhcCCCCEEEEE
Confidence 1 111111 11356899999999988776654 578999999999994 33332233344444445556789999
Q ss_pred cCCCC--HHHHHhhhcC--CCeEecCCc--------eeeeEEEE--ecCCC-----------------------------
Q 001046 675 SATLD--AEKFSGYFFN--CNIFTIPGR--------TFPVEILY--TKQPE----------------------------- 711 (1176)
Q Consensus 675 SATl~--~~~~~~~f~~--~~v~~i~gr--------~~pv~~~~--~~~~~----------------------------- 711 (1176)
|||+. .+.+.....+ ...+.+..+ ..+.++.+ ...+.
T Consensus 169 TaTP~~~~~~i~~~~~~L~i~~v~~~~~~~~~v~~~~~~~~v~~~~v~l~~~~~~i~~~l~~~~~~~l~~l~~~~~~~~~ 248 (773)
T PRK13766 169 TASPGSDEEKIKEVCENLGIEHVEVRTEDDPDVKPYVHKVKIEWVRVELPEELKEIRDLLNEALKDRLKKLKELGVIVSI 248 (773)
T ss_pred EcCCCCCHHHHHHHHHhCCceEEEEcCCCChhHHhhhccceeEEEEeCCcHHHHHHHHHHHHHHHHHHHHHHHCCCcccC
Confidence 99983 3333222211 001111000 00001110 00000
Q ss_pred ------ch-------------------------------------------------hHH--------------------
Q 001046 712 ------SD-------------------------------------------------YLD-------------------- 716 (1176)
Q Consensus 712 ------~~-------------------------------------------------~~~-------------------- 716 (1176)
.+ |+.
T Consensus 249 ~~~~~~~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~y~~~l~~~~~~~~~~~~~~~l~~ 328 (773)
T PRK13766 249 SPDVSKKELLGLQKKLQQEIANDDSEGYEAISILAEAMKLRHAVELLETQGVEALRRYLERLREEARSSGGSKASKRLVE 328 (773)
T ss_pred CCCcCHHHHHHHHHHHHHHhhcCchHHHHHHHHHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHhhccccCCcHHHHHHHh
Confidence 00 000
Q ss_pred ------------------HHHHHHHHH----HhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCC-
Q 001046 717 ------------------ASLITVLQI----HLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSA- 773 (1176)
Q Consensus 717 ------------------~~l~~v~~i----~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~- 773 (1176)
..+..+..+ ....+++++||||+++..++.+++.|.. .++.+..+||.
T Consensus 329 ~~~~~~~~~~~~~~~~~~pK~~~L~~il~~~~~~~~~~kvlIF~~~~~t~~~L~~~L~~---------~~~~~~~~~g~~ 399 (773)
T PRK13766 329 DPRFRKAVRKAKELDIEHPKLEKLREIVKEQLGKNPDSRIIVFTQYRDTAEKIVDLLEK---------EGIKAVRFVGQA 399 (773)
T ss_pred CHHHHHHHHHHHhcccCChHHHHHHHHHHHHHhcCCCCeEEEEeCcHHHHHHHHHHHHh---------CCCceEEEEccc
Confidence 000000111 1114578999999999999999888854 24455666665
Q ss_pred -------CCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHh
Q 001046 774 -------LPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRA 846 (1176)
Q Consensus 774 -------l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~ 846 (1176)
|++.+|..+++.|+.|..+|||||+++++|+|+|++++||+|+. |.+...|+||+
T Consensus 400 ~~~~~~~~~~~~r~~~~~~F~~g~~~vLvaT~~~~eGldi~~~~~VI~yd~------------------~~s~~r~iQR~ 461 (773)
T PRK13766 400 SKDGDKGMSQKEQIEILDKFRAGEFNVLVSTSVAEEGLDIPSVDLVIFYEP------------------VPSEIRSIQRK 461 (773)
T ss_pred cccccCCCCHHHHHHHHHHHHcCCCCEEEECChhhcCCCcccCCEEEEeCC------------------CCCHHHHHHHh
Confidence 99999999999999999999999999999999999999998887 88999999999
Q ss_pred cccCCCCCcEEEEecChHHH
Q 001046 847 GRAGRTGPGKCYRLYTESAY 866 (1176)
Q Consensus 847 GRAGR~g~G~c~~L~t~~~~ 866 (1176)
||+||.++|.+|.|+++...
T Consensus 462 GR~gR~~~~~v~~l~~~~t~ 481 (773)
T PRK13766 462 GRTGRQEEGRVVVLIAKGTR 481 (773)
T ss_pred cccCcCCCCEEEEEEeCCCh
Confidence 99999999999999986543
No 76
>PRK09401 reverse gyrase; Reviewed
Probab=99.93 E-value=3.6e-25 Score=287.21 Aligned_cols=290 Identities=16% Similarity=0.164 Sum_probs=190.0
Q ss_pred CCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEE
Q 001046 523 LPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGY 602 (1176)
Q Consensus 523 LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy 602 (1176)
...+++|.++++.+..|++++++||||||||+.+.. ++......+.+++|++|||+||.|+++++.. ++...+..+..
T Consensus 79 ~~pt~iQ~~~i~~il~g~dv~i~ApTGsGKT~f~l~-~~~~l~~~g~~alIL~PTreLa~Qi~~~l~~-l~~~~~~~~~~ 156 (1176)
T PRK09401 79 SKPWSLQRTWAKRLLLGESFAIIAPTGVGKTTFGLV-MSLYLAKKGKKSYIIFPTRLLVEQVVEKLEK-FGEKVGCGVKI 156 (1176)
T ss_pred CCCcHHHHHHHHHHHCCCcEEEEcCCCCCHHHHHHH-HHHHHHhcCCeEEEEeccHHHHHHHHHHHHH-HhhhcCceEEE
Confidence 356788999999999999999999999999964333 3322223467899999999999999998754 44444443332
Q ss_pred Eeeccc------------ccCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCC----chh-------H----H
Q 001046 603 AIRFED------------CTGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTI----HTD-------V----L 655 (1176)
Q Consensus 603 ~ir~~~------------~~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~----~~d-------~----l 655 (1176)
...... ......+|+++|||.|.+.+. .-.+.++++|||||||. .+ +.| | +
T Consensus 157 ~~g~~~~~~~ek~~~~~~l~~~~~~IlV~Tp~rL~~~~~-~l~~~~~~~lVvDEaD~-~L~~~k~id~~l~~lGF~~~~i 234 (1176)
T PRK09401 157 LYYHSSLKKKEKEEFLERLKEGDFDILVTTSQFLSKNFD-ELPKKKFDFVFVDDVDA-VLKSSKNIDKLLYLLGFSEEDI 234 (1176)
T ss_pred EEccCCcchhHHHHHHHHHhcCCCCEEEECHHHHHHHHH-hccccccCEEEEEChHH-hhhcccchhhHHHhCCCCHHHH
Confidence 221111 012357999999999998765 23456699999999993 22 111 1 1
Q ss_pred HHHHHHH----------------Hh-----hCCCccEEEEcCCCCHHHHHh-hhcCCCeEecCCce---eeeEEEEecCC
Q 001046 656 FGLLKQL----------------VK-----RRPDLRLIVTSATLDAEKFSG-YFFNCNIFTIPGRT---FPVEILYTKQP 710 (1176)
Q Consensus 656 l~llk~~----------------~~-----~r~~~kvIlmSATl~~~~~~~-~f~~~~v~~i~gr~---~pv~~~~~~~~ 710 (1176)
..++..+ .. ...+.++|++|||+++..... +|...-.+.+.... ..+...|....
T Consensus 235 ~~i~~~i~~~~~~~~~~~~i~~l~~~i~~~~~~~~q~ilfSAT~~~~~~~~~l~~~ll~~~v~~~~~~~rnI~~~yi~~~ 314 (1176)
T PRK09401 235 EKAMELIRLKRKYEEIYEKIRELEEKIAELKDKKGVLVVSSATGRPRGNRVKLFRELLGFEVGSPVFYLRNIVDSYIVDE 314 (1176)
T ss_pred HHHHHhcccccccchhhhHHHHHHHhhhhcccCCceEEEEeCCCCccchHHHHhhccceEEecCcccccCCceEEEEEcc
Confidence 1111111 00 011578999999997542222 22221113332221 23444444322
Q ss_pred CchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHH---HHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCC
Q 001046 711 ESDYLDASLITVLQIHLTEPEGDILLFLTGQEE---IDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAP 787 (1176)
Q Consensus 711 ~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~e---i~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~ 787 (1176)
+... .+..++. . .+..+||||++... ++.+++.|.. .++.+..+||+| + +.++.|+
T Consensus 315 --~k~~-~L~~ll~---~-l~~~~LIFv~t~~~~~~ae~l~~~L~~---------~gi~v~~~hg~l----~-~~l~~F~ 373 (1176)
T PRK09401 315 --DSVE-KLVELVK---R-LGDGGLIFVPSDKGKEYAEELAEYLED---------LGINAELAISGF----E-RKFEKFE 373 (1176)
T ss_pred --cHHH-HHHHHHH---h-cCCCEEEEEecccChHHHHHHHHHHHH---------CCCcEEEEeCcH----H-HHHHHHH
Confidence 1111 2222222 1 23579999998766 8888888875 368899999999 2 2359999
Q ss_pred CCCceEEEE----cchhhhccCCCC-eeEEEeCCcccceeccCCCCCcccccccc-CHHHHHHHhcccC
Q 001046 788 PGKRKVVVA----TNIAEASLTIDG-IFYVIDPGFAKQNVYNPKQGLDSLVITPI-SQASAKQRAGRAG 850 (1176)
Q Consensus 788 ~g~~kVlVA----Tniae~GIdIp~-V~~VId~g~~k~~~yd~~~g~~~l~~~p~-S~as~~QR~GRAG 850 (1176)
+|+.+|||| ||+|+||||||+ |+|||++|+.+.++ ++ ....+.||.||+-
T Consensus 374 ~G~~~VLVatas~tdv~aRGIDiP~~IryVI~y~vP~~~~-------------~~~~~~~~~~~~~r~~ 429 (1176)
T PRK09401 374 EGEVDVLVGVASYYGVLVRGIDLPERIRYAIFYGVPKFKF-------------SLEEELAPPFLLLRLL 429 (1176)
T ss_pred CCCCCEEEEecCCCCceeecCCCCcceeEEEEeCCCCEEE-------------eccccccCHHHHHHHH
Confidence 999999999 699999999999 99999999944332 11 3467889999884
No 77
>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]
Probab=99.93 E-value=1.2e-25 Score=261.65 Aligned_cols=319 Identities=19% Similarity=0.273 Sum_probs=242.4
Q ss_pred CCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEE
Q 001046 523 LPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGY 602 (1176)
Q Consensus 523 LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy 602 (1176)
+-+.++|.++|.+|..++.|+|+|.|.+|||.++..+|+.. +....+|++|.|-++|.+|.++.+..||+ .+|.-.|
T Consensus 128 F~LDpFQ~~aI~Cidr~eSVLVSAHTSAGKTVVAeYAIA~s-Lr~kQRVIYTSPIKALSNQKYREl~~EF~-DVGLMTG- 204 (1041)
T KOG0948|consen 128 FTLDPFQSTAIKCIDRGESVLVSAHTSAGKTVVAEYAIAMS-LREKQRVIYTSPIKALSNQKYRELLEEFK-DVGLMTG- 204 (1041)
T ss_pred cccCchHhhhhhhhcCCceEEEEeecCCCcchHHHHHHHHH-HHhcCeEEeeChhhhhcchhHHHHHHHhc-ccceeec-
Confidence 34678999999999999999999999999998888777765 45567999999999999999999999995 3444333
Q ss_pred EeecccccCCCceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCC-----cCCCchhHHHHHHHHHHhhCCCccEEEEcC
Q 001046 603 AIRFEDCTGPDTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAH-----ERTIHTDVLFGLLKQLVKRRPDLRLIVTSA 676 (1176)
Q Consensus 603 ~ir~~~~~~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaH-----eR~~~~d~ll~llk~~~~~r~~~kvIlmSA 676 (1176)
+-..+|.+..++||+++|-.+|.... -++.+..||+||+| ||++--+-- ++-..++++.|.+||
T Consensus 205 ----DVTInP~ASCLVMTTEILRsMLYRGSEvmrEVaWVIFDEIHYMRDkERGVVWEET------IIllP~~vr~VFLSA 274 (1041)
T KOG0948|consen 205 ----DVTINPDASCLVMTTEILRSMLYRGSEVMREVAWVIFDEIHYMRDKERGVVWEET------IILLPDNVRFVFLSA 274 (1041)
T ss_pred ----ceeeCCCCceeeeHHHHHHHHHhccchHhheeeeEEeeeehhccccccceeeeee------EEeccccceEEEEec
Confidence 44567889999999999988887766 68999999999999 566543321 112356899999999
Q ss_pred CC-CHHHHHhhhc-----CCCeEecCCceeeeEEEEecC----------CCchhHHHHHHHHH-----------------
Q 001046 677 TL-DAEKFSGYFF-----NCNIFTIPGRTFPVEILYTKQ----------PESDYLDASLITVL----------------- 723 (1176)
Q Consensus 677 Tl-~~~~~~~~f~-----~~~v~~i~gr~~pv~~~~~~~----------~~~~~~~~~l~~v~----------------- 723 (1176)
|+ |+..|++|.. .|.++....|+.|+..+..+. ....|.+..+...+
T Consensus 275 TiPNA~qFAeWI~~ihkQPcHVVYTdyRPTPLQHyifP~ggdGlylvVDek~~FrednF~~am~~l~~~~~~~~~~~~~~ 354 (1041)
T KOG0948|consen 275 TIPNARQFAEWICHIHKQPCHVVYTDYRPTPLQHYIFPAGGDGLYLVVDEKGKFREDNFQKAMSVLRKAGESDGKKKANK 354 (1041)
T ss_pred cCCCHHHHHHHHHHHhcCCceEEeecCCCCcceeeeecCCCCeeEEEEecccccchHHHHHHHHHhhccCCCcccccccc
Confidence 99 6889999984 578888888988887663221 11112222222211
Q ss_pred ---------------------HHHhcCCCCCEEEEeCCHHHHHHHHHHHHHH------------------HhccC---CC
Q 001046 724 ---------------------QIHLTEPEGDILLFLTGQEEIDFACQSLYER------------------MKGLG---KN 761 (1176)
Q Consensus 724 ---------------------~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~------------------~~~l~---~~ 761 (1176)
.........++|||.-++++|+..|-.+.+. +..+. ..
T Consensus 355 k~~kG~~~~~~~~~s~i~kiVkmi~~~~~~PVIvFSFSkkeCE~~Alqm~kldfN~deEk~~V~~iF~nAi~~LseeDr~ 434 (1041)
T KOG0948|consen 355 KGRKGGTGGKGPGDSDIYKIVKMIMERNYLPVIVFSFSKKECEAYALQMSKLDFNTDEEKELVETIFNNAIDQLSEEDRE 434 (1041)
T ss_pred ccccCCcCCCCCCcccHHHHHHHHHhhcCCceEEEEecHhHHHHHHHhhccCcCCChhHHHHHHHHHHHHHHhcChhhcc
Confidence 1122233458999999999999888766432 11121 11
Q ss_pred CCCe---------EEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCccc
Q 001046 762 VPEL---------IILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSL 832 (1176)
Q Consensus 762 ~~~~---------~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l 832 (1176)
+|.+ .|..+||||-+-...-|.-.|..|-+|||+||-+++.|+|.|.-++|. ...+.||.+.
T Consensus 435 LPqie~iLPLL~RGIGIHHsGLLPIlKE~IEILFqEGLvKvLFATETFsiGLNMPAkTVvF----T~~rKfDG~~----- 505 (1041)
T KOG0948|consen 435 LPQIENILPLLRRGIGIHHSGLLPILKEVIEILFQEGLVKVLFATETFSIGLNMPAKTVVF----TAVRKFDGKK----- 505 (1041)
T ss_pred chHHHHHHHHHHhccccccccchHHHHHHHHHHHhccHHHHHHhhhhhhhccCCcceeEEE----eeccccCCcc-----
Confidence 2211 255679999998888888889999999999999999999999877776 4555666554
Q ss_pred cccccCHHHHHHHhcccCCCC---CcEEEEecChH
Q 001046 833 VITPISQASAKQRAGRAGRTG---PGKCYRLYTES 864 (1176)
Q Consensus 833 ~~~p~S~as~~QR~GRAGR~g---~G~c~~L~t~~ 864 (1176)
..|+|--.|+|++|||||.| .|+|+.+.++.
T Consensus 506 -fRwissGEYIQMSGRAGRRG~DdrGivIlmiDek 539 (1041)
T KOG0948|consen 506 -FRWISSGEYIQMSGRAGRRGIDDRGIVILMIDEK 539 (1041)
T ss_pred -eeeecccceEEecccccccCCCCCceEEEEecCc
Confidence 45999999999999999999 79999998864
No 78
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=99.93 E-value=8.4e-25 Score=260.30 Aligned_cols=319 Identities=19% Similarity=0.213 Sum_probs=236.1
Q ss_pred CCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEE
Q 001046 523 LPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGY 602 (1176)
Q Consensus 523 LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy 602 (1176)
+-+..+|.+++.++..|..|+|.|+|.+|||.++-.+++-. ..+..+.++|.|-++|-+|..+.+.+.+|. ||
T Consensus 296 FelD~FQk~Ai~~lerg~SVFVAAHTSAGKTvVAEYAiala-q~h~TR~iYTSPIKALSNQKfRDFk~tF~D-----vg- 368 (1248)
T KOG0947|consen 296 FELDTFQKEAIYHLERGDSVFVAAHTSAGKTVVAEYAIALA-QKHMTRTIYTSPIKALSNQKFRDFKETFGD-----VG- 368 (1248)
T ss_pred CCccHHHHHHHHHHHcCCeEEEEecCCCCcchHHHHHHHHH-HhhccceEecchhhhhccchHHHHHHhccc-----cc-
Confidence 34678999999999999999999999999998877666543 344568999999999999999999888863 33
Q ss_pred EeecccccCCCceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCC-----cCCCchhHHHHHHHHHHhhCCCccEEEEcC
Q 001046 603 AIRFEDCTGPDTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAH-----ERTIHTDVLFGLLKQLVKRRPDLRLIVTSA 676 (1176)
Q Consensus 603 ~ir~~~~~~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaH-----eR~~~~d~ll~llk~~~~~r~~~kvIlmSA 676 (1176)
.+.++....+...+++||+++|-.+|.... .++++.+||+||+| ||++--+-.+- ...+.+++|++||
T Consensus 369 LlTGDvqinPeAsCLIMTTEILRsMLYrgadliRDvE~VIFDEVHYiND~eRGvVWEEViI------MlP~HV~~IlLSA 442 (1248)
T KOG0947|consen 369 LLTGDVQINPEASCLIMTTEILRSMLYRGADLIRDVEFVIFDEVHYINDVERGVVWEEVII------MLPRHVNFILLSA 442 (1248)
T ss_pred eeecceeeCCCcceEeehHHHHHHHHhcccchhhccceEEEeeeeecccccccccceeeee------eccccceEEEEec
Confidence 455577788999999999999998888776 67999999999999 57654432222 2345899999999
Q ss_pred CC-CHHHHHhhhcCC-----CeEecCCceeeeEEEEecCCC--------chhHHH-------------------------
Q 001046 677 TL-DAEKFSGYFFNC-----NIFTIPGRTFPVEILYTKQPE--------SDYLDA------------------------- 717 (1176)
Q Consensus 677 Tl-~~~~~~~~f~~~-----~v~~i~gr~~pv~~~~~~~~~--------~~~~~~------------------------- 717 (1176)
|. |...|+.|.+.. .|+....|+.|++.++..... ..++..
T Consensus 443 TVPN~~EFA~WIGRtK~K~IyViST~kRPVPLEh~l~t~~~l~kiidq~g~fl~~~~~~a~~~~~~~ak~~~~~~~~~~~ 522 (1248)
T KOG0947|consen 443 TVPNTLEFADWIGRTKQKTIYVISTSKRPVPLEHYLYTKKSLFKIIDQNGIFLLKGIKDAKDSLKKEAKFVDVEKSDARG 522 (1248)
T ss_pred cCCChHHHHHHhhhccCceEEEEecCCCccceEEEEEeccceehhhcccchhhhhcchhhhhhhcccccccccccccccc
Confidence 99 688999999853 355566788888865432100 000000
Q ss_pred -------------------------------HHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHH------------
Q 001046 718 -------------------------------SLITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYER------------ 754 (1176)
Q Consensus 718 -------------------------------~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~------------ 754 (1176)
....++.......--+++|||-++..|+..++.|...
T Consensus 523 ~rgs~~~ggk~~~~~g~~r~~~~~~nrr~~~~~l~lin~L~k~~lLP~VvFvFSkkrCde~a~~L~~~nL~~~~EKseV~ 602 (1248)
T KOG0947|consen 523 GRGSQKRGGKTNYHNGGSRGSGIGKNRRKQPTWLDLINHLRKKNLLPVVVFVFSKKRCDEYADYLTNLNLTDSKEKSEVH 602 (1248)
T ss_pred cccccccCCcCCCCCCCcccccccccccccchHHHHHHHHhhcccCceEEEEEccccHHHHHHHHhccCcccchhHHHHH
Confidence 0111111112223358999999999999999887542
Q ss_pred ---------HhccCCCCCCe---------EEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCC
Q 001046 755 ---------MKGLGKNVPEL---------IILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPG 816 (1176)
Q Consensus 755 ---------~~~l~~~~~~~---------~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g 816 (1176)
++.-..++|.+ .+..+|||+-+-...-|...|..|-+|||+||-++++|||.|.-++|+++=
T Consensus 603 lfl~k~~~rLk~~DR~LPQvl~m~~ll~RGiaVHH~GlLPivKE~VE~LFqrGlVKVLFATETFAMGVNMPARtvVF~Sl 682 (1248)
T KOG0947|consen 603 LFLSKAVARLKGEDRNLPQVLSMRSLLLRGIAVHHGGLLPIVKEVVELLFQRGLVKVLFATETFAMGVNMPARTVVFSSL 682 (1248)
T ss_pred HHHHHHHHhcChhhccchHHHHHHHHHhhcchhhcccchHHHHHHHHHHHhcCceEEEeehhhhhhhcCCCceeEEeeeh
Confidence 11111222221 366789999999999999999999999999999999999999887777543
Q ss_pred cccceeccCCCCCccccccccCHHHHHHHhcccCCCC---CcEEEEecChH
Q 001046 817 FAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG---PGKCYRLYTES 864 (1176)
Q Consensus 817 ~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g---~G~c~~L~t~~ 864 (1176)
. .+|. -...-...-.|.|++|||||.| .|.++.+....
T Consensus 683 ~----KhDG------~efR~L~PGEytQMAGRAGRRGlD~tGTVii~~~~~ 723 (1248)
T KOG0947|consen 683 R----KHDG------NEFRELLPGEYTQMAGRAGRRGLDETGTVIIMCKDS 723 (1248)
T ss_pred h----hccC------cceeecCChhHHhhhccccccccCcCceEEEEecCC
Confidence 2 2232 2334677889999999999999 69988877643
No 79
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.92 E-value=1.9e-25 Score=246.83 Aligned_cols=304 Identities=19% Similarity=0.211 Sum_probs=219.0
Q ss_pred HHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccC---CCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEee
Q 001046 529 KKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTT---RGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIR 605 (1176)
Q Consensus 529 q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~---~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir 605 (1176)
|...++.++++++++..|-||||||.++.+++++..... +-+.+++.|+|+||.|+.+-+ +++|.-.+..+...+.
T Consensus 48 qRKTipliLe~~dvv~martgsgktaaf~ipm~e~Lk~~s~~g~RalilsptreLa~qtlkvv-kdlgrgt~lr~s~~~g 126 (529)
T KOG0337|consen 48 QRKTIPLILEGRDVVGMARTGSGKTAAFLIPMIEKLKSHSQTGLRALILSPTRELALQTLKVV-KDLGRGTKLRQSLLVG 126 (529)
T ss_pred hcccccceeeccccceeeecCCcchhhHHHHHHHHHhhccccccceeeccCcHHHHHHHHHHH-HHhccccchhhhhhcc
Confidence 555555599999999999999999999999998864433 348899999999999999844 5555433332222222
Q ss_pred ccc------ccCCCceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCCC
Q 001046 606 FED------CTGPDTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSATL 678 (1176)
Q Consensus 606 ~~~------~~~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSATl 678 (1176)
++. ....+.+|+++|||+++.....-. .|+.+.+||+|||+ |-+.+.+...+-+.+-....+.+.++||||+
T Consensus 127 gD~~eeqf~~l~~npDii~ATpgr~~h~~vem~l~l~sveyVVfdEad-rlfemgfqeql~e~l~rl~~~~QTllfSatl 205 (529)
T KOG0337|consen 127 GDSIEEQFILLNENPDIIIATPGRLLHLGVEMTLTLSSVEYVVFDEAD-RLFEMGFQEQLHEILSRLPESRQTLLFSATL 205 (529)
T ss_pred cchHHHHHHHhccCCCEEEecCceeeeeehheeccccceeeeeehhhh-HHHhhhhHHHHHHHHHhCCCcceEEEEeccC
Confidence 221 234678999999999987655433 68999999999999 6666655444444444455678999999999
Q ss_pred CHH--HHHhhhcCCCeE-e--cCCcee-eeEEEEecCCCchhHHHHHHHHHHHHh-cCCCCCEEEEeCCHHHHHHHHHHH
Q 001046 679 DAE--KFSGYFFNCNIF-T--IPGRTF-PVEILYTKQPESDYLDASLITVLQIHL-TEPEGDILLFLTGQEEIDFACQSL 751 (1176)
Q Consensus 679 ~~~--~~~~~f~~~~v~-~--i~gr~~-pv~~~~~~~~~~~~~~~~l~~v~~i~~-~~~~g~iLVFl~~~~ei~~l~~~L 751 (1176)
+.. .|+.-=...|+. . +..+.- .+++.|......+ ....++.+.. .-.+..++||+++...++.+...|
T Consensus 206 p~~lv~fakaGl~~p~lVRldvetkise~lk~~f~~~~~a~----K~aaLl~il~~~~~~~~t~vf~~tk~hve~~~~ll 281 (529)
T KOG0337|consen 206 PRDLVDFAKAGLVPPVLVRLDVETKISELLKVRFFRVRKAE----KEAALLSILGGRIKDKQTIVFVATKHHVEYVRGLL 281 (529)
T ss_pred chhhHHHHHccCCCCceEEeehhhhcchhhhhheeeeccHH----HHHHHHHHHhccccccceeEEecccchHHHHHHHH
Confidence 744 555533333332 1 111111 1111121111111 1122222211 112457999999999999988888
Q ss_pred HHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCcc
Q 001046 752 YERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDS 831 (1176)
Q Consensus 752 ~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~ 831 (1176)
... ++.+-.+||+|.++.|..-+..|..++..++|.|++|++|+|||...-|||+++
T Consensus 282 ~~~---------g~~~s~iysslD~~aRk~~~~~F~~~k~~~lvvTdvaaRG~diplldnvinyd~-------------- 338 (529)
T KOG0337|consen 282 RDF---------GGEGSDIYSSLDQEARKINGRDFRGRKTSILVVTDVAARGLDIPLLDNVINYDF-------------- 338 (529)
T ss_pred Hhc---------CCCccccccccChHhhhhccccccCCccceEEEehhhhccCCCccccccccccC--------------
Confidence 752 566778899999999999999999999999999999999999999999999999
Q ss_pred ccccccCHHHHHHHhcccCCCC-CcEEEEecChHH
Q 001046 832 LVITPISQASAKQRAGRAGRTG-PGKCYRLYTESA 865 (1176)
Q Consensus 832 l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~ 865 (1176)
|.+..-|+||+||+.|+| .|.+|.|+...+
T Consensus 339 ----p~~~klFvhRVgr~aragrtg~aYs~V~~~~ 369 (529)
T KOG0337|consen 339 ----PPDDKLFVHRVGRVARAGRTGRAYSLVASTD 369 (529)
T ss_pred ----CCCCceEEEEecchhhccccceEEEEEeccc
Confidence 888889999999999999 799999987654
No 80
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]
Probab=99.92 E-value=1.1e-23 Score=228.32 Aligned_cols=383 Identities=17% Similarity=0.176 Sum_probs=259.7
Q ss_pred CCCCchHHHHHHhHHHHHHHHHHHHHHHhhhhccCCcCCCCCCCCCCCCccchhHHHHhhcCCCCCCCchhHHHhhhccc
Q 001046 426 NPEGSLSRAAALQSALIKERREVREQQQRTMLDSIPKDLNRPWEDPMPETGERHLAQELRGVGLSAYDMPEWKKDAFGKA 505 (1176)
Q Consensus 426 ~~~~~l~~~a~~~~~l~k~~re~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 505 (1176)
+-+|++-.+..+.++|.+.+.|+-++++. .+..+.- +..+|....... +- .-....|-++ .
T Consensus 15 ~i~~ei~~id~qiqel~~kkqel~qkkk~-i~kkiel---k~~edsdag~~~--------ey---d~spaawdkd----~ 75 (695)
T KOG0353|consen 15 DIDGEIGAIDIQIQELREKKQELIQKKKA-IEKKIEL---KCLEDSDAGASN--------EY---DRSPAAWDKD----D 75 (695)
T ss_pred hhccchhHHHHHHHHHHHHHHHHHHHHHH-HHHHHhh---hhcccccccccc--------cc---cCCccccccC----C
Confidence 45788888888889988888887766542 2221110 222332211100 00 1112346554 4
Q ss_pred ccccccChHHHHHHHhcCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHH
Q 001046 506 LTFGQRSKLSIQEQRQSLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVA 585 (1176)
Q Consensus 506 ~~~~~~~~~~l~~~r~~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva 585 (1176)
+||+.....-+++|..--...|.|.+.|++.+.+.+++++.|||.|||+++.++.+-. .|-.+|+.|...|...+.
T Consensus 76 fpws~e~~~ilk~~f~lekfrplq~~ain~~ma~ed~~lil~tgggkslcyqlpal~a----dg~alvi~plislmedqi 151 (695)
T KOG0353|consen 76 FPWSDEAKDILKEQFHLEKFRPLQLAAINATMAGEDAFLILPTGGGKSLCYQLPALCA----DGFALVICPLISLMEDQI 151 (695)
T ss_pred CCCchHHHHHHHHHhhHHhcChhHHHHhhhhhccCceEEEEeCCCccchhhhhhHHhc----CCceEeechhHHHHHHHH
Confidence 7787777777788877777888899999999999999999999999998777765543 466899999999887766
Q ss_pred HHHHHHhCCccCCeeEEEe-----eccc---ccCCCceEEEeChHHHH------HHHhhCCCCCCCceEEEcCCCc----
Q 001046 586 KRVAEEFGCRLGEEVGYAI-----RFED---CTGPDTVIKYMTDGMLL------REILIDDNLSQYSVIMLDEAHE---- 647 (1176)
Q Consensus 586 ~rva~e~g~~~G~~vGy~i-----r~~~---~~~~~t~I~~~T~g~Ll------r~l~~~~~L~~~s~IIiDEaHe---- 647 (1176)
-.+ +.+|......-.-.. +.+. ......+++|+||+-+. ..|...-....+.+|-|||+|.
T Consensus 152 l~l-kqlgi~as~lnansske~~k~v~~~i~nkdse~kliyvtpekiaksk~~mnkleka~~~~~~~~iaidevhccsqw 230 (695)
T KOG0353|consen 152 LQL-KQLGIDASMLNANSSKEEAKRVEAAITNKDSEFKLIYVTPEKIAKSKKFMNKLEKALEAGFFKLIAIDEVHCCSQW 230 (695)
T ss_pred HHH-HHhCcchhhccCcccHHHHHHHHHHHcCCCceeEEEEecHHHHHHHHHHHHHHHHHhhcceeEEEeecceeehhhh
Confidence 543 444443211110000 1111 12245689999997664 3333333567789999999995
Q ss_pred -CCCchhH-HHHHHHHHHhhCCCccEEEEcCCCCHHHH---HhhhcC--CCeEecCCce--eeeEEEEecCCCchhHHHH
Q 001046 648 -RTIHTDV-LFGLLKQLVKRRPDLRLIVTSATLDAEKF---SGYFFN--CNIFTIPGRT--FPVEILYTKQPESDYLDAS 718 (1176)
Q Consensus 648 -R~~~~d~-ll~llk~~~~~r~~~kvIlmSATl~~~~~---~~~f~~--~~v~~i~gr~--~pv~~~~~~~~~~~~~~~~ 718 (1176)
.++..|. .+++|++ .+++..+|+++||.....+ ...+.- +-.|...-.. .-.++...+..+.++++..
T Consensus 231 ghdfr~dy~~l~ilkr---qf~~~~iigltatatn~vl~d~k~il~ie~~~tf~a~fnr~nl~yev~qkp~n~dd~~edi 307 (695)
T KOG0353|consen 231 GHDFRPDYKALGILKR---QFKGAPIIGLTATATNHVLDDAKDILCIEAAFTFRAGFNRPNLKYEVRQKPGNEDDCIEDI 307 (695)
T ss_pred CcccCcchHHHHHHHH---hCCCCceeeeehhhhcchhhHHHHHHhHHhhheeecccCCCCceeEeeeCCCChHHHHHHH
Confidence 4556663 4555554 6889999999999853322 222210 1111111100 0112222333344554443
Q ss_pred HHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcc
Q 001046 719 LITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATN 798 (1176)
Q Consensus 719 l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATn 798 (1176)
...+ .....+...||||-++.+++.++..|.. .++....+|+.|.++++.-+.+.+-.|++.|||||-
T Consensus 308 ~k~i---~~~f~gqsgiiyc~sq~d~ekva~alkn---------~gi~a~~yha~lep~dks~~hq~w~a~eiqvivatv 375 (695)
T KOG0353|consen 308 AKLI---KGDFAGQSGIIYCFSQKDCEKVAKALKN---------HGIHAGAYHANLEPEDKSGAHQGWIAGEIQVIVATV 375 (695)
T ss_pred HHHh---ccccCCCcceEEEeccccHHHHHHHHHh---------cCccccccccccCccccccccccccccceEEEEEEe
Confidence 3322 2333456779999999999999999976 367788899999999999999999999999999999
Q ss_pred hhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHH----------------------------------
Q 001046 799 IAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQ---------------------------------- 844 (1176)
Q Consensus 799 iae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~Q---------------------------------- 844 (1176)
.+++|||-|+|++||+..+ |.|.++|.|
T Consensus 376 afgmgidkpdvrfvihhsl------------------~ksienyyqasarillrmtkqknksdtggstqinilevctnfk 437 (695)
T KOG0353|consen 376 AFGMGIDKPDVRFVIHHSL------------------PKSIENYYQASARILLRMTKQKNKSDTGGSTQINILEVCTNFK 437 (695)
T ss_pred eecccCCCCCeeEEEeccc------------------chhHHHHHHHHHHHHHHHhhhcccccCCCcceeehhhhhccce
Confidence 9999999999999999999 999999999
Q ss_pred ---------HhcccCCCC-CcEEEEecChHH
Q 001046 845 ---------RAGRAGRTG-PGKCYRLYTESA 865 (1176)
Q Consensus 845 ---------R~GRAGR~g-~G~c~~L~t~~~ 865 (1176)
..|||||.+ +..|+..|.-.+
T Consensus 438 iffavfsekesgragrd~~~a~cilyy~~~d 468 (695)
T KOG0353|consen 438 IFFAVFSEKESGRAGRDDMKADCILYYGFAD 468 (695)
T ss_pred eeeeeecchhccccccCCCcccEEEEechHH
Confidence 889999999 899998887543
No 81
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=99.92 E-value=1.1e-24 Score=240.03 Aligned_cols=306 Identities=16% Similarity=0.143 Sum_probs=211.1
Q ss_pred HHHHHHHHHH-HcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCe---eEE
Q 001046 527 KLKKELIQAV-HDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEE---VGY 602 (1176)
Q Consensus 527 ~~q~~ii~ai-~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~---vGy 602 (1176)
+.|++++.++ ..+++|.|++|||+|||+++.++.+-+ ++..+|+.|..+|...+...+.. +..++... ..-
T Consensus 23 ~LQE~A~~c~VK~k~DVyVsMPTGaGKSLCyQLPaL~~----~gITIV~SPLiALIkDQiDHL~~-LKVp~~SLNSKlSt 97 (641)
T KOG0352|consen 23 RLQEQAINCIVKRKCDVYVSMPTGAGKSLCYQLPALVH----GGITIVISPLIALIKDQIDHLKR-LKVPCESLNSKLST 97 (641)
T ss_pred hHHHHHHHHHHhccCcEEEeccCCCchhhhhhchHHHh----CCeEEEehHHHHHHHHHHHHHHh-cCCchhHhcchhhH
Confidence 3488888775 677899999999999998887776554 45779999999999888776533 22221110 000
Q ss_pred Eeec-----ccccCCCceEEEeChHHHHH-----HHhhCCCCCCCceEEEcCCCc-----CCCchhHHHHHHHHHHhhCC
Q 001046 603 AIRF-----EDCTGPDTVIKYMTDGMLLR-----EILIDDNLSQYSVIMLDEAHE-----RTIHTDVLFGLLKQLVKRRP 667 (1176)
Q Consensus 603 ~ir~-----~~~~~~~t~I~~~T~g~Llr-----~l~~~~~L~~~s~IIiDEaHe-----R~~~~d~ll~llk~~~~~r~ 667 (1176)
.-|- -....+++.++|.||++.-. .|..-..-..+++||+||||. .++.-|.| .|-.+....+
T Consensus 98 ~ER~ri~~DL~~ekp~~K~LYITPE~AAt~~FQ~lLn~L~~r~~L~Y~vVDEAHCVSQWGHDFRPDYL--~LG~LRS~~~ 175 (641)
T KOG0352|consen 98 VERSRIMGDLAKEKPTIKMLYITPEGAATDGFQKLLNGLANRDVLRYIVVDEAHCVSQWGHDFRPDYL--TLGSLRSVCP 175 (641)
T ss_pred HHHHHHHHHHHhcCCceeEEEEchhhhhhhhHHHHHHHHhhhceeeeEEechhhhHhhhccccCcchh--hhhhHHhhCC
Confidence 0000 01234688999999977432 222222345578999999996 44555543 2334445678
Q ss_pred CccEEEEcCCCCHHH----HHhhhcCCCeEecCCceeeeEEEEecCCCchhHHHHHHHHHHHH-------------hcCC
Q 001046 668 DLRLIVTSATLDAEK----FSGYFFNCNIFTIPGRTFPVEILYTKQPESDYLDASLITVLQIH-------------LTEP 730 (1176)
Q Consensus 668 ~~kvIlmSATl~~~~----~~~~f~~~~v~~i~gr~~pv~~~~~~~~~~~~~~~~l~~v~~i~-------------~~~~ 730 (1176)
+...|.++||.+++. +.+.-...|+-......|.-..+|-.. -.+++...+..+.... ....
T Consensus 176 ~vpwvALTATA~~~VqEDi~~qL~L~~PVAiFkTP~FR~NLFYD~~-~K~~I~D~~~~LaDF~~~~LG~~~~~~~~~K~~ 254 (641)
T KOG0352|consen 176 GVPWVALTATANAKVQEDIAFQLKLRNPVAIFKTPTFRDNLFYDNH-MKSFITDCLTVLADFSSSNLGKHEKASQNKKTF 254 (641)
T ss_pred CCceEEeecccChhHHHHHHHHHhhcCcHHhccCcchhhhhhHHHH-HHHHhhhHhHhHHHHHHHhcCChhhhhcCCCCc
Confidence 999999999997543 333333445433333333333333110 0111111111111110 0112
Q ss_pred CCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCee
Q 001046 731 EGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIF 810 (1176)
Q Consensus 731 ~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~ 810 (1176)
.|..||||.|+++++.++-.|.. .++....+|++|...+|..|-+.|-++...||+||+-+++|||-|+|+
T Consensus 255 ~GCGIVYCRTR~~cEq~AI~l~~---------~Gi~A~AYHAGLK~~ERTeVQe~WM~~~~PvI~AT~SFGMGVDKp~VR 325 (641)
T KOG0352|consen 255 TGCGIVYCRTRNECEQVAIMLEI---------AGIPAMAYHAGLKKKERTEVQEKWMNNEIPVIAATVSFGMGVDKPDVR 325 (641)
T ss_pred CcceEEEeccHHHHHHHHHHhhh---------cCcchHHHhcccccchhHHHHHHHhcCCCCEEEEEeccccccCCccee
Confidence 47899999999999999888864 477889999999999999999999999999999999999999999999
Q ss_pred EEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC-CcEEEEecChHHHh
Q 001046 811 YVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTESAYR 867 (1176)
Q Consensus 811 ~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~~ 867 (1176)
+||++.. |.+.+.|.|..|||||.| +..|-..|+.++-.
T Consensus 326 FViHW~~------------------~qn~AgYYQESGRAGRDGk~SyCRLYYsR~D~~ 365 (641)
T KOG0352|consen 326 FVIHWSP------------------SQNLAGYYQESGRAGRDGKRSYCRLYYSRQDKN 365 (641)
T ss_pred EEEecCc------------------hhhhHHHHHhccccccCCCccceeeeecccchH
Confidence 9999888 999999999999999999 78888888887654
No 82
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=99.92 E-value=4.3e-24 Score=265.38 Aligned_cols=325 Identities=19% Similarity=0.245 Sum_probs=241.2
Q ss_pred HhcCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCe
Q 001046 520 RQSLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEE 599 (1176)
Q Consensus 520 r~~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~ 599 (1176)
.....+.++|++++.+|..+..|+|+||||||||.+.-.++... +..+.++++|.|.++|..|..+.+...+|.- ...
T Consensus 115 ~~~F~LD~fQ~~a~~~Ler~esVlV~ApTssGKTvVaeyAi~~a-l~~~qrviYTsPIKALsNQKyrdl~~~fgdv-~~~ 192 (1041)
T COG4581 115 EYPFELDPFQQEAIAILERGESVLVCAPTSSGKTVVAEYAIALA-LRDGQRVIYTSPIKALSNQKYRDLLAKFGDV-ADM 192 (1041)
T ss_pred hCCCCcCHHHHHHHHHHhCCCcEEEEccCCCCcchHHHHHHHHH-HHcCCceEeccchhhhhhhHHHHHHHHhhhh-hhh
Confidence 35567889999999999999999999999999998877777665 3446679999999999999999999999854 222
Q ss_pred eEEEeecccccCCCceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCC-----cCCCchhHHHHHHHHHHhhCCCccEEE
Q 001046 600 VGYAIRFEDCTGPDTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAH-----ERTIHTDVLFGLLKQLVKRRPDLRLIV 673 (1176)
Q Consensus 600 vGy~ir~~~~~~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaH-----eR~~~~d~ll~llk~~~~~r~~~kvIl 673 (1176)
||. +.++-..++.+.+++||+++|-.++..+. .+..+..||+||+| +|++--+.. ++....++++|+
T Consensus 193 vGL-~TGDv~IN~~A~clvMTTEILRnMlyrg~~~~~~i~~ViFDEvHyi~D~eRG~VWEE~------Ii~lP~~v~~v~ 265 (1041)
T COG4581 193 VGL-MTGDVSINPDAPCLVMTTEILRNMLYRGSESLRDIEWVVFDEVHYIGDRERGVVWEEV------IILLPDHVRFVF 265 (1041)
T ss_pred ccc-eecceeeCCCCceEEeeHHHHHHHhccCcccccccceEEEEeeeeccccccchhHHHH------HHhcCCCCcEEE
Confidence 342 23355667889999999999988888774 89999999999999 344433221 112344689999
Q ss_pred EcCCC-CHHHHHhhhc-----CCCeEecCCceeeeEEEEecCC--------CchhHHHH----HH---------------
Q 001046 674 TSATL-DAEKFSGYFF-----NCNIFTIPGRTFPVEILYTKQP--------ESDYLDAS----LI--------------- 720 (1176)
Q Consensus 674 mSATl-~~~~~~~~f~-----~~~v~~i~gr~~pv~~~~~~~~--------~~~~~~~~----l~--------------- 720 (1176)
||||+ |++.|+.|+. ++.++....|..|++.+|.... ..++.... ..
T Consensus 266 LSATv~N~~EF~~Wi~~~~~~~~~vv~t~~RpvPL~~~~~~~~~l~~lvde~~~~~~~~~~~a~~~l~~~~~~~~~~~~~ 345 (1041)
T COG4581 266 LSATVPNAEEFAEWIQRVHSQPIHVVSTEHRPVPLEHFVYVGKGLFDLVDEKKKFNAENFPSANRSLSCFSEKVRETDDG 345 (1041)
T ss_pred EeCCCCCHHHHHHHHHhccCCCeEEEeecCCCCCeEEEEecCCceeeeecccccchhhcchhhhhhhhccchhccccCcc
Confidence 99999 7999999997 5667888889999988776541 11111000 00
Q ss_pred -----------------------HHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHH----------H---------Hhcc
Q 001046 721 -----------------------TVLQIHLTEPEGDILLFLTGQEEIDFACQSLYE----------R---------MKGL 758 (1176)
Q Consensus 721 -----------------------~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~----------~---------~~~l 758 (1176)
.++........-++++|+-++..|+..+..+.. . +..+
T Consensus 346 ~~~~~a~~~~~~~~~~~~~~~~~~iv~~l~~~~~lP~I~F~FSr~~Ce~~a~~~~~ldl~~~~~~e~~i~~ii~~~i~~L 425 (1041)
T COG4581 346 DVGRYARRTKALRGSAKGPAGRPEIVNKLDKDNLLPAIVFSFSRRGCEEAAQILSTLDLVLTEEKERAIREIIDHAIGDL 425 (1041)
T ss_pred ccccccccccccCCcccccccchHHHhhhhhhcCCceEEEEEchhhHHHHHHHhcccccccCCcHHHHHHHHHHHHHhhc
Confidence 011111222335899999999999988877641 1 1112
Q ss_pred CC---CCC-Ce---------EEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccC
Q 001046 759 GK---NVP-EL---------IILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNP 825 (1176)
Q Consensus 759 ~~---~~~-~~---------~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~ 825 (1176)
.. ..| .+ .+..+|++|-+..+..+...|..|-+|||+||-+++.|+|+|.-++|+ +++ ..||.
T Consensus 426 ~~ed~~lp~~~~~~~~~L~RGiavHH~GlLP~~K~~vE~Lfq~GLvkvvFaTeT~s~GiNmPartvv~-~~l---~K~dG 501 (1041)
T COG4581 426 AEEDRELPLQILEISALLLRGIAVHHAGLLPAIKELVEELFQEGLVKVVFATETFAIGINMPARTVVF-TSL---SKFDG 501 (1041)
T ss_pred ChhhhcCcccHHHHHHHHhhhhhhhccccchHHHHHHHHHHhccceeEEeehhhhhhhcCCcccceee-eee---EEecC
Confidence 21 111 00 144679999999999999999999999999999999999999666665 444 44553
Q ss_pred CCCCccccccccCHHHHHHHhcccCCCC---CcEEEEecCh
Q 001046 826 KQGLDSLVITPISQASAKQRAGRAGRTG---PGKCYRLYTE 863 (1176)
Q Consensus 826 ~~g~~~l~~~p~S~as~~QR~GRAGR~g---~G~c~~L~t~ 863 (1176)
. ...+.+...|.|++|||||.| .|..+...++
T Consensus 502 ~------~~r~L~~gEy~QmsGRAGRRGlD~~G~vI~~~~~ 536 (1041)
T COG4581 502 N------GHRWLSPGEYTQMSGRAGRRGLDVLGTVIVIEPP 536 (1041)
T ss_pred C------ceeecChhHHHHhhhhhccccccccceEEEecCC
Confidence 2 234999999999999999999 7999988543
No 83
>PRK14701 reverse gyrase; Provisional
Probab=99.92 E-value=2.4e-24 Score=284.69 Aligned_cols=314 Identities=14% Similarity=0.076 Sum_probs=200.5
Q ss_pred CchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCcc--CCeeE
Q 001046 524 PIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRL--GEEVG 601 (1176)
Q Consensus 524 Pi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~--G~~vG 601 (1176)
..++.|.++++.+.+|++++++||||||||+.+..+.+.. ...+.+++++.|||+||.|++..+... +... +..+.
T Consensus 79 ~pt~iQ~~~i~~il~G~d~li~APTGsGKTl~~~~~al~~-~~~g~~aLVl~PTreLa~Qi~~~l~~l-~~~~~~~v~v~ 156 (1638)
T PRK14701 79 EFWSIQKTWAKRILRGKSFSIVAPTGMGKSTFGAFIALFL-ALKGKKCYIILPTTLLVKQTVEKIESF-CEKANLDVRLV 156 (1638)
T ss_pred CCCHHHHHHHHHHHcCCCEEEEEcCCCCHHHHHHHHHHHH-HhcCCeEEEEECHHHHHHHHHHHHHHH-HhhcCCceeEE
Confidence 4678899999999999999999999999998433322222 223568999999999999999987553 3332 22233
Q ss_pred EEeeccc----------ccCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCC---Cc-------hhHHHHHHH-
Q 001046 602 YAIRFED----------CTGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERT---IH-------TDVLFGLLK- 660 (1176)
Q Consensus 602 y~ir~~~----------~~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~---~~-------~d~ll~llk- 660 (1176)
+.....+ ......+|+|+|||.|.+.+..-. ..++++|||||||.-. -+ .+|.-.+..
T Consensus 157 ~~~g~~s~~e~~~~~~~l~~g~~dILV~TPgrL~~~~~~l~-~~~i~~iVVDEAD~ml~~~knid~~L~llGF~~e~~~~ 235 (1638)
T PRK14701 157 YYHSNLRKKEKEEFLERIENGDFDILVTTAQFLARNFPEMK-HLKFDFIFVDDVDAFLKASKNIDRSLQLLGFYEEIIEK 235 (1638)
T ss_pred EEeCCCCHHHHHHHHHHHhcCCCCEEEECCchhHHhHHHHh-hCCCCEEEEECceeccccccccchhhhcCCChHHHHHH
Confidence 2211111 112347899999999887654322 2679999999999421 11 122111111
Q ss_pred ------------------------HHHhhCC-Ccc-EEEEcCCCCH-HHHHhhhcCCCeEecCCcee---eeEEEEecCC
Q 001046 661 ------------------------QLVKRRP-DLR-LIVTSATLDA-EKFSGYFFNCNIFTIPGRTF---PVEILYTKQP 710 (1176)
Q Consensus 661 ------------------------~~~~~r~-~~k-vIlmSATl~~-~~~~~~f~~~~v~~i~gr~~---pv~~~~~~~~ 710 (1176)
..+...+ ..+ ++++|||++. .....+|...-.+.+..... .+...|....
T Consensus 236 ~~~il~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ll~~SAT~~~r~~~~~l~~~~l~f~v~~~~~~lr~i~~~yi~~~ 315 (1638)
T PRK14701 236 AWKIIYLKKQGNIEDAMEKREILNKEIEKIGNKIGCLIVASATGKAKGDRVKLYRELLGFEVGSGRSALRNIVDVYLNPE 315 (1638)
T ss_pred HHHhhhcccccccchhhhhhhhhhhhhhhcCCCccEEEEEecCCCchhHHHHHhhcCeEEEecCCCCCCCCcEEEEEECC
Confidence 1111112 234 6779999975 33444554333344433221 2333443221
Q ss_pred CchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHH---HHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCC
Q 001046 711 ESDYLDASLITVLQIHLTEPEGDILLFLTGQEEI---DFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAP 787 (1176)
Q Consensus 711 ~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei---~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~ 787 (1176)
. +.. ..+..++ ... +..+||||++++.+ +.+++.|.+ .++.+.++||+ |..+++.|.
T Consensus 316 ~-~~k-~~L~~ll---~~~-g~~gIVF~~t~~~~e~ae~la~~L~~---------~Gi~a~~~h~~-----R~~~l~~F~ 375 (1638)
T PRK14701 316 K-IIK-EHVRELL---KKL-GKGGLIFVPIDEGAEKAEEIEKYLLE---------DGFKIELVSAK-----NKKGFDLFE 375 (1638)
T ss_pred H-HHH-HHHHHHH---HhC-CCCeEEEEeccccchHHHHHHHHHHH---------CCCeEEEecch-----HHHHHHHHH
Confidence 1 111 1222222 222 45789999998764 677777765 37889999995 788999999
Q ss_pred CCCceEEEEc----chhhhccCCCC-eeEEEeCCccccee----ccCCCCCccccccccCHHHHHHHhcccCCCC-CcEE
Q 001046 788 PGKRKVVVAT----NIAEASLTIDG-IFYVIDPGFAKQNV----YNPKQGLDSLVITPISQASAKQRAGRAGRTG-PGKC 857 (1176)
Q Consensus 788 ~g~~kVlVAT----niae~GIdIp~-V~~VId~g~~k~~~----yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c 857 (1176)
.|..+||||| ++|+||||+|+ |+|||++|+.|..+ |.+.... + .. .....++.|||||.| |+.|
T Consensus 376 ~G~~~VLVaT~s~~gvaaRGIDiP~~Vryvi~~~~Pk~~~~~e~~~~~~~~--~---~~-~~~~~~~~~~a~~~g~~~~~ 449 (1638)
T PRK14701 376 EGEIDYLIGVATYYGTLVRGLDLPERIRFAVFYGVPKFRFRVDLEDPTIYR--I---LG-LLSEILKIEEELKEGIPIEG 449 (1638)
T ss_pred cCCCCEEEEecCCCCeeEecCccCCccCEEEEeCCCCCCcchhhcccchhh--h---hc-chHHHHHhhhhcccCCcchh
Confidence 9999999999 59999999999 99999999966331 2221111 0 01 234567789999999 8888
Q ss_pred EEecChHHH
Q 001046 858 YRLYTESAY 866 (1176)
Q Consensus 858 ~~L~t~~~~ 866 (1176)
+..|..++.
T Consensus 450 ~~~~~~~~~ 458 (1638)
T PRK14701 450 VLDVFPEDV 458 (1638)
T ss_pred HHHhHHHHH
Confidence 766665544
No 84
>TIGR00603 rad25 DNA repair helicase rad25. All proteins in this family for which functions are known are DNA-DNA helicases used for the initiation of nucleotide excision repair and transacription as part of the TFIIH complex.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.92 E-value=1.7e-23 Score=256.44 Aligned_cols=302 Identities=13% Similarity=0.145 Sum_probs=199.8
Q ss_pred cCCchHHHHHHHHHHHcC---CeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCC
Q 001046 522 SLPIYKLKKELIQAVHDN---QVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGE 598 (1176)
Q Consensus 522 ~LPi~~~q~~ii~ai~~~---~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~ 598 (1176)
...+++||.+++..+..+ +..||+.|||+|||.+....+... .+++||++|+.+|+.|....+.+..+...+
T Consensus 253 ~~~LRpYQ~eAl~~~~~~gr~r~GIIvLPtGaGKTlvai~aa~~l----~k~tLILvps~~Lv~QW~~ef~~~~~l~~~- 327 (732)
T TIGR00603 253 TTQIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKSLVGVTAACTV----KKSCLVLCTSAVSVEQWKQQFKMWSTIDDS- 327 (732)
T ss_pred CCCcCHHHHHHHHHHHhcCCCCCcEEEeCCCCChHHHHHHHHHHh----CCCEEEEeCcHHHHHHHHHHHHHhcCCCCc-
Confidence 456799999999998643 368999999999998877665543 357999999999999999988776544333
Q ss_pred eeEEEeecc-cccCCCceEEEeChHHHHHHHhhC-------CCC--CCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCC
Q 001046 599 EVGYAIRFE-DCTGPDTVIKYMTDGMLLREILID-------DNL--SQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPD 668 (1176)
Q Consensus 599 ~vGy~ir~~-~~~~~~t~I~~~T~g~Llr~l~~~-------~~L--~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~ 668 (1176)
.++.-.... ........|+++|..++....... ..+ ..+++||+||||. ... ..++.++.....
T Consensus 328 ~I~~~tg~~k~~~~~~~~VvVtTYq~l~~~~~r~~~~~~~l~~l~~~~~gLII~DEvH~-lpA-----~~fr~il~~l~a 401 (732)
T TIGR00603 328 QICRFTSDAKERFHGEAGVVVSTYSMVAHTGKRSYESEKVMEWLTNREWGLILLDEVHV-VPA-----AMFRRVLTIVQA 401 (732)
T ss_pred eEEEEecCcccccccCCcEEEEEHHHhhcccccchhhhHHHHHhccccCCEEEEEcccc-ccH-----HHHHHHHHhcCc
Confidence 233111111 111224679999998875321110 122 4689999999994 322 223333333334
Q ss_pred ccEEEEcCCCC--HHHH--HhhhcCCCeEec-------CCceeeeEE--EEecCCCc---hhHH----------------
Q 001046 669 LRLIVTSATLD--AEKF--SGYFFNCNIFTI-------PGRTFPVEI--LYTKQPES---DYLD---------------- 716 (1176)
Q Consensus 669 ~kvIlmSATl~--~~~~--~~~f~~~~v~~i-------~gr~~pv~~--~~~~~~~~---~~~~---------------- 716 (1176)
...+++|||+- ...+ ..++.+..++.. .|..-|++. .+.+.+.. .|+.
T Consensus 402 ~~RLGLTATP~ReD~~~~~L~~LiGP~vye~~~~eLi~~G~LA~~~~~ev~v~~t~~~~~~yl~~~~~~k~~l~~~np~K 481 (732)
T TIGR00603 402 HCKLGLTATLVREDDKITDLNFLIGPKLYEANWMELQKKGFIANVQCAEVWCPMTPEFYREYLRENSRKRMLLYVMNPNK 481 (732)
T ss_pred CcEEEEeecCcccCCchhhhhhhcCCeeeecCHHHHHhCCccccceEEEEEecCCHHHHHHHHHhcchhhhHHhhhChHH
Confidence 56899999993 1111 223334445443 233333332 22222211 1111
Q ss_pred -HHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCC-CceEE
Q 001046 717 -ASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPG-KRKVV 794 (1176)
Q Consensus 717 -~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g-~~kVl 794 (1176)
..+..++..|. ..+.++||||.....++.++..|. +..+||.+++.+|.++++.|+.| ..++|
T Consensus 482 ~~~~~~Li~~he-~~g~kiLVF~~~~~~l~~~a~~L~--------------~~~I~G~ts~~ER~~il~~Fr~~~~i~vL 546 (732)
T TIGR00603 482 FRACQFLIRFHE-QRGDKIIVFSDNVFALKEYAIKLG--------------KPFIYGPTSQQERMQILQNFQHNPKVNTI 546 (732)
T ss_pred HHHHHHHHHHHh-hcCCeEEEEeCCHHHHHHHHHHcC--------------CceEECCCCHHHHHHHHHHHHhCCCccEE
Confidence 01112333332 356799999999888777666551 23479999999999999999865 78999
Q ss_pred EEcchhhhccCCCCeeEEEeCCcccceeccCCCCCccccccc-cCHHHHHHHhcccCCCCCc-EE-------EEecChHH
Q 001046 795 VATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITP-ISQASAKQRAGRAGRTGPG-KC-------YRLYTESA 865 (1176)
Q Consensus 795 VATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p-~S~as~~QR~GRAGR~g~G-~c-------~~L~t~~~ 865 (1176)
|+|+++.+|||+|++++||.... | -|...|+||+||++|.++| .+ |.|+++..
T Consensus 547 v~SkVgdeGIDlP~a~vvI~~s~------------------~~gS~~q~iQRlGRilR~~~~~~~~~~~A~fY~lVs~dT 608 (732)
T TIGR00603 547 FLSKVGDTSIDLPEANVLIQISS------------------HYGSRRQEAQRLGRILRAKKGSDAEEYNAFFYSLVSKDT 608 (732)
T ss_pred EEecccccccCCCCCCEEEEeCC------------------CCCCHHHHHHHhcccccCCCCCccccccceEEEEecCCc
Confidence 99999999999999999997655 4 4899999999999999954 44 88888765
Q ss_pred Hh
Q 001046 866 YR 867 (1176)
Q Consensus 866 ~~ 867 (1176)
.+
T Consensus 609 ~E 610 (732)
T TIGR00603 609 QE 610 (732)
T ss_pred hH
Confidence 43
No 85
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=99.92 E-value=2.1e-24 Score=270.34 Aligned_cols=313 Identities=20% Similarity=0.179 Sum_probs=221.2
Q ss_pred HhcCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCe
Q 001046 520 RQSLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEE 599 (1176)
Q Consensus 520 r~~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~ 599 (1176)
...--.++-|.++|.+++.|+++.|..|||.||+.++.++.+-. ++..+|+.|...|...+...+ ...+......
T Consensus 260 Fg~~~FR~~Q~eaI~~~l~Gkd~fvlmpTG~GKSLCYQlPA~l~----~gitvVISPL~SLm~DQv~~L-~~~~I~a~~L 334 (941)
T KOG0351|consen 260 FGHKGFRPNQLEAINATLSGKDCFVLMPTGGGKSLCYQLPALLL----GGVTVVISPLISLMQDQVTHL-SKKGIPACFL 334 (941)
T ss_pred hccccCChhHHHHHHHHHcCCceEEEeecCCceeeEeecccccc----CCceEEeccHHHHHHHHHHhh-hhcCcceeec
Confidence 33334567799999999999999999999999997665554332 457899999999999888776 2222222111
Q ss_pred eEEEee------cccccC--CCceEEEeChHHHHHHHh---hCCCCCC---CceEEEcCCCcCCCch---hHHHHHHHHH
Q 001046 600 VGYAIR------FEDCTG--PDTVIKYMTDGMLLREIL---IDDNLSQ---YSVIMLDEAHERTIHT---DVLFGLLKQL 662 (1176)
Q Consensus 600 vGy~ir------~~~~~~--~~t~I~~~T~g~Llr~l~---~~~~L~~---~s~IIiDEaHeR~~~~---d~ll~llk~~ 662 (1176)
.+-+.. +..... +..+|+|+||+.+...-. ....|.. +..+||||||+-+-.. ---...|..+
T Consensus 335 ~s~q~~~~~~~i~q~l~~~~~~ikilYvtPE~v~~~~~l~~~~~~L~~~~~lal~vIDEAHCVSqWgHdFRp~Yk~l~~l 414 (941)
T KOG0351|consen 335 SSIQTAAERLAILQKLANGNPIIKILYVTPEKVVASEGLLESLADLYARGLLALFVIDEAHCVSQWGHDFRPSYKRLGLL 414 (941)
T ss_pred cccccHHHHHHHHHHHhCCCCeEEEEEeCHHHhhcccchhhHHHhccCCCeeEEEEecHHHHhhhhcccccHHHHHHHHH
Confidence 111111 011112 367899999987653211 1113344 8999999999632222 1222334444
Q ss_pred HhhCCCccEEEEcCCCCH---HHHHhhhc--CCCeEecCCceeeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEE
Q 001046 663 VKRRPDLRLIVTSATLDA---EKFSGYFF--NCNIFTIPGRTFPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLF 737 (1176)
Q Consensus 663 ~~~r~~~kvIlmSATl~~---~~~~~~f~--~~~v~~i~gr~~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVF 737 (1176)
..+++.+.+|.+|||... +.+.+-++ ++.++.-.--. -..+|.-.+..+ .......+..+....+.+.+||+
T Consensus 415 ~~~~~~vP~iALTATAT~~v~~DIi~~L~l~~~~~~~~sfnR--~NL~yeV~~k~~-~~~~~~~~~~~~~~~~~~s~IIY 491 (941)
T KOG0351|consen 415 RIRFPGVPFIALTATATERVREDVIRSLGLRNPELFKSSFNR--PNLKYEVSPKTD-KDALLDILEESKLRHPDQSGIIY 491 (941)
T ss_pred HhhCCCCCeEEeehhccHHHHHHHHHHhCCCCcceecccCCC--CCceEEEEeccC-ccchHHHHHHhhhcCCCCCeEEE
Confidence 557788999999999963 34444443 34433222111 112221111111 22233444455566778999999
Q ss_pred eCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCc
Q 001046 738 LTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGF 817 (1176)
Q Consensus 738 l~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~ 817 (1176)
|.++.+++.++..|... ++....||+||+..+|..|...|-.++.+|||||=.+++|||.|+|++||++++
T Consensus 492 C~sr~~ce~vs~~L~~~---------~~~a~~YHAGl~~~~R~~Vq~~w~~~~~~VivATVAFGMGIdK~DVR~ViH~~l 562 (941)
T KOG0351|consen 492 CLSRKECEQVSAVLRSL---------GKSAAFYHAGLPPKERETVQKAWMSDKIRVIVATVAFGMGIDKPDVRFVIHYSL 562 (941)
T ss_pred eCCcchHHHHHHHHHHh---------chhhHhhhcCCCHHHHHHHHHHHhcCCCeEEEEEeeccCCCCCCceeEEEECCC
Confidence 99999999999999764 466788999999999999999999999999999999999999999999999999
Q ss_pred ccceeccCCCCCccccccccCHHHHHHHhcccCCCC-CcEEEEecChHHHh
Q 001046 818 AKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTESAYR 867 (1176)
Q Consensus 818 ~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~~ 867 (1176)
|.|.+.|.|-+|||||.| +-.|..||+-.++.
T Consensus 563 ------------------Pks~E~YYQE~GRAGRDG~~s~C~l~y~~~D~~ 595 (941)
T KOG0351|consen 563 ------------------PKSFEGYYQEAGRAGRDGLPSSCVLLYGYADIS 595 (941)
T ss_pred ------------------chhHHHHHHhccccCcCCCcceeEEecchhHHH
Confidence 999999999999999999 89999999988764
No 86
>TIGR03714 secA2 accessory Sec system translocase SecA2. Members of this protein family are homologous to SecA and part of the accessory Sec system. This system, including both five core proteins for export and a variable number of proteins for glycosylation, operates in certain Gram-positive pathogens for the maturation and delivery of serine-rich glycoproteins such as the cell surface glycoprotein GspB in Streptococcus gordonii.
Probab=99.92 E-value=7e-23 Score=250.93 Aligned_cols=308 Identities=20% Similarity=0.242 Sum_probs=201.2
Q ss_pred HhcCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCe
Q 001046 520 RQSLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEE 599 (1176)
Q Consensus 520 r~~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~ 599 (1176)
+..|-+++++.|++.++..++..|+.++||+|||+++.++++...+. +..++|+.|++.||.+.+..+.... ..+|..
T Consensus 64 ~R~lglrpydVQlig~l~l~~G~Iaem~TGeGKTLta~Lpa~l~aL~-g~~V~VVTpn~yLA~Rdae~m~~l~-~~LGLs 141 (762)
T TIGR03714 64 KRVLGMFPYDVQVLGAIVLHQGNIAEMKTGEGKTLTATMPLYLNALT-GKGAMLVTTNDYLAKRDAEEMGPVY-EWLGLT 141 (762)
T ss_pred HhhcCCCccHHHHHHHHHhcCCceeEecCCcchHHHHHHHHHHHhhc-CCceEEeCCCHHHHHHHHHHHHHHH-hhcCCc
Confidence 45677888899999988777778999999999999998887765554 4569999999999999998654432 345666
Q ss_pred eEEEeecc---------cccCCCceEEEeChHHHH-HHHhh-------CCCCCCCceEEEcCCCc------CC-------
Q 001046 600 VGYAIRFE---------DCTGPDTVIKYMTDGMLL-REILI-------DDNLSQYSVIMLDEAHE------RT------- 649 (1176)
Q Consensus 600 vGy~ir~~---------~~~~~~t~I~~~T~g~Ll-r~l~~-------~~~L~~~s~IIiDEaHe------R~------- 649 (1176)
||..+... .....++.|+|+||+.|. ..|.. ...+.++.++||||||. |+
T Consensus 142 v~~~~~~s~~~~~~~~~rr~~y~~dIvygTp~~LgfDyLrD~l~~~~~~~~~r~l~~~IVDEaDsILiDeartpliisg~ 221 (762)
T TIGR03714 142 VSLGVVDDPDEEYDANEKRKIYNSDIVYTTNSALGFDYLIDNLASNKEGKFLRPFNYVIVDEVDSVLLDSAQTPLVISGA 221 (762)
T ss_pred EEEEECCCCccccCHHHHHHhCCCCEEEECchhhhhhHHHHHhhcchhhcccccCcEEEEecHhhHhhccCcCCeeeeCC
Confidence 66533220 111246899999999993 33321 12478899999999993 11
Q ss_pred --CchhHHHHHHHHHHh-hCC--------CccEE----------------------------------------------
Q 001046 650 --IHTDVLFGLLKQLVK-RRP--------DLRLI---------------------------------------------- 672 (1176)
Q Consensus 650 --~~~d~ll~llk~~~~-~r~--------~~kvI---------------------------------------------- 672 (1176)
..+. +......+.. ..+ .-+-|
T Consensus 222 ~~~~~~-~y~~~~~~v~~l~~~~dy~~d~~~~~v~lt~~G~~~~e~~~~~~~l~~~~~~~~~~~i~~al~A~~~~~~d~d 300 (762)
T TIGR03714 222 PRVQSN-LYHIADTFVRTLKEDVDYIFKKDKKEVWLTDKGIEKAEQYFKIDNLYSEEYFELVRHINLALRAHYLFKRNKD 300 (762)
T ss_pred CccchH-HHHHHHHHHHhcCCCCCeEEEcCCCeeeecHhHHHHHHHHcCCCccCChhhHHHHHHHHHHHHHHHHHhcCCc
Confidence 1111 1222222221 111 11122
Q ss_pred ---------------------------------------------------------------EEcCCCC--HHHHHhhh
Q 001046 673 ---------------------------------------------------------------VTSATLD--AEKFSGYF 687 (1176)
Q Consensus 673 ---------------------------------------------------------------lmSATl~--~~~~~~~f 687 (1176)
+||.|.. .+.|.+.+
T Consensus 301 YiV~~~~v~ivD~~TGr~~~gr~~~~GLhQaieaKE~v~i~~e~~t~a~It~qn~Fr~Y~kl~GmTGTa~~~~~Ef~~iY 380 (762)
T TIGR03714 301 YVVTNGEVVLLDRITGRLLEGTKLQSGIHQAIEAKEHVELSKETRAMASITYQNLFKMFNKLSGMTGTGKVAEKEFIETY 380 (762)
T ss_pred eEEECCEEEEEECCCCcCCCCCCcchHHHHHHHhhcCCCCCCCceeeeeeeHHHHHhhCchhcccCCCChhHHHHHHHHh
Confidence 2222221 11111111
Q ss_pred cCCCeEecCCceeeeE------EEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCC
Q 001046 688 FNCNIFTIPGRTFPVE------ILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKN 761 (1176)
Q Consensus 688 ~~~~v~~i~gr~~pv~------~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~ 761 (1176)
+-.++.||... |+. ..|.. ......+.+..+...| ..+.++||||++.+.++.++..|.+.
T Consensus 381 -~l~v~~IPt~k-p~~r~d~~d~i~~~--~~~K~~ai~~~i~~~~--~~~~pvLIft~s~~~se~ls~~L~~~------- 447 (762)
T TIGR03714 381 -SLSVVKIPTNK-PIIRIDYPDKIYAT--LPEKLMATLEDVKEYH--ETGQPVLLITGSVEMSEIYSELLLRE------- 447 (762)
T ss_pred -CCCEEEcCCCC-CeeeeeCCCeEEEC--HHHHHHHHHHHHHHHh--hCCCCEEEEECcHHHHHHHHHHHHHC-------
Confidence 12222222211 000 00100 0111222233333332 45679999999999999999988762
Q ss_pred CCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCC---------CeeEEEeCCcccceeccCCCCCccc
Q 001046 762 VPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTID---------GIFYVIDPGFAKQNVYNPKQGLDSL 832 (1176)
Q Consensus 762 ~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp---------~V~~VId~g~~k~~~yd~~~g~~~l 832 (1176)
++.+..+||.+.+.++..+...+.+| .|+||||+|+||+||+ ++.+||++..
T Consensus 448 --gi~~~~L~a~~~~~E~~ii~~ag~~g--~VlIATdmAgRGtDI~l~~~v~~~GGL~vIit~~~--------------- 508 (762)
T TIGR03714 448 --GIPHNLLNAQNAAKEAQIIAEAGQKG--AVTVATSMAGRGTDIKLGKGVAELGGLAVIGTERM--------------- 508 (762)
T ss_pred --CCCEEEecCCChHHHHHHHHHcCCCC--eEEEEccccccccCCCCCccccccCCeEEEEecCC---------------
Confidence 56778899999999998888888777 7999999999999999 9999998877
Q ss_pred cccccCHHHHHHHhcccCCCC-CcEEEEecChHHH
Q 001046 833 VITPISQASAKQRAGRAGRTG-PGKCYRLYTESAY 866 (1176)
Q Consensus 833 ~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~ 866 (1176)
|..... .||+|||||.| ||.|+.+++.++.
T Consensus 509 ---ps~rid-~qr~GRtGRqG~~G~s~~~is~eD~ 539 (762)
T TIGR03714 509 ---ENSRVD-LQLRGRSGRQGDPGSSQFFVSLEDD 539 (762)
T ss_pred ---CCcHHH-HHhhhcccCCCCceeEEEEEccchh
Confidence 666655 99999999999 9999999997654
No 87
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=99.91 E-value=2.9e-23 Score=251.71 Aligned_cols=307 Identities=21% Similarity=0.188 Sum_probs=204.0
Q ss_pred cCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeE
Q 001046 522 SLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVG 601 (1176)
Q Consensus 522 ~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vG 601 (1176)
.+-.|+.|...+..+..|+ |..+.||+|||.++.++++..... +..++|+.|+++||.|.+..+...+ ..+|..||
T Consensus 101 g~~p~~VQ~~~~~~ll~G~--Iae~~TGeGKTla~~lp~~~~al~-G~~v~VvTptreLA~qdae~~~~l~-~~lGlsv~ 176 (656)
T PRK12898 101 GQRHFDVQLMGGLALLSGR--LAEMQTGEGKTLTATLPAGTAALA-GLPVHVITVNDYLAERDAELMRPLY-EALGLTVG 176 (656)
T ss_pred CCCCChHHHHHHHHHhCCC--eeeeeCCCCcHHHHHHHHHHHhhc-CCeEEEEcCcHHHHHHHHHHHHHHH-hhcCCEEE
Confidence 3455688999999999999 899999999999999998886543 5689999999999999998775544 34667777
Q ss_pred EEeecccc----cCCCceEEEeChHHHH-----HHHhh----------------------CCCCCCCceEEEcCCCc---
Q 001046 602 YAIRFEDC----TGPDTVIKYMTDGMLL-----REILI----------------------DDNLSQYSVIMLDEAHE--- 647 (1176)
Q Consensus 602 y~ir~~~~----~~~~t~I~~~T~g~Ll-----r~l~~----------------------~~~L~~~s~IIiDEaHe--- 647 (1176)
..+...+. .....+|+|+|+.-|- +.+.. +.....+.+.|||||+.
T Consensus 177 ~i~gg~~~~~r~~~y~~dIvygT~~e~~FDyLrd~~~~~~~~~~~~~~~~~l~~~~~~~~~~v~r~~~~aIvDEvDSiLi 256 (656)
T PRK12898 177 CVVEDQSPDERRAAYGADITYCTNKELVFDYLRDRLALGQRASDARLALESLHGRSSRSTQLLLRGLHFAIVDEADSVLI 256 (656)
T ss_pred EEeCCCCHHHHHHHcCCCEEEECCCchhhhhccccccccccccchhhhhhhhccccCchhhhcccccceeEeecccceee
Confidence 55443221 1246799999986552 11111 11246678899999881
Q ss_pred ---CC-------C--c--hhHHHHH----------------------------------------------------HHH
Q 001046 648 ---RT-------I--H--TDVLFGL----------------------------------------------------LKQ 661 (1176)
Q Consensus 648 ---R~-------~--~--~d~ll~l----------------------------------------------------lk~ 661 (1176)
|+ . . .+++... +..
T Consensus 257 Deartpliis~~~~~~~~~~~y~~~~~~~~~l~~~~~y~~d~~~~~v~lt~~g~~~~e~~~~~l~~~~~~~~~~~~~i~~ 336 (656)
T PRK12898 257 DEARTPLIISAPAKEADEAEVYRQALELAAQLKEGEDYTIDAAEKRIELTEAGRARIAELAESLPPAWRGAVRREELVRQ 336 (656)
T ss_pred ccCCCceEEECCCCCCchhHHHHHHHHHHHhcCCCCceEEECCCCeEEEcHHHHHHHHHHhCcchhhcccchHHHHHHHH
Confidence 10 0 0 1110000 000
Q ss_pred HHh-----hC----------------------C--------------------------------------CccEEEEcC
Q 001046 662 LVK-----RR----------------------P--------------------------------------DLRLIVTSA 676 (1176)
Q Consensus 662 ~~~-----~r----------------------~--------------------------------------~~kvIlmSA 676 (1176)
.+. .+ + =.++.+|||
T Consensus 337 Al~A~~l~~~d~dYiV~d~~V~ivD~~TGR~~~gr~w~~GLhQaieaKE~v~i~~e~~t~a~It~q~~Fr~Y~kl~GmTG 416 (656)
T PRK12898 337 ALSALHLFRRDEHYIVRDGKVVIVDEFTGRVMPDRSWEDGLHQMIEAKEGCELTDPRETLARITYQRFFRRYLRLAGMTG 416 (656)
T ss_pred HHHHHHHHhcCCceEEECCeEEEEECCCCeECCCCCcChHHHHHHHHhcCCCCCcCceeeeeehHHHHHHhhHHHhcccC
Confidence 000 00 0 025677777
Q ss_pred CCC--HHHHHhhhcCCCeEecCCceeee-----EEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHH
Q 001046 677 TLD--AEKFSGYFFNCNIFTIPGRTFPV-----EILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQ 749 (1176)
Q Consensus 677 Tl~--~~~~~~~f~~~~v~~i~gr~~pv-----~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~ 749 (1176)
|+. .+.|.+.++- .++.||...-.. ..+|. +..+...+.+..+...+ ..+.++||||++.+.++.++.
T Consensus 417 Ta~~~~~El~~~y~l-~vv~IPt~kp~~r~~~~~~v~~--t~~~K~~aL~~~i~~~~--~~~~pvLIft~t~~~se~L~~ 491 (656)
T PRK12898 417 TAREVAGELWSVYGL-PVVRIPTNRPSQRRHLPDEVFL--TAAAKWAAVAARVRELH--AQGRPVLVGTRSVAASERLSA 491 (656)
T ss_pred cChHHHHHHHHHHCC-CeEEeCCCCCccceecCCEEEe--CHHHHHHHHHHHHHHHH--hcCCCEEEEeCcHHHHHHHHH
Confidence 774 3345555543 334444321111 01111 12222222222222222 235689999999999999999
Q ss_pred HHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCC---Cee-----EEEeCCcccce
Q 001046 750 SLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTID---GIF-----YVIDPGFAKQN 821 (1176)
Q Consensus 750 ~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp---~V~-----~VId~g~~k~~ 821 (1176)
.|.+ .++.+..+||.+...++..+...+ +...|+||||+|++|+||+ +|. +||++++
T Consensus 492 ~L~~---------~gi~~~~Lhg~~~~rE~~ii~~ag--~~g~VlVATdmAgRGtDI~l~~~V~~~GGLhVI~~d~---- 556 (656)
T PRK12898 492 LLRE---------AGLPHQVLNAKQDAEEAAIVARAG--QRGRITVATNMAGRGTDIKLEPGVAARGGLHVILTER---- 556 (656)
T ss_pred HHHH---------CCCCEEEeeCCcHHHHHHHHHHcC--CCCcEEEEccchhcccCcCCccchhhcCCCEEEEcCC----
Confidence 9976 267889999997766665555444 4457999999999999999 776 9999999
Q ss_pred eccCCCCCccccccccCHHHHHHHhcccCCCC-CcEEEEecChHHH
Q 001046 822 VYNPKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTESAY 866 (1176)
Q Consensus 822 ~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~ 866 (1176)
|.|...|.||+|||||.| +|.|+.+++.++.
T Consensus 557 --------------P~s~r~y~hr~GRTGRqG~~G~s~~~is~eD~ 588 (656)
T PRK12898 557 --------------HDSARIDRQLAGRCGRQGDPGSYEAILSLEDD 588 (656)
T ss_pred --------------CCCHHHHHHhcccccCCCCCeEEEEEechhHH
Confidence 999999999999999999 8999999997653
No 88
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=99.91 E-value=2e-23 Score=258.12 Aligned_cols=309 Identities=20% Similarity=0.199 Sum_probs=202.9
Q ss_pred hcCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCee
Q 001046 521 QSLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEV 600 (1176)
Q Consensus 521 ~~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~v 600 (1176)
..+-++++..|++-.+.-++..|+.+.||+|||.++.++++...+. +..+.++.|++.||.+.+..+...+ ..+|..|
T Consensus 73 R~~g~~p~~vQl~~~~~l~~G~Iaem~TGeGKTL~a~lp~~l~al~-G~~v~VvTpt~~LA~qd~e~~~~l~-~~lGl~v 150 (790)
T PRK09200 73 RVLGMRPYDVQLIGALVLHEGNIAEMQTGEGKTLTATMPLYLNALE-GKGVHLITVNDYLAKRDAEEMGQVY-EFLGLTV 150 (790)
T ss_pred HHhCCCCchHHHHhHHHHcCCceeeecCCCcchHHHHHHHHHHHHc-CCCeEEEeCCHHHHHHHHHHHHHHH-hhcCCeE
Confidence 3444555555555554433444999999999999998888765443 5679999999999999998765443 4466777
Q ss_pred EEEeeccc-----ccCCCceEEEeChHHH-HHHHhh----C---CCCCCCceEEEcCCCc------CCC-----c---hh
Q 001046 601 GYAIRFED-----CTGPDTVIKYMTDGML-LREILI----D---DNLSQYSVIMLDEAHE------RTI-----H---TD 653 (1176)
Q Consensus 601 Gy~ir~~~-----~~~~~t~I~~~T~g~L-lr~l~~----~---~~L~~~s~IIiDEaHe------R~~-----~---~d 653 (1176)
|..+.... ......+|+|+|++.| .+.|.. . ..+..+.++||||||. |+. . ..
T Consensus 151 ~~i~g~~~~~~~r~~~y~~dIvygT~~~l~fDyLrd~~~~~~~~~~~r~~~~~IvDEaDsiLiDea~tpliisg~~~~~~ 230 (790)
T PRK09200 151 GLNFSDIDDASEKKAIYEADIIYTTNSELGFDYLRDNLADSKEDKVQRPLNYAIIDEIDSILLDEAQTPLIISGKPRVQS 230 (790)
T ss_pred EEEeCCCCcHHHHHHhcCCCEEEECCccccchhHHhccccchhhhcccccceEEEeccccceeccCCCceeeeCCCcccc
Confidence 75544332 1124579999999888 222221 1 2568899999999992 111 0 00
Q ss_pred HHHHHH-----------------------------------------------------HHHHhh----CCC--------
Q 001046 654 VLFGLL-----------------------------------------------------KQLVKR----RPD-------- 668 (1176)
Q Consensus 654 ~ll~ll-----------------------------------------------------k~~~~~----r~~-------- 668 (1176)
.+.... ...+.. ..+
T Consensus 231 ~~y~~~~~~~~~l~~~~dy~~d~~~~~~~lt~~g~~~~e~~~~i~~l~~~~~~~~~~~i~~Al~A~~~~~~d~dYiV~~~ 310 (790)
T PRK09200 231 NLYHIAAKFVKTLEEDVDYEFDEEKKEVWLTDQGIEKAESYFGIDNLYSLEHQVLYRHIILALRAHVLFKRDVDYIVYDG 310 (790)
T ss_pred HHHHHHHHHHHhcccCCCeEEecCCCeEEecHhHHHHHHHhcCCccccChhhhHHHHHHHHHHHHHHHhhcCCcEEEECC
Confidence 000000 000000 000
Q ss_pred -----------------------------------------------------ccEEEEcCCCC--HHHHHhhhcCCCeE
Q 001046 669 -----------------------------------------------------LRLIVTSATLD--AEKFSGYFFNCNIF 693 (1176)
Q Consensus 669 -----------------------------------------------------~kvIlmSATl~--~~~~~~~f~~~~v~ 693 (1176)
.++.+||.|.. .+.|.+.+ +.+++
T Consensus 311 ~v~ivD~~TGr~~~gr~~s~GlhQaieaKe~v~i~~e~~t~a~It~q~~fr~Y~kl~GmTGTa~t~~~e~~~~Y-~l~v~ 389 (790)
T PRK09200 311 EIVLVDRFTGRVLPGRKLQDGLHQAIEAKEGVEITEENRTMASITIQNLFRMFPKLSGMTGTAKTEEKEFFEVY-NMEVV 389 (790)
T ss_pred EEEEEECCCCcCCCCCccChHHHHHHHHhcCCCcCCCceehhhhhHHHHHHHhHHHhccCCCChHHHHHHHHHh-CCcEE
Confidence 13344444442 11222222 34555
Q ss_pred ecCCceeeeE------EEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEE
Q 001046 694 TIPGRTFPVE------ILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELII 767 (1176)
Q Consensus 694 ~i~gr~~pv~------~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v 767 (1176)
.||... |+. ..|.. ..+...+.+..+...+ ..+.++||||++.+.++.++..|.+. ++.+
T Consensus 390 ~IPt~k-p~~r~d~~~~i~~~--~~~K~~al~~~i~~~~--~~~~pvLIf~~t~~~se~l~~~L~~~---------gi~~ 455 (790)
T PRK09200 390 QIPTNR-PIIRIDYPDKVFVT--LDEKYKAVIEEVKERH--ETGRPVLIGTGSIEQSETFSKLLDEA---------GIPH 455 (790)
T ss_pred ECCCCC-CcccccCCCeEEcC--HHHHHHHHHHHHHHHH--hcCCCEEEEeCcHHHHHHHHHHHHHC---------CCCE
Confidence 565431 221 11111 1222222233332322 34779999999999999999998763 6778
Q ss_pred EEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCC---CCee-----EEEeCCcccceeccCCCCCccccccccCH
Q 001046 768 LPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTI---DGIF-----YVIDPGFAKQNVYNPKQGLDSLVITPISQ 839 (1176)
Q Consensus 768 ~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdI---p~V~-----~VId~g~~k~~~yd~~~g~~~l~~~p~S~ 839 (1176)
..+||.+...++..+...+.+| .|+||||+|+||+|| |+|. +||++++ |.|.
T Consensus 456 ~~L~~~~~~~e~~~i~~ag~~g--~VlIATdmAgRG~DI~l~~~V~~~GGL~VI~~d~------------------p~s~ 515 (790)
T PRK09200 456 NLLNAKNAAKEAQIIAEAGQKG--AVTVATNMAGRGTDIKLGEGVHELGGLAVIGTER------------------MESR 515 (790)
T ss_pred EEecCCccHHHHHHHHHcCCCC--eEEEEccchhcCcCCCcccccccccCcEEEeccC------------------CCCH
Confidence 8999999998888888887766 799999999999999 7999 9999999 9999
Q ss_pred HHHHHHhcccCCCC-CcEEEEecChHHH
Q 001046 840 ASAKQRAGRAGRTG-PGKCYRLYTESAY 866 (1176)
Q Consensus 840 as~~QR~GRAGR~g-~G~c~~L~t~~~~ 866 (1176)
..|.||+|||||.| +|.|+.+++.++.
T Consensus 516 r~y~qr~GRtGR~G~~G~s~~~is~eD~ 543 (790)
T PRK09200 516 RVDLQLRGRSGRQGDPGSSQFFISLEDD 543 (790)
T ss_pred HHHHHhhccccCCCCCeeEEEEEcchHH
Confidence 99999999999999 8999999997654
No 89
>PRK09694 helicase Cas3; Provisional
Probab=99.91 E-value=1.3e-22 Score=255.29 Aligned_cols=299 Identities=20% Similarity=0.141 Sum_probs=187.3
Q ss_pred CchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcc-cCCCEEEEeccHHHHHHHHHHHHHHHh----C-CccC
Q 001046 524 PIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGY-TTRGKIGCTQPRRVAAMSVAKRVAEEF----G-CRLG 597 (1176)
Q Consensus 524 Pi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~-~~~~~Ilv~~PrR~lA~qva~rva~e~----g-~~~G 597 (1176)
..+++|..+.+.......+||.||||+|||.++..++..... ....+|++..||++++.+++.|+.+.+ + ..++
T Consensus 286 ~p~p~Q~~~~~~~~~pgl~ileApTGsGKTEAAL~~A~~l~~~~~~~gi~~aLPT~Atan~m~~Rl~~~~~~~f~~~~v~ 365 (878)
T PRK09694 286 QPRQLQTLVDALPLQPGLTIIEAPTGSGKTEAALAYAWRLIDQGLADSIIFALPTQATANAMLSRLEALASKLFPSPNLI 365 (878)
T ss_pred CChHHHHHHHhhccCCCeEEEEeCCCCCHHHHHHHHHHHHHHhCCCCeEEEECcHHHHHHHHHHHHHHHHHHhcCCCceE
Confidence 356778877555455778999999999999887766544211 223589999999999999999987532 2 1122
Q ss_pred CeeEEEe---eccc----c-----------------c-C----CCceEEEeChHHHHHHHhhCC--CCCC----CceEEE
Q 001046 598 EEVGYAI---RFED----C-----------------T-G----PDTVIKYMTDGMLLREILIDD--NLSQ----YSVIML 642 (1176)
Q Consensus 598 ~~vGy~i---r~~~----~-----------------~-~----~~t~I~~~T~g~Llr~l~~~~--~L~~----~s~IIi 642 (1176)
...|... .+.. . . + --..|+|+|...++...+.-. .++. -++|||
T Consensus 366 L~Hg~a~l~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~kr~llapi~V~TiDQlL~a~l~~kh~~lR~~~La~svvIi 445 (878)
T PRK09694 366 LAHGNSRFNHLFQSLKSRAATEQGQEEAWVQCCEWLSQSNKRVFLGQIGVCTIDQVLISVLPVKHRFIRGFGLGRSVLIV 445 (878)
T ss_pred eecCcchhhhhhhhhhcccccccccchhhhHHHHHHhhhhhhhhcCCEEEcCHHHHHHHHHccchHHHHHHhhccCeEEE
Confidence 2222111 0000 0 0 0 125899999988886555432 2222 359999
Q ss_pred cCCCcCCCchhH-HHHHHHHHHhhCCCccEEEEcCCCCHHH---HHhhhcC---------CCeEecCC----ce------
Q 001046 643 DEAHERTIHTDV-LFGLLKQLVKRRPDLRLIVTSATLDAEK---FSGYFFN---------CNIFTIPG----RT------ 699 (1176)
Q Consensus 643 DEaHeR~~~~d~-ll~llk~~~~~r~~~kvIlmSATl~~~~---~~~~f~~---------~~v~~i~g----r~------ 699 (1176)
||+|-.+..+.. +..+|+.+.. ...++|+||||++... +..-+.. .|.++..+ ..
T Consensus 446 DEVHAyD~ym~~lL~~~L~~l~~--~g~~vIllSATLP~~~r~~L~~a~~~~~~~~~~~~YPlvt~~~~~~~~~~~~~~~ 523 (878)
T PRK09694 446 DEVHAYDAYMYGLLEAVLKAQAQ--AGGSVILLSATLPATLKQKLLDTYGGHDPVELSSAYPLITWRGVNGAQRFDLSAH 523 (878)
T ss_pred echhhCCHHHHHHHHHHHHHHHh--cCCcEEEEeCCCCHHHHHHHHHHhccccccccccccccccccccccceeeecccc
Confidence 999976665543 3334443322 3678999999998533 3332222 12221111 00
Q ss_pred -------eeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecC
Q 001046 700 -------FPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYS 772 (1176)
Q Consensus 700 -------~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs 772 (1176)
..+.+.........-....+..++.. ...++++||||||++.+..+++.|.+.. .+...+..+||
T Consensus 524 ~~~~~~~~~v~v~~~~~~~~~~~~~~l~~i~~~--~~~g~~vLVf~NTV~~Aq~ly~~L~~~~------~~~~~v~llHs 595 (878)
T PRK09694 524 PEQLPARFTIQLEPICLADMLPDLTLLQRMIAA--ANAGAQVCLICNLVDDAQKLYQRLKELN------NTQVDIDLFHA 595 (878)
T ss_pred ccccCcceEEEEEeeccccccCHHHHHHHHHHH--HhcCCEEEEEECCHHHHHHHHHHHHhhC------CCCceEEEEeC
Confidence 11111111000000112222333222 2356799999999999999999987531 12456889999
Q ss_pred CCCHHHHH----hhcCCC-CCCC---ceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHH
Q 001046 773 ALPSEMQS----RIFDPA-PPGK---RKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQ 844 (1176)
Q Consensus 773 ~l~~~~r~----~i~~~f-~~g~---~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~Q 844 (1176)
.++..+|. ++++.| ++|. .+|||||+|+|.||||+ +++||..-. | .++++|
T Consensus 596 rf~~~dR~~~E~~vl~~fgk~g~r~~~~ILVaTQViE~GLDId-~DvlItdla------------------P--idsLiQ 654 (878)
T PRK09694 596 RFTLNDRREKEQRVIENFGKNGKRNQGRILVATQVVEQSLDLD-FDWLITQLC------------------P--VDLLFQ 654 (878)
T ss_pred CCCHHHHHHHHHHHHHHHHhcCCcCCCeEEEECcchhheeecC-CCeEEECCC------------------C--HHHHHH
Confidence 99999984 566677 5565 47999999999999995 788884333 5 579999
Q ss_pred HhcccCCCC
Q 001046 845 RAGRAGRTG 853 (1176)
Q Consensus 845 R~GRAGR~g 853 (1176)
|+||+||.+
T Consensus 655 RaGR~~R~~ 663 (878)
T PRK09694 655 RLGRLHRHH 663 (878)
T ss_pred HHhccCCCC
Confidence 999999987
No 90
>PRK05580 primosome assembly protein PriA; Validated
Probab=99.90 E-value=7.1e-23 Score=255.98 Aligned_cols=314 Identities=18% Similarity=0.224 Sum_probs=203.1
Q ss_pred CCchHHHHHHHHHHHc---CCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCe
Q 001046 523 LPIYKLKKELIQAVHD---NQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEE 599 (1176)
Q Consensus 523 LPi~~~q~~ii~ai~~---~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~ 599 (1176)
..+++.|.++++.+.+ ++++++.|+||||||.++..++.+. +..++++++++|+++|+.|+.+++.+.+|..+...
T Consensus 143 ~~Lt~~Q~~ai~~i~~~~~~~~~Ll~~~TGSGKT~v~l~~i~~~-l~~g~~vLvLvPt~~L~~Q~~~~l~~~fg~~v~~~ 221 (679)
T PRK05580 143 PTLNPEQAAAVEAIRAAAGFSPFLLDGVTGSGKTEVYLQAIAEV-LAQGKQALVLVPEIALTPQMLARFRARFGAPVAVL 221 (679)
T ss_pred CCCCHHHHHHHHHHHhccCCCcEEEECCCCChHHHHHHHHHHHH-HHcCCeEEEEeCcHHHHHHHHHHHHHHhCCCEEEE
Confidence 3567889999999987 4789999999999999988776654 34467899999999999999999988887544333
Q ss_pred eEEEeecc------cccCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHH----HHHHHHHHhhCCCc
Q 001046 600 VGYAIRFE------DCTGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVL----FGLLKQLVKRRPDL 669 (1176)
Q Consensus 600 vGy~ir~~------~~~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~l----l~llk~~~~~r~~~ 669 (1176)
.|.....+ .......+|+++|++.+. ..+.++++|||||+|+-+...+.- ..-+........+.
T Consensus 222 ~s~~s~~~r~~~~~~~~~g~~~IVVgTrsal~------~p~~~l~liVvDEeh~~s~~~~~~p~y~~r~va~~ra~~~~~ 295 (679)
T PRK05580 222 HSGLSDGERLDEWRKAKRGEAKVVIGARSALF------LPFKNLGLIIVDEEHDSSYKQQEGPRYHARDLAVVRAKLENI 295 (679)
T ss_pred ECCCCHHHHHHHHHHHHcCCCCEEEeccHHhc------ccccCCCEEEEECCCccccccCcCCCCcHHHHHHHHhhccCC
Confidence 32111100 112345789999998763 247889999999999644332210 01111222345689
Q ss_pred cEEEEcCCCCHHHHHhhhc-CCCeEecCCce----ee-eEEEEecCC----CchhHHHHHHHHHHHHhcCCCCCEEEEeC
Q 001046 670 RLIVTSATLDAEKFSGYFF-NCNIFTIPGRT----FP-VEILYTKQP----ESDYLDASLITVLQIHLTEPEGDILLFLT 739 (1176)
Q Consensus 670 kvIlmSATl~~~~~~~~f~-~~~v~~i~gr~----~p-v~~~~~~~~----~~~~~~~~l~~v~~i~~~~~~g~iLVFl~ 739 (1176)
++|++|||+..+.+..... ....+.++.+. .| +.+.-.... ....+...+...+.-. ...+.++|||+|
T Consensus 296 ~~il~SATps~~s~~~~~~g~~~~~~l~~r~~~~~~p~v~~id~~~~~~~~~~~~ls~~l~~~i~~~-l~~g~qvll~~n 374 (679)
T PRK05580 296 PVVLGSATPSLESLANAQQGRYRLLRLTKRAGGARLPEVEIIDMRELLRGENGSFLSPPLLEAIKQR-LERGEQVLLFLN 374 (679)
T ss_pred CEEEEcCCCCHHHHHHHhccceeEEEeccccccCCCCeEEEEechhhhhhcccCCCCHHHHHHHHHH-HHcCCeEEEEEc
Confidence 9999999998887765432 23334444332 22 222211110 0011222222222211 133558888888
Q ss_pred CHH------------------------------------------------------------HHHHHHHHHHHHHhccC
Q 001046 740 GQE------------------------------------------------------------EIDFACQSLYERMKGLG 759 (1176)
Q Consensus 740 ~~~------------------------------------------------------------ei~~l~~~L~~~~~~l~ 759 (1176)
.+. .++.+++.|.+
T Consensus 375 rrGy~~~~~C~~Cg~~~~C~~C~~~l~~h~~~~~l~Ch~Cg~~~~~~~~Cp~Cg~~~l~~~g~G~e~~~e~l~~------ 448 (679)
T PRK05580 375 RRGYAPFLLCRDCGWVAECPHCDASLTLHRFQRRLRCHHCGYQEPIPKACPECGSTDLVPVGPGTERLEEELAE------ 448 (679)
T ss_pred CCCCCCceEhhhCcCccCCCCCCCceeEECCCCeEECCCCcCCCCCCCCCCCCcCCeeEEeeccHHHHHHHHHH------
Confidence 532 22333333333
Q ss_pred CCCCCeEEEEecCCCCH--HHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEE--eCCcccceeccCCCCCcccccc
Q 001046 760 KNVPELIILPVYSALPS--EMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVI--DPGFAKQNVYNPKQGLDSLVIT 835 (1176)
Q Consensus 760 ~~~~~~~v~~lhs~l~~--~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VI--d~g~~k~~~yd~~~g~~~l~~~ 835 (1176)
..|+..+..+|+++.. ++++++++.|++|+..|||+|+++++|+|+|+|++|+ |.+. ......+...
T Consensus 449 -~fp~~~v~~~~~d~~~~~~~~~~~l~~f~~g~~~ILVgT~~iakG~d~p~v~lV~il~aD~--------~l~~pdfra~ 519 (679)
T PRK05580 449 -LFPEARILRIDRDTTRRKGALEQLLAQFARGEADILIGTQMLAKGHDFPNVTLVGVLDADL--------GLFSPDFRAS 519 (679)
T ss_pred -hCCCCcEEEEeccccccchhHHHHHHHHhcCCCCEEEEChhhccCCCCCCcCEEEEEcCch--------hccCCccchH
Confidence 2356788999999874 6788999999999999999999999999999999995 4443 0111111111
Q ss_pred ccCHHHHHHHhcccCCCC-CcEEEE
Q 001046 836 PISQASAKQRAGRAGRTG-PGKCYR 859 (1176)
Q Consensus 836 p~S~as~~QR~GRAGR~g-~G~c~~ 859 (1176)
-.....+.|++|||||.+ +|.|+.
T Consensus 520 Er~~~~l~q~~GRagR~~~~g~vii 544 (679)
T PRK05580 520 ERTFQLLTQVAGRAGRAEKPGEVLI 544 (679)
T ss_pred HHHHHHHHHHHhhccCCCCCCEEEE
Confidence 234578999999999977 798884
No 91
>TIGR01054 rgy reverse gyrase. Generally, these gyrases are encoded as a single polypeptide. An exception was found in Methanopyrus kandleri, where enzyme is split within the topoisomerase domain, yielding a heterodimer of gene products designated RgyB and RgyA.
Probab=99.90 E-value=2.6e-22 Score=261.03 Aligned_cols=275 Identities=16% Similarity=0.168 Sum_probs=178.1
Q ss_pred CCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCe---
Q 001046 523 LPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEE--- 599 (1176)
Q Consensus 523 LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~--- 599 (1176)
...+++|...++.+..|++++++||||||||+.+ ++++......+.+++++.|||+||.|++..+.... ...|..
T Consensus 77 ~~p~~iQ~~~i~~il~G~d~vi~ApTGsGKT~f~-l~~~~~l~~~g~~vLIL~PTreLa~Qi~~~l~~l~-~~~~i~~~~ 154 (1171)
T TIGR01054 77 SEPWSIQKMWAKRVLRGDSFAIIAPTGVGKTTFG-LAMSLFLAKKGKRCYIILPTTLLVIQVAEKISSLA-EKAGVGTVN 154 (1171)
T ss_pred CCCcHHHHHHHHHHhCCCeEEEECCCCCCHHHHH-HHHHHHHHhcCCeEEEEeCHHHHHHHHHHHHHHHH-HhcCCceee
Confidence 4567889999999999999999999999999743 33333323346789999999999999998776543 222211
Q ss_pred eEEEeecc----------cccCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCc----h-----------hH
Q 001046 600 VGYAIRFE----------DCTGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIH----T-----------DV 654 (1176)
Q Consensus 600 vGy~ir~~----------~~~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~----~-----------d~ 654 (1176)
+|+..... .......+|+++|||.|.+.+..-. .++++|||||||. .+. . +.
T Consensus 155 i~~~~Gg~~~~e~~~~~~~l~~~~~dIlV~Tp~rL~~~~~~l~--~~~~~iVvDEaD~-~L~~~k~vd~il~llGF~~e~ 231 (1171)
T TIGR01054 155 IGAYHSRLPTKEKKEFMERIENGDFDILITTTMFLSKNYDELG--PKFDFIFVDDVDA-LLKASKNVDKLLKLLGFSEEL 231 (1171)
T ss_pred eeeecCCCCHHHHHHHHHHHhcCCCCEEEECHHHHHHHHHHhc--CCCCEEEEeChHh-hhhccccHHHHHHHcCCCHHH
Confidence 22111110 0112347899999999988765422 1899999999993 222 1 11
Q ss_pred HHHHHHH------------------HHh-hCCCcc--EEEEcCCCCHHHHH-hhhcCCCeEecCCce---eeeEEEEecC
Q 001046 655 LFGLLKQ------------------LVK-RRPDLR--LIVTSATLDAEKFS-GYFFNCNIFTIPGRT---FPVEILYTKQ 709 (1176)
Q Consensus 655 ll~llk~------------------~~~-~r~~~k--vIlmSATl~~~~~~-~~f~~~~v~~i~gr~---~pv~~~~~~~ 709 (1176)
+-.++.. ++. .....+ ++++|||+.+.... .+|...-.+.+.... ..+...|...
T Consensus 232 i~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~li~~SAT~~p~~~~~~l~r~ll~~~v~~~~~~~r~I~~~~~~~ 311 (1171)
T TIGR01054 232 IEKAWKLIRLRLKLYRALHAKKRLELLEAIPGKKRGCLIVSSATGRPRGKRAKLFRELLGFEVGGGSDTLRNVVDVYVED 311 (1171)
T ss_pred HHHHHHHhhhccccchHHHHHHHHHHHHhhhhccCcEEEEEeCCCCccccHHHHcccccceEecCccccccceEEEEEec
Confidence 1111100 111 112333 67789995322222 222222223333222 2344444432
Q ss_pred CCchhHHHHHHHHHHHHhcCCCCCEEEEeCCH---HHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCC
Q 001046 710 PESDYLDASLITVLQIHLTEPEGDILLFLTGQ---EEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPA 786 (1176)
Q Consensus 710 ~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~---~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f 786 (1176)
.. .. ..+..++. . -+..+||||++. +.++.++..|.+ .++.+..+||+++. .+++.|
T Consensus 312 ~~--~~-~~L~~ll~---~-l~~~~IVFv~t~~~~~~a~~l~~~L~~---------~g~~a~~lhg~~~~----~~l~~F 371 (1171)
T TIGR01054 312 ED--LK-ETLLEIVK---K-LGTGGIVYVSIDYGKEKAEEIAEFLEN---------HGVKAVAYHATKPK----EDYEKF 371 (1171)
T ss_pred cc--HH-HHHHHHHH---H-cCCCEEEEEeccccHHHHHHHHHHHHh---------CCceEEEEeCCCCH----HHHHHH
Confidence 21 11 12222222 1 235789999998 899999888865 36889999999973 678999
Q ss_pred CCCCceEEEE----cchhhhccCCCC-eeEEEeCCccccee
Q 001046 787 PPGKRKVVVA----TNIAEASLTIDG-IFYVIDPGFAKQNV 822 (1176)
Q Consensus 787 ~~g~~kVlVA----Tniae~GIdIp~-V~~VId~g~~k~~~ 822 (1176)
++|+.+|||| |++|++|||||+ |+|||++|+.+.++
T Consensus 372 r~G~~~vLVata~~tdv~aRGIDip~~V~~vI~~~~P~~~~ 412 (1171)
T TIGR01054 372 AEGEIDVLIGVASYYGTLVRGLDLPERVRYAVFLGVPKFKV 412 (1171)
T ss_pred HcCCCCEEEEeccccCcccccCCCCccccEEEEECCCCEEE
Confidence 9999999999 599999999999 89999999987643
No 92
>TIGR00963 secA preprotein translocase, SecA subunit. The proteins SecA-F and SecY, not all of which are necessary, comprise the standard prokaryotic protein translocation apparatus. Other, specialized translocation systems also exist but are not as broadly distributed. This model describes SecA, an essential member of the apparatus.
Probab=99.89 E-value=2.4e-22 Score=244.69 Aligned_cols=308 Identities=20% Similarity=0.213 Sum_probs=201.5
Q ss_pred cCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeE
Q 001046 522 SLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVG 601 (1176)
Q Consensus 522 ~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vG 601 (1176)
.|-++++..|++-.+.-++..|..++||+|||.++.++++-..+. +..+.|+.|++.||.|.++.+...+ ..+|..||
T Consensus 52 ~lg~~p~~vQlig~~~l~~G~Iaem~TGeGKTLva~lpa~l~aL~-G~~V~VvTpt~~LA~qdae~~~~l~-~~LGLsv~ 129 (745)
T TIGR00963 52 VLGMRPFDVQLIGGIALHKGKIAEMKTGEGKTLTATLPAYLNALT-GKGVHVVTVNDYLAQRDAEWMGQVY-RFLGLSVG 129 (745)
T ss_pred HhCCCccchHHhhhhhhcCCceeeecCCCccHHHHHHHHHHHHHh-CCCEEEEcCCHHHHHHHHHHHHHHh-ccCCCeEE
Confidence 344444444555554444444999999999999988887544343 4469999999999999998765544 55677777
Q ss_pred EEeeccc----ccCCCceEEEeChHHH-HHHHhhC-------CCCCCCceEEEcCCCc------CC--------CchhHH
Q 001046 602 YAIRFED----CTGPDTVIKYMTDGML-LREILID-------DNLSQYSVIMLDEAHE------RT--------IHTDVL 655 (1176)
Q Consensus 602 y~ir~~~----~~~~~t~I~~~T~g~L-lr~l~~~-------~~L~~~s~IIiDEaHe------R~--------~~~d~l 655 (1176)
..+...+ .....++|+|+|++.| ++.+... -.++.+.++||||||. |+ ...+.+
T Consensus 130 ~i~g~~~~~~r~~~y~~dIvyGT~~rlgfDyLrd~~~~~~~~~~~r~l~~aIIDEaDs~LIDeaRtpLiisg~~~~~~~l 209 (745)
T TIGR00963 130 LILSGMSPEERREAYACDITYGTNNELGFDYLRDNMAHSKEEKVQRPFHFAIIDEVDSILIDEARTPLIISGPAEKSTEL 209 (745)
T ss_pred EEeCCCCHHHHHHhcCCCEEEECCCchhhHHHhcccccchhhhhccccceeEeecHHHHhHHhhhhHHhhcCCCCCchHH
Confidence 6544322 1123578999999998 5555433 2578899999999992 11 001111
Q ss_pred HHHHHHHHhh-CC--------C----------------------------------------------------------
Q 001046 656 FGLLKQLVKR-RP--------D---------------------------------------------------------- 668 (1176)
Q Consensus 656 l~llk~~~~~-r~--------~---------------------------------------------------------- 668 (1176)
......+... .. .
T Consensus 210 y~~a~~i~r~L~~~~dy~~de~~k~v~Lt~~G~~~~e~~~~~~~ly~~~~~~~~~~i~~Al~A~~l~~~d~dYiV~d~~V 289 (745)
T TIGR00963 210 YLQANRFAKALEKEVHYEVDEKNRAVLLTEKGIKKAEDLLGVDNLYDLENSPLIHYINNALKAKELFEKDVDYIVRDGEV 289 (745)
T ss_pred HHHHHHHHHhhccCCCeEEecCCCceeECHHHHHHHHHHcCCccccChhhhHHHHHHHHHHHHHHHHhcCCcEEEECCEE
Confidence 1111111110 00 0
Q ss_pred ---------------------------------------------------ccEEEEcCCCC--HHHHHhhhcCCCeEec
Q 001046 669 ---------------------------------------------------LRLIVTSATLD--AEKFSGYFFNCNIFTI 695 (1176)
Q Consensus 669 ---------------------------------------------------~kvIlmSATl~--~~~~~~~f~~~~v~~i 695 (1176)
.++.+||.|.. .+.|.+.+ +.+++.|
T Consensus 290 ~ivD~~TGR~~~gr~ws~GLhQaiEaKE~v~i~~e~~t~a~It~qn~Fr~Y~kl~GmTGTa~te~~E~~~iY-~l~vv~I 368 (745)
T TIGR00963 290 VIVDEFTGRIMEGRRWSDGLHQAIEAKEGVEIQNENQTLATITYQNFFRLYEKLSGMTGTAKTEEEEFEKIY-NLEVVVV 368 (745)
T ss_pred EEEECCCCcCCCCCccchHHHHHHHHhcCCCcCCCceeeeeeeHHHHHhhCchhhccCCCcHHHHHHHHHHh-CCCEEEe
Confidence 12233333331 11122211 2233444
Q ss_pred CCceeeeE------EEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEE
Q 001046 696 PGRTFPVE------ILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILP 769 (1176)
Q Consensus 696 ~gr~~pv~------~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~ 769 (1176)
|... |+. ..|.. ..+...+.+..+...| ..+.++||||++.+.++.++..|.+. ++....
T Consensus 369 Ptnk-p~~R~d~~d~i~~t--~~~k~~ai~~~i~~~~--~~grpvLV~t~si~~se~ls~~L~~~---------gi~~~~ 434 (745)
T TIGR00963 369 PTNR-PVIRKDLSDLVYKT--EEEKWKAVVDEIKERH--AKGQPVLVGTTSVEKSELLSNLLKER---------GIPHNV 434 (745)
T ss_pred CCCC-CeeeeeCCCeEEcC--HHHHHHHHHHHHHHHH--hcCCCEEEEeCcHHHHHHHHHHHHHc---------CCCeEE
Confidence 4321 111 11111 1122333444444444 45789999999999999999999763 566778
Q ss_pred ecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCC-------eeEEEeCCcccceeccCCCCCccccccccCHHHH
Q 001046 770 VYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDG-------IFYVIDPGFAKQNVYNPKQGLDSLVITPISQASA 842 (1176)
Q Consensus 770 lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~-------V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~ 842 (1176)
+|+. +.+|...+..|..+...|+||||+|+||+||+. ..+||++.+ |.|...+
T Consensus 435 Lna~--q~~rEa~ii~~ag~~g~VtIATnmAgRGtDI~l~~V~~~GGl~VI~t~~------------------p~s~ri~ 494 (745)
T TIGR00963 435 LNAK--NHEREAEIIAQAGRKGAVTIATNMAGRGTDIKLEEVKELGGLYVIGTER------------------HESRRID 494 (745)
T ss_pred eeCC--hHHHHHHHHHhcCCCceEEEEeccccCCcCCCccchhhcCCcEEEecCC------------------CCcHHHH
Confidence 8998 778888888899999999999999999999998 559999998 9999999
Q ss_pred HHHhcccCCCC-CcEEEEecChHHH
Q 001046 843 KQRAGRAGRTG-PGKCYRLYTESAY 866 (1176)
Q Consensus 843 ~QR~GRAGR~g-~G~c~~L~t~~~~ 866 (1176)
.||+|||||.| ||.+..+.+.++.
T Consensus 495 ~q~~GRtGRqG~~G~s~~~ls~eD~ 519 (745)
T TIGR00963 495 NQLRGRSGRQGDPGSSRFFLSLEDN 519 (745)
T ss_pred HHHhccccCCCCCcceEEEEeccHH
Confidence 99999999999 8999999887754
No 93
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.89 E-value=2.6e-22 Score=242.67 Aligned_cols=293 Identities=18% Similarity=0.234 Sum_probs=186.3
Q ss_pred EEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEee------cccccCCCceE
Q 001046 543 VVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIR------FEDCTGPDTVI 616 (1176)
Q Consensus 543 Iv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir------~~~~~~~~t~I 616 (1176)
++.|+||||||.++..++... +..+++++++.|+++|+.|+++++.+.+|..+....+..-. +.........|
T Consensus 1 LL~g~TGsGKT~v~l~~i~~~-l~~g~~vLvlvP~i~L~~Q~~~~l~~~f~~~v~vlhs~~~~~er~~~~~~~~~g~~~I 79 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKV-LALGKSVLVLVPEIALTPQMIQRFKYRFGSQVAVLHSGLSDSEKLQAWRKVKNGEILV 79 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHH-HHcCCeEEEEeCcHHHHHHHHHHHHHHhCCcEEEEECCCCHHHHHHHHHHHHcCCCCE
Confidence 478999999999887766554 45567899999999999999999988876543222111000 00112245789
Q ss_pred EEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHH----HHHHHHHhhCCCccEEEEcCCCCHHHHHhhhcCC-C
Q 001046 617 KYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLF----GLLKQLVKRRPDLRLIVTSATLDAEKFSGYFFNC-N 691 (1176)
Q Consensus 617 ~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll----~llk~~~~~r~~~kvIlmSATl~~~~~~~~f~~~-~ 691 (1176)
+++|...+. ..+.++++|||||+|+-+...+-.. .-+........+.++|++|||+..+.+.....+. .
T Consensus 80 VVGTrsalf------~p~~~l~lIIVDEeh~~sykq~~~p~y~ar~~a~~ra~~~~~~vil~SATPsles~~~~~~g~~~ 153 (505)
T TIGR00595 80 VIGTRSALF------LPFKNLGLIIVDEEHDSSYKQEEGPRYHARDVAVYRAKKFNCPVVLGSATPSLESYHNAKQKAYR 153 (505)
T ss_pred EECChHHHc------CcccCCCEEEEECCCccccccccCCCCcHHHHHHHHHHhcCCCEEEEeCCCCHHHHHHHhcCCeE
Confidence 999988663 2378899999999996443332111 0112223345689999999999888777654332 2
Q ss_pred eEecCC----ceee-eEEEEecC-CCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHH----------------------
Q 001046 692 IFTIPG----RTFP-VEILYTKQ-PESDYLDASLITVLQIHLTEPEGDILLFLTGQEE---------------------- 743 (1176)
Q Consensus 692 v~~i~g----r~~p-v~~~~~~~-~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~e---------------------- 743 (1176)
.+.++. ...| +++.-... .....+...+...+.- ....++++|||+|++.-
T Consensus 154 ~~~l~~r~~~~~~p~v~vid~~~~~~~~~ls~~l~~~i~~-~l~~g~qvLvflnrrGya~~~~C~~Cg~~~~C~~C~~~l 232 (505)
T TIGR00595 154 LLVLTRRVSGRKPPEVKLIDMRKEPRQSFLSPELITAIEQ-TLAAGEQSILFLNRRGYSKNLLCRSCGYILCCPNCDVSL 232 (505)
T ss_pred EeechhhhcCCCCCeEEEEecccccccCCccHHHHHHHHH-HHHcCCcEEEEEeCCcCCCeeEhhhCcCccCCCCCCCce
Confidence 333322 2222 22221111 1111222222222221 12345789999887653
Q ss_pred --------------------------------------HHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHH--Hhhc
Q 001046 744 --------------------------------------IDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQ--SRIF 783 (1176)
Q Consensus 744 --------------------------------------i~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r--~~i~ 783 (1176)
++.+.+.|.+ ..|+..+..+|++++...+ ..++
T Consensus 233 ~~h~~~~~l~Ch~Cg~~~~~~~~Cp~C~s~~l~~~g~Gte~~~e~l~~-------~fp~~~v~~~d~d~~~~~~~~~~~l 305 (505)
T TIGR00595 233 TYHKKEGKLRCHYCGYQEPIPKTCPQCGSEDLVYKGYGTEQVEEELAK-------LFPGARIARIDSDTTSRKGAHEALL 305 (505)
T ss_pred EEecCCCeEEcCCCcCcCCCCCCCCCCCCCeeEeecccHHHHHHHHHh-------hCCCCcEEEEecccccCccHHHHHH
Confidence 2344444443 2367789999999987655 7899
Q ss_pred CCCCCCCceEEEEcchhhhccCCCCeeEEE--eCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC-CcEEE
Q 001046 784 DPAPPGKRKVVVATNIAEASLTIDGIFYVI--DPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCY 858 (1176)
Q Consensus 784 ~~f~~g~~kVlVATniae~GIdIp~V~~VI--d~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~ 858 (1176)
+.|.+|+.+|||+|++++.|+|+|+|++|+ |.+. ......+...-.....+.|++|||||.+ +|.++
T Consensus 306 ~~f~~g~~~ILVgT~~i~kG~d~~~v~lV~vl~aD~--------~l~~pd~ra~E~~~~ll~q~~GRagR~~~~g~vi 375 (505)
T TIGR00595 306 NQFANGKADILIGTQMIAKGHHFPNVTLVGVLDADS--------GLHSPDFRAAERGFQLLTQVAGRAGRAEDPGQVI 375 (505)
T ss_pred HHHhcCCCCEEEeCcccccCCCCCcccEEEEEcCcc--------cccCcccchHHHHHHHHHHHHhccCCCCCCCEEE
Confidence 999999999999999999999999999885 4443 1111111111234578999999999987 78887
No 94
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=99.89 E-value=2.9e-21 Score=209.39 Aligned_cols=290 Identities=20% Similarity=0.292 Sum_probs=206.9
Q ss_pred HHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhC-CccCCeeEEEeecc
Q 001046 529 KKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFG-CRLGEEVGYAIRFE 607 (1176)
Q Consensus 529 q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g-~~~G~~vGy~ir~~ 607 (1176)
-.++++.+.+.++.+|.|-||+|||..+.+.+.. .+..+++|.+..||.-.+.+++.|+.+.+. +.+....| +
T Consensus 106 s~~l~q~i~~k~~~lv~AV~GaGKTEMif~~i~~-al~~G~~vciASPRvDVclEl~~Rlk~aF~~~~I~~Lyg-----~ 179 (441)
T COG4098 106 SNQLVQYIKQKEDTLVWAVTGAGKTEMIFQGIEQ-ALNQGGRVCIASPRVDVCLELYPRLKQAFSNCDIDLLYG-----D 179 (441)
T ss_pred HHHHHHHHHhcCcEEEEEecCCCchhhhHHHHHH-HHhcCCeEEEecCcccchHHHHHHHHHhhccCCeeeEec-----C
Confidence 3456777889999999999999999877776554 356688999999999999999999988774 54432222 3
Q ss_pred cccCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHH-HHHHHhhCCCccEEEEcCCCCHHHHHhh
Q 001046 608 DCTGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGL-LKQLVKRRPDLRLIVTSATLDAEKFSGY 686 (1176)
Q Consensus 608 ~~~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~l-lk~~~~~r~~~kvIlmSATl~~~~~~~~ 686 (1176)
+..--.+.++++|+..|++.- ..++++||||++--.+..|-.+.. ++.. +.+.--+|.||||...+...+.
T Consensus 180 S~~~fr~plvVaTtHQLlrFk------~aFD~liIDEVDAFP~~~d~~L~~Av~~a--rk~~g~~IylTATp~k~l~r~~ 251 (441)
T COG4098 180 SDSYFRAPLVVATTHQLLRFK------QAFDLLIIDEVDAFPFSDDQSLQYAVKKA--RKKEGATIYLTATPTKKLERKI 251 (441)
T ss_pred CchhccccEEEEehHHHHHHH------hhccEEEEeccccccccCCHHHHHHHHHh--hcccCceEEEecCChHHHHHHh
Confidence 332334889999999999875 458999999999877777755444 2322 3345678999999875544444
Q ss_pred hc-CCCeEecCCce----eeeEEEEecCCCchhH-----HHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHh
Q 001046 687 FF-NCNIFTIPGRT----FPVEILYTKQPESDYL-----DASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYERMK 756 (1176)
Q Consensus 687 f~-~~~v~~i~gr~----~pv~~~~~~~~~~~~~-----~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~ 756 (1176)
.. +...+.+|.|. .|+--+....+....+ ...+...++-+. ..+.++|||+|+.+..+.++..|.+.+
T Consensus 252 ~~g~~~~~klp~RfH~~pLpvPkf~w~~~~~k~l~r~kl~~kl~~~lekq~-~~~~P~liF~p~I~~~eq~a~~lk~~~- 329 (441)
T COG4098 252 LKGNLRILKLPARFHGKPLPVPKFVWIGNWNKKLQRNKLPLKLKRWLEKQR-KTGRPVLIFFPEIETMEQVAAALKKKL- 329 (441)
T ss_pred hhCCeeEeecchhhcCCCCCCCceEEeccHHHHhhhccCCHHHHHHHHHHH-hcCCcEEEEecchHHHHHHHHHHHhhC-
Confidence 32 23346666543 3443332222222222 223444444332 346799999999999999999997643
Q ss_pred ccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCccccccc
Q 001046 757 GLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITP 836 (1176)
Q Consensus 757 ~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p 836 (1176)
+...+..+||.- ..|.+..+.|++|+.++||+|.|+|+|+|+|+|+++| .++.. .-
T Consensus 330 ------~~~~i~~Vhs~d--~~R~EkV~~fR~G~~~lLiTTTILERGVTfp~vdV~V---------lgaeh-------~v 385 (441)
T COG4098 330 ------PKETIASVHSED--QHRKEKVEAFRDGKITLLITTTILERGVTFPNVDVFV---------LGAEH-------RV 385 (441)
T ss_pred ------CccceeeeeccC--ccHHHHHHHHHcCceEEEEEeehhhcccccccceEEE---------ecCCc-------cc
Confidence 566778888874 4577778899999999999999999999999999887 11111 13
Q ss_pred cCHHHHHHHhcccCCCC--C-cEEE
Q 001046 837 ISQASAKQRAGRAGRTG--P-GKCY 858 (1176)
Q Consensus 837 ~S~as~~QR~GRAGR~g--~-G~c~ 858 (1176)
.+.++.+|.+||+||.- | |..+
T Consensus 386 fTesaLVQIaGRvGRs~~~PtGdv~ 410 (441)
T COG4098 386 FTESALVQIAGRVGRSLERPTGDVL 410 (441)
T ss_pred ccHHHHHHHhhhccCCCcCCCCcEE
Confidence 68899999999999986 3 6533
No 95
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=99.87 E-value=2.7e-20 Score=240.74 Aligned_cols=316 Identities=19% Similarity=0.245 Sum_probs=203.1
Q ss_pred CCchHHHHHHHHHHH----c-CCeEEEEcCCCCcHHHHHHHHHHHhc-ccCCCEEEEeccHHHHHHHHHHHHHHHhCCcc
Q 001046 523 LPIYKLKKELIQAVH----D-NQVLVVIGETGSGKTTQVTQYLAEAG-YTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRL 596 (1176)
Q Consensus 523 LPi~~~q~~ii~ai~----~-~~~vIv~apTGSGKTt~~~~~lle~~-~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~ 596 (1176)
+.++++|.++++++. . .+.++|+++||||||..+...+.... ....++|++++||++|+.|....+... +...
T Consensus 412 ~~lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai~li~~L~~~~~~~rVLfLvDR~~L~~Qa~~~F~~~-~~~~ 490 (1123)
T PRK11448 412 LGLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAIALMYRLLKAKRFRRILFLVDRSALGEQAEDAFKDT-KIEG 490 (1123)
T ss_pred CCCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHHHHHHHHHhcCccCeEEEEecHHHHHHHHHHHHHhc-cccc
Confidence 457889999988774 2 46789999999999976555444321 122358999999999999999876543 2221
Q ss_pred CCeeE--EEee--cccccCCCceEEEeChHHHHHHHhhC------CCCCCCceEEEcCCCcCCCchhH------------
Q 001046 597 GEEVG--YAIR--FEDCTGPDTVIKYMTDGMLLREILID------DNLSQYSVIMLDEAHERTIHTDV------------ 654 (1176)
Q Consensus 597 G~~vG--y~ir--~~~~~~~~t~I~~~T~g~Llr~l~~~------~~L~~~s~IIiDEaHeR~~~~d~------------ 654 (1176)
+..+. |.+. .+........|+|+|...|.+.+... +.+..+++||+|||| |+...|-
T Consensus 491 ~~~~~~i~~i~~L~~~~~~~~~~I~iaTiQtl~~~~~~~~~~~~~~~~~~fdlIIiDEaH-Rs~~~d~~~~~~~~~~~~~ 569 (1123)
T PRK11448 491 DQTFASIYDIKGLEDKFPEDETKVHVATVQGMVKRILYSDDPMDKPPVDQYDCIIVDEAH-RGYTLDKEMSEGELQFRDQ 569 (1123)
T ss_pred ccchhhhhchhhhhhhcccCCCCEEEEEHHHHHHhhhccccccccCCCCcccEEEEECCC-CCCccccccccchhccchh
Confidence 11110 1111 11122346899999999887765421 357889999999999 7653211
Q ss_pred --HHHHHHHHHhhCCCccEEEEcCCCCHHHHHhhhcCCCeEecC-------Ccee----eeEEE---------EecCC--
Q 001046 655 --LFGLLKQLVKRRPDLRLIVTSATLDAEKFSGYFFNCNIFTIP-------GRTF----PVEIL---------YTKQP-- 710 (1176)
Q Consensus 655 --ll~llk~~~~~r~~~kvIlmSATl~~~~~~~~f~~~~v~~i~-------gr~~----pv~~~---------~~~~~-- 710 (1176)
.....+.++.. .+..+|+||||+... ...+|+ .|++... |-.. |+.+. |....
T Consensus 570 ~~~~~~yr~iL~y-FdA~~IGLTATP~r~-t~~~FG-~pv~~Ysl~eAI~DG~Lv~~~~p~~i~t~~~~~gi~~~~~e~~ 646 (1123)
T PRK11448 570 LDYVSKYRRVLDY-FDAVKIGLTATPALH-TTEIFG-EPVYTYSYREAVIDGYLIDHEPPIRIETRLSQEGIHFEKGEEV 646 (1123)
T ss_pred hhHHHHHHHHHhh-cCccEEEEecCCccc-hhHHhC-CeeEEeeHHHHHhcCCcccCcCCEEEEEEeccccccccccchh
Confidence 12344555553 367899999999632 344554 3443211 2221 11111 00000
Q ss_pred ----------C----c---hhHH--------------HHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccC
Q 001046 711 ----------E----S---DYLD--------------ASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGLG 759 (1176)
Q Consensus 711 ----------~----~---~~~~--------------~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~ 759 (1176)
. . .|.. ..+..++.......++++||||.+.++++.+++.|.+.+....
T Consensus 647 ~~~~~~~~~i~~~~l~d~~~~~~~~~~~~vi~~~~~~~i~~~l~~~l~~~~~~KtiIF~~s~~HA~~i~~~L~~~f~~~~ 726 (1123)
T PRK11448 647 EVINTQTGEIDLATLEDEVDFEVEDFNRRVITESFNRVVCEELAKYLDPTGEGKTLIFAATDAHADMVVRLLKEAFKKKY 726 (1123)
T ss_pred hhcchhhhhhhhccCcHHHhhhHHHHHHHHhhHHHHHHHHHHHHHHHhccCCCcEEEEEcCHHHHHHHHHHHHHHHHhhc
Confidence 0 0 0000 0111122222223358999999999999999999887664432
Q ss_pred CCCCCeEEEEecCCCCHHHHHhhcCCCCCCCc-eEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccC
Q 001046 760 KNVPELIILPVYSALPSEMQSRIFDPAPPGKR-KVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPIS 838 (1176)
Q Consensus 760 ~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~-kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S 838 (1176)
.......+..+||+.+ ++..+++.|+++.. +|+|+++++.+|+|+|.|.+||-... +.|
T Consensus 727 ~~~~~~~v~~itg~~~--~~~~li~~Fk~~~~p~IlVsvdmL~TG~DvP~v~~vVf~rp------------------vkS 786 (1123)
T PRK11448 727 GQVEDDAVIKITGSID--KPDQLIRRFKNERLPNIVVTVDLLTTGIDVPSICNLVFLRR------------------VRS 786 (1123)
T ss_pred CCcCccceEEEeCCcc--chHHHHHHHhCCCCCeEEEEecccccCCCcccccEEEEecC------------------CCC
Confidence 2333345566888875 45678899988875 79999999999999999999995544 789
Q ss_pred HHHHHHHhcccCCCCC--cE-EEEecCh
Q 001046 839 QASAKQRAGRAGRTGP--GK-CYRLYTE 863 (1176)
Q Consensus 839 ~as~~QR~GRAGR~g~--G~-c~~L~t~ 863 (1176)
...|+||+||+.|..+ |+ ++.+|.-
T Consensus 787 ~~lf~QmIGRgtR~~~~~~K~~f~I~D~ 814 (1123)
T PRK11448 787 RILYEQMLGRATRLCPEIGKTHFRIFDA 814 (1123)
T ss_pred HHHHHHHHhhhccCCccCCCceEEEEeh
Confidence 9999999999999987 55 5555553
No 96
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=99.87 E-value=9.6e-21 Score=235.63 Aligned_cols=295 Identities=18% Similarity=0.235 Sum_probs=224.8
Q ss_pred HHHHHHHHH----cCC--eEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEE
Q 001046 529 KKELIQAVH----DNQ--VLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGY 602 (1176)
Q Consensus 529 q~~ii~ai~----~~~--~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy 602 (1176)
|..+|+.|. +++ +=+|||.-|-|||-+++-++..+.. .+.+|.+++||-+||.|-++.+.+.| ...+..|+.
T Consensus 599 Ql~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV~-~GKQVAvLVPTTlLA~QHy~tFkeRF-~~fPV~I~~ 676 (1139)
T COG1197 599 QLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAVM-DGKQVAVLVPTTLLAQQHYETFKERF-AGFPVRIEV 676 (1139)
T ss_pred HHHHHHHHHHHhccCCcchheeecCcCCcHHHHHHHHHHHHhc-CCCeEEEEcccHHhHHHHHHHHHHHh-cCCCeeEEE
Confidence 555555553 343 6699999999999999988887644 36799999999999999999998877 344556776
Q ss_pred Eeecccc----------cCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEE
Q 001046 603 AIRFEDC----------TGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLI 672 (1176)
Q Consensus 603 ~ir~~~~----------~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvI 672 (1176)
.-||.+. .....+|++.|.-. |..+-.+.+++++||||=|.-++..-- .+-..+.++-++
T Consensus 677 LSRF~s~kE~~~il~~la~G~vDIvIGTHrL----L~kdv~FkdLGLlIIDEEqRFGVk~KE------kLK~Lr~~VDvL 746 (1139)
T COG1197 677 LSRFRSAKEQKEILKGLAEGKVDIVIGTHRL----LSKDVKFKDLGLLIIDEEQRFGVKHKE------KLKELRANVDVL 746 (1139)
T ss_pred ecccCCHHHHHHHHHHHhcCCccEEEechHh----hCCCcEEecCCeEEEechhhcCccHHH------HHHHHhccCcEE
Confidence 6677543 23567999999854 455567999999999999975665421 222346799999
Q ss_pred EEcCCCCHHHHHhhhcCC---CeE-ecCCceeeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHH
Q 001046 673 VTSATLDAEKFSGYFFNC---NIF-TIPGRTFPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFAC 748 (1176)
Q Consensus 673 lmSATl~~~~~~~~f~~~---~v~-~i~gr~~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~ 748 (1176)
-||||+=+..+.--+.+. .++ +-|...+||..+..+.... .+..++. .....+|++-.-.|..++|+.++
T Consensus 747 TLSATPIPRTL~Msm~GiRdlSvI~TPP~~R~pV~T~V~~~d~~-~ireAI~-----REl~RgGQvfYv~NrV~~Ie~~~ 820 (1139)
T COG1197 747 TLSATPIPRTLNMSLSGIRDLSVIATPPEDRLPVKTFVSEYDDL-LIREAIL-----RELLRGGQVFYVHNRVESIEKKA 820 (1139)
T ss_pred EeeCCCCcchHHHHHhcchhhhhccCCCCCCcceEEEEecCChH-HHHHHHH-----HHHhcCCEEEEEecchhhHHHHH
Confidence 999999555444444332 233 4456778999888765432 2222221 12235889999999999999999
Q ss_pred HHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCC
Q 001046 749 QSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQG 828 (1176)
Q Consensus 749 ~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g 828 (1176)
..|.+.+ |+..|...||.|+..+-..++..|-.|...|||||.|.|+|||||+++.+|= .++.
T Consensus 821 ~~L~~LV-------PEarI~vaHGQM~e~eLE~vM~~F~~g~~dVLv~TTIIEtGIDIPnANTiII--------e~AD-- 883 (1139)
T COG1197 821 ERLRELV-------PEARIAVAHGQMRERELEEVMLDFYNGEYDVLVCTTIIETGIDIPNANTIII--------ERAD-- 883 (1139)
T ss_pred HHHHHhC-------CceEEEEeecCCCHHHHHHHHHHHHcCCCCEEEEeeeeecCcCCCCCceEEE--------eccc--
Confidence 9998864 8899999999999999999999999999999999999999999999999881 2211
Q ss_pred CccccccccCHHHHHHHhcccCCCC-CcEEEEecChHH
Q 001046 829 LDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTESA 865 (1176)
Q Consensus 829 ~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~ 865 (1176)
-.-.++..|-.||+||.. .|.||.||....
T Consensus 884 -------~fGLsQLyQLRGRVGRS~~~AYAYfl~p~~k 914 (1139)
T COG1197 884 -------KFGLAQLYQLRGRVGRSNKQAYAYFLYPPQK 914 (1139)
T ss_pred -------cccHHHHHHhccccCCccceEEEEEeecCcc
Confidence 234589999999999999 799999998754
No 97
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=99.86 E-value=1.6e-20 Score=222.67 Aligned_cols=308 Identities=18% Similarity=0.242 Sum_probs=219.8
Q ss_pred HhcCC--chHHHHHHHHHHHcC------CeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHH
Q 001046 520 RQSLP--IYKLKKELIQAVHDN------QVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEE 591 (1176)
Q Consensus 520 r~~LP--i~~~q~~ii~ai~~~------~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e 591 (1176)
-..|| +...|..+++-|... -+=+++|.-|||||.++.+.++.. +..+.++..++||-+||.|-+..+++.
T Consensus 256 ~~~LPF~LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~a-i~~G~Q~ALMAPTEILA~QH~~~~~~~ 334 (677)
T COG1200 256 LAALPFKLTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAA-IEAGYQAALMAPTEILAEQHYESLRKW 334 (677)
T ss_pred HHhCCCCccHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHH-HHcCCeeEEeccHHHHHHHHHHHHHHH
Confidence 34444 456677777777543 244889999999999988888775 455779999999999999999988776
Q ss_pred hCCccCCeeEEEeecc----------cccCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHH
Q 001046 592 FGCRLGEEVGYAIRFE----------DCTGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQ 661 (1176)
Q Consensus 592 ~g~~~G~~vGy~ir~~----------~~~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~ 661 (1176)
+ .++|..|++-.... ...+...+|++.|...+. .+-.+.++.+||+||=|.-++..- ..
T Consensus 335 l-~~~~i~V~lLtG~~kgk~r~~~l~~l~~G~~~ivVGTHALiQ----d~V~F~~LgLVIiDEQHRFGV~QR------~~ 403 (677)
T COG1200 335 L-EPLGIRVALLTGSLKGKARKEILEQLASGEIDIVVGTHALIQ----DKVEFHNLGLVIIDEQHRFGVHQR------LA 403 (677)
T ss_pred h-hhcCCeEEEeecccchhHHHHHHHHHhCCCCCEEEEcchhhh----cceeecceeEEEEeccccccHHHH------HH
Confidence 6 34455566544332 223456899999986542 233789999999999996454432 22
Q ss_pred HHhhCC-CccEEEEcCCCCHHHHH-hhhcCCC---eEecCCceeeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEE
Q 001046 662 LVKRRP-DLRLIVTSATLDAEKFS-GYFFNCN---IFTIPGRTFPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILL 736 (1176)
Q Consensus 662 ~~~~r~-~~kvIlmSATl~~~~~~-~~f~~~~---v~~i~gr~~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLV 736 (1176)
+..+.. ...+++||||+=+..++ ..|++-. +-..|...-|+..+.......+.+- ..+..- ...+.++.|
T Consensus 404 L~~KG~~~Ph~LvMTATPIPRTLAlt~fgDldvS~IdElP~GRkpI~T~~i~~~~~~~v~---e~i~~e--i~~GrQaY~ 478 (677)
T COG1200 404 LREKGEQNPHVLVMTATPIPRTLALTAFGDLDVSIIDELPPGRKPITTVVIPHERRPEVY---ERIREE--IAKGRQAYV 478 (677)
T ss_pred HHHhCCCCCcEEEEeCCCchHHHHHHHhccccchhhccCCCCCCceEEEEeccccHHHHH---HHHHHH--HHcCCEEEE
Confidence 333444 57899999999555444 4444433 3345555568888877654433222 222221 125778999
Q ss_pred EeCCHHHHHH----HHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEE
Q 001046 737 FLTGQEEIDF----ACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYV 812 (1176)
Q Consensus 737 Fl~~~~ei~~----l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~V 812 (1176)
-||=.++-+. .+..+.+.++ .-.+++.+.-+||.|+.++++.|++.|++|+.+|||||.+.|-|||+|+.++.
T Consensus 479 VcPLIeESE~l~l~~a~~~~~~L~---~~~~~~~vgL~HGrm~~~eKd~vM~~Fk~~e~~ILVaTTVIEVGVdVPnATvM 555 (677)
T COG1200 479 VCPLIEESEKLELQAAEELYEELK---SFLPELKVGLVHGRMKPAEKDAVMEAFKEGEIDILVATTVIEVGVDVPNATVM 555 (677)
T ss_pred EeccccccccchhhhHHHHHHHHH---HHcccceeEEEecCCChHHHHHHHHHHHcCCCcEEEEeeEEEecccCCCCeEE
Confidence 9997776652 2222333332 23468889999999999999999999999999999999999999999999988
Q ss_pred EeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC-CcEEEEecChH
Q 001046 813 IDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTES 864 (1176)
Q Consensus 813 Id~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~ 864 (1176)
| .+|+.. .-.++..|-.||+||-+ +..|+.+|...
T Consensus 556 V--------Ie~AER---------FGLaQLHQLRGRVGRG~~qSyC~Ll~~~~ 591 (677)
T COG1200 556 V--------IENAER---------FGLAQLHQLRGRVGRGDLQSYCVLLYKPP 591 (677)
T ss_pred E--------Eechhh---------hhHHHHHHhccccCCCCcceEEEEEeCCC
Confidence 7 345443 45688999999999998 89999999764
No 98
>KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only]
Probab=99.86 E-value=5.4e-21 Score=230.61 Aligned_cols=332 Identities=18% Similarity=0.208 Sum_probs=230.7
Q ss_pred HHHHhcCCchHHHHHHHHH--HHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCC
Q 001046 517 QEQRQSLPIYKLKKELIQA--VHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGC 594 (1176)
Q Consensus 517 ~~~r~~LPi~~~q~~ii~a--i~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~ 594 (1176)
......+-.|.+|.+.+.. +++++++|..+||+.|||.++.+.++...+..+..++.+.|....+.+-...+.. +.+
T Consensus 216 ~~~kgi~~~fewq~ecls~~~~~e~~nliys~Pts~gktlvaeilml~~~l~~rr~~llilp~vsiv~Ek~~~l~~-~~~ 294 (1008)
T KOG0950|consen 216 AKDKGILKLFEWQAECLSLPRLLERKNLIYSLPTSAGKTLVAEILMLREVLCRRRNVLLILPYVSIVQEKISALSP-FSI 294 (1008)
T ss_pred HHhhhHHHHHHHHHHHhcchhhhcccceEEeCCCccchHHHHHHHHHHHHHHHhhceeEecceeehhHHHHhhhhh-hcc
Confidence 3445567789999998864 7789999999999999999999988887776677888888988877776665533 335
Q ss_pred ccCCee-EEEeecccc-cCCCceEEEeChHH---HHHHHhhCCCCCCCceEEEcCCC-----cCCCchhHHHHHHHHHHh
Q 001046 595 RLGEEV-GYAIRFEDC-TGPDTVIKYMTDGM---LLREILIDDNLSQYSVIMLDEAH-----ERTIHTDVLFGLLKQLVK 664 (1176)
Q Consensus 595 ~~G~~v-Gy~ir~~~~-~~~~t~I~~~T~g~---Llr~l~~~~~L~~~s~IIiDEaH-----eR~~~~d~ll~llk~~~~ 664 (1176)
.+|..| +|.-++... ......+.+||.++ |...++....+..+++||+||.| +|+...+.+++-+....
T Consensus 295 ~~G~~ve~y~g~~~p~~~~k~~sv~i~tiEkanslin~lie~g~~~~~g~vvVdElhmi~d~~rg~~lE~~l~k~~y~~- 373 (1008)
T KOG0950|consen 295 DLGFPVEEYAGRFPPEKRRKRESVAIATIEKANSLINSLIEQGRLDFLGMVVVDELHMIGDKGRGAILELLLAKILYEN- 373 (1008)
T ss_pred ccCCcchhhcccCCCCCcccceeeeeeehHhhHhHHHHHHhcCCccccCcEEEeeeeeeeccccchHHHHHHHHHHHhc-
Confidence 555443 344222222 22456788999754 66777777789999999999999 46665555444333222
Q ss_pred hCCCccEEEEcCCCC-HHHHHhhhcCCCeEecCCceeeeEEEEecCCCchhH--HHHHHHHH-----------------H
Q 001046 665 RRPDLRLIVTSATLD-AEKFSGYFFNCNIFTIPGRTFPVEILYTKQPESDYL--DASLITVL-----------------Q 724 (1176)
Q Consensus 665 ~r~~~kvIlmSATl~-~~~~~~~f~~~~v~~i~gr~~pv~~~~~~~~~~~~~--~~~l~~v~-----------------~ 724 (1176)
....+++|+||||++ ...++.|+ ++.+++...|+.|+..+.......-.. ...+..+- .
T Consensus 374 ~~~~~~iIGMSATi~N~~lL~~~L-~A~~y~t~fRPv~L~E~ik~G~~i~~~~r~~~lr~ia~l~~~~~g~~dpD~~v~L 452 (1008)
T KOG0950|consen 374 LETSVQIIGMSATIPNNSLLQDWL-DAFVYTTRFRPVPLKEYIKPGSLIYESSRNKVLREIANLYSSNLGDEDPDHLVGL 452 (1008)
T ss_pred cccceeEeeeecccCChHHHHHHh-hhhheecccCcccchhccCCCcccccchhhHHHHHhhhhhhhhcccCCCcceeee
Confidence 233478999999995 66666665 466666656655554433221110000 00111111 0
Q ss_pred HHhcCCCC-CEEEEeCCHHHHHHHHHHHHHHHhcc----------------------C-------CCCCCeEEEEecCCC
Q 001046 725 IHLTEPEG-DILLFLTGQEEIDFACQSLYERMKGL----------------------G-------KNVPELIILPVYSAL 774 (1176)
Q Consensus 725 i~~~~~~g-~iLVFl~~~~ei~~l~~~L~~~~~~l----------------------~-------~~~~~~~v~~lhs~l 774 (1176)
....-+.| .+|||||++..++.++..+...+... . ...-.+.+..+|+++
T Consensus 453 ~tet~~e~~~~lvfc~sk~~ce~~a~~~~~~vpk~~~~e~~~~~~~~~s~s~~lr~~~~~ld~Vl~~ti~~GvAyHhaGL 532 (1008)
T KOG0950|consen 453 CTETAPEGSSVLVFCPSKKNCENVASLIAKKVPKHIKSEKRLGLWELLSISNLLRRIPGILDPVLAKTIPYGVAYHHAGL 532 (1008)
T ss_pred hhhhhhcCCeEEEEcCcccchHHHHHHHHHHhhHhhhhhhhhhHHHHHHHHhHhhcCCcccchHHheeccccceeccccc
Confidence 01111234 59999999999999987765543110 0 001134577789999
Q ss_pred CHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC-
Q 001046 775 PSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG- 853 (1176)
Q Consensus 775 ~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g- 853 (1176)
+.++|+.|...|+.|...|++||++++.|++.|..+++|-.-+ ......+...|.||+|||||+|
T Consensus 533 T~eER~~iE~afr~g~i~vl~aTSTlaaGVNLPArRVIiraP~--------------~g~~~l~~~~YkQM~GRAGR~gi 598 (1008)
T KOG0950|consen 533 TSEEREIIEAAFREGNIFVLVATSTLAAGVNLPARRVIIRAPY--------------VGREFLTRLEYKQMVGRAGRTGI 598 (1008)
T ss_pred ccchHHHHHHHHHhcCeEEEEecchhhccCcCCcceeEEeCCc--------------cccchhhhhhHHhhhhhhhhccc
Confidence 9999999999999999999999999999999999999994443 3334788999999999999999
Q ss_pred --CcEEEEecChHH
Q 001046 854 --PGKCYRLYTESA 865 (1176)
Q Consensus 854 --~G~c~~L~t~~~ 865 (1176)
-|.|+..+.+.+
T Consensus 599 dT~GdsiLI~k~~e 612 (1008)
T KOG0950|consen 599 DTLGDSILIIKSSE 612 (1008)
T ss_pred ccCcceEEEeeccc
Confidence 699999998765
No 99
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=99.86 E-value=1.8e-20 Score=224.01 Aligned_cols=293 Identities=18% Similarity=0.186 Sum_probs=199.1
Q ss_pred HHhcCCchHHHHHHHHHHHc----CCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCC
Q 001046 519 QRQSLPIYKLKKELIQAVHD----NQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGC 594 (1176)
Q Consensus 519 ~r~~LPi~~~q~~ii~ai~~----~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~ 594 (1176)
......++++|+++++++.. ++..+|++|||+|||..+...+.... ..++|++|+++|+.|.++++...++.
T Consensus 31 ~~~~~~lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~~~~~~----~~~Lvlv~~~~L~~Qw~~~~~~~~~~ 106 (442)
T COG1061 31 VAFEFELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEAIAELK----RSTLVLVPTKELLDQWAEALKKFLLL 106 (442)
T ss_pred cccCCCCcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHHHHHhc----CCEEEEECcHHHHHHHHHHHHHhcCC
Confidence 34566789999999999988 89999999999999999888877752 34999999999999999887776655
Q ss_pred ccCCeeEEEeecccccCCCceEEEeChHHHHHH-HhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCcc-EE
Q 001046 595 RLGEEVGYAIRFEDCTGPDTVIKYMTDGMLLRE-ILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLR-LI 672 (1176)
Q Consensus 595 ~~G~~vGy~ir~~~~~~~~t~I~~~T~g~Llr~-l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~k-vI 672 (1176)
. ..+|..-.......+ ..|.|.|...+.+. .+.......+++||+||||+-.... ...++.. ..... ++
T Consensus 107 ~--~~~g~~~~~~~~~~~-~~i~vat~qtl~~~~~l~~~~~~~~~liI~DE~Hh~~a~~--~~~~~~~----~~~~~~~L 177 (442)
T COG1061 107 N--DEIGIYGGGEKELEP-AKVTVATVQTLARRQLLDEFLGNEFGLIIFDEVHHLPAPS--YRRILEL----LSAAYPRL 177 (442)
T ss_pred c--cccceecCceeccCC-CcEEEEEhHHHhhhhhhhhhcccccCEEEEEccccCCcHH--HHHHHHh----hhccccee
Confidence 3 122211111111111 57999999999886 3333344579999999999644332 2222222 22334 99
Q ss_pred EEcCCCC---HH---HHHhhhcCCCeEecC-------CceeeeEEEEecCC-----CchhH------H------------
Q 001046 673 VTSATLD---AE---KFSGYFFNCNIFTIP-------GRTFPVEILYTKQP-----ESDYL------D------------ 716 (1176)
Q Consensus 673 lmSATl~---~~---~~~~~f~~~~v~~i~-------gr~~pv~~~~~~~~-----~~~~~------~------------ 716 (1176)
+||||+. .. .+..++ +..++.++ |..-|......... ...|. .
T Consensus 178 GLTATp~R~D~~~~~~l~~~~-g~~vy~~~~~~li~~g~Lap~~~~~i~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~ 256 (442)
T COG1061 178 GLTATPEREDGGRIGDLFDLI-GPIVYEVSLKELIDEGYLAPYKYVEIKVTLTEDEEREYAKESARFRELLRARGTLRAE 256 (442)
T ss_pred eeccCceeecCCchhHHHHhc-CCeEeecCHHHHHhCCCccceEEEEEEeccchHHHHHhhhhhhhhhhhhhhhhhhhHH
Confidence 9999973 11 222222 22333332 33333332221110 00000 0
Q ss_pred -----------HHHHHHHHHHhcC-CCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcC
Q 001046 717 -----------ASLITVLQIHLTE-PEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFD 784 (1176)
Q Consensus 717 -----------~~l~~v~~i~~~~-~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~ 784 (1176)
..+..+..+.... ...++|||+.....+..++..+.. ++. +..+.+..+..+|..+++
T Consensus 257 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lif~~~~~~a~~i~~~~~~---------~~~-~~~it~~t~~~eR~~il~ 326 (442)
T COG1061 257 NEARRIAIASERKIAAVRGLLLKHARGDKTLIFASDVEHAYEIAKLFLA---------PGI-VEAITGETPKEEREAILE 326 (442)
T ss_pred HHHHHHhhccHHHHHHHHHHHHHhcCCCcEEEEeccHHHHHHHHHHhcC---------CCc-eEEEECCCCHHHHHHHHH
Confidence 0011111111111 366999999999999988887743 333 778899999999999999
Q ss_pred CCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC
Q 001046 785 PAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG 853 (1176)
Q Consensus 785 ~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g 853 (1176)
.|+.|.+++||++.++..|+|+|++.++|-..- .-|...|.||+||.=|..
T Consensus 327 ~fr~g~~~~lv~~~vl~EGvDiP~~~~~i~~~~------------------t~S~~~~~Q~lGR~LR~~ 377 (442)
T COG1061 327 RFRTGGIKVLVTVKVLDEGVDIPDADVLIILRP------------------TGSRRLFIQRLGRGLRPA 377 (442)
T ss_pred HHHcCCCCEEEEeeeccceecCCCCcEEEEeCC------------------CCcHHHHHHHhhhhccCC
Confidence 999999999999999999999999999993332 678999999999999954
No 100
>KOG0349 consensus Putative DEAD-box RNA helicase DDX1 [RNA processing and modification]
Probab=99.82 E-value=2.9e-20 Score=205.24 Aligned_cols=268 Identities=18% Similarity=0.185 Sum_probs=180.6
Q ss_pred EEEEeccHHHHHHHHHHHHHHHhCC----ccC--CeeEEEeeccc---ccCCCceEEEeChHHHHHHHhhCC-CCCCCce
Q 001046 570 KIGCTQPRRVAAMSVAKRVAEEFGC----RLG--EEVGYAIRFED---CTGPDTVIKYMTDGMLLREILIDD-NLSQYSV 639 (1176)
Q Consensus 570 ~Ilv~~PrR~lA~qva~rva~e~g~----~~G--~~vGy~ir~~~---~~~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~ 639 (1176)
..+++.|.|++|.|+...+.+..-- .+- ..+| .+...+ ....+++|++.|||+|++.+.... .|.++.+
T Consensus 288 ~avivepsrelaEqt~N~i~~Fk~h~~np~~r~lLmig-gv~~r~Q~~ql~~g~~ivvGtpgRl~~~is~g~~~lt~crF 366 (725)
T KOG0349|consen 288 EAVIVEPSRELAEQTHNQIEEFKMHTSNPEVRSLLMIG-GVLKRTQCKQLKDGTHIVVGTPGRLLQPISKGLVTLTHCRF 366 (725)
T ss_pred ceeEecCcHHHHHHHHhhHHHHHhhcCChhhhhhhhhh-hHHhHHHHHHhhcCceeeecCchhhhhhhhccceeeeeeEE
Confidence 5688999999999999876442211 011 0111 111111 223679999999999999887655 6889999
Q ss_pred EEEcCCCc--CCCchhHHHHHHHHHHh---hCCCccEEEEcCCCC---HHHHHhhhcCCCe-EecCCc-eeeeEEEEe--
Q 001046 640 IMLDEAHE--RTIHTDVLFGLLKQLVK---RRPDLRLIVTSATLD---AEKFSGYFFNCNI-FTIPGR-TFPVEILYT-- 707 (1176)
Q Consensus 640 IIiDEaHe--R~~~~d~ll~llk~~~~---~r~~~kvIlmSATl~---~~~~~~~f~~~~v-~~i~gr-~~pv~~~~~-- 707 (1176)
+|+|||+. --.++|++..+...+.. ....++.++.|||+. +.++.+....-|. +.+.|. ..|-+++..
T Consensus 367 lvlDead~lL~qgy~d~I~r~h~qip~~tsdg~rlq~~vCsatlh~feVkk~~ervmhfptwVdLkgeD~vpetvHhvv~ 446 (725)
T KOG0349|consen 367 LVLDEADLLLGQGYDDKIYRFHGQIPHMTSDGFRLQSPVCSATLHIFEVKKVGERVMHFPTWVDLKGEDLVPETVHHVVK 446 (725)
T ss_pred EEecchhhhhhcccHHHHHHHhccchhhhcCCcccccceeeeEEeEEEeeehhhhhccCceeEecccccccchhhcccee
Confidence 99999984 22455665555544443 224589999999983 4444443332221 111111 011111100
Q ss_pred -cCC-------------------Cch----------hHHHHHHHH-----HHHHhcCCCCCEEEEeCCHHHHHHHHHHHH
Q 001046 708 -KQP-------------------ESD----------YLDASLITV-----LQIHLTEPEGDILLFLTGQEEIDFACQSLY 752 (1176)
Q Consensus 708 -~~~-------------------~~~----------~~~~~l~~v-----~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~ 752 (1176)
-.+ ..+ ....+...+ +.........+.+|||.++.+++.+-+.+.
T Consensus 447 lv~p~~d~sw~~lr~~i~td~vh~kdn~~pg~~Spe~~s~a~kilkgEy~v~ai~~h~mdkaiifcrtk~dcDnLer~~~ 526 (725)
T KOG0349|consen 447 LVCPSVDGSWCDLRQFIETDKVHTKDNLLPGQVSPENPSSATKILKGEYGVVAIRRHAMDKAIIFCRTKQDCDNLERMMN 526 (725)
T ss_pred ecCCccCccHHHHhhhhccCCcccccccccccCCCCChhhhhHHhcCchhhhhhhhhccCceEEEEeccccchHHHHHHH
Confidence 000 001 111111100 011122335689999999999988877776
Q ss_pred HHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCccc
Q 001046 753 ERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSL 832 (1176)
Q Consensus 753 ~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l 832 (1176)
++ +-..+.++++|++..+.+|..-++.|+.+..+.+|||++|++||||.++-||||..+
T Consensus 527 qk------gg~~~scvclhgDrkP~Erk~nle~Fkk~dvkflictdvaargldi~g~p~~invtl--------------- 585 (725)
T KOG0349|consen 527 QK------GGKHYSCVCLHGDRKPDERKANLESFKKFDVKFLICTDVAARGLDITGLPFMINVTL--------------- 585 (725)
T ss_pred Hc------CCccceeEEEecCCChhHHHHHHHhhhhcCeEEEEEehhhhccccccCCceEEEEec---------------
Confidence 64 225788999999999999999999999999999999999999999999999999888
Q ss_pred cccccCHHHHHHHhcccCCCC-CcEEEEecC
Q 001046 833 VITPISQASAKQRAGRAGRTG-PGKCYRLYT 862 (1176)
Q Consensus 833 ~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t 862 (1176)
|-.+.+|+||+||.||+. -|.++.|..
T Consensus 586 ---pd~k~nyvhrigrvgraermglaislva 613 (725)
T KOG0349|consen 586 ---PDDKTNYVHRIGRVGRAERMGLAISLVA 613 (725)
T ss_pred ---CcccchhhhhhhccchhhhcceeEEEee
Confidence 999999999999999998 598888764
No 101
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=99.80 E-value=3.9e-18 Score=216.24 Aligned_cols=312 Identities=15% Similarity=0.149 Sum_probs=196.1
Q ss_pred CCchHHHHHHHHHHHc--CCeEEEEcCCCCcHHHHHHHHHHHhcccC-CCEEEEeccHHHHHHHHHHHHHHHhCCccCCe
Q 001046 523 LPIYKLKKELIQAVHD--NQVLVVIGETGSGKTTQVTQYLAEAGYTT-RGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEE 599 (1176)
Q Consensus 523 LPi~~~q~~ii~ai~~--~~~vIv~apTGSGKTt~~~~~lle~~~~~-~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~ 599 (1176)
.-+++||..++..+.. ...+++.-+.|.|||.++..++.+..... ..+++|++|. .|..|....+.+.++......
T Consensus 151 ~~l~pHQl~~~~~vl~~~~~R~LLADEvGLGKTIeAglil~~l~~~g~~~rvLIVvP~-sL~~QW~~El~~kF~l~~~i~ 229 (956)
T PRK04914 151 ASLIPHQLYIAHEVGRRHAPRVLLADEVGLGKTIEAGMIIHQQLLTGRAERVLILVPE-TLQHQWLVEMLRRFNLRFSLF 229 (956)
T ss_pred CCCCHHHHHHHHHHhhccCCCEEEEeCCcCcHHHHHHHHHHHHHHcCCCCcEEEEcCH-HHHHHHHHHHHHHhCCCeEEE
Confidence 3456888888777643 34688999999999988877776543332 3589999997 677888777766666442110
Q ss_pred eE--E-Eeeccc-ccCCCceEEEeChHHHHHH--HhhCCCCCCCceEEEcCCCcCCC---chhHHHHHHHHHHhhCCCcc
Q 001046 600 VG--Y-AIRFED-CTGPDTVIKYMTDGMLLRE--ILIDDNLSQYSVIMLDEAHERTI---HTDVLFGLLKQLVKRRPDLR 670 (1176)
Q Consensus 600 vG--y-~ir~~~-~~~~~t~I~~~T~g~Llr~--l~~~~~L~~~s~IIiDEaHeR~~---~~d~ll~llk~~~~~r~~~k 670 (1176)
-+ + ....+. ..-....+++||.+.+.+. ....-.-..+++|||||||.-.. ...-....++.+... -..
T Consensus 230 ~~~~~~~~~~~~~~pf~~~~~vI~S~~~l~~~~~~~~~l~~~~wdlvIvDEAH~lk~~~~~~s~~y~~v~~La~~--~~~ 307 (956)
T PRK04914 230 DEERYAEAQHDADNPFETEQLVICSLDFLRRNKQRLEQALAAEWDLLVVDEAHHLVWSEEAPSREYQVVEQLAEV--IPG 307 (956)
T ss_pred cCcchhhhcccccCccccCcEEEEEHHHhhhCHHHHHHHhhcCCCEEEEechhhhccCCCCcCHHHHHHHHHhhc--cCC
Confidence 00 0 000000 1112457889998887641 11111224789999999995211 111123444444332 236
Q ss_pred EEEEcCCCC---HH-H-----------------HHhh--------------hcCCCeE-----------e---c------
Q 001046 671 LIVTSATLD---AE-K-----------------FSGY--------------FFNCNIF-----------T---I------ 695 (1176)
Q Consensus 671 vIlmSATl~---~~-~-----------------~~~~--------------f~~~~v~-----------~---i------ 695 (1176)
++++|||+- .+ . |... +.+.++- . +
T Consensus 308 ~LLLTATP~q~~~~e~falL~lLdP~~f~~~~~F~~e~~~~~~~a~~v~~l~~~~~~~~~~~~~l~~ll~~~~~~~l~~~ 387 (956)
T PRK04914 308 VLLLTATPEQLGQESHFARLRLLDPDRFHDYEAFVEEQQQYRPVADAVQALLAGEKLSDDALNALGELLGEQDIEPLLQA 387 (956)
T ss_pred EEEEEcCcccCCcHHHHHhhhhhCCCcCCCHHHHHHHHHhhHHHHHHHHHHhcCCcCCHHHHHHHHHHhcccchhHHHhh
Confidence 899999983 11 1 1100 0000000 0 0
Q ss_pred ------------------------CCc-----------eeeeEE---EEecCCCchhHH---------------------
Q 001046 696 ------------------------PGR-----------TFPVEI---LYTKQPESDYLD--------------------- 716 (1176)
Q Consensus 696 ------------------------~gr-----------~~pv~~---~~~~~~~~~~~~--------------------- 716 (1176)
.|+ .||... +.... ...|..
T Consensus 388 ~~~~~~~~~~~~~~~i~~L~d~hg~~rvm~RntR~~v~~fp~R~~~~~~l~~-~~~y~~~~~~~~~~~~~~~l~pe~~~~ 466 (956)
T PRK04914 388 ANSDSEEAQAARQELISELLDRHGTGRVLFRNTRAAVKGFPKRELHPIPLPL-PEQYQTAIKVSLEARARDMLYPEQIYQ 466 (956)
T ss_pred hcccccccHHHHHHHHHHHHhhcCcceEEEeccHHhhcCCCcCceeEeecCC-CHHHHHHHHHhHHHHHHhhcCHHHHHH
Confidence 000 011110 00000 111211
Q ss_pred ------------HHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcC
Q 001046 717 ------------ASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFD 784 (1176)
Q Consensus 717 ------------~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~ 784 (1176)
..+..++.+.......++||||+++..+..+.+.|.+. .++.+..+||+|++.+|.++++
T Consensus 467 ~~~~~~~~~~~d~Ki~~L~~~L~~~~~~KvLVF~~~~~t~~~L~~~L~~~--------~Gi~~~~ihG~~s~~eR~~~~~ 538 (956)
T PRK04914 467 EFEDNATWWNFDPRVEWLIDFLKSHRSEKVLVICAKAATALQLEQALRER--------EGIRAAVFHEGMSIIERDRAAA 538 (956)
T ss_pred HHhhhhhccccCHHHHHHHHHHHhcCCCeEEEEeCcHHHHHHHHHHHhhc--------cCeeEEEEECCCCHHHHHHHHH
Confidence 11223334434445679999999999999998888542 3678899999999999999999
Q ss_pred CCCC--CCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC-Cc--EEEE
Q 001046 785 PAPP--GKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG-PG--KCYR 859 (1176)
Q Consensus 785 ~f~~--g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G--~c~~ 859 (1176)
.|.. |..+|+|||+++++|+|++.+++||++++ |.+...|.||+||+||.| .| .+|.
T Consensus 539 ~F~~~~~~~~VLIsTdvgseGlNlq~a~~VInfDl------------------P~nP~~~eQRIGR~~RiGQ~~~V~i~~ 600 (956)
T PRK04914 539 YFADEEDGAQVLLCSEIGSEGRNFQFASHLVLFDL------------------PFNPDLLEQRIGRLDRIGQKHDIQIHV 600 (956)
T ss_pred HHhcCCCCccEEEechhhccCCCcccccEEEEecC------------------CCCHHHHHHHhcccccCCCCceEEEEE
Confidence 9987 46999999999999999999999999999 999999999999999999 33 3555
Q ss_pred ecChH
Q 001046 860 LYTES 864 (1176)
Q Consensus 860 L~t~~ 864 (1176)
++.+.
T Consensus 601 ~~~~~ 605 (956)
T PRK04914 601 PYLEG 605 (956)
T ss_pred ccCCC
Confidence 55543
No 102
>PF07717 OB_NTP_bind: Oligonucleotide/oligosaccharide-binding (OB)-fold; InterPro: IPR011709 This domain is found towards the C terminus of the DEAD-box helicases (IPR011545 from INTERPRO). In these helicases it appears to be always found in association with IPR007502 from INTERPRO. ; PDB: 3I4U_A 2XAU_B 3KX2_B.
Probab=99.80 E-value=6.1e-20 Score=179.10 Aligned_cols=101 Identities=50% Similarity=0.914 Sum_probs=81.8
Q ss_pred HHHHHHHHHcCCCcccc-------------CcchHHHHHHhhcccccccceeCCCCCeeeeecCccEEECCCCcCCCCCC
Q 001046 1038 KQLLSIMDKYKLDVMSA-------------GKNFTKIRKAITAGFFFHAARKDPQEGYRTLVENQPVYIHPSSALFQRQP 1104 (1176)
Q Consensus 1038 ~ql~~~~~~~~~~~~~~-------------~~~~~~i~~~l~~g~~~n~a~~~~~~~y~~~~~~~~v~ihpsS~l~~~~~ 1104 (1176)
+||.++|+++++...+. ..++..|++|||+|||+|+|++++.+.|+++.++..|+|||+|+|++..|
T Consensus 1 ~QL~~il~~~g~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~aG~~~nvA~~~~~~~y~~~~~~~~v~iHPsS~l~~~~p 80 (114)
T PF07717_consen 1 KQLLRILERIGFVPQSASSQSISQRPPNENRDQWELIRAALCAGFYPNVARRDNKGSYKTLSNGQPVFIHPSSVLFKKPP 80 (114)
T ss_dssp HHHHHHHHHTT----------TTST-----HTHCHHHHHHHHHHHCCCEEEE-TTSSEEETTTG-EEEE-TTSTTTTTT-
T ss_pred CHHHHHHHHcCCCCCccccccccccccccccccHHHHHHHHHHhhhhheEEeCCCCCEEEecCCCEEEEecCcccccccc
Confidence 58999999988754322 04568999999999999999999888999998888999999999999999
Q ss_pred CEEEEEeeccchhhhcceecccCHHHHHhhcccc
Q 001046 1105 DWVIYHELVMTTKEYMREVTVIDPKWLVDLAPRF 1138 (1176)
Q Consensus 1105 ~~vvy~e~~~t~~~~~~~vt~i~~~wl~~~~~~~ 1138 (1176)
+||||+|++.|+|.||++||+|+|+||.+++|++
T Consensus 81 ~~vvy~e~~~t~k~y~~~~t~I~~~wl~~~~~~~ 114 (114)
T PF07717_consen 81 KWVVYHELVRTSKPYMRDVTAISPEWLLLFAPHY 114 (114)
T ss_dssp SEEEEEEEEESSSEEEEEEEE--HHHHHHH-TTT
T ss_pred ccchhhhheecCCcEEEECcCCCHHHHHHHcccC
Confidence 9999999999999999999999999999999975
No 103
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.79 E-value=2.8e-19 Score=186.32 Aligned_cols=273 Identities=17% Similarity=0.208 Sum_probs=175.2
Q ss_pred HHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCC--EEEEeccHHHHHHHHHHHH---HHHhC-CccCCee
Q 001046 527 KLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRG--KIGCTQPRRVAAMSVAKRV---AEEFG-CRLGEEV 600 (1176)
Q Consensus 527 ~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~--~Ilv~~PrR~lA~qva~rv---a~e~g-~~~G~~v 600 (1176)
..|.++|+...-|-+++.+|..|-|||..+.+..++..-...| .++|+..+|+||-|+.+.+ ++.+. ..+..-.
T Consensus 67 evqhecipqailgmdvlcqaksgmgktavfvl~tlqqiepv~g~vsvlvmchtrelafqi~~ey~rfskymP~vkvaVFf 146 (387)
T KOG0329|consen 67 EVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQIEPVDGQVSVLVMCHTRELAFQISKEYERFSKYMPSVKVSVFF 146 (387)
T ss_pred HhhhhhhhHHhhcchhheecccCCCceeeeehhhhhhcCCCCCeEEEEEEeccHHHHHHHHHHHHHHHhhCCCceEEEEE
Confidence 4577788777789999999999999999988888876544445 5789999999999998654 33331 1111111
Q ss_pred -EEEeeccc-ccCCCceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCCcCCCchhHHHHHHHHHHh-hCCCccEEEEcC
Q 001046 601 -GYAIRFED-CTGPDTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVK-RRPDLRLIVTSA 676 (1176)
Q Consensus 601 -Gy~ir~~~-~~~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~-~r~~~kvIlmSA 676 (1176)
|..|.-+. .......|++.|||+++....... .|.++.++||||++.---..|.... +..+.+ ..++-|++++||
T Consensus 147 GG~~Ikkdee~lk~~PhivVgTPGrilALvr~k~l~lk~vkhFvlDEcdkmle~lDMrRD-vQEifr~tp~~KQvmmfsa 225 (387)
T KOG0329|consen 147 GGLFIKKDEELLKNCPHIVVGTPGRILALVRNRSLNLKNVKHFVLDECDKMLEQLDMRRD-VQEIFRMTPHEKQVMMFSA 225 (387)
T ss_pred cceeccccHHHHhCCCeEEEcCcHHHHHHHHhccCchhhcceeehhhHHHHHHHHHHHHH-HHHHhhcCcccceeeeeee
Confidence 12222221 112367899999999998887665 7999999999999831111121111 122222 345788999999
Q ss_pred CCC--HHHHHhhhcCCCeE-ecCCc----eeeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHH
Q 001046 677 TLD--AEKFSGYFFNCNIF-TIPGR----TFPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQ 749 (1176)
Q Consensus 677 Tl~--~~~~~~~f~~~~v~-~i~gr----~~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~ 749 (1176)
|+. .......|...|+- .+... .+-+..+|.+..+.. .... +..+.....-.+++||+.+...+
T Consensus 226 tlskeiRpvC~kFmQdPmEi~vDdE~KLtLHGLqQ~YvkLke~e-KNrk---l~dLLd~LeFNQVvIFvKsv~Rl----- 296 (387)
T KOG0329|consen 226 TLSKEIRPVCHKFMQDPMEIFVDDEAKLTLHGLQQYYVKLKENE-KNRK---LNDLLDVLEFNQVVIFVKSVQRL----- 296 (387)
T ss_pred ecchhhHHHHHhhhcCchhhhccchhhhhhhhHHHHHHhhhhhh-hhhh---hhhhhhhhhhcceeEeeehhhhh-----
Confidence 995 44555555444321 11100 011222222211110 0011 11111112235677777664420
Q ss_pred HHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCC
Q 001046 750 SLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGL 829 (1176)
Q Consensus 750 ~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~ 829 (1176)
+ | .++ +|||++..+|+||..|+.|+||++
T Consensus 297 -------------------------~----------f--~kr--~vat~lfgrgmdiervNi~~NYdm------------ 325 (387)
T KOG0329|consen 297 -------------------------S----------F--QKR--LVATDLFGRGMDIERVNIVFNYDM------------ 325 (387)
T ss_pred -------------------------h----------h--hhh--hHHhhhhccccCcccceeeeccCC------------
Confidence 0 1 123 899999999999999999999999
Q ss_pred ccccccccCHHHHHHHhcccCCCC-CcEEEEecChHHH
Q 001046 830 DSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTESAY 866 (1176)
Q Consensus 830 ~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~ 866 (1176)
|-+..+|.||.|||||.| .|.++.+.+.+.-
T Consensus 326 ------p~~~DtYlHrv~rAgrfGtkglaitfvs~e~d 357 (387)
T KOG0329|consen 326 ------PEDSDTYLHRVARAGRFGTKGLAITFVSDEND 357 (387)
T ss_pred ------CCCchHHHHHhhhhhccccccceeehhcchhh
Confidence 999999999999999999 7999999886544
No 104
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=99.79 E-value=8.1e-18 Score=207.88 Aligned_cols=331 Identities=18% Similarity=0.165 Sum_probs=202.0
Q ss_pred HHhcCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCC
Q 001046 519 QRQSLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGE 598 (1176)
Q Consensus 519 ~r~~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~ 598 (1176)
.+..|-++++-.|++-++.=++--|..++||+|||.++.++++...+. +..+.|+.|++.||.+.+..+... ...+|.
T Consensus 75 ~~R~lg~~~ydvQliGg~~Lh~G~Iaem~TGeGKTL~a~Lpa~~~al~-G~~V~VvTpn~yLA~qd~e~m~~l-~~~lGL 152 (896)
T PRK13104 75 SLRTLGLRHFDVQLIGGMVLHEGNIAEMRTGEGKTLVATLPAYLNAIS-GRGVHIVTVNDYLAKRDSQWMKPI-YEFLGL 152 (896)
T ss_pred HHHHcCCCcchHHHhhhhhhccCccccccCCCCchHHHHHHHHHHHhc-CCCEEEEcCCHHHHHHHHHHHHHH-hcccCc
Confidence 355677888888888887666666889999999999999988876554 346899999999999999876544 455777
Q ss_pred eeEEEeecccc----cCCCceEEEeChHHH-HHHHhhCCC--C-----CCCceEEEcCCCc------CCC---------c
Q 001046 599 EVGYAIRFEDC----TGPDTVIKYMTDGML-LREILIDDN--L-----SQYSVIMLDEAHE------RTI---------H 651 (1176)
Q Consensus 599 ~vGy~ir~~~~----~~~~t~I~~~T~g~L-lr~l~~~~~--L-----~~~s~IIiDEaHe------R~~---------~ 651 (1176)
.||..+...+. ..-.++|+|+|+|.| ++.|..... + ..+.++||||||. |+. .
T Consensus 153 tv~~i~gg~~~~~r~~~y~~dIvygT~grlgfDyLrd~~~~~~~~~v~r~l~~~IvDEaDsiLIDeArtPLIISg~~~~~ 232 (896)
T PRK13104 153 TVGVIYPDMSHKEKQEAYKADIVYGTNNEYGFDYLRDNMAFSLTDKVQRELNFAIVDEVDSILIDEARTPLIISGAAEDS 232 (896)
T ss_pred eEEEEeCCCCHHHHHHHhCCCEEEECChhhhHHHHhcCCccchHhhhccccceEEeccHhhhhhhccCCceeeeCCCccc
Confidence 78865443221 123579999999999 777655422 2 6899999999992 221 1
Q ss_pred hhHHHHHHHHHHh-hCC--------------CccEEEEcCCC-C-HHHH-----------------------------Hh
Q 001046 652 TDVLFGLLKQLVK-RRP--------------DLRLIVTSATL-D-AEKF-----------------------------SG 685 (1176)
Q Consensus 652 ~d~ll~llk~~~~-~r~--------------~~kvIlmSATl-~-~~~~-----------------------------~~ 685 (1176)
++++ ..+..+.. ..+ .-+-|.+|-.- . .+.+ ..
T Consensus 233 ~~~y-~~~~~~v~~l~~~~~~~~~~dy~idek~~~v~Lte~G~~~~e~~~~~~~il~~~~~l~~~~~~~~~~~i~~aL~A 311 (896)
T PRK13104 233 SELY-IKINSLIPQLKKQEEEGDEGDYTIDEKQKQAHLTDAGHLHIEELLTKAKLLDPGESLYHASNIMLMHHVNAALKA 311 (896)
T ss_pred hHHH-HHHHHHHHHHHhccccCCCCCEEEEcCCCceEEchHHHHHHHHHHHhCCccCCcccccCchhhhHHHHHHHHHHH
Confidence 2222 22222221 111 12223333220 0 0110 00
Q ss_pred -hhc---------CCCeEec--------CCcee-----------------------------------------------
Q 001046 686 -YFF---------NCNIFTI--------PGRTF----------------------------------------------- 700 (1176)
Q Consensus 686 -~f~---------~~~v~~i--------~gr~~----------------------------------------------- 700 (1176)
++. +..|+.| +||.+
T Consensus 312 ~~lf~~d~dYiV~dg~V~iVDe~TGR~m~grr~s~GLHQaiEaKE~v~i~~e~~t~AsIT~Qn~Fr~Y~kLsGMTGTa~t 391 (896)
T PRK13104 312 HAMFHRDIDYIVKDNQVVIVDEHTGRTMPGRRWSEGLHQAVEAKEGVPIQNENQTLASITFQNFFRMYNKLSGMTGTADT 391 (896)
T ss_pred HHHhcCCCceEEECCEEEEEECCCCCcCCCCCcChHHHHHHHHHcCCCCCCCceeeeeehHHHHHHhcchhccCCCCChh
Confidence 000 0111111 11111
Q ss_pred ---------eeEEEEecCC---------------CchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHh
Q 001046 701 ---------PVEILYTKQP---------------ESDYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYERMK 756 (1176)
Q Consensus 701 ---------pv~~~~~~~~---------------~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~ 756 (1176)
.+.+...+.. ......+.+..+..+| ..+.++||||++.+..+.++..|.+.
T Consensus 392 e~~Ef~~iY~l~Vv~IPtnkp~~R~d~~d~v~~t~~~k~~av~~~i~~~~--~~g~PVLVgt~Sie~sE~ls~~L~~~-- 467 (896)
T PRK13104 392 EAYEFQQIYNLEVVVIPTNRSMIRKDEADLVYLTQADKFQAIIEDVRECG--VRKQPVLVGTVSIEASEFLSQLLKKE-- 467 (896)
T ss_pred HHHHHHHHhCCCEEECCCCCCcceecCCCeEEcCHHHHHHHHHHHHHHHH--hCCCCEEEEeCcHHHHHHHHHHHHHc--
Confidence 0111111100 0112233344444444 45789999999999999999998763
Q ss_pred ccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCC---eeE-EEeC--Ccc--cc--------
Q 001046 757 GLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDG---IFY-VIDP--GFA--KQ-------- 820 (1176)
Q Consensus 757 ~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~---V~~-VId~--g~~--k~-------- 820 (1176)
++....+|+.+.+.++..|.+.|.+|. |+||||+|+||+||.= ..+ +.+. +-. ..
T Consensus 468 -------gi~h~vLnak~~q~Ea~iia~Ag~~G~--VtIATNmAGRGtDI~Lggn~~~~~~~~~~~~~~~~~~~~~~~~~ 538 (896)
T PRK13104 468 -------NIKHQVLNAKFHEKEAQIIAEAGRPGA--VTIATNMAGRGTDIVLGGSLAADLANLPADASEQEKEAVKKEWQ 538 (896)
T ss_pred -------CCCeEeecCCCChHHHHHHHhCCCCCc--EEEeccCccCCcceecCCchhhhhhccccchhhHHHHHHHHHhh
Confidence 677888999999999999999999994 9999999999999861 000 0000 000 00
Q ss_pred ---eeccCCCCCccccc-cccCHHHHHHHhcccCCCC-CcEEEEecChHH
Q 001046 821 ---NVYNPKQGLDSLVI-TPISQASAKQRAGRAGRTG-PGKCYRLYTESA 865 (1176)
Q Consensus 821 ---~~yd~~~g~~~l~~-~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~ 865 (1176)
.-.-..-|+..+.+ .+-|.--=.|-.|||||.| ||.+-.+.+=++
T Consensus 539 ~~~~~V~~~GGL~VIgTerhesrRID~QLrGRaGRQGDPGss~f~lSleD 588 (896)
T PRK13104 539 KRHDEVIAAGGLRIIGSERHESRRIDNQLRGRAGRQGDPGSSRFYLSLED 588 (896)
T ss_pred hhhhHHHHcCCCEEEeeccCchHHHHHHhccccccCCCCCceEEEEEcCc
Confidence 00001123333333 3677777889999999999 999877766544
No 105
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=99.78 E-value=5.1e-18 Score=214.44 Aligned_cols=307 Identities=21% Similarity=0.176 Sum_probs=186.6
Q ss_pred CchHHHHHHHHHHHc---CC-eEEEEcCCCCcHHHHHHHHHHHhccc---CCCEEEEeccHHHHHHHHHHHHHHHhCCcc
Q 001046 524 PIYKLKKELIQAVHD---NQ-VLVVIGETGSGKTTQVTQYLAEAGYT---TRGKIGCTQPRRVAAMSVAKRVAEEFGCRL 596 (1176)
Q Consensus 524 Pi~~~q~~ii~ai~~---~~-~vIv~apTGSGKTt~~~~~lle~~~~---~~~~Ilv~~PrR~lA~qva~rva~e~g~~~ 596 (1176)
+.++.|..+++.+.. .+ .+++.||||+|||++...+.+..... ...+++++.|+|.++.++++++....+...
T Consensus 195 ~~~~~~~~~~~~~~~~~~~~~~~vl~aPTG~GKT~asl~~a~~~~~~~~~~~~r~i~vlP~~t~ie~~~~r~~~~~~~~~ 274 (733)
T COG1203 195 EGYELQEKALELILRLEKRSLLVVLEAPTGYGKTEASLILALALLDEKIKLKSRVIYVLPFRTIIEDMYRRAKEIFGLFS 274 (733)
T ss_pred hhhHHHHHHHHHHHhcccccccEEEEeCCCCChHHHHHHHHHHHhhccccccceEEEEccHHHHHHHHHHHHHhhhcccc
Confidence 446677777777653 34 88999999999999888777654333 366899999999999999999877554321
Q ss_pred --CC-eeEEEe----eccc----c--cC------CCceEEEeChHHHHHHHhhCCCC-----CCCceEEEcCCCcCCCc-
Q 001046 597 --GE-EVGYAI----RFED----C--TG------PDTVIKYMTDGMLLREILIDDNL-----SQYSVIMLDEAHERTIH- 651 (1176)
Q Consensus 597 --G~-~vGy~i----r~~~----~--~~------~~t~I~~~T~g~Llr~l~~~~~L-----~~~s~IIiDEaHeR~~~- 651 (1176)
+. ..|... .... + +. .-..+.++|+-..+......... -..+++|+||+|-..-.
T Consensus 275 ~~~~~~h~~~~~~~~~~~~~~~~~~~~~~ds~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~S~vIlDE~h~~~~~~ 354 (733)
T COG1203 275 VIGKSLHSSSKEPLLLEPDQDILLTLTTNDSYKKLLLALIVVTPIQILIFSVKGFKFEFLALLLTSLVILDEVHLYADET 354 (733)
T ss_pred cccccccccccchhhhccccccceeEEecccccceeccccccCHhHhhhhhccccchHHHHHHHhhchhhccHHhhcccc
Confidence 11 111110 0000 0 00 01112222322222211111111 23479999999954444
Q ss_pred -hhHHHHHHHHHHhhCCCccEEEEcCCCCH---HHHHhhhcCCCeEecCCceeeeEEE--EecCCCchhHHHH--HHHHH
Q 001046 652 -TDVLFGLLKQLVKRRPDLRLIVTSATLDA---EKFSGYFFNCNIFTIPGRTFPVEIL--YTKQPESDYLDAS--LITVL 723 (1176)
Q Consensus 652 -~d~ll~llk~~~~~r~~~kvIlmSATl~~---~~~~~~f~~~~v~~i~gr~~pv~~~--~~~~~~~~~~~~~--l~~v~ 723 (1176)
.-++++++..+ ..-+.++|+||||++. +.|..++.....+.......|.... .......+..+.. .....
T Consensus 355 ~~~~l~~~i~~l--~~~g~~ill~SATlP~~~~~~l~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~ 432 (733)
T COG1203 355 MLAALLALLEAL--AEAGVPVLLMSATLPPFLKEKLKKALGKGREVVENAKFCPKEDEPGLKRKERVDVEDGPQEELIEL 432 (733)
T ss_pred hHHHHHHHHHHH--HhCCCCEEEEecCCCHHHHHHHHHHHhcccceeccccccccccccccccccchhhhhhhhHhhhhc
Confidence 22334444333 2348899999999984 4555555433322222110000000 0000001111110 01111
Q ss_pred HHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCC----CCCCceEEEEcch
Q 001046 724 QIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPA----PPGKRKVVVATNI 799 (1176)
Q Consensus 724 ~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f----~~g~~kVlVATni 799 (1176)
.......++++||-|||...+..++..|.+.. . .++.+||.+...+|.+.++.. ..+...|+|||++
T Consensus 433 ~~~~~~~~~kvlvI~NTV~~Aie~Y~~Lk~~~--------~-~v~LlHSRf~~~dR~~ke~~l~~~~~~~~~~IvVaTQV 503 (733)
T COG1203 433 ISEEVKEGKKVLVIVNTVDRAIELYEKLKEKG--------P-KVLLLHSRFTLKDREEKERELKKLFKQNEGFIVVATQV 503 (733)
T ss_pred chhhhccCCcEEEEEecHHHHHHHHHHHHhcC--------C-CEEEEecccchhhHHHHHHHHHHHHhccCCeEEEEeeE
Confidence 11233457899999999999999998887641 2 688999999999998776632 4567899999999
Q ss_pred hhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC---CcEEEEecC
Q 001046 800 AEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG---PGKCYRLYT 862 (1176)
Q Consensus 800 ae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g---~G~c~~L~t 862 (1176)
.|.||||+ .+++| +.+.+..+.+||+||++|.| +|..|..-.
T Consensus 504 IEagvDid-fd~mI--------------------Te~aPidSLIQR~GRv~R~g~~~~~~~~v~~~ 548 (733)
T COG1203 504 IEAGVDID-FDVLI--------------------TELAPIDSLIQRAGRVNRHGKKENGKIYVYND 548 (733)
T ss_pred EEEEeccc-cCeee--------------------ecCCCHHHHHHHHHHHhhcccccCCceeEeec
Confidence 99999998 55555 55788899999999999999 466555443
No 106
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=99.78 E-value=5.2e-18 Score=208.79 Aligned_cols=109 Identities=22% Similarity=0.206 Sum_probs=97.5
Q ss_pred CCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCC--
Q 001046 729 EPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTI-- 806 (1176)
Q Consensus 729 ~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdI-- 806 (1176)
..+.++||||++.+.++.++..|.+. ++....+|+.+...++..|...+.+|. |+||||+|+||+||
T Consensus 438 ~~g~pvLI~t~si~~se~ls~~L~~~---------gi~~~~Lna~~~~~Ea~ii~~ag~~g~--VtIATnmAGRGtDI~l 506 (796)
T PRK12906 438 AKGQPVLVGTVAIESSERLSHLLDEA---------GIPHAVLNAKNHAKEAEIIMNAGQRGA--VTIATNMAGRGTDIKL 506 (796)
T ss_pred hCCCCEEEEeCcHHHHHHHHHHHHHC---------CCCeeEecCCcHHHHHHHHHhcCCCce--EEEEeccccCCCCCCC
Confidence 45789999999999999999998763 566778999999888888888888776 99999999999999
Q ss_pred -CCee-----EEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC-CcEEEEecChHHH
Q 001046 807 -DGIF-----YVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTESAY 866 (1176)
Q Consensus 807 -p~V~-----~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~ 866 (1176)
++|. +||++.+ |.|...+.||.|||||.| ||.+..+++-++-
T Consensus 507 ~~~V~~~GGLhVI~te~------------------pes~ri~~Ql~GRtGRqG~~G~s~~~~sleD~ 555 (796)
T PRK12906 507 GPGVKELGGLAVIGTER------------------HESRRIDNQLRGRSGRQGDPGSSRFYLSLEDD 555 (796)
T ss_pred CcchhhhCCcEEEeeec------------------CCcHHHHHHHhhhhccCCCCcceEEEEeccch
Confidence 5899 9999988 999999999999999999 9999988887643
No 107
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=99.77 E-value=1.3e-20 Score=223.08 Aligned_cols=438 Identities=8% Similarity=-0.143 Sum_probs=340.0
Q ss_pred HHhcCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccC----CCEEEEeccHHHHHHHHHHHHHHHhCC
Q 001046 519 QRQSLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTT----RGKIGCTQPRRVAAMSVAKRVAEEFGC 594 (1176)
Q Consensus 519 ~r~~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~----~~~Ilv~~PrR~lA~qva~rva~e~g~ 594 (1176)
.+.-+|..++.+.+++++..+.++++.+.||||||++.++.+++..... -+.++..+||++.|...+.+++-+.++
T Consensus 401 etgcgk~tq~aq~iLe~~~~ns~g~~~na~v~qprrisaisiaerva~er~e~~g~tvgy~vRf~Sa~prpyg~i~fctv 480 (1282)
T KOG0921|consen 401 ETGCGKSTQVAQFLLESFLENSNGASFNAVVSQPRRISAISLAERVANERGEEVGETCGYNVRFDSATPRPYGSIMFCTV 480 (1282)
T ss_pred cccccchhHHHHHHHHHHhhccccccccceeccccccchHHHHHHHHHhhHHhhcccccccccccccccccccceeeecc
Confidence 3566899999999999999999999999999999999999999864433 357899999999999999988877777
Q ss_pred ccCCeeEEEeecccc-cCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEE
Q 001046 595 RLGEEVGYAIRFEDC-TGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIV 673 (1176)
Q Consensus 595 ~~G~~vGy~ir~~~~-~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIl 673 (1176)
.++...+|..+++.. ......+.++|++.|++.++.+ +....+.+.||.|+++++||++...+..+ .++.+
T Consensus 481 gvllr~~e~glrg~sh~i~deiherdv~~dfll~~lr~--m~~ty~dl~v~lmsatIdTd~f~~~f~~~------p~~~~ 552 (1282)
T KOG0921|consen 481 GVLLRMMENGLRGISHVIIDEIHERDVDTDFVLIVLRE--MISTYRDLRVVLMSATIDTDLFTNFFSSI------PDVTV 552 (1282)
T ss_pred chhhhhhhhcccccccccchhhhhhccchHHHHHHHHh--hhccchhhhhhhhhcccchhhhhhhhccc------cceee
Confidence 778888887776643 3456778899999999888754 66778899999999999999998888764 34599
Q ss_pred EcCCCCHHHHHhhhcCCCeEecCCceeeeEEEEe--------c----------------------------CCCchhHHH
Q 001046 674 TSATLDAEKFSGYFFNCNIFTIPGRTFPVEILYT--------K----------------------------QPESDYLDA 717 (1176)
Q Consensus 674 mSATl~~~~~~~~f~~~~v~~i~gr~~pv~~~~~--------~----------------------------~~~~~~~~~ 717 (1176)
+++|++...|..++..+++..+++++++++..+. . ......+++
T Consensus 553 ~grt~pvq~F~led~~~~~~~vp~~~~~~k~k~~~~~~~~~~ddK~~n~n~~~dd~~~~~~~~am~~~se~d~~f~l~Ea 632 (1282)
T KOG0921|consen 553 HGRTFPVQSFFLEDIIQMTQFVPSEPSQKKRKKDDDEEDEEVDDKGRNMNILCDPSYNESTRTAMSRLSEKDIPFGLIEA 632 (1282)
T ss_pred ccccccHHHHHHHHhhhhhhccCCCcCccchhhcccccCchhhhcccccccccChhhcchhhhhhhcchhhcchhHHHHH
Confidence 9999999999999999999999998877653320 0 011344444
Q ss_pred HHHHHH------HHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCc
Q 001046 718 SLITVL------QIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKR 791 (1176)
Q Consensus 718 ~l~~v~------~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~ 791 (1176)
.+..+. .+....+++..|+|++++.-+......+... .-++ .....+.+.|..+...++..+++....+.+
T Consensus 633 l~~~i~s~~i~gailvflpgwa~i~~L~~~ll~~~~fg~~~~y-~ilp--~Hsq~~~~eqrkvf~~~p~gv~kii~stni 709 (1282)
T KOG0921|consen 633 LLNDIASRNIDGAVLVFLPGWAEIMTLCNRLLEHQEFGQANKY-EILP--LHSQLTSQEQRKVFEPVPEGVTKIILSTNI 709 (1282)
T ss_pred HHhhhcccCCccceeeecCchHHhhhhhhhhhhhhhhccchhc-cccc--chhhcccHhhhhccCcccccccccccccce
Confidence 433322 1223467899999999998877766655432 1121 234567888999999999999999999999
Q ss_pred eEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCCCcEEEEecChHHHhhhCC
Q 001046 792 KVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTGPGKCYRLYTESAYRNEMS 871 (1176)
Q Consensus 792 kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g~G~c~~L~t~~~~~~~l~ 871 (1176)
+++..|+.+++.|.+..+.+|++++-.+.+.+-+...++...+.|.+...-.||.|+|+|...+.||.++....+. +|.
T Consensus 710 aetsiTidd~v~vid~cka~~~~~~s~nn~~~~Atvw~sktn~eqr~gr~grvR~G~~f~lcs~arF~~l~~~~t~-em~ 788 (1282)
T KOG0921|consen 710 AETSITIDDVVYVIDSCKAKEKLFTSHNNMTHYATVWASKTNLEQRKGRAGRVRPGFCFHLCSRARFEALEDHGTA-EMF 788 (1282)
T ss_pred eeEeeeecceeEEEeeeeeeeeeeccccceeeeeeecccccchHhhcccCceecccccccccHHHHHHHHHhcCcH-hhh
Confidence 9999999999999999999999999999999888888888888899999999999999999999999999988876 599
Q ss_pred CCCchhhhhcChHHHHHHHHHcCCCccccC--CCCCCCCHHHHHHHHHHHHHcCccccCCcccHHHHHHhcCCCChHHHH
Q 001046 872 PTSIPEIQRINLGFTTLTMKAMGINDLLSF--DFMDPPSPQALISAMEQLYSLGALDEEGLLTKLGRKMAEFPLDPPLSK 949 (1176)
Q Consensus 872 ~~~~pEI~r~~L~~~~L~lk~~gi~~~~~f--~~~~pP~~~~l~~al~~L~~lgald~~g~lT~lG~~~a~lpl~p~l~k 949 (1176)
.+..|||.++.+...++.++.+-..-+..+ +.+.+|+......+.-.+-..-+.+..-.+|.+++.....|+.|..++
T Consensus 789 r~plhemalTikll~l~SI~~fl~kal~~~p~dav~e~e~~l~~m~~ld~n~elt~lg~~la~l~iep~~~k~~~lg~~~ 868 (1282)
T KOG0921|consen 789 RTPLHEIALTIKLLRLGSIGEFLGKALQPPPYDAVIEAEAVLREMGALDANDELTPLGRMLARLPIEPRIGKMMILGTAL 868 (1282)
T ss_pred cCccHHHHhhHHHHHhhhHHHHHhhccCCCchhhccCchHHHHHhhhhhccCcccchhhhhhhccCcccccceeeechhh
Confidence 999999999887666666554433333333 345566655554444444444444444468999999999999999998
Q ss_pred HHHHhhhcCCHHHHHHHHH
Q 001046 950 MLLASVDLGCSDEILTIIA 968 (1176)
Q Consensus 950 ~ll~~~~~~c~~~~l~i~a 968 (1176)
+.+..+.+-.++-+.++++
T Consensus 869 g~~~~m~~~as~~s~~~~~ 887 (1282)
T KOG0921|consen 869 GAGSVMCDVASAMSFPTPF 887 (1282)
T ss_pred ccchhhhhhhccccccccc
Confidence 8776655443443334433
No 108
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=99.75 E-value=4.3e-17 Score=201.48 Aligned_cols=326 Identities=18% Similarity=0.169 Sum_probs=196.6
Q ss_pred HhcCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCe
Q 001046 520 RQSLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEE 599 (1176)
Q Consensus 520 r~~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~ 599 (1176)
+..|-++++-.|++-++.=++--|..+.||+|||.++.++++-..+. +..+-++.|+..||.+.+..+...+ ..+|..
T Consensus 75 ~R~lg~~~~dvQlig~l~L~~G~Iaem~TGeGKTLva~lpa~l~aL~-G~~V~IvTpn~yLA~rd~e~~~~l~-~~LGls 152 (830)
T PRK12904 75 KRVLGMRHFDVQLIGGMVLHEGKIAEMKTGEGKTLVATLPAYLNALT-GKGVHVVTVNDYLAKRDAEWMGPLY-EFLGLS 152 (830)
T ss_pred HHHhCCCCCccHHHhhHHhcCCchhhhhcCCCcHHHHHHHHHHHHHc-CCCEEEEecCHHHHHHHHHHHHHHH-hhcCCe
Confidence 34455666666677766444445889999999999988888644344 3357799999999999998765543 556777
Q ss_pred eEEEeecccc----cCCCceEEEeChHHH-HHHHhhCC-------CCCCCceEEEcCCCc------CCC---------ch
Q 001046 600 VGYAIRFEDC----TGPDTVIKYMTDGML-LREILIDD-------NLSQYSVIMLDEAHE------RTI---------HT 652 (1176)
Q Consensus 600 vGy~ir~~~~----~~~~t~I~~~T~g~L-lr~l~~~~-------~L~~~s~IIiDEaHe------R~~---------~~ 652 (1176)
||..+...+. ..-.++|+|+|++.| .+.|...- .++.+.++|||||+. |+. .+
T Consensus 153 v~~i~~~~~~~er~~~y~~dI~ygT~~elgfDyLrd~~~~~~~~~~~r~~~~aIvDEaDsiLIDeArtpLiiSg~~~~~~ 232 (830)
T PRK12904 153 VGVILSGMSPEERREAYAADITYGTNNEFGFDYLRDNMVFSLEERVQRGLNYAIVDEVDSILIDEARTPLIISGPAEDSS 232 (830)
T ss_pred EEEEcCCCCHHHHHHhcCCCeEEECCcchhhhhhhcccccchhhhcccccceEEEechhhheeccCCCceeeECCCCccc
Confidence 7765433211 113479999999999 66654332 367899999999982 211 11
Q ss_pred hHHHHHHHHHHh-hCC--------Cc------------------------------------------------------
Q 001046 653 DVLFGLLKQLVK-RRP--------DL------------------------------------------------------ 669 (1176)
Q Consensus 653 d~ll~llk~~~~-~r~--------~~------------------------------------------------------ 669 (1176)
+++ ..+..+.. ... .-
T Consensus 233 ~~y-~~~~~~v~~l~~~~dy~vde~~~~v~lte~G~~~~e~~~~~~~ly~~~~~~~~~~i~~AL~A~~l~~~d~dYiV~d 311 (830)
T PRK12904 233 ELY-KRANKIVPTLEKEGDYTVDEKSRTVGLTEEGIEKAEKLLGIENLYDPENIALVHHLNQALRAHELFKRDVDYIVKD 311 (830)
T ss_pred HHH-HHHHHHHHhcCCCCCeEEEcCCCeeeECHHHHHHHHHHhCCccccChhhhHHHHHHHHHHHHHHHHhcCCcEEEEC
Confidence 111 11111111 000 01
Q ss_pred -------------------------------------------------------cEEEEcCCCC--HHHHHhhhcCCCe
Q 001046 670 -------------------------------------------------------RLIVTSATLD--AEKFSGYFFNCNI 692 (1176)
Q Consensus 670 -------------------------------------------------------kvIlmSATl~--~~~~~~~f~~~~v 692 (1176)
++.+||.|.. .+.|.+.+ +-.+
T Consensus 312 g~V~ivDe~TGR~~~gr~ws~GLHQaiEaKE~v~i~~e~~t~a~It~qn~Fr~Y~kl~GmTGTa~te~~E~~~iY-~l~v 390 (830)
T PRK12904 312 GEVVIVDEFTGRLMPGRRYSDGLHQAIEAKEGVKIQNENQTLASITFQNYFRMYEKLAGMTGTADTEAEEFREIY-NLDV 390 (830)
T ss_pred CEEEEEECCCCccCCCCccchHHHHHHHHhcCCCCCCCceeeeeeeHHHHHHhcchhcccCCCcHHHHHHHHHHh-CCCE
Confidence 2333333331 11122211 2334
Q ss_pred EecCCceeeeE------EEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeE
Q 001046 693 FTIPGRTFPVE------ILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELI 766 (1176)
Q Consensus 693 ~~i~gr~~pv~------~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~ 766 (1176)
+.||... |+. ..|.. ..+...+....+...| ..+.++||||++.+.++.++..|.+. ++.
T Consensus 391 v~IPtnk-p~~r~d~~d~i~~t--~~~K~~aI~~~I~~~~--~~grpVLIft~Si~~se~Ls~~L~~~---------gi~ 456 (830)
T PRK12904 391 VVIPTNR-PMIRIDHPDLIYKT--EKEKFDAVVEDIKERH--KKGQPVLVGTVSIEKSELLSKLLKKA---------GIP 456 (830)
T ss_pred EEcCCCC-CeeeeeCCCeEEEC--HHHHHHHHHHHHHHHH--hcCCCEEEEeCcHHHHHHHHHHHHHC---------CCc
Confidence 4444321 111 11111 1122333333333333 35679999999999999999999763 566
Q ss_pred EEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCe---eEEEeCCccc-----c-----------eeccCCC
Q 001046 767 ILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGI---FYVIDPGFAK-----Q-----------NVYNPKQ 827 (1176)
Q Consensus 767 v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V---~~VId~g~~k-----~-----------~~yd~~~ 827 (1176)
...+|+. +.+|...+..|..+...|+||||+|+||+||+== .+.....+.. . ...-..-
T Consensus 457 ~~vLnak--q~eREa~Iia~Ag~~g~VtIATNmAGRGtDI~LgGn~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~G 534 (830)
T PRK12904 457 HNVLNAK--NHEREAEIIAQAGRPGAVTIATNMAGRGTDIKLGGNPEMLAAALLEEETEEQIAKIKAEWQEEHEEVLEAG 534 (830)
T ss_pred eEeccCc--hHHHHHHHHHhcCCCceEEEecccccCCcCccCCCchhhhhhhhhhhhhhHHHHHHHHHHhhhhhhHHHcC
Confidence 7788995 7788888999999999999999999999999721 0000000000 0 0000112
Q ss_pred CCcccccc-ccCHHHHHHHhcccCCCC-CcEEEEecChHH
Q 001046 828 GLDSLVIT-PISQASAKQRAGRAGRTG-PGKCYRLYTESA 865 (1176)
Q Consensus 828 g~~~l~~~-p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~ 865 (1176)
|+..+.+. +-|.--=.|-.|||||.| ||.+-.+.+-++
T Consensus 535 GLhVigTerhesrRid~QlrGRagRQGdpGss~f~lSleD 574 (830)
T PRK12904 535 GLHVIGTERHESRRIDNQLRGRSGRQGDPGSSRFYLSLED 574 (830)
T ss_pred CCEEEecccCchHHHHHHhhcccccCCCCCceeEEEEcCc
Confidence 44444443 788888899999999999 999877777554
No 109
>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]
Probab=99.72 E-value=2.4e-16 Score=189.12 Aligned_cols=162 Identities=19% Similarity=0.183 Sum_probs=113.1
Q ss_pred CCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcc--cCCCEEEEeccHHHHHHHHHHHHHHHhCCc-c--C
Q 001046 523 LPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGY--TTRGKIGCTQPRRVAAMSVAKRVAEEFGCR-L--G 597 (1176)
Q Consensus 523 LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~--~~~~~Ilv~~PrR~lA~qva~rva~e~g~~-~--G 597 (1176)
+-...+|.+.+..+..+..++|+|||.+|||+.-+ |..+..+ ...+.++++.|+.+|..|++..|-..+..+ + |
T Consensus 510 F~Pd~WQ~elLDsvDr~eSavIVAPTSaGKTfisf-Y~iEKVLResD~~VVIyvaPtKaLVnQvsa~VyaRF~~~t~~rg 588 (1330)
T KOG0949|consen 510 FCPDEWQRELLDSVDRNESAVIVAPTSAGKTFISF-YAIEKVLRESDSDVVIYVAPTKALVNQVSANVYARFDTKTFLRG 588 (1330)
T ss_pred cCCcHHHHHHhhhhhcccceEEEeeccCCceeccH-HHHHHHHhhcCCCEEEEecchHHHhhhhhHHHHHhhccCccccc
Confidence 55668999999999999999999999999996544 4444333 235689999999999999998876665321 1 2
Q ss_pred CeeEEEeecc-cccCCCceEEEeChHHHHHHHhhCC----CCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEE
Q 001046 598 EEVGYAIRFE-DCTGPDTVIKYMTDGMLLREILIDD----NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLI 672 (1176)
Q Consensus 598 ~~vGy~ir~~-~~~~~~t~I~~~T~g~Llr~l~~~~----~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvI 672 (1176)
..+-.....+ ....-+++|+++-|..|-..|++.| +..++.+||+||+|.-+-.-|-++ ...+-..-.+.+|
T Consensus 589 ~sl~g~ltqEYsinp~nCQVLITvPecleslLlspp~~q~~cerIRyiIfDEVH~iG~~ed~l~---~Eqll~li~CP~L 665 (1330)
T KOG0949|consen 589 VSLLGDLTQEYSINPWNCQVLITVPECLESLLLSPPHHQKFCERIRYIIFDEVHLIGNEEDGLL---WEQLLLLIPCPFL 665 (1330)
T ss_pred hhhHhhhhHHhcCCchhceEEEEchHHHHHHhcCchhhhhhhhcceEEEechhhhccccccchH---HHHHHHhcCCCee
Confidence 1111011111 1112368999999998887777644 688999999999996444443221 1111222367899
Q ss_pred EEcCCC-CHHHHHhhhc
Q 001046 673 VTSATL-DAEKFSGYFF 688 (1176)
Q Consensus 673 lmSATl-~~~~~~~~f~ 688 (1176)
++|||+ |++.|..|+.
T Consensus 666 ~LSATigN~~l~qkWln 682 (1330)
T KOG0949|consen 666 VLSATIGNPNLFQKWLN 682 (1330)
T ss_pred EEecccCCHHHHHHHHH
Confidence 999999 7888888874
No 110
>PF04408 HA2: Helicase associated domain (HA2); InterPro: IPR007502 This presumed domain is about 90 amino acid residues in length. It is found as a diverse set of RNA helicases. Its function is unknown, however it seems likely to be involved in nucleic acid binding.; GO: 0004386 helicase activity; PDB: 3I4U_A 2XAU_B 3KX2_B.
Probab=99.70 E-value=2.5e-17 Score=157.15 Aligned_cols=91 Identities=52% Similarity=0.822 Sum_probs=67.3
Q ss_pred HHHHHHHHcCccccCCcccHHHHHHhcCCCChHHHHHHHHhhhcCCHHHHHHHHHHhcCCCCCCCchhHHHHHH--HHHh
Q 001046 914 SAMEQLYSLGALDEEGLLTKLGRKMAEFPLDPPLSKMLLASVDLGCSDEILTIIAMIQTGNIFYRPREKQAQAD--QKRA 991 (1176)
Q Consensus 914 ~al~~L~~lgald~~g~lT~lG~~~a~lpl~p~l~k~ll~~~~~~c~~~~l~i~a~ls~~~~f~~p~~~~~~~~--~~~~ 991 (1176)
.|++.|+.+||||++|+||++|+.|+.||++|++|+||+.|..++|++++++|||+|+++++|..|.+++...+ ..+.
T Consensus 1 ~A~~~L~~Lgald~~~~lT~lG~~~~~lPl~p~~a~~Ll~~~~~~~~~~~~~iaa~ls~~~~f~~~~~~~~~~~~~~~~~ 80 (102)
T PF04408_consen 1 KALELLKSLGALDENGNLTPLGRKMSQLPLDPRLAKMLLYGIQFGCLDEALIIAAILSVRSPFINPDDKEENAEQDNAKK 80 (102)
T ss_dssp -HHHHHHHTTSB-TTS-B-HHHHHHTTSSS-HHHHHHHHHHHHCT-HHHHHHHHHHHTSS--B---CCGHHHHHH--HHH
T ss_pred CHHHHHHHCCCCCCCCCcCHHHHHHHHCCCchHhHhHhhhccccccHHHHHHHHHHHcCCCcccCccHHHHHHHHHHHHH
Confidence 48899999999999999999999999999999999999999999999999999999999999999754333222 2333
Q ss_pred ---------hcCCCCCcHHHHH
Q 001046 992 ---------KFFQPEGDHLTLL 1004 (1176)
Q Consensus 992 ---------~~~~~~~D~l~~l 1004 (1176)
.+.+..|||+|+|
T Consensus 81 ~~~~~~~~~~~~~~~sDhltlL 102 (102)
T PF04408_consen 81 KFRIKQARKKFSDDESDHLTLL 102 (102)
T ss_dssp TT----------BTTBHHHHHH
T ss_pred HhhhhhcccccCCCCCCHHhcC
Confidence 3477899999986
No 111
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=99.69 E-value=6.6e-16 Score=190.46 Aligned_cols=125 Identities=16% Similarity=0.091 Sum_probs=90.6
Q ss_pred HhcCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCe
Q 001046 520 RQSLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEE 599 (1176)
Q Consensus 520 r~~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~ 599 (1176)
+..|-+.++-.|++-++.-++--|..++||.|||+++.++++...+.. ..|.|+.|++.||.+.+..+...+ ..+|..
T Consensus 76 ~R~lgm~~ydVQliGgl~L~~G~IaEm~TGEGKTL~a~lp~~l~al~g-~~VhIvT~ndyLA~RD~e~m~~l~-~~lGls 153 (908)
T PRK13107 76 KRVFEMRHFDVQLLGGMVLDSNRIAEMRTGEGKTLTATLPAYLNALTG-KGVHVITVNDYLARRDAENNRPLF-EFLGLT 153 (908)
T ss_pred HHHhCCCcCchHHhcchHhcCCccccccCCCCchHHHHHHHHHHHhcC-CCEEEEeCCHHHHHHHHHHHHHHH-HhcCCe
Confidence 445666666677887776566668899999999999998888766554 448899999999999998765544 336777
Q ss_pred eEEEeeccc----ccCCCceEEEeChHHH-HHHHhhCC-------CCCCCceEEEcCCC
Q 001046 600 VGYAIRFED----CTGPDTVIKYMTDGML-LREILIDD-------NLSQYSVIMLDEAH 646 (1176)
Q Consensus 600 vGy~ir~~~----~~~~~t~I~~~T~g~L-lr~l~~~~-------~L~~~s~IIiDEaH 646 (1176)
||..+.... ...-.++|+|+|++.| ++.|...- ....+.++|||||+
T Consensus 154 v~~i~~~~~~~~r~~~Y~~dI~YgT~~e~gfDyLrdnm~~~~~~~vqr~~~~aIvDEvD 212 (908)
T PRK13107 154 VGINVAGLGQQEKKAAYNADITYGTNNEFGFDYLRDNMAFSPQERVQRPLHYALIDEVD 212 (908)
T ss_pred EEEecCCCCHHHHHhcCCCCeEEeCCCcccchhhhccCccchhhhhccccceeeecchh
Confidence 775433221 1123689999999998 55544331 23778999999998
No 112
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=99.69 E-value=4.1e-15 Score=183.63 Aligned_cols=123 Identities=14% Similarity=0.082 Sum_probs=95.2
Q ss_pred cCC--chHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCe
Q 001046 522 SLP--IYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEE 599 (1176)
Q Consensus 522 ~LP--i~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~ 599 (1176)
..| +.++|.+++..+..++++|+.++||+|||+++.++++...+.. ..++++.|++.||.|.+..+. .++..+|..
T Consensus 88 ~~p~~~tp~qvQ~I~~i~l~~gvIAeaqTGeGKTLAf~LP~l~~aL~g-~~v~IVTpTrELA~Qdae~m~-~L~k~lGLs 165 (970)
T PRK12899 88 HQQWDMVPYDVQILGAIAMHKGFITEMQTGEGKTLTAVMPLYLNALTG-KPVHLVTVNDYLAQRDCEWVG-SVLRWLGLT 165 (970)
T ss_pred cCCCCCChHHHHHhhhhhcCCCeEEEeCCCCChHHHHHHHHHHHHhhc-CCeEEEeCCHHHHHHHHHHHH-HHHhhcCCe
Confidence 345 8899999999999999999999999999999999998765543 347888999999999998654 444556667
Q ss_pred eEEEeeccccc----CCCceEEEeChHHH-HHHHhhCC-CC-------CCCceEEEcCCC
Q 001046 600 VGYAIRFEDCT----GPDTVIKYMTDGML-LREILIDD-NL-------SQYSVIMLDEAH 646 (1176)
Q Consensus 600 vGy~ir~~~~~----~~~t~I~~~T~g~L-lr~l~~~~-~L-------~~~s~IIiDEaH 646 (1176)
+|..+...+.. .-.++|+|+|||.| ++.+.... .+ +.+.++|||||+
T Consensus 166 V~~i~GG~~~~eq~~~y~~DIVygTPgRLgfDyLrd~~~~~~~~~~vqr~~~~~IIDEAD 225 (970)
T PRK12899 166 TGVLVSGSPLEKRKEIYQCDVVYGTASEFGFDYLRDNSIATRKEEQVGRGFYFAIIDEVD 225 (970)
T ss_pred EEEEeCCCCHHHHHHHcCCCEEEECCChhHHHHhhCCCCCcCHHHhhcccccEEEEechh
Confidence 77554432211 12579999999999 88776552 23 356899999998
No 113
>KOG0953 consensus Mitochondrial RNA helicase SUV3, DEAD-box superfamily [RNA processing and modification]
Probab=99.69 E-value=5.7e-16 Score=177.36 Aligned_cols=275 Identities=24% Similarity=0.270 Sum_probs=182.8
Q ss_pred cCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCceEE
Q 001046 538 DNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTVIK 617 (1176)
Q Consensus 538 ~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t~I~ 617 (1176)
..++++-+|||.||||+-+.+-+.+. ..-++.-|.|.||.+++.|+ ...|.++....|-..++..........+
T Consensus 190 ~RkIi~H~GPTNSGKTy~ALqrl~~a-----ksGvycGPLrLLA~EV~~r~-na~gipCdL~TGeE~~~~~~~~~~a~hv 263 (700)
T KOG0953|consen 190 RRKIIMHVGPTNSGKTYRALQRLKSA-----KSGVYCGPLRLLAHEVYDRL-NALGIPCDLLTGEERRFVLDNGNPAQHV 263 (700)
T ss_pred hheEEEEeCCCCCchhHHHHHHHhhh-----ccceecchHHHHHHHHHHHh-hhcCCCccccccceeeecCCCCCcccce
Confidence 45668889999999999998877664 34588899999999999996 6778887777776666654445556777
Q ss_pred EeChHHHHHHHhhCCCCCCCceEEEcCCCc-----CCC-chhHHHHHHHHHHhhCCCccEEEEcCCCC-HHHHHhhhcCC
Q 001046 618 YMTDGMLLREILIDDNLSQYSVIMLDEAHE-----RTI-HTDVLFGLLKQLVKRRPDLRLIVTSATLD-AEKFSGYFFNC 690 (1176)
Q Consensus 618 ~~T~g~Llr~l~~~~~L~~~s~IIiDEaHe-----R~~-~~d~ll~llk~~~~~r~~~kvIlmSATl~-~~~~~~~f~~~ 690 (1176)
-||-+|. +.-..|++.||||++- |+. .|..|+++...-+.. .+=-|-++ +..+..
T Consensus 264 ScTVEM~-------sv~~~yeVAViDEIQmm~Dp~RGwAWTrALLGl~AdEiHL------CGepsvldlV~~i~k----- 325 (700)
T KOG0953|consen 264 SCTVEMV-------SVNTPYEVAVIDEIQMMRDPSRGWAWTRALLGLAADEIHL------CGEPSVLDLVRKILK----- 325 (700)
T ss_pred EEEEEEe-------ecCCceEEEEehhHHhhcCcccchHHHHHHHhhhhhhhhc------cCCchHHHHHHHHHh-----
Confidence 7888775 3346789999999983 332 234455554443222 22112221 122222
Q ss_pred CeEecCCceeeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEe
Q 001046 691 NIFTIPGRTFPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPV 770 (1176)
Q Consensus 691 ~v~~i~gr~~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~l 770 (1176)
..|.. |++++.+.-.+-.+.. .++.-...-.+|+++|-. ++.+|-.+...+.+. .+..+..+
T Consensus 326 ----~TGd~--vev~~YeRl~pL~v~~---~~~~sl~nlk~GDCvV~F-Skk~I~~~k~kIE~~--------g~~k~aVI 387 (700)
T KOG0953|consen 326 ----MTGDD--VEVREYERLSPLVVEE---TALGSLSNLKPGDCVVAF-SKKDIFTVKKKIEKA--------GNHKCAVI 387 (700)
T ss_pred ----hcCCe--eEEEeecccCcceehh---hhhhhhccCCCCCeEEEe-ehhhHHHHHHHHHHh--------cCcceEEE
Confidence 22333 3333222211111111 122222334567777644 677888888888765 24457889
Q ss_pred cCCCCHHHHHhhcCCC--CCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcc
Q 001046 771 YSALPSEMQSRIFDPA--PPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGR 848 (1176)
Q Consensus 771 hs~l~~~~r~~i~~~f--~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GR 848 (1176)
||+||++.|..--..| +.+..+|+|||+..++|+|+. |+-||-+.+.| |+ .-.+.+++.+++.|-+||
T Consensus 388 YGsLPPeTr~aQA~~FNd~~~e~dvlVAsDAIGMGLNL~-IrRiiF~sl~K---ys------g~e~~~it~sqikQIAGR 457 (700)
T KOG0953|consen 388 YGSLPPETRLAQAALFNDPSNECDVLVASDAIGMGLNLN-IRRIIFYSLIK---YS------GRETEDITVSQIKQIAGR 457 (700)
T ss_pred ecCCCCchhHHHHHHhCCCCCccceEEeecccccccccc-eeEEEEeeccc---CC------cccceeccHHHHHHHhhc
Confidence 9999998754433334 358899999999999999998 88888666633 33 334568999999999999
Q ss_pred cCCCC----CcEEEEecChH
Q 001046 849 AGRTG----PGKCYRLYTES 864 (1176)
Q Consensus 849 AGR~g----~G~c~~L~t~~ 864 (1176)
|||.| .|.+-.|+.++
T Consensus 458 AGRf~s~~~~G~vTtl~~eD 477 (700)
T KOG0953|consen 458 AGRFGSKYPQGEVTTLHSED 477 (700)
T ss_pred ccccccCCcCceEEEeeHhh
Confidence 99998 58888888875
No 114
>PF00270 DEAD: DEAD/DEAH box helicase; InterPro: IPR011545 Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0008026 ATP-dependent helicase activity; PDB: 3RRM_A 3RRN_A 3PEW_A 2KBE_A 3PEY_A 3FHO_A 2ZJA_A 2ZJ8_A 2ZJ5_A 2ZJ2_A ....
Probab=99.67 E-value=5.6e-16 Score=161.22 Aligned_cols=154 Identities=25% Similarity=0.256 Sum_probs=112.5
Q ss_pred HHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccC-CCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEee
Q 001046 527 KLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTT-RGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIR 605 (1176)
Q Consensus 527 ~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~-~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir 605 (1176)
++|.++++.+.++++++++||||||||+++..+++...... ..++++++|+++++.++..++...++. .+..+.....
T Consensus 2 ~~Q~~~~~~i~~~~~~li~aptGsGKT~~~~~~~l~~~~~~~~~~~lii~P~~~l~~q~~~~~~~~~~~-~~~~~~~~~~ 80 (169)
T PF00270_consen 2 PLQQEAIEAIISGKNVLISAPTGSGKTLAYILPALNRLQEGKDARVLIIVPTRALAEQQFERLRKFFSN-TNVRVVLLHG 80 (169)
T ss_dssp HHHHHHHHHHHTTSEEEEECSTTSSHHHHHHHHHHHHHHTTSSSEEEEEESSHHHHHHHHHHHHHHTTT-TTSSEEEEST
T ss_pred HHHHHHHHHHHcCCCEEEECCCCCccHHHHHHHHHhhhccCCCceEEEEeecccccccccccccccccc-cccccccccc
Confidence 67999999999999999999999999999999998765553 349999999999999999998776654 2222332211
Q ss_pred ccc-------ccCCCceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCCcCCCc--hhHHHHHHHHHHhhCCCccEEEEc
Q 001046 606 FED-------CTGPDTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAHERTIH--TDVLFGLLKQLVKRRPDLRLIVTS 675 (1176)
Q Consensus 606 ~~~-------~~~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaHeR~~~--~d~ll~llk~~~~~r~~~kvIlmS 675 (1176)
... ....+..|+|+|+++|++.+.... .+.++++|||||+|..... .+.+..++.. ....++.++|+||
T Consensus 81 ~~~~~~~~~~~~~~~~~ilv~T~~~l~~~~~~~~~~~~~~~~iViDE~h~l~~~~~~~~~~~i~~~-~~~~~~~~~i~~S 159 (169)
T PF00270_consen 81 GQSISEDQREVLSNQADILVTTPEQLLDLISNGKINISRLSLIVIDEAHHLSDETFRAMLKSILRR-LKRFKNIQIILLS 159 (169)
T ss_dssp TSCHHHHHHHHHHTTSSEEEEEHHHHHHHHHTTSSTGTTESEEEEETHHHHHHTTHHHHHHHHHHH-SHTTTTSEEEEEE
T ss_pred cccccccccccccccccccccCcchhhccccccccccccceeeccCcccccccccHHHHHHHHHHH-hcCCCCCcEEEEe
Confidence 111 112468999999999999887632 5666999999999963332 2222222332 2233478999999
Q ss_pred CCCCHHHH
Q 001046 676 ATLDAEKF 683 (1176)
Q Consensus 676 ATl~~~~~ 683 (1176)
||++ ..+
T Consensus 160 AT~~-~~~ 166 (169)
T PF00270_consen 160 ATLP-SNV 166 (169)
T ss_dssp SSST-HHH
T ss_pred eCCC-hhH
Confidence 9997 443
No 115
>COG1098 VacB Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]
Probab=99.64 E-value=1.5e-16 Score=149.35 Aligned_cols=77 Identities=36% Similarity=0.597 Sum_probs=73.3
Q ss_pred CCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe-CcEeEEEEeecccc
Q 001046 220 EPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS-GQKLSLSMRDVDQN 298 (1176)
Q Consensus 220 ~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id-~~ki~Ls~k~~dq~ 298 (1176)
.+++|++++|+|++|++|||||+|++ +..|||||||+...++.++.+.+++||.|.|||+++| ++||+||+|...+.
T Consensus 2 ~~kvG~~l~GkItgI~~yGAFV~l~~--g~tGLVHISEIa~~fVkdI~d~L~vG~eV~vKVl~ide~GKisLSIr~~~e~ 79 (129)
T COG1098 2 SMKVGSKLKGKITGITPYGAFVELEG--GKTGLVHISEIADGFVKDIHDHLKVGQEVKVKVLDIDENGKISLSIRKLEEE 79 (129)
T ss_pred CccccceEEEEEEeeEecceEEEecC--CCcceEEehHhhhhhHHhHHHHhcCCCEEEEEEEeeccCCCcceehHHhhhC
Confidence 46899999999999999999999987 7899999999999999999999999999999999999 78999999998766
No 116
>cd00268 DEADc DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.
Probab=99.62 E-value=9.5e-15 Score=157.11 Aligned_cols=166 Identities=17% Similarity=0.130 Sum_probs=115.2
Q ss_pred CchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccC----CCEEEEeccHHHHHHHHHHHHHHHhCCccCCe
Q 001046 524 PIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTT----RGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEE 599 (1176)
Q Consensus 524 Pi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~----~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~ 599 (1176)
.++++|.++++.+.+++++++++|||+|||..+.++++...... +++++++.|+++++.|++..+.... ...+..
T Consensus 21 ~~~~~Q~~~~~~~~~~~~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~~~L~~q~~~~~~~~~-~~~~~~ 99 (203)
T cd00268 21 KPTPIQARAIPPLLSGRDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPTRELALQIAEVARKLG-KHTNLK 99 (203)
T ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCCHHHHHHHHHHHHHHh-ccCCce
Confidence 36889999999999999999999999999999888877754442 4589999999999999998765543 222333
Q ss_pred eEEEeeccc------ccCCCceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCCcCCCchhHHHHHHHHHH-hhCCCccE
Q 001046 600 VGYAIRFED------CTGPDTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAHERTIHTDVLFGLLKQLV-KRRPDLRL 671 (1176)
Q Consensus 600 vGy~ir~~~------~~~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~-~~r~~~kv 671 (1176)
++....... ....+..|+++|++.|++.+.... .+.++++||+||+|.-. ...+. ..+..+. ...++.++
T Consensus 100 ~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~l~~~~~~~~~l~~lIvDE~h~~~-~~~~~-~~~~~~~~~l~~~~~~ 177 (203)
T cd00268 100 VVVIYGGTSIDKQIRKLKRGPHIVVATPGRLLDLLERGKLDLSKVKYLVLDEADRML-DMGFE-DQIREILKLLPKDRQT 177 (203)
T ss_pred EEEEECCCCHHHHHHHhcCCCCEEEEChHHHHHHHHcCCCChhhCCEEEEeChHHhh-ccChH-HHHHHHHHhCCcccEE
Confidence 332111111 112367899999999998887654 67889999999999522 22221 2222222 23458999
Q ss_pred EEEcCCCC--HHHHHhhhcCCCe
Q 001046 672 IVTSATLD--AEKFSGYFFNCNI 692 (1176)
Q Consensus 672 IlmSATl~--~~~~~~~f~~~~v 692 (1176)
++||||++ .+.+..-+.+.++
T Consensus 178 ~~~SAT~~~~~~~~~~~~~~~~~ 200 (203)
T cd00268 178 LLFSATMPKEVRDLARKFLRNPV 200 (203)
T ss_pred EEEeccCCHHHHHHHHHHCCCCE
Confidence 99999996 3444444444443
No 117
>smart00847 HA2 Helicase associated domain (HA2) Add an annotation. This presumed domain is about 90 amino acid residues in length. It is found is a diverse set of RNA helicases. Its function is unknown, however it seems likely to be involved in nucleic acid binding.
Probab=99.61 E-value=1.5e-15 Score=142.21 Aligned_cols=90 Identities=64% Similarity=1.002 Sum_probs=81.3
Q ss_pred HHHHHHHHcCccccCCcccHHHHHHhcCCCChHHHHHHHHhhhc-CCHHHHHHHHHHhcCCCCCCCchhHHHHHHHHHhh
Q 001046 914 SAMEQLYSLGALDEEGLLTKLGRKMAEFPLDPPLSKMLLASVDL-GCSDEILTIIAMIQTGNIFYRPREKQAQADQKRAK 992 (1176)
Q Consensus 914 ~al~~L~~lgald~~g~lT~lG~~~a~lpl~p~l~k~ll~~~~~-~c~~~~l~i~a~ls~~~~f~~p~~~~~~~~~~~~~ 992 (1176)
.|++.|+.+||||.+|+||++|+.|+.||++|++||||+.++.+ +|.+++++|+|++++.++|..| .+.......+..
T Consensus 1 ~A~~~L~~LgAld~~~~lT~lG~~m~~lPl~Prla~~Ll~a~~~~~c~~~~~~i~a~ls~~~~~~~~-~~~~~~~~~~~~ 79 (92)
T smart00847 1 AALELLYELGALDDDGRLTPLGRKMAELPLDPRLAKMLLAAAELFGCLDEILTIAAMLSVGDPFPRP-EKRAEADAARRR 79 (92)
T ss_pred CHHHHHHHCCCcCCCCCcCHHHHHHHHCCCChHHHHHHHHHHhhcCcHHHHHHHHHHhcCCCCcCCc-hHHHHHHHHHHH
Confidence 37899999999999999999999999999999999999999999 8999999999999999999877 455566667778
Q ss_pred cCCC-CCcHHHHH
Q 001046 993 FFQP-EGDHLTLL 1004 (1176)
Q Consensus 993 ~~~~-~~D~l~~l 1004 (1176)
|... .|||++++
T Consensus 80 ~~~~~~~D~~~~l 92 (92)
T smart00847 80 FASGRESDHLTLL 92 (92)
T ss_pred ccCCCCCChhhhC
Confidence 8888 89999874
No 118
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=99.60 E-value=1.5e-13 Score=165.69 Aligned_cols=335 Identities=14% Similarity=0.176 Sum_probs=197.7
Q ss_pred CCchHHHHHHHHHH----HcC-CeEEEEcCCCCcHHHHHHHHHHHhccc-CCCEEEEeccHHHHHHHHHHHHHHHhCCcc
Q 001046 523 LPIYKLKKELIQAV----HDN-QVLVVIGETGSGKTTQVTQYLAEAGYT-TRGKIGCTQPRRVAAMSVAKRVAEEFGCRL 596 (1176)
Q Consensus 523 LPi~~~q~~ii~ai----~~~-~~vIv~apTGSGKTt~~~~~lle~~~~-~~~~Ilv~~PrR~lA~qva~rva~e~g~~~ 596 (1176)
+-.+.+|..+|..+ .+| +-++|++.||+|||..+.+++...... .-++||+++-|++|..|....+...+ +.
T Consensus 164 i~~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTAiaii~rL~r~~~~KRVLFLaDR~~Lv~QA~~af~~~~--P~ 241 (875)
T COG4096 164 IGPRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTAIAIIDRLIKSGWVKRVLFLADRNALVDQAYGAFEDFL--PF 241 (875)
T ss_pred ccchHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeHHHHHHHHHhcchhheeeEEechHHHHHHHHHHHHHhC--CC
Confidence 33466777776654 333 469999999999997666665543221 13589999999999999987765543 22
Q ss_pred CCeeEEEeecccccCCCceEEEeChHHHHHHHhhC-C-----CCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCcc
Q 001046 597 GEEVGYAIRFEDCTGPDTVIKYMTDGMLLREILID-D-----NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLR 670 (1176)
Q Consensus 597 G~~vGy~ir~~~~~~~~t~I~~~T~g~Llr~l~~~-~-----~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~k 670 (1176)
|..+- .-.+......++|.++|-..+...+... . ....+++||||||| |++..+.- +++..+- .-
T Consensus 242 ~~~~n--~i~~~~~~~s~~i~lsTyqt~~~~~~~~~~~~~~f~~g~FDlIvIDEaH-Rgi~~~~~-~I~dYFd-----A~ 312 (875)
T COG4096 242 GTKMN--KIEDKKGDTSSEIYLSTYQTMTGRIEQKEDEYRRFGPGFFDLIVIDEAH-RGIYSEWS-SILDYFD-----AA 312 (875)
T ss_pred cccee--eeecccCCcceeEEEeehHHHHhhhhccccccccCCCCceeEEEechhh-hhHHhhhH-HHHHHHH-----HH
Confidence 22221 1112222336799999998888777654 1 34568999999999 88776532 3333322 22
Q ss_pred EEEEcCCCCH---HHHHhhhcCCCeEe------------cCCceeeeEEEEecC--------------------CCchh-
Q 001046 671 LIVTSATLDA---EKFSGYFFNCNIFT------------IPGRTFPVEILYTKQ--------------------PESDY- 714 (1176)
Q Consensus 671 vIlmSATl~~---~~~~~~f~~~~v~~------------i~gr~~pv~~~~~~~--------------------~~~~~- 714 (1176)
+++++||+.. ..=..||.+.|+.. ++.+.+.+.+.+... ...+|
T Consensus 313 ~~gLTATP~~~~d~~T~~~F~g~Pt~~YsleeAV~DGfLvpy~vi~i~~~~~~~G~~~~~~serek~~g~~i~~dd~~~~ 392 (875)
T COG4096 313 TQGLTATPKETIDRSTYGFFNGEPTYAYSLEEAVEDGFLVPYKVIRIDTDFDLDGWKPDAGSEREKLQGEAIDEDDQNFE 392 (875)
T ss_pred HHhhccCcccccccccccccCCCcceeecHHHHhhccccCCCCceEEeeeccccCcCcCccchhhhhhccccCccccccc
Confidence 3455999942 12334565655532 222222222222110 00000
Q ss_pred ------------HHHHHH-HHHHHHhc--C--CCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHH
Q 001046 715 ------------LDASLI-TVLQIHLT--E--PEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSE 777 (1176)
Q Consensus 715 ------------~~~~l~-~v~~i~~~--~--~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~ 777 (1176)
....+. .+...... . ..+++||||.+..+++.+...|........ +-.+..+.+.-...
T Consensus 393 ~~d~dr~~v~~~~~~~V~r~~~~~l~~~~~g~~~~KTIvFa~n~dHAe~i~~~~~~~ype~~----~~~a~~IT~d~~~~ 468 (875)
T COG4096 393 ARDFDRTLVIPFRTETVARELTEYLKRGATGDEIGKTIVFAKNHDHAERIREALVNEYPEYN----GRYAMKITGDAEQA 468 (875)
T ss_pred ccccchhccccchHHHHHHHHHHHhccccCCCccCceEEEeeCcHHHHHHHHHHHHhCcccc----CceEEEEeccchhh
Confidence 011112 22222222 1 147899999999999999999987654422 22344444544332
Q ss_pred HHHhhcCCC-CCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCCC--
Q 001046 778 MQSRIFDPA-PPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTGP-- 854 (1176)
Q Consensus 778 ~r~~i~~~f-~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g~-- 854 (1176)
|..|-.-+ +..-.+|.|+.+.+.||||+|.|..+|-.-. -.|+.-|.|++||+-|.++
T Consensus 469 -q~~Id~f~~ke~~P~IaitvdlL~TGiDvpev~nlVF~r~------------------VrSktkF~QMvGRGTRl~~~~ 529 (875)
T COG4096 469 -QALIDNFIDKEKYPRIAITVDLLTTGVDVPEVVNLVFDRK------------------VRSKTKFKQMVGRGTRLCPDL 529 (875)
T ss_pred -HHHHHHHHhcCCCCceEEehhhhhcCCCchheeeeeehhh------------------hhhHHHHHHHhcCccccCccc
Confidence 22221111 3445789999999999999999988882222 4689999999999999873
Q ss_pred c-----E-EEEecC---hHHHhhhCCCCCchhhhhcChHHHHHHHHH
Q 001046 855 G-----K-CYRLYT---ESAYRNEMSPTSIPEIQRINLGFTTLTMKA 892 (1176)
Q Consensus 855 G-----~-c~~L~t---~~~~~~~l~~~~~pEI~r~~L~~~~L~lk~ 892 (1176)
| + .|.+|. --.|- .|.+...+.-.+..|..-++....
T Consensus 530 ~~~~~dK~~F~ifDf~~~~~~~-~~~~~~~e~~~~~~l~~rLF~~~~ 575 (875)
T COG4096 530 GGPEQDKEFFTIFDFVDNTEYF-EMDPEMREGRVRVSLEQRLFADRL 575 (875)
T ss_pred cCccccceeEEEEEhhhhhhhh-ccCcccccccccchHHHHHhhhhh
Confidence 3 2 344443 22232 255555665556665554444333
No 119
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=99.59 E-value=4.1e-14 Score=173.99 Aligned_cols=314 Identities=18% Similarity=0.248 Sum_probs=194.7
Q ss_pred cCCchHHHHHHHHHHHcC----CeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccC
Q 001046 522 SLPIYKLKKELIQAVHDN----QVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLG 597 (1176)
Q Consensus 522 ~LPi~~~q~~ii~ai~~~----~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G 597 (1176)
.+.+..-|..+++.|... ...++.|-||||||-.+.+.+.+. +..+..+++++|-..|.-|+..|+...||.+++
T Consensus 196 ~~~Ln~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~~i~~~-L~~GkqvLvLVPEI~Ltpq~~~rf~~rFg~~v~ 274 (730)
T COG1198 196 WLALNQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEAIAKV-LAQGKQVLVLVPEIALTPQLLARFKARFGAKVA 274 (730)
T ss_pred ccccCHHHHHHHHHHHHhcccccceeEeCCCCCcHHHHHHHHHHHH-HHcCCEEEEEeccccchHHHHHHHHHHhCCChh
Confidence 356777888888888665 789999999999999999988775 566789999999999999999999999997765
Q ss_pred CeeEEEe---ecc---cccCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHH----HHHHHHHHhhCC
Q 001046 598 EEVGYAI---RFE---DCTGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVL----FGLLKQLVKRRP 667 (1176)
Q Consensus 598 ~~vGy~i---r~~---~~~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~l----l~llk~~~~~r~ 667 (1176)
.....-- +.+ ...+...+|++.|---+. .-+.++++|||||=|+-+...+-- ..-+..+.....
T Consensus 275 vlHS~Ls~~er~~~W~~~~~G~~~vVIGtRSAlF------~Pf~~LGLIIvDEEHD~sYKq~~~prYhARdvA~~Ra~~~ 348 (730)
T COG1198 275 VLHSGLSPGERYRVWRRARRGEARVVIGTRSALF------LPFKNLGLIIVDEEHDSSYKQEDGPRYHARDVAVLRAKKE 348 (730)
T ss_pred hhcccCChHHHHHHHHHHhcCCceEEEEechhhc------CchhhccEEEEeccccccccCCcCCCcCHHHHHHHHHHHh
Confidence 4332111 111 123356788888753331 247899999999999644333210 001111222345
Q ss_pred CccEEEEcCCCCHHHHHhhhcC-CCeEecCCcee---eeEEEEecCCC----ch-hHHHHHHHHHHHHhcCCCCCEEEEe
Q 001046 668 DLRLIVTSATLDAEKFSGYFFN-CNIFTIPGRTF---PVEILYTKQPE----SD-YLDASLITVLQIHLTEPEGDILLFL 738 (1176)
Q Consensus 668 ~~kvIlmSATl~~~~~~~~f~~-~~v~~i~gr~~---pv~~~~~~~~~----~~-~~~~~l~~v~~i~~~~~~g~iLVFl 738 (1176)
++.+|+-|||+..+.+.....+ ...+.+..|.. +..+....... .+ ++...+...+.-.+ +.+.++|+|+
T Consensus 349 ~~pvvLgSATPSLES~~~~~~g~y~~~~L~~R~~~a~~p~v~iiDmr~e~~~~~~~lS~~Ll~~i~~~l-~~geQ~llfl 427 (730)
T COG1198 349 NAPVVLGSATPSLESYANAESGKYKLLRLTNRAGRARLPRVEIIDMRKEPLETGRSLSPALLEAIRKTL-ERGEQVLLFL 427 (730)
T ss_pred CCCEEEecCCCCHHHHHhhhcCceEEEEccccccccCCCcceEEeccccccccCccCCHHHHHHHHHHH-hcCCeEEEEE
Confidence 8899999999998887776544 23344444332 22222221110 00 02222222221111 2234555555
Q ss_pred CCHHHH------------------------------------------------------------HHHHHHHHHHHhcc
Q 001046 739 TGQEEI------------------------------------------------------------DFACQSLYERMKGL 758 (1176)
Q Consensus 739 ~~~~ei------------------------------------------------------------~~l~~~L~~~~~~l 758 (1176)
|.+.-. +++.+.|...
T Consensus 428 nRRGys~~l~C~~Cg~v~~Cp~Cd~~lt~H~~~~~L~CH~Cg~~~~~p~~Cp~Cgs~~L~~~G~GterieeeL~~~---- 503 (730)
T COG1198 428 NRRGYAPLLLCRDCGYIAECPNCDSPLTLHKATGQLRCHYCGYQEPIPQSCPECGSEHLRAVGPGTERIEEELKRL---- 503 (730)
T ss_pred ccCCccceeecccCCCcccCCCCCcceEEecCCCeeEeCCCCCCCCCCCCCCCCCCCeeEEecccHHHHHHHHHHH----
Confidence 544322 1112222221
Q ss_pred CCCCCCeEEEEecCCCCHH--HHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCC--ccccc
Q 001046 759 GKNVPELIILPVYSALPSE--MQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGL--DSLVI 834 (1176)
Q Consensus 759 ~~~~~~~~v~~lhs~l~~~--~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~--~~l~~ 834 (1176)
.|+..++-+-++.+.. .-...+..|.+|+..|||-|.+++.|.++|+|+.|. +-|..+++ ..+.-
T Consensus 504 ---FP~~rv~r~d~Dtt~~k~~~~~~l~~~~~ge~dILiGTQmiaKG~~fp~vtLVg--------vl~aD~~L~~~DfRA 572 (730)
T COG1198 504 ---FPGARIIRIDSDTTRRKGALEDLLDQFANGEADILIGTQMIAKGHDFPNVTLVG--------VLDADTGLGSPDFRA 572 (730)
T ss_pred ---CCCCcEEEEccccccchhhHHHHHHHHhCCCCCeeecchhhhcCCCcccceEEE--------EEechhhhcCCCcch
Confidence 2556666666665442 244677889999999999999999999999999985 12222222 12222
Q ss_pred cccCHHHHHHHhcccCCCC-CcEEE
Q 001046 835 TPISQASAKQRAGRAGRTG-PGKCY 858 (1176)
Q Consensus 835 ~p~S~as~~QR~GRAGR~g-~G~c~ 858 (1176)
.--...-+.|=+|||||.+ +|..+
T Consensus 573 ~Er~fqll~QvaGRAgR~~~~G~Vv 597 (730)
T COG1198 573 SERTFQLLMQVAGRAGRAGKPGEVV 597 (730)
T ss_pred HHHHHHHHHHHHhhhccCCCCCeEE
Confidence 2345567899999999996 78765
No 120
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=99.58 E-value=3.9e-14 Score=175.46 Aligned_cols=109 Identities=19% Similarity=0.187 Sum_probs=93.5
Q ss_pred CCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCC-
Q 001046 729 EPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTID- 807 (1176)
Q Consensus 729 ~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp- 807 (1176)
..+.++||||++.+.++.++..|... ++....+|+ .+.+|...+..|..+...|+||||+|+||+||+
T Consensus 596 ~~grpVLIft~Sve~sE~Ls~~L~~~---------gI~h~vLna--kq~~REa~Iia~AG~~g~VtIATNMAGRGtDIkl 664 (1025)
T PRK12900 596 KKGQPVLVGTASVEVSETLSRMLRAK---------RIAHNVLNA--KQHDREAEIVAEAGQKGAVTIATNMAGRGTDIKL 664 (1025)
T ss_pred hCCCCEEEEeCcHHHHHHHHHHHHHc---------CCCceeecC--CHHHhHHHHHHhcCCCCeEEEeccCcCCCCCcCC
Confidence 45789999999999999999888763 555677886 577888888899999999999999999999999
Q ss_pred --CeeE-----EEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC-CcEEEEecChHHH
Q 001046 808 --GIFY-----VIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTESAY 866 (1176)
Q Consensus 808 --~V~~-----VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~~ 866 (1176)
+|.. ||++.. |.|...|.||+|||||.| ||.+..+++.++.
T Consensus 665 ~~~V~~vGGL~VIgter------------------hes~Rid~Ql~GRtGRqGdpGsS~ffvSleD~ 713 (1025)
T PRK12900 665 GEGVRELGGLFILGSER------------------HESRRIDRQLRGRAGRQGDPGESVFYVSLEDE 713 (1025)
T ss_pred ccchhhhCCceeeCCCC------------------CchHHHHHHHhhhhhcCCCCcceEEEechhHH
Confidence 5543 366555 889999999999999999 9999999998765
No 121
>TIGR00348 hsdR type I site-specific deoxyribonuclease, HsdR family. Members of this family are assumed to differ from each other in DNA site specificity.
Probab=99.55 E-value=2.7e-13 Score=170.16 Aligned_cols=286 Identities=13% Similarity=0.055 Sum_probs=164.0
Q ss_pred CCeEEEEcCCCCcHHHHHHHHHHHhc-ccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeec-ccccCCCceE
Q 001046 539 NQVLVVIGETGSGKTTQVTQYLAEAG-YTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRF-EDCTGPDTVI 616 (1176)
Q Consensus 539 ~~~vIv~apTGSGKTt~~~~~lle~~-~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~-~~~~~~~t~I 616 (1176)
.+..+|+.+||||||..+...+.... .....+|++++||..|..|..+.+.......+ ..++..-.. .........|
T Consensus 263 ~~~gli~~~TGsGKT~t~~~la~~l~~~~~~~~vl~lvdR~~L~~Q~~~~f~~~~~~~~-~~~~s~~~L~~~l~~~~~~i 341 (667)
T TIGR00348 263 ERGGLIWHTQGSGKTLTMLFAARKALELLKNPKVFFVVDRRELDYQLMKEFQSLQKDCA-ERIESIAELKRLLEKDDGGI 341 (667)
T ss_pred CceeEEEEecCCCccHHHHHHHHHHHhhcCCCeEEEEECcHHHHHHHHHHHHhhCCCCC-cccCCHHHHHHHHhCCCCCE
Confidence 35799999999999976655543321 23356899999999999999998765432111 001100000 0012234689
Q ss_pred EEeChHHHHHHHhhC--C-CCCCC-ceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCCCC----HHHHHhhhc
Q 001046 617 KYMTDGMLLREILID--D-NLSQY-SVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSATLD----AEKFSGYFF 688 (1176)
Q Consensus 617 ~~~T~g~Llr~l~~~--~-~L~~~-s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSATl~----~~~~~~~f~ 688 (1176)
+++|-..|.+.+... + ..... -+||+|||| |+....+ ...+ ....|+..+|+||||+- ...+ ..|+
T Consensus 342 ivtTiQk~~~~~~~~~~~~~~~~~~~lvIvDEaH-rs~~~~~-~~~l---~~~~p~a~~lGfTaTP~~~~d~~t~-~~f~ 415 (667)
T TIGR00348 342 IITTIQKFDKKLKEEEEKFPVDRKEVVVIFDEAH-RSQYGEL-AKNL---KKALKNASFFGFTGTPIFKKDRDTS-LTFA 415 (667)
T ss_pred EEEEhHHhhhhHhhhhhccCCCCCCEEEEEEcCc-cccchHH-HHHH---HhhCCCCcEEEEeCCCccccccccc-cccc
Confidence 999999887643221 1 11111 289999999 7765542 2222 23567889999999993 1222 1222
Q ss_pred ---CCCeEec-------CCceeeeEEEEecCCCch------------------------hH-------------------
Q 001046 689 ---NCNIFTI-------PGRTFPVEILYTKQPESD------------------------YL------------------- 715 (1176)
Q Consensus 689 ---~~~v~~i-------~gr~~pv~~~~~~~~~~~------------------------~~------------------- 715 (1176)
+.++... .|-..|+ .|....... ..
T Consensus 416 ~~fg~~i~~Y~~~~AI~dG~~~~i--~Y~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 493 (667)
T TIGR00348 416 YVFGRYLHRYFITDAIRDGLTVKI--DYEDRLPEDHLDRKKLDAFFDEIFELLPERIREITKESLKEKLQKTKKILFNED 493 (667)
T ss_pred CCCCCeEEEeeHHHHhhcCCeeeE--EEEecchhhccChHHHHHHHHHHHHhhhccccHHHHHHHHHHHHHHHhhhcChH
Confidence 2223221 2333333 332211100 00
Q ss_pred --HHHHHHHHHHH---hcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHH-------------
Q 001046 716 --DASLITVLQIH---LTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSE------------- 777 (1176)
Q Consensus 716 --~~~l~~v~~i~---~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~------------- 777 (1176)
......++.-. .....++.+|||.++..+..+.+.|.+.+.... +...+.++++-..+
T Consensus 494 ~~~~ia~~i~~h~~~~~~~~~~kamvv~~sr~~a~~~~~~l~~~~~~~~----~~~~vv~s~~~~~~~~~~~~~~~~~~~ 569 (667)
T TIGR00348 494 RLESIAKDIAEHYAKFKELFKFKAMVVAISRYACVEEKNALDEELNEKF----EASAIVMTGKESDDAEIRDYNKHIRTK 569 (667)
T ss_pred HHHHHHHHHHHHHHHhhhcccCceeEEEecHHHHHHHHHHHHhhccccc----CCeeEEecCCccchhHHHHHHHHhccc
Confidence 00000111100 112258999999999999888888766543221 12233344332221
Q ss_pred --------HHHhhcCCCCC-CCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcc
Q 001046 778 --------MQSRIFDPAPP-GKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGR 848 (1176)
Q Consensus 778 --------~r~~i~~~f~~-g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GR 848 (1176)
....+.+.|.. +..+|||.++.+-||+|.|.+.+++ .-.|..-..++|.+||
T Consensus 570 ~~~~~~~~~~~~~~~~Fk~~~~~~ilIVvdmllTGFDaP~l~tLy-------------------ldKplk~h~LlQai~R 630 (667)
T TIGR00348 570 FDKSDGFEIYYKDLERFKKEENPKLLIVVDMLLTGFDAPILNTLY-------------------LDKPLKYHGLLQAIAR 630 (667)
T ss_pred cccchhhhHHHHHHHHhcCCCCceEEEEEcccccccCCCccceEE-------------------EeccccccHHHHHHHH
Confidence 11245666654 6789999999999999999998887 1115555578999999
Q ss_pred cCCC-CCcE
Q 001046 849 AGRT-GPGK 856 (1176)
Q Consensus 849 AGR~-g~G~ 856 (1176)
+-|. .+|+
T Consensus 631 ~nR~~~~~K 639 (667)
T TIGR00348 631 TNRIDGKDK 639 (667)
T ss_pred hccccCCCC
Confidence 9994 5443
No 122
>KOG4150 consensus Predicted ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.54 E-value=2.7e-14 Score=162.74 Aligned_cols=310 Identities=15% Similarity=0.051 Sum_probs=203.8
Q ss_pred CCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhc-ccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeE
Q 001046 523 LPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAG-YTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVG 601 (1176)
Q Consensus 523 LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~-~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vG 601 (1176)
--.+.+|.++++.+.+|+.+++.-.|.+||+|+......... .......++..|+.++++...+-..-.+..-....-.
T Consensus 285 E~~~~~~~~~~~~~~~G~~~~~~~~~~~GK~~~~~~~s~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~V~~~~I~~~K~A 364 (1034)
T KOG4150|consen 285 ESGIAISLELLKFASEGRADGGNEARQAGKGTCPTSGSRKFQTLCHATNSLLPSEMVEHLRNGSKGQVVHVEVIKARKSA 364 (1034)
T ss_pred cchhhhhHHHHhhhhhcccccccchhhcCCccCcccchhhhhhcCcccceecchhHHHHhhccCCceEEEEEehhhhhcc
Confidence 346788999999999999999999999999987655444321 2223456888898888876543110000000000001
Q ss_pred EEeecccc--------cCCCceEEEeChHHHHHHHhhCC-----CCCCCceEEEcCCCcCCCchhH-HHHHHHHH---Hh
Q 001046 602 YAIRFEDC--------TGPDTVIKYMTDGMLLREILIDD-----NLSQYSVIMLDEAHERTIHTDV-LFGLLKQL---VK 664 (1176)
Q Consensus 602 y~ir~~~~--------~~~~t~I~~~T~g~Llr~l~~~~-----~L~~~s~IIiDEaHeR~~~~d~-ll~llk~~---~~ 664 (1176)
|.-..+.. ...+.+++|..+.+....++... .+-...++++||+|-.-.-+.. ....++.+ +.
T Consensus 365 ~V~~~D~~sE~~~~A~~R~~~~~~~s~~~~~~s~~L~~~~~~~~~~~~~~~~~~~~~~~Y~~~~~~~~~~~~R~L~~L~~ 444 (1034)
T KOG4150|consen 365 YVEMSDKLSETTKSALKRIGLNTLYSHQAEAISAALAKSLCYNVPVFEELCKDTNSCALYLFPTKALAQDQLRALSDLIK 444 (1034)
T ss_pred eeecccCCCchhHHHHHhcCcceeecCHHHHHHHHhhhccccccHHHHHHHhcccceeeeecchhhHHHHHHHHHHHHHH
Confidence 11111111 11467888999888877666443 2344567899999963322222 11222222 22
Q ss_pred ---hCCCccEEEEcCCC-C-HHHHHhhhc--CCCeEecCCceeeeEEEEecCCC---------chhHHHHHHHHHHHHhc
Q 001046 665 ---RRPDLRLIVTSATL-D-AEKFSGYFF--NCNIFTIPGRTFPVEILYTKQPE---------SDYLDASLITVLQIHLT 728 (1176)
Q Consensus 665 ---~r~~~kvIlmSATl-~-~~~~~~~f~--~~~v~~i~gr~~pv~~~~~~~~~---------~~~~~~~l~~v~~i~~~ 728 (1176)
...+++++-.|||+ + .......|+ ...++++.|.+..-+.+..-.|. .+++......+.++ .
T Consensus 445 ~F~~~~~~~~~~~~~~~K~~~~~~~~~~~~~E~~Li~~DGSPs~~K~~V~WNP~~~P~~~~~~~~~i~E~s~~~~~~--i 522 (1034)
T KOG4150|consen 445 GFEASINMGVYDGDTPYKDRTRLRSELANLSELELVTIDGSPSSEKLFVLWNPSAPPTSKSEKSSKVVEVSHLFAEM--V 522 (1034)
T ss_pred HHHhhcCcceEeCCCCcCCHHHHHHHhcCCcceEEEEecCCCCccceEEEeCCCCCCcchhhhhhHHHHHHHHHHHH--H
Confidence 34689999999999 3 444555554 34567777766544443332221 12222222222222 2
Q ss_pred CCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCC
Q 001046 729 EPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDG 808 (1176)
Q Consensus 729 ~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~ 808 (1176)
..+-.+|-||+.+.-|+.+....++.+.+.++++ --.+..+.|+...++|.+|....-.|+.+-|||||.+|.||||.+
T Consensus 523 ~~~~R~IAFC~~R~~CEL~~~~~R~I~~ET~~~L-V~~i~SYRGGY~A~DRRKIE~~~F~G~L~giIaTNALELGIDIG~ 601 (1034)
T KOG4150|consen 523 QHGLRCIAFCPSRKLCELVLCLTREILAETAPHL-VEAITSYRGGYIAEDRRKIESDLFGGKLCGIIATNALELGIDIGH 601 (1034)
T ss_pred HcCCcEEEeccHHHHHHHHHHHHHHHHHHhhHHH-HHHHHhhcCccchhhHHHHHHHhhCCeeeEEEecchhhhcccccc
Confidence 3466899999999988887777666655444321 113567789999999999999999999999999999999999999
Q ss_pred eeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC
Q 001046 809 IFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG 853 (1176)
Q Consensus 809 V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g 853 (1176)
++.|+.+|| |.|.+++.|.+|||||..
T Consensus 602 LDAVl~~GF------------------P~S~aNl~QQ~GRAGRRN 628 (1034)
T KOG4150|consen 602 LDAVLHLGF------------------PGSIANLWQQAGRAGRRN 628 (1034)
T ss_pred ceeEEEccC------------------chhHHHHHHHhccccccC
Confidence 999999999 999999999999999988
No 123
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=99.50 E-value=1.7e-12 Score=158.53 Aligned_cols=274 Identities=17% Similarity=0.159 Sum_probs=179.5
Q ss_pred cCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccC---C
Q 001046 522 SLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLG---E 598 (1176)
Q Consensus 522 ~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G---~ 598 (1176)
..+.|..|.--...+..|+..-++||||.||||....+.+-.+ .++++++++.||..|+.|+++++.+.. ...| .
T Consensus 80 G~~~ws~QR~WakR~~rg~SFaiiAPTGvGKTTfg~~~sl~~a-~kgkr~yii~PT~~Lv~Q~~~kl~~~~-e~~~~~~~ 157 (1187)
T COG1110 80 GFRPWSAQRVWAKRLVRGKSFAIIAPTGVGKTTFGLLMSLYLA-KKGKRVYIIVPTTTLVRQVYERLKKFA-EDAGSLDV 157 (1187)
T ss_pred CCCchHHHHHHHHHHHcCCceEEEcCCCCchhHHHHHHHHHHH-hcCCeEEEEecCHHHHHHHHHHHHHHH-hhcCCcce
Confidence 3467788888888999999999999999999987766555432 235789999999999999999986543 2222 2
Q ss_pred eeEEEeecc---------cccCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCc---CCCchhHHHHHHH------
Q 001046 599 EVGYAIRFE---------DCTGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHE---RTIHTDVLFGLLK------ 660 (1176)
Q Consensus 599 ~vGy~ir~~---------~~~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHe---R~~~~d~ll~llk------ 660 (1176)
.++|+-... ...+.+.+|+++|.+.|...+-.-.. -++++|++|.+|- .+-+.|-++.++-
T Consensus 158 ~~~yh~~l~~~ekee~le~i~~gdfdIlitTs~FL~k~~e~L~~-~kFdfifVDDVDA~LkaskNvDriL~LlGf~eE~i 236 (1187)
T COG1110 158 LVVYHSALPTKEKEEALERIESGDFDILITTSQFLSKRFEELSK-LKFDFIFVDDVDAILKASKNVDRLLRLLGFSEEVI 236 (1187)
T ss_pred eeeeccccchHHHHHHHHHHhcCCccEEEEeHHHHHhhHHHhcc-cCCCEEEEccHHHHHhccccHHHHHHHcCCCHHHH
Confidence 222332211 12235689999999988776643222 4789999999992 2333343332221
Q ss_pred ----------HHH----------------------hhCCCccEEEEcCCCCH-----HHHHhhhcCCCeEecCCceeeeE
Q 001046 661 ----------QLV----------------------KRRPDLRLIVTSATLDA-----EKFSGYFFNCNIFTIPGRTFPVE 703 (1176)
Q Consensus 661 ----------~~~----------------------~~r~~~kvIlmSATl~~-----~~~~~~f~~~~v~~i~gr~~pv~ 703 (1176)
..+ .....-.+|++|||..+ ..|...++ -.+-....-...+.
T Consensus 237 ~~a~~~~~lr~~~~~~~~~~~~~e~~~~~e~~~~~~r~k~g~LvvsSATg~~rg~R~~LfReLlg-FevG~~~~~LRNIv 315 (1187)
T COG1110 237 ESAYELIKLRRKLYGEKRAERVREELREVEREREKKRRKLGILVVSSATGKPRGSRLKLFRELLG-FEVGSGGEGLRNIV 315 (1187)
T ss_pred HHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhccCCceEEEeeccCCCCCchHHHHHHHhC-CccCccchhhhhee
Confidence 100 11234579999999953 34444442 11111111112333
Q ss_pred EEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCC---HHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHH
Q 001046 704 ILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTG---QEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQS 780 (1176)
Q Consensus 704 ~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~---~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~ 780 (1176)
..|... .-.+ .++.+...- +...|||++. ++.++.+++.|.. .++.+..+|+. ..
T Consensus 316 D~y~~~---~~~e----~~~elvk~l-G~GgLIfV~~d~G~e~aeel~e~Lr~---------~Gi~a~~~~a~-----~~ 373 (1187)
T COG1110 316 DIYVES---ESLE----KVVELVKKL-GDGGLIFVPIDYGREKAEELAEYLRS---------HGINAELIHAE-----KE 373 (1187)
T ss_pred eeeccC---ccHH----HHHHHHHHh-CCCeEEEEEcHHhHHHHHHHHHHHHh---------cCceEEEeecc-----ch
Confidence 344433 2222 222222222 3367999998 7877887777765 36778888874 25
Q ss_pred hhcCCCCCCCceEEEEc----chhhhccCCCC-eeEEEeCCcccce
Q 001046 781 RIFDPAPPGKRKVVVAT----NIAEASLTIDG-IFYVIDPGFAKQN 821 (1176)
Q Consensus 781 ~i~~~f~~g~~kVlVAT----niae~GIdIp~-V~~VId~g~~k~~ 821 (1176)
+.++.|..|++.|+|.. +++-+|||+|. |+|+|-+|..|.+
T Consensus 374 ~~le~F~~GeidvLVGvAsyYG~lVRGlDLP~rirYaIF~GvPk~r 419 (1187)
T COG1110 374 EALEDFEEGEVDVLVGVASYYGVLVRGLDLPHRIRYAVFYGVPKFR 419 (1187)
T ss_pred hhhhhhccCceeEEEEecccccceeecCCchhheeEEEEecCCcee
Confidence 77899999999999876 68999999998 9999999998654
No 124
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=99.47 E-value=3.6e-13 Score=167.26 Aligned_cols=115 Identities=18% Similarity=0.098 Sum_probs=100.2
Q ss_pred CCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCC
Q 001046 729 EPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDG 808 (1176)
Q Consensus 729 ~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~ 808 (1176)
..+..+||||+++..++.+++.|.+. ++.+..+||+++..+|..++..|+.|...|+|||+++++|+|+|+
T Consensus 440 ~~g~~vLIf~~tk~~ae~L~~~L~~~---------gi~~~~lh~~~~~~eR~~~l~~fr~G~i~VLV~t~~L~rGfDiP~ 510 (655)
T TIGR00631 440 ARNERVLVTTLTKKMAEDLTDYLKEL---------GIKVRYLHSEIDTLERVEIIRDLRLGEFDVLVGINLLREGLDLPE 510 (655)
T ss_pred cCCCEEEEEECCHHHHHHHHHHHhhh---------ccceeeeeCCCCHHHHHHHHHHHhcCCceEEEEcChhcCCeeeCC
Confidence 44678999999999999999998763 567888999999999999999999999999999999999999999
Q ss_pred eeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCCCcEEEEecChHH
Q 001046 809 IFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTGPGKCYRLYTESA 865 (1176)
Q Consensus 809 V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g~G~c~~L~t~~~ 865 (1176)
+.+||.++--. ...|.+..+|+||+|||||..+|+|+.+++...
T Consensus 511 v~lVvi~Dadi-------------fG~p~~~~~~iqriGRagR~~~G~vi~~~~~~~ 554 (655)
T TIGR00631 511 VSLVAILDADK-------------EGFLRSERSLIQTIGRAARNVNGKVIMYADKIT 554 (655)
T ss_pred CcEEEEeCccc-------------ccCCCCHHHHHHHhcCCCCCCCCEEEEEEcCCC
Confidence 99999766200 012889999999999999999999999887543
No 125
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative. This model represents a family of proteins in Gram-positive bacteria. The N-terminal region of about 200 amino acids resembles the epsilon subunit of E. coli DNA polymerase III and the homologous region of the Gram-positive type DNA polymerase III alpha subunit. The epsilon subunit contains an exonuclease domain. The remainder of this protein family resembles a predicted ATP-dependent helicase, the DNA damage-inducible protein DinG of E. coli.
Probab=99.46 E-value=9.6e-12 Score=160.85 Aligned_cols=139 Identities=17% Similarity=0.241 Sum_probs=89.1
Q ss_pred hhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCce
Q 001046 713 DYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRK 792 (1176)
Q Consensus 713 ~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~k 792 (1176)
.|.......+..+.. ..+|.+|||+++....+.++..|...+.. .++.++. .+.. ..|.++++.|+.+...
T Consensus 657 ~~~~~ia~~i~~l~~-~~~g~~LVlftS~~~l~~v~~~L~~~~~~-----~~~~~l~--q~~~-~~r~~ll~~F~~~~~~ 727 (850)
T TIGR01407 657 EYAQEIASYIIEITA-ITSPKILVLFTSYEMLHMVYDMLNELPEF-----EGYEVLA--QGIN-GSRAKIKKRFNNGEKA 727 (850)
T ss_pred HHHHHHHHHHHHHHH-hcCCCEEEEeCCHHHHHHHHHHHhhhccc-----cCceEEe--cCCC-ccHHHHHHHHHhCCCe
Confidence 455555555555533 34689999999999999999888653211 1233332 2222 4677888999999999
Q ss_pred EEEEcchhhhccCCCCee--EEEeCCcccceeccC----------CCCCcccc--ccccCHHHHHHHhcccCCCC--CcE
Q 001046 793 VVVATNIAEASLTIDGIF--YVIDPGFAKQNVYNP----------KQGLDSLV--ITPISQASAKQRAGRAGRTG--PGK 856 (1176)
Q Consensus 793 VlVATniae~GIdIp~V~--~VId~g~~k~~~yd~----------~~g~~~l~--~~p~S~as~~QR~GRAGR~g--~G~ 856 (1176)
||+||+.+.+|||+|+.. .||=.++.-..--|| ..|-+.+. ..|...-.+.|-+||.=|.. .|.
T Consensus 728 iLlgt~sf~EGVD~~g~~l~~viI~~LPf~~p~dp~~~a~~~~~~~~g~~~f~~~~lP~A~~~l~Qa~GRlIRs~~D~G~ 807 (850)
T TIGR01407 728 ILLGTSSFWEGVDFPGNGLVCLVIPRLPFANPKHPLTKKYWQKLEQEGKNPFYDYVLPMAIIRLRQALGRLIRRENDRGS 807 (850)
T ss_pred EEEEcceeecccccCCCceEEEEEeCCCCCCCCCHHHHHHHHHHHHhcCCchHHhhHHHHHHHHHHhhccccccCCceEE
Confidence 999999999999999965 455455432211111 01111111 12445667899999999988 576
Q ss_pred EEEe
Q 001046 857 CYRL 860 (1176)
Q Consensus 857 c~~L 860 (1176)
.+.|
T Consensus 808 v~il 811 (850)
T TIGR01407 808 IVIL 811 (850)
T ss_pred EEEE
Confidence 6544
No 126
>PTZ00248 eukaryotic translation initiation factor 2 subunit 1; Provisional
Probab=99.46 E-value=1.4e-13 Score=153.83 Aligned_cols=97 Identities=21% Similarity=0.348 Sum_probs=90.1
Q ss_pred CCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEEEeeccc
Q 001046 220 EPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSMRDVDQ 297 (1176)
Q Consensus 220 ~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~k~~dq 297 (1176)
-|.+|+++.|+|++|.+||+||+|.++.+.+||||+|+++|.++.++.+++++||.|.|+|+++| +++|+||+|.+.+
T Consensus 14 ~P~~GdvV~g~V~~I~d~GafV~L~EY~gvEGlIhiSElS~~ri~~i~d~vkvGd~v~vkVl~VD~ekg~IdLS~K~v~~ 93 (319)
T PTZ00248 14 FPEEDDLVMVKVVRITEMGAYVSLLEYDDIEGMILMSELSKRRIRSINKLIRVGRHEVVVVLRVDKEKGYIDLSKKRVSP 93 (319)
T ss_pred CCCCCCEEEEEEEEEeCCeEEEEecCCCCcEEEEEHHHhcccccCCHHHhcCCCCEEEEEEEEEeCCCCEEEEEeeeccc
Confidence 45689999999999999999999987778999999999999999999999999999999999998 6799999999998
Q ss_pred cCCCCCChhhhhhhccCCCCCCCCC
Q 001046 298 NTGKDLLPLKKISEDDALGNNPSGT 322 (1176)
Q Consensus 298 ~tg~d~~P~~~~~~~~~~~~~~~g~ 322 (1176)
+ ||....+.++.+..+.|.
T Consensus 94 ~------pw~~~~e~~~~g~~v~~~ 112 (319)
T PTZ00248 94 E------DIEACEEKFSKSKKVHSI 112 (319)
T ss_pred c------hHHHHHHhCcCCCEEEEE
Confidence 8 999999999988777664
No 127
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=99.46 E-value=4.6e-12 Score=162.02 Aligned_cols=307 Identities=16% Similarity=0.129 Sum_probs=186.3
Q ss_pred CchHHHHHHHHHHH----cCCeEEEEcCCCCcHHHHHHHHHHHhc--ccCCCEEEEeccHHHHHHHHHHHHHHHhCCccC
Q 001046 524 PIYKLKKELIQAVH----DNQVLVVIGETGSGKTTQVTQYLAEAG--YTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLG 597 (1176)
Q Consensus 524 Pi~~~q~~ii~ai~----~~~~vIv~apTGSGKTt~~~~~lle~~--~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G 597 (1176)
.+++||.+.+..+. .+...|+.-+.|.|||.|+..++.... ....+.+||++|.-. ..+....+.+... ..
T Consensus 169 ~Lr~YQleGlnWLi~l~~~g~gGILADEMGLGKTlQaIalL~~L~~~~~~~gp~LIVvP~Sl-L~nW~~Ei~kw~p--~l 245 (1033)
T PLN03142 169 KMRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQTISLLGYLHEYRGITGPHMVVAPKST-LGNWMNEIRRFCP--VL 245 (1033)
T ss_pred chHHHHHHHHHHHHHHHhcCCCEEEEeCCCccHHHHHHHHHHHHHHhcCCCCCEEEEeChHH-HHHHHHHHHHHCC--CC
Confidence 47899999998874 567889999999999988776664421 223457899999754 4455555544332 11
Q ss_pred CeeEEEeecc--------cccCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhH-HHHHHHHHHhhCCC
Q 001046 598 EEVGYAIRFE--------DCTGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDV-LFGLLKQLVKRRPD 668 (1176)
Q Consensus 598 ~~vGy~ir~~--------~~~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~-ll~llk~~~~~r~~ 668 (1176)
..+-|.-... ........|+++|..++.+....- .--.+.+|||||||. --+... +...++.+ ..
T Consensus 246 ~v~~~~G~~~eR~~~~~~~~~~~~~dVvITSYe~l~~e~~~L-~k~~W~~VIvDEAHr-IKN~~Sklskalr~L----~a 319 (1033)
T PLN03142 246 RAVKFHGNPEERAHQREELLVAGKFDVCVTSFEMAIKEKTAL-KRFSWRYIIIDEAHR-IKNENSLLSKTMRLF----ST 319 (1033)
T ss_pred ceEEEeCCHHHHHHHHHHHhcccCCCcceecHHHHHHHHHHh-ccCCCCEEEEcCccc-cCCHHHHHHHHHHHh----hc
Confidence 1122211100 011235679999999987654221 123578999999994 333322 22222222 23
Q ss_pred ccEEEEcCCCC---HH------------------HHHhhhcCCC-----------------eE----------ecCCcee
Q 001046 669 LRLIVTSATLD---AE------------------KFSGYFFNCN-----------------IF----------TIPGRTF 700 (1176)
Q Consensus 669 ~kvIlmSATl~---~~------------------~~~~~f~~~~-----------------v~----------~i~gr~~ 700 (1176)
...+++|+|+= .. .|..+|.... ++ .+|.+.
T Consensus 320 ~~RLLLTGTPlqNnl~ELwsLL~FL~P~~f~s~~~F~~~f~~~~~~~~~e~i~~L~~~L~pf~LRR~KsdV~~~LPpK~- 398 (1033)
T PLN03142 320 NYRLLITGTPLQNNLHELWALLNFLLPEIFSSAETFDEWFQISGENDQQEVVQQLHKVLRPFLLRRLKSDVEKGLPPKK- 398 (1033)
T ss_pred CcEEEEecCCCCCCHHHHHHHHhcCCCCcCCCHHHHHHHHccccccchHHHHHHHHHHhhHHHhhhhHHHHhhhCCCce-
Confidence 35688999982 22 2222332110 00 011110
Q ss_pred eeEEEEecCCC--ch-h---HH-------------HHHHHHHH-------------------------------------
Q 001046 701 PVEILYTKQPE--SD-Y---LD-------------ASLITVLQ------------------------------------- 724 (1176)
Q Consensus 701 pv~~~~~~~~~--~~-~---~~-------------~~l~~v~~------------------------------------- 724 (1176)
..+.+..... .. | +. ..+..+++
T Consensus 399 -e~iv~v~LS~~Qk~lY~~ll~k~~~~l~~g~~~~~LlnilmqLRk~cnHP~L~~~~ep~~~~~~~e~lie~SgKl~lLd 477 (1033)
T PLN03142 399 -ETILKVGMSQMQKQYYKALLQKDLDVVNAGGERKRLLNIAMQLRKCCNHPYLFQGAEPGPPYTTGEHLVENSGKMVLLD 477 (1033)
T ss_pred -eEEEeeCCCHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhCCHHhhhcccccCcccchhHHhhhhhHHHHHH
Confidence 0111111110 00 0 00 00000000
Q ss_pred -H--HhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCC---CCceEEEEcc
Q 001046 725 -I--HLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPP---GKRKVVVATN 798 (1176)
Q Consensus 725 -i--~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~---g~~kVlVATn 798 (1176)
+ .....+.++|||+.-...++.+...|.. .++.++.+||+++..+|..+++.|.. +..-+|++|.
T Consensus 478 kLL~~Lk~~g~KVLIFSQft~~LdiLed~L~~---------~g~~y~rIdGsts~~eRq~~Id~Fn~~~s~~~VfLLSTr 548 (1033)
T PLN03142 478 KLLPKLKERDSRVLIFSQMTRLLDILEDYLMY---------RGYQYCRIDGNTGGEDRDASIDAFNKPGSEKFVFLLSTR 548 (1033)
T ss_pred HHHHHHHhcCCeEEeehhHHHHHHHHHHHHHH---------cCCcEEEECCCCCHHHHHHHHHHhccccCCceEEEEecc
Confidence 0 0122456899998876665555555543 25677889999999999999999954 3346789999
Q ss_pred hhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC---CcEEEEecChHHHhh
Q 001046 799 IAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG---PGKCYRLYTESAYRN 868 (1176)
Q Consensus 799 iae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g---~G~c~~L~t~~~~~~ 868 (1176)
+++.|||+...++||.++. |-+++...|+.|||-|-| +=.+|+|+++...+.
T Consensus 549 AGGlGINLt~Ad~VIiyD~------------------dWNP~~d~QAidRaHRIGQkk~V~VyRLIt~gTIEE 603 (1033)
T PLN03142 549 AGGLGINLATADIVILYDS------------------DWNPQVDLQAQDRAHRIGQKKEVQVFRFCTEYTIEE 603 (1033)
T ss_pred ccccCCchhhCCEEEEeCC------------------CCChHHHHHHHHHhhhcCCCceEEEEEEEeCCcHHH
Confidence 9999999999999998888 888999999999999999 456899999876543
No 128
>COG0539 RpsA Ribosomal protein S1 [Translation, ribosomal structure and biogenesis]
Probab=99.45 E-value=9.6e-14 Score=164.09 Aligned_cols=97 Identities=34% Similarity=0.596 Sum_probs=91.3
Q ss_pred CCCCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEEEeec
Q 001046 218 GNEPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSMRDV 295 (1176)
Q Consensus 218 ~~~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~k~~ 295 (1176)
-..+++|+++.|+|++|++||+||+|. |++||+|+|+|+|.++.+|++++++||.|+|+|+++| +++++||+|++
T Consensus 187 ~~~l~~G~vV~G~V~~It~~GafVdig---GvdGLlHiseiS~~rv~~P~~vvkvGd~VkvkVi~~D~e~~RVsLSlK~l 263 (541)
T COG0539 187 LNKLEVGEVVEGVVKNITDYGAFVDIG---GVDGLLHISEISWKRVDHPSEVVKVGDEVKVKVISLDEERGRVSLSLKQL 263 (541)
T ss_pred HhcCCCCceEEEEEEEeecCcEEEEec---CeeeEEehhhccccccCCHHHhcccCCEEEEEEEEEccCCCeEEEEehhc
Confidence 357999999999999999999999997 5899999999999999999999999999999999999 67999999999
Q ss_pred cccCCCCCChhhhhhhccCCCCCCCCCC
Q 001046 296 DQNTGKDLLPLKKISEDDALGNNPSGTR 323 (1176)
Q Consensus 296 dq~tg~d~~P~~~~~~~~~~~~~~~g~~ 323 (1176)
.++ ||......++.+....|+-
T Consensus 264 ~~d------Pw~~i~~~~~~g~~v~G~V 285 (541)
T COG0539 264 EED------PWEGIEKKYPVGDKVEGKV 285 (541)
T ss_pred ccC------cHHHHhhhcCCCCEEEEEE
Confidence 887 9999999999999888874
No 129
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=99.43 E-value=2.6e-12 Score=135.76 Aligned_cols=164 Identities=28% Similarity=0.216 Sum_probs=115.9
Q ss_pred CCchHHHHHHHHHHHcC-CeEEEEcCCCCcHHHHHHHHHHHhcccC-CCEEEEeccHHHHHHHHHHHHHHHhCCccCCee
Q 001046 523 LPIYKLKKELIQAVHDN-QVLVVIGETGSGKTTQVTQYLAEAGYTT-RGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEV 600 (1176)
Q Consensus 523 LPi~~~q~~ii~ai~~~-~~vIv~apTGSGKTt~~~~~lle~~~~~-~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~v 600 (1176)
.+.+++|.+++..+... +.+++.|+||||||+.+..++++..... ..+++++.|++.++.+...++...+....+..+
T Consensus 7 ~~~~~~Q~~~~~~~~~~~~~~~i~~~~GsGKT~~~~~~~~~~~~~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~~~~ 86 (201)
T smart00487 7 EPLRPYQKEAIEALLSGLRDVILAAPTGSGKTLAALLPALEALKRGKGKRVLVLVPTRELAEQWAEELKKLGPSLGLKVV 86 (201)
T ss_pred CCCCHHHHHHHHHHHcCCCcEEEECCCCCchhHHHHHHHHHHhcccCCCcEEEEeCCHHHHHHHHHHHHHHhccCCeEEE
Confidence 45688999999999988 9999999999999999988888864432 368999999999999999988776543211112
Q ss_pred EEEeecc------cccCCCceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCCcCC--CchhHHHHHHHHHHhhCCCccE
Q 001046 601 GYAIRFE------DCTGPDTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAHERT--IHTDVLFGLLKQLVKRRPDLRL 671 (1176)
Q Consensus 601 Gy~ir~~------~~~~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaHeR~--~~~d~ll~llk~~~~~r~~~kv 671 (1176)
.+.-... ........++++|++.+.+.+.... ....+++|||||||... ...+.+..++..+ .+..++
T Consensus 87 ~~~~~~~~~~~~~~~~~~~~~v~~~t~~~l~~~~~~~~~~~~~~~~iIiDE~h~~~~~~~~~~~~~~~~~~---~~~~~~ 163 (201)
T smart00487 87 GLYGGDSKREQLRKLESGKTDILVTTPGRLLDLLENDLLELSNVDLVILDEAHRLLDGGFGDQLEKLLKLL---PKNVQL 163 (201)
T ss_pred EEeCCcchHHHHHHHhcCCCCEEEeChHHHHHHHHcCCcCHhHCCEEEEECHHHHhcCCcHHHHHHHHHhC---CccceE
Confidence 1111111 0112233999999999999887655 67789999999999644 2333333333322 467899
Q ss_pred EEEcCCCC--HHHHHhhhcC
Q 001046 672 IVTSATLD--AEKFSGYFFN 689 (1176)
Q Consensus 672 IlmSATl~--~~~~~~~f~~ 689 (1176)
++||||+. ...+...+..
T Consensus 164 v~~saT~~~~~~~~~~~~~~ 183 (201)
T smart00487 164 LLLSATPPEEIENLLELFLN 183 (201)
T ss_pred EEEecCCchhHHHHHHHhcC
Confidence 99999994 5555544443
No 130
>TIGR02562 cas3_yersinia CRISPR-associated helicase Cas3. The helicase in many CRISPR-associated (cas) gene clusters is designated Cas3, and most Cas3 proteins are described by model TIGR01587. Members of this family are considerably larger, show a number of motifs in common with TIGR01587 sequences, and replace Cas3 in some CRISPR/cas loci in a number of Proteobacteria, including Yersinia pestis, Chromobacterium violaceum, Erwinia carotovora subsp. atroseptica SCRI1043, Photorhabdus luminescens subsp. laumondii TTO1, Legionella pneumophila, etc.
Probab=99.42 E-value=1.3e-11 Score=154.10 Aligned_cols=310 Identities=17% Similarity=0.162 Sum_probs=176.2
Q ss_pred HHhcCCchHHHHHHHHHHHc--------CCeEEEEcCCCCcHHHHHHHHHHHhcc-cCCCEEEEeccHHHHHHHHHHHHH
Q 001046 519 QRQSLPIYKLKKELIQAVHD--------NQVLVVIGETGSGKTTQVTQYLAEAGY-TTRGKIGCTQPRRVAAMSVAKRVA 589 (1176)
Q Consensus 519 ~r~~LPi~~~q~~ii~ai~~--------~~~vIv~apTGSGKTt~~~~~lle~~~-~~~~~Ilv~~PrR~lA~qva~rva 589 (1176)
+|..-|-|.+|..+.+.+.. |=.+|-.|.||||||.+=.-.++-..- ..+.++.+..-.|.|..|....+.
T Consensus 403 ~r~~~~rF~WQdkA~d~a~~~r~~~~~~GfF~vNMASTGcGKT~aNARImyaLsd~~~g~RfsiALGLRTLTLQTGda~r 482 (1110)
T TIGR02562 403 QRSAHPRFRWQNKAFNLAQKLRQKSPEQGAFGVNMASTGCGKTLANARAMYALRDDKQGARFAIALGLRSLTLQTGHALK 482 (1110)
T ss_pred cCCCCCCcchHHHHHHHHHHHHhhcccCCeEEEEecCCCcchHHHHHHHHHHhCCCCCCceEEEEccccceeccchHHHH
Confidence 56777899999999998754 336677899999999774444432211 122344444444555554444333
Q ss_pred HHhCCc---cCCeeE---------------------------------E---Eeeccccc-----------C------CC
Q 001046 590 EEFGCR---LGEEVG---------------------------------Y---AIRFEDCT-----------G------PD 613 (1176)
Q Consensus 590 ~e~g~~---~G~~vG---------------------------------y---~ir~~~~~-----------~------~~ 613 (1176)
+.+|.. +...|| - .+.++... . -.
T Consensus 483 ~rL~L~~ddLAVlIGs~Av~~L~e~~~~~~~~~~~~GSeS~e~l~~e~~~~~~~~~~g~l~~~~l~~~l~~~~k~~rll~ 562 (1110)
T TIGR02562 483 TRLNLSDDDLAVLIGGTAVQTLFDLSKEKIEQVDEDGSESAPIFLAEGQDCNLPDWDGPLDTIELLGRLSLDDKEKTLLA 562 (1110)
T ss_pred HhcCCCccceEEEECHHHHHHHHHHHhhhccccccCCCccchhhhcccCcCCeeeccCCccchhhhhhhccChhhhhhhc
Confidence 322210 000011 0 01111110 0 13
Q ss_pred ceEEEeChHHHHHHHhhCC----C---C-CCCceEEEcCCCcCCCchhHHHHHHHHHHh--hCCCccEEEEcCCCCHHH-
Q 001046 614 TVIKYMTDGMLLREILIDD----N---L-SQYSVIMLDEAHERTIHTDVLFGLLKQLVK--RRPDLRLIVTSATLDAEK- 682 (1176)
Q Consensus 614 t~I~~~T~g~Llr~l~~~~----~---L-~~~s~IIiDEaHeR~~~~d~ll~llk~~~~--~r~~~kvIlmSATl~~~~- 682 (1176)
..+.|||...++...+.-. . + -.-++|||||+|-.+..+ +++|..++. ...+.+||+||||++...
T Consensus 563 apv~V~TIDQlL~a~~~~r~~~~~l~ll~La~svlVlDEVHaYD~~~---~~~L~rlL~w~~~lG~~VlLmSATLP~~l~ 639 (1110)
T TIGR02562 563 APVLVCTIDHLIPATESHRGGHHIAPMLRLMSSDLILDEPDDYEPED---LPALLRLVQLAGLLGSRVLLSSATLPPALV 639 (1110)
T ss_pred CCeEEecHHHHHHHhhhcccchhHHHHHHhcCCCEEEECCccCCHHH---HHHHHHHHHHHHHcCCCEEEEeCCCCHHHH
Confidence 5789999988887663211 1 1 123789999999644443 333444443 345789999999998543
Q ss_pred ---HHhhhcCCCe----EecCCceeeeEEEE---------------------------------------------ecCC
Q 001046 683 ---FSGYFFNCNI----FTIPGRTFPVEILY---------------------------------------------TKQP 710 (1176)
Q Consensus 683 ---~~~~f~~~~v----~~i~gr~~pv~~~~---------------------------------------------~~~~ 710 (1176)
+..|..+..+ ...++...++-.-+ ....
T Consensus 640 ~~L~~Ay~~G~~~~q~~~g~~~~~~~i~CaW~DE~~~~~~~~~~~~~F~~~H~~Fv~~R~~~L~~~p~~R~a~i~~~~~~ 719 (1110)
T TIGR02562 640 KTLFRAYEAGRQMYQALYGQPKKPLNICCAWVDEPQVWQADCNQKSEFIQRHQDFLRDRAVQLAKKPVRRLAELLSLSSL 719 (1110)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCCCcceeEEeecccCchhhhhcCHHHHHHHHHHHHHHHHHHHhcCcccceEEEeecCCc
Confidence 2333211110 11111111111111 1111
Q ss_pred C-------chhHHHHHHHHHHHHhcCC-----CCC----EEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCC
Q 001046 711 E-------SDYLDASLITVLQIHLTEP-----EGD----ILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSAL 774 (1176)
Q Consensus 711 ~-------~~~~~~~l~~v~~i~~~~~-----~g~----iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l 774 (1176)
. ..+.......++.+|.... .|. .||=+.+...+-.++..|....... ...+.++.|||..
T Consensus 720 ~~~~~~~~~~~a~~i~~~~~~LH~~h~~~~~~sgk~VSfGliR~anI~p~V~~A~~L~~~~~~~---~~~i~~~~yHSr~ 796 (1110)
T TIGR02562 720 PRENESTYLALAQSLLEGALRLHQAHAQTDPKSEKKVSVGLIRVANIDPLIRLAQFLYALLAEE---KYQIHLCCYHAQD 796 (1110)
T ss_pred ccchhHHHHHHHHHHHHHHHHHHHHhCccCCCCCeEEEEEEEEEcCchHHHHHHHHHHhhcccc---CCceeEEEecccC
Confidence 0 0122333344445553221 222 3677788888888888887764322 2457788999999
Q ss_pred CHHHHHhhcCCC--------------------------CCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCC
Q 001046 775 PSEMQSRIFDPA--------------------------PPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQG 828 (1176)
Q Consensus 775 ~~~~r~~i~~~f--------------------------~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g 828 (1176)
+...|..+++.. ..+...|||||.+.|.|+|++ .+++|
T Consensus 797 ~l~~Rs~~E~~Ld~~L~R~~~~~~~~~~~i~~~l~~~~~~~~~~i~v~Tqv~E~g~D~d-fd~~~--------------- 860 (1110)
T TIGR02562 797 PLLLRSYIERRLDQLLTRHKPEQLFQDDEIIDLMQNSPALNHLFIVLATPVEEVGRDHD-YDWAI--------------- 860 (1110)
T ss_pred hHHHHHHHHHHHHHHhcccChhhhhchHHHHHHHhcccccCCCeEEEEeeeEEEEeccc-CCeee---------------
Confidence 877766554221 135789999999999999998 33333
Q ss_pred CccccccccCHHHHHHHhcccCCCCCc
Q 001046 829 LDSLVITPISQASAKQRAGRAGRTGPG 855 (1176)
Q Consensus 829 ~~~l~~~p~S~as~~QR~GRAGR~g~G 855 (1176)
+.+.+..+.+||+||..|.+.+
T Consensus 861 -----~~~~~~~sliQ~aGR~~R~~~~ 882 (1110)
T TIGR02562 861 -----ADPSSMRSIIQLAGRVNRHRLE 882 (1110)
T ss_pred -----eccCcHHHHHHHhhcccccccC
Confidence 4478899999999999999843
No 131
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=99.40 E-value=2.6e-11 Score=147.15 Aligned_cols=122 Identities=18% Similarity=0.177 Sum_probs=81.4
Q ss_pred hcCCchHHHHHHHHH--HHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCC
Q 001046 521 QSLPIYKLKKELIQA--VHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGE 598 (1176)
Q Consensus 521 ~~LPi~~~q~~ii~a--i~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~ 598 (1176)
..|-++++-.|++-+ +..|+ |....||+|||.++.++++-..+. +..+.++.|+-.||.+-+..+...+ ..+|.
T Consensus 73 R~lg~r~ydvQlig~l~Ll~G~--VaEM~TGEGKTLvA~l~a~l~AL~-G~~VhvvT~NdyLA~RDae~m~~ly-~~LGL 148 (764)
T PRK12326 73 RTLGLRPFDVQLLGALRLLAGD--VIEMATGEGKTLAGAIAAAGYALQ-GRRVHVITVNDYLARRDAEWMGPLY-EALGL 148 (764)
T ss_pred HHcCCCcchHHHHHHHHHhCCC--cccccCCCCHHHHHHHHHHHHHHc-CCCeEEEcCCHHHHHHHHHHHHHHH-HhcCC
Confidence 344444444455555 45554 679999999998888877765443 5568888999999999998776655 34677
Q ss_pred eeEEEeecccc----cCCCceEEEeChHHH-----HHHHhhCC---CCCCCceEEEcCCC
Q 001046 599 EVGYAIRFEDC----TGPDTVIKYMTDGML-----LREILIDD---NLSQYSVIMLDEAH 646 (1176)
Q Consensus 599 ~vGy~ir~~~~----~~~~t~I~~~T~g~L-----lr~l~~~~---~L~~~s~IIiDEaH 646 (1176)
.||+....... ..-.++|+|+|..-+ -+.+.... ..+.+.+.|||||+
T Consensus 149 svg~i~~~~~~~err~aY~~DItYgTn~e~gFDyLRDnm~~~~~~~v~R~~~faIVDEvD 208 (764)
T PRK12326 149 TVGWITEESTPEERRAAYACDVTYASVNEIGFDVLRDQLVTDVADLVSPNPDVAIIDEAD 208 (764)
T ss_pred EEEEECCCCCHHHHHHHHcCCCEEcCCcccccccchhhhccChHhhcCCccceeeecchh
Confidence 77754332111 123678999998653 23332222 35678899999988
No 132
>cd00046 DEXDc DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Probab=99.40 E-value=3.8e-12 Score=126.46 Aligned_cols=136 Identities=32% Similarity=0.310 Sum_probs=97.9
Q ss_pred CeEEEEcCCCCcHHHHHHHHHHHhccc-CCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeeccccc------CC
Q 001046 540 QVLVVIGETGSGKTTQVTQYLAEAGYT-TRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCT------GP 612 (1176)
Q Consensus 540 ~~vIv~apTGSGKTt~~~~~lle~~~~-~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~------~~ 612 (1176)
+++++.|+||+|||+++..++...... ..+++++++|++.++.+....+...... +..+.+........ ..
T Consensus 1 ~~~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p~~~l~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~ 78 (144)
T cd00046 1 RDVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKELFGE--GIKVGYLIGGTSIKQQEKLLSG 78 (144)
T ss_pred CCEEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEcCcHHHHHHHHHHHHHHhhC--CcEEEEEecCcchhHHHHHhcC
Confidence 368999999999999999888876443 4568999999999999999988776643 44455544444333 46
Q ss_pred CceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCCC
Q 001046 613 DTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSATL 678 (1176)
Q Consensus 613 ~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSATl 678 (1176)
...|+++|.+.+.+.+.... ....+++|||||+|.-.... .............+..+++++|||+
T Consensus 79 ~~~i~i~t~~~~~~~~~~~~~~~~~~~~iiiDE~h~~~~~~-~~~~~~~~~~~~~~~~~~i~~saTp 144 (144)
T cd00046 79 KTDIVVGTPGRLLDELERLKLSLKKLDLLILDEAHRLLNQG-FGLLGLKILLKLPKDRQVLLLSATP 144 (144)
T ss_pred CCCEEEECcHHHHHHHHcCCcchhcCCEEEEeCHHHHhhcc-hHHHHHHHHhhCCccceEEEEeccC
Confidence 78999999999988776554 45678999999999422221 1111122233345678999999996
No 133
>cd00079 HELICc Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may not be an autonomously folding unit, but an integral part of the helicase; 4 helicase superfamilies at present according to the organization of their signature motifs; all helicases share the ability to unwind nucleic acid duplexes with a distinct directional polarity; they utilize the free energy from nucleoside triphosphate hydrolysis to fuel their translocation along DNA, unwinding the duplex in the process
Probab=99.40 E-value=1.7e-12 Score=128.62 Aligned_cols=104 Identities=26% Similarity=0.407 Sum_probs=95.4
Q ss_pred CCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCe
Q 001046 730 PEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGI 809 (1176)
Q Consensus 730 ~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V 809 (1176)
..+++|||+++...++.+++.|.+ ....+..+||+++..++..+++.|..+..+||++|+++++|+|+|++
T Consensus 27 ~~~~~lvf~~~~~~~~~~~~~l~~---------~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~ili~t~~~~~G~d~~~~ 97 (131)
T cd00079 27 KGGKVLIFCPSKKMLDELAELLRK---------PGIKVAALHGDGSQEEREEVLKDFREGEIVVLVATDVIARGIDLPNV 97 (131)
T ss_pred CCCcEEEEeCcHHHHHHHHHHHHh---------cCCcEEEEECCCCHHHHHHHHHHHHcCCCcEEEEcChhhcCcChhhC
Confidence 578999999999999999888865 35678999999999999999999999999999999999999999999
Q ss_pred eEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC-CcEEEEe
Q 001046 810 FYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRL 860 (1176)
Q Consensus 810 ~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L 860 (1176)
++||..+. |.+...+.|++||+||.| .|.|+.+
T Consensus 98 ~~vi~~~~------------------~~~~~~~~Q~~GR~~R~~~~~~~~~~ 131 (131)
T cd00079 98 SVVINYDL------------------PWSPSSYLQRIGRAGRAGQKGTAILL 131 (131)
T ss_pred CEEEEeCC------------------CCCHHHheecccccccCCCCceEEeC
Confidence 99998777 899999999999999999 7888753
No 134
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=99.40 E-value=2.3e-12 Score=161.28 Aligned_cols=113 Identities=20% Similarity=0.141 Sum_probs=99.4
Q ss_pred CCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCC
Q 001046 729 EPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDG 808 (1176)
Q Consensus 729 ~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~ 808 (1176)
..+.++||||+++..++.+++.|.+ .++.+..+||++++.+|..++..|+.|...|+|||+++++|+|+|+
T Consensus 444 ~~g~~viIf~~t~~~ae~L~~~L~~---------~gi~~~~~h~~~~~~~R~~~l~~f~~g~i~vlV~t~~L~rGfdlp~ 514 (652)
T PRK05298 444 AKGERVLVTTLTKRMAEDLTDYLKE---------LGIKVRYLHSDIDTLERVEIIRDLRLGEFDVLVGINLLREGLDIPE 514 (652)
T ss_pred hCCCEEEEEeCCHHHHHHHHHHHhh---------cceeEEEEECCCCHHHHHHHHHHHHcCCceEEEEeCHHhCCccccC
Confidence 3467899999999999999999875 3678889999999999999999999999999999999999999999
Q ss_pred eeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCCCcEEEEecCh
Q 001046 809 IFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTGPGKCYRLYTE 863 (1176)
Q Consensus 809 V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g~G~c~~L~t~ 863 (1176)
+++||.++.. ..| .|.+..+|+||+|||||...|.|+.+++.
T Consensus 515 v~lVii~d~e-------ifG------~~~~~~~yiqr~GR~gR~~~G~~i~~~~~ 556 (652)
T PRK05298 515 VSLVAILDAD-------KEG------FLRSERSLIQTIGRAARNVNGKVILYADK 556 (652)
T ss_pred CcEEEEeCCc-------ccc------cCCCHHHHHHHhccccCCCCCEEEEEecC
Confidence 9999977641 011 16788999999999999889999999884
No 135
>COG0539 RpsA Ribosomal protein S1 [Translation, ribosomal structure and biogenesis]
Probab=99.36 E-value=7.7e-13 Score=156.54 Aligned_cols=99 Identities=30% Similarity=0.545 Sum_probs=92.5
Q ss_pred CCCCCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEEEee
Q 001046 217 RGNEPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSMRD 294 (1176)
Q Consensus 217 ~~~~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~k~ 294 (1176)
..+.+.+|+.+.|+|+++++|||||++.. |++||+|+|||+|.+...|++++++||.|.|+|+++| ++||+|++|+
T Consensus 271 i~~~~~~g~~v~G~Vt~i~~~GafVei~~--GvEGlvhvSEisw~~~~~P~evv~~Gq~V~V~Vl~id~e~rRIsL~iKq 348 (541)
T COG0539 271 IEKKYPVGDKVEGKVTNLTDYGAFVEIEE--GVEGLVHVSEISWTKKNVPSEVVKVGQEVEVKVLDIDPERRRISLGLKQ 348 (541)
T ss_pred HhhhcCCCCEEEEEEEEeecCcEEEEecC--CccceeechhhcccccCCHHHhcccCCEEEEEEEeeCchhceEEeeehh
Confidence 44688999999999999999999999976 9999999999999998889999999999999999999 6799999999
Q ss_pred ccccCCCCCChhhhhhhccCCCCCCCCCC
Q 001046 295 VDQNTGKDLLPLKKISEDDALGNNPSGTR 323 (1176)
Q Consensus 295 ~dq~tg~d~~P~~~~~~~~~~~~~~~g~~ 323 (1176)
+..+ ||..+...++.|..+.|.-
T Consensus 349 ~~~~------pw~~~~~~~~~g~~v~g~v 371 (541)
T COG0539 349 LKEN------PWEEFADKHPVGDVVEGKV 371 (541)
T ss_pred hhcC------hhhhhhhhcCCCCeEEEEE
Confidence 9888 9999999999999888864
No 136
>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain. The domain is related to the DEAD/DEAH box helicase domain which is found in a large family of ATPases.; GO: 0005524 ATP binding, 0008026 ATP-dependent helicase activity, 0019079 viral genome replication; PDB: 2QEQ_A 2V6J_A 2V6I_A 8OHM_A 4A92_B 1JR6_A 1HEI_A 1ONB_A 1A1V_A 1YMF_A ....
Probab=99.36 E-value=3e-12 Score=126.59 Aligned_cols=135 Identities=21% Similarity=0.264 Sum_probs=92.6
Q ss_pred HcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecc-cccCCCce
Q 001046 537 HDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFE-DCTGPDTV 615 (1176)
Q Consensus 537 ~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~-~~~~~~t~ 615 (1176)
.+++..+|-..||+|||+.++.-++.+.+..++++|++.|||++|.++++.+. |..+.+..... .....+..
T Consensus 2 ~kg~~~~~d~hpGaGKTr~vlp~~~~~~i~~~~rvLvL~PTRvva~em~~aL~-------~~~~~~~t~~~~~~~~g~~~ 74 (148)
T PF07652_consen 2 RKGELTVLDLHPGAGKTRRVLPEIVREAIKRRLRVLVLAPTRVVAEEMYEALK-------GLPVRFHTNARMRTHFGSSI 74 (148)
T ss_dssp STTEEEEEE--TTSSTTTTHHHHHHHHHHHTT--EEEEESSHHHHHHHHHHTT-------TSSEEEESTTSS----SSSS
T ss_pred CCCceeEEecCCCCCCcccccHHHHHHHHHccCeEEEecccHHHHHHHHHHHh-------cCCcccCceeeeccccCCCc
Confidence 35778899999999999965554555557778999999999999999988652 12234433222 12345678
Q ss_pred EEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCCCC
Q 001046 616 IKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSATLD 679 (1176)
Q Consensus 616 I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSATl~ 679 (1176)
|.+||.+.+.+.++....+.+|++||+||+|--+..+-...+.++..... ...++|.||||++
T Consensus 75 i~vMc~at~~~~~~~p~~~~~yd~II~DEcH~~Dp~sIA~rg~l~~~~~~-g~~~~i~mTATPP 137 (148)
T PF07652_consen 75 IDVMCHATYGHFLLNPCRLKNYDVIIMDECHFTDPTSIAARGYLRELAES-GEAKVIFMTATPP 137 (148)
T ss_dssp EEEEEHHHHHHHHHTSSCTTS-SEEEECTTT--SHHHHHHHHHHHHHHHT-TS-EEEEEESS-T
T ss_pred ccccccHHHHHHhcCcccccCccEEEEeccccCCHHHHhhheeHHHhhhc-cCeeEEEEeCCCC
Confidence 89999999999888755889999999999996555555666667766543 4678999999985
No 137
>cd05686 S1_pNO40 S1_pNO40: pNO40 , S1-like RNA-binding domain. pNO40 is a nucleolar protein of unknown function with an N-terminal S1 RNA binding domain, a CCHC type zinc finger, and clusters of basic amino acids representing a potential nucleolar targeting signal. pNO40 was identified through a yeast two-hybrid interaction screen of a human kidney cDNA library using the pinin (pnn) protein as bait. pNO40 is thought to play a role in ribosome maturation and/or biogenesis.
Probab=99.33 E-value=4.8e-12 Score=113.15 Aligned_cols=71 Identities=39% Similarity=0.713 Sum_probs=64.5
Q ss_pred CCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEeC-cEeEEEE
Q 001046 221 PELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVSG-QKLSLSM 292 (1176)
Q Consensus 221 ~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id~-~ki~Ls~ 292 (1176)
|++|++|.|+|++|++||+||++.+. +.+||+|+|++++.++.++.+.+++||.|+|+|++++. ++++||+
T Consensus 1 ~~~g~~~~g~V~~i~~fG~fv~l~~~-~~eGlvh~sel~~~~~~~~~~~~~~Gd~v~vkv~~vd~~~ki~ls~ 72 (73)
T cd05686 1 PALYQIFKGEVASVTEYGAFVKIPGC-RKQGLVHKSHMSSCRVDDPSEVVDVGEKVWVKVIGREMKDKMKLSL 72 (73)
T ss_pred CcCCCEEEEEEEEEEeeeEEEEECCC-CeEEEEEchhhCCCcccCHhhEECCCCEEEEEEEEECCCCcEEEEe
Confidence 46899999999999999999999653 26999999999999999999999999999999999993 4899886
No 138
>PF00271 Helicase_C: Helicase conserved C-terminal domain; InterPro: IPR001650 The domain, which defines this group of proteins is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase. The eukaryotic translation initiation factor 4A (eIF4A) is a member of the DEA(D/H)-box RNA helicase family This is a diverse group of proteins that couples an ATPase activity to RNA binding and unwinding. The structure of the carboxyl-terminal domain of eIF4A has been determined to 1.75 A resolution; it has a parallel alpha-beta topology that superimposes, with minor variations, on the structures and conserved motifs of the equivalent domain in other, distantly related helicases [].; GO: 0003676 nucleic acid binding, 0004386 helicase activity, 0005524 ATP binding; PDB: 2Z83_A 2JGN_C 2I4I_A 2BMF_A 2BHR_B 1WP9_E 2WAX_C 2WAY_C 3JUX_A 3DIN_B ....
Probab=99.32 E-value=1.7e-12 Score=117.36 Aligned_cols=73 Identities=25% Similarity=0.321 Sum_probs=70.2
Q ss_pred CCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHH
Q 001046 763 PELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASA 842 (1176)
Q Consensus 763 ~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~ 842 (1176)
.++.+..+||+++..+|..+++.|..+...|||||+++++|||+|++++||.++. |.+...|
T Consensus 6 ~~~~~~~i~~~~~~~~r~~~~~~f~~~~~~vli~t~~~~~Gid~~~~~~vi~~~~------------------~~~~~~~ 67 (78)
T PF00271_consen 6 KGIKVAIIHGDMSQKERQEILKKFNSGEIRVLIATDILGEGIDLPDASHVIFYDP------------------PWSPEEY 67 (78)
T ss_dssp TTSSEEEESTTSHHHHHHHHHHHHHTTSSSEEEESCGGTTSSTSTTESEEEESSS------------------ESSHHHH
T ss_pred CCCcEEEEECCCCHHHHHHHHHHhhccCceEEEeecccccccccccccccccccc------------------CCCHHHH
Confidence 4678999999999999999999999999999999999999999999999999998 9999999
Q ss_pred HHHhcccCCCC
Q 001046 843 KQRAGRAGRTG 853 (1176)
Q Consensus 843 ~QR~GRAGR~g 853 (1176)
.|++||+||.|
T Consensus 68 ~Q~~GR~~R~g 78 (78)
T PF00271_consen 68 IQRIGRAGRIG 78 (78)
T ss_dssp HHHHTTSSTTT
T ss_pred HHHhhcCCCCC
Confidence 99999999986
No 139
>cd05704 S1_Rrp5_repeat_hs13 S1_Rrp5_repeat_hs13: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 13 (hs13). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.31 E-value=5.6e-12 Score=112.36 Aligned_cols=70 Identities=31% Similarity=0.349 Sum_probs=66.0
Q ss_pred CCCCEEEEEEEEEee-ceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEeCcEeEEEEe
Q 001046 222 ELYQVYKGRVSRVVD-TGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVSGQKLSLSMR 293 (1176)
Q Consensus 222 ~~g~~~~g~V~~i~~-~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id~~ki~Ls~k 293 (1176)
++|++|.|+|++|.+ ||+||++.. +.+|++|+|++++++..++.+.+++||.|+|+|++++.+++.||++
T Consensus 2 ~~G~iv~G~V~~i~~~~g~~v~l~~--~~~Glvhis~~s~~~~~~~~~~~~~Gd~v~~kV~~~~~~~i~LSl~ 72 (72)
T cd05704 2 EEGAVTLGMVTKVIPHSGLTVQLPF--GKTGLVSIFHLSDSYTENPLEGFKPGKIVRCCILSKKDGKYQLSLR 72 (72)
T ss_pred CCCCEEEEEEEEeeCCcEEEEECCC--CCEEEEEHHHhcCcccCCHHHhCCCCCEEEEEEEEecCCEEEEEeC
Confidence 589999999999986 999999976 7899999999999999999999999999999999999899999985
No 140
>PRK08582 hypothetical protein; Provisional
Probab=99.29 E-value=1.1e-11 Score=124.36 Aligned_cols=76 Identities=34% Similarity=0.582 Sum_probs=71.4
Q ss_pred CCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe-CcEeEEEEeecccc
Q 001046 221 PELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS-GQKLSLSMRDVDQN 298 (1176)
Q Consensus 221 ~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id-~~ki~Ls~k~~dq~ 298 (1176)
+++|++|.|+|++|++||+||+|.+ +.+||||+|++++.++.++.+.|++||.|+|+|++++ .++|.||++.+.++
T Consensus 3 ~kvG~iv~G~V~~I~~fG~fV~L~~--~~~GlVhiSels~~~v~~~~~~l~vGD~VkvkV~~id~~gkI~LSlk~~~~~ 79 (139)
T PRK08582 3 IEVGSKLQGKVTGITNFGAFVELPE--GKTGLVHISEVADNYVKDINDHLKVGDEVEVKVLNVEDDGKIGLSIKKAKDR 79 (139)
T ss_pred CcCCCEEEEEEEEEECCeEEEEECC--CCEEEEEeeccCcccccccccccCCCCEEEEEEEEECCCCcEEEEEEecccC
Confidence 6789999999999999999999986 7899999999999999999999999999999999998 58999999998766
No 141
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=99.29 E-value=4.9e-11 Score=148.04 Aligned_cols=125 Identities=18% Similarity=0.185 Sum_probs=87.8
Q ss_pred HhcCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCe
Q 001046 520 RQSLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEE 599 (1176)
Q Consensus 520 r~~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~ 599 (1176)
+..|-+.++-.|++-++.=++--|....||+|||.++.++++-..+. +..+.++.|+-.||.+-+..+...+ ..+|..
T Consensus 76 ~R~lGm~~ydVQliGg~~Lh~G~iaEM~TGEGKTLvA~l~a~l~al~-G~~VhvvT~ndyLA~RD~e~m~~l~-~~lGl~ 153 (913)
T PRK13103 76 KRVMGMRHFDVQLIGGMTLHEGKIAEMRTGEGKTLVGTLAVYLNALS-GKGVHVVTVNDYLARRDANWMRPLY-EFLGLS 153 (913)
T ss_pred HHHhCCCcchhHHHhhhHhccCccccccCCCCChHHHHHHHHHHHHc-CCCEEEEeCCHHHHHHHHHHHHHHh-cccCCE
Confidence 34566666677788777656666889999999999888877765444 5568888999999999998877665 446777
Q ss_pred eEEEeeccc----ccCCCceEEEeChHHH----HH-HHhh---CCCCCCCceEEEcCCC
Q 001046 600 VGYAIRFED----CTGPDTVIKYMTDGML----LR-EILI---DDNLSQYSVIMLDEAH 646 (1176)
Q Consensus 600 vGy~ir~~~----~~~~~t~I~~~T~g~L----lr-~l~~---~~~L~~~s~IIiDEaH 646 (1176)
||....... ...-.++|+|+|...+ |+ .+.. +.....+.++||||+|
T Consensus 154 v~~i~~~~~~~err~~Y~~dI~YGT~~e~gFDYLrD~~~~~~~~~vqr~l~~aIVDEvD 212 (913)
T PRK13103 154 VGIVTPFQPPEEKRAAYAADITYGTNNEFGFDYLRDNMAFSLDDKFQRELNFAVIDEVD 212 (913)
T ss_pred EEEECCCCCHHHHHHHhcCCEEEEcccccccchhhccceechhhhcccccceeEechhh
Confidence 775432211 1113489999999876 22 2211 1135889999999999
No 142
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=99.29 E-value=8.9e-10 Score=141.00 Aligned_cols=135 Identities=13% Similarity=0.142 Sum_probs=85.0
Q ss_pred chhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCc
Q 001046 712 SDYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKR 791 (1176)
Q Consensus 712 ~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~ 791 (1176)
.+|.......+..+. ..+|.+|||+|+.+..+.++..|... ...++.-..+.+ +.++.+.|..+..
T Consensus 630 ~~~~~~~~~~i~~~~--~~~g~~LVLFtS~~~l~~v~~~l~~~---------~~~~l~Qg~~~~---~~~l~~~F~~~~~ 695 (820)
T PRK07246 630 EVYAEEIAKRLEELK--QLQQPILVLFNSKKHLLAVSDLLDQW---------QVSHLAQEKNGT---AYNIKKRFDRGEQ 695 (820)
T ss_pred HHHHHHHHHHHHHHH--hcCCCEEEEECcHHHHHHHHHHHhhc---------CCcEEEeCCCcc---HHHHHHHHHcCCC
Confidence 346655555555544 45799999999999999888887531 122322222233 3456777877888
Q ss_pred eEEEEcchhhhccCCCC--eeEEEeCCcccceeccC----------CCCCcccc--ccccCHHHHHHHhcccCCCC--Cc
Q 001046 792 KVVVATNIAEASLTIDG--IFYVIDPGFAKQNVYNP----------KQGLDSLV--ITPISQASAKQRAGRAGRTG--PG 855 (1176)
Q Consensus 792 kVlVATniae~GIdIp~--V~~VId~g~~k~~~yd~----------~~g~~~l~--~~p~S~as~~QR~GRAGR~g--~G 855 (1176)
.||++|..+-.|||+|+ ...||=.++.-..-.|| +.|-+.+. ..|.-.-.+.|-+||.=|.. .|
T Consensus 696 ~vLlG~~sFwEGVD~p~~~~~~viI~kLPF~~P~dP~~~a~~~~~~~~g~~~F~~~~lP~A~iklkQg~GRLIRs~~D~G 775 (820)
T PRK07246 696 QILLGLGSFWEGVDFVQADRMIEVITRLPFDNPEDPFVKKMNQYLLQEGKNPFYDYFLPMTILRLKQAIGRTMRREDQKS 775 (820)
T ss_pred eEEEecchhhCCCCCCCCCeEEEEEecCCCCCCCCHHHHHHHHHHHHhCCCchhheeHHHHHHHHHHHhcccccCCCCcE
Confidence 99999999999999973 45555344432222121 11222221 12444567899999999988 68
Q ss_pred EEEEe
Q 001046 856 KCYRL 860 (1176)
Q Consensus 856 ~c~~L 860 (1176)
..+.|
T Consensus 776 vv~il 780 (820)
T PRK07246 776 AVLIL 780 (820)
T ss_pred EEEEE
Confidence 76643
No 143
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=99.28 E-value=2.7e-10 Score=140.07 Aligned_cols=117 Identities=22% Similarity=0.228 Sum_probs=79.3
Q ss_pred HHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCC-CceEEE
Q 001046 717 ASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPG-KRKVVV 795 (1176)
Q Consensus 717 ~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g-~~kVlV 795 (1176)
+.+..+...| ..+.+|||.+.+.+..+.++..|.+. ++..-.|++.-...+-..|-+ .| .-.|.|
T Consensus 414 Aii~ei~~~~--~~gqPVLVgT~SIe~SE~ls~~L~~~---------gi~h~vLNAk~~e~EA~IIa~---AG~~GaVTI 479 (925)
T PRK12903 414 AVVKEVKRVH--KKGQPILIGTAQVEDSETLHELLLEA---------NIPHTVLNAKQNAREAEIIAK---AGQKGAITI 479 (925)
T ss_pred HHHHHHHHHH--hcCCCEEEEeCcHHHHHHHHHHHHHC---------CCCceeecccchhhHHHHHHh---CCCCCeEEE
Confidence 3444454444 35779999999999999999988763 233333444322233333322 34 357999
Q ss_pred EcchhhhccCCCCee--------EEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC-CcEEEEecChHH
Q 001046 796 ATNIAEASLTIDGIF--------YVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTESA 865 (1176)
Q Consensus 796 ATniae~GIdIp~V~--------~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~~ 865 (1176)
|||+|+||.||.=-. |||-+.. +-|.--=.|-.|||||.| ||.+-.+.+-++
T Consensus 480 ATNMAGRGTDI~Lg~~V~~~GGLhVIgTer------------------heSrRIDnQLrGRaGRQGDpGss~f~lSLeD 540 (925)
T PRK12903 480 ATNMAGRGTDIKLSKEVLELGGLYVLGTDK------------------AESRRIDNQLRGRSGRQGDVGESRFFISLDD 540 (925)
T ss_pred ecccccCCcCccCchhHHHcCCcEEEeccc------------------CchHHHHHHHhcccccCCCCCcceEEEecch
Confidence 999999999997222 6664444 677777789999999999 998766665443
No 144
>cd05684 S1_DHX8_helicase S1_DHX8_helicase: The N-terminal S1 domain of human ATP-dependent RNA helicase DHX8, a DEAH (Asp-Glu-Ala-His) box polypeptide. The DEAH-box RNA helicases are thought to play key roles in pre-mRNA splicing and DHX8 facilitates nuclear export of spliced mRNA by releasing the RNA from the spliceosome. DHX8 is also known as HRH1 (human RNA helicase 1) in Homo sapiens and PRP22 in Saccharomyces cerevisiae.
Probab=99.28 E-value=1.9e-11 Score=111.07 Aligned_cols=77 Identities=56% Similarity=0.861 Sum_probs=70.4
Q ss_pred CCEEEEEEEEEeeceeEEEeCCC-CCeeeeeeccccccccc-CCcccccCCCCEEEEEEEEEeCcEeEEEEeeccccCC
Q 001046 224 YQVYKGRVSRVVDTGCFVQLNDF-RGKEGLVHVSQIATRRI-GNAKDVVKRDQEVYVKVISVSGQKLSLSMRDVDQNTG 300 (1176)
Q Consensus 224 g~~~~g~V~~i~~~G~fV~l~~~-~~~eGlvhisels~~~~-~~~~~~~~~Gd~V~VkV~~id~~ki~Ls~k~~dq~tg 300 (1176)
|++|.|+|++|++||+||+|.+. .+.+||+|++++++.++ .++.+.+++||.|+|+|++++.+++.||+|.++++||
T Consensus 1 G~~~~g~V~~v~~~G~fv~l~~~~~~~~gll~~s~l~~~~~~~~~~~~~~~Gd~v~v~v~~vd~~~i~~s~k~~~~~~~ 79 (79)
T cd05684 1 GKIYKGKVTSIMDFGCFVQLEGLKGRKEGLVHISQLSFEGRVANPSDVVKRGQKVKVKVISIQNGKISLSMKDVDQDTG 79 (79)
T ss_pred CCEEEEEEEEEEeeeEEEEEeCCCCCcEEEEEhHhccCCCCcCChhheeCCCCEEEEEEEEEeCCEEEEEEEecccCCC
Confidence 68999999999999999999843 25799999999999886 8999999999999999999998899999999988865
No 145
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=99.27 E-value=1.1e-09 Score=126.44 Aligned_cols=166 Identities=20% Similarity=0.121 Sum_probs=118.5
Q ss_pred ccEEEEcCCCCHHHHHhhhcC--CCeEecCCceeee-EEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHH
Q 001046 669 LRLIVTSATLDAEKFSGYFFN--CNIFTIPGRTFPV-EILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEEID 745 (1176)
Q Consensus 669 ~kvIlmSATl~~~~~~~~f~~--~~v~~i~gr~~pv-~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~ 745 (1176)
.|+|..|||+..-.+..--+. ..++.-.|-.-|. ++.- ...-++..+..+... ...+..+||-+-|++.++
T Consensus 387 ~q~i~VSATPg~~E~e~s~~~vveQiIRPTGLlDP~ievRp----~~~QvdDL~~EI~~r--~~~~eRvLVTtLTKkmAE 460 (663)
T COG0556 387 PQTIYVSATPGDYELEQSGGNVVEQIIRPTGLLDPEIEVRP----TKGQVDDLLSEIRKR--VAKNERVLVTTLTKKMAE 460 (663)
T ss_pred CCEEEEECCCChHHHHhccCceeEEeecCCCCCCCceeeec----CCCcHHHHHHHHHHH--HhcCCeEEEEeehHHHHH
Confidence 589999999965544432211 1122222222222 2222 222233333333322 233579999999999999
Q ss_pred HHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccC
Q 001046 746 FACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNP 825 (1176)
Q Consensus 746 ~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~ 825 (1176)
.+++.|.+. ++.+..+||.+..-+|..|+...+.|...|||.-|.+-.|+|+|.|..|.-.+--|.
T Consensus 461 dLT~Yl~e~---------gikv~YlHSdidTlER~eIirdLR~G~~DvLVGINLLREGLDiPEVsLVAIlDADKe----- 526 (663)
T COG0556 461 DLTEYLKEL---------GIKVRYLHSDIDTLERVEIIRDLRLGEFDVLVGINLLREGLDLPEVSLVAILDADKE----- 526 (663)
T ss_pred HHHHHHHhc---------CceEEeeeccchHHHHHHHHHHHhcCCccEEEeehhhhccCCCcceeEEEEeecCcc-----
Confidence 999999873 789999999999999999999999999999999999999999999999863333111
Q ss_pred CCCCccccccccCHHHHHHHhcccCCCCCcEEEEecC
Q 001046 826 KQGLDSLVITPISQASAKQRAGRAGRTGPGKCYRLYT 862 (1176)
Q Consensus 826 ~~g~~~l~~~p~S~as~~QR~GRAGR~g~G~c~~L~t 862 (1176)
|+ .-|-.+.+|-+|||.|.-.|+++....
T Consensus 527 --GF------LRse~SLIQtIGRAARN~~GkvIlYAD 555 (663)
T COG0556 527 --GF------LRSERSLIQTIGRAARNVNGKVILYAD 555 (663)
T ss_pred --cc------ccccchHHHHHHHHhhccCCeEEEEch
Confidence 22 568889999999999999999876544
No 146
>PHA02945 interferon resistance protein; Provisional
Probab=99.25 E-value=2.4e-11 Score=108.27 Aligned_cols=76 Identities=22% Similarity=0.317 Sum_probs=70.2
Q ss_pred CCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccc--cccccCCcccccCCCCEEEEEEEEEe--CcEeEEEEeec
Q 001046 220 EPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQI--ATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSMRDV 295 (1176)
Q Consensus 220 ~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisel--s~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~k~~ 295 (1176)
-|.+|+++.|+|+. .+||+||.|+++++.+||+|+|++ +..++.+ .+.+ .||+|.|||+.+| .+-|.||+|.+
T Consensus 8 ~P~~GelvigtV~~-~d~ga~v~L~EY~g~eg~i~~seveva~~wvK~-rd~l-~GqkvV~KVirVd~~kg~IDlSlK~V 84 (88)
T PHA02945 8 LPNVGDVLKGKVYE-NGYALYIDLFDYPHSEAILAESVQMHMNRYFKY-RDKL-VGKTVKVKVIRVDYTKGYIDVNYKRM 84 (88)
T ss_pred CCCCCcEEEEEEEe-cCceEEEEecccCCcEEEEEeehhhhccceEee-eeEe-cCCEEEEEEEEECCCCCEEEeEeeEc
Confidence 47899999999999 999999999999999999999955 9999999 9999 9999999999999 46899999998
Q ss_pred ccc
Q 001046 296 DQN 298 (1176)
Q Consensus 296 dq~ 298 (1176)
.+.
T Consensus 85 ~~~ 87 (88)
T PHA02945 85 CRH 87 (88)
T ss_pred ccC
Confidence 654
No 147
>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3.1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....
Probab=99.24 E-value=1.9e-11 Score=128.55 Aligned_cols=146 Identities=15% Similarity=0.126 Sum_probs=96.2
Q ss_pred CCchHHHHHHHHHHHc-------CCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCc
Q 001046 523 LPIYKLKKELIQAVHD-------NQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCR 595 (1176)
Q Consensus 523 LPi~~~q~~ii~ai~~-------~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~ 595 (1176)
+.++++|.+++..+.. ++.+++.+|||||||..+..++.+... ++++++|+..++.|....+.......
T Consensus 2 ~~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~~----~~l~~~p~~~l~~Q~~~~~~~~~~~~ 77 (184)
T PF04851_consen 2 YKLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELAR----KVLIVAPNISLLEQWYDEFDDFGSEK 77 (184)
T ss_dssp -EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHHC----EEEEEESSHHHHHHHHHHHHHHSTTS
T ss_pred CCCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhcccc----ceeEecCHHHHHHHHHHHHHHhhhhh
Confidence 3578999999999873 689999999999999888877776532 89999999999999998873322211
Q ss_pred cCCeeEE-----------------EeecccccCCCceEEEeChHHHHHHHhhCC------------CCCCCceEEEcCCC
Q 001046 596 LGEEVGY-----------------AIRFEDCTGPDTVIKYMTDGMLLREILIDD------------NLSQYSVIMLDEAH 646 (1176)
Q Consensus 596 ~G~~vGy-----------------~ir~~~~~~~~t~I~~~T~g~Llr~l~~~~------------~L~~~s~IIiDEaH 646 (1176)
. ..... .............+.+.|...+........ ....+++||+||||
T Consensus 78 ~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~vI~DEaH 156 (184)
T PF04851_consen 78 Y-NFFEKSIKPAYDSKEFISIQDDISDKSESDNNDKDIILTTYQSLQSDIKEEKKIDESARRSYKLLKNKFDLVIIDEAH 156 (184)
T ss_dssp E-EEEE--GGGCCE-SEEETTTTEEEHHHHHCBSS-SEEEEEHHHHHHHHHH---------GCHHGGGGSESEEEEETGG
T ss_pred h-hhcccccccccccccccccccccccccccccccccchhhHHHHHHhhcccccccccchhhhhhhccccCCEEEEehhh
Confidence 1 00000 000011123467889999988887654311 34577899999999
Q ss_pred cCCCchhHHHHHHHHHHhhCCCccEEEEcCCCC
Q 001046 647 ERTIHTDVLFGLLKQLVKRRPDLRLIVTSATLD 679 (1176)
Q Consensus 647 eR~~~~d~ll~llk~~~~~r~~~kvIlmSATl~ 679 (1176)
+ ...... .+.+.. .+...+|+||||+.
T Consensus 157 ~-~~~~~~----~~~i~~-~~~~~~l~lTATp~ 183 (184)
T PF04851_consen 157 H-YPSDSS----YREIIE-FKAAFILGLTATPF 183 (184)
T ss_dssp C-THHHHH----HHHHHH-SSCCEEEEEESS-S
T ss_pred h-cCCHHH----HHHHHc-CCCCeEEEEEeCcc
Confidence 4 333222 233333 66788999999973
No 148
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=99.24 E-value=1.4e-10 Score=143.52 Aligned_cols=325 Identities=17% Similarity=0.184 Sum_probs=213.8
Q ss_pred HHHHHHHHHH-HcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEee
Q 001046 527 KLKKELIQAV-HDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIR 605 (1176)
Q Consensus 527 ~~q~~ii~ai-~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir 605 (1176)
+.|.+++..+ ..+.+++|.+|+|||||.++-++++. -...++++++.|.-+.|..++......++.-.|..+.- ..
T Consensus 1146 ~iqtqVf~~~y~~nd~v~vga~~gsgkt~~ae~a~l~--~~~~~~~vyi~p~~~i~~~~~~~w~~~f~~~~G~~~~~-l~ 1222 (1674)
T KOG0951|consen 1146 PIQTQVFTSLYNTNDNVLVGAPNGSGKTACAELALLR--PDTIGRAVYIAPLEEIADEQYRDWEKKFSKLLGLRIVK-LT 1222 (1674)
T ss_pred CceEEEEeeeecccceEEEecCCCCchhHHHHHHhcC--CccceEEEEecchHHHHHHHHHHHHHhhccccCceEEe-cC
Confidence 4466666665 46789999999999999999888876 34457899999999999988887777665555544321 12
Q ss_pred ccc----ccCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCc----hhHHHHHHHHHH-hhCCCccEEEEcC
Q 001046 606 FED----CTGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIH----TDVLFGLLKQLV-KRRPDLRLIVTSA 676 (1176)
Q Consensus 606 ~~~----~~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~----~d~ll~llk~~~-~~r~~~kvIlmSA 676 (1176)
++. ..-...+|+++||...-.. + ..+.+++.|.||.|.-+-. ..++.. ++.+. ..-..++++.+|-
T Consensus 1223 ge~s~~lkl~~~~~vii~tpe~~d~l-q---~iQ~v~l~i~d~lh~igg~~g~v~evi~S-~r~ia~q~~k~ir~v~ls~ 1297 (1674)
T KOG0951|consen 1223 GETSLDLKLLQKGQVIISTPEQWDLL-Q---SIQQVDLFIVDELHLIGGVYGAVYEVICS-MRYIASQLEKKIRVVALSS 1297 (1674)
T ss_pred CccccchHHhhhcceEEechhHHHHH-h---hhhhcceEeeehhhhhcccCCceEEEEee-HHHHHHHHHhheeEEEeeh
Confidence 221 1225678999999875332 2 6788999999999964421 122333 22222 2345789999999
Q ss_pred CC-CHHHHHhhhcCCCeEec--CCceeeeEEEEecCCCchhHHHH-------HHHHHHHHhcCCCCCEEEEeCCHHHHHH
Q 001046 677 TL-DAEKFSGYFFNCNIFTI--PGRTFPVEILYTKQPESDYLDAS-------LITVLQIHLTEPEGDILLFLTGQEEIDF 746 (1176)
Q Consensus 677 Tl-~~~~~~~~f~~~~v~~i--~gr~~pv~~~~~~~~~~~~~~~~-------l~~v~~i~~~~~~g~iLVFl~~~~ei~~ 746 (1176)
.+ ++..+ -++..+.++.. ..|..|.+++........|.... ...+.+ | ...+.+.+||+|+++.+..
T Consensus 1298 ~lana~d~-ig~s~~~v~Nf~p~~R~~Pl~i~i~~~~~~~~~~~~~am~~~~~~ai~~-~-a~~~k~~~vf~p~rk~~~~ 1374 (1674)
T KOG0951|consen 1298 SLANARDL-IGASSSGVFNFSPSVRPVPLEIHIQSVDISHFESRMLAMTKPTYTAIVR-H-AGNRKPAIVFLPTRKHARL 1374 (1674)
T ss_pred hhccchhh-ccccccceeecCcccCCCceeEEEEEeccchhHHHHHHhhhhHHHHHHH-H-hcCCCCeEEEeccchhhhh
Confidence 88 66666 34444455543 35667777766544333222211 122222 2 2356789999999999988
Q ss_pred HHHHHHHHHhc----------------cCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCee
Q 001046 747 ACQSLYERMKG----------------LGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIF 810 (1176)
Q Consensus 747 l~~~L~~~~~~----------------l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~ 810 (1176)
++..|...... +...+ ...|. |-+|+..++..+-.-|..|.+.|+|...- -.|+-...--
T Consensus 1375 ~a~~~~~~s~~~~~~~l~~~~e~~~~~l~e~l-~~gvg--~e~~s~~d~~iv~~l~e~g~i~v~v~s~~-~~~~~~~~~l 1450 (1674)
T KOG0951|consen 1375 VAVDLVTFSHADEPDYLLSELEECDETLRESL-KHGVG--HEGLSSNDQEIVQQLFEAGAIQVCVMSRD-CYGTKLKAHL 1450 (1674)
T ss_pred hhhccchhhccCcHHHHHHHHhcchHhhhhcc-ccccc--ccccCcchHHHHHHHHhcCcEEEEEEEcc-cccccccceE
Confidence 77665432110 01111 11222 88999999999888999999999988866 7888777555
Q ss_pred EEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCCCcEEEEecC--hHHHhhhCCCCCch
Q 001046 811 YVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTGPGKCYRLYT--ESAYRNEMSPTSIP 876 (1176)
Q Consensus 811 ~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g~G~c~~L~t--~~~~~~~l~~~~~p 876 (1176)
+|| .....||.+..-. .+.+.+...|+.|+|.| .|+|+.+.. ...|...+...+.|
T Consensus 1451 Vvv----mgt~~ydg~e~~~----~~y~i~~ll~m~G~a~~--~~k~vi~~~~~~k~yykkfl~e~lP 1508 (1674)
T KOG0951|consen 1451 VVV----MGTQYYDGKEHSY----EDYPIAELLQMVGLASG--AGKCVIMCHTPKKEYYKKFLYEPLP 1508 (1674)
T ss_pred EEE----ecceeeccccccc----ccCchhHHHHHhhhhcC--CccEEEEecCchHHHHHHhccCcCc
Confidence 555 4567899876533 27788999999999998 567776654 44554445544444
No 149
>cd04452 S1_IF2_alpha S1_IF2_alpha: The alpha subunit of translation Initiation Factor 2, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Eukaryotic and archaeal Initiation Factor 2 (e- and aIF2, respectively) are heterotrimeric proteins with three subunits (alpha, beta, and gamma). IF2 plays a crucial role in the process of translation initiation. The IF2 gamma subunit contains a GTP-binding site. The IF2 beta and gamma subunits together are thought to be responsible for binding methionyl-initiator tRNA. The ternary complex consisting of IF2, GTP, and the methionyl-initiator tRNA binds to the small subunit of the ribosome, as part of a pre-initiation complex that scans the mRNA to find the AUG start codon. The IF2-bound GTP is hydrolyzed to GDP when the methionyl-initiator tRNA binds the AUG start codon, at which time the IF2 is released with its bound GDP. The large ribosomal subunit then joins with the small subunit to c
Probab=99.22 E-value=4.5e-11 Score=107.64 Aligned_cols=74 Identities=30% Similarity=0.468 Sum_probs=67.7
Q ss_pred CCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEeC--cEeEEEEee
Q 001046 221 PELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVSG--QKLSLSMRD 294 (1176)
Q Consensus 221 ~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id~--~ki~Ls~k~ 294 (1176)
|+.|++|.|+|+++.+||+||++.+..+.+||+|+|+++++++.++.+.+++||.|+|+|++++. +++.||+|+
T Consensus 1 ~~~G~~~~g~V~~v~~~g~~v~l~~~~~~~gll~~s~l~~~~~~~~~~~~~~Gd~v~vkv~~~d~~~~~i~ls~k~ 76 (76)
T cd04452 1 PEEGELVVVTVKSIADMGAYVSLLEYGNIEGMILLSELSRRRIRSIRKLVKVGRKEVVKVIRVDKEKGYIDLSKKR 76 (76)
T ss_pred CCCCCEEEEEEEEEEccEEEEEEcCCCCeEEEEEhHHcCCcccCCHHHeeCCCCEEEEEEEEEECCCCEEEEEEcC
Confidence 46799999999999999999999764468999999999999999999999999999999999994 789999874
No 150
>cd05705 S1_Rrp5_repeat_hs14 S1_Rrp5_repeat_hs14: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 14 (hs14). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.20 E-value=4.2e-11 Score=107.19 Aligned_cols=69 Identities=23% Similarity=0.311 Sum_probs=61.8
Q ss_pred CCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCc---ccccCCCCEEEEEEEEEe--CcEeEEE
Q 001046 221 PELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNA---KDVVKRDQEVYVKVISVS--GQKLSLS 291 (1176)
Q Consensus 221 ~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~---~~~~~~Gd~V~VkV~~id--~~ki~Ls 291 (1176)
+++|+++.|+|++|++||+||++.+ +.+|+||++++++.++.++ .+.|++||.|+++|+++| +++|.||
T Consensus 1 ~k~G~~V~g~V~~i~~~G~fV~l~~--~v~G~v~~~~ls~~~~~~~~~~~~~~~~G~~v~~kVl~id~~~~~i~LS 74 (74)
T cd05705 1 IKEGQLLRGYVSSVTKQGVFFRLSS--SIVGRVLFQNVTKYFVSDPSLYNKYLPEGKLLTAKVLSVNSEKNLVELS 74 (74)
T ss_pred CCCCCEEEEEEEEEeCCcEEEEeCC--CCEEEEEHHHccCccccChhhHhcccCCCCEEEEEEEEEECCCCEEecC
Confidence 4689999999999999999999975 7899999999999987765 588999999999999998 4577775
No 151
>PLN00207 polyribonucleotide nucleotidyltransferase; Provisional
Probab=99.19 E-value=4.9e-11 Score=148.75 Aligned_cols=84 Identities=26% Similarity=0.482 Sum_probs=77.2
Q ss_pred CCCCCCEEE-EEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe-CcEeEEEEeeccc
Q 001046 220 EPELYQVYK-GRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS-GQKLSLSMRDVDQ 297 (1176)
Q Consensus 220 ~~~~g~~~~-g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id-~~ki~Ls~k~~dq 297 (1176)
++++|++|. |+|++|++||+||+|.+ +.+||||+|+++++++.++.++|++||.|+|+|+++| .+||+||+|.+.+
T Consensus 750 ~~~vG~iy~~g~V~~I~~FGaFVeL~~--g~EGLVHISeLs~~rv~~~~dv~kvGD~V~VkVi~ID~~grI~LSlK~l~~ 827 (891)
T PLN00207 750 VPTVGDIYRNCEIKSIAPYGAFVEIAP--GREGLCHISELSSNWLAKPEDAFKVGDRIDVKLIEVNDKGQLRLSRRALLP 827 (891)
T ss_pred CcCCCcEEECcEEEEEeccEEEEEeCC--CCEEEEEhhhcCCccccCHHHhcCCCCEEEEEEEEECCCCcEEEEEecccc
Confidence 578999995 69999999999999975 7899999999999999999999999999999999999 5799999999987
Q ss_pred cCCCCCChhhhhhh
Q 001046 298 NTGKDLLPLKKISE 311 (1176)
Q Consensus 298 ~tg~d~~P~~~~~~ 311 (1176)
+ ||..+..
T Consensus 828 ~------Pw~~~~~ 835 (891)
T PLN00207 828 E------ANSEKSS 835 (891)
T ss_pred C------chhhhhh
Confidence 7 9987543
No 152
>COG1093 SUI2 Translation initiation factor 2, alpha subunit (eIF-2alpha) [Translation, ribosomal structure and biogenesis]
Probab=99.16 E-value=2.7e-11 Score=128.83 Aligned_cols=80 Identities=35% Similarity=0.636 Sum_probs=76.2
Q ss_pred CCCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEEEeecc
Q 001046 219 NEPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSMRDVD 296 (1176)
Q Consensus 219 ~~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~k~~d 296 (1176)
+-|.+|+++-|+|..|.+||+||.|++|+|++||+|+||++..++.++.+++++||.|-|||+++| .+-|.||||.+.
T Consensus 7 ~~PeeGEiVv~tV~~V~~~GAyv~L~EY~g~Eg~ihiSEvas~wVknIrd~vkegqkvV~kVlrVd~~rg~IDLSlkrV~ 86 (269)
T COG1093 7 EYPEEGEIVVGTVKQVADYGAYVELDEYPGKEGFIHISEVASGWVKNIRDYVKEGQKVVAKVLRVDPKRGHIDLSLKRVT 86 (269)
T ss_pred CCCCCCcEEEEEEEEeeccccEEEeeccCCeeeeEEHHHHHHHHHHHHHHHhhcCCeEEEEEEEEcCCCCeEeeehhhCC
Confidence 468899999999999999999999999999999999999999999999999999999999999999 568999999997
Q ss_pred cc
Q 001046 297 QN 298 (1176)
Q Consensus 297 q~ 298 (1176)
++
T Consensus 87 ~~ 88 (269)
T COG1093 87 EH 88 (269)
T ss_pred HH
Confidence 66
No 153
>PRK07252 hypothetical protein; Provisional
Probab=99.15 E-value=1.7e-10 Score=112.72 Aligned_cols=75 Identities=33% Similarity=0.571 Sum_probs=70.1
Q ss_pred CCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEEEeecccc
Q 001046 222 ELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSMRDVDQN 298 (1176)
Q Consensus 222 ~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~k~~dq~ 298 (1176)
++|++|.|+|++|++||+||++.+ +.+||+|+++++++++.++.+.+++||.|+|+|+++| .+++.||++.+.++
T Consensus 2 kvG~iv~G~V~~V~~~G~fVei~~--~~~GllhiseLs~~~~~~~~~~~~vGD~V~VkI~~iD~~~~ri~lSlk~~~~~ 78 (120)
T PRK07252 2 KIGDKLKGTITGIKPYGAFVALEN--GTTGLIHISEIKTGFIDNIHQLLKVGEEVLVQVVDFDEYTGKASLSLRTLEEE 78 (120)
T ss_pred CCCCEEEEEEEEEeCcEEEEEECC--CCEEEEEHHHcCCccccChhhccCCCCEEEEEEEEEeCCCCEEEEEEeecccC
Confidence 479999999999999999999976 6899999999999999999999999999999999999 57999999999776
No 154
>cd04461 S1_Rrp5_repeat_hs8_sc7 S1_Rrp5_repeat_hs8_sc7: Rrp5 Homo sapiens S1 repeat 8 (hs8) and Saccharomyces cerevisiae S1 repeat 7 (sc7)-like domains. Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in S. cerevisiae Rrp5 and 14 S1 repeats in H. sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 8 and S. cerevisiae S1 repeat 7. Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.14 E-value=1.1e-10 Score=107.07 Aligned_cols=72 Identities=29% Similarity=0.337 Sum_probs=67.2
Q ss_pred CCCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEEE
Q 001046 219 NEPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSM 292 (1176)
Q Consensus 219 ~~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~ 292 (1176)
.+++.|++|.|+|++|.+||+||++.+ +.+|++|+++++++++.++.+.+++||.|+|+|++++ .+++.|||
T Consensus 10 ~~~~~G~i~~g~V~~v~~~G~fv~l~~--~~~g~v~~~el~~~~~~~~~~~~~~Gd~v~vkV~~id~~~~~i~lsl 83 (83)
T cd04461 10 SDLKPGMVVHGYVRNITPYGVFVEFLG--GLTGLAPKSYISDEFVTDPSFGFKKGQSVTAKVTSVDEEKQRFLLSL 83 (83)
T ss_pred HhCCCCCEEEEEEEEEeeceEEEEcCC--CCEEEEEHHHCCcccccCHHHhcCCCCEEEEEEEEEcCCCCEEEEeC
Confidence 358899999999999999999999976 7899999999999999999999999999999999998 57999986
No 155
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=99.12 E-value=2.4e-09 Score=132.70 Aligned_cols=125 Identities=18% Similarity=0.113 Sum_probs=82.6
Q ss_pred HhcCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCe
Q 001046 520 RQSLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEE 599 (1176)
Q Consensus 520 r~~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~ 599 (1176)
+..+-++++-.|++-++.-++--|....||.|||+++.++++-..+. +..|-|+.+...||..-+..+...+ ..+|.+
T Consensus 70 ~R~lG~r~ydvQlig~l~L~~G~IaEm~TGEGKTL~a~l~ayl~aL~-G~~VhVvT~NdyLA~RD~e~m~pvy-~~LGLs 147 (870)
T CHL00122 70 FRTLGLRHFDVQLIGGLVLNDGKIAEMKTGEGKTLVATLPAYLNALT-GKGVHIVTVNDYLAKRDQEWMGQIY-RFLGLT 147 (870)
T ss_pred HHHhCCCCCchHhhhhHhhcCCccccccCCCCchHHHHHHHHHHHhc-CCceEEEeCCHHHHHHHHHHHHHHH-HHcCCc
Confidence 34566666677788887767778999999999998888777655454 4456667778888887776544432 345666
Q ss_pred eEEEeeccc----ccCCCceEEEeChHH-----HHHHHhhCC---CCCCCceEEEcCCC
Q 001046 600 VGYAIRFED----CTGPDTVIKYMTDGM-----LLREILIDD---NLSQYSVIMLDEAH 646 (1176)
Q Consensus 600 vGy~ir~~~----~~~~~t~I~~~T~g~-----Llr~l~~~~---~L~~~s~IIiDEaH 646 (1176)
||......+ ...-.++|+|+|..- |-+.+...+ ..+.+.+.|||||+
T Consensus 148 vg~i~~~~~~~err~aY~~DItYgTn~e~gFDyLRDnm~~~~~~~v~r~~~faIVDEvD 206 (870)
T CHL00122 148 VGLIQEGMSSEERKKNYLKDITYVTNSELGFDYLRDNMALSLSDVVQRPFNYCIIDEVD 206 (870)
T ss_pred eeeeCCCCChHHHHHhcCCCCEecCCccccccchhhccCcChHHhhccccceeeeecch
Confidence 665332211 112357899999854 333332221 35678899999988
No 156
>cd05696 S1_Rrp5_repeat_hs4 S1_Rrp5_repeat_hs4: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 4 (hs4). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.12 E-value=1.8e-10 Score=102.32 Aligned_cols=67 Identities=27% Similarity=0.411 Sum_probs=62.0
Q ss_pred CCEEE-EEEEEE-eeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEEE
Q 001046 224 YQVYK-GRVSRV-VDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSM 292 (1176)
Q Consensus 224 g~~~~-g~V~~i-~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~ 292 (1176)
|++|+ |+|++| .+||+||++.+ +.+||+|+|++++.+..++.+.+++||.+.|+|+++| ++++.||+
T Consensus 1 G~v~~~g~V~~v~~~~G~~V~l~~--gv~G~i~~s~l~~~~~~~~~~~~~vG~~v~~kV~~id~~~~~i~lS~ 71 (71)
T cd05696 1 GAVVDSVKVTKVEPDLGAVFELKD--GLLGFVHISHLSDDKVPSDTGPFKAGTTHKARIIGYSPMDGLLQLSL 71 (71)
T ss_pred CcEeeeeEEEEEccCceEEEEeCC--CCEEEEEHHHCCcchhcCcccccCCCCEEEEEEEEEeCCCCEEEEeC
Confidence 78999 999999 69999999976 7899999999999999999999999999999999999 56899985
No 157
>PRK05807 hypothetical protein; Provisional
Probab=99.12 E-value=2.5e-10 Score=114.29 Aligned_cols=73 Identities=33% Similarity=0.575 Sum_probs=68.4
Q ss_pred CCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe-CcEeEEEEeecc
Q 001046 221 PELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS-GQKLSLSMRDVD 296 (1176)
Q Consensus 221 ~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id-~~ki~Ls~k~~d 296 (1176)
+++|++|.|+|++|++||+||+|+ +.+||||+|++++.++.++.+.+++||.|+|+|++++ .++|+||+|.+.
T Consensus 3 ~~vG~vv~G~Vt~i~~~GafV~L~---~~~Glvhiseis~~~v~~~~~~~kvGd~V~VkV~~id~~gkI~LSlk~~~ 76 (136)
T PRK05807 3 LKAGSILEGTVVNITNFGAFVEVE---GKTGLVHISEVADTYVKDIREHLKEQDKVKVKVISIDDNGKISLSIKQAM 76 (136)
T ss_pred ccCCCEEEEEEEEEECCeEEEEEC---CEEEEEEhhhcccccccCccccCCCCCEEEEEEEEECCCCcEEEEEEecc
Confidence 568999999999999999999994 5799999999999999999999999999999999999 579999999985
No 158
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=99.12 E-value=8.4e-11 Score=106.38 Aligned_cols=72 Identities=39% Similarity=0.509 Sum_probs=68.8
Q ss_pred CeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHH
Q 001046 764 ELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAK 843 (1176)
Q Consensus 764 ~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~ 843 (1176)
++.+..+||+++.++|..++..|..+..+|||+|+++++|+|+|++.+||.++. |.+...|.
T Consensus 11 ~~~~~~~~~~~~~~~r~~~~~~f~~~~~~vli~t~~~~~Gi~~~~~~~vi~~~~------------------~~~~~~~~ 72 (82)
T smart00490 11 GIKVARLHGGLSQEEREEILEKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDL------------------PWSPASYI 72 (82)
T ss_pred CCeEEEEECCCCHHHHHHHHHHHHcCCCeEEEECChhhCCcChhcCCEEEEeCC------------------CCCHHHHH
Confidence 577899999999999999999999999999999999999999999999998888 99999999
Q ss_pred HHhcccCCCC
Q 001046 844 QRAGRAGRTG 853 (1176)
Q Consensus 844 QR~GRAGR~g 853 (1176)
|++||+||.|
T Consensus 73 Q~~gR~~R~g 82 (82)
T smart00490 73 QRIGRAGRAG 82 (82)
T ss_pred HhhcccccCC
Confidence 9999999975
No 159
>cd05698 S1_Rrp5_repeat_hs6_sc5 S1_Rrp5_repeat_hs6_sc5: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 6 (hs6) and S. cerevisiae S1 repeat 5 (sc5). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.11 E-value=2.2e-10 Score=101.46 Aligned_cols=68 Identities=26% Similarity=0.399 Sum_probs=63.3
Q ss_pred CCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEEEe
Q 001046 224 YQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSMR 293 (1176)
Q Consensus 224 g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~k 293 (1176)
|++|.|+|++|.+||+||++.+ +.+||+|+|++++++..++.+.+++||.++|+|++++ .+++.||+|
T Consensus 1 g~~~~g~V~~v~~~G~~V~l~~--~~~gli~~s~l~~~~~~~~~~~~~~G~~i~v~v~~~d~~~~~i~ls~k 70 (70)
T cd05698 1 GLKTHGTIVKVKPNGCIVSFYN--NVKGFLPKSELSEAFIKDPEEHFRVGQVVKVKVLSCDPEQQRLLLSCK 70 (70)
T ss_pred CCEEEEEEEEEecCcEEEEECC--CCEEEEEHHHcChhhcCCHHHcccCCCEEEEEEEEEcCCCCEEEEEeC
Confidence 7899999999999999999976 6899999999999888899999999999999999999 468999985
No 160
>PF00575 S1: S1 RNA binding domain; InterPro: IPR003029 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. The S1 domain was originally identified in ribosomal protein S1 but is found in a large number of RNA-associated proteins. The structure of the S1 RNA-binding domain from the Escherichia coli polynucleotide phosphorylase has been determined using NMR methods and consists of a five-stranded antiparallel beta barrel. Conserved residues on one face of the barrel and adjacent loops form the putative RNA-binding site []. The structure of the S1 domain is very similar to that of cold shock proteins. This suggests that they may both be derived from an ancient nucleic acid-binding protein []. More information about these proteins can be found at Protein of the Month: RNA Exosomes []. This entry does not include translation initiation factor IF-1 S1 domains.; GO: 0003723 RNA binding; PDB: 3L7Z_F 2JE6_I 2JEA_I 2JEB_I 1E3P_A 2Y0S_E 1WI5_A 2BH8_A 2CQO_A 2EQS_A ....
Probab=99.11 E-value=3.6e-10 Score=101.28 Aligned_cols=72 Identities=35% Similarity=0.573 Sum_probs=66.9
Q ss_pred CCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEEEe
Q 001046 220 EPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSMR 293 (1176)
Q Consensus 220 ~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~k 293 (1176)
+++.|+++.|+|++|.++|+||++.+ +.+|++|++++++.+..++.+.+++||.|.|+|++++ .+++.||+|
T Consensus 1 k~~~G~iv~g~V~~v~~~g~~V~l~~--~~~g~ip~~~l~~~~~~~~~~~~~~G~~v~v~v~~vd~~~~~i~lS~k 74 (74)
T PF00575_consen 1 KLKEGDIVEGKVTSVEDFGVFVDLGN--GIEGFIPISELSDDRIDDPSEVYKIGQTVRVKVIKVDKEKGRIRLSLK 74 (74)
T ss_dssp -SSTTSEEEEEEEEEETTEEEEEEST--SSEEEEEGGGSSSSEESSSHGTCETTCEEEEEEEEEETTTTEEEEEST
T ss_pred CCCCCCEEEEEEEEEECCEEEEEECC--cEEEEEEeehhcCccccccccccCCCCEEEEEEEEEECCCCeEEEEEC
Confidence 47889999999999999999999984 7899999999999999999999999999999999999 568999986
No 161
>PRK07899 rpsA 30S ribosomal protein S1; Reviewed
Probab=99.08 E-value=2.1e-10 Score=137.16 Aligned_cols=95 Identities=37% Similarity=0.608 Sum_probs=86.8
Q ss_pred CCCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEEEeecc
Q 001046 219 NEPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSMRDVD 296 (1176)
Q Consensus 219 ~~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~k~~d 296 (1176)
..++.|+++.|+|++|++||+||+|. +++||||+|+++|.++.++.+.+++||.|+|+|+++| +++|.||+|.+.
T Consensus 204 ~~lk~G~iv~G~V~~i~~~G~FVdlg---gv~Glv~~Sels~~~v~~~~~~~kvGd~V~vkVl~iD~e~~rI~LSlK~~~ 280 (486)
T PRK07899 204 NQLQKGQVRKGVVSSIVNFGAFVDLG---GVDGLVHVSELSWKHIDHPSEVVEVGQEVTVEVLDVDMDRERVSLSLKATQ 280 (486)
T ss_pred HhccCCCEEEEEEEEEECCeEEEEEC---CEEEEEEHHHCCCcccCCHHHhcCCCCEEEEEEEEEECCCCEEEEEEeecc
Confidence 46889999999999999999999994 6899999999999999999999999999999999999 579999999987
Q ss_pred ccCCCCCChhhhhhhccCCCCCCCCC
Q 001046 297 QNTGKDLLPLKKISEDDALGNNPSGT 322 (1176)
Q Consensus 297 q~tg~d~~P~~~~~~~~~~~~~~~g~ 322 (1176)
++ ||..+...+..|..+.|.
T Consensus 281 ~d------Pw~~~~~~~~vG~vv~G~ 300 (486)
T PRK07899 281 ED------PWQQFARTHAIGQIVPGK 300 (486)
T ss_pred cc------chhhhHHhcCCCCEEEEE
Confidence 76 999888888777777775
No 162
>cd05706 S1_Rrp5_repeat_sc10 S1_Rrp5_repeat_sc10: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes S. cerevisiae S1 repeat 10 (sc10). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.07 E-value=6.6e-10 Score=99.30 Aligned_cols=70 Identities=26% Similarity=0.337 Sum_probs=64.5
Q ss_pred CCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEEEe
Q 001046 222 ELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSMR 293 (1176)
Q Consensus 222 ~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~k 293 (1176)
+.|+++.|+|+++.++|+||+|++ +.+|++|++++++++..++.+.+++||.|+|+|++++ .+++.||++
T Consensus 2 ~~G~iv~g~V~~v~~~gi~v~l~~--~~~g~v~~s~l~~~~~~~~~~~~~~Gd~v~~~V~~~d~~~~~i~ls~~ 73 (73)
T cd05706 2 KVGDILPGRVTKVNDRYVLVQLGN--KVTGPSFITDALDDYSEALPYKFKKNDIVRACVLSVDVPNKKIALSLR 73 (73)
T ss_pred CCCCEEEEEEEEEeCCeEEEEeCC--CcEEEEEhhhccCccccccccccCCCCEEEEEEEEEeCCCCEEEEEEC
Confidence 579999999999999999999986 7899999999999888788899999999999999999 478999874
No 163
>PRK12269 bifunctional cytidylate kinase/ribosomal protein S1; Provisional
Probab=99.06 E-value=2.2e-10 Score=145.01 Aligned_cols=97 Identities=29% Similarity=0.526 Sum_probs=88.8
Q ss_pred CCCCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccc-cccCCcccccCCCCEEEEEEEEEe--CcEeEEEEee
Q 001046 218 GNEPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIAT-RRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSMRD 294 (1176)
Q Consensus 218 ~~~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~-~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~k~ 294 (1176)
.+.+++|++++|+|++|++||+||+|.+ |.+||+|+|+++| .++.+|.+.|++||.|+|+|+++| +++++||+|+
T Consensus 573 ~~~~~vG~iV~G~V~~I~~fG~fVeL~~--gveGLvhiSEls~~~~~~~p~~~~kvGd~V~vkVl~iD~e~~rIsLS~K~ 650 (863)
T PRK12269 573 ENKFGVNDVVKGRVTKIADFGAFIELAE--GIEGLAHISEFSWVKKTSKPSDMVKIGDEVECMILGYDIQAGRVSLGLKQ 650 (863)
T ss_pred hccCCCCCEEEEEEEEEeCCeEEEEecC--CceeeeEHHHhcCccccCCHHHcCCCCCEEEEEEEEEecccCceEEEehh
Confidence 3568999999999999999999999975 7899999999999 578899999999999999999999 5799999999
Q ss_pred ccccCCCCCChhhhhhhccCCCCCCCCC
Q 001046 295 VDQNTGKDLLPLKKISEDDALGNNPSGT 322 (1176)
Q Consensus 295 ~dq~tg~d~~P~~~~~~~~~~~~~~~g~ 322 (1176)
+.++ ||..+...++.|..+.|.
T Consensus 651 l~~~------Pw~~~~~~~~vG~~v~G~ 672 (863)
T PRK12269 651 VTAN------PWEEIEARYPVGARFTRR 672 (863)
T ss_pred cccC------chHHHHHhCCCCCEEEEE
Confidence 8776 999998889988888876
No 164
>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair]
Probab=99.06 E-value=9e-10 Score=125.29 Aligned_cols=302 Identities=14% Similarity=0.161 Sum_probs=176.9
Q ss_pred CCchHHHHHHHHHHHcC---CeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCe
Q 001046 523 LPIYKLKKELIQAVHDN---QVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEE 599 (1176)
Q Consensus 523 LPi~~~q~~ii~ai~~~---~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~ 599 (1176)
--+.++|+..+..+-.| +.-||+.|-|+|||.+-.-.+. .-...++|+...-+.+.|....+.......-...
T Consensus 301 t~iRpYQEksL~KMFGNgRARSGiIVLPCGAGKtLVGvTAa~----tikK~clvLcts~VSVeQWkqQfk~wsti~d~~i 376 (776)
T KOG1123|consen 301 TQIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKTLVGVTAAC----TIKKSCLVLCTSAVSVEQWKQQFKQWSTIQDDQI 376 (776)
T ss_pred cccCchHHHHHHHHhCCCcccCceEEEecCCCCceeeeeeee----eecccEEEEecCccCHHHHHHHHHhhcccCccce
Confidence 34778899999887544 4778999999999955332211 1234567777777888888877655443333332
Q ss_pred eEEEeecccccCCCceEEEeChHHHHHH---------HhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCcc
Q 001046 600 VGYAIRFEDCTGPDTVIKYMTDGMLLRE---------ILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLR 670 (1176)
Q Consensus 600 vGy~ir~~~~~~~~t~I~~~T~g~Llr~---------l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~k 670 (1176)
+-+.-........++.|++.|..|+-.- ++.--.-...+++|+||+|- +- ..++++++..-..--
T Consensus 377 ~rFTsd~Ke~~~~~~gvvvsTYsMva~t~kRS~eaek~m~~l~~~EWGllllDEVHv--vP----A~MFRRVlsiv~aHc 450 (776)
T KOG1123|consen 377 CRFTSDAKERFPSGAGVVVTTYSMVAYTGKRSHEAEKIMDFLRGREWGLLLLDEVHV--VP----AKMFRRVLSIVQAHC 450 (776)
T ss_pred EEeeccccccCCCCCcEEEEeeehhhhcccccHHHHHHHHHHhcCeeeeEEeehhcc--ch----HHHHHHHHHHHHHHh
Confidence 2232222222334677888888776321 00000235679999999993 11 122333332111112
Q ss_pred EEEEcCCC--CHHHHHh--hhcCCCeEecC-------Cceeee--EEEEecCCCc---hhHH-----------------H
Q 001046 671 LIVTSATL--DAEKFSG--YFFNCNIFTIP-------GRTFPV--EILYTKQPES---DYLD-----------------A 717 (1176)
Q Consensus 671 vIlmSATl--~~~~~~~--~f~~~~v~~i~-------gr~~pv--~~~~~~~~~~---~~~~-----------------~ 717 (1176)
-++++||+ ..+++.. |+.++.++... |-.-.| -..+.+.... .|+. .
T Consensus 451 KLGLTATLvREDdKI~DLNFLIGPKlYEAnWmdL~~kGhIA~VqCaEVWCpMt~eFy~eYL~~~t~kr~lLyvMNP~KFr 530 (776)
T KOG1123|consen 451 KLGLTATLVREDDKITDLNFLIGPKLYEANWMDLQKKGHIAKVQCAEVWCPMTPEFYREYLRENTRKRMLLYVMNPNKFR 530 (776)
T ss_pred hccceeEEeeccccccccceeecchhhhccHHHHHhCCceeEEeeeeeecCCCHHHHHHHHhhhhhhhheeeecCcchhH
Confidence 36899999 2233322 33333322211 111111 1222222111 1111 1
Q ss_pred HHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCC-CceEEEE
Q 001046 718 SLITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPG-KRKVVVA 796 (1176)
Q Consensus 718 ~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g-~~kVlVA 796 (1176)
+...++..|.. .+.+||||....-.....+-.| + --.+||..++.+|.+|++.|.-+ .+.-|+-
T Consensus 531 aCqfLI~~HE~-RgDKiIVFsDnvfALk~YAikl-------~-------KpfIYG~Tsq~ERm~ILqnFq~n~~vNTIFl 595 (776)
T KOG1123|consen 531 ACQFLIKFHER-RGDKIIVFSDNVFALKEYAIKL-------G-------KPFIYGPTSQNERMKILQNFQTNPKVNTIFL 595 (776)
T ss_pred HHHHHHHHHHh-cCCeEEEEeccHHHHHHHHHHc-------C-------CceEECCCchhHHHHHHHhcccCCccceEEE
Confidence 23344555544 5678999987765433333222 2 12479999999999999999754 5788999
Q ss_pred cchhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC-------CcEEEEecChHHH
Q 001046 797 TNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG-------PGKCYRLYTESAY 866 (1176)
Q Consensus 797 Tniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g-------~G~c~~L~t~~~~ 866 (1176)
+-++.++||+|..++.|+-.- .--|..+-.||.||.-|+. ....|.|++++..
T Consensus 596 SKVgDtSiDLPEAnvLIQISS-----------------H~GSRRQEAQRLGRILRAKk~~de~fnafFYSLVS~DTq 655 (776)
T KOG1123|consen 596 SKVGDTSIDLPEANVLIQISS-----------------HGGSRRQEAQRLGRILRAKKRNDEEFNAFFYSLVSKDTQ 655 (776)
T ss_pred eeccCccccCCcccEEEEEcc-----------------cccchHHHHHHHHHHHHHhhcCccccceeeeeeeecchH
Confidence 999999999999999994221 1346677889999988875 3456777776654
No 165
>cd05703 S1_Rrp5_repeat_hs12_sc9 S1_Rrp5_repeat_hs12_sc9: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 12 (hs12) and S. cerevisiae S1 repeat 9 (sc9). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.06 E-value=5.2e-10 Score=99.94 Aligned_cols=69 Identities=19% Similarity=0.230 Sum_probs=63.1
Q ss_pred CCEEEEEEEEEeeceeEEEeCCCCCeeeeeeccccccc--ccCCcccccCCCCEEEEEEEEEe--CcEeEEEEee
Q 001046 224 YQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATR--RIGNAKDVVKRDQEVYVKVISVS--GQKLSLSMRD 294 (1176)
Q Consensus 224 g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~--~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~k~ 294 (1176)
|+++.|+|+++.++|+||+|.+ +++|++|++++++. +..++.+.|++||.|+++|+++| +++|.||++.
T Consensus 1 G~~V~g~V~~i~~~g~~V~l~~--~i~G~i~~~~ls~~~~~~~~~~~~~~vG~~v~~kV~~id~~~~~i~Ls~k~ 73 (73)
T cd05703 1 GQEVTGFVNNVSKEFVWLTISP--DVKGRIPLLDLSDDVSVLEHPEKKFPIGQALKAKVVGVDKEHKLLRLSARG 73 (73)
T ss_pred CCEEEEEEEEEeCCEEEEEeCC--CcEEEEEHHHcCCccccccCHHHhCCCCCEEEEEEEEEeCCCCEEEEEecC
Confidence 7899999999999999999976 79999999999976 37889999999999999999999 5699999863
No 166
>cd05697 S1_Rrp5_repeat_hs5 S1_Rrp5_repeat_hs5: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 5 (hs5) and S. cerevisiae S1 repeat 5 (sc5). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.06 E-value=5.2e-10 Score=98.86 Aligned_cols=67 Identities=31% Similarity=0.479 Sum_probs=62.0
Q ss_pred CCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEEE
Q 001046 224 YQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSM 292 (1176)
Q Consensus 224 g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~ 292 (1176)
|++|.|+|++|.+||+||++.+ +.+|++|++++++.++.++.+.+++||.++|+|+++| .+++.||+
T Consensus 1 G~~v~g~V~~v~~~Gv~V~l~~--~v~g~i~~~~l~~~~~~~~~~~~~~Gd~i~~~V~~id~~~~~i~ls~ 69 (69)
T cd05697 1 GQVVKGTIRKLRPSGIFVKLSD--HIKGLVPPMHLADVRLKHPEKKFKPGLKVKCRVLSVEPERKRLVLTL 69 (69)
T ss_pred CCEEEEEEEEEeccEEEEEecC--CcEEEEEHHHCCCccccCHHHcCCCCCEEEEEEEEEECCCCEEEEEC
Confidence 7899999999999999999976 7899999999999988899999999999999999998 46888874
No 167
>cd05690 S1_RPS1_repeat_ec5 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain. While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 5 (ec5) of the Escherichia coli RPS1. Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.
Probab=99.06 E-value=4.3e-10 Score=99.25 Aligned_cols=66 Identities=33% Similarity=0.617 Sum_probs=59.3
Q ss_pred CCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccc-cccCCcccccCCCCEEEEEEEEEe--CcEeEEE
Q 001046 224 YQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIAT-RRIGNAKDVVKRDQEVYVKVISVS--GQKLSLS 291 (1176)
Q Consensus 224 g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~-~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls 291 (1176)
|++|.|+|++|++||+||+|.+ +.+||+|++++++ .+..++.+.+++||.|+|+|+++| .++++|+
T Consensus 1 G~~~~g~V~~i~~~G~fv~l~~--~~~Glv~~~~l~~~~~~~~~~~~~~~G~~v~v~v~~id~~~~~i~l~ 69 (69)
T cd05690 1 GTVVSGKIKSITDFGIFVGLDG--GIDGLVHISDISWTQRVRHPSEIYKKGQEVEAVVLNIDVERERISLG 69 (69)
T ss_pred CCEEEEEEEEEEeeeEEEEeCC--CCEEEEEHHHCCCccccCChhhEECCCCEEEEEEEEEECCcCEEeCC
Confidence 7899999999999999999976 7899999999996 477888899999999999999998 4577764
No 168
>cd05707 S1_Rrp5_repeat_sc11 S1_Rrp5_repeat_sc11: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes S. cerevisiae S1 repeat 11 (sc11). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.03 E-value=6e-10 Score=98.16 Aligned_cols=66 Identities=26% Similarity=0.411 Sum_probs=60.9
Q ss_pred CCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEE
Q 001046 224 YQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLS 291 (1176)
Q Consensus 224 g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls 291 (1176)
|+++.|+|++|.++|+||++.+ +.+|++|++++++++..++.+.+++||.|+|+|+++| .+++.||
T Consensus 1 G~~v~g~V~~v~~~Gv~V~l~~--~~~G~v~~s~l~~~~~~~~~~~~~~Gd~v~~~v~~~d~~~~~i~ls 68 (68)
T cd05707 1 GDVVRGFVKNIANNGVFVTLGR--GVDARVRVSELSDSYLKDWKKRFKVGQLVKGKIVSIDPDNGRIEMT 68 (68)
T ss_pred CCEEEEEEEEEECccEEEEeCC--CCEEEEEHHHCCchhhcCHhhccCCCCEEEEEEEEEeCCCCEEecC
Confidence 7899999999999999999976 7899999999999999999999999999999999999 4577664
No 169
>PRK13806 rpsA 30S ribosomal protein S1; Provisional
Probab=99.02 E-value=6e-10 Score=135.23 Aligned_cols=98 Identities=35% Similarity=0.561 Sum_probs=88.7
Q ss_pred CCCCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccc-cccCCcccccCCCCEEEEEEEEEe--CcEeEEEEee
Q 001046 218 GNEPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIAT-RRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSMRD 294 (1176)
Q Consensus 218 ~~~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~-~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~k~ 294 (1176)
.+++++|+++.|+|++|++||+||++.+ +.+||+|+|+++| .++.++.+.+++||.|+|+|+++| +++|.||+|+
T Consensus 287 ~~~~~~G~~v~G~V~~v~~~G~fV~l~~--gv~Glvh~sels~~~~~~~~~~~~~~Gd~v~vkVl~iD~e~~ri~Ls~K~ 364 (491)
T PRK13806 287 GDRLKAGDKVTGKVVRLAPFGAFVEILP--GIEGLVHVSEMSWTRRVNKPEDVVAPGDAVAVKIKDIDPAKRRISLSLRD 364 (491)
T ss_pred hccCCCCCEEEEEEEEEeCceEEEEeCC--CcEEEEEHHHcCcccccCCHHHcCCCCCEEEEEEEEEEccCCEEEEEEee
Confidence 4578899999999999999999999975 7999999999998 477889999999999999999998 5799999999
Q ss_pred ccccCCCCCChhhhhhhccCCCCCCCCCC
Q 001046 295 VDQNTGKDLLPLKKISEDDALGNNPSGTR 323 (1176)
Q Consensus 295 ~dq~tg~d~~P~~~~~~~~~~~~~~~g~~ 323 (1176)
..++ ||..+...++.|..+.|+-
T Consensus 365 ~~~~------p~~~~~~~~~vG~~v~G~V 387 (491)
T PRK13806 365 AEGD------PWADVAERFAPGTTVTGTV 387 (491)
T ss_pred cccC------hhHHhhhhCCCCCEEEEEE
Confidence 8776 9999888888888888864
No 170
>PRK14873 primosome assembly protein PriA; Provisional
Probab=99.01 E-value=9.2e-09 Score=128.00 Aligned_cols=130 Identities=7% Similarity=0.009 Sum_probs=87.2
Q ss_pred CCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhC-CccCCeeEEEeec---------ccccCCCceE
Q 001046 547 ETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFG-CRLGEEVGYAIRF---------EDCTGPDTVI 616 (1176)
Q Consensus 547 pTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g-~~~G~~vGy~ir~---------~~~~~~~t~I 616 (1176)
-+|||||..+...+.+. +..++.+++++|...++.|+.+++...+| ..+ +.|+-.. ........+|
T Consensus 168 ~~GSGKTevyl~~i~~~-l~~Gk~vLvLvPEi~lt~q~~~rl~~~f~~~~v---~~lhS~l~~~~R~~~w~~~~~G~~~I 243 (665)
T PRK14873 168 LPGEDWARRLAAAAAAT-LRAGRGALVVVPDQRDVDRLEAALRALLGAGDV---AVLSAGLGPADRYRRWLAVLRGQARV 243 (665)
T ss_pred CCCCcHHHHHHHHHHHH-HHcCCeEEEEecchhhHHHHHHHHHHHcCCCcE---EEECCCCCHHHHHHHHHHHhCCCCcE
Confidence 36999999999887765 45577899999999999999999998886 332 2232211 1122345788
Q ss_pred EEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHH----HHHHHHHHhhCCCccEEEEcCCCCHHHHHhh
Q 001046 617 KYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVL----FGLLKQLVKRRPDLRLIVTSATLDAEKFSGY 686 (1176)
Q Consensus 617 ~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~l----l~llk~~~~~r~~~kvIlmSATl~~~~~~~~ 686 (1176)
++.|-.-+. .-+.++++|||||=|+-+...+-. ..-+-.......+..+|+.|||...+.+...
T Consensus 244 ViGtRSAvF------aP~~~LgLIIvdEEhd~sykq~~~p~yhaRdvA~~Ra~~~~~~lvLgSaTPSles~~~~ 311 (665)
T PRK14873 244 VVGTRSAVF------APVEDLGLVAIWDDGDDLLAEPRAPYPHAREVALLRAHQHGCALLIGGHARTAEAQALV 311 (665)
T ss_pred EEEcceeEE------eccCCCCEEEEEcCCchhhcCCCCCCccHHHHHHHHHHHcCCcEEEECCCCCHHHHHHH
Confidence 888753321 147889999999999633332210 0111112224468999999999998877653
No 171
>cd05694 S1_Rrp5_repeat_hs2_sc2 S1_Rrp5_repeat_hs2_sc2: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 2 (hs2) and S. cerevisiae S1 repeat 2 (sc2). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.01 E-value=1.8e-09 Score=96.60 Aligned_cols=71 Identities=24% Similarity=0.257 Sum_probs=62.7
Q ss_pred CCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEEEeeccc
Q 001046 220 EPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSMRDVDQ 297 (1176)
Q Consensus 220 ~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~k~~dq 297 (1176)
+++.|.++.|.|++|++||+||+++ ..+.+||+|.+++++. +.+++||.+.|+|++++ ++++.||+|...+
T Consensus 1 dl~~G~~v~g~V~si~d~G~~v~~g-~~gv~Gfl~~~~~~~~------~~~~~Gq~v~~~V~~vd~~~~~v~ls~k~~~~ 73 (74)
T cd05694 1 DLVEGMVLSGCVSSVEDHGYILDIG-IPGTTGFLPKKDAGNF------SKLKVGQLLLCVVEKVKDDGRVVSLSADPSKV 73 (74)
T ss_pred CCCCCCEEEEEEEEEeCCEEEEEeC-CCCcEEEEEHHHCCcc------cccCCCCEEEEEEEEEECCCCEEEEEEeeccc
Confidence 3678999999999999999999995 2378999999999876 77999999999999999 5699999998643
No 172
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=99.01 E-value=1.5e-08 Score=125.49 Aligned_cols=125 Identities=19% Similarity=0.148 Sum_probs=83.0
Q ss_pred HhcCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCe
Q 001046 520 RQSLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEE 599 (1176)
Q Consensus 520 r~~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~ 599 (1176)
+..|-++++-.|++-++.=++--|..+.||-|||+++.++++-..+...+ |-|+.+..-||..=+..+...+ ..+|.+
T Consensus 79 ~R~lG~r~ydVQliGgl~Lh~G~IAEM~TGEGKTL~atlpaylnAL~Gkg-VhVVTvNdYLA~RDae~m~~vy-~~LGLt 156 (939)
T PRK12902 79 KRVLGMRHFDVQLIGGMVLHEGQIAEMKTGEGKTLVATLPSYLNALTGKG-VHVVTVNDYLARRDAEWMGQVH-RFLGLS 156 (939)
T ss_pred HHHhCCCcchhHHHhhhhhcCCceeeecCCCChhHHHHHHHHHHhhcCCC-eEEEeCCHHHHHhHHHHHHHHH-HHhCCe
Confidence 45677777777888887667777889999999999988888776666444 4444455666665554443322 234566
Q ss_pred eEEEeecc----cccCCCceEEEeChHHH-----HHHHhhCC---CCCCCceEEEcCCC
Q 001046 600 VGYAIRFE----DCTGPDTVIKYMTDGML-----LREILIDD---NLSQYSVIMLDEAH 646 (1176)
Q Consensus 600 vGy~ir~~----~~~~~~t~I~~~T~g~L-----lr~l~~~~---~L~~~s~IIiDEaH 646 (1176)
||...... ....-.++|+|+|+.-| .+.+..+. ..+.+.+.|||||+
T Consensus 157 vg~i~~~~~~~err~aY~~DItYgTn~e~gFDYLRDnm~~~~~~~vqR~~~faIVDEvD 215 (939)
T PRK12902 157 VGLIQQDMSPEERKKNYACDITYATNSELGFDYLRDNMATDISEVVQRPFNYCVIDEVD 215 (939)
T ss_pred EEEECCCCChHHHHHhcCCCeEEecCCcccccchhhhhcccccccccCccceEEEeccc
Confidence 66533211 11224689999999766 44444322 46788899999988
No 173
>cd05691 S1_RPS1_repeat_ec6 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain. While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 6 (ec6) of the Escherichia coli RPS1. Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.
Probab=98.99 E-value=1.8e-09 Score=96.31 Aligned_cols=70 Identities=30% Similarity=0.504 Sum_probs=65.1
Q ss_pred CCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEeC--cEeEEEEeec
Q 001046 224 YQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVSG--QKLSLSMRDV 295 (1176)
Q Consensus 224 g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id~--~ki~Ls~k~~ 295 (1176)
|+++.|+|++|.++|+||++.+ +.+|++|+++++++++.++.+.+++||.++|+|++++. +++.||++..
T Consensus 1 G~~v~g~V~~v~~~g~~v~l~~--~~~g~i~~~~~~~~~~~~~~~~~~~Gd~v~~~v~~~d~~~~~i~ls~k~~ 72 (73)
T cd05691 1 GSIVTGKVTEVDAKGATVKLGD--GVEGFLRAAELSRDRVEDATERFKVGDEVEAKITNVDRKNRKISLSIKAK 72 (73)
T ss_pred CCEEEEEEEEEECCeEEEEeCC--CCEEEEEHHHCCCccccCHHHccCCCCEEEEEEEEEeCCCCEEEEEEEEc
Confidence 7899999999999999999976 68999999999999998999999999999999999993 6899999874
No 174
>PRK07400 30S ribosomal protein S1; Reviewed
Probab=98.99 E-value=1.2e-09 Score=124.90 Aligned_cols=81 Identities=27% Similarity=0.489 Sum_probs=75.7
Q ss_pred CCCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEEEeecc
Q 001046 219 NEPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSMRDVD 296 (1176)
Q Consensus 219 ~~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~k~~d 296 (1176)
.++++|+++.|+|++|++||+||++. +.+||+|+++++++++.++.+.|++||.|+|+|+++| +++|.||+|.+.
T Consensus 192 ~~~k~G~vv~G~V~~I~~~G~fV~i~---gv~Gllhisels~~~~~~~~~~~~vGd~VkvkVl~iD~e~~rI~LS~K~l~ 268 (318)
T PRK07400 192 NRLEVGEVVVGTVRGIKPYGAFIDIG---GVSGLLHISEISHEHIETPHSVFNVNDEMKVMIIDLDAERGRISLSTKQLE 268 (318)
T ss_pred ccCCCCCEEEEEEEEEECCeEEEEEC---CEEEEEEHHHcccccccChhhccCCCCEEEEEEEEEeCCCCEEEEEEeccc
Confidence 46889999999999999999999994 6899999999999999999999999999999999999 589999999999
Q ss_pred ccCCCCCChhhh
Q 001046 297 QNTGKDLLPLKK 308 (1176)
Q Consensus 297 q~tg~d~~P~~~ 308 (1176)
++ ||+.
T Consensus 269 ~~------P~~~ 274 (318)
T PRK07400 269 PE------PGDM 274 (318)
T ss_pred cC------hhhh
Confidence 88 8864
No 175
>cd05689 S1_RPS1_repeat_ec4 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain. While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 4 (ec4) of the Escherichia coli RPS1. Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.
Probab=98.98 E-value=1.6e-09 Score=96.52 Aligned_cols=68 Identities=35% Similarity=0.528 Sum_probs=59.1
Q ss_pred CCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeeccccccc-ccCCcccccCCCCEEEEEEEEEe--CcEeEE
Q 001046 221 PELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATR-RIGNAKDVVKRDQEVYVKVISVS--GQKLSL 290 (1176)
Q Consensus 221 ~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~-~~~~~~~~~~~Gd~V~VkV~~id--~~ki~L 290 (1176)
+.+|++|.|+|++|++||+||+|.+ +.+||+|++++++. +..++.+.+++||.|+|+|++++ .+++.|
T Consensus 1 ~~~g~~~~g~V~~i~~~G~fv~l~~--~~~Gl~~~~~l~~~~~~~~~~~~~~~Gd~v~v~v~~id~~~~~i~~ 71 (72)
T cd05689 1 YPEGTRLFGKVTNLTDYGCFVELEE--GVEGLVHVSEMDWTNKNIHPSKVVSLGDEVEVMVLDIDEERRRISL 71 (72)
T ss_pred CcCCCEEEEEEEEEEeeEEEEEcCC--CCEEEEEEEeccCcccccCcccEeCCCCEEEEEEEEeeCCcCEEeC
Confidence 3579999999999999999999976 78999999999875 44577788999999999999998 356655
No 176
>cd05708 S1_Rrp5_repeat_sc12 S1_Rrp5_repeat_sc12: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes S. cerevisiae S1 repeat 12 (sc12). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=98.98 E-value=2.2e-09 Score=96.77 Aligned_cols=72 Identities=28% Similarity=0.522 Sum_probs=65.8
Q ss_pred CCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEEEeec
Q 001046 223 LYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSMRDV 295 (1176)
Q Consensus 223 ~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~k~~ 295 (1176)
+|++|.|+|++|++||+||++.+ .+.+|++|++++++++..++.+.+++||.|+|+|++++ .+++.|++|..
T Consensus 2 ~g~~v~g~V~~i~~~g~~v~l~~-~~~~g~i~~~~l~~~~~~~~~~~~~~Gd~v~v~i~~vd~~~~~i~ls~k~~ 75 (77)
T cd05708 2 VGQKIDGTVRRVEDYGVFIDIDG-TNVSGLCHKSEISDNRVADASKLFRVGDKVRAKVLKIDAEKKRISLGLKAS 75 (77)
T ss_pred CCCEEEEEEEEEEcceEEEEECC-CCeEEEEEHHHCCCCccCCHhHeecCCCEEEEEEEEEeCCCCEEEEEEEee
Confidence 58999999999999999999974 25799999999999988889999999999999999999 57999999874
No 177
>PRK03987 translation initiation factor IF-2 subunit alpha; Validated
Probab=98.97 E-value=1.8e-09 Score=119.44 Aligned_cols=80 Identities=38% Similarity=0.621 Sum_probs=74.0
Q ss_pred CCCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEEEeecc
Q 001046 219 NEPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSMRDVD 296 (1176)
Q Consensus 219 ~~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~k~~d 296 (1176)
+-|++|+++.|+|++|.+||+||+|.++.+.+||+|+|+++++++.++.+.+++||.|.|+|+++| .++|.||+|.++
T Consensus 4 ~~P~~GdiV~G~V~~I~~~G~fV~L~e~~gieGlI~iSEls~~~i~~i~~~~kvGd~V~vkVi~VD~~k~~I~LSlK~v~ 83 (262)
T PRK03987 4 EWPEEGELVVGTVKEVKDFGAFVTLDEYPGKEGFIHISEVASGWVKNIRDHVKEGQKVVCKVIRVDPRKGHIDLSLKRVN 83 (262)
T ss_pred CCCCCCCEEEEEEEEEECCEEEEEECCCCCcEEEEEHHHcCcccccCHHHhCCCCCEEEEEEEEEecccCeEEEEEEecc
Confidence 457899999999999999999999987667899999999999999999999999999999999999 468999999987
Q ss_pred cc
Q 001046 297 QN 298 (1176)
Q Consensus 297 q~ 298 (1176)
++
T Consensus 84 ~~ 85 (262)
T PRK03987 84 EH 85 (262)
T ss_pred cc
Confidence 65
No 178
>cd04453 S1_RNase_E S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and the maturation of tRNA, 10Sa RNA and the M1 precursor of RNase P. RNase E associates with PNPase (3' to 5' exonuclease), Rhl B (DEAD-box RNA helicase) and enolase (glycolytic enzyme) to form the RNA degradosome. RNase E tends to cut mRNA within single-stranded regions that are rich in A/U nucleotides. The N-terminal region of RNase E contains the catalytic site. Within the conserved N-terminal domain of RNAse E and RNase G, there is an S1-like subdomain, which is an ancient single-stranded RNA-binding domain. S1 domain is an RNA-binding module originally identified in the ribosomal protein S1. The S1 domain is required for RNA cleavage by RNase E. RNase G is paralogous to RNase E with an N-terminal catalytic domain th
Probab=98.96 E-value=2.1e-09 Score=99.49 Aligned_cols=64 Identities=31% Similarity=0.592 Sum_probs=58.7
Q ss_pred CCCCCCCEEEEEEEEEeec--eeEEEeCCCCCeeeeeecccccc---cccCCcccccCCCCEEEEEEEEEe
Q 001046 219 NEPELYQVYKGRVSRVVDT--GCFVQLNDFRGKEGLVHVSQIAT---RRIGNAKDVVKRDQEVYVKVISVS 284 (1176)
Q Consensus 219 ~~~~~g~~~~g~V~~i~~~--G~fV~l~~~~~~eGlvhisels~---~~~~~~~~~~~~Gd~V~VkV~~id 284 (1176)
.++++|++|.|+|++|.+| |+||+|.+ +.+||+|+|++++ .++.++.+.+++||.|.|+|+...
T Consensus 3 ~~~~~G~iy~g~V~~i~~~~~GaFV~l~~--g~~Gllh~seis~~~~~~v~~~~~~~~~Gd~v~VqV~~~~ 71 (88)
T cd04453 3 REPIVGNIYLGRVKKIVPGLQAAFVDIGL--GKNGFLHLSDILPAYFKKHKKIAKLLKEGQEILVQVVKEP 71 (88)
T ss_pred CcCCCCCEEEEEEEEeccCCcEEEEEeCC--CCEEEEEhHHcCchhccccCCHHHcCCCCCEEEEEEEEec
Confidence 3678999999999999997 99999986 7899999999998 678888999999999999999976
No 179
>cd05692 S1_RPS1_repeat_hs4 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain. While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 4 (hs4) of the H. sapiens RPS1 homolog. Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.
Probab=98.96 E-value=2.2e-09 Score=94.26 Aligned_cols=68 Identities=44% Similarity=0.708 Sum_probs=63.1
Q ss_pred CCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEeC-cEeEEEEe
Q 001046 224 YQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVSG-QKLSLSMR 293 (1176)
Q Consensus 224 g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id~-~ki~Ls~k 293 (1176)
|+++.|+|+++.+||+||++.+ +.+|++|+++++++++.++.+.+++||.|.|+|++++. +++.||+|
T Consensus 1 G~~~~g~V~~i~~~g~~v~i~~--~~~g~l~~~~l~~~~~~~~~~~~~~Gd~v~v~v~~~~~~~~i~ls~k 69 (69)
T cd05692 1 GSVVEGTVTRLKPFGAFVELGG--GISGLVHISQIAHKRVKDVKDVLKEGDKVKVKVLSIDARGRISLSIK 69 (69)
T ss_pred CCEEEEEEEEEEeeeEEEEECC--CCEEEEEhHHcCCcccCCHHHccCCCCEEEEEEEEECCCCcEEEEEC
Confidence 7899999999999999999975 68999999999999988999999999999999999994 78999875
No 180
>TIGR03117 cas_csf4 CRISPR-associated DEAD/DEAH-box helicase Csf4. Members of this family show up near CRISPR repeats in Acidithiobacillus ferrooxidans ATCC 23270, Azoarcus sp. EbN1, and Rhodoferax ferrireducens DSM 15236. In the latter two species, the CRISPR/cas locus is found on a plasmid. This family is one of several characteristic of a type of CRISPR-associated (cas) gene cluster we designate Aferr after A. ferrooxidans, where it is both chromosomal and the only type of cas gene cluster found. The gene is designated csf4 (CRISPR/cas Subtype as in A. ferrooxidans protein 1), as it lies farthest (fourth closest) from the repeats in the A. ferrooxidans genome.
Probab=98.96 E-value=3.1e-07 Score=113.16 Aligned_cols=134 Identities=16% Similarity=0.093 Sum_probs=84.0
Q ss_pred hHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCC----C
Q 001046 714 YLDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPP----G 789 (1176)
Q Consensus 714 ~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~----g 789 (1176)
|.......+..+ .....|.+||.+++...++.+++.|...+ .+. +.+.|..+. +..+++.|+. |
T Consensus 454 ~~~~~~~~~~~~-~~~~~G~~lvLfTS~~~~~~~~~~l~~~l--------~~~-~l~qg~~~~--~~~l~~~f~~~~~~~ 521 (636)
T TIGR03117 454 WLENVSLSTAAI-LRKAQGGTLVLTTAFSHISAIGQLVELGI--------PAE-IVIQSEKNR--LASAEQQFLALYANG 521 (636)
T ss_pred HHHHHHHHHHHH-HHHcCCCEEEEechHHHHHHHHHHHHhhc--------CCC-EEEeCCCcc--HHHHHHHHHHhhcCC
Confidence 444445555554 34457899999999999999999987643 122 334555532 2223444443 5
Q ss_pred CceEEEEcchhhhccCC----------CCeeEEEeCCcccceeccC--------CCCCccccccccCHHHHHHHhcccCC
Q 001046 790 KRKVVVATNIAEASLTI----------DGIFYVIDPGFAKQNVYNP--------KQGLDSLVITPISQASAKQRAGRAGR 851 (1176)
Q Consensus 790 ~~kVlVATniae~GIdI----------p~V~~VId~g~~k~~~yd~--------~~g~~~l~~~p~S~as~~QR~GRAGR 851 (1176)
...||++|+-+-.|||+ +.+..||-.-+.-.. -|| ..|-..+...|...-.+.|-+||.=|
T Consensus 522 ~~~vL~gt~sfweGvDv~~~~~~p~~G~~Ls~ViI~kLPF~~-~dp~a~~~~~~~~g~~~f~~~p~a~i~lkQg~GRLIR 600 (636)
T TIGR03117 522 IQPVLIAAGGAWTGIDLTHKPVSPDKDNLLTDLIITCAPFGL-NRSLSMLKRIRKTSVRPWEIINESLMMLRQGLGRLVR 600 (636)
T ss_pred CCcEEEeCCccccccccCCccCCCCCCCcccEEEEEeCCCCc-CChHHHHHHHHhcCCChHhhhHHHHHHHHHhcCceee
Confidence 78999999999999999 337777644332211 122 12333333456666778899999988
Q ss_pred CC----CcEEEEe
Q 001046 852 TG----PGKCYRL 860 (1176)
Q Consensus 852 ~g----~G~c~~L 860 (1176)
.. .|....|
T Consensus 601 ~~~D~~~G~i~il 613 (636)
T TIGR03117 601 HPDMPQNRRIHML 613 (636)
T ss_pred cCCCcCceEEEEE
Confidence 75 3555444
No 181
>PRK08059 general stress protein 13; Validated
Probab=98.96 E-value=2.9e-09 Score=105.13 Aligned_cols=77 Identities=35% Similarity=0.546 Sum_probs=71.1
Q ss_pred CCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEEEeeccc
Q 001046 220 EPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSMRDVDQ 297 (1176)
Q Consensus 220 ~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~k~~dq 297 (1176)
++++|++|.|+|++|.++|+||++.+ +.+|++|+++++++++.++.+.+++||.|.|+|++++ .+++.||++.+..
T Consensus 4 ~~k~G~iv~G~V~~i~~~G~fV~i~~--~~~Gli~~sel~~~~~~~~~~~~~vGD~I~vkI~~id~~~~~i~lslk~~~~ 81 (123)
T PRK08059 4 QYEVGSVVTGKVTGIQPYGAFVALDE--ETQGLVHISEITHGFVKDIHDFLSVGDEVKVKVLSVDEEKGKISLSIRATEE 81 (123)
T ss_pred cCCCCCEEEEEEEEEecceEEEEECC--CCEEEEEHHHCCcccccCHHHcCCCCCEEEEEEEEEECCCCeEEEEEEEccc
Confidence 57889999999999999999999976 7899999999999998888899999999999999998 4799999999865
Q ss_pred c
Q 001046 298 N 298 (1176)
Q Consensus 298 ~ 298 (1176)
+
T Consensus 82 ~ 82 (123)
T PRK08059 82 A 82 (123)
T ss_pred C
Confidence 5
No 182
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=98.94 E-value=2e-07 Score=121.64 Aligned_cols=141 Identities=18% Similarity=0.258 Sum_probs=89.3
Q ss_pred chhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCc
Q 001046 712 SDYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKR 791 (1176)
Q Consensus 712 ~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~ 791 (1176)
..|.......+..+ ....+|.+|||+++.+..+.++..|..... ..++.++. . ++....+.++.+.|+.+..
T Consensus 734 ~~~~~~la~~i~~l-~~~~~g~~LVLFtSy~~l~~v~~~l~~~~~-----~~~~~ll~-Q-g~~~~~r~~l~~~F~~~~~ 805 (928)
T PRK08074 734 EEYIEEVAAYIAKI-AKATKGRMLVLFTSYEMLKKTYYNLKNEEE-----LEGYVLLA-Q-GVSSGSRARLTKQFQQFDK 805 (928)
T ss_pred HHHHHHHHHHHHHH-HHhCCCCEEEEECCHHHHHHHHHHHhhccc-----ccCceEEe-c-CCCCCCHHHHHHHHHhcCC
Confidence 34555555555554 334578999999999999999988875321 01233332 2 2322345667777877888
Q ss_pred eEEEEcchhhhccCCCC--eeEEEeCCcccceeccC----------CCCCcccc--ccccCHHHHHHHhcccCCCC--Cc
Q 001046 792 KVVVATNIAEASLTIDG--IFYVIDPGFAKQNVYNP----------KQGLDSLV--ITPISQASAKQRAGRAGRTG--PG 855 (1176)
Q Consensus 792 kVlVATniae~GIdIp~--V~~VId~g~~k~~~yd~----------~~g~~~l~--~~p~S~as~~QR~GRAGR~g--~G 855 (1176)
.||++|..+..|||+|| +.+||=.++.-..--|| ..|-+.+. ..|...-.+.|-+||.=|.. .|
T Consensus 806 ~iLlG~~sFwEGVD~pg~~l~~viI~kLPF~~p~dp~~~a~~~~~~~~g~~~F~~~~lP~A~~~lkQg~GRlIRs~~D~G 885 (928)
T PRK08074 806 AILLGTSSFWEGIDIPGDELSCLVIVRLPFAPPDQPVMEAKSEWAKEQGENPFQELSLPQAVLRFKQGFGRLIRTETDRG 885 (928)
T ss_pred eEEEecCcccCccccCCCceEEEEEecCCCCCCCCHHHHHHHHHHHHhCCCchhhhhhHHHHHHHHhhhhhhcccCCceE
Confidence 99999999999999998 47777555532111011 11211111 12555667899999999988 57
Q ss_pred EEEEe
Q 001046 856 KCYRL 860 (1176)
Q Consensus 856 ~c~~L 860 (1176)
..+.|
T Consensus 886 ~v~il 890 (928)
T PRK08074 886 TVFVL 890 (928)
T ss_pred EEEEe
Confidence 76633
No 183
>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=98.92 E-value=1.8e-09 Score=132.34 Aligned_cols=70 Identities=37% Similarity=0.608 Sum_probs=64.6
Q ss_pred CCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeeccccc----ccccCCcccccCCCCEEEEEEEEEe-CcEeEEE
Q 001046 220 EPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIA----TRRIGNAKDVVKRDQEVYVKVISVS-GQKLSLS 291 (1176)
Q Consensus 220 ~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels----~~~~~~~~~~~~~Gd~V~VkV~~id-~~ki~Ls 291 (1176)
.|++|++|.|+|++|++||+||+|.. |.+||||+|+++ +.++.++.+++++||.|+|||+++| .+||+|+
T Consensus 644 ~~~vG~i~~GkV~~I~dfGaFVel~~--G~eGLvHISeisdls~~~rv~~~~dv~kvGd~V~VKVl~ID~~gKI~L~ 718 (719)
T TIGR02696 644 MPEVGERFLGTVVKTTAFGAFVSLLP--GKDGLLHISQIRKLAGGKRVENVEDVLSVGQKIQVEIADIDDRGKLSLV 718 (719)
T ss_pred cCCCCCEEEEEEEEEECceEEEEecC--CceEEEEhhhccccccccCcCCHHHcCCCCCEEEEEEEEECCCCCeeec
Confidence 58999999999999999999999975 789999999996 4689999999999999999999999 5799886
No 184
>PF02399 Herpes_ori_bp: Origin of replication binding protein; InterPro: IPR003450 This entry represents replication origin binding protein. It functions as a docking protein to recruit essential components of the viral replication machinery to viral DNA origins. In the presence of the major DNA-binding protein, it opens dsDNA which leads to a conformational change in the origin that facilitates DNA unwinding and subsequent replication [].; GO: 0003688 DNA replication origin binding, 0005524 ATP binding, 0006260 DNA replication
Probab=98.89 E-value=1.8e-07 Score=115.16 Aligned_cols=294 Identities=20% Similarity=0.206 Sum_probs=169.2
Q ss_pred HcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccC--CCc
Q 001046 537 HDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTG--PDT 614 (1176)
Q Consensus 537 ~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~--~~t 614 (1176)
....+.+|.+|.||||||++..|+.+..-....+++++.-|+.++.+++.++.... . ...+-|..-...... +..
T Consensus 47 ~~~~V~vVRSpMGTGKTtaLi~wLk~~l~~~~~~VLvVShRrSL~~sL~~rf~~~~-l--~gFv~Y~d~~~~~i~~~~~~ 123 (824)
T PF02399_consen 47 QKRGVLVVRSPMGTGKTTALIRWLKDALKNPDKSVLVVSHRRSLTKSLAERFKKAG-L--SGFVNYLDSDDYIIDGRPYD 123 (824)
T ss_pred CCCCeEEEECCCCCCcHHHHHHHHHHhccCCCCeEEEEEhHHHHHHHHHHHHhhcC-C--CcceeeeccccccccccccC
Confidence 45678999999999999999999887644556799999999999999999885421 1 112222211111111 224
Q ss_pred eEEEeChHHHHHHHhhCCCCCCCceEEEcCCCc--CCC------chhHHHHHHHHHHhhCCCccEEEEcCCCCHH---HH
Q 001046 615 VIKYMTDGMLLREILIDDNLSQYSVIMLDEAHE--RTI------HTDVLFGLLKQLVKRRPDLRLIVTSATLDAE---KF 683 (1176)
Q Consensus 615 ~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHe--R~~------~~d~ll~llk~~~~~r~~~kvIlmSATl~~~---~~ 683 (1176)
+++++- ..|.+.. .+.+.+|++|||||+-. ..+ .....+.+++.++.. .-++|+|-||++.. -+
T Consensus 124 rLivqI-dSL~R~~--~~~l~~yDvVIIDEv~svL~qL~S~Tm~~~~~v~~~L~~lI~~--ak~VI~~DA~ln~~tvdFl 198 (824)
T PF02399_consen 124 RLIVQI-DSLHRLD--GSLLDRYDVVIIDEVMSVLNQLFSPTMRQREEVDNLLKELIRN--AKTVIVMDADLNDQTVDFL 198 (824)
T ss_pred eEEEEe-hhhhhcc--cccccccCEEEEehHHHHHHHHhHHHHhhHHHHHHHHHHHHHh--CCeEEEecCCCCHHHHHHH
Confidence 555553 4444442 34688899999999852 001 112334445555543 45899999999743 33
Q ss_pred HhhhcCCCeEecCCc----eeee-EEEEecCCCchhH--------------------------------HHHHHHHHHHH
Q 001046 684 SGYFFNCNIFTIPGR----TFPV-EILYTKQPESDYL--------------------------------DASLITVLQIH 726 (1176)
Q Consensus 684 ~~~f~~~~v~~i~gr----~~pv-~~~~~~~~~~~~~--------------------------------~~~l~~v~~i~ 726 (1176)
+..-++.++..+.+. .|.- ...+...-..+.+ ...+-..+..
T Consensus 199 ~~~Rp~~~i~vI~n~y~~~~fs~R~~~~~~~l~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tF~~~L~~- 277 (824)
T PF02399_consen 199 ASCRPDENIHVIVNTYASPGFSNRRCTFLRSLGTDTLAAALNPEDENADTSPTPKHSPDPTATAAISNDETTFFSELLA- 277 (824)
T ss_pred HHhCCCCcEEEEEeeeecCCcccceEEEecccCcHHHHHHhCCcccccccCCCcCCCCccccccccccchhhHHHHHHH-
Confidence 333333333222211 0110 0111110000000 0011111111
Q ss_pred hcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchhhhccCC
Q 001046 727 LTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIAEASLTI 806 (1176)
Q Consensus 727 ~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATniae~GIdI 806 (1176)
.-..+..|-||++|..-.+.+++..... ...|+.++|.-+.. .+ +.+ +..+|++=|++...|+++
T Consensus 278 ~L~~gknIcvfsSt~~~~~~v~~~~~~~---------~~~Vl~l~s~~~~~---dv-~~W--~~~~VviYT~~itvG~Sf 342 (824)
T PF02399_consen 278 RLNAGKNICVFSSTVSFAEIVARFCARF---------TKKVLVLNSTDKLE---DV-ESW--KKYDVVIYTPVITVGLSF 342 (824)
T ss_pred HHhCCCcEEEEeChHHHHHHHHHHHHhc---------CCeEEEEcCCCCcc---cc-ccc--cceeEEEEeceEEEEecc
Confidence 1133567888999988777766665542 34566777766554 22 223 568999999999999999
Q ss_pred CCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCCCcEEEEecChHHH
Q 001046 807 DGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTGPGKCYRLYTESAY 866 (1176)
Q Consensus 807 p~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g~G~c~~L~t~~~~ 866 (1176)
+...+=--++++|...+ -.+..+..|+.||.-.......|..+.....
T Consensus 343 ~~~HF~~~f~yvk~~~~------------gpd~~s~~Q~lgRvR~l~~~ei~v~~d~~~~ 390 (824)
T PF02399_consen 343 EEKHFDSMFAYVKPMSY------------GPDMVSVYQMLGRVRSLLDNEIYVYIDASGA 390 (824)
T ss_pred chhhceEEEEEecCCCC------------CCcHHHHHHHHHHHHhhccCeEEEEEecccc
Confidence 86543322333222211 2355678999999987777777766665443
No 185
>PRK13806 rpsA 30S ribosomal protein S1; Provisional
Probab=98.88 E-value=3e-09 Score=129.19 Aligned_cols=96 Identities=28% Similarity=0.497 Sum_probs=87.5
Q ss_pred CCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEeC------cEeEEEEe
Q 001046 220 EPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVSG------QKLSLSMR 293 (1176)
Q Consensus 220 ~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id~------~ki~Ls~k 293 (1176)
.++.|+++.|+|+++.+||+||++.+ +.+||||+|++++.++.++.+.+++||.|+|+|+++|. .+++||+|
T Consensus 199 ~l~~G~iv~G~V~~v~~~G~fV~l~~--gv~g~v~~sels~~~~~~~~~~~~vGd~i~vkVl~id~~~~~~~~ri~lS~K 276 (491)
T PRK13806 199 TVKEGDVVEGTVTRLAPFGAFVELAP--GVEGMVHISELSWSRVQKADEAVSVGDTVRVKVLGIERAKKGKGLRISLSIK 276 (491)
T ss_pred hCCCCCEEEEEEEEEeCCeEEEEcCC--CcEEEEEHHHCCCccccChhHhcCCCCEEEEEEEEEecccCCcceEEEEEeh
Confidence 58899999999999999999999975 78999999999999999999999999999999999983 37999999
Q ss_pred eccccCCCCCChhhhhhhccCCCCCCCCCC
Q 001046 294 DVDQNTGKDLLPLKKISEDDALGNNPSGTR 323 (1176)
Q Consensus 294 ~~dq~tg~d~~P~~~~~~~~~~~~~~~g~~ 323 (1176)
.+.++ ||......+..|..+.|.-
T Consensus 277 ~~~~~------p~~~~~~~~~~G~~v~G~V 300 (491)
T PRK13806 277 QAGGD------PWDTVGDRLKAGDKVTGKV 300 (491)
T ss_pred hhhcc------cchhhhccCCCCCEEEEEE
Confidence 99766 9998888888888888763
No 186
>PRK12269 bifunctional cytidylate kinase/ribosomal protein S1; Provisional
Probab=98.87 E-value=4e-09 Score=133.75 Aligned_cols=96 Identities=22% Similarity=0.446 Sum_probs=88.0
Q ss_pred CCCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEEEeecc
Q 001046 219 NEPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSMRDVD 296 (1176)
Q Consensus 219 ~~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~k~~d 296 (1176)
+++++|+++.|+|+++.+||+||+++ |.+||+|+|+++|.++.++.+.+++||.|+|+|+++| ++++.||+|.+.
T Consensus 489 ~~l~~G~~V~G~Vk~i~~~G~fVdl~---Gv~Gfvp~SeiS~~~v~~~~~~~kvGq~v~vkVi~iD~e~~rI~LSlK~l~ 565 (863)
T PRK12269 489 NSVHIEDSVSGVVKSFTSFGAFIDLG---GFDGLLHVNDMSWGHVARPREFVKKGQTIELKVIRLDQAEKRINLSLKHFQ 565 (863)
T ss_pred hcCCCCCEEEEEEEEEeCCcEEEEEC---CEEEEEEchhccccccCCHHHhccCCCEEEEEEEEEecCCCeEEEEEeccc
Confidence 46889999999999999999999994 6899999999999999999999999999999999999 579999999987
Q ss_pred ccCCCCCChhhhhhhccCCCCCCCCCC
Q 001046 297 QNTGKDLLPLKKISEDDALGNNPSGTR 323 (1176)
Q Consensus 297 q~tg~d~~P~~~~~~~~~~~~~~~g~~ 323 (1176)
++ ||..+.+.++.|+.+.|+-
T Consensus 566 ~~------p~~~~~~~~~vG~iV~G~V 586 (863)
T PRK12269 566 PD------PWLEFENKFGVNDVVKGRV 586 (863)
T ss_pred cc------hhhhhhccCCCCCEEEEEE
Confidence 65 9998888889888888863
No 187
>cd05687 S1_RPS1_repeat_ec1_hs1 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain. While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 1 of the Escherichia coli and Homo sapiens RPS1 (ec1 and hs1, respectively). Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.
Probab=98.87 E-value=8.2e-09 Score=91.42 Aligned_cols=68 Identities=32% Similarity=0.419 Sum_probs=62.8
Q ss_pred CCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEEEe
Q 001046 224 YQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSMR 293 (1176)
Q Consensus 224 g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~k 293 (1176)
|+++.|+|+++.++|+||++.. +.+|++|++++++.+..++.+.+++||.++|+|++++ ++++.||++
T Consensus 1 G~iv~g~V~~i~~~~~~v~l~~--~~~g~l~~~e~~~~~~~~~~~~~~~Gd~i~~~i~~~~~~~~~i~lS~~ 70 (70)
T cd05687 1 GDIVKGTVVSVDDDEVLVDIGY--KSEGIIPISEFSDDPIENGEDEVKVGDEVEVYVLRVEDEEGNVVLSKR 70 (70)
T ss_pred CCEEEEEEEEEeCCEEEEEeCC--CceEEEEHHHhCccccCCHhHcCCCCCEEEEEEEEEECCCCeEEEEeC
Confidence 7899999999999999999965 6799999999999999999999999999999999998 368999875
No 188
>cd04472 S1_PNPase S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA. This family is classified based on the S1 domain. PNPase nonspecifically removes the 3' nucleotides from mRNA, but is stalled by double-stranded RNA structures such as a stem-loop. Evidence shows that a minimum of 7-10 unpaired nucleotides at the 3' end, is required for PNPase degradation. It is suggested that PNPase also dephosphorylates the RNA 5' end. This additional activity may regulate the 5'-dependent activity of RNaseE in vivo.
Probab=98.87 E-value=7.1e-09 Score=90.99 Aligned_cols=67 Identities=42% Similarity=0.719 Sum_probs=61.5
Q ss_pred CCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe-CcEeEEEE
Q 001046 224 YQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS-GQKLSLSM 292 (1176)
Q Consensus 224 g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id-~~ki~Ls~ 292 (1176)
|++|.|+|++|.+||+||++.. +.+|++|+++++++++.++.+.+++||.|.|+|.+++ .+++.||+
T Consensus 1 g~~~~g~V~~v~~~G~~v~l~~--~~~g~l~~~~l~~~~~~~~~~~~~~Gd~v~v~v~~~d~~~~i~ls~ 68 (68)
T cd04472 1 GKIYEGKVVKIKDFGAFVEILP--GKDGLVHISELSDERVEKVEDVLKVGDEVKVKVIEVDDRGRISLSR 68 (68)
T ss_pred CCEEEEEEEEEEEeEEEEEeCC--CCEEEEEhHHcCCccccCHHHccCCCCEEEEEEEEECCCCcEEeeC
Confidence 6899999999999999999975 6899999999999988888899999999999999999 57888874
No 189
>cd05685 S1_Tex S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression. Tex has two functional domains, an N-terminal domain homologous to the Escherichia coli maltose repression protein, which is a poorly defined transcriptional factor, and a C-terminal S1 RNA-binding domain. Tex is found in prokaryotes, eukaryotes, and archaea.
Probab=98.86 E-value=6.2e-09 Score=91.18 Aligned_cols=66 Identities=39% Similarity=0.584 Sum_probs=60.0
Q ss_pred CCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEeC--cEeEEE
Q 001046 224 YQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVSG--QKLSLS 291 (1176)
Q Consensus 224 g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id~--~ki~Ls 291 (1176)
|++|.|+|++|++||+||++.. +.+|++|++++++.++.++.+.+++||.|+|+|++++. +++.||
T Consensus 1 g~~~~g~V~~i~~~G~fv~l~~--~~~g~~~~~~l~~~~~~~~~~~~~~Gd~v~v~i~~vd~~~~~i~ls 68 (68)
T cd05685 1 GMVLEGVVTNVTDFGAFVDIGV--KQDGLIHISKMADRFVSHPSDVVSVGDIVEVKVISIDEERGRISLS 68 (68)
T ss_pred CCEEEEEEEEEecccEEEEcCC--CCEEEEEHHHCCCccccCHHHhcCCCCEEEEEEEEEECCCCEEecC
Confidence 6899999999999999999975 68999999999998888999999999999999999984 577664
No 190
>PRK07899 rpsA 30S ribosomal protein S1; Reviewed
Probab=98.84 E-value=8.2e-09 Score=123.73 Aligned_cols=87 Identities=33% Similarity=0.626 Sum_probs=76.4
Q ss_pred CCCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEEEeecc
Q 001046 219 NEPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSMRDVD 296 (1176)
Q Consensus 219 ~~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~k~~d 296 (1176)
+.+.+|+++.|+|++|++||+||++.+ +.+||+|+|++++.++.++.+.+++||.|+|+|+++| +++|+||+|.+.
T Consensus 289 ~~~~vG~vv~G~V~~I~~fGvFVeL~~--gieGLvh~SeLs~~~v~~~~~~~kvGd~V~VkIi~ID~e~rrI~LSlK~~~ 366 (486)
T PRK07899 289 RTHAIGQIVPGKVTKLVPFGAFVRVEE--GIEGLVHISELAERHVEVPEQVVQVGDEVFVKVIDIDLERRRISLSLKQAN 366 (486)
T ss_pred HhcCCCCEEEEEEEEEeccEEEEEeCC--CcEEEEEHHHcCcccccCccceeCCCCEEEEEEEEEECCCCEEEEEEEEcc
Confidence 356789999999999999999999976 7999999999999999999999999999999999999 679999999987
Q ss_pred ccCC---CCCChhh
Q 001046 297 QNTG---KDLLPLK 307 (1176)
Q Consensus 297 q~tg---~d~~P~~ 307 (1176)
++.. ++.+|..
T Consensus 367 ~~~~~~~~~~~~~~ 380 (486)
T PRK07899 367 EGVTPESEDFDPAL 380 (486)
T ss_pred cCCCcccccCChhh
Confidence 6632 3456643
No 191
>COG1185 Pnp Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) [Translation, ribosomal structure and biogenesis]
Probab=98.81 E-value=4.9e-09 Score=125.29 Aligned_cols=76 Identities=46% Similarity=0.727 Sum_probs=71.7
Q ss_pred CCCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEeC-cEeEEEEeecc
Q 001046 219 NEPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVSG-QKLSLSMRDVD 296 (1176)
Q Consensus 219 ~~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id~-~ki~Ls~k~~d 296 (1176)
.++++|++|.|+|++|.+||+||++.+ +.+||||+|++++.++.+..+++++||.|+|||+.+|+ +++.|+++.+.
T Consensus 615 ~e~evg~iy~G~V~ri~~fGaFv~l~~--gkdgl~hiS~~~~~rv~kv~dvlk~Gd~v~Vkv~~iD~~Gri~ls~~~~~ 691 (692)
T COG1185 615 REVEVGEVYEGTVVRIVDFGAFVELLP--GKDGLVHISQLAKERVEKVEDVLKEGDEVKVKVIEIDKQGRIRLSIKAVL 691 (692)
T ss_pred hhcccccEEEEEEEEEeecceEEEecC--CcceeEEehhhhhhhhhcccceeecCceEEEEEeeecccCCccceehhcc
Confidence 489999999999999999999999965 89999999999999999999999999999999999994 89999999764
No 192
>cd05789 S1_Rrp4 S1_Rrp4: Rrp4 S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Rrp4 protein is a subunit of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in eukarytes and archaea. Its functions include the removal of incorrectly processed RNA and the maintenance of proper levels of mRNA, rRNA and a number of small RNA species. In Saccharomyces cerevisiae, the exosome includes nine core components, six of which are homologous to bacterial RNase PH. These form a hexameric ring structure. The other three subunits (RrP4, Rrp40, and Csl4) contain an S1 RNA binding domain and are part of the "S1 pore structure".
Probab=98.79 E-value=1.4e-08 Score=93.89 Aligned_cols=74 Identities=23% Similarity=0.266 Sum_probs=65.6
Q ss_pred CCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccc----cccCCcccccCCCCEEEEEEEEEeC-cEeEEEEee
Q 001046 220 EPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIAT----RRIGNAKDVVKRDQEVYVKVISVSG-QKLSLSMRD 294 (1176)
Q Consensus 220 ~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~----~~~~~~~~~~~~Gd~V~VkV~~id~-~ki~Ls~k~ 294 (1176)
.|+.|+++.|+|+++.++|+||++.. +.+|++|++++++ .+..++.+.+++||.|.++|++++. +++.||++.
T Consensus 3 ~p~~GdiV~g~V~~i~~~g~~v~i~~--~~~G~l~~se~~~~~~~~~~~~~~~~l~vGd~i~~~V~~~~~~~~i~LS~~~ 80 (86)
T cd05789 3 IPEVGDVVIGRVTEVGFKRWKVDINS--PYDAVLPLSEVNLPRTDEDELNMRSYLDEGDLIVAEVQSVDSDGSVSLHTRS 80 (86)
T ss_pred cCCCCCEEEEEEEEECCCEEEEECCC--CeEEEEEHHHccCCCCccchHHHHhhCCCCCEEEEEEEEECCCCCEEEEeCc
Confidence 36799999999999999999999975 6899999999986 3456777889999999999999984 799999987
Q ss_pred c
Q 001046 295 V 295 (1176)
Q Consensus 295 ~ 295 (1176)
.
T Consensus 81 ~ 81 (86)
T cd05789 81 L 81 (86)
T ss_pred c
Confidence 4
No 193
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=98.79 E-value=1.9e-07 Score=117.08 Aligned_cols=118 Identities=23% Similarity=0.271 Sum_probs=80.2
Q ss_pred HHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEE
Q 001046 716 DASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVV 795 (1176)
Q Consensus 716 ~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlV 795 (1176)
.+.+..+..+| ..+.+|||-+.+.+..+.++..|... ++..-.|++.....+-..|-+.-.+ -.|-|
T Consensus 615 ~Aii~ei~~~~--~~GrPVLVGT~SVe~SE~lS~~L~~~---------gI~H~VLNAK~h~~EAeIVA~AG~~--GaVTI 681 (1112)
T PRK12901 615 NAVIEEITELS--EAGRPVLVGTTSVEISELLSRMLKMR---------KIPHNVLNAKLHQKEAEIVAEAGQP--GTVTI 681 (1112)
T ss_pred HHHHHHHHHHH--HCCCCEEEEeCcHHHHHHHHHHHHHc---------CCcHHHhhccchhhHHHHHHhcCCC--CcEEE
Confidence 34455555555 35789999999999999988888763 2221223333333333334343333 46999
Q ss_pred EcchhhhccCCC--------CeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC-CcEEEEecChH
Q 001046 796 ATNIAEASLTID--------GIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG-PGKCYRLYTES 864 (1176)
Q Consensus 796 ATniae~GIdIp--------~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g-~G~c~~L~t~~ 864 (1176)
|||+|+||-||. |=-+||-+.. +-|.---.|-.|||||.| ||.+-.+.+=+
T Consensus 682 ATNMAGRGTDIkLg~~V~e~GGL~VIgTer------------------heSrRID~QLrGRaGRQGDPGsS~f~lSLE 741 (1112)
T PRK12901 682 ATNMAGRGTDIKLSPEVKAAGGLAIIGTER------------------HESRRVDRQLRGRAGRQGDPGSSQFYVSLE 741 (1112)
T ss_pred eccCcCCCcCcccchhhHHcCCCEEEEccC------------------CCcHHHHHHHhcccccCCCCCcceEEEEcc
Confidence 999999999997 3345554443 788888999999999999 99876666644
No 194
>PRK11824 polynucleotide phosphorylase/polyadenylase; Provisional
Probab=98.78 E-value=1.4e-08 Score=127.48 Aligned_cols=75 Identities=44% Similarity=0.777 Sum_probs=70.4
Q ss_pred CCCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe-CcEeEEEEeec
Q 001046 219 NEPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS-GQKLSLSMRDV 295 (1176)
Q Consensus 219 ~~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id-~~ki~Ls~k~~ 295 (1176)
.++++|++|.|+|++|.+||+||+|.+ +.+||+|+|++++.++.++.++|++||.|+|+|+++| .+++.||+|.+
T Consensus 617 ~~~~vG~v~~G~V~~I~~fGafVei~~--~~~GllhiSels~~~v~~~~~v~kvGD~V~VkV~~iD~~grI~LS~k~~ 692 (693)
T PRK11824 617 AEPEVGEIYEGKVVRIVDFGAFVEILP--GKDGLVHISEIADERVEKVEDVLKEGDEVKVKVLEIDKRGRIRLSRKAV 692 (693)
T ss_pred ccCcCCeEEEEEEEEEECCeEEEEECC--CCEEEEEeeeccCccccCccceeCCCCEEEEEEEEECCCCcEEEEEEec
Confidence 468999999999999999999999975 7899999999999999999999999999999999998 48999999975
No 195
>cd05693 S1_Rrp5_repeat_hs1_sc1 S1_Rrp5_repeat_hs1_sc1: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 1 (hs1) and S. cerevisiae S1 repeat 1 (sc1). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=98.78 E-value=1.3e-08 Score=96.48 Aligned_cols=72 Identities=21% Similarity=0.327 Sum_probs=63.7
Q ss_pred CCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccc-------------------cCCcccccCCCCEEEEEEE
Q 001046 221 PELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRR-------------------IGNAKDVVKRDQEVYVKVI 281 (1176)
Q Consensus 221 ~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~-------------------~~~~~~~~~~Gd~V~VkV~ 281 (1176)
++.|+++.|+|++|.++|+||.|.+ +.+|++|++++++.+ ..++.+.|++||.|+|+|+
T Consensus 1 L~~G~vV~G~V~~v~~~gl~v~L~~--g~~G~v~~seis~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~vGd~V~~kVi 78 (100)
T cd05693 1 LSEGMLVLGQVKEITKLDLVISLPN--GLTGYVPITNISDAYTERLEELDEESEEEDDEEELPDLEDLFSVGQLVRCKVV 78 (100)
T ss_pred CCCCCEEEEEEEEEcCCCEEEECCC--CcEEEEEHHHhhHHHHHHHHHhhhhccccccccccCCHHHhccCCCEEEEEEE
Confidence 3679999999999999999999986 789999999999864 2347789999999999999
Q ss_pred EEeC-----cEeEEEEee
Q 001046 282 SVSG-----QKLSLSMRD 294 (1176)
Q Consensus 282 ~id~-----~ki~Ls~k~ 294 (1176)
+++. ++|.||++.
T Consensus 79 ~~d~~~~~~~~i~LSlr~ 96 (100)
T cd05693 79 SLDKSKSGKKRIELSLEP 96 (100)
T ss_pred EccCCcCCCcEEEEEecH
Confidence 9995 489999975
No 196
>PRK06299 rpsA 30S ribosomal protein S1; Reviewed
Probab=98.78 E-value=1.4e-08 Score=126.34 Aligned_cols=95 Identities=31% Similarity=0.572 Sum_probs=86.4
Q ss_pred CCCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEEEeecc
Q 001046 219 NEPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSMRDVD 296 (1176)
Q Consensus 219 ~~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~k~~d 296 (1176)
.+++.|+++.|+|++|.+||+||++. |.+||+|++++++.++.++.+.+++||.|.|+|+++| ++++.||+|.+.
T Consensus 197 ~~l~~G~iv~g~V~~v~~~G~~V~i~---g~~glv~~se~s~~~~~~~~~~~kvG~~v~v~V~~~d~~~~~i~lS~k~~~ 273 (565)
T PRK06299 197 ENLEEGQVVEGVVKNITDYGAFVDLG---GVDGLLHITDISWKRVNHPSEVVNVGDEVKVKVLKFDKEKKRVSLGLKQLG 273 (565)
T ss_pred hcCCCCCEEEEEEEEEeCCeEEEEEC---CEEEEEEHHHhcccccCCHhhcCCCCCEEEEEEEEEeCCCCeEEEEEEecc
Confidence 46889999999999999999999995 6899999999999999999999999999999999999 579999999987
Q ss_pred ccCCCCCChhhhhhhccCCCCCCCCC
Q 001046 297 QNTGKDLLPLKKISEDDALGNNPSGT 322 (1176)
Q Consensus 297 q~tg~d~~P~~~~~~~~~~~~~~~g~ 322 (1176)
++ ||......+..|....|+
T Consensus 274 ~~------p~~~~~~~~~~G~~v~g~ 293 (565)
T PRK06299 274 ED------PWEAIEKKYPVGSKVKGK 293 (565)
T ss_pred cC------hhHHHHhhCCCCCEEEEE
Confidence 66 999877778888877775
No 197
>COG2183 Tex Transcriptional accessory protein [Transcription]
Probab=98.76 E-value=1.1e-08 Score=124.22 Aligned_cols=78 Identities=35% Similarity=0.537 Sum_probs=72.2
Q ss_pred CCCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEEEeecc
Q 001046 219 NEPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSMRDVD 296 (1176)
Q Consensus 219 ~~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~k~~d 296 (1176)
++++.|.+..|+|++|.+||+||+|+- ..+||||+|+++..++.+|.+++++||.|+|+|+++| .++|+|||+..+
T Consensus 654 ~dLk~Gm~leg~Vrnv~~fgafVdIgv--~qDglvHis~ls~~fv~~P~~vv~vGdiV~v~V~~vD~~r~rI~Lsmr~~~ 731 (780)
T COG2183 654 TDLKPGMILEGTVRNVVDFGAFVDIGV--HQDGLVHISQLSDKFVKDPNEVVKVGDIVKVKVIEVDTARKRIALSMRLDE 731 (780)
T ss_pred hhccCCCEEEEEEEEeeeccceEEecc--ccceeeeHHHhhhhhcCChHHhcccCCEEEEEEEEEecccCeeeeEeeccC
Confidence 489999999999999999999999964 5699999999999999999999999999999999999 679999999865
Q ss_pred cc
Q 001046 297 QN 298 (1176)
Q Consensus 297 q~ 298 (1176)
+.
T Consensus 732 ~~ 733 (780)
T COG2183 732 EE 733 (780)
T ss_pred Cc
Confidence 44
No 198
>cd05695 S1_Rrp5_repeat_hs3 S1_Rrp5_repeat_hs3: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 3 (hs3). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=98.74 E-value=3e-08 Score=86.78 Aligned_cols=64 Identities=20% Similarity=0.322 Sum_probs=56.1
Q ss_pred CCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEE
Q 001046 224 YQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLS 291 (1176)
Q Consensus 224 g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls 291 (1176)
|+++.|+|++|.++|+||+|.+ +.+|++|.++++..+.. .+.+++||.|+|+|+.+| .++|.||
T Consensus 1 G~~V~g~V~~i~~~G~~v~l~~--~v~g~v~~~~l~~~~~~--~~~~~~G~~i~~kVi~id~~~~~i~LS 66 (66)
T cd05695 1 GMLVNARVKKVLSNGLILDFLS--SFTGTVDFLHLDPEKSS--KSTYKEGQKVRARILYVDPSTKVVGLS 66 (66)
T ss_pred CCEEEEEEEEEeCCcEEEEEcC--CceEEEEHHHcCCccCc--ccCcCCCCEEEEEEEEEeCCCCEEecC
Confidence 7899999999999999999976 78999999999765544 777999999999999999 4577765
No 199
>cd05688 S1_RPS1_repeat_ec3 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain. While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 3 (ec3) of the Escherichia coli RPS1. Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.
Probab=98.73 E-value=3.6e-08 Score=86.46 Aligned_cols=66 Identities=35% Similarity=0.597 Sum_probs=59.6
Q ss_pred CCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEE
Q 001046 223 LYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLS 291 (1176)
Q Consensus 223 ~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls 291 (1176)
.|+++.|+|+++.++|+||++. +.+|++|.+++++.++.++.+.+++||.|+|+|++++ .+++.||
T Consensus 1 ~g~~~~g~V~~v~~~g~~v~l~---~~~g~l~~~e~~~~~~~~~~~~~~~Gd~v~v~i~~vd~~~~~i~ls 68 (68)
T cd05688 1 EGDVVEGTVKSITDFGAFVDLG---GVDGLLHISDMSWGRVKHPSEVVNVGDEVEVKVLKIDKERKRISLG 68 (68)
T ss_pred CCCEEEEEEEEEEeeeEEEEEC---CeEEEEEhHHCCCccccCHhHEECCCCEEEEEEEEEECCCCEEecC
Confidence 4899999999999999999995 4799999999998888889999999999999999998 4577664
No 200
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=98.71 E-value=3.6e-06 Score=106.81 Aligned_cols=135 Identities=15% Similarity=0.173 Sum_probs=85.9
Q ss_pred chhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCC----CC
Q 001046 712 SDYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDP----AP 787 (1176)
Q Consensus 712 ~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~----f~ 787 (1176)
..|.......+..+.. .+|.+|||+++.+..+.++..|.... +..+ ..++.. .+..+++. |.
T Consensus 517 ~~~~~~~~~~i~~l~~--~~gg~LVlFtSy~~l~~v~~~l~~~~--------~~~l-l~Q~~~---~~~~ll~~f~~~~~ 582 (697)
T PRK11747 517 EAHTAEMAEFLPELLE--KHKGSLVLFASRRQMQKVADLLPRDL--------RLML-LVQGDQ---PRQRLLEKHKKRVD 582 (697)
T ss_pred HHHHHHHHHHHHHHHh--cCCCEEEEeCcHHHHHHHHHHHHHhc--------CCcE-EEeCCc---hHHHHHHHHHHHhc
Confidence 3466666666666655 45558999999999999998886531 1222 234543 34445533 44
Q ss_pred CCCceEEEEcchhhhccCCCC--eeEEEeCCcccceeccCC----------CCCcccc--ccccCHHHHHHHhcccCCCC
Q 001046 788 PGKRKVVVATNIAEASLTIDG--IFYVIDPGFAKQNVYNPK----------QGLDSLV--ITPISQASAKQRAGRAGRTG 853 (1176)
Q Consensus 788 ~g~~kVlVATniae~GIdIp~--V~~VId~g~~k~~~yd~~----------~g~~~l~--~~p~S~as~~QR~GRAGR~g 853 (1176)
.+...||++|..+..|||+|| +++||=.++.-..--||. .|-+.+. ..|.-.-.+.|-+||.=|..
T Consensus 583 ~~~~~VL~g~~sf~EGVD~pGd~l~~vII~kLPF~~p~dp~~~ar~~~~~~~g~~~F~~~~lP~A~~kl~Qg~GRlIRs~ 662 (697)
T PRK11747 583 EGEGSVLFGLQSFAEGLDLPGDYLTQVIITKIPFAVPDSPVEATLAEWLKSRGGNPFMEISVPDASFKLIQAVGRLIRSE 662 (697)
T ss_pred cCCCeEEEEeccccccccCCCCceEEEEEEcCCCCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHhccccccC
Confidence 567789999999999999988 788886665322111211 1212211 12444556899999999987
Q ss_pred --CcEEEEe
Q 001046 854 --PGKCYRL 860 (1176)
Q Consensus 854 --~G~c~~L 860 (1176)
.|..+.|
T Consensus 663 ~D~G~i~il 671 (697)
T PRK11747 663 QDRGRVTIL 671 (697)
T ss_pred CceEEEEEE
Confidence 5776644
No 201
>cd04471 S1_RNase_R S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important role in the degradation of RNA with extensive secondary structure, such as rRNA, tRNA, and certain mRNA which contains repetitive extragenic palindromic sequences. The C-terminal S1 domain binds ssRNA.
Probab=98.71 E-value=6e-08 Score=88.79 Aligned_cols=69 Identities=29% Similarity=0.501 Sum_probs=58.7
Q ss_pred CCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccC-----------CcccccCCCCEEEEEEEEEe--CcEeE
Q 001046 223 LYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIG-----------NAKDVVKRDQEVYVKVISVS--GQKLS 289 (1176)
Q Consensus 223 ~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~-----------~~~~~~~~Gd~V~VkV~~id--~~ki~ 289 (1176)
+|+++.|+|++|++||+||++..+ +.+|++|+++++++++. +....+++||.|+|+|.+++ .+++.
T Consensus 1 ~g~~~~g~V~~v~~~G~fv~l~~~-~~~G~v~~~~l~~~~~~~d~~~~~~~~~~~~~~~~~gd~v~v~v~~vd~~~~~i~ 79 (83)
T cd04471 1 VGEEFDGVISGVTSFGLFVELDNL-TVEGLVHVSTLGDDYYEFDEENHALVGERTGKVFRLGDKVKVRVVRVDLDRRKID 79 (83)
T ss_pred CCCEEEEEEEeEEeeeEEEEecCC-CEEEEEEEEecCCCcEEEcccceEEEeccCCCEEcCCCEEEEEEEEeccccCEEE
Confidence 388999999999999999999753 68999999999876432 44578999999999999998 46888
Q ss_pred EEE
Q 001046 290 LSM 292 (1176)
Q Consensus 290 Ls~ 292 (1176)
|++
T Consensus 80 ~~l 82 (83)
T cd04471 80 FEL 82 (83)
T ss_pred EEE
Confidence 775
No 202
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=98.71 E-value=6.5e-07 Score=107.42 Aligned_cols=312 Identities=17% Similarity=0.154 Sum_probs=181.8
Q ss_pred CCchHHHHHHHHHH----HcCCeEEEEcCCCCcHHHHHHHHHHHh--cccCCCEEEEeccHHHHHHHHHHHHHHHhCCcc
Q 001046 523 LPIYKLKKELIQAV----HDNQVLVVIGETGSGKTTQVTQYLAEA--GYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRL 596 (1176)
Q Consensus 523 LPi~~~q~~ii~ai----~~~~~vIv~apTGSGKTt~~~~~lle~--~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~ 596 (1176)
-.+.+||-+-++.+ ..+-+.|+.-+-|=|||.|...++... .....|.-+|++|.-.|..=+.. ++... +.
T Consensus 166 g~lr~YQveGlnWLi~l~engingILaDEMGLGKTlQtIs~l~yl~~~~~~~GPfLVi~P~StL~NW~~E-f~rf~--P~ 242 (971)
T KOG0385|consen 166 GELRDYQLEGLNWLISLYENGINGILADEMGLGKTLQTISLLGYLKGRKGIPGPFLVIAPKSTLDNWMNE-FKRFT--PS 242 (971)
T ss_pred CccchhhhccHHHHHHHHhcCcccEeehhcccchHHHHHHHHHHHHHhcCCCCCeEEEeeHhhHHHHHHH-HHHhC--CC
Confidence 34667787777765 456678999999999998766555432 12335778999998777654332 33321 11
Q ss_pred CCeeEEEeec--------ccccCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHH-HHHHHHHHhhCC
Q 001046 597 GEEVGYAIRF--------EDCTGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVL-FGLLKQLVKRRP 667 (1176)
Q Consensus 597 G~~vGy~ir~--------~~~~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~l-l~llk~~~~~r~ 667 (1176)
-..+.|.-.- +-.......|+++|.+|.++.-.. -.--...+||||||| |--+.... ...|+. +.
T Consensus 243 l~~~~~~Gdk~eR~~~~r~~~~~~~fdV~iTsYEi~i~dk~~-lk~~~W~ylvIDEaH-RiKN~~s~L~~~lr~----f~ 316 (971)
T KOG0385|consen 243 LNVVVYHGDKEERAALRRDIMLPGRFDVCITSYEIAIKDKSF-LKKFNWRYLVIDEAH-RIKNEKSKLSKILRE----FK 316 (971)
T ss_pred cceEEEeCCHHHHHHHHHHhhccCCCceEeehHHHHHhhHHH-HhcCCceEEEechhh-hhcchhhHHHHHHHH----hc
Confidence 1223332111 111223678999999999876211 012345899999999 65555433 333333 33
Q ss_pred CccEEEEcCCC--C-------------------HHHHHhhhcCCCeE-----------------------ecCCceeee-
Q 001046 668 DLRLIVTSATL--D-------------------AEKFSGYFFNCNIF-----------------------TIPGRTFPV- 702 (1176)
Q Consensus 668 ~~kvIlmSATl--~-------------------~~~~~~~f~~~~v~-----------------------~i~gr~~pv- 702 (1176)
-..-++++.|+ | .+.|..||...... .+....-|-
T Consensus 317 ~~nrLLlTGTPLQNNL~ELWaLLnFllPdiF~~~e~F~swF~~~~~~~~~e~v~~Lh~vL~pFlLRR~K~dVe~sLppKk 396 (971)
T KOG0385|consen 317 TDNRLLLTGTPLQNNLHELWALLNFLLPDIFNSAEDFDSWFDFTNCEGDQELVSRLHKVLRPFLLRRIKSDVEKSLPPKK 396 (971)
T ss_pred ccceeEeeCCcccccHHHHHHHHHhhchhhccCHHHHHHHHcccccccCHHHHHHHHhhhhHHHHHHHHHhHhhcCCCcc
Confidence 33456677775 1 24556666421100 000000011
Q ss_pred E-EEEecCCC--chhH-------------------HHHHHHHHHH-----------------------------------
Q 001046 703 E-ILYTKQPE--SDYL-------------------DASLITVLQI----------------------------------- 725 (1176)
Q Consensus 703 ~-~~~~~~~~--~~~~-------------------~~~l~~v~~i----------------------------------- 725 (1176)
+ +.|..... ..|- ......++++
T Consensus 397 E~~iyvgms~mQkk~Y~~iL~kdl~~~n~~~~~~k~kL~NI~mQLRKccnHPYLF~g~ePg~pyttdehLv~nSGKm~vL 476 (971)
T KOG0385|consen 397 ELIIYVGMSSMQKKWYKAILMKDLDALNGEGKGEKTKLQNIMMQLRKCCNHPYLFDGAEPGPPYTTDEHLVTNSGKMLVL 476 (971)
T ss_pred eeeEeccchHHHHHHHHHHHHhcchhhcccccchhhHHHHHHHHHHHhcCCccccCCCCCCCCCCcchHHHhcCcceehH
Confidence 1 11211110 0000 0011112221
Q ss_pred -----HhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCC---CceEEEEc
Q 001046 726 -----HLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPG---KRKVVVAT 797 (1176)
Q Consensus 726 -----~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g---~~kVlVAT 797 (1176)
.+.+.+..||||-. ...+...|...+ ...++...-+.|+.+.++|...++.|... +.-.+++|
T Consensus 477 DkLL~~Lk~~GhRVLIFSQ----mt~mLDILeDyc-----~~R~y~ycRiDGSt~~eeR~~aI~~fn~~~s~~FiFlLST 547 (971)
T KOG0385|consen 477 DKLLPKLKEQGHRVLIFSQ----MTRMLDILEDYC-----MLRGYEYCRLDGSTSHEEREDAIEAFNAPPSEKFIFLLST 547 (971)
T ss_pred HHHHHHHHhCCCeEEEeHH----HHHHHHHHHHHH-----HhcCceeEeecCCCCcHHHHHHHHhcCCCCcceEEEEEec
Confidence 12234557888843 223344444433 12467888899999999999988888643 45567999
Q ss_pred chhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCCCcEEEEecChHHHh
Q 001046 798 NIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTGPGKCYRLYTESAYR 867 (1176)
Q Consensus 798 niae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g~G~c~~L~t~~~~~ 867 (1176)
-..+-|||+-..+.|| .||..-+ |..--++.+|+-|-|-..+=.+|||+|+...+
T Consensus 548 RAGGLGINL~aADtVI--------lyDSDWN-------PQ~DLQAmDRaHRIGQ~K~V~V~RLitentVE 602 (971)
T KOG0385|consen 548 RAGGLGINLTAADTVI--------LYDSDWN-------PQVDLQAMDRAHRIGQKKPVVVYRLITENTVE 602 (971)
T ss_pred cccccccccccccEEE--------EecCCCC-------chhhhHHHHHHHhhCCcCceEEEEEeccchHH
Confidence 9999999999999999 3444332 55566788898888888899999999987654
No 203
>PRK06676 rpsA 30S ribosomal protein S1; Reviewed
Probab=98.67 E-value=5.8e-08 Score=115.37 Aligned_cols=87 Identities=34% Similarity=0.573 Sum_probs=78.8
Q ss_pred CCCCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEEEeec
Q 001046 218 GNEPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSMRDV 295 (1176)
Q Consensus 218 ~~~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~k~~ 295 (1176)
.+++.+|+++.|+|+++.+||+||++.+ +.+||+|+|++++.++.++.+.+++||.|+|+|+++| ++++.||+|..
T Consensus 272 ~~~~~~G~~v~g~V~~i~~~G~fV~l~~--gi~Glv~~se~~~~~~~~~~~~~~~Gd~v~v~V~~id~e~~~i~ls~k~~ 349 (390)
T PRK06676 272 EEKLPEGDVIEGTVKRLTDFGAFVEVLP--GVEGLVHISQISHKHIATPSEVLEEGQEVKVKVLEVNEEEKRISLSIKAL 349 (390)
T ss_pred hhhhcCCcEEEEEEEEEeCceEEEEECC--CCeEEEEhHHcCccccCChhhccCCCCEEEEEEEEEECCCCEEEEEEEec
Confidence 3468899999999999999999999975 7899999999999988899999999999999999999 67999999998
Q ss_pred cccCCCCCChhhhhhhc
Q 001046 296 DQNTGKDLLPLKKISED 312 (1176)
Q Consensus 296 dq~tg~d~~P~~~~~~~ 312 (1176)
..+ ||....++
T Consensus 350 ~~~------~~~~~~~~ 360 (390)
T PRK06676 350 EEA------PAEEEDRR 360 (390)
T ss_pred ccC------hhhhhhhh
Confidence 877 99876543
No 204
>COG4889 Predicted helicase [General function prediction only]
Probab=98.67 E-value=1e-07 Score=114.75 Aligned_cols=311 Identities=17% Similarity=0.198 Sum_probs=170.7
Q ss_pred CchHHHHHHHHHHHcC----CeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCC-
Q 001046 524 PIYKLKKELIQAVHDN----QVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGE- 598 (1176)
Q Consensus 524 Pi~~~q~~ii~ai~~~----~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~- 598 (1176)
..+++|++++++..++ ..-=+++..|+|||+..+...-.. . ..+|++++|...|..|..+....+-...+-.
T Consensus 161 k~R~hQq~Aid~a~~~F~~n~RGkLIMAcGTGKTfTsLkisEal--a-~~~iL~LvPSIsLLsQTlrew~~~~~l~~~a~ 237 (1518)
T COG4889 161 KPRPHQQTAIDAAKEGFSDNDRGKLIMACGTGKTFTSLKISEAL--A-AARILFLVPSISLLSQTLREWTAQKELDFRAS 237 (1518)
T ss_pred CCChhHHHHHHHHHhhcccccCCcEEEecCCCccchHHHHHHHH--h-hhheEeecchHHHHHHHHHHHhhccCccceeE
Confidence 3578899999987642 333456678999997766543322 1 2589999999999999888776643322210
Q ss_pred ------eeEEE---eeccc-------------------ccCCCceEEEeChHHHHHHHhh-CCCCCCCceEEEcCCCcCC
Q 001046 599 ------EVGYA---IRFED-------------------CTGPDTVIKYMTDGMLLREILI-DDNLSQYSVIMLDEAHERT 649 (1176)
Q Consensus 599 ------~vGy~---ir~~~-------------------~~~~~t~I~~~T~g~Llr~l~~-~~~L~~~s~IIiDEaHeR~ 649 (1176)
.|+-. +.+.+ ....+--|+|+|...+.+.-.. ...+..+++||.|||| |+
T Consensus 238 aVcSD~kvsrs~eDik~sdl~~p~sT~~~~il~~~~~~~k~~~~~vvFsTYQSl~~i~eAQe~G~~~fDliicDEAH-RT 316 (1518)
T COG4889 238 AVCSDDKVSRSAEDIKASDLPIPVSTDLEDILSEMEHRQKANGLTVVFSTYQSLPRIKEAQEAGLDEFDLIICDEAH-RT 316 (1518)
T ss_pred EEecCccccccccccccccCCCCCcccHHHHHHHHHHhhccCCcEEEEEcccchHHHHHHHHcCCCCccEEEecchh-cc
Confidence 01100 00000 0112456888998887765433 3478999999999999 43
Q ss_pred Cch----hH--HHHHHHHHHhhCCCccEEEEcCCCCH--HHHHh----------------hhcCCCeEecC-C-------
Q 001046 650 IHT----DV--LFGLLKQLVKRRPDLRLIVTSATLDA--EKFSG----------------YFFNCNIFTIP-G------- 697 (1176)
Q Consensus 650 ~~~----d~--ll~llk~~~~~r~~~kvIlmSATl~~--~~~~~----------------~f~~~~v~~i~-g------- 697 (1176)
.-. |- .+..+..- ..-...+-+-|+||+-. +.... .| +..++... |
T Consensus 317 tGa~~a~dd~saFt~vHs~-~niKa~kRlYmTATPkiy~eS~K~kAkd~s~~l~SMDDe~~f-Geef~rl~FgeAv~rdl 394 (1518)
T COG4889 317 TGATLAGDDKSAFTRVHSD-QNIKAAKRLYMTATPKIYSESSKAKAKDHSAELSSMDDELTF-GEEFHRLGFGEAVERDL 394 (1518)
T ss_pred ccceecccCcccceeecCc-chhHHHHhhhcccCchhhchhhhhhhhhccceeeccchhhhh-chhhhcccHHHHHHhhh
Confidence 221 10 00000000 00012456778888731 10000 00 00000000 0
Q ss_pred -ceeeeEEEEec-------------CCCchhHHHHHHHHHHHHh----c--------------CCCCCEEEEeCCHHHHH
Q 001046 698 -RTFPVEILYTK-------------QPESDYLDASLITVLQIHL----T--------------EPEGDILLFLTGQEEID 745 (1176)
Q Consensus 698 -r~~pv~~~~~~-------------~~~~~~~~~~l~~v~~i~~----~--------------~~~g~iLVFl~~~~ei~ 745 (1176)
..|.|-+.-.. .+.....-.....++-++. . .+....+-||-+.+.-.
T Consensus 395 LTDYKVmvlaVd~~~i~~~~~~~~~~~~~~L~~dd~~kIvG~wnGlakr~g~~n~~~~~~~d~ap~~RAIaF~k~I~tSK 474 (1518)
T COG4889 395 LTDYKVMVLAVDKEVIAGVLQSVLSGPSKGLALDDVSKIVGCWNGLAKRNGEDNDLKNIKADTAPMQRAIAFAKDIKTSK 474 (1518)
T ss_pred hccceEEEEEechhhhhhhhhhhccCcccccchhhhhhhhhhhhhhhhhccccccccCCcCCchHHHHHHHHHHhhHHHH
Confidence 01222211111 1111110011111111110 0 01124567887777666
Q ss_pred HHHHHHHHHHh----ccCCCCCCeE--EEEecCCCCHHHHHhhc---CCCCCCCceEEEEcchhhhccCCCCeeEEEeCC
Q 001046 746 FACQSLYERMK----GLGKNVPELI--ILPVYSALPSEMQSRIF---DPAPPGKRKVVVATNIAEASLTIDGIFYVIDPG 816 (1176)
Q Consensus 746 ~l~~~L~~~~~----~l~~~~~~~~--v~~lhs~l~~~~r~~i~---~~f~~g~~kVlVATniae~GIdIp~V~~VId~g 816 (1176)
.++..+...+. ++-.+.+++. +-.+.|.|..-+|.... ..|.+...|||----.+..|||+|.++-||
T Consensus 475 ~i~~sFe~Vve~Y~~Elk~d~~nL~iSi~HvDGtmNal~R~~l~~l~~~~~~neckIlSNaRcLSEGVDVPaLDsVi--- 551 (1518)
T COG4889 475 QIAESFETVVEAYDEELKKDFKNLKISIDHVDGTMNALERLDLLELKNTFEPNECKILSNARCLSEGVDVPALDSVI--- 551 (1518)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCCceEEeecccccccHHHHHHHHhccCCCCcchheeeccchhhhcCCCccccceEE---
Confidence 66665544332 1222233444 44456888888875543 366788999998888999999999999999
Q ss_pred cccceeccCCCCCccccccccCHHHHHHHhcccCCCCCcEEE
Q 001046 817 FAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTGPGKCY 858 (1176)
Q Consensus 817 ~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g~G~c~ 858 (1176)
+|||+ .|.-+.+|-+||.-|..+|+-|
T Consensus 552 -----Ff~pr----------~smVDIVQaVGRVMRKa~gK~y 578 (1518)
T COG4889 552 -----FFDPR----------SSMVDIVQAVGRVMRKAKGKKY 578 (1518)
T ss_pred -----EecCc----------hhHHHHHHHHHHHHHhCcCCcc
Confidence 56664 4667899999999999988744
No 205
>cd04465 S1_RPS1_repeat_ec2_hs2 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain.While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 2 of the Escherichia coli and Homo sapiens RPS1 (ec2 and hs2, respectively). Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.
Probab=98.66 E-value=8.6e-08 Score=84.18 Aligned_cols=65 Identities=23% Similarity=0.433 Sum_probs=58.0
Q ss_pred CCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEEEe
Q 001046 224 YQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSMR 293 (1176)
Q Consensus 224 g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~k 293 (1176)
|+++.|+|+++.++|+||++ + +.+||+|.|++++.+..++.+ .+||.+.|+|+++| ++++.||.|
T Consensus 1 G~iv~g~V~~v~~~G~~v~l-~--g~~gfip~s~~~~~~~~~~~~--~vG~~i~~~i~~vd~~~~~i~lS~k 67 (67)
T cd04465 1 GEIVEGKVTEKVKGGLIVDI-E--GVRAFLPASQVDLRPVEDLDE--YVGKELKFKIIEIDRERNNIVLSRR 67 (67)
T ss_pred CCEEEEEEEEEECCeEEEEE-C--CEEEEEEHHHCCCcccCChHH--hCCCEEEEEEEEEeCCCCEEEEEcC
Confidence 78999999999999999999 4 799999999999887777766 38999999999999 568999864
No 206
>PRK06676 rpsA 30S ribosomal protein S1; Reviewed
Probab=98.66 E-value=4.7e-08 Score=116.17 Aligned_cols=95 Identities=35% Similarity=0.567 Sum_probs=84.6
Q ss_pred CCCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEEEeecc
Q 001046 219 NEPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSMRDVD 296 (1176)
Q Consensus 219 ~~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~k~~d 296 (1176)
.+++.|+++.|+|+++.++|+||++. +.+|++|+|++++.++.++.+.+++||.|+|+|+.++ .+++.||+|...
T Consensus 188 ~~~~~G~~v~g~V~~v~~~G~fV~l~---~v~g~v~~sels~~~~~~~~~~~~vGd~i~~~Vl~vd~~~~~i~lS~k~~~ 264 (390)
T PRK06676 188 SSLKEGDVVEGTVARLTDFGAFVDIG---GVDGLVHISELSHERVEKPSEVVSVGQEVEVKVLSIDWETERISLSLKDTL 264 (390)
T ss_pred hhCCCCCEEEEEEEEEecceEEEEeC---CeEEEEEHHHcCccccCCHHHhcCCCCEEEEEEEEEeCCCCEEEEEEeecc
Confidence 35789999999999999999999994 5899999999999999999999999999999999998 479999999986
Q ss_pred ccCCCCCChhhhhhhccCCCCCCCCC
Q 001046 297 QNTGKDLLPLKKISEDDALGNNPSGT 322 (1176)
Q Consensus 297 q~tg~d~~P~~~~~~~~~~~~~~~g~ 322 (1176)
++ ||......+..|..+.|.
T Consensus 265 ~~------~~~~~~~~~~~G~~v~g~ 284 (390)
T PRK06676 265 PG------PWEGVEEKLPEGDVIEGT 284 (390)
T ss_pred cC------ccccchhhhcCCcEEEEE
Confidence 66 888777777777777765
No 207
>TIGR00604 rad3 DNA repair helicase (rad3). All proteins in this family for which funcitons are known are DNA-DNA helicases that funciton in the initiation of transcription and nucleotide excision repair as part of the TFIIH complex. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.62 E-value=1.1e-06 Score=112.27 Aligned_cols=184 Identities=12% Similarity=0.098 Sum_probs=102.6
Q ss_pred cEEEEcCCCC-HHHHHhhhcCC-CeEecCCceee-----------------eEEEEecCCCchhHHHHHHHHHHHHhcCC
Q 001046 670 RLIVTSATLD-AEKFSGYFFNC-NIFTIPGRTFP-----------------VEILYTKQPESDYLDASLITVLQIHLTEP 730 (1176)
Q Consensus 670 kvIlmSATl~-~~~~~~~f~~~-~v~~i~gr~~p-----------------v~~~~~~~~~~~~~~~~l~~v~~i~~~~~ 730 (1176)
.+|+|||||. .+.|...++-. +.....+..+| +...|.......+.......+..+... .
T Consensus 443 svil~SgTL~p~~~~~~~Lg~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~l~~~~~~r~~~~~~~~l~~~i~~~~~~-~ 521 (705)
T TIGR00604 443 SVILASGTLSPLDAFPRNLGFNPVSQDSPTHILKRENLLTLIVTRGSDQVPLSSTFEIRNDPSLVRNLGELLVEFSKI-I 521 (705)
T ss_pred EEEEecccCCcHHHHHHHhCCCCccceecCcccchHHeEEEEEeeCCCCCeeeeehhccCCHHHHHHHHHHHHHHhhc-C
Confidence 4789999994 66677666521 11111111111 112222222344555555555555433 4
Q ss_pred CCCEEEEeCCHHHHHHHHHHHHHH--HhccCCCCCCeEEEEecCCCCHHHHHhhcCCCC----CCCceEEEEc--chhhh
Q 001046 731 EGDILLFLTGQEEIDFACQSLYER--MKGLGKNVPELIILPVYSALPSEMQSRIFDPAP----PGKRKVVVAT--NIAEA 802 (1176)
Q Consensus 731 ~g~iLVFl~~~~ei~~l~~~L~~~--~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~----~g~~kVlVAT--niae~ 802 (1176)
+|.+|||+|+....+.+.+.+.+. ...+... ..+.+-+ . +. .++..+++.|. .|.-.|++|+ ..+..
T Consensus 522 pgg~lvfFpSy~~l~~v~~~~~~~~~~~~i~~~-k~i~~E~-~-~~--~~~~~~l~~f~~~~~~~~gavL~av~gGk~sE 596 (705)
T TIGR00604 522 PDGIVVFFPSYSYLENIVSTWKEMGILENIEKK-KLIFVET-K-DA--QETSDALERYKQAVSEGRGAVLLSVAGGKVSE 596 (705)
T ss_pred CCcEEEEccCHHHHHHHHHHHHhcCHHHHHhcC-CCEEEeC-C-Cc--chHHHHHHHHHHHHhcCCceEEEEecCCcccC
Confidence 689999999999999888877642 1111000 1111111 1 11 34566676664 3455699999 89999
Q ss_pred ccCCCC--eeEEEeCCcccceeccCCC--------------CCccccccccCHHHHHHHhcccCCCCC--cEEEEe
Q 001046 803 SLTIDG--IFYVIDPGFAKQNVYNPKQ--------------GLDSLVITPISQASAKQRAGRAGRTGP--GKCYRL 860 (1176)
Q Consensus 803 GIdIp~--V~~VId~g~~k~~~yd~~~--------------g~~~l~~~p~S~as~~QR~GRAGR~g~--G~c~~L 860 (1176)
|||++| .+.||=.|+.-....|+.. |... -......-...|-+||+=|... |..+.+
T Consensus 597 GIDf~~~~~r~ViivGlPf~~~~~~~~~~~~~~~~~~~~~~~~~~-~y~~~a~~~v~QaiGR~IR~~~D~G~iill 671 (705)
T TIGR00604 597 GIDFCDDLGRAVIMVGIPYEYTESRILLARLEFLRDQYPIRENQD-FYEFDAMRAVNQAIGRVIRHKDDYGSIVLL 671 (705)
T ss_pred ccccCCCCCcEEEEEccCCCCCCCHHHHHHHHHHHhhcCCCccHH-HHHHHHHHHHHHHhCccccCcCceEEEEEE
Confidence 999998 6888878875433222211 1100 1112233567899999999984 654433
No 208
>cd04473 S1_RecJ_like S1_RecJ_like: The S1 domain of the archaea-specific RecJ-like exonuclease. The function of this family is not fully understood. In Escherichia coli, RecJ degrades single-stranded DNA in the 5'-3' direction and participates in homologous recombination and mismatch repair.
Probab=98.62 E-value=1.6e-07 Score=84.88 Aligned_cols=64 Identities=33% Similarity=0.515 Sum_probs=56.5
Q ss_pred CCCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe-CcEeEEEE
Q 001046 219 NEPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS-GQKLSLSM 292 (1176)
Q Consensus 219 ~~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id-~~ki~Ls~ 292 (1176)
.++++|++|.|+|+++++||+||++.+ +.+||+|++++. +.+++||.++|+|.++. .+++.|++
T Consensus 12 ~~~~~G~~~~g~V~~i~~~G~fV~l~~--~~~Glv~~se~~--------~~~~iGd~v~v~I~~i~e~~~i~l~~ 76 (77)
T cd04473 12 EDLEVGKLYKGKVNGVAKYGVFVDLND--HVRGLIHRSNLL--------RDYEVGDEVIVQVTDIPENGNIDLIP 76 (77)
T ss_pred hhCCCCCEEEEEEEeEecceEEEEECC--CcEEEEEchhcc--------CcCCCCCEEEEEEEEECCCCcEEEEE
Confidence 458899999999999999999999986 689999999863 45999999999999995 56888875
No 209
>PRK06299 rpsA 30S ribosomal protein S1; Reviewed
Probab=98.62 E-value=6.9e-08 Score=120.22 Aligned_cols=97 Identities=28% Similarity=0.521 Sum_probs=85.7
Q ss_pred CCCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeeccccccccc-CCcccccCCCCEEEEEEEEEe--CcEeEEEEeec
Q 001046 219 NEPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRI-GNAKDVVKRDQEVYVKVISVS--GQKLSLSMRDV 295 (1176)
Q Consensus 219 ~~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~-~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~k~~ 295 (1176)
..+++|+++.|+|+++.++|+||++++ +.+|++|++++++.+. .++.+.|++||.|.|+|+.+| +++|.||+|..
T Consensus 369 ~~~~~G~~v~g~V~~v~~~G~fV~l~~--~v~g~i~~s~l~~~~~~~~~~~~~~~Gd~v~v~Il~vd~~~~~i~ls~k~~ 446 (565)
T PRK06299 369 EKYPVGDVVEGKVKNITDFGAFVGLEG--GIDGLVHLSDISWDKKGEEAVELYKKGDEVEAVVLKVDVEKERISLGIKQL 446 (565)
T ss_pred HhCCCCCEEEEEEEEEecceEEEECCC--CCEEEEEHHHcCccccccChHhhCCCCCEEEEEEEEEeCCCCEEEEEEehh
Confidence 356789999999999999999999976 7899999999998876 788899999999999999998 57999999987
Q ss_pred cccCCCCCChhhhhhhccCCCCCCCCCC
Q 001046 296 DQNTGKDLLPLKKISEDDALGNNPSGTR 323 (1176)
Q Consensus 296 dq~tg~d~~P~~~~~~~~~~~~~~~g~~ 323 (1176)
..+ ||......+..|..+.|.-
T Consensus 447 ~~~------p~~~~~~~~~~G~vV~G~V 468 (565)
T PRK06299 447 EED------PFEEFAKKHKKGSIVTGTV 468 (565)
T ss_pred hcC------chhHHHhhcCCCCEEEEEE
Confidence 655 9988777778888887763
No 210
>cd05702 S1_Rrp5_repeat_hs11_sc8 S1_Rrp5_repeat_hs11_sc8: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 11 (hs11) and S. cerevisiae S1 repeat 8 (sc8). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=98.60 E-value=1.2e-07 Score=84.04 Aligned_cols=61 Identities=28% Similarity=0.260 Sum_probs=56.1
Q ss_pred CCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccc--cCCcccccCCCCEEEEEEEEEeCc
Q 001046 224 YQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRR--IGNAKDVVKRDQEVYVKVISVSGQ 286 (1176)
Q Consensus 224 g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~--~~~~~~~~~~Gd~V~VkV~~id~~ 286 (1176)
|+++.|+|+++.++|+||++.. +.+|++|++++++++ ..++.+.+++||.|.|+|++++..
T Consensus 1 G~iV~g~V~~i~~~gi~v~l~~--~i~g~i~~~~i~~~~~~~~~~~~~~~~Gd~i~~kVl~~d~~ 63 (70)
T cd05702 1 GDLVKAKVKSVKPTQLNVQLAD--NVHGRIHVSEVFDEWPDGKNPLSKFKIGQKIKARVIGGHDA 63 (70)
T ss_pred CCEEEEEEEEEECCcEEEEeCC--CcEEEEEHHHhccccccccChhHhCCCCCEEEEEEEEEeCc
Confidence 7899999999999999999976 789999999999874 778889999999999999999843
No 211
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]
Probab=98.59 E-value=3.3e-06 Score=102.13 Aligned_cols=172 Identities=20% Similarity=0.291 Sum_probs=117.1
Q ss_pred CCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCc--eEEEEcchhhhccCCCC
Q 001046 731 EGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKR--KVVVATNIAEASLTIDG 808 (1176)
Q Consensus 731 ~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~--kVlVATniae~GIdIp~ 808 (1176)
+..+|+|..++..+.-+-..|.. ..++..+-+.|..+...|..+++.|..+.. -.|++|-+-+.|+|+-+
T Consensus 546 g~rvllFsqs~~mLdilE~fL~~--------~~~ysylRmDGtT~~~~R~~lVd~Fne~~s~~VFLLTTrvGGLGlNLTg 617 (923)
T KOG0387|consen 546 GDRVLLFSQSRQMLDILESFLRR--------AKGYSYLRMDGTTPAALRQKLVDRFNEDESIFVFLLTTRVGGLGLNLTG 617 (923)
T ss_pred CCEEEEehhHHHHHHHHHHHHHh--------cCCceEEEecCCCccchhhHHHHhhcCCCceEEEEEEeccccccccccc
Confidence 44899999988877766665542 257889999999999999999999987653 45688899999999999
Q ss_pred eeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCCCcEEEEecChHHHhhhCCCCCchhhhhcChHHHHH
Q 001046 809 IFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTGPGKCYRLYTESAYRNEMSPTSIPEIQRINLGFTTL 888 (1176)
Q Consensus 809 V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g~G~c~~L~t~~~~~~~l~~~~~pEI~r~~L~~~~L 888 (1176)
.+-|| .|||.-+ |.+-.++.-|+=|-|-...=..|||.+....+... -.-.|....|.+.+|
T Consensus 618 AnRVI--------IfDPdWN-------PStD~QAreRawRiGQkkdV~VYRL~t~gTIEEki---Y~rQI~Kq~Ltn~il 679 (923)
T KOG0387|consen 618 ANRVI--------IFDPDWN-------PSTDNQARERAWRIGQKKDVVVYRLMTAGTIEEKI---YHRQIFKQFLTNRIL 679 (923)
T ss_pred CceEE--------EECCCCC-------CccchHHHHHHHhhcCccceEEEEEecCCcHHHHH---HHHHHHHHHHHHHHh
Confidence 99888 5666654 66777888888888877778899999966543210 012355555666555
Q ss_pred HHHHcCCCccccCCCCCCCCHHHHHHHHHHHHHcCccccCCcccHHHHHHhcCC
Q 001046 889 TMKAMGINDLLSFDFMDPPSPQALISAMEQLYSLGALDEEGLLTKLGRKMAEFP 942 (1176)
Q Consensus 889 ~lk~~gi~~~~~f~~~~pP~~~~l~~al~~L~~lgald~~g~lT~lG~~~a~lp 942 (1176)
.-+.. -.|+. ..-+..|..++--..+|..|..|-......
T Consensus 680 ~~p~q-------~RfF~-------~~dl~dLFsl~~~G~~~~~te~~~~~~~~~ 719 (923)
T KOG0387|consen 680 KNPEQ-------RRFFK-------GNDLHDLFSLKDFGDDGESTETSSKEVHRN 719 (923)
T ss_pred cCHHH-------hhhcc-------cccHHHHhCCCCCCcCcchhhhhhhhhhhh
Confidence 32221 01111 123445555555444666777666655544
No 212
>cd04454 S1_Rrp4_like S1_Rrp4_like: Rrp4-like, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Rrp4 protein, and Rrp40 and Csl4 proteins, also represented in this group, are subunits of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in eukarytes and archaea. Its functions include the removal of incorrectly processed RNA and the maintenance of proper levels of mRNA, rRNA and a number of small RNA species. In Saccharomyces cerevisiae, the exosome includes nine core components, six of which are homologous to bacterial RNase PH. These form a hexameric ring structure. The other three subunits (RrP4, Rrp40, and Csl4) contain an S1 RNA binding domain and are part of the "S1 pore structure".
Probab=98.58 E-value=1.8e-07 Score=85.68 Aligned_cols=73 Identities=16% Similarity=0.178 Sum_probs=66.9
Q ss_pred CCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEeC-cEeEEEEee
Q 001046 220 EPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVSG-QKLSLSMRD 294 (1176)
Q Consensus 220 ~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id~-~ki~Ls~k~ 294 (1176)
.|+.|+++.|+|+++.+.|++|++.. +.+|++|+++++.....++.+.+++||.+.++|++++. +++.||++.
T Consensus 3 ~p~~GdiV~G~V~~v~~~~~~V~i~~--~~~g~l~~~~~~~~~~~~~~~~~~~GD~i~~~V~~~~~~~~i~LS~~~ 76 (82)
T cd04454 3 LPDVGDIVIGIVTEVNSRFWKVDILS--RGTARLEDSSATEKDKKEIRKSLQPGDLILAKVISLGDDMNVLLTTAD 76 (82)
T ss_pred CCCCCCEEEEEEEEEcCCEEEEEeCC--CceEEeechhccCcchHHHHhcCCCCCEEEEEEEEeCCCCCEEEEECC
Confidence 36889999999999999999999975 67999999999988888888999999999999999985 689999987
No 213
>smart00316 S1 Ribosomal protein S1-like RNA-binding domain.
Probab=98.57 E-value=2.6e-07 Score=81.35 Aligned_cols=69 Identities=35% Similarity=0.637 Sum_probs=62.7
Q ss_pred CCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEeC--cEeEEEEe
Q 001046 223 LYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVSG--QKLSLSMR 293 (1176)
Q Consensus 223 ~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id~--~ki~Ls~k 293 (1176)
.|+++.|+|+++.++|+||++.+ +.+|++|.+++.+.+..++.+.+++||.|.|+|++++. +++.||++
T Consensus 2 ~G~~v~g~V~~v~~~g~~v~i~~--~~~g~l~~~~~~~~~~~~~~~~~~~G~~v~~~V~~~~~~~~~i~ls~~ 72 (72)
T smart00316 2 VGDVVEGTVTEITPFGAFVDLGN--GVEGLIPISELSDKRVKDPEEVLKVGDEVKVKVLSVDEEKGRIILSLK 72 (72)
T ss_pred CCCEEEEEEEEEEccEEEEEeCC--CCEEEEEHHHCCccccCCHHHeecCCCEEEEEEEEEeCCCCEEEEEeC
Confidence 69999999999999999999975 68999999999988877888889999999999999983 78888874
No 214
>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=98.57 E-value=7.5e-08 Score=120.83 Aligned_cols=70 Identities=43% Similarity=0.797 Sum_probs=64.4
Q ss_pred CCCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe-CcEeEE
Q 001046 219 NEPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS-GQKLSL 290 (1176)
Q Consensus 219 ~~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id-~~ki~L 290 (1176)
..+++|++|.|+|++|++||+||++.+ +.+||+|+|++++.++.++.+++++||.|+|+|++++ .++++|
T Consensus 614 ~~~~~G~i~~G~V~~I~~~GafVei~~--g~~GllHiSei~~~~v~~~~~~~kvGD~V~VkVi~id~~gki~L 684 (684)
T TIGR03591 614 AEPEVGKIYEGKVVRIMDFGAFVEILP--GKDGLVHISEIANERVEKVEDVLKEGDEVKVKVLEIDKQGRIKL 684 (684)
T ss_pred cccccCcEEEEEEEEEeCCEEEEEECC--CcEEEEEHHHcCCCcccChhhccCCCCEEEEEEEEECCCCCccC
Confidence 368999999999999999999999975 7899999999999999999999999999999999998 466654
No 215
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=98.56 E-value=1.4e-06 Score=100.52 Aligned_cols=172 Identities=25% Similarity=0.300 Sum_probs=116.3
Q ss_pred HcCCeEEEEcCCCCcHHHHHHHHHHHhc-ccCCCE--EEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCC
Q 001046 537 HDNQVLVVIGETGSGKTTQVTQYLAEAG-YTTRGK--IGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPD 613 (1176)
Q Consensus 537 ~~~~~vIv~apTGSGKTt~~~~~lle~~-~~~~~~--Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~ 613 (1176)
..++++.++||||.||||.+....+... .....+ ++-+--.|+.|..+.+.+++.||+++
T Consensus 201 ~~~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~----------------- 263 (407)
T COG1419 201 EQKRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPL----------------- 263 (407)
T ss_pred ccCcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHHHhCCce-----------------
Confidence 3488999999999999999888777654 222333 45667889999999999999998875
Q ss_pred ceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhC-CCccEEEEcCCCCHHHHHhhhcCCCe
Q 001046 614 TVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRR-PDLRLIVTSATLDAEKFSGYFFNCNI 692 (1176)
Q Consensus 614 t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r-~~~kvIlmSATl~~~~~~~~f~~~~v 692 (1176)
.++-++.-|...+. .|.++++|.||-+- |+..-...+.-|+.+...- +.--.+++|||...+.+...+..-..
T Consensus 264 --~vv~~~~el~~ai~---~l~~~d~ILVDTaG-rs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~K~~dlkei~~~f~~ 337 (407)
T COG1419 264 --EVVYSPKELAEAIE---ALRDCDVILVDTAG-RSQYDKEKIEELKELIDVSHSIEVYLVLSATTKYEDLKEIIKQFSL 337 (407)
T ss_pred --EEecCHHHHHHHHH---HhhcCCEEEEeCCC-CCccCHHHHHHHHHHHhccccceEEEEEecCcchHHHHHHHHHhcc
Confidence 22335555555553 47889999999998 8888888888888887744 44456889999976665555433222
Q ss_pred EecCCceeeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHH
Q 001046 693 FTIPGRTFPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQE 742 (1176)
Q Consensus 693 ~~i~gr~~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ 742 (1176)
+.+.| ..+++..+...+...+..+.. ..-++.-|.+|+.
T Consensus 338 ~~i~~------~I~TKlDET~s~G~~~s~~~e-----~~~PV~YvT~GQ~ 376 (407)
T COG1419 338 FPIDG------LIFTKLDETTSLGNLFSLMYE-----TRLPVSYVTNGQR 376 (407)
T ss_pred CCcce------eEEEcccccCchhHHHHHHHH-----hCCCeEEEeCCCC
Confidence 22222 345555555555555544433 2345555555543
No 216
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=98.56 E-value=6.6e-06 Score=101.94 Aligned_cols=86 Identities=19% Similarity=0.181 Sum_probs=65.3
Q ss_pred CeEEEEecCCCCHHHHHhhcCCCCCC--CceE-EEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHH
Q 001046 764 ELIILPVYSALPSEMQSRIFDPAPPG--KRKV-VVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQA 840 (1176)
Q Consensus 764 ~~~v~~lhs~l~~~~r~~i~~~f~~g--~~kV-lVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~a 840 (1176)
++.++.+||.++..+|+.+++.|... ..+| +++|-+.+.||++=|...||-++. .-.+|
T Consensus 619 g~~~~rLdG~~~~~qRq~~vd~FN~p~~~~~vfLlSsKAgg~GinLiGAsRlil~D~------------------dWNPa 680 (776)
T KOG0390|consen 619 GYEVLRLDGKTSIKQRQKLVDTFNDPESPSFVFLLSSKAGGEGLNLIGASRLILFDP------------------DWNPA 680 (776)
T ss_pred CceEEEEcCCCchHHHHHHHHhccCCCCCceEEEEecccccCceeecccceEEEeCC------------------CCCch
Confidence 78899999999999999999999643 3345 555667789999999999884444 34455
Q ss_pred HHHHHhcccCCCC---CcEEEEecChHHHh
Q 001046 841 SAKQRAGRAGRTG---PGKCYRLYTESAYR 867 (1176)
Q Consensus 841 s~~QR~GRAGR~g---~G~c~~L~t~~~~~ 867 (1176)
.=.|-++||=|.| +-..|||.+....+
T Consensus 681 ~d~QAmaR~~RdGQKk~v~iYrLlatGtiE 710 (776)
T KOG0390|consen 681 VDQQAMARAWRDGQKKPVYIYRLLATGTIE 710 (776)
T ss_pred hHHHHHHHhccCCCcceEEEEEeecCCCch
Confidence 6667777777777 78889998865443
No 217
>PRK00087 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed
Probab=98.55 E-value=1.2e-07 Score=119.17 Aligned_cols=94 Identities=33% Similarity=0.555 Sum_probs=84.3
Q ss_pred CCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEEEeeccc
Q 001046 220 EPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSMRDVDQ 297 (1176)
Q Consensus 220 ~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~k~~dq 297 (1176)
+++.|+++.|+|+++.++|+||++ + +.+|++|+|++++.++.++.+.|++||.|+|+|++++ ++++.||+|...+
T Consensus 474 ~l~~G~iV~g~V~~v~~~G~fV~l-~--gv~Gll~~sels~~~~~~~~~~~~vGd~V~vkV~~id~~~~~I~lS~K~~~~ 550 (647)
T PRK00087 474 SLEEGDVVEGEVKRLTDFGAFVDI-G--GVDGLLHVSEISWGRVEKPSDVLKVGDEIKVYILDIDKENKKLSLSLKKLLP 550 (647)
T ss_pred hCCCCCEEEEEEEEEeCCcEEEEE-C--CEEEEEEHHHcCccccCCHHHhcCCCCEEEEEEEEEECCCCEEEEEeecccc
Confidence 578999999999999999999999 4 7899999999999999999999999999999999998 5799999999876
Q ss_pred cCCCCCChhhhhhhccCCCCCCCCC
Q 001046 298 NTGKDLLPLKKISEDDALGNNPSGT 322 (1176)
Q Consensus 298 ~tg~d~~P~~~~~~~~~~~~~~~g~ 322 (1176)
+ ||......+..|..+.|.
T Consensus 551 ~------p~~~~~~~~~~G~~v~g~ 569 (647)
T PRK00087 551 D------PWENVEEKYPVGSIVLGK 569 (647)
T ss_pred C------hhhhhhhhccCCeEEEEE
Confidence 6 998777777777766665
No 218
>TIGR00717 rpsA ribosomal protein S1. This model provides trusted hits to most long form (6 repeat) examples of RpsA. Among homologs with only four repeats are some to which other (perhaps secondary) functions have been assigned.
Probab=98.53 E-value=1.6e-07 Score=115.73 Aligned_cols=96 Identities=25% Similarity=0.496 Sum_probs=83.0
Q ss_pred CCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeeccccccccc-CCcccccCCCCEEEEEEEEEe--CcEeEEEEeecc
Q 001046 220 EPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRI-GNAKDVVKRDQEVYVKVISVS--GQKLSLSMRDVD 296 (1176)
Q Consensus 220 ~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~-~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~k~~d 296 (1176)
.+.+|+++.|+|+++.+||+||++++ +.+||+|+++++|.+. .++...+++||.|.|+|+.+| +++|.||+|...
T Consensus 356 ~~~~G~~v~g~V~~v~~~G~fV~l~~--~v~glv~~s~ls~~~~~~~~~~~~~~G~~V~~~Vl~vd~~~~~i~ls~K~~~ 433 (516)
T TIGR00717 356 KHPVGDRVTGKIKKITDFGAFVELEG--GIDGLIHLSDISWDKDGREADHLYKKGDEIEAVVLAVDKEKKRISLGVKQLT 433 (516)
T ss_pred hCCCCCEEEEEEEEEecceEEEECCC--CCEEEEEHHHCcCcccCCCHhHccCCCCEEEEEEEEEeCcCCEEEEeecccc
Confidence 46789999999999999999999985 7899999999998754 456788999999999999998 579999999976
Q ss_pred ccCCCCCChhhhhhhccCCCCCCCCCC
Q 001046 297 QNTGKDLLPLKKISEDDALGNNPSGTR 323 (1176)
Q Consensus 297 q~tg~d~~P~~~~~~~~~~~~~~~g~~ 323 (1176)
++ ||..+...+..|+.+.|.-
T Consensus 434 ~~------p~~~~~~~~~~G~~v~g~V 454 (516)
T TIGR00717 434 EN------PWEKFAAKYKVGSVVKGKV 454 (516)
T ss_pred CC------chhhhhhccCcceEEEEEE
Confidence 55 9987767777787777753
No 219
>PRK07400 30S ribosomal protein S1; Reviewed
Probab=98.51 E-value=2.1e-07 Score=106.69 Aligned_cols=96 Identities=10% Similarity=0.246 Sum_probs=83.2
Q ss_pred CCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEEEeeccc
Q 001046 220 EPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSMRDVDQ 297 (1176)
Q Consensus 220 ~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~k~~dq 297 (1176)
.++.|+++.|+|++|.++|+||++++ +.+|++|++++++.++.++.+.+++||.|.|+|++++ ++++.||+|.+..
T Consensus 28 ~~~~G~iv~G~V~~i~~~g~~Vdig~--k~~g~lp~sEis~~~~~~~~~~~~~G~~v~~~Vi~~~~~~~~i~lS~k~~~~ 105 (318)
T PRK07400 28 HFKPGDIVNGTVFSLEPRGALIDIGA--KTAAFMPIQEMSINRVEGPEEVLQPNETREFFILSDENEDGQLTLSIRRIEY 105 (318)
T ss_pred hcCCCCEEEEEEEEEECCEEEEEECC--CeEEEEEHHHhccccccCHHHccCCCCEEEEEEEEEeCCCCeEEEehhhhhh
Confidence 57899999999999999999999964 5699999999999999999999999999999999998 4699999998743
Q ss_pred cCCCCCChhhhhhhccCCCCCCCCC
Q 001046 298 NTGKDLLPLKKISEDDALGNNPSGT 322 (1176)
Q Consensus 298 ~tg~d~~P~~~~~~~~~~~~~~~g~ 322 (1176)
..+|.........+..+.|.
T Consensus 106 -----~~~w~~l~~~~~~~~~V~g~ 125 (318)
T PRK07400 106 -----MRAWERVRQLQKEDATVRSE 125 (318)
T ss_pred -----hhHHHHHHHhccCCCEEEEE
Confidence 24898776666666666665
No 220
>TIGR00717 rpsA ribosomal protein S1. This model provides trusted hits to most long form (6 repeat) examples of RpsA. Among homologs with only four repeats are some to which other (perhaps secondary) functions have been assigned.
Probab=98.51 E-value=2e-07 Score=115.04 Aligned_cols=96 Identities=31% Similarity=0.544 Sum_probs=85.9
Q ss_pred CCCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEEEeecc
Q 001046 219 NEPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSMRDVD 296 (1176)
Q Consensus 219 ~~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~k~~d 296 (1176)
+.++.|+++.|+|+++.++|+||+++ +.+|++|.+++++.++.++.+.+++||.|.|+|+.+| ++++.||+|...
T Consensus 183 ~~l~~G~~v~g~V~~i~~~G~~V~l~---g~~g~lp~~e~s~~~~~~~~~~~~vG~~v~v~Vl~~d~~~~~i~lS~k~~~ 259 (516)
T TIGR00717 183 ENLKEGDVVKGVVKNITDFGAFVDLG---GVDGLLHITDMSWKRVKHPSEYVKVGQEVKVKVIKFDKEKGRISLSLKQLG 259 (516)
T ss_pred HhccCCCEEEEEEEEEECCeEEEEEC---CEEEEEEHHHcCCCCCCCHHHhccCCCEEEEEEEEEECCCCcEEEEEEecc
Confidence 46889999999999999999999994 6899999999999999999999999999999999999 568999999986
Q ss_pred ccCCCCCChhhhhhhccCCCCCCCCCC
Q 001046 297 QNTGKDLLPLKKISEDDALGNNPSGTR 323 (1176)
Q Consensus 297 q~tg~d~~P~~~~~~~~~~~~~~~g~~ 323 (1176)
++ ||......+..|....|+-
T Consensus 260 ~~------p~~~~~~~~~~G~i~~g~V 280 (516)
T TIGR00717 260 ED------PWEAIEKKFPVGDKITGRV 280 (516)
T ss_pred hh------HHHHHHhhccCCCEEEEEE
Confidence 65 9998777778888777753
No 221
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=98.46 E-value=2.3e-05 Score=99.64 Aligned_cols=136 Identities=16% Similarity=0.157 Sum_probs=86.7
Q ss_pred hhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCc-
Q 001046 713 DYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKR- 791 (1176)
Q Consensus 713 ~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~- 791 (1176)
.+.......+..+ ....+|.+|||+|+.+..+.+.+.+.... ....+..++.-+.++. ++.|..+.-
T Consensus 462 ~~~~~~~~~i~~~-~~~~~~~~lvlF~Sy~~l~~~~~~~~~~~--------~~~~v~~q~~~~~~~~---l~~f~~~~~~ 529 (654)
T COG1199 462 ELLAKLAAYLREI-LKASPGGVLVLFPSYEYLKRVAERLKDER--------STLPVLTQGEDEREEL---LEKFKASGEG 529 (654)
T ss_pred HHHHHHHHHHHHH-HhhcCCCEEEEeccHHHHHHHHHHHhhcC--------ccceeeecCCCcHHHH---HHHHHHhcCC
Confidence 3444444555554 34456699999999999888888876531 1123455676666533 344433333
Q ss_pred eEEEEcchhhhccCCCCe--eEEEeCCccccee----------ccCCCCCc--cccccccCHHHHHHHhcccCCCC--Cc
Q 001046 792 KVVVATNIAEASLTIDGI--FYVIDPGFAKQNV----------YNPKQGLD--SLVITPISQASAKQRAGRAGRTG--PG 855 (1176)
Q Consensus 792 kVlVATniae~GIdIp~V--~~VId~g~~k~~~----------yd~~~g~~--~l~~~p~S~as~~QR~GRAGR~g--~G 855 (1176)
-++|+|..+..|||+|+= ..||=.|+.-... |..+.|.. .....|...-...|-+||+=|.- .|
T Consensus 530 ~~lv~~gsf~EGVD~~g~~l~~vvI~~lPfp~p~dp~~~~r~~~~~~~g~~~f~~~~l~~A~~~l~QavGRlIR~~~D~G 609 (654)
T COG1199 530 LILVGGGSFWEGVDFPGDALRLVVIVGLPFPNPDDPLLKARLEFLKRLGGDPFEEFYLPPAVIKLRQAVGRLIRSEDDRG 609 (654)
T ss_pred eEEEeeccccCcccCCCCCeeEEEEEecCCCCCCCHHHHHHHHHHHHhcCCCceEeehHHHHHHHHHhhccccccCCCce
Confidence 899999999999999984 6666555533322 22222211 12333666778999999999976 58
Q ss_pred EEEEe
Q 001046 856 KCYRL 860 (1176)
Q Consensus 856 ~c~~L 860 (1176)
.++.|
T Consensus 610 ~ivll 614 (654)
T COG1199 610 VIVLL 614 (654)
T ss_pred EEEEe
Confidence 87765
No 222
>cd04460 S1_RpoE S1_RpoE: RpoE, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. RpoE is subunit E of archaeal RNA polymerase. Archaeal cells contain a single RNA polymerase made up of 12 subunits, which are homologous to the 12 subunits (RPB1-12) of eukaryotic RNA polymerase II. RpoE is homologous to Rpa43 of eukaryotic RNA polymerase I, RPB7 of eukaryotic RNA polymerase II, and Rpc25 of eukaryotic RNA polymerase III. RpoE is composed of two domains, the N-terminal RNP (ribonucleoprotein) domain and the C-terminal S1 domain. This S1 domain binds ssRNA and ssDNA. This family is classified based on the C-terminal S1 domain. The function of RpoE is not fully understood. In eukaryotes, RPB7 and RPB4 form a heterodimer that reversibly associates with the RNA polymerase II core.
Probab=98.46 E-value=8.1e-07 Score=84.44 Aligned_cols=76 Identities=37% Similarity=0.538 Sum_probs=63.3
Q ss_pred CEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCC-----------cccccCCCCEEEEEEEEEeC-------c
Q 001046 225 QVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGN-----------AKDVVKRDQEVYVKVISVSG-------Q 286 (1176)
Q Consensus 225 ~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~-----------~~~~~~~Gd~V~VkV~~id~-------~ 286 (1176)
++|.|+|++|.++|+||++. +.+|++|+++++++++.. ..+.+++||.|.|+|.+++. .
T Consensus 1 ~vv~g~V~~i~~~GifV~l~---~v~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~Gd~v~vkI~~vd~~~~~~~~~ 77 (99)
T cd04460 1 EVVEGEVVEVVDFGAFVRIG---PVDGLLHISQIMDDYISYDPKNKRLIGEETKRVLKVGDVVRARIVAVSLKERRPRES 77 (99)
T ss_pred CEEEEEEEEEEeccEEEEEc---CeEEEEEEEEccCCceEechhheeecccCcCCEECCCCEEEEEEEEEeHHHCcCCCc
Confidence 47999999999999999996 389999999998776542 35789999999999999982 5
Q ss_pred EeEEEEeeccccCCCCCChhhhh
Q 001046 287 KLSLSMRDVDQNTGKDLLPLKKI 309 (1176)
Q Consensus 287 ki~Ls~k~~dq~tg~d~~P~~~~ 309 (1176)
++.||+|+..-. ||...
T Consensus 78 ~i~ls~k~~~~g------~~~~~ 94 (99)
T cd04460 78 KIGLTMRQPGLG------KLEWI 94 (99)
T ss_pred eEEEEEecCCCC------cHHHh
Confidence 899999986443 76653
No 223
>PRK00087 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed
Probab=98.40 E-value=6.7e-07 Score=112.51 Aligned_cols=78 Identities=33% Similarity=0.627 Sum_probs=72.8
Q ss_pred CCCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEEEeecc
Q 001046 219 NEPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSMRDVD 296 (1176)
Q Consensus 219 ~~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~k~~d 296 (1176)
.++++|+++.|+|+++.+||+||++.+ +.+||+|++++++.++.++.+.|++||.|+|+|+++| .+++.||+|.+.
T Consensus 558 ~~~~~G~~v~g~V~~i~~~G~fV~l~~--~i~Gli~~sel~~~~~~~~~~~~kvGd~V~vkV~~id~e~~rI~lslk~~~ 635 (647)
T PRK00087 558 EKYPVGSIVLGKVVRIAPFGAFVELEP--GVDGLVHISQISWKRIDKPEDVLSEGEEVKAKILEVDPEEKRIRLSIKEVE 635 (647)
T ss_pred hhccCCeEEEEEEEEEECCeEEEEECC--CCEEEEEhhhcCccccCCHhhcCCCCCEEEEEEEEEeCCCCEEEEEEeecc
Confidence 457899999999999999999999976 7899999999999999999999999999999999998 589999999987
Q ss_pred cc
Q 001046 297 QN 298 (1176)
Q Consensus 297 q~ 298 (1176)
++
T Consensus 636 ~~ 637 (647)
T PRK00087 636 EE 637 (647)
T ss_pred cC
Confidence 76
No 224
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=98.40 E-value=1.8e-06 Score=92.48 Aligned_cols=158 Identities=27% Similarity=0.340 Sum_probs=101.1
Q ss_pred CeEEEEcCCCCcHHHHHHHHHHHhcccCCCE--EEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCceEE
Q 001046 540 QVLVVIGETGSGKTTQVTQYLAEAGYTTRGK--IGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTVIK 617 (1176)
Q Consensus 540 ~~vIv~apTGSGKTt~~~~~lle~~~~~~~~--Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t~I~ 617 (1176)
++++++||||+||||.+..+....... +.+ ++++-..|+.|.++.+.+++.+|.++- ..+..
T Consensus 2 ~vi~lvGptGvGKTTt~aKLAa~~~~~-~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~-----~~~~~---------- 65 (196)
T PF00448_consen 2 KVIALVGPTGVGKTTTIAKLAARLKLK-GKKVALISADTYRIGAVEQLKTYAEILGVPFY-----VARTE---------- 65 (196)
T ss_dssp EEEEEEESTTSSHHHHHHHHHHHHHHT-T--EEEEEESTSSTHHHHHHHHHHHHHTEEEE-----ESSTT----------
T ss_pred EEEEEECCCCCchHhHHHHHHHHHhhc-cccceeecCCCCCccHHHHHHHHHHHhccccc-----hhhcc----------
Confidence 478999999999999999888775544 443 467788999999999999999976531 11100
Q ss_pred EeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHh-hCCCccEEEEcCCCCHHHH---HhhhcCCCeE
Q 001046 618 YMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVK-RRPDLRLIVTSATLDAEKF---SGYFFNCNIF 693 (1176)
Q Consensus 618 ~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~-~r~~~kvIlmSATl~~~~~---~~~f~~~~v~ 693 (1176)
..+..+++..+......++++|+||-+. |+.....++..++.+.. ..+.-.+++||||...+.+ ..++...+
T Consensus 66 -~~~~~~~~~~l~~~~~~~~D~vlIDT~G-r~~~d~~~~~el~~~~~~~~~~~~~LVlsa~~~~~~~~~~~~~~~~~~-- 141 (196)
T PF00448_consen 66 -SDPAEIAREALEKFRKKGYDLVLIDTAG-RSPRDEELLEELKKLLEALNPDEVHLVLSATMGQEDLEQALAFYEAFG-- 141 (196)
T ss_dssp -SCHHHHHHHHHHHHHHTTSSEEEEEE-S-SSSTHHHHHHHHHHHHHHHSSSEEEEEEEGGGGGHHHHHHHHHHHHSS--
T ss_pred -hhhHHHHHHHHHHHhhcCCCEEEEecCC-cchhhHHHHHHHHHHhhhcCCccceEEEecccChHHHHHHHHHhhccc--
Confidence 0233344333322234678999999998 77766666666666665 4577789999999964433 33331110
Q ss_pred ecCCceeeeEEEEecCCCchhHHHHHHHHHH
Q 001046 694 TIPGRTFPVEILYTKQPESDYLDASLITVLQ 724 (1176)
Q Consensus 694 ~i~gr~~pv~~~~~~~~~~~~~~~~l~~v~~ 724 (1176)
+-.+.+++..+.......+..+..
T Consensus 142 -------~~~lIlTKlDet~~~G~~l~~~~~ 165 (196)
T PF00448_consen 142 -------IDGLILTKLDETARLGALLSLAYE 165 (196)
T ss_dssp -------TCEEEEESTTSSSTTHHHHHHHHH
T ss_pred -------CceEEEEeecCCCCcccceeHHHH
Confidence 123456666666666665555544
No 225
>PRK09521 exosome complex RNA-binding protein Csl4; Provisional
Probab=98.39 E-value=5.9e-07 Score=95.65 Aligned_cols=75 Identities=25% Similarity=0.311 Sum_probs=67.9
Q ss_pred CCCCCCCEEEEEEEEEeeceeEEEeCCC--------CCeeeeeecccccccccCCcccccCCCCEEEEEEEEEeCcEeEE
Q 001046 219 NEPELYQVYKGRVSRVVDTGCFVQLNDF--------RGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVSGQKLSL 290 (1176)
Q Consensus 219 ~~~~~g~~~~g~V~~i~~~G~fV~l~~~--------~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id~~ki~L 290 (1176)
..|++|+++.|+|++|.++|+||+|... .+.+|++|++++++.+..++.+.+++||.|.|+|++++ +++.|
T Consensus 60 ~~~~~GdiV~GkV~~i~~~g~~V~I~~~~~~~~~l~~~~~G~l~~s~i~~~~~~~~~~~~~~GD~V~akV~~i~-~~i~L 138 (189)
T PRK09521 60 PLLKKGDIVYGRVVDVKEQRALVRIVSIEGSERELATSKLAYIHISQVSDGYVESLTDAFKIGDIVRAKVISYT-DPLQL 138 (189)
T ss_pred CCCCCCCEEEEEEEEEcCCeEEEEEEEecccccccCCCceeeEEhhHcChhhhhhHHhccCCCCEEEEEEEecC-CcEEE
Confidence 4678999999999999999999999642 14689999999999888888999999999999999999 89999
Q ss_pred EEee
Q 001046 291 SMRD 294 (1176)
Q Consensus 291 s~k~ 294 (1176)
|+++
T Consensus 139 S~k~ 142 (189)
T PRK09521 139 STKG 142 (189)
T ss_pred EEec
Confidence 9986
No 226
>cd00164 S1_like S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain. Both domains are members of the Oligonucleotide/oligosaccharide Binding (OB) fold.
Probab=98.36 E-value=9.2e-07 Score=76.17 Aligned_cols=63 Identities=40% Similarity=0.662 Sum_probs=55.7
Q ss_pred EEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEE
Q 001046 227 YKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLS 291 (1176)
Q Consensus 227 ~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls 291 (1176)
+.|+|+++.++|+||++.. +.+|++|.+++++.+..++.+.+++||.|.|+|++++ .+++.||
T Consensus 1 v~g~V~~v~~~g~~v~l~~--~~~g~~~~~~~~~~~~~~~~~~~~~G~~v~~~v~~~d~~~~~i~ls 65 (65)
T cd00164 1 VTGKVVSITKFGVFVELED--GVEGLVHISELSDKFVKDPSEVFKVGDEVEVKVLEVDPEKGRISLS 65 (65)
T ss_pred CEEEEEEEEeeeEEEEecC--CCEEEEEHHHCCCccccCHhhEeCCCCEEEEEEEEEcCCcCEEecC
Confidence 4799999999999999975 6899999999998888888899999999999999998 3566553
No 227
>KOG1000 consensus Chromatin remodeling protein HARP/SMARCAL1, DEAD-box superfamily [Chromatin structure and dynamics]
Probab=98.28 E-value=7.2e-05 Score=86.39 Aligned_cols=267 Identities=19% Similarity=0.220 Sum_probs=150.4
Q ss_pred HHHHHHHH-HHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEee
Q 001046 527 KLKKELIQ-AVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIR 605 (1176)
Q Consensus 527 ~~q~~ii~-ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir 605 (1176)
++|.+-+. ++..|..+++.-+-|-|||.|+.....- +.....+++++|--+. -..++.+...++.-.- +-...+
T Consensus 201 PFQreGv~faL~RgGR~llADeMGLGKTiQAlaIA~y--yraEwplliVcPAsvr-ftWa~al~r~lps~~p--i~vv~~ 275 (689)
T KOG1000|consen 201 PFQREGVIFALERGGRILLADEMGLGKTIQALAIARY--YRAEWPLLIVCPASVR-FTWAKALNRFLPSIHP--IFVVDK 275 (689)
T ss_pred chhhhhHHHHHhcCCeEEEecccccchHHHHHHHHHH--HhhcCcEEEEecHHHh-HHHHHHHHHhcccccc--eEEEec
Confidence 34655444 5788888999999999999887654432 3345678888885332 2334444444433221 111112
Q ss_pred ccccc---CCCceEEEeChHHHHHHHhhCCCC-CCCceEEEcCCCc----CCCchhHHHHHHHHHHhhCCCccEEEEcCC
Q 001046 606 FEDCT---GPDTVIKYMTDGMLLREILIDDNL-SQYSVIMLDEAHE----RTIHTDVLFGLLKQLVKRRPDLRLIVTSAT 677 (1176)
Q Consensus 606 ~~~~~---~~~t~I~~~T~g~Llr~l~~~~~L-~~~s~IIiDEaHe----R~~~~d~ll~llk~~~~~r~~~kvIlmSAT 677 (1176)
..+.. .....|.+++..+|... .+-.. ..+.+||+||.|. +.-.+-..+.+++.+ .++|++|.|
T Consensus 276 ~~D~~~~~~t~~~v~ivSye~ls~l--~~~l~~~~~~vvI~DEsH~Lk~sktkr~Ka~~dllk~a------khvILLSGT 347 (689)
T KOG1000|consen 276 SSDPLPDVCTSNTVAIVSYEQLSLL--HDILKKEKYRVVIFDESHMLKDSKTKRTKAATDLLKVA------KHVILLSGT 347 (689)
T ss_pred ccCCccccccCCeEEEEEHHHHHHH--HHHHhcccceEEEEechhhhhccchhhhhhhhhHHHHh------hheEEecCC
Confidence 22211 12345777777776432 12233 4499999999993 223333444444432 469999999
Q ss_pred CC----HHHHHhh-----------------hcCCC---e-E------------------------------ecCCceeee
Q 001046 678 LD----AEKFSGY-----------------FFNCN---I-F------------------------------TIPGRTFPV 702 (1176)
Q Consensus 678 l~----~~~~~~~-----------------f~~~~---v-~------------------------------~i~gr~~pv 702 (1176)
+- .+.+... +.+.. + + .+|.+. -
T Consensus 348 PavSRP~elytqi~avd~tlfp~f~efa~rYCd~k~vr~~~Dykg~tnl~EL~~lL~k~lMIRRlK~dvL~qLPpKr--r 425 (689)
T KOG1000|consen 348 PAVSRPSELYTQIRAVDHTLFPNFHEFAIRYCDGKQVRFCFDYKGCTNLEELAALLFKRLMIRRLKADVLKQLPPKR--R 425 (689)
T ss_pred cccCCchhhhhhhhhhcccccccHHHHHHHhcCccccceeeecCCCCCHHHHHHHHHHHHHHHHHHHHHHhhCCccc--e
Confidence 83 3222111 10000 0 0 111111 1
Q ss_pred EEEEecCCC-----chhHHHH---------------------------HHHHHHH------HhcCCCCCEEEEeCCHHHH
Q 001046 703 EILYTKQPE-----SDYLDAS---------------------------LITVLQI------HLTEPEGDILLFLTGQEEI 744 (1176)
Q Consensus 703 ~~~~~~~~~-----~~~~~~~---------------------------l~~v~~i------~~~~~~g~iLVFl~~~~ei 744 (1176)
++.|..... .+.+.++ +..+.+. ....++.+.|||+.-..-.
T Consensus 426 ~Vv~~~~gr~da~~~~lv~~a~~~t~~~~~e~~~~~l~l~y~~tgiaK~~av~eyi~~~~~l~d~~~~KflVFaHH~~vL 505 (689)
T KOG1000|consen 426 EVVYVSGGRIDARMDDLVKAAADYTKVNSMERKHESLLLFYSLTGIAKAAAVCEYILENYFLPDAPPRKFLVFAHHQIVL 505 (689)
T ss_pred EEEEEcCCccchHHHHHHHHhhhcchhhhhhhhhHHHHHHHHHhcccccHHHHHHHHhCcccccCCCceEEEEehhHHHH
Confidence 122221110 0111110 1111111 1234567899999998888
Q ss_pred HHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCC-ce-EEEEcchhhhccCCCCeeEEEeCCc
Q 001046 745 DFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGK-RK-VVVATNIAEASLTIDGIFYVIDPGF 817 (1176)
Q Consensus 745 ~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~-~k-VlVATniae~GIdIp~V~~VId~g~ 817 (1176)
+.+...+.++ ++..+-+.|..++..|....+.|.... .+ -|++-..+.+|+|+.....||-.-+
T Consensus 506 d~Iq~~~~~r---------~vg~IRIDGst~s~~R~ll~qsFQ~seev~VAvlsItA~gvGLt~tAa~~VVFaEL 571 (689)
T KOG1000|consen 506 DTIQVEVNKR---------KVGSIRIDGSTPSHRRTLLCQSFQTSEEVRVAVLSITAAGVGLTLTAASVVVFAEL 571 (689)
T ss_pred HHHHHHHHHc---------CCCeEEecCCCCchhHHHHHHHhccccceEEEEEEEeecccceeeeccceEEEEEe
Confidence 8877777664 556677899999999999988886443 33 4566778999999999999994443
No 228
>PRK04163 exosome complex RNA-binding protein Rrp4; Provisional
Probab=98.27 E-value=2e-06 Score=94.57 Aligned_cols=74 Identities=19% Similarity=0.306 Sum_probs=66.5
Q ss_pred CCCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeeccccccccc----CCcccccCCCCEEEEEEEEEe-CcEeEEEEe
Q 001046 219 NEPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRI----GNAKDVVKRDQEVYVKVISVS-GQKLSLSMR 293 (1176)
Q Consensus 219 ~~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~----~~~~~~~~~Gd~V~VkV~~id-~~ki~Ls~k 293 (1176)
--|++|+++.|+|+++.++|+||+|.. ..+|++|++++++.++ .++.+.|++||.|+++|++++ .+++.||++
T Consensus 59 y~P~vGDiViG~V~~i~~~~~~vdI~~--~~~g~L~~s~i~~~~~~~d~~~~~~~~~~GDlV~akV~~i~~~~~~~LS~k 136 (235)
T PRK04163 59 YIPKVGDLVIGKVTDVTFSGWEVDINS--PYKAYLPVSEVLGRPVNVEGTDLRKYLDIGDYIIAKVKDVDRTRDVVLTLK 136 (235)
T ss_pred ccCCCCCEEEEEEEEEeCceEEEEeCC--CceeEEEHHHcCCCccccchhhhHhhCCCCCEEEEEEEEECCCCcEEEEEc
Confidence 367899999999999999999999975 5799999999999887 688889999999999999998 457999996
Q ss_pred e
Q 001046 294 D 294 (1176)
Q Consensus 294 ~ 294 (1176)
+
T Consensus 137 ~ 137 (235)
T PRK04163 137 G 137 (235)
T ss_pred C
Confidence 5
No 229
>KOG1067 consensus Predicted RNA-binding polyribonucleotide nucleotidyltransferase [General function prediction only]
Probab=98.25 E-value=1.1e-06 Score=101.77 Aligned_cols=78 Identities=29% Similarity=0.448 Sum_probs=71.9
Q ss_pred CCCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe-CcEeEEEEeeccc
Q 001046 219 NEPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS-GQKLSLSMRDVDQ 297 (1176)
Q Consensus 219 ~~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id-~~ki~Ls~k~~dq 297 (1176)
.+++.|.+|+++|+++.++|+||+|.. +..||+|+|++++.++.+|++++.+||.|.||.+..| .+-+.|+-+.+.|
T Consensus 664 ~~l~~g~vy~~tIt~~rd~G~~V~l~p--~~~~Llh~sqL~~e~iakpsd~levGq~I~vk~ie~d~~g~~~ls~ralLp 741 (760)
T KOG1067|consen 664 QDLEFGGVYTATITEIRDTGVMVELYP--MQQGLLHNSQLDQEKIAKPSDLLEVGQEIQVKYIERDPRGGIMLSSRALLP 741 (760)
T ss_pred cceEeeeEEEEEEeeecccceEEEecC--CchhhccchhcccccccChHHHHhhcceeEEEEEeecCccceeehhhhhcC
Confidence 478899999999999999999999965 8899999999999999999999999999999999999 5678888888877
Q ss_pred c
Q 001046 298 N 298 (1176)
Q Consensus 298 ~ 298 (1176)
+
T Consensus 742 ~ 742 (760)
T KOG1067|consen 742 D 742 (760)
T ss_pred C
Confidence 6
No 230
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=98.21 E-value=4e-05 Score=88.71 Aligned_cols=129 Identities=17% Similarity=0.238 Sum_probs=82.0
Q ss_pred CCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEE--EEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCceE
Q 001046 539 NQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKI--GCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTVI 616 (1176)
Q Consensus 539 ~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~I--lv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t~I 616 (1176)
.+++.++||||+||||.+..+..... ..+.++ +-+-|.|+.|.+..+..++.+|+++ +
T Consensus 241 ~~vI~LVGptGvGKTTTiaKLA~~L~-~~GkkVglI~aDt~RiaAvEQLk~yae~lgipv-------------------~ 300 (436)
T PRK11889 241 VQTIALIGPTGVGKTTTLAKMAWQFH-GKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEV-------------------I 300 (436)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHHHH-HcCCcEEEEecCCcchHHHHHHHHHhhhcCCcE-------------------E
Confidence 46889999999999999888766532 333344 3445788877777666666655432 1
Q ss_pred EEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHh-hCCCccEEEEcCCCCH---HHHHhhhc
Q 001046 617 KYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVK-RRPDLRLIVTSATLDA---EKFSGYFF 688 (1176)
Q Consensus 617 ~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~-~r~~~kvIlmSATl~~---~~~~~~f~ 688 (1176)
...++..+.+.+..-..-.++++||||-+- |.....-++.-+..++. ..|+..++++|||... ..+...|.
T Consensus 301 v~~d~~~L~~aL~~lk~~~~~DvVLIDTaG-Rs~kd~~lm~EL~~~lk~~~PdevlLVLsATtk~~d~~~i~~~F~ 375 (436)
T PRK11889 301 AVRDEAAMTRALTYFKEEARVDYILIDTAG-KNYRASETVEEMIETMGQVEPDYICLTLSASMKSKDMIEIITNFK 375 (436)
T ss_pred ecCCHHHHHHHHHHHHhccCCCEEEEeCcc-ccCcCHHHHHHHHHHHhhcCCCeEEEEECCccChHHHHHHHHHhc
Confidence 122556665544322222368999999997 55555555555555554 4567678889999853 34444444
No 231
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=98.20 E-value=3.4e-05 Score=90.67 Aligned_cols=156 Identities=18% Similarity=0.251 Sum_probs=95.0
Q ss_pred CCeEEEEcCCCCcHHHHHHHHHHHhccc---CCCE--EEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCC
Q 001046 539 NQVLVVIGETGSGKTTQVTQYLAEAGYT---TRGK--IGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPD 613 (1176)
Q Consensus 539 ~~~vIv~apTGSGKTt~~~~~lle~~~~---~~~~--Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~ 613 (1176)
.++++++||||+||||.+..+....... .+.+ ++.+-+.|+.|..+.+.+++.+|.++ .++
T Consensus 174 ~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv--~~~------------ 239 (388)
T PRK12723 174 KRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPV--KAI------------ 239 (388)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcce--Eee------------
Confidence 4689999999999999988776543221 2333 45667889999888888877776653 111
Q ss_pred ceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHh-hCCC-ccEEEEcCCCCHHHHHhhhcCCC
Q 001046 614 TVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVK-RRPD-LRLIVTSATLDAEKFSGYFFNCN 691 (1176)
Q Consensus 614 t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~-~r~~-~kvIlmSATl~~~~~~~~f~~~~ 691 (1176)
.++..+...+. .+.++++||||++. |.......+.-++.++. ..++ -.++++|||.....+.+.|....
T Consensus 240 -----~~~~~l~~~L~---~~~~~DlVLIDTaG-r~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~~~~~~~~~~~~~ 310 (388)
T PRK12723 240 -----ESFKDLKEEIT---QSKDFDLVLVDTIG-KSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTKTSDVKEIFHQFS 310 (388)
T ss_pred -----CcHHHHHHHHH---HhCCCCEEEEcCCC-CCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCCHHHHHHHHHHhc
Confidence 12333433332 24789999999998 66543334555555555 3334 47899999998666665553221
Q ss_pred eEecCCceeeeEEEEecCCCchhHHHHHHHHH
Q 001046 692 IFTIPGRTFPVEILYTKQPESDYLDASLITVL 723 (1176)
Q Consensus 692 v~~i~gr~~pv~~~~~~~~~~~~~~~~l~~v~ 723 (1176)
.+. +-.+.+++..+.......+..+.
T Consensus 311 ~~~------~~~~I~TKlDet~~~G~~l~~~~ 336 (388)
T PRK12723 311 PFS------YKTVIFTKLDETTCVGNLISLIY 336 (388)
T ss_pred CCC------CCEEEEEeccCCCcchHHHHHHH
Confidence 111 12244555544444454444443
No 232
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=98.18 E-value=3.5e-05 Score=88.95 Aligned_cols=213 Identities=14% Similarity=0.156 Sum_probs=117.2
Q ss_pred hHHHHhhcCCCCCCCchhHHHhhhcccccccccChHH-----HHHHHhcCCchHHHHHHHHHHHcCCeEEEEcCCCCcHH
Q 001046 479 HLAQELRGVGLSAYDMPEWKKDAFGKALTFGQRSKLS-----IQEQRQSLPIYKLKKELIQAVHDNQVLVVIGETGSGKT 553 (1176)
Q Consensus 479 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----l~~~r~~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKT 553 (1176)
.+...|...++.+....++.+................ +...+..+|+... + .+..+++++++||||+|||
T Consensus 146 ~~~~~L~~~gV~~~~~~~l~~~~~~~~~~~~~~~~~~v~~~~~~~L~~~l~~~~~----~-~~~~~~ii~lvGptGvGKT 220 (407)
T PRK12726 146 DFVKFLKGRGISDTYVADFMQAGRKQFKQVETAHLDDITDWFVPYLSGKLAVEDS----F-DLSNHRIISLIGQTGVGKT 220 (407)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHHHHhccccccccHHHHHHHHHHHhcCcEeeCCC----c-eecCCeEEEEECCCCCCHH
Confidence 5566777777776666666555422211111111111 1111233333211 0 1346789999999999999
Q ss_pred HHHHHHHHHhcccCCCEE--EEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCceEEEeChHHHHHHHhhC
Q 001046 554 TQVTQYLAEAGYTTRGKI--GCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTVIKYMTDGMLLREILID 631 (1176)
Q Consensus 554 t~~~~~lle~~~~~~~~I--lv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t~I~~~T~g~Llr~l~~~ 631 (1176)
|.+....... ...+.+| +.+-|.|..|.++-+..++.++.++ ....++.-+...+..-
T Consensus 221 Tt~akLA~~l-~~~g~~V~lItaDtyR~gAveQLk~yae~lgvpv-------------------~~~~dp~dL~~al~~l 280 (407)
T PRK12726 221 TTLVKLGWQL-LKQNRTVGFITTDTFRSGAVEQFQGYADKLDVEL-------------------IVATSPAELEEAVQYM 280 (407)
T ss_pred HHHHHHHHHH-HHcCCeEEEEeCCccCccHHHHHHHHhhcCCCCE-------------------EecCCHHHHHHHHHHH
Confidence 9888776553 2223333 5556889888777766666654432 0112455554444322
Q ss_pred CCCCCCceEEEcCCCcCCCchhHHHHHHHHHHh-hCCCccEEEEcCCCCHHHHHhhhcCCCeEecCCceeeeEEEEecCC
Q 001046 632 DNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVK-RRPDLRLIVTSATLDAEKFSGYFFNCNIFTIPGRTFPVEILYTKQP 710 (1176)
Q Consensus 632 ~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~-~r~~~kvIlmSATl~~~~~~~~f~~~~v~~i~gr~~pv~~~~~~~~ 710 (1176)
....++++||||=+- |+...+-++..++.+.. ..|+.-++++|||.........+.....+. .-.+.+++..
T Consensus 281 ~~~~~~D~VLIDTAG-r~~~d~~~l~EL~~l~~~~~p~~~~LVLsag~~~~d~~~i~~~f~~l~------i~glI~TKLD 353 (407)
T PRK12726 281 TYVNCVDHILIDTVG-RNYLAEESVSEISAYTDVVHPDLTCFTFSSGMKSADVMTILPKLAEIP------IDGFIITKMD 353 (407)
T ss_pred HhcCCCCEEEEECCC-CCccCHHHHHHHHHHhhccCCceEEEECCCcccHHHHHHHHHhcCcCC------CCEEEEEccc
Confidence 234679999999997 55555555566666554 456777889999987655554432211111 1124555555
Q ss_pred CchhHHHHHHHHH
Q 001046 711 ESDYLDASLITVL 723 (1176)
Q Consensus 711 ~~~~~~~~l~~v~ 723 (1176)
+.......+....
T Consensus 354 ET~~~G~~Lsv~~ 366 (407)
T PRK12726 354 ETTRIGDLYTVMQ 366 (407)
T ss_pred CCCCccHHHHHHH
Confidence 5444555554443
No 233
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=98.15 E-value=7.8e-05 Score=86.96 Aligned_cols=175 Identities=19% Similarity=0.229 Sum_probs=103.7
Q ss_pred HHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCC-CEE--EEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCC
Q 001046 536 VHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTR-GKI--GCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGP 612 (1176)
Q Consensus 536 i~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~-~~I--lv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~ 612 (1176)
+..+.+++++||||+||||.+..+........+ .+| +.+-+.|+.+.+..+.+++.+|.++.
T Consensus 134 ~~~g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~--------------- 198 (374)
T PRK14722 134 MERGGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVH--------------- 198 (374)
T ss_pred ccCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceE---------------
Confidence 356889999999999999999888766433322 244 33345688888888888887765431
Q ss_pred CceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHh-hCCCccEEEEcCCCCHHHHH---hhhc
Q 001046 613 DTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVK-RRPDLRLIVTSATLDAEKFS---GYFF 688 (1176)
Q Consensus 613 ~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~-~r~~~kvIlmSATl~~~~~~---~~f~ 688 (1176)
.+.+++-+...+. .+.++++|+||++- +....+.+...+..+.. ..+.-.++++|||...+.+. ..|.
T Consensus 199 ----~~~~~~~l~~~l~---~l~~~DlVLIDTaG-~~~~d~~l~e~La~L~~~~~~~~~lLVLsAts~~~~l~evi~~f~ 270 (374)
T PRK14722 199 ----AVKDGGDLQLALA---ELRNKHMVLIDTIG-MSQRDRTVSDQIAMLHGADTPVQRLLLLNATSHGDTLNEVVQAYR 270 (374)
T ss_pred ----ecCCcccHHHHHH---HhcCCCEEEEcCCC-CCcccHHHHHHHHHHhccCCCCeEEEEecCccChHHHHHHHHHHH
Confidence 1223333433332 35678999999997 66555566666666543 23456789999999654333 2222
Q ss_pred C---CCeEecCCceeeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCH
Q 001046 689 N---CNIFTIPGRTFPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQ 741 (1176)
Q Consensus 689 ~---~~v~~i~gr~~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~ 741 (1176)
. .|....+ ..-.+.+++..+.......+..+... .-++..+.+|+
T Consensus 271 ~~~~~p~~~~~---~~~~~I~TKlDEt~~~G~~l~~~~~~-----~lPi~yvt~Gq 318 (374)
T PRK14722 271 SAAGQPKAALP---DLAGCILTKLDEASNLGGVLDTVIRY-----KLPVHYVSTGQ 318 (374)
T ss_pred HhhcccccccC---CCCEEEEeccccCCCccHHHHHHHHH-----CcCeEEEecCC
Confidence 1 1111111 01235566665555556555555443 33444444443
No 234
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=98.15 E-value=3.4e-05 Score=97.34 Aligned_cols=138 Identities=17% Similarity=0.212 Sum_probs=91.5
Q ss_pred cCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCC---CCceEEEEcchhhhcc
Q 001046 728 TEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPP---GKRKVVVATNIAEASL 804 (1176)
Q Consensus 728 ~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~---g~~kVlVATniae~GI 804 (1176)
...+..||||-.=..-.+-++++|..+ ++..--+-|++..+.|+..++.|.. .....|+||-+-+-||
T Consensus 696 k~~GHrVLIFSQMVRmLDIL~eYL~~r---------~ypfQRLDGsvrgelRq~AIDhFnap~SddFvFLLSTRAGGLGI 766 (1373)
T KOG0384|consen 696 KEGGHRVLIFSQMVRMLDILAEYLSLR---------GYPFQRLDGSVRGELRQQAIDHFNAPDSDDFVFLLSTRAGGLGI 766 (1373)
T ss_pred hcCCceEEEhHHHHHHHHHHHHHHHHc---------CCcceeccCCcchHHHHHHHHhccCCCCCceEEEEecccCcccc
Confidence 345678999976666556666666542 5666778899999999999888853 3578999999999999
Q ss_pred CCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCCCcEEEEecChHHHhhhCCCCCchhhhhcChH
Q 001046 805 TIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTGPGKCYRLYTESAYRNEMSPTSIPEIQRINLG 884 (1176)
Q Consensus 805 dIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g~G~c~~L~t~~~~~~~l~~~~~pEI~r~~L~ 884 (1176)
|+-..+.||- ||..-+ |..--++.-|+-|-|-...=.+|||+|+..++.+|.+.. =+..-|+
T Consensus 767 NLatADTVII--------FDSDWN-------PQNDLQAqARaHRIGQkk~VnVYRLVTk~TvEeEilERA---k~KmvLD 828 (1373)
T KOG0384|consen 767 NLATADTVII--------FDSDWN-------PQNDLQAQARAHRIGQKKHVNVYRLVTKNTVEEEILERA---KLKMVLD 828 (1373)
T ss_pred cccccceEEE--------eCCCCC-------cchHHHHHHHHHhhcccceEEEEEEecCCchHHHHHHHH---HHHhhhH
Confidence 9999988883 333211 222223333444444333567999999998876433211 1234566
Q ss_pred HHHHHHHH
Q 001046 885 FTTLTMKA 892 (1176)
Q Consensus 885 ~~~L~lk~ 892 (1176)
.+|++.-.
T Consensus 829 ~aVIQ~m~ 836 (1373)
T KOG0384|consen 829 HAVIQRMD 836 (1373)
T ss_pred HHHHHhhc
Confidence 67766544
No 235
>TIGR02063 RNase_R ribonuclease R. This family consists of an exoribonuclease, ribonuclease R, also called VacB. It is one of the eight exoribonucleases reported in E. coli and is broadly distributed throughout the bacteria. In E. coli, double mutants of this protein and polynucleotide phosphorylase are not viable. Scoring between trusted and noise cutoffs to the model are shorter, divergent forms from the Chlamydiae, and divergent forms from the Campylobacterales (including Helicobacter pylori) and Leptospira interrogans.
Probab=98.15 E-value=5.5e-06 Score=105.64 Aligned_cols=71 Identities=25% Similarity=0.431 Sum_probs=60.9
Q ss_pred CCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeeccccccccc-----------CCcccccCCCCEEEEEEEEEe--CcE
Q 001046 221 PELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRI-----------GNAKDVVKRDQEVYVKVISVS--GQK 287 (1176)
Q Consensus 221 ~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~-----------~~~~~~~~~Gd~V~VkV~~id--~~k 287 (1176)
..+|++|.|+|++|++||+||+|+++ +.+||||+++++++++ .+.+..+++||.|+|+|.++| .++
T Consensus 625 ~~iG~~~~g~V~~v~~fGifV~L~~~-~~eGlvhis~l~~d~~~~d~~~~~l~g~~~~~~~~lGd~V~Vkv~~vd~~~~~ 703 (709)
T TIGR02063 625 EKIGEEFEGVISGVTSFGLFVELENN-TIEGLVHISTLKDDYYVFDEKGLALVGERTGKVFRLGDRVKVRVVKADLDTGK 703 (709)
T ss_pred ccCCcEEEEEEEEEEeCCEEEEecCC-ceEEEEEeeecCCCcEEEcccceEEEeccCCcEECCCCEEEEEEEEEecccCe
Confidence 45799999999999999999999853 5899999999987653 245678999999999999999 578
Q ss_pred eEEEE
Q 001046 288 LSLSM 292 (1176)
Q Consensus 288 i~Ls~ 292 (1176)
|.|++
T Consensus 704 I~~~l 708 (709)
T TIGR02063 704 IDFEL 708 (709)
T ss_pred EEEEE
Confidence 88875
No 236
>COG1095 RPB7 DNA-directed RNA polymerase, subunit E' [Transcription]
Probab=98.14 E-value=5.4e-06 Score=85.13 Aligned_cols=74 Identities=38% Similarity=0.562 Sum_probs=62.9
Q ss_pred CCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccC----------C-cccccCCCCEEEEEEEEEe---C
Q 001046 220 EPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIG----------N-AKDVVKRDQEVYVKVISVS---G 285 (1176)
Q Consensus 220 ~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~----------~-~~~~~~~Gd~V~VkV~~id---~ 285 (1176)
.|..|+++.|.|+++.+||+||.+. -.+||+|+|++.++++. + .+..+++||.|+++|+.+. .
T Consensus 78 kP~~gEVV~GeVv~~~~~G~fV~ig---p~dglvh~sqi~dd~~~~d~~~~~~~g~~tk~~i~~gd~VR~RIv~~s~~~~ 154 (183)
T COG1095 78 KPFRGEVVEGEVVEVVEFGAFVRIG---PLDGLVHVSQIMDDYIDYDEKNKVLIGEETKRVLKVGDKVRARIVGVSLKSR 154 (183)
T ss_pred EeccccEEEEEEEEEeecceEEEec---cccccccHhhccCcccccCcccceeeecccceEEecCCEEEEEEEEEecccC
Confidence 6889999999999999999999996 36999999999887433 2 4448999999999999987 1
Q ss_pred ----cEeEEEEeecc
Q 001046 286 ----QKLSLSMRDVD 296 (1176)
Q Consensus 286 ----~ki~Ls~k~~d 296 (1176)
.+|.|+|++.-
T Consensus 155 ~~~~~~I~lTmrq~~ 169 (183)
T COG1095 155 RPRESKIGLTMRQPG 169 (183)
T ss_pred ccccceEEEEecccc
Confidence 48999999853
No 237
>TIGR00448 rpoE DNA-directed RNA polymerase (rpoE), archaeal and eukaryotic form. This family seems to be confined to the archea and eukaryotic taxa and are quite dissimilar to E.coli rpoE.
Probab=98.09 E-value=1.2e-05 Score=85.02 Aligned_cols=73 Identities=34% Similarity=0.597 Sum_probs=61.9
Q ss_pred CCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccC-----------CcccccCCCCEEEEEEEEEe----
Q 001046 220 EPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIG-----------NAKDVVKRDQEVYVKVISVS---- 284 (1176)
Q Consensus 220 ~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~-----------~~~~~~~~Gd~V~VkV~~id---- 284 (1176)
.|.+|+++.|+|++++++|+||+++ ..+|++|.+++..+.+. +....++.||.|+|+|.+++
T Consensus 78 ~p~~gEvv~G~V~~v~~~GifV~lg---~~~gi~~~~~l~~~~~~~d~~~~~~~~~~~~~~~~~Gd~VrvrV~~v~~~~~ 154 (179)
T TIGR00448 78 KPELGEIVEGEVIEIVEFGAFVSLG---PFDGLFHVSQVTDDYCYYDPKESALIGKETKKVLDEGDKVRARIVALSLKDR 154 (179)
T ss_pred eccCCCEEEEEEEEEEeeEEEEEeC---CceEEEEcHHhCCCceEEccccceEEEccCCeEEcCCCEEEEEEEEEEccCC
Confidence 5778999999999999999999994 47999999998765432 34568999999999999997
Q ss_pred ---CcEeEEEEeec
Q 001046 285 ---GQKLSLSMRDV 295 (1176)
Q Consensus 285 ---~~ki~Ls~k~~ 295 (1176)
..+|.||||+.
T Consensus 155 ~~~~~~I~lt~k~~ 168 (179)
T TIGR00448 155 RPEGSKIGLTMRQP 168 (179)
T ss_pred CCCcceEEEEeccC
Confidence 34899999884
No 238
>cd05791 S1_CSL4 S1_CSL4: CSL4, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. ScCSL4 protein is a subunit of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in eukarytes and archaea. Its functions include the removal of incorrectly processed RNA and the maintenance of proper levels of mRNA, rRNA and a number of small RNA species. In S. cerevisiae, the exosome includes nine core components, six of which are homologous to bacterial RNase PH. These form a hexameric ring structure. The other three subunits (RrP4, Rrp40, and Csl4) contain an S1 RNA binding domain and are part of the "S1 pore structure".
Probab=98.04 E-value=1.3e-05 Score=75.00 Aligned_cols=74 Identities=19% Similarity=0.236 Sum_probs=64.2
Q ss_pred CCCCCCEEEEEEEEEeeceeEEEe--------CCCCCeeeeeecccccccccC--CcccccCCCCEEEEEEEEEeC-cEe
Q 001046 220 EPELYQVYKGRVSRVVDTGCFVQL--------NDFRGKEGLVHVSQIATRRIG--NAKDVVKRDQEVYVKVISVSG-QKL 288 (1176)
Q Consensus 220 ~~~~g~~~~g~V~~i~~~G~fV~l--------~~~~~~eGlvhisels~~~~~--~~~~~~~~Gd~V~VkV~~id~-~ki 288 (1176)
-|+.|+++.|+|+++....++|+| .. ...|++|++++...+.. ++.+.|++||.|++||++... ..+
T Consensus 3 ~P~~GDiVig~V~~v~~~~~~v~I~~v~~~~l~~--~~~g~l~~~dv~~~~~d~~~~~~~f~~GDiV~AkVis~~~~~~~ 80 (92)
T cd05791 3 LPKVGSIVIARVTRINPRFAKVDILCVGGRPLKE--SFRGVIRKEDIRATEKDKVEMYKCFRPGDIVRAKVISLGDASSY 80 (92)
T ss_pred CCCCCCEEEEEEEEEcCCEEEEEEEEecCeecCC--CcccEEEHHHccccccchHHHHhhcCCCCEEEEEEEEcCCCCCc
Confidence 378999999999999999999999 43 45899999999877666 688899999999999999974 678
Q ss_pred EEEEeec
Q 001046 289 SLSMRDV 295 (1176)
Q Consensus 289 ~Ls~k~~ 295 (1176)
.||+++.
T Consensus 81 ~Lst~~~ 87 (92)
T cd05791 81 YLSTAEN 87 (92)
T ss_pred EEEecCC
Confidence 8998763
No 239
>PRK11642 exoribonuclease R; Provisional
Probab=98.02 E-value=1.3e-05 Score=102.50 Aligned_cols=71 Identities=31% Similarity=0.476 Sum_probs=61.1
Q ss_pred CCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccC-----------CcccccCCCCEEEEEEEEEe--CcEe
Q 001046 222 ELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIG-----------NAKDVVKRDQEVYVKVISVS--GQKL 288 (1176)
Q Consensus 222 ~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~-----------~~~~~~~~Gd~V~VkV~~id--~~ki 288 (1176)
.+|++|.|+|++|++||+||+|++. +++||||++++.++++. +....+++||.|+|+|.++| .++|
T Consensus 642 ~iGe~f~G~Is~V~~fGifVeL~~~-~vEGlV~vs~L~~d~y~~d~~~~~L~g~~~~~~~~lGD~V~VkV~~vD~~~rkI 720 (813)
T PRK11642 642 QVGNVFKGVISSVTGFGFFVRLDDL-FIDGLVHVSSLDNDYYRFDQVGQRLIGESSGQTYRLGDRVEVRVEAVNMDERKI 720 (813)
T ss_pred cCCcEEEEEEEEeecCceEEEECCC-CeeeeEEEeecCCcceEecchheEEecccCCcEECCCCEEEEEEEEeecCCCeE
Confidence 5799999999999999999999862 48999999999876432 34578999999999999998 6789
Q ss_pred EEEEe
Q 001046 289 SLSMR 293 (1176)
Q Consensus 289 ~Ls~k 293 (1176)
.|++-
T Consensus 721 ~f~l~ 725 (813)
T PRK11642 721 DFSLI 725 (813)
T ss_pred EEEEe
Confidence 99884
No 240
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=98.00 E-value=7e-06 Score=81.58 Aligned_cols=119 Identities=19% Similarity=0.321 Sum_probs=69.0
Q ss_pred HcCCeEEEEcCCCCcHHHHHHHHHHHhccc-----CCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccC
Q 001046 537 HDNQVLVVIGETGSGKTTQVTQYLAEAGYT-----TRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTG 611 (1176)
Q Consensus 537 ~~~~~vIv~apTGSGKTt~~~~~lle~~~~-----~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~ 611 (1176)
.+++.++|.|++|+|||+.+-.++.+.... ....+.+..|...-...++..++..++.....
T Consensus 2 ~~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~------------- 68 (131)
T PF13401_consen 2 QSQRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKS------------- 68 (131)
T ss_dssp -----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSS-------------
T ss_pred CCCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccc-------------
Confidence 356789999999999999998888764221 23345566666655677788888887765432
Q ss_pred CCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCC
Q 001046 612 PDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSAT 677 (1176)
Q Consensus 612 ~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSAT 677 (1176)
-.|...+...+...-.-....+|||||||.-. .+..+..++.+.. ..++++|++...
T Consensus 69 ------~~~~~~l~~~~~~~l~~~~~~~lviDe~~~l~--~~~~l~~l~~l~~-~~~~~vvl~G~~ 125 (131)
T PF13401_consen 69 ------RQTSDELRSLLIDALDRRRVVLLVIDEADHLF--SDEFLEFLRSLLN-ESNIKVVLVGTP 125 (131)
T ss_dssp ------TS-HHHHHHHHHHHHHHCTEEEEEEETTHHHH--THHHHHHHHHHTC-SCBEEEEEEESS
T ss_pred ------cCCHHHHHHHHHHHHHhcCCeEEEEeChHhcC--CHHHHHHHHHHHh-CCCCeEEEEECh
Confidence 11333333333221111222799999999632 3556666666655 667777766543
No 241
>PF06862 DUF1253: Protein of unknown function (DUF1253); InterPro: IPR010678 This family is defined by a C-terminal region of approximately 500 residues, Digestive organ expansion factor (DEF) is thought to Regulate the p53 pathway to control the expansion growth of digestive organs and is required for the expansion growth of intestine, liver and exocrine pancreas, but not endocrine pancreas [, ].; GO: 0005634 nucleus
Probab=98.00 E-value=0.00078 Score=79.83 Aligned_cols=229 Identities=16% Similarity=0.071 Sum_probs=140.6
Q ss_pred CCceEEEeChHHHHHHHhh------CC-CCCCCceEEEcCCCc-CCCchhHHHHHHHHHHhhC-----------------
Q 001046 612 PDTVIKYMTDGMLLREILI------DD-NLSQYSVIMLDEAHE-RTIHTDVLFGLLKQLVKRR----------------- 666 (1176)
Q Consensus 612 ~~t~I~~~T~g~Llr~l~~------~~-~L~~~s~IIiDEaHe-R~~~~d~ll~llk~~~~~r----------------- 666 (1176)
.+.+|++++|=-|-..+-. +. .|+.+.++|||-||- -+-+-+.+..+++.+-...
T Consensus 130 y~SDIIiASPLGLr~~i~~~~~~~~d~DFLSSIEv~iiD~ad~l~MQNW~Hv~~v~~~lN~~P~~~~~~DfsRVR~w~Ld 209 (442)
T PF06862_consen 130 YSSDIIIASPLGLRMIIGEEGEKKRDYDFLSSIEVLIIDQADVLLMQNWEHVLHVFEHLNLQPKKSHDTDFSRVRPWYLD 209 (442)
T ss_pred ccCCEEEEChHHHHHHhccccccccccchhheeeeEeechhhHHHHhhHHHHHHHHHHhccCCCCCCCCCHHHHHHHHHc
Confidence 3689999999555444432 11 699999999999993 3344455555554432211
Q ss_pred ----CCccEEEEcCCCCHHH---HHhhhcCC----Ce-------EecCCceeeeEEEEecCCCchhH---HH----HHHH
Q 001046 667 ----PDLRLIVTSATLDAEK---FSGYFFNC----NI-------FTIPGRTFPVEILYTKQPESDYL---DA----SLIT 721 (1176)
Q Consensus 667 ----~~~kvIlmSATl~~~~---~~~~f~~~----~v-------~~i~gr~~pv~~~~~~~~~~~~~---~~----~l~~ 721 (1176)
-=.|+|++|+..+++. |..+..|. .+ ..+..-..++...|...+..+.. ++ -...
T Consensus 210 g~a~~~RQtii~S~~~~pe~~slf~~~~~N~~G~v~~~~~~~~~g~i~~v~~~v~Q~F~r~~~~s~~~~~d~Rf~yF~~~ 289 (442)
T PF06862_consen 210 GQAKYYRQTIIFSSFQTPEINSLFNRHCQNYAGKVRLKPPYEASGVISQVVVQVRQVFQRFDCSSPADDPDARFKYFTKK 289 (442)
T ss_pred CcchheeEeEEecCCCCHHHHHHHHhhCcCccceEEEeeccccceeeeccccCCceEEEEecCCCcchhhhHHHHHHHHH
Confidence 1258999999997653 33322221 11 11112223445555443322211 11 1222
Q ss_pred HHHHHh-cCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcchh
Q 001046 722 VLQIHL-TEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATNIA 800 (1176)
Q Consensus 722 v~~i~~-~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATnia 800 (1176)
++-... ....+.+|||+|+-=+--.+-..|.+ .++....+|--.+..+-.++-..|-.|..+|++-|-=+
T Consensus 290 iLP~l~~~~~~~~~LIfIPSYfDfVRlRN~lk~---------~~~sF~~i~EYts~~~isRAR~~F~~G~~~iLL~TER~ 360 (442)
T PF06862_consen 290 ILPQLKRDSKMSGTLIFIPSYFDFVRLRNYLKK---------ENISFVQISEYTSNSDISRARSQFFHGRKPILLYTERF 360 (442)
T ss_pred HHHHhhhccCCCcEEEEecchhhhHHHHHHHHh---------cCCeEEEecccCCHHHHHHHHHHHHcCCceEEEEEhHH
Confidence 333333 56678999999999988887777764 36777778777777777777778899999999999532
Q ss_pred h--hccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHh---cccCC----CCCcEEEEecChHHHh
Q 001046 801 E--ASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRA---GRAGR----TGPGKCYRLYTESAYR 867 (1176)
Q Consensus 801 e--~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~---GRAGR----~g~G~c~~L~t~~~~~ 867 (1176)
- +=..|.||+.||-||+ |....=|...+ +.... .+.+.|..||++-+..
T Consensus 361 HFfrRy~irGi~~viFY~~------------------P~~p~fY~El~n~~~~~~~~~~~~~~~~~~~lysk~D~~ 418 (442)
T PF06862_consen 361 HFFRRYRIRGIRHVIFYGP------------------PENPQFYSELLNMLDESSGGEVDAADATVTVLYSKYDAL 418 (442)
T ss_pred hhhhhceecCCcEEEEECC------------------CCChhHHHHHHhhhcccccccccccCceEEEEecHhHHH
Confidence 2 3467899999999998 44444333333 33222 1257999999987653
No 242
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=97.96 E-value=0.00021 Score=85.56 Aligned_cols=169 Identities=25% Similarity=0.298 Sum_probs=98.2
Q ss_pred HcCCeEEEEcCCCCcHHHHHHHHHHHhc-ccCCCEE--EEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCC
Q 001046 537 HDNQVLVVIGETGSGKTTQVTQYLAEAG-YTTRGKI--GCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPD 613 (1176)
Q Consensus 537 ~~~~~vIv~apTGSGKTt~~~~~lle~~-~~~~~~I--lv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~ 613 (1176)
..+++++++||||+||||.+..++.... ...+.+| +-+-|.|..|.......+..++.++- +
T Consensus 219 ~~~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a~eqL~~~a~~~~vp~~--~------------- 283 (424)
T PRK05703 219 KQGGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQLKTYAKIMGIPVE--V------------- 283 (424)
T ss_pred cCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHHHHHHHHHHHHhCCceE--c-------------
Confidence 3477999999999999999887766543 2333344 44567788887777777776664321 1
Q ss_pred ceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHh-h-CCCccEEEEcCCCCHHHHHh---hhc
Q 001046 614 TVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVK-R-RPDLRLIVTSATLDAEKFSG---YFF 688 (1176)
Q Consensus 614 t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~-~-r~~~kvIlmSATl~~~~~~~---~f~ 688 (1176)
..++.-+...+. .+.++++||||.+. |.....-.+..+..++. . .+.-.++++|||.....+.. .|.
T Consensus 284 ----~~~~~~l~~~l~---~~~~~DlVlIDt~G-~~~~d~~~~~~L~~ll~~~~~~~~~~LVl~a~~~~~~l~~~~~~f~ 355 (424)
T PRK05703 284 ----VYDPKELAKALE---QLRDCDVILIDTAG-RSQRDKRLIEELKALIEFSGEPIDVYLVLSATTKYEDLKDIYKHFS 355 (424)
T ss_pred ----cCCHHhHHHHHH---HhCCCCEEEEeCCC-CCCCCHHHHHHHHHHHhccCCCCeEEEEEECCCCHHHHHHHHHHhC
Confidence 123344444443 24579999999997 44433334444555544 2 34456889999997554443 443
Q ss_pred CCCeEecCCceeeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHH
Q 001046 689 NCNIFTIPGRTFPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQE 742 (1176)
Q Consensus 689 ~~~v~~i~gr~~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ 742 (1176)
..+ +-.+.+++..+.......+..+... +-++..+.+|+.
T Consensus 356 ~~~---------~~~vI~TKlDet~~~G~i~~~~~~~-----~lPv~yit~Gq~ 395 (424)
T PRK05703 356 RLP---------LDGLIFTKLDETSSLGSILSLLIES-----GLPISYLTNGQR 395 (424)
T ss_pred CCC---------CCEEEEecccccccccHHHHHHHHH-----CCCEEEEeCCCC
Confidence 222 1134455544444444444433332 335555555553
No 243
>TIGR00358 3_prime_RNase VacB and RNase II family 3'-5' exoribonucleases. This model is defined to identify a pair of paralogous 3-prime exoribonucleases in E. coli, plus the set of proteins apparently orthologous to one or the other in other eubacteria. VacB was characterized originally as required for the expression of virulence genes, but is now recognized as the exoribonuclease RNase R (Rnr). Its paralog in E. coli and H. influenzae is designated exoribonuclease II (Rnb). Both are involved in the degradation of mRNA, and consequently have strong pleiotropic effects that may be difficult to disentangle. Both these proteins share domain-level similarity (RNB, S1) with a considerable number of other proteins, and full-length similarity scoring below the trusted cutoff to proteins associated with various phenotypes but uncertain biochemistry; it may be that these latter proteins are also 3-prime exoribonucleases.
Probab=97.95 E-value=2.1e-05 Score=99.15 Aligned_cols=70 Identities=26% Similarity=0.459 Sum_probs=59.8
Q ss_pred CCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeeccccccccc-----------CCcccccCCCCEEEEEEEEEe--CcEe
Q 001046 222 ELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRI-----------GNAKDVVKRDQEVYVKVISVS--GQKL 288 (1176)
Q Consensus 222 ~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~-----------~~~~~~~~~Gd~V~VkV~~id--~~ki 288 (1176)
.+|++|.|+|++|++||+||+|++. +.+||||++++.++++ .+....+++||.|+|+|.++| .++|
T Consensus 571 ~iG~~~~g~I~~v~~~GifV~L~~~-~veGlV~~s~l~~d~y~~d~~~~~l~g~~~~~~~~lGD~V~Vki~~vd~~~~~I 649 (654)
T TIGR00358 571 KVGTEFSGEISSVTRFGMFVRLDDN-GIDGLIHISTLHNDYYVFDQEKMALIGKGTGKVYRIGDRVTVKLTEVNMETRSI 649 (654)
T ss_pred CCCcEEEEEEEeEEcCcEEEEecCC-ceEEEEEeEeCCCcceEEeccccEEEeccCCcEECCCCEEEEEEEEEecccCeE
Confidence 4699999999999999999999853 6899999999987742 234578999999999999998 5688
Q ss_pred EEEE
Q 001046 289 SLSM 292 (1176)
Q Consensus 289 ~Ls~ 292 (1176)
.+++
T Consensus 650 ~f~l 653 (654)
T TIGR00358 650 IFEL 653 (654)
T ss_pred EEEE
Confidence 8775
No 244
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=97.90 E-value=0.00043 Score=83.31 Aligned_cols=170 Identities=21% Similarity=0.270 Sum_probs=94.6
Q ss_pred HHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccC-CCEE--EEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccC
Q 001046 535 AVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTT-RGKI--GCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTG 611 (1176)
Q Consensus 535 ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~-~~~I--lv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~ 611 (1176)
.+..+++++++||||+||||.+..+........ +.+| +.+-+.|..+..+.......++..+ -
T Consensus 346 ~l~~G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v----~---------- 411 (559)
T PRK12727 346 PLERGGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAV----H---------- 411 (559)
T ss_pred cccCCCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHHHHhhcccCcee----E----------
Confidence 356789999999999999999877665533222 2334 3345678777666555443333211 0
Q ss_pred CCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCCCCHHHHHh---hhc
Q 001046 612 PDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSATLDAEKFSG---YFF 688 (1176)
Q Consensus 612 ~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSATl~~~~~~~---~f~ 688 (1176)
...+.+.+...+. .+.++++||||.+- ++.....+...+..+........+++++++.....+.. .|.
T Consensus 412 -----~a~d~~~L~~aL~---~l~~~DLVLIDTaG-~s~~D~~l~eeL~~L~aa~~~a~lLVLpAtss~~Dl~eii~~f~ 482 (559)
T PRK12727 412 -----EADSAESLLDLLE---RLRDYKLVLIDTAG-MGQRDRALAAQLNWLRAARQVTSLLVLPANAHFSDLDEVVRRFA 482 (559)
T ss_pred -----ecCcHHHHHHHHH---HhccCCEEEecCCC-cchhhHHHHHHHHHHHHhhcCCcEEEEECCCChhHHHHHHHHHH
Confidence 0113344444433 24679999999997 44333344444444444445567899999985443333 232
Q ss_pred CCCeEecCCceeeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCH
Q 001046 689 NCNIFTIPGRTFPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQ 741 (1176)
Q Consensus 689 ~~~v~~i~gr~~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~ 741 (1176)
.. -+..+.+.+..+...+...+..+... +-++..+.+|+
T Consensus 483 ~~---------~~~gvILTKlDEt~~lG~aLsv~~~~-----~LPI~yvt~GQ 521 (559)
T PRK12727 483 HA---------KPQGVVLTKLDETGRFGSALSVVVDH-----QMPITWVTDGQ 521 (559)
T ss_pred hh---------CCeEEEEecCcCccchhHHHHHHHHh-----CCCEEEEeCCC
Confidence 21 12335555555555555555554432 23444444554
No 245
>cd04455 S1_NusA S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three RNA binding domains (RBD's). The RBD's include one S1 domain and two KH domains that form an RNA binding surface. DNA transcription by RNA polymerase (RNAP) includes three phases - initiation, elongation, and termination. During initiation, sigma factors bind RNAP and target RNAP to specific promoters. During elongation, N-utilization substances (NusA, B, E, and G) replace sigma factors and regulate pausing, termination, and antitermination. NusA is cold-shock-inducible.
Probab=97.90 E-value=5.1e-05 Score=66.62 Aligned_cols=61 Identities=18% Similarity=0.222 Sum_probs=51.7
Q ss_pred CCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEeC----cEeEEE
Q 001046 222 ELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVSG----QKLSLS 291 (1176)
Q Consensus 222 ~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id~----~ki~Ls 291 (1176)
..|+++.|+|.++.++|+||+++ +.+|++|.++++ +.+.+++||.|+|.|++++. ..|.||
T Consensus 2 ~~g~iV~G~V~~~~~~~~~vdig---~~eg~lp~~e~~------~~~~~~~Gd~v~v~v~~v~~~~~~~~i~lS 66 (67)
T cd04455 2 REGEIVTGIVKRVDRGNVIVDLG---KVEAILPKKEQI------PGESYRPGDRIKAYVLEVRKTSKGPQIILS 66 (67)
T ss_pred CCCCEEEEEEEEEcCCCEEEEcC---CeEEEeeHHHCC------CCCcCCCCCEEEEEEEEEecCCCCCEEEEe
Confidence 46999999999999999999995 379999999986 35668999999999999983 246665
No 246
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=97.84 E-value=3.7e-05 Score=82.57 Aligned_cols=122 Identities=26% Similarity=0.317 Sum_probs=70.6
Q ss_pred hHHHHHHHHHHHcC--CeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEE
Q 001046 526 YKLKKELIQAVHDN--QVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYA 603 (1176)
Q Consensus 526 ~~~q~~ii~ai~~~--~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ 603 (1176)
.+-|.+++..+..+ +.++|+|+.|+||||.+-. +.......+.+|+++.||..++..+.+.. +...
T Consensus 3 ~~~Q~~a~~~~l~~~~~~~~l~G~aGtGKT~~l~~-~~~~~~~~g~~v~~~apT~~Aa~~L~~~~----~~~a------- 70 (196)
T PF13604_consen 3 NEEQREAVRAILTSGDRVSVLQGPAGTGKTTLLKA-LAEALEAAGKRVIGLAPTNKAAKELREKT----GIEA------- 70 (196)
T ss_dssp -HHHHHHHHHHHHCTCSEEEEEESTTSTHHHHHHH-HHHHHHHTT--EEEEESSHHHHHHHHHHH----TS-E-------
T ss_pred CHHHHHHHHHHHhcCCeEEEEEECCCCCHHHHHHH-HHHHHHhCCCeEEEECCcHHHHHHHHHhh----Ccch-------
Confidence 45688899988543 5889999999999987655 44433344568999999999988877652 2110
Q ss_pred eecccccCCCceEEEeChHHHHHHHhh-----CCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCCC
Q 001046 604 IRFEDCTGPDTVIKYMTDGMLLREILI-----DDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSATL 678 (1176)
Q Consensus 604 ir~~~~~~~~t~I~~~T~g~Llr~l~~-----~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSATl 678 (1176)
.|-..++..... .+.+...++||||||- ++....+..+++.+.. .+.++|++-=+-
T Consensus 71 ---------------~Ti~~~l~~~~~~~~~~~~~~~~~~vliVDEas--mv~~~~~~~ll~~~~~--~~~klilvGD~~ 131 (196)
T PF13604_consen 71 ---------------QTIHSFLYRIPNGDDEGRPELPKKDVLIVDEAS--MVDSRQLARLLRLAKK--SGAKLILVGDPN 131 (196)
T ss_dssp ---------------EEHHHHTTEECCEECCSSCC-TSTSEEEESSGG--G-BHHHHHHHHHHS-T---T-EEEEEE-TT
T ss_pred ---------------hhHHHHHhcCCcccccccccCCcccEEEEeccc--ccCHHHHHHHHHHHHh--cCCEEEEECCcc
Confidence 111111110000 0115677899999996 4555555555544322 356788776554
No 247
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=97.83 E-value=0.0004 Score=81.66 Aligned_cols=152 Identities=22% Similarity=0.213 Sum_probs=91.8
Q ss_pred cCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEE--EEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCce
Q 001046 538 DNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKI--GCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTV 615 (1176)
Q Consensus 538 ~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~I--lv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t~ 615 (1176)
.+.+++++||||+||||++..++.......+.+| +-+-+.|.+|..+.++.++.+|.++- .
T Consensus 222 ~~~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~Dt~R~aA~eQLk~yAe~lgvp~~-----~------------ 284 (432)
T PRK12724 222 QRKVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDNYRIAAIEQLKRYADTMGMPFY-----P------------ 284 (432)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecccchhhhHHHHHHHHHHhcCCCee-----e------------
Confidence 3567889999999999999998875433334344 45568899999988888877765420 0
Q ss_pred EEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhh----CCCccEEEEcCCCCH---HHHHhhhc
Q 001046 616 IKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKR----RPDLRLIVTSATLDA---EKFSGYFF 688 (1176)
Q Consensus 616 I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~----r~~~kvIlmSATl~~---~~~~~~f~ 688 (1176)
......+...+. -.++++||||=+. |.......+..|..+... .+.-.++++|||... ..+..+|.
T Consensus 285 --~~~~~~l~~~l~----~~~~D~VLIDTaG-r~~rd~~~l~eL~~~~~~~~~~~~~e~~LVLsAt~~~~~~~~~~~~f~ 357 (432)
T PRK12724 285 --VKDIKKFKETLA----RDGSELILIDTAG-YSHRNLEQLERMQSFYSCFGEKDSVENLLVLSSTSSYHHTLTVLKAYE 357 (432)
T ss_pred --hHHHHHHHHHHH----hCCCCEEEEeCCC-CCccCHHHHHHHHHHHHhhcCCCCCeEEEEEeCCCCHHHHHHHHHHhc
Confidence 001222333332 2678999999986 554444445555555442 244578999999964 34444453
Q ss_pred CCCeEecCCceeeeEEEEecCCCchhHHHHHHHH
Q 001046 689 NCNIFTIPGRTFPVEILYTKQPESDYLDASLITV 722 (1176)
Q Consensus 689 ~~~v~~i~gr~~pv~~~~~~~~~~~~~~~~l~~v 722 (1176)
..++ -.+.+++..+.......+..+
T Consensus 358 ~~~~---------~glIlTKLDEt~~~G~il~i~ 382 (432)
T PRK12724 358 SLNY---------RRILLTKLDEADFLGSFLELA 382 (432)
T ss_pred CCCC---------CEEEEEcccCCCCccHHHHHH
Confidence 3221 124455544444444444444
No 248
>PF00176 SNF2_N: SNF2 family N-terminal domain; InterPro: IPR000330 This domain is found in proteins involved in a variety of processes including transcription regulation (e.g., SNF2, STH1, brahma, MOT1), DNA repair (e.g., ERCC6, RAD16, RAD5), DNA recombination (e.g., RAD54), and chromatin unwinding (e.g., ISWI) as well as a variety of other proteins with little functional information (e.g., lodestar, ETL1) [, ]. SNF2 functions as the ATPase component of the SNF2/SWI multisubunit complex, which utilises energy derived from ATP hydrolysis to disrupt histone-DNA interactions, resulting in the increased accessibility of DNA to transcription factors. Proteins that contain this domain appear to be distantly related to the DEAX box helicases IPR001410 from INTERPRO, however no helicase activity has ever been demonstrated for these proteins. ; GO: 0003677 DNA binding, 0005524 ATP binding; PDB: 1Z63_B 1Z3I_X 3DMQ_A 3MWY_W.
Probab=97.81 E-value=7.5e-05 Score=85.02 Aligned_cols=130 Identities=17% Similarity=0.117 Sum_probs=71.3
Q ss_pred cCCeEEEEcCCCCcHHHHHHHHHHHh--cccCC--CEEEEeccHHHHHHHHHHHHHHHhCC-ccCCeeEEEeec-----c
Q 001046 538 DNQVLVVIGETGSGKTTQVTQYLAEA--GYTTR--GKIGCTQPRRVAAMSVAKRVAEEFGC-RLGEEVGYAIRF-----E 607 (1176)
Q Consensus 538 ~~~~vIv~apTGSGKTt~~~~~lle~--~~~~~--~~Ilv~~PrR~lA~qva~rva~e~g~-~~G~~vGy~ir~-----~ 607 (1176)
..+..|+.-++|+|||.++..++... ..... ..++|++|. .+..+....+...... .. ..+-|.-.. .
T Consensus 24 ~~~g~lL~de~GlGKT~~~i~~~~~l~~~~~~~~~~~~LIv~P~-~l~~~W~~E~~~~~~~~~~-~v~~~~~~~~~~~~~ 101 (299)
T PF00176_consen 24 PPRGGLLADEMGLGKTITAIALISYLKNEFPQRGEKKTLIVVPS-SLLSQWKEEIEKWFDPDSL-RVIIYDGDSERRRLS 101 (299)
T ss_dssp TT-EEEE---TTSSHHHHHHHHHHHHHHCCTTSS-S-EEEEE-T-TTHHHHHHHHHHHSGT-TS--EEEESSSCHHHHTT
T ss_pred CCCCEEEEECCCCCchhhhhhhhhhhhhccccccccceeEeecc-chhhhhhhhhccccccccc-ccccccccccccccc
Confidence 45688999999999998877766531 11111 258999999 5566777766655522 22 112221111 1
Q ss_pred cccCCCceEEEeChHHHH--------HHHhhCCCCCCCceEEEcCCCc-CCCchhHHHHHHHHHHhhCCCccEEEEcCCC
Q 001046 608 DCTGPDTVIKYMTDGMLL--------REILIDDNLSQYSVIMLDEAHE-RTIHTDVLFGLLKQLVKRRPDLRLIVTSATL 678 (1176)
Q Consensus 608 ~~~~~~t~I~~~T~g~Ll--------r~l~~~~~L~~~s~IIiDEaHe-R~~~~d~ll~llk~~~~~r~~~kvIlmSATl 678 (1176)
........++++|...+. ..+. -.++++|||||+|. ++..+.... .+ .. .....++++|||+
T Consensus 102 ~~~~~~~~vvi~ty~~~~~~~~~~~~~~l~----~~~~~~vIvDEaH~~k~~~s~~~~-~l---~~-l~~~~~~lLSgTP 172 (299)
T PF00176_consen 102 KNQLPKYDVVITTYETLRKARKKKDKEDLK----QIKWDRVIVDEAHRLKNKDSKRYK-AL---RK-LRARYRWLLSGTP 172 (299)
T ss_dssp SSSCCCSSEEEEEHHHHH--TSTHTTHHHH----TSEEEEEEETTGGGGTTTTSHHHH-HH---HC-CCECEEEEE-SS-
T ss_pred ccccccceeeeccccccccccccccccccc----cccceeEEEecccccccccccccc-cc---cc-cccceEEeecccc
Confidence 123356789999998887 1221 13489999999995 334333222 22 22 2255788899998
No 249
>COG0653 SecA Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking and secretion]
Probab=97.78 E-value=0.00034 Score=87.51 Aligned_cols=100 Identities=19% Similarity=0.100 Sum_probs=60.3
Q ss_pred hcCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCee
Q 001046 521 QSLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEV 600 (1176)
Q Consensus 521 ~~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~v 600 (1176)
..+-.+++-.|++-++.-+.--|.-..||=|||.++.++++-..+...|--++++---.+... +..+...+ ..+|.+|
T Consensus 75 Rvlg~~~~dVQliG~i~lh~g~iaEM~TGEGKTL~atlp~ylnaL~gkgVhvVTvNdYLA~RD-ae~m~~l~-~~LGlsv 152 (822)
T COG0653 75 RVLGMRHFDVQLLGGIVLHLGDIAEMRTGEGKTLVATLPAYLNALAGKGVHVVTVNDYLARRD-AEWMGPLY-EFLGLSV 152 (822)
T ss_pred HhcCCChhhHHHhhhhhhcCCceeeeecCCchHHHHHHHHHHHhcCCCCcEEeeehHHhhhhC-HHHHHHHH-HHcCCce
Confidence 445666677888888877777889999999999888888877667766655666554333322 22222211 2344555
Q ss_pred EEEeeccc----ccCCCceEEEeChH
Q 001046 601 GYAIRFED----CTGPDTVIKYMTDG 622 (1176)
Q Consensus 601 Gy~ir~~~----~~~~~t~I~~~T~g 622 (1176)
|..+.+.. ...-.++|.|.|+.
T Consensus 153 G~~~~~m~~~ek~~aY~~DItY~Tnn 178 (822)
T COG0653 153 GVILAGMSPEEKRAAYACDITYGTNN 178 (822)
T ss_pred eeccCCCChHHHHHHHhcCceecccc
Confidence 54443321 12234566666653
No 250
>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA. This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.
Probab=97.77 E-value=0.0029 Score=81.19 Aligned_cols=124 Identities=21% Similarity=0.215 Sum_probs=81.2
Q ss_pred cCCchHHHHHHHHHHHc-CCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCee
Q 001046 522 SLPIYKLKKELIQAVHD-NQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEV 600 (1176)
Q Consensus 522 ~LPi~~~q~~ii~ai~~-~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~v 600 (1176)
...+.+-|.+++..+.. ++.++|+|++|+||||.+-..+ +.....+.+|+++.||-.+|..+.. ..|..
T Consensus 350 ~~~Ls~~Q~~Av~~i~~s~~~~il~G~aGTGKTtll~~i~-~~~~~~g~~V~~~ApTg~Aa~~L~~----~~g~~----- 419 (744)
T TIGR02768 350 HYRLSEEQYEAVRHVTGSGDIAVVVGRAGTGKSTMLKAAR-EAWEAAGYRVIGAALSGKAAEGLQA----ESGIE----- 419 (744)
T ss_pred cCCCCHHHHHHHHHHhcCCCEEEEEecCCCCHHHHHHHHH-HHHHhCCCeEEEEeCcHHHHHHHHh----ccCCc-----
Confidence 35678899999998876 5899999999999998866643 3222335689999999887765543 22221
Q ss_pred EEEeecccccCCCceEEEeChHHHHHHHhh-CCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcC
Q 001046 601 GYAIRFEDCTGPDTVIKYMTDGMLLREILI-DDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSA 676 (1176)
Q Consensus 601 Gy~ir~~~~~~~~t~I~~~T~g~Llr~l~~-~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSA 676 (1176)
-.|-..++..+.. ...+...++||||||- ++..+.+..+++.... .+.++|++-=
T Consensus 420 -----------------a~Ti~~~~~~~~~~~~~~~~~~llIvDEas--Mv~~~~~~~Ll~~~~~--~~~kliLVGD 475 (744)
T TIGR02768 420 -----------------SRTLASLEYAWANGRDLLSDKDVLVIDEAG--MVGSRQMARVLKEAEE--AGAKVVLVGD 475 (744)
T ss_pred -----------------eeeHHHHHhhhccCcccCCCCcEEEEECcc--cCCHHHHHHHHHHHHh--cCCEEEEECC
Confidence 0122222211111 2246788999999995 5666666666655433 4677777763
No 251
>PRK08563 DNA-directed RNA polymerase subunit E'; Provisional
Probab=97.76 E-value=9.1e-05 Score=78.92 Aligned_cols=73 Identities=38% Similarity=0.613 Sum_probs=61.9
Q ss_pred CCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccC-----------CcccccCCCCEEEEEEEEEeC---
Q 001046 220 EPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIG-----------NAKDVVKRDQEVYVKVISVSG--- 285 (1176)
Q Consensus 220 ~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~-----------~~~~~~~~Gd~V~VkV~~id~--- 285 (1176)
.|..|+++.|+|+++.++|+||+++ ..+|++|.+++.+++.. +....+++||.|+|+|.+++.
T Consensus 78 ~P~~GEVv~g~V~~v~~~Gi~V~lg---~~~g~v~~~~l~~~~~~~d~~~~~~~~~~~~~~i~~Gd~VrvrV~~v~~~~~ 154 (187)
T PRK08563 78 KPELQEVVEGEVVEVVEFGAFVRIG---PVDGLLHISQIMDDYISYDPKNGRLIGKESKRVLKVGDVVRARIVAVSLKER 154 (187)
T ss_pred eccCCCEEEEEEEEEEccEEEEEEe---CceEEEEcHHcCCCceEEccccceEEEccCCeEEcCCCEEEEEEEEEEcccC
Confidence 5788999999999999999999995 37999999999876432 345679999999999999982
Q ss_pred ----cEeEEEEeec
Q 001046 286 ----QKLSLSMRDV 295 (1176)
Q Consensus 286 ----~ki~Ls~k~~ 295 (1176)
.+|.|||++.
T Consensus 155 ~~~~~~I~ls~~~~ 168 (187)
T PRK08563 155 RPRGSKIGLTMRQP 168 (187)
T ss_pred CCCCCEEEEEecCC
Confidence 3799999874
No 252
>PF13245 AAA_19: Part of AAA domain
Probab=97.72 E-value=7.8e-05 Score=67.18 Aligned_cols=54 Identities=30% Similarity=0.402 Sum_probs=43.3
Q ss_pred HHHcCCeEEEEcCCCCcHHHHHHHHHHHhccc---CCCEEEEeccHHHHHHHHHHHH
Q 001046 535 AVHDNQVLVVIGETGSGKTTQVTQYLAEAGYT---TRGKIGCTQPRRVAAMSVAKRV 588 (1176)
Q Consensus 535 ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~---~~~~Ilv~~PrR~lA~qva~rv 588 (1176)
++..+..++|.||+|||||+.+...+.+.... .+.+|+|+.|++.++..+.+++
T Consensus 6 al~~~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 6 ALAGSPLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAADELRERL 62 (76)
T ss_pred HHhhCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHHHHHHHHH
Confidence 55557778889999999998888777664321 1568999999999999999987
No 253
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=97.69 E-value=0.0041 Score=80.94 Aligned_cols=127 Identities=20% Similarity=0.185 Sum_probs=83.0
Q ss_pred hcCCchHHHHHHHHHHHc-CCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCe
Q 001046 521 QSLPIYKLKKELIQAVHD-NQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEE 599 (1176)
Q Consensus 521 ~~LPi~~~q~~ii~ai~~-~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~ 599 (1176)
..+.+.+-|.+++..+.. ++.++|+|..|+||||.+- .+.+.....+.+|+.+.||-.+|..+.. ..|..
T Consensus 343 ~g~~Ls~eQr~Av~~il~s~~v~vv~G~AGTGKTT~l~-~~~~~~e~~G~~V~~~ApTGkAA~~L~e----~tGi~---- 413 (988)
T PRK13889 343 RGLVLSGEQADALAHVTDGRDLGVVVGYAGTGKSAMLG-VAREAWEAAGYEVRGAALSGIAAENLEG----GSGIA---- 413 (988)
T ss_pred cCCCCCHHHHHHHHHHhcCCCeEEEEeCCCCCHHHHHH-HHHHHHHHcCCeEEEecCcHHHHHHHhh----ccCcc----
Confidence 456788999999998877 4688999999999999754 3444333345689999999887755543 11111
Q ss_pred eEEEeecccccCCCceEEEeChHHHHHHHh-hCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCCC
Q 001046 600 VGYAIRFEDCTGPDTVIKYMTDGMLLREIL-IDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSATL 678 (1176)
Q Consensus 600 vGy~ir~~~~~~~~t~I~~~T~g~Llr~l~-~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSATl 678 (1176)
-.|-..|+.... ....+...++||||||- ++.+..+..+++.+. ..+.++|++-=+-
T Consensus 414 ------------------a~TI~sll~~~~~~~~~l~~~~vlIVDEAS--Mv~~~~m~~LL~~a~--~~garvVLVGD~~ 471 (988)
T PRK13889 414 ------------------SRTIASLEHGWGQGRDLLTSRDVLVIDEAG--MVGTRQLERVLSHAA--DAGAKVVLVGDPQ 471 (988)
T ss_pred ------------------hhhHHHHHhhhcccccccccCcEEEEECcc--cCCHHHHHHHHHhhh--hCCCEEEEECCHH
Confidence 012222222111 12246778999999996 677776666666543 3467888877553
No 254
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=97.67 E-value=0.00078 Score=79.93 Aligned_cols=168 Identities=18% Similarity=0.182 Sum_probs=100.9
Q ss_pred HcCCeEEEEcCCCCcHHHHHHHHHHHhcccC---CCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCC
Q 001046 537 HDNQVLVVIGETGSGKTTQVTQYLAEAGYTT---RGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPD 613 (1176)
Q Consensus 537 ~~~~~vIv~apTGSGKTt~~~~~lle~~~~~---~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~ 613 (1176)
..+.++.++||||+||||.+..+........ ...++..-..|+.+.++...+++.+|.++- +.
T Consensus 189 ~~g~vi~lvGpnG~GKTTtlakLA~~~~~~~~~~~v~~i~~d~~rigalEQL~~~a~ilGvp~~--~v------------ 254 (420)
T PRK14721 189 EQGGVYALIGPTGVGKTTTTAKLAARAVIRHGADKVALLTTDSYRIGGHEQLRIYGKLLGVSVR--SI------------ 254 (420)
T ss_pred CCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecCCcchhHHHHHHHHHHHcCCcee--cC------------
Confidence 5688999999999999999887665432221 223456667788888888878777765431 11
Q ss_pred ceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhC-CCccEEEEcCCCCHHHHH---hhhcC
Q 001046 614 TVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRR-PDLRLIVTSATLDAEKFS---GYFFN 689 (1176)
Q Consensus 614 t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r-~~~kvIlmSATl~~~~~~---~~f~~ 689 (1176)
-++.-+...+. .+.++++|+||.+- |......+...++.+.... +.-.++++|||...+.+. ..|..
T Consensus 255 -----~~~~dl~~al~---~l~~~d~VLIDTaG-rsqrd~~~~~~l~~l~~~~~~~~~~LVl~at~~~~~~~~~~~~f~~ 325 (420)
T PRK14721 255 -----KDIADLQLMLH---ELRGKHMVLIDTVG-MSQRDQMLAEQIAMLSQCGTQVKHLLLLNATSSGDTLDEVISAYQG 325 (420)
T ss_pred -----CCHHHHHHHHH---HhcCCCEEEecCCC-CCcchHHHHHHHHHHhccCCCceEEEEEcCCCCHHHHHHHHHHhcC
Confidence 12222222222 36788999999985 6655555666777665433 445678899998655444 34432
Q ss_pred CCeEecCCceeeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCH
Q 001046 690 CNIFTIPGRTFPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQ 741 (1176)
Q Consensus 690 ~~v~~i~gr~~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~ 741 (1176)
.++ -.+.+++..+.......+..+... .-++.-+.+|+
T Consensus 326 ~~~---------~~~I~TKlDEt~~~G~~l~~~~~~-----~lPi~yvt~Gq 363 (420)
T PRK14721 326 HGI---------HGCIITKVDEAASLGIALDAVIRR-----KLVLHYVTNGQ 363 (420)
T ss_pred CCC---------CEEEEEeeeCCCCccHHHHHHHHh-----CCCEEEEECCC
Confidence 221 124455544444555555544332 34555555554
No 255
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=97.65 E-value=8.8e-05 Score=88.31 Aligned_cols=64 Identities=19% Similarity=0.399 Sum_probs=52.5
Q ss_pred chHHHHHHHHHHHcC-CeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHH
Q 001046 525 IYKLKKELIQAVHDN-QVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVA 589 (1176)
Q Consensus 525 i~~~q~~ii~ai~~~-~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva 589 (1176)
+.+.|.+++.+..++ ...+|.||+|+|||+.+...+... ..++.+|+|+.|+.+++..+..|+.
T Consensus 186 ln~SQk~Av~~~~~~k~l~~I~GPPGTGKT~TlvEiI~ql-vk~~k~VLVcaPSn~AVdNiverl~ 250 (649)
T KOG1803|consen 186 LNSSQKAAVSFAINNKDLLIIHGPPGTGKTRTLVEIISQL-VKQKKRVLVCAPSNVAVDNIVERLT 250 (649)
T ss_pred ccHHHHHHHHHHhccCCceEeeCCCCCCceeeHHHHHHHH-HHcCCeEEEEcCchHHHHHHHHHhc
Confidence 456688888888777 577889999999998888877765 4557899999999999999888754
No 256
>PRK14974 cell division protein FtsY; Provisional
Probab=97.63 E-value=0.00038 Score=80.48 Aligned_cols=122 Identities=23% Similarity=0.314 Sum_probs=75.2
Q ss_pred CCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEe--ccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCceE
Q 001046 539 NQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCT--QPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTVI 616 (1176)
Q Consensus 539 ~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~--~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t~I 616 (1176)
..+++++|++|+||||.+..++... ...+.+++++ -+.|..|....+..+..+|.++.. + . ...
T Consensus 140 ~~vi~~~G~~GvGKTTtiakLA~~l-~~~g~~V~li~~Dt~R~~a~eqL~~~a~~lgv~v~~--~-----~--~g~---- 205 (336)
T PRK14974 140 PVVIVFVGVNGTGKTTTIAKLAYYL-KKNGFSVVIAAGDTFRAGAIEQLEEHAERLGVKVIK--H-----K--YGA---- 205 (336)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHH-HHcCCeEEEecCCcCcHHHHHHHHHHHHHcCCceec--c-----c--CCC----
Confidence 4688999999999999877765432 2233455443 356787877777777777764311 0 0 000
Q ss_pred EEeCh-HHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHh-hCCCccEEEEcCCCC
Q 001046 617 KYMTD-GMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVK-RRPDLRLIVTSATLD 679 (1176)
Q Consensus 617 ~~~T~-g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~-~r~~~kvIlmSATl~ 679 (1176)
.+ .++.+.+. .....++++||||.++ |......++.-|+.+.. ..|+..+++++||..
T Consensus 206 ---dp~~v~~~ai~-~~~~~~~DvVLIDTaG-r~~~~~~lm~eL~~i~~~~~pd~~iLVl~a~~g 265 (336)
T PRK14974 206 ---DPAAVAYDAIE-HAKARGIDVVLIDTAG-RMHTDANLMDELKKIVRVTKPDLVIFVGDALAG 265 (336)
T ss_pred ---CHHHHHHHHHH-HHHhCCCCEEEEECCC-ccCCcHHHHHHHHHHHHhhCCceEEEeeccccc
Confidence 11 11112111 1123568999999998 66544445555666554 568899999999984
No 257
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=97.61 E-value=0.0013 Score=86.21 Aligned_cols=129 Identities=17% Similarity=0.081 Sum_probs=81.6
Q ss_pred CeEEEEcCCCCcHHHHHHHHHHHh-cccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeeccc-------ccC
Q 001046 540 QVLVVIGETGSGKTTQVTQYLAEA-GYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFED-------CTG 611 (1176)
Q Consensus 540 ~~vIv~apTGSGKTt~~~~~lle~-~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~-------~~~ 611 (1176)
+.-+|.=-||||||..+..+.... .......|++++-|+.|-.|+...+...-.+.. . ++ +.++ ...
T Consensus 274 ~~G~IWHtqGSGKTlTm~~~A~~l~~~~~~~~v~fvvDR~dLd~Q~~~~f~~~~~~~~-~-~~---~~~s~~~Lk~~l~~ 348 (962)
T COG0610 274 KGGYIWHTQGSGKTLTMFKLARLLLELPKNPKVLFVVDRKDLDDQTSDEFQSFGKVAF-N-DP---KAESTSELKELLED 348 (962)
T ss_pred CceEEEeecCCchHHHHHHHHHHHHhccCCCeEEEEechHHHHHHHHHHHHHHHHhhh-h-cc---cccCHHHHHHHHhc
Confidence 468999999999996544332221 124466899999999999999987755332111 1 00 1111 111
Q ss_pred CCceEEEeChHHHHHHHhhCC---CCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCCC
Q 001046 612 PDTVIKYMTDGMLLREILIDD---NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSATL 678 (1176)
Q Consensus 612 ~~t~I~~~T~g~Llr~l~~~~---~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSATl 678 (1176)
....|+++|-.-+-....... .-.+==+||+|||| |+..... -..++. ..++...+++|.|+
T Consensus 349 ~~~~ii~TTIQKf~~~~~~~~~~~~~~~~ivvI~DEaH-RSQ~G~~-~~~~~~---~~~~a~~~gFTGTP 413 (962)
T COG0610 349 GKGKIIVTTIQKFNKAVKEDELELLKRKNVVVIIDEAH-RSQYGEL-AKLLKK---ALKKAIFIGFTGTP 413 (962)
T ss_pred CCCcEEEEEecccchhhhcccccccCCCcEEEEEechh-hccccHH-HHHHHH---HhccceEEEeeCCc
Confidence 245899999877766554431 12223478999999 8877653 333333 34568999999999
No 258
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=97.60 E-value=0.0009 Score=84.15 Aligned_cols=124 Identities=19% Similarity=0.255 Sum_probs=85.5
Q ss_pred cCCeEEEEcCCCCcHHHHHHHHHHHhcccCC-CEEEE--eccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCc
Q 001046 538 DNQVLVVIGETGSGKTTQVTQYLAEAGYTTR-GKIGC--TQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDT 614 (1176)
Q Consensus 538 ~~~~vIv~apTGSGKTt~~~~~lle~~~~~~-~~Ilv--~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t 614 (1176)
.++++.++||||+||||.+...........+ .+|.+ +-+.|+.+.++.+.+++.+|.++-
T Consensus 184 ~g~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~gvpv~----------------- 246 (767)
T PRK14723 184 QGGVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYGRILGVPVH----------------- 246 (767)
T ss_pred CCeEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHHHHhCCCCcc-----------------
Confidence 4678999999999999998887765433333 25433 346788888888878777765431
Q ss_pred eEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHh-hCCCccEEEEcCCCCHHHHH
Q 001046 615 VIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVK-RRPDLRLIVTSATLDAEKFS 684 (1176)
Q Consensus 615 ~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~-~r~~~kvIlmSATl~~~~~~ 684 (1176)
.+.++..+...+. .+.++++||||=+- |+....-+...+..+.. ..|.-.++++|||...+.+.
T Consensus 247 --~~~~~~~l~~al~---~~~~~D~VLIDTAG-Rs~~d~~l~eel~~l~~~~~p~e~~LVLsAt~~~~~l~ 311 (767)
T PRK14723 247 --AVKDAADLRFALA---ALGDKHLVLIDTVG-MSQRDRNVSEQIAMLCGVGRPVRRLLLLNAASHGDTLN 311 (767)
T ss_pred --ccCCHHHHHHHHH---HhcCCCEEEEeCCC-CCccCHHHHHHHHHHhccCCCCeEEEEECCCCcHHHHH
Confidence 1125555544443 36688999999998 66655556677766653 45777899999999755444
No 259
>KOG0392 consensus SNF2 family DNA-dependent ATPase domain-containing protein [Transcription]
Probab=97.60 E-value=0.0031 Score=80.17 Aligned_cols=113 Identities=21% Similarity=0.362 Sum_probs=83.2
Q ss_pred CCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCC-CceEE-EEcchhhhccCCCCe
Q 001046 732 GDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPG-KRKVV-VATNIAEASLTIDGI 809 (1176)
Q Consensus 732 g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g-~~kVl-VATniae~GIdIp~V 809 (1176)
..+||||.=+..++-+-+-|.+. ..+.+..+-+.|+.++..|.++.+.|.++ .+.|+ ++|-+-+-|+|+-|.
T Consensus 1341 HRiLIFcQlK~mlDlVekDL~k~------~mpsVtymRLDGSVpp~~R~kiV~~FN~DptIDvLlLTThVGGLGLNLTGA 1414 (1549)
T KOG0392|consen 1341 HRILIFCQLKSMLDLVEKDLFKK------YMPSVTYMRLDGSVPPGDRQKIVERFNEDPTIDVLLLTTHVGGLGLNLTGA 1414 (1549)
T ss_pred ceeEEeeeHHHHHHHHHHHHhhh------hcCceeEEEecCCCCcHHHHHHHHHhcCCCceeEEEEeeeccccccccCCC
Confidence 47999999888887777666543 23567778899999999999999999988 67665 677899999999999
Q ss_pred eEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC---CcEEEEecChHHHhh
Q 001046 810 FYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG---PGKCYRLYTESAYRN 868 (1176)
Q Consensus 810 ~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g---~G~c~~L~t~~~~~~ 868 (1176)
+.||-.. -=|| |.-- .|-.-||-|-| -=-+|||.++...+.
T Consensus 1415 DTVVFvE----HDWN-----------PMrD---LQAMDRAHRIGQKrvVNVyRlItrGTLEE 1458 (1549)
T KOG0392|consen 1415 DTVVFVE----HDWN-----------PMRD---LQAMDRAHRIGQKRVVNVYRLITRGTLEE 1458 (1549)
T ss_pred ceEEEEe----cCCC-----------chhh---HHHHHHHHhhcCceeeeeeeehhcccHHH
Confidence 9999211 1122 2222 45555565555 455899999876653
No 260
>TIGR01447 recD exodeoxyribonuclease V, alpha subunit. This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.
Probab=97.59 E-value=0.00041 Score=86.13 Aligned_cols=135 Identities=21% Similarity=0.254 Sum_probs=80.1
Q ss_pred HHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHh--cccC--CCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEE
Q 001046 527 KLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEA--GYTT--RGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGY 602 (1176)
Q Consensus 527 ~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~--~~~~--~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy 602 (1176)
.+|..++..+..++.++|+|++|+||||.+...+... .... ..+|+++.||--+|..+.+.+..... .++..
T Consensus 148 ~~Qk~A~~~al~~~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~~~~~~-~l~~~--- 223 (586)
T TIGR01447 148 NWQKVAVALALKSNFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESLRKAVK-NLAAA--- 223 (586)
T ss_pred HHHHHHHHHHhhCCeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHHHhhhc-ccccc---
Confidence 5788889999999999999999999999877665431 1111 24799999999998887776644321 11100
Q ss_pred EeecccccCCCceEEEeChHHHHHHHh-------hCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEc
Q 001046 603 AIRFEDCTGPDTVIKYMTDGMLLREIL-------IDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTS 675 (1176)
Q Consensus 603 ~ir~~~~~~~~t~I~~~T~g~Llr~l~-------~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmS 675 (1176)
........+...|-..||.... .......+++||||||- +++...+..+++. ..+..++|++-
T Consensus 224 -----~~~~~~~~~~a~TiHrlLg~~~~~~~~~~~~~~~l~~dvlIiDEaS--Mvd~~l~~~ll~a---l~~~~rlIlvG 293 (586)
T TIGR01447 224 -----EALIAALPSEAVTIHRLLGIKPDTKRFRHHERNPLPLDVLVVDEAS--MVDLPLMAKLLKA---LPPNTKLILLG 293 (586)
T ss_pred -----hhhhhccccccchhhhhhcccCCcchhhhcccCCCcccEEEEcccc--cCCHHHHHHHHHh---cCCCCEEEEEC
Confidence 0000000111223222322111 01123468999999994 5666665555553 24566777653
No 261
>PHA02858 EIF2a-like PKR inhibitor; Provisional
Probab=97.55 E-value=0.00019 Score=63.91 Aligned_cols=70 Identities=21% Similarity=0.289 Sum_probs=63.0
Q ss_pred CCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeee-cccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEEE
Q 001046 220 EPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVH-VSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSM 292 (1176)
Q Consensus 220 ~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvh-isels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~ 292 (1176)
-|++|+++. .|..|.+.|++|.|-++. .+|++. .+|++.+++.+.++.+ +|-.+.|+|+.+| ++-|.||.
T Consensus 13 ~P~v~dvv~-~Vv~i~d~~~YV~LleY~-iegmIl~~selsr~rirsi~kll-VGk~e~v~ViRVDk~KGYIDLs~ 85 (86)
T PHA02858 13 FPNINEVTK-GIVFVKDNIFYVKLIDYG-LEALIVNYVNVNADRAEKLKKKL-VGKTINVQVIRTDKLKGYIDVRH 85 (86)
T ss_pred cCCCCeEEE-EEEEEeccEEEEEEecCc-cceEEecHHHHhHHHHHhhhhhh-cCCeeEEEEEEECCCCCEEEeEc
Confidence 478999999 788999999999999985 899988 9999999999999999 9999999999999 45677763
No 262
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=97.52 E-value=0.0024 Score=71.70 Aligned_cols=169 Identities=19% Similarity=0.253 Sum_probs=90.9
Q ss_pred cCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEE--EEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCce
Q 001046 538 DNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKI--GCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTV 615 (1176)
Q Consensus 538 ~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~I--lv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t~ 615 (1176)
.+..+.++|++|+||||.+........ ..+.++ +.+-+.|+.+.+..+..+..++.++
T Consensus 74 ~~~~i~~~G~~g~GKTtl~~~l~~~l~-~~~~~v~~i~~D~~ri~~~~ql~~~~~~~~~~~------------------- 133 (270)
T PRK06731 74 EVQTIALIGPTGVGKTTTLAKMAWQFH-GKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEV------------------- 133 (270)
T ss_pred CCCEEEEECCCCCcHHHHHHHHHHHHH-HcCCeEEEEecCCCCHHHHHHHHHHhhhcCceE-------------------
Confidence 457999999999999998776655432 223333 4444667665555444444443221
Q ss_pred EEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHh-hCCCccEEEEcCCCCHH---HHHhhhcCCC
Q 001046 616 IKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVK-RRPDLRLIVTSATLDAE---KFSGYFFNCN 691 (1176)
Q Consensus 616 I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~-~r~~~kvIlmSATl~~~---~~~~~f~~~~ 691 (1176)
+...++.-+...+..-....++++||||.+- |.....-++..+..+.. ..|+..++++|||...+ .+...|...+
T Consensus 134 ~~~~~~~~l~~~l~~l~~~~~~D~ViIDt~G-r~~~~~~~l~el~~~~~~~~~~~~~LVl~a~~~~~d~~~~~~~f~~~~ 212 (270)
T PRK06731 134 IAVRDEAAMTRALTYFKEEARVDYILIDTAG-KNYRASETVEEMIETMGQVEPDYICLTLSASMKSKDMIEIITNFKDIH 212 (270)
T ss_pred EecCCHHHHHHHHHHHHhcCCCCEEEEECCC-CCcCCHHHHHHHHHHHhhhCCCeEEEEEcCccCHHHHHHHHHHhCCCC
Confidence 0011344443333211123578999999997 55544444444444443 45777788999998543 4444443211
Q ss_pred eEecCCceeeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCH
Q 001046 692 IFTIPGRTFPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQ 741 (1176)
Q Consensus 692 v~~i~gr~~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~ 741 (1176)
+ -.+.+++..+.......+...... +-+|.-+.+|+
T Consensus 213 ---~------~~~I~TKlDet~~~G~~l~~~~~~-----~~Pi~~it~Gq 248 (270)
T PRK06731 213 ---I------DGIVFTKFDETASSGELLKIPAVS-----SAPIVLMTDGQ 248 (270)
T ss_pred ---C------CEEEEEeecCCCCccHHHHHHHHH-----CcCEEEEeCCC
Confidence 1 224455544444444444444332 33455555543
No 263
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=97.52 E-value=6.4e-05 Score=93.72 Aligned_cols=213 Identities=17% Similarity=0.185 Sum_probs=131.1
Q ss_pred CCeEEEEcCCCCcHHHHHHHHHHHhcc-cCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEE---eecccccCCCc
Q 001046 539 NQVLVVIGETGSGKTTQVTQYLAEAGY-TTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYA---IRFEDCTGPDT 614 (1176)
Q Consensus 539 ~~~vIv~apTGSGKTt~~~~~lle~~~-~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~---ir~~~~~~~~t 614 (1176)
+.++++-+|||+|||..+...+..... ...++++++.|-.++..+.+.+....+-.+ |..++-. +.-+-..-..+
T Consensus 943 d~~~~~g~ptgsgkt~~ae~a~~~~~~~~p~~kvvyIap~kalvker~~Dw~~r~~~~-g~k~ie~tgd~~pd~~~v~~~ 1021 (1230)
T KOG0952|consen 943 DLNFLLGAPTGSGKTVVAELAIFRALSYYPGSKVVYIAPDKALVKERSDDWSKRDELP-GIKVIELTGDVTPDVKAVREA 1021 (1230)
T ss_pred chhhhhcCCccCcchhHHHHHHHHHhccCCCccEEEEcCCchhhcccccchhhhcccC-CceeEeccCccCCChhheecC
Confidence 456778899999999988887766433 335699999999999998888776655444 4444311 11111222467
Q ss_pred eEEEeChHHHH---HHHhhCCCCCCCceEEEcCCCcCCCc----hhHHHHHHHHH-HhhCCCccEEEEcCCC-CHHHHHh
Q 001046 615 VIKYMTDGMLL---REILIDDNLSQYSVIMLDEAHERTIH----TDVLFGLLKQL-VKRRPDLRLIVTSATL-DAEKFSG 685 (1176)
Q Consensus 615 ~I~~~T~g~Ll---r~l~~~~~L~~~s~IIiDEaHeR~~~----~d~ll~llk~~-~~~r~~~kvIlmSATl-~~~~~~~ 685 (1176)
.|+++|+...- |.......+.+++.+|+||.|.-+-. ..........+ ....+.++++++|--+ ++..+++
T Consensus 1022 ~~~ittpek~dgi~Rsw~~r~~v~~v~~iv~de~hllg~~rgPVle~ivsr~n~~s~~t~~~vr~~glsta~~na~dla~ 1101 (1230)
T KOG0952|consen 1022 DIVITTPEKWDGISRSWQTRKYVQSVSLIVLDEIHLLGEDRGPVLEVIVSRMNYISSQTEEPVRYLGLSTALANANDLAD 1101 (1230)
T ss_pred ceEEcccccccCccccccchhhhccccceeecccccccCCCcceEEEEeeccccCccccCcchhhhhHhhhhhccHHHHH
Confidence 89999986543 33333446889999999999953322 22211111110 1123456777766554 7899999
Q ss_pred hhcCCCe--EecCCceeeeEEEEecCCCchhHHHHH---H-HHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHH
Q 001046 686 YFFNCNI--FTIPGRTFPVEILYTKQPESDYLDASL---I-TVLQIHLTEPEGDILLFLTGQEEIDFACQSLY 752 (1176)
Q Consensus 686 ~f~~~~v--~~i~gr~~pv~~~~~~~~~~~~~~~~l---~-~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~ 752 (1176)
|++-.+. +.-.-+..|.++++...|...|..... . ....+....|..++|||+.++......+..|.
T Consensus 1102 wl~~~~~~nf~~svrpvp~~~~i~gfp~~~~cprm~smnkpa~qaik~~sp~~p~lifv~srrqtrlta~~li 1174 (1230)
T KOG0952|consen 1102 WLNIKDMYNFRPSVRPVPLEVHIDGFPGQHYCPRMMSMNKPAFQAIKTHSPIKPVLIFVSSRRQTRLTALDLI 1174 (1230)
T ss_pred HhCCCCcCCCCcccccCCceEeecCCCchhcchhhhhcccHHHHHHhcCCCCCceEEEeecccccccchHhHH
Confidence 9976555 333446667777777766633322211 1 12223344567899999999886655554443
No 264
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=97.51 E-value=0.00071 Score=86.38 Aligned_cols=127 Identities=20% Similarity=0.204 Sum_probs=81.1
Q ss_pred HhcCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCC--CEEEEeccHHHHHHHHHHHHHHHhCCccC
Q 001046 520 RQSLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTR--GKIGCTQPRRVAAMSVAKRVAEEFGCRLG 597 (1176)
Q Consensus 520 r~~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~--~~Ilv~~PrR~lA~qva~rva~e~g~~~G 597 (1176)
.....+...|.+++..+..++.++|.|++|+||||.+-..+... ...+ ..|+++.||--+|..+.+ ..|...
T Consensus 319 ~~~~~l~~~Q~~Ai~~~~~~~~~iitGgpGTGKTt~l~~i~~~~-~~~~~~~~v~l~ApTg~AA~~L~e----~~g~~a- 392 (720)
T TIGR01448 319 KLRKGLSEEQKQALDTAIQHKVVILTGGPGTGKTTITRAIIELA-EELGGLLPVGLAAPTGRAAKRLGE----VTGLTA- 392 (720)
T ss_pred hcCCCCCHHHHHHHHHHHhCCeEEEECCCCCCHHHHHHHHHHHH-HHcCCCceEEEEeCchHHHHHHHH----hcCCcc-
Confidence 34567889999999999999999999999999999876544322 1223 478899999888864433 333210
Q ss_pred CeeEEEeecccccCCCceEEEeChHHHHHHHh------hCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccE
Q 001046 598 EEVGYAIRFEDCTGPDTVIKYMTDGMLLREIL------IDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRL 671 (1176)
Q Consensus 598 ~~vGy~ir~~~~~~~~t~I~~~T~g~Llr~l~------~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kv 671 (1176)
.|-..++.... ........++||||||+ +++...+..+++. ..++.++
T Consensus 393 ---------------------~Tih~lL~~~~~~~~~~~~~~~~~~~llIvDEaS--Mvd~~~~~~Ll~~---~~~~~rl 446 (720)
T TIGR01448 393 ---------------------STIHRLLGYGPDTFRHNHLEDPIDCDLLIVDESS--MMDTWLALSLLAA---LPDHARL 446 (720)
T ss_pred ---------------------ccHHHHhhccCCccchhhhhccccCCEEEEeccc--cCCHHHHHHHHHh---CCCCCEE
Confidence 11112211100 00123457899999998 4666666555553 3457788
Q ss_pred EEEcCCC
Q 001046 672 IVTSATL 678 (1176)
Q Consensus 672 IlmSATl 678 (1176)
|++--+-
T Consensus 447 ilvGD~~ 453 (720)
T TIGR01448 447 LLVGDTD 453 (720)
T ss_pred EEECccc
Confidence 8876543
No 265
>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli [].; GO: 0005524 ATP binding; PDB: 3B85_A.
Probab=97.50 E-value=0.00033 Score=75.18 Aligned_cols=57 Identities=26% Similarity=0.242 Sum_probs=40.0
Q ss_pred CCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhccc-CCCEEEEeccHHH
Q 001046 523 LPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYT-TRGKIGCTQPRRV 579 (1176)
Q Consensus 523 LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~-~~~~Ilv~~PrR~ 579 (1176)
-|....|..+++++.+.+.+++.||.|||||+.+....++.... ...+|+++-|...
T Consensus 3 ~p~~~~Q~~~~~al~~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~ 60 (205)
T PF02562_consen 3 KPKNEEQKFALDALLNNDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVE 60 (205)
T ss_dssp ---SHHHHHHHHHHHH-SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--
T ss_pred cCCCHHHHHHHHHHHhCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCC
Confidence 36778899999999999999999999999998888877775433 2348999988653
No 266
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=97.46 E-value=0.00062 Score=84.75 Aligned_cols=136 Identities=22% Similarity=0.231 Sum_probs=81.2
Q ss_pred HHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhc---ccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEE
Q 001046 527 KLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAG---YTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYA 603 (1176)
Q Consensus 527 ~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~---~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ 603 (1176)
.+|.+++.....++.++|.|++|+||||.+...+.... ......|+++.||.-+|..+.+.+..... .++.
T Consensus 155 d~Qk~Av~~a~~~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~~~~-~~~~----- 228 (615)
T PRK10875 155 DWQKVAAAVALTRRISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLGKALR-QLPL----- 228 (615)
T ss_pred HHHHHHHHHHhcCCeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHHhhhh-cccc-----
Confidence 67888998889999999999999999998776654321 11234799999999998888876654321 1110
Q ss_pred eecccccCCCceEEEeChHHHHHHHh-------hCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcC
Q 001046 604 IRFEDCTGPDTVIKYMTDGMLLREIL-------IDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSA 676 (1176)
Q Consensus 604 ir~~~~~~~~t~I~~~T~g~Llr~l~-------~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSA 676 (1176)
.+...........|-..||.... .....-.+++||||||- +++...+..+++. ..++.++|++-=
T Consensus 229 ---~~~~~~~~~~~a~TiHrlLg~~~~~~~~~~~~~~~l~~dvlIvDEaS--Mvd~~lm~~ll~a---l~~~~rlIlvGD 300 (615)
T PRK10875 229 ---TDEQKKRIPEEASTLHRLLGAQPGSQRLRYHAGNPLHLDVLVVDEAS--MVDLPMMARLIDA---LPPHARVIFLGD 300 (615)
T ss_pred ---chhhhhcCCCchHHHHHHhCcCCCccchhhccccCCCCCeEEEChHh--cccHHHHHHHHHh---cccCCEEEEecc
Confidence 00000000001122222221110 01123456899999995 5666666555554 345678877653
No 267
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=97.43 E-value=0.0028 Score=76.48 Aligned_cols=124 Identities=18% Similarity=0.237 Sum_probs=76.6
Q ss_pred cCCeEEEEcCCCCcHHHHHHHHHHHhcccCCC-EE--EEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCc
Q 001046 538 DNQVLVVIGETGSGKTTQVTQYLAEAGYTTRG-KI--GCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDT 614 (1176)
Q Consensus 538 ~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~-~I--lv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t 614 (1176)
.++++.++||||+||||.+..+........+. +| +..-+.|+.|.+..+.+++.+|..+. +.
T Consensus 255 ~g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~Dt~RigA~EQLr~~AeilGVpv~--~~------------- 319 (484)
T PRK06995 255 RGGVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLTTDSYRIGGHEQLRIYGKILGVPVH--AV------------- 319 (484)
T ss_pred CCcEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEeCCccchhHHHHHHHHHHHhCCCee--cc-------------
Confidence 46799999999999999988877654333332 34 44567789998888888888764321 00
Q ss_pred eEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhh-CCCccEEEEcCCCCHHHHH
Q 001046 615 VIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKR-RPDLRLIVTSATLDAEKFS 684 (1176)
Q Consensus 615 ~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~-r~~~kvIlmSATl~~~~~~ 684 (1176)
.+..-+...+ ..+.++.+++||.+- |+.....+...+..+... .|.-.+++++||.....+.
T Consensus 320 ----~~~~Dl~~aL---~~L~d~d~VLIDTaG-r~~~d~~~~e~~~~l~~~~~p~e~~LVLdAt~~~~~l~ 382 (484)
T PRK06995 320 ----KDAADLRLAL---SELRNKHIVLIDTIG-MSQRDRMVSEQIAMLHGAGAPVKRLLLLNATSHGDTLN 382 (484)
T ss_pred ----CCchhHHHHH---HhccCCCeEEeCCCC-cChhhHHHHHHHHHHhccCCCCeeEEEEeCCCcHHHHH
Confidence 0111122222 246788999999986 554333333333333222 1444789999999655443
No 268
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=97.43 E-value=0.014 Score=76.54 Aligned_cols=126 Identities=22% Similarity=0.215 Sum_probs=84.3
Q ss_pred cCCchHHHHHHHHHHH-cCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCee
Q 001046 522 SLPIYKLKKELIQAVH-DNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEV 600 (1176)
Q Consensus 522 ~LPi~~~q~~ii~ai~-~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~v 600 (1176)
...+.+-|.+++..+. .+++++|+|+.|+||||.+-... +..-..+.+|+.+.|+--+|..+.+ ..|...
T Consensus 379 ~~~Ls~eQ~~Av~~i~~~~r~~~v~G~AGTGKTt~l~~~~-~~~e~~G~~V~g~ApTgkAA~~L~e----~~Gi~a---- 449 (1102)
T PRK13826 379 HARLSDEQKTAIEHVAGPARIAAVVGRAGAGKTTMMKAAR-EAWEAAGYRVVGGALAGKAAEGLEK----EAGIQS---- 449 (1102)
T ss_pred CCCCCHHHHHHHHHHhccCCeEEEEeCCCCCHHHHHHHHH-HHHHHcCCeEEEEcCcHHHHHHHHH----hhCCCe----
Confidence 4678899999999874 57899999999999998877643 3222345689999999887765543 333221
Q ss_pred EEEeecccccCCCceEEEeChHHH-HHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCCC
Q 001046 601 GYAIRFEDCTGPDTVIKYMTDGML-LREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSATL 678 (1176)
Q Consensus 601 Gy~ir~~~~~~~~t~I~~~T~g~L-lr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSATl 678 (1176)
.|-..+ ++.-.....+...++||||||. ++.+..+..+++.+.. .+.++|++.=+-
T Consensus 450 ------------------~TIas~ll~~~~~~~~l~~~~vlVIDEAs--Mv~~~~m~~Ll~~~~~--~garvVLVGD~~ 506 (1102)
T PRK13826 450 ------------------RTLSSWELRWNQGRDQLDNKTVFVLDEAG--MVASRQMALFVEAVTR--AGAKLVLVGDPE 506 (1102)
T ss_pred ------------------eeHHHHHhhhccCccCCCCCcEEEEECcc--cCCHHHHHHHHHHHHh--cCCEEEEECCHH
Confidence 122222 1211112356778899999997 6777777777766532 467888877553
No 269
>PRK10536 hypothetical protein; Provisional
Probab=97.39 E-value=0.0006 Score=75.21 Aligned_cols=58 Identities=26% Similarity=0.280 Sum_probs=46.1
Q ss_pred cCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccC-CCEEEEeccHHH
Q 001046 522 SLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTT-RGKIGCTQPRRV 579 (1176)
Q Consensus 522 ~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~-~~~Ilv~~PrR~ 579 (1176)
.-|....|..++.++.++..+++.||+|||||+.+..+.++..... -.+|+++-|...
T Consensus 57 i~p~n~~Q~~~l~al~~~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~v~ 115 (262)
T PRK10536 57 ILARNEAQAHYLKAIESKQLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVLQ 115 (262)
T ss_pred ccCCCHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCCCC
Confidence 4577888999999999999999999999999998888777653232 346788877653
No 270
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=97.38 E-value=0.0013 Score=65.40 Aligned_cols=47 Identities=21% Similarity=0.193 Sum_probs=30.3
Q ss_pred HHHHHHHHc--CCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccH
Q 001046 530 KELIQAVHD--NQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPR 577 (1176)
Q Consensus 530 ~~ii~ai~~--~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~Pr 577 (1176)
.++...+.. ++.++|.||+|+|||+.+-..+.... ..+..++++...
T Consensus 8 ~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~-~~~~~v~~~~~~ 56 (151)
T cd00009 8 EALREALELPPPKNLLLYGPPGTGKTTLARAIANELF-RPGAPFLYLNAS 56 (151)
T ss_pred HHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhh-cCCCCeEEEehh
Confidence 344455555 78999999999999986666554432 223455555443
No 271
>PRK06526 transposase; Provisional
Probab=97.37 E-value=0.0011 Score=74.06 Aligned_cols=38 Identities=21% Similarity=0.263 Sum_probs=26.9
Q ss_pred HHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEe
Q 001046 536 VHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCT 574 (1176)
Q Consensus 536 i~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~ 574 (1176)
+..+++++++||+|+|||+.+.....+.. ..+.+++++
T Consensus 95 i~~~~nlll~Gp~GtGKThLa~al~~~a~-~~g~~v~f~ 132 (254)
T PRK06526 95 VTGKENVVFLGPPGTGKTHLAIGLGIRAC-QAGHRVLFA 132 (254)
T ss_pred hhcCceEEEEeCCCCchHHHHHHHHHHHH-HCCCchhhh
Confidence 56788999999999999987776555432 233455553
No 272
>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function. It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].
Probab=97.36 E-value=0.00056 Score=80.32 Aligned_cols=91 Identities=19% Similarity=0.271 Sum_probs=59.1
Q ss_pred CeEEEEcCCCCcHHHHHHHHHHHh-cccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCceEEE
Q 001046 540 QVLVVIGETGSGKTTQVTQYLAEA-GYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTVIKY 618 (1176)
Q Consensus 540 ~~vIv~apTGSGKTt~~~~~lle~-~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t~I~~ 618 (1176)
++++|.|.+|||||..+...+.+. ....+..++++.+...+...+...++.... .......+
T Consensus 2 ~v~~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~~n~~l~~~l~~~l~~~~~-----------------~~~~~~~~ 64 (352)
T PF09848_consen 2 QVILITGGAGTGKTVLALNLAKELQNSEEGKKVLYLCGNHPLRNKLREQLAKKYN-----------------PKLKKSDF 64 (352)
T ss_pred eEEEEEecCCcCHHHHHHHHHHHhhccccCCceEEEEecchHHHHHHHHHhhhcc-----------------cchhhhhh
Confidence 578999999999998888776664 133456788888888888877776655430 00111122
Q ss_pred eChHHHHHHHh-hCCCCCCCceEEEcCCCc
Q 001046 619 MTDGMLLREIL-IDDNLSQYSVIMLDEAHE 647 (1176)
Q Consensus 619 ~T~g~Llr~l~-~~~~L~~~s~IIiDEaHe 647 (1176)
..+..+...+. .......+++|||||||.
T Consensus 65 ~~~~~~i~~~~~~~~~~~~~DviivDEAqr 94 (352)
T PF09848_consen 65 RKPTSFINNYSESDKEKNKYDVIIVDEAQR 94 (352)
T ss_pred hhhHHHHhhcccccccCCcCCEEEEehhHh
Confidence 23333333222 334678999999999993
No 273
>TIGR00757 RNaseEG ribonuclease, Rne/Rng family. The C-terminal half of RNase E (excluded from the seed alignment for this model) lacks ribonuclease activity but participates in mRNA degradation by organizing the degradosome.
Probab=97.28 E-value=0.00046 Score=81.89 Aligned_cols=62 Identities=27% Similarity=0.498 Sum_probs=52.8
Q ss_pred CCCCCCCEEEEEEEEEeec--eeEEEeCCCCCeeeeeeccccccc------------ccCCcccccCCCCEEEEEEEE
Q 001046 219 NEPELYQVYKGRVSRVVDT--GCFVQLNDFRGKEGLVHVSQIATR------------RIGNAKDVVKRDQEVYVKVIS 282 (1176)
Q Consensus 219 ~~~~~g~~~~g~V~~i~~~--G~fV~l~~~~~~eGlvhisels~~------------~~~~~~~~~~~Gd~V~VkV~~ 282 (1176)
....+|++|.|+|++|.++ |+||+++. +..||+|++++.+. +..++.+.+++||.|.|+|.+
T Consensus 21 ~~~~vGnIY~GrV~~i~p~l~aAFVdiG~--~k~gfL~~~d~~~~~~~~~~~~~~~~~~~~i~~~l~~G~~IlVQV~K 96 (414)
T TIGR00757 21 SRQLKGNIYKGRVTRILPSLQAAFVDIGL--EKNGFLHASDIGPNYECLAPAEAKREAGPSISELLRPGQSVLVQVVK 96 (414)
T ss_pred CcCCCCCEEEEEEeeecCCCceEEEEcCC--CceEEEEHHHcCchhhccccccccccccCCHHHhCcCCCEEEEEEee
Confidence 3567899999999999999 99999986 78999999998653 233566789999999999988
No 274
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=97.26 E-value=0.00063 Score=74.20 Aligned_cols=66 Identities=23% Similarity=0.344 Sum_probs=53.1
Q ss_pred chHHHHHHHHHHHcCCe-EEEEcCCCCcHHHHHHHHHHHh-------cccCCCEEEEeccHHHHHHHHHHHHHH
Q 001046 525 IYKLKKELIQAVHDNQV-LVVIGETGSGKTTQVTQYLAEA-------GYTTRGKIGCTQPRRVAAMSVAKRVAE 590 (1176)
Q Consensus 525 i~~~q~~ii~ai~~~~~-vIv~apTGSGKTt~~~~~lle~-------~~~~~~~Ilv~~PrR~lA~qva~rva~ 590 (1176)
+.+.|.+++..+..... .+|.||+|+|||+.+...+... ....+.+|+++.|+..++..+..++.+
T Consensus 2 ln~~Q~~Ai~~~~~~~~~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~ 75 (236)
T PF13086_consen 2 LNESQREAIQSALSSNGITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK 75 (236)
T ss_dssp --HHHHHHHHHHCTSSE-EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred CCHHHHHHHHHHHcCCCCEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence 35679999999988887 9999999999998888777665 145567999999999999999998866
No 275
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=97.25 E-value=0.0033 Score=72.46 Aligned_cols=124 Identities=23% Similarity=0.290 Sum_probs=75.4
Q ss_pred cCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEE--eccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCce
Q 001046 538 DNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGC--TQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTV 615 (1176)
Q Consensus 538 ~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv--~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t~ 615 (1176)
.++++.++||+|+||||.+........ ..+++|++ .-+.|..|.+.....+...+.. +... .. ..
T Consensus 113 ~~~vi~lvGpnGsGKTTt~~kLA~~l~-~~g~~V~Li~~D~~r~~a~eql~~~a~~~~i~------~~~~-~~--~~--- 179 (318)
T PRK10416 113 KPFVILVVGVNGVGKTTTIGKLAHKYK-AQGKKVLLAAGDTFRAAAIEQLQVWGERVGVP------VIAQ-KE--GA--- 179 (318)
T ss_pred CCeEEEEECCCCCcHHHHHHHHHHHHH-hcCCeEEEEecCccchhhHHHHHHHHHHcCce------EEEe-CC--CC---
Confidence 467899999999999998877665532 33455543 3456877776666666655432 1110 00 00
Q ss_pred EEEeChHHH-HHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHh-------hCCCccEEEEcCCCCH
Q 001046 616 IKYMTDGML-LREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVK-------RRPDLRLIVTSATLDA 680 (1176)
Q Consensus 616 I~~~T~g~L-lr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~-------~r~~~kvIlmSATl~~ 680 (1176)
.+... ...+ ......+|++||||=+. |....+.++..|+.+.. ..|+-.+++++||...
T Consensus 180 ----dpa~~v~~~l-~~~~~~~~D~ViIDTaG-r~~~~~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~g~ 246 (318)
T PRK10416 180 ----DPASVAFDAI-QAAKARGIDVLIIDTAG-RLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATTGQ 246 (318)
T ss_pred ----CHHHHHHHHH-HHHHhCCCCEEEEeCCC-CCcCCHHHHHHHHHHHHHHhhhcCCCCceEEEEEECCCCh
Confidence 11111 1111 11134789999999998 66666666666665543 2466789999999854
No 276
>KOG2916 consensus Translation initiation factor 2, alpha subunit (eIF-2alpha) [Translation, ribosomal structure and biogenesis]
Probab=97.21 E-value=0.00021 Score=76.47 Aligned_cols=79 Identities=24% Similarity=0.446 Sum_probs=74.0
Q ss_pred CCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEEEeeccc
Q 001046 220 EPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSMRDVDQ 297 (1176)
Q Consensus 220 ~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~k~~dq 297 (1176)
=|.+++++-+.|..|.+-|+||.|-+|+.++|||-.||+|..|+.++..++++|-.=-|.|+.+| .+-|.||++.+.+
T Consensus 13 yPev~e~VmvnV~sIaemGayv~LlEYnniEGmiLlsELSrRRIRSI~klirVGr~E~vvVlrVDkekGYIDLSkrrVs~ 92 (304)
T KOG2916|consen 13 YPEVEEIVMVNVRSIAEMGAYVKLLEYNNIEGMILLSELSRRRIRSIQKLIRVGRNEPVVVLRVDKEKGYIDLSKRRVSP 92 (304)
T ss_pred CCCcccEEEEEeeEehhccceEeeeecCCcccchhhhHHHHHHHHHHHHHHhcCCcceEEEEEEcCCCCceechhccCCH
Confidence 57889999999999999999999999988999999999999999999999999999999999999 5679999999976
Q ss_pred c
Q 001046 298 N 298 (1176)
Q Consensus 298 ~ 298 (1176)
+
T Consensus 93 e 93 (304)
T KOG2916|consen 93 E 93 (304)
T ss_pred H
Confidence 6
No 277
>PRK05054 exoribonuclease II; Provisional
Probab=97.20 E-value=0.0009 Score=84.23 Aligned_cols=68 Identities=15% Similarity=0.200 Sum_probs=54.4
Q ss_pred CCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccc--c----C------CcccccCCCCEEEEEEEEEe--CcEeE
Q 001046 224 YQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRR--I----G------NAKDVVKRDQEVYVKVISVS--GQKLS 289 (1176)
Q Consensus 224 g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~--~----~------~~~~~~~~Gd~V~VkV~~id--~~ki~ 289 (1176)
|..|.|.|++|+.||+||+|++ .+.+||||++.+.+++ + . .-...++.||.|+|+|.++| .++|.
T Consensus 562 ~~~f~g~I~~v~~~G~fV~l~~-~~veglV~~~~l~~~~~~y~~~~~~~~~~~~~~~~~~lGd~V~V~v~~vd~~~~~i~ 640 (644)
T PRK05054 562 DTRFAAEIIDISRGGMRVRLLE-NGAVAFIPASFLHAVRDELVCNQENGTVQIKGETVYKLGDVIDVTLAEVRMETRSII 640 (644)
T ss_pred CeEEEEEEEeeecCcEEEEEeC-CceEEEEEccccCCCccceEEccccceEEEeCCEEEcCCCEEEEEEEEEccccCeEE
Confidence 4599999999999999999986 3789999999986531 1 0 11247999999999999998 56776
Q ss_pred EEE
Q 001046 290 LSM 292 (1176)
Q Consensus 290 Ls~ 292 (1176)
+.+
T Consensus 641 ~~~ 643 (644)
T PRK05054 641 ARP 643 (644)
T ss_pred EEE
Confidence 653
No 278
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=97.17 E-value=0.0026 Score=81.50 Aligned_cols=138 Identities=18% Similarity=0.208 Sum_probs=78.4
Q ss_pred cCCeEEEEcCCCCcHHHHHHHHHHHhccc-CCCEEEEeccHHHHHHHHHHHHH-----HHhCCcc-CCeeEEEeecccc-
Q 001046 538 DNQVLVVIGETGSGKTTQVTQYLAEAGYT-TRGKIGCTQPRRVAAMSVAKRVA-----EEFGCRL-GEEVGYAIRFEDC- 609 (1176)
Q Consensus 538 ~~~~vIv~apTGSGKTt~~~~~lle~~~~-~~~~Ilv~~PrR~lA~qva~rva-----~e~g~~~-G~~vGy~ir~~~~- 609 (1176)
.+.++.+.++||+|||.++...+++.... ...++++++|+.+.-..+.+.+. +.+.... |..+-+.+--...
T Consensus 58 ~~~n~~~~M~TGtGKT~~~~~~i~~l~~~~~~~~fii~vp~~aI~egv~~~l~s~~~k~hF~~~y~~~~~~~~~~~S~k~ 137 (986)
T PRK15483 58 DKANIDIKMETGTGKTYVYTRLMYELHQKYGLFKFIIVVPTPAIKEGTRNFIQSDYAKQHFSQFYENTRIELYVINAGDK 137 (986)
T ss_pred ccceEEEEeCCCCCHHHHHHHHHHHHHHHcCCcEEEEEeCCHHHHHHHHHHhhHHHHHHHHHHHcCCceeEEEEEecCcc
Confidence 34689999999999998887777664322 23479999999887776665433 1222112 2223322211000
Q ss_pred --------c-------------CCCceEEEeChHHHHHHHhh----C---------C--CCC-CCceEEEcCCCcCCCch
Q 001046 610 --------T-------------GPDTVIKYMTDGMLLREILI----D---------D--NLS-QYSVIMLDEAHERTIHT 652 (1176)
Q Consensus 610 --------~-------------~~~t~I~~~T~g~Llr~l~~----~---------~--~L~-~~s~IIiDEaHeR~~~~ 652 (1176)
. .....|+++|.++|-..... + | .+. .=-+||+||.|.-....
T Consensus 138 ~k~gr~~~~~~i~~Fa~~~~~~~~~I~Ilv~niqa~n~~~~~~~~~D~~l~~g~~~p~~~i~~~~PivIiDEPh~~~~~~ 217 (986)
T PRK15483 138 KKSGRKNFPAQLSNFVKASRQNSNTIHVLLINAGMLNSASMTRDDYDQTLLGGFTSPVDALAATRPVVIIDEPHRFPRDN 217 (986)
T ss_pred cccccccChHHHHHHHhccccCCCceEEEEEehHHhcccccccchhhhhhccCCCChHHHHHhCCCEEEEECCCCCCcch
Confidence 0 11468999999988543220 0 1 111 11479999999522211
Q ss_pred hHHHHHHHHHHhhCCCccEEEEcCCCCH
Q 001046 653 DVLFGLLKQLVKRRPDLRLIVTSATLDA 680 (1176)
Q Consensus 653 d~ll~llk~~~~~r~~~kvIlmSATl~~ 680 (1176)
. -...+....|.. ++.+|||.+.
T Consensus 218 k----~~~~i~~lnpl~-~lrysAT~~~ 240 (986)
T PRK15483 218 K----FYQAIEALKPQM-IIRFGATFPD 240 (986)
T ss_pred H----HHHHHHhcCccc-EEEEeeecCC
Confidence 1 123333445544 6679999954
No 279
>PRK04296 thymidine kinase; Provisional
Probab=97.10 E-value=0.0014 Score=70.04 Aligned_cols=111 Identities=18% Similarity=0.196 Sum_probs=61.3
Q ss_pred CCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccH---HHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCce
Q 001046 539 NQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPR---RVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTV 615 (1176)
Q Consensus 539 ~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~Pr---R~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t~ 615 (1176)
+...++.||+|+||||.+..++.... ..+.+++++-|. |.....++ ..+|..+. .
T Consensus 2 g~i~litG~~GsGKTT~~l~~~~~~~-~~g~~v~i~k~~~d~~~~~~~i~----~~lg~~~~-----------------~ 59 (190)
T PRK04296 2 AKLEFIYGAMNSGKSTELLQRAYNYE-ERGMKVLVFKPAIDDRYGEGKVV----SRIGLSRE-----------------A 59 (190)
T ss_pred cEEEEEECCCCCHHHHHHHHHHHHHH-HcCCeEEEEeccccccccCCcEe----cCCCCccc-----------------c
Confidence 56789999999999999999887753 335677777552 22111111 11111110 0
Q ss_pred EEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCC
Q 001046 616 IKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSAT 677 (1176)
Q Consensus 616 I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSAT 677 (1176)
+.+....-+++.+.. .-.++++|||||||- +..+.+..+++.+.. .+..+|++.-.
T Consensus 60 ~~~~~~~~~~~~~~~--~~~~~dvviIDEaq~--l~~~~v~~l~~~l~~--~g~~vi~tgl~ 115 (190)
T PRK04296 60 IPVSSDTDIFELIEE--EGEKIDCVLIDEAQF--LDKEQVVQLAEVLDD--LGIPVICYGLD 115 (190)
T ss_pred eEeCChHHHHHHHHh--hCCCCCEEEEEcccc--CCHHHHHHHHHHHHH--cCCeEEEEecC
Confidence 122344455555544 345789999999983 223334444444332 34555554433
No 280
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=97.08 E-value=0.049 Score=76.61 Aligned_cols=239 Identities=13% Similarity=0.114 Sum_probs=132.2
Q ss_pred cCCchHHHHHHHHHHHcC--CeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCe
Q 001046 522 SLPIYKLKKELIQAVHDN--QVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEE 599 (1176)
Q Consensus 522 ~LPi~~~q~~ii~ai~~~--~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~ 599 (1176)
.+++..-|.+++..+..+ ++.+|+|+.|+||||.+-..+ +..-..+.+|+++.|+--+|..+.+.. |.... +
T Consensus 427 ~~~Ls~~Q~~Av~~il~s~~~v~ii~G~aGTGKTt~l~~l~-~~~~~~G~~V~~lAPTgrAA~~L~e~~----g~~A~-T 500 (1960)
T TIGR02760 427 EFALSPSNKDAVSTLFTSTKRFIIINGFGGTGSTEIAQLLL-HLASEQGYEIQIITAGSLSAQELRQKI----PRLAS-T 500 (1960)
T ss_pred cCCCCHHHHHHHHHHHhCCCCeEEEEECCCCCHHHHHHHHH-HHHHhcCCeEEEEeCCHHHHHHHHHHh----cchhh-h
Confidence 467888899999988764 899999999999998766543 222234568999999988877665532 21110 0
Q ss_pred eEEEeecccccCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCCCC
Q 001046 600 VGYAIRFEDCTGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSATLD 679 (1176)
Q Consensus 600 vGy~ir~~~~~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSATl~ 679 (1176)
+. ++-...... ....|...++ ..+..+...++||||||- ++.+..+..+++.+.. .+.+||++-=+-.
T Consensus 501 i~---~~l~~l~~~--~~~~tv~~fl---~~~~~l~~~~vlIVDEAs--Ml~~~~~~~Ll~~a~~--~garvVlvGD~~Q 568 (1960)
T TIGR02760 501 FI---TWVKNLFND--DQDHTVQGLL---DKSSPFSNKDIFVVDEAN--KLSNNELLKLIDKAEQ--HNSKLILLNDSAQ 568 (1960)
T ss_pred HH---HHHHhhccc--ccchhHHHhh---cccCCCCCCCEEEEECCC--CCCHHHHHHHHHHHhh--cCCEEEEEcChhh
Confidence 00 000000000 0011222222 123346678999999996 6777777777765533 4678888775531
Q ss_pred ------HHHHHhhh-cCCCeEecCCc-eeeeEEEEecCCCchhHHHHHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHH
Q 001046 680 ------AEKFSGYF-FNCNIFTIPGR-TFPVEILYTKQPESDYLDASLITVLQIHLTEPEGDILLFLTGQEEIDFACQSL 751 (1176)
Q Consensus 680 ------~~~~~~~f-~~~~v~~i~gr-~~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L 751 (1176)
-..|.... .+.+.+..... .....+........+-........+.+ ......++||.++..+...+...+
T Consensus 569 L~sV~aG~~f~~L~~~gv~t~~l~~i~rq~~~v~i~~~~~~~r~~~ia~~y~~L--~~~r~~tliv~~t~~dr~~Ln~~i 646 (1960)
T TIGR02760 569 RQGMSAGSAIDLLKEGGVTTYAWVDTKQQKASVEISEAVDKLRVDYIASAWLDL--TPDRQNSQVLATTHREQQDLTQII 646 (1960)
T ss_pred cCccccchHHHHHHHCCCcEEEeecccccCcceeeeccCchHHHHHHHHHHHhc--ccccCceEEEcCCcHHHHHHHHHH
Confidence 12333221 13444333211 011111122211222222333333332 223446999999999999999999
Q ss_pred HHHHhccCCC-CCCeEEEEec-CCCCHHHHH
Q 001046 752 YERMKGLGKN-VPELIILPVY-SALPSEMQS 780 (1176)
Q Consensus 752 ~~~~~~l~~~-~~~~~v~~lh-s~l~~~~r~ 780 (1176)
+..++.-|.- ...+.+..|. ..|+..++.
T Consensus 647 R~~L~~~G~L~~~~~~~~~L~p~~lt~~e~r 677 (1960)
T TIGR02760 647 RNALKQEGQLSRQEVTVPTLKPVNLTGIQRR 677 (1960)
T ss_pred HHHHHHcCCcCCCceEEEEeccCCCCHHHHh
Confidence 9988654431 2234444443 356666654
No 281
>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins. The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].
Probab=97.08 E-value=0.0018 Score=76.31 Aligned_cols=112 Identities=19% Similarity=0.351 Sum_probs=70.2
Q ss_pred hHHHHHHHHHH------HcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHH--HHHHHHHhCCccC
Q 001046 526 YKLKKELIQAV------HDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSV--AKRVAEEFGCRLG 597 (1176)
Q Consensus 526 ~~~q~~ii~ai------~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qv--a~rva~e~g~~~G 597 (1176)
..-|.++++.+ .++..+.|.|+-|+|||+.+-.+.... ...+..++++.||-++|..+ ...+...++.+++
T Consensus 3 n~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~-~~~~~~~~~~a~tg~AA~~i~~G~T~hs~f~i~~~ 81 (364)
T PF05970_consen 3 NEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYL-RSRGKKVLVTAPTGIAAFNIPGGRTIHSFFGIPIN 81 (364)
T ss_pred CHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHh-ccccceEEEecchHHHHHhccCCcchHHhcCcccc
Confidence 34567776666 778899999999999998877655442 23456899999999999888 4555555555443
Q ss_pred CeeEEEeecccccCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHH
Q 001046 598 EEVGYAIRFEDCTGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGL 658 (1176)
Q Consensus 598 ~~vGy~ir~~~~~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~l 658 (1176)
..- ...........+ ...+...++|||||+= ++..+.+..+
T Consensus 82 ~~~------------~~~~~~~~~~~~------~~~l~~~~~lIiDEis--m~~~~~l~~i 122 (364)
T PF05970_consen 82 NNE------------KSQCKISKNSRL------RERLRKADVLIIDEIS--MVSADMLDAI 122 (364)
T ss_pred ccc------------cccccccccchh------hhhhhhheeeeccccc--chhHHHHHHH
Confidence 210 000000000111 1247888999999984 4444444333
No 282
>PF12340 DUF3638: Protein of unknown function (DUF3638); InterPro: IPR022099 This domain family is found in eukaryotes, and is approximately 230 amino acids in length. There are two conserved sequence motifs: LLE and NMG.
Probab=97.07 E-value=0.0035 Score=67.97 Aligned_cols=129 Identities=21% Similarity=0.248 Sum_probs=87.4
Q ss_pred HHHHHhcCCchHHHHHHHHHHHc---CCeEEEEcCCCCcHHHHHHHHHHHhcccCCCE-EEEeccHHHHHHHHHHHHHHH
Q 001046 516 IQEQRQSLPIYKLKKELIQAVHD---NQVLVVIGETGSGKTTQVTQYLAEAGYTTRGK-IGCTQPRRVAAMSVAKRVAEE 591 (1176)
Q Consensus 516 l~~~r~~LPi~~~q~~ii~ai~~---~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~-Ilv~~PrR~lA~qva~rva~e 591 (1176)
+.|....+-|++.|.++...+.+ +.+.+.+.-.|.|||+++...++-. ++.+.+ +.+++| +.|..+.+.-+...
T Consensus 15 l~E~e~~iliR~~Q~~ia~~mi~~~~~~n~v~QlnMGeGKTsVI~Pmla~~-LAdg~~LvrviVp-k~Ll~q~~~~L~~~ 92 (229)
T PF12340_consen 15 LFEIESNILIRPVQVEIAREMISPPSGKNSVMQLNMGEGKTSVIVPMLALA-LADGSRLVRVIVP-KALLEQMRQMLRSR 92 (229)
T ss_pred HHHHHcCceeeHHHHHHHHHHhCCCCCCCeEeeecccCCccchHHHHHHHH-HcCCCcEEEEEcC-HHHHHHHHHHHHHH
Confidence 34667788899999999999875 4789999999999998876655554 344444 456666 46888888877777
Q ss_pred hCCccCCeeEEEeecccccC-----------------CCceEEEeChHHHHHHHhhC-------------------CCCC
Q 001046 592 FGCRLGEEVGYAIRFEDCTG-----------------PDTVIKYMTDGMLLREILID-------------------DNLS 635 (1176)
Q Consensus 592 ~g~~~G~~vGy~ir~~~~~~-----------------~~t~I~~~T~g~Llr~l~~~-------------------~~L~ 635 (1176)
+|.-++..| |.+.|...+. ...-|+++||+.++...+.. .++.
T Consensus 93 lg~l~~r~i-~~lpFsR~~~~~~~~~~~~~~l~~~~~~~~gill~~PEhilSf~L~~le~l~~~~~~~~~~l~~~q~~l~ 171 (229)
T PF12340_consen 93 LGGLLNRRI-YHLPFSRSTPLTPETLEKIRQLLEECMRSGGILLATPEHILSFKLKGLERLQDGKPEEARELLKIQKWLD 171 (229)
T ss_pred HHHHhCCee-EEecccCCCCCCHHHHHHHHHHHHHHHHcCCEEEeChHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHH
Confidence 766555433 5566654332 24568889998776433211 1244
Q ss_pred CCceEEEcCCCc
Q 001046 636 QYSVIMLDEAHE 647 (1176)
Q Consensus 636 ~~s~IIiDEaHe 647 (1176)
..+.=|+||+|+
T Consensus 172 ~~~rdilDEsDe 183 (229)
T PF12340_consen 172 EHSRDILDESDE 183 (229)
T ss_pred hcCCeEeECchh
Confidence 555668888884
No 283
>TIGR00064 ftsY signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.
Probab=97.06 E-value=0.0053 Score=69.36 Aligned_cols=124 Identities=21% Similarity=0.300 Sum_probs=74.3
Q ss_pred CCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEE--eccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCceE
Q 001046 539 NQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGC--TQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTVI 616 (1176)
Q Consensus 539 ~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv--~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t~I 616 (1176)
.++++++|+||+||||.+..+.... ...+.+|++ +-+.|..+.+..+.+++.++..+ + ... .. .
T Consensus 72 ~~vi~l~G~~G~GKTTt~akLA~~l-~~~g~~V~li~~D~~r~~a~~ql~~~~~~~~i~~---~--~~~--~~--~---- 137 (272)
T TIGR00064 72 PNVILFVGVNGVGKTTTIAKLANKL-KKQGKSVLLAAGDTFRAAAIEQLEEWAKRLGVDV---I--KQK--EG--A---- 137 (272)
T ss_pred CeEEEEECCCCCcHHHHHHHHHHHH-HhcCCEEEEEeCCCCCHHHHHHHHHHHHhCCeEE---E--eCC--CC--C----
Confidence 4688899999999999877766543 233445543 45778888777776777665321 0 000 00 0
Q ss_pred EEeCh-HHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHh-h------CCCccEEEEcCCCCHH
Q 001046 617 KYMTD-GMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVK-R------RPDLRLIVTSATLDAE 681 (1176)
Q Consensus 617 ~~~T~-g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~-~------r~~~kvIlmSATl~~~ 681 (1176)
-+ ......+. .....+|++||||=+. |......++..|+.+.. . .++-.+++++||...+
T Consensus 138 ---dp~~~~~~~l~-~~~~~~~D~ViIDT~G-~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~~~~ 205 (272)
T TIGR00064 138 ---DPAAVAFDAIQ-KAKARNIDVVLIDTAG-RLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATTGQN 205 (272)
T ss_pred ---CHHHHHHHHHH-HHHHCCCCEEEEeCCC-CCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCCHH
Confidence 01 11112111 1124679999999998 55444455555555443 1 2678899999998543
No 284
>COG1096 Predicted RNA-binding protein (consists of S1 domain and a Zn-ribbon domain) [Translation, ribosomal structure and biogenesis]
Probab=97.06 E-value=0.0014 Score=67.78 Aligned_cols=77 Identities=23% Similarity=0.313 Sum_probs=65.5
Q ss_pred CCCCCCCCEEEEEEEEEeeceeEEEeCCCCC--------eeeeeecccccccccCCcccccCCCCEEEEEEEEEeCcEeE
Q 001046 218 GNEPELYQVYKGRVSRVVDTGCFVQLNDFRG--------KEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVSGQKLS 289 (1176)
Q Consensus 218 ~~~~~~g~~~~g~V~~i~~~G~fV~l~~~~~--------~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id~~ki~ 289 (1176)
..-|+.|+++.|+|+++..-.+.|++-+..+ ..|-+|+|++...++++.++.|++||.|+++|++.- ..+.
T Consensus 59 ~~~~K~GdiV~grV~~v~~~~a~V~i~~ve~~~r~~~~~~~~~ihvs~~~~~~~~~~~d~f~~GDivrA~Vis~~-~~~~ 137 (188)
T COG1096 59 PPLPKGGDIVYGRVTDVREQRALVRIVGVEGKERELATSGAADIHVSQVRDGYVEKLSDAFRIGDIVRARVISTG-DPIQ 137 (188)
T ss_pred CCCCCCCCEEEEEEeeccceEEEEEEEEEecccccCCCCceeeEEEEecccccccccccccccccEEEEEEEecC-CCeE
Confidence 3468899999999999999999998864333 368999999999999999999999999999999975 5677
Q ss_pred EEEeec
Q 001046 290 LSMRDV 295 (1176)
Q Consensus 290 Ls~k~~ 295 (1176)
||.+.-
T Consensus 138 Lst~~~ 143 (188)
T COG1096 138 LSTKGN 143 (188)
T ss_pred EEecCC
Confidence 777653
No 285
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=97.04 E-value=0.0021 Score=63.32 Aligned_cols=39 Identities=28% Similarity=0.427 Sum_probs=27.1
Q ss_pred CCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHH
Q 001046 539 NQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRR 578 (1176)
Q Consensus 539 ~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR 578 (1176)
++.+++.||+||||||.+...+...... ...++++.+..
T Consensus 2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~-~~~~~~~~~~~ 40 (148)
T smart00382 2 GEVILIVGPPGSGKTTLARALARELGPP-GGGVIYIDGED 40 (148)
T ss_pred CCEEEEECCCCCcHHHHHHHHHhccCCC-CCCEEEECCEE
Confidence 5789999999999999988876654322 12355555543
No 286
>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]
Probab=97.03 E-value=0.00061 Score=87.10 Aligned_cols=76 Identities=20% Similarity=0.376 Sum_probs=69.9
Q ss_pred CCCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEEEeecc
Q 001046 219 NEPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSMRDVD 296 (1176)
Q Consensus 219 ~~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~k~~d 296 (1176)
+....|.++.|.|-.+.++||||++.+ |.+|+.|+|+++++++.++.+.|.+||.|.|+|.++| ..+|-|+.+.-+
T Consensus 595 ~~~~pg~~~~G~l~~~~~~g~~V~F~g--~lsGf~p~s~~sd~~v~~~~ehf~vGqTv~~~i~nvd~ek~rm~l~~r~s~ 672 (1710)
T KOG1070|consen 595 EQAIPGKITKGTLCAIKENGAFVTFTG--GLSGFAPVSEMSDDFVLSDSEHFPVGQTVRAKIVNVDDEKRRMPLGLRASS 672 (1710)
T ss_pred hhcCCCceEEEEEeeeccCCeEEEecC--ccccccchhhhhhhhhcChhhhcccccEEEEEEEecCchhceeehhhhhhh
Confidence 355679999999999999999999976 8899999999999999999999999999999999999 568999988754
No 287
>PF07517 SecA_DEAD: SecA DEAD-like domain; InterPro: IPR011115 SecA protein binds to the plasma membrane where it interacts with proOmpA to support translocation of proOmpA through the membrane. SecA protein achieves this translocation, in association with SecY protein, in an ATP-dependent manner [,]. This domain represents the N-terminal ATP-dependent helicase domain, which is related to the IPR0011545 from INTERPRO.; GO: 0005524 ATP binding, 0017038 protein import, 0016020 membrane; PDB: 1NL3_B 1NKT_B 3DIN_B 3JUX_A 2FSG_B 2VDA_A 2FSH_A 2FSF_A 2FSI_A 3BXZ_A ....
Probab=96.95 E-value=0.0018 Score=72.35 Aligned_cols=122 Identities=19% Similarity=0.168 Sum_probs=73.5
Q ss_pred hcCCchHHHHHHHHHH--HcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCC
Q 001046 521 QSLPIYKLKKELIQAV--HDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGE 598 (1176)
Q Consensus 521 ~~LPi~~~q~~ii~ai--~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~ 598 (1176)
..+-.+++-.|++-++ ..|+ |+...||=|||.++.++.+-..+. +..|-|+.....||..=++.+...+ ..+|.
T Consensus 72 r~~g~~p~~vQll~~l~L~~G~--laEm~TGEGKTli~~l~a~~~AL~-G~~V~vvT~NdyLA~RD~~~~~~~y-~~LGl 147 (266)
T PF07517_consen 72 RTLGLRPYDVQLLGALALHKGR--LAEMKTGEGKTLIAALPAALNALQ-GKGVHVVTSNDYLAKRDAEEMRPFY-EFLGL 147 (266)
T ss_dssp HHTS----HHHHHHHHHHHTTS--EEEESTTSHHHHHHHHHHHHHHTT-SS-EEEEESSHHHHHHHHHHHHHHH-HHTT-
T ss_pred HHcCCcccHHHHhhhhhcccce--eEEecCCCCcHHHHHHHHHHHHHh-cCCcEEEeccHHHhhccHHHHHHHH-HHhhh
Confidence 3455556666666665 4454 889999999998887777665554 3445444455566665555554444 35677
Q ss_pred eeEEEeeccccc----CCCceEEEeChHHHHHHHhhCC--------CCCCCceEEEcCCC
Q 001046 599 EVGYAIRFEDCT----GPDTVIKYMTDGMLLREILIDD--------NLSQYSVIMLDEAH 646 (1176)
Q Consensus 599 ~vGy~ir~~~~~----~~~t~I~~~T~g~Llr~l~~~~--------~L~~~s~IIiDEaH 646 (1176)
.||+........ .-..+|+|+|...+.--.+.+. ....+.++|||||+
T Consensus 148 sv~~~~~~~~~~~r~~~Y~~dI~Y~t~~~~~fD~Lrd~~~~~~~~~~~r~~~~~ivDEvD 207 (266)
T PF07517_consen 148 SVGIITSDMSSEERREAYAADIVYGTNSEFGFDYLRDNLALSKNEQVQRGFDFAIVDEVD 207 (266)
T ss_dssp -EEEEETTTEHHHHHHHHHSSEEEEEHHHHHHHHHHHTT-SSGGG--SSSSSEEEECTHH
T ss_pred ccccCccccCHHHHHHHHhCcccccccchhhHHHHHHHHhhccchhccCCCCEEEEeccc
Confidence 777654432211 1246799999987765433322 25789999999998
No 288
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.91 E-value=0.13 Score=60.36 Aligned_cols=120 Identities=20% Similarity=0.166 Sum_probs=76.9
Q ss_pred hcCCchHHHHHHHHHHHcCCe-----EEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCc
Q 001046 521 QSLPIYKLKKELIQAVHDNQV-----LVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCR 595 (1176)
Q Consensus 521 ~~LPi~~~q~~ii~ai~~~~~-----vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~ 595 (1176)
-.+|+-++|.+.+..+..... -|+.-+-|.|||.|....++... .+...+|+.|+.++ +|....+.....
T Consensus 181 lii~LL~fQkE~l~Wl~~QE~Ss~~GGiLADEMGMGKTIQtIaLllae~--~ra~tLVvaP~VAl-mQW~nEI~~~T~-- 255 (791)
T KOG1002|consen 181 LIIPLLPFQKEGLAWLTSQEESSVAGGILADEMGMGKTIQTIALLLAEV--DRAPTLVVAPTVAL-MQWKNEIERHTS-- 255 (791)
T ss_pred ceecchhhhHHHHHHHHHhhhhhhccceehhhhccchHHHHHHHHHhcc--ccCCeeEEccHHHH-HHHHHHHHHhcc--
Confidence 347888999999988754432 36677899999988777766632 23468999998654 566665655443
Q ss_pred cCCeeEEEeecccccC-----CCceEEEeChHHHHHHHhh-CC-------------CCCCC--ceEEEcCCC
Q 001046 596 LGEEVGYAIRFEDCTG-----PDTVIKYMTDGMLLREILI-DD-------------NLSQY--SVIMLDEAH 646 (1176)
Q Consensus 596 ~G~~vGy~ir~~~~~~-----~~t~I~~~T~g~Llr~l~~-~~-------------~L~~~--s~IIiDEaH 646 (1176)
|..-.|...+..... .+.+++.+|..++-..... +. .|.++ --||+||||
T Consensus 256 -gslkv~~YhG~~R~~nikel~~YDvVLTty~vvEs~yRk~~~GfrrKngv~ke~SlLHsi~~~RiIlDEAH 326 (791)
T KOG1002|consen 256 -GSLKVYIYHGAKRDKNIKELMNYDVVLTTYAVVESVYRKQDYGFRRKNGVDKEKSLLHSIKFYRIILDEAH 326 (791)
T ss_pred -CceEEEEEecccccCCHHHhhcCcEEEEecHHHHHHHHhccccccccCCcccccchhhhceeeeeehhhhc
Confidence 444444333322221 3577888888777555443 11 24443 459999999
No 289
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=96.88 E-value=0.0025 Score=72.74 Aligned_cols=64 Identities=14% Similarity=0.071 Sum_probs=47.3
Q ss_pred chHHHHH----HHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCC-----CEEEEeccHHHHHHHHHHHH
Q 001046 525 IYKLKKE----LIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTR-----GKIGCTQPRRVAAMSVAKRV 588 (1176)
Q Consensus 525 i~~~q~~----ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~-----~~Ilv~~PrR~lA~qva~rv 588 (1176)
.++.|.+ +..++.++..+++.+|||+|||..+..+++......+ .+|++..+|..+..+....+
T Consensus 9 ~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l 81 (289)
T smart00489 9 PYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEEL 81 (289)
T ss_pred CCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHH
Confidence 4778888 5555678999999999999999888877764322222 27999999988866665444
No 290
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=96.88 E-value=0.0025 Score=72.74 Aligned_cols=64 Identities=14% Similarity=0.071 Sum_probs=47.3
Q ss_pred chHHHHH----HHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCC-----CEEEEeccHHHHHHHHHHHH
Q 001046 525 IYKLKKE----LIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTR-----GKIGCTQPRRVAAMSVAKRV 588 (1176)
Q Consensus 525 i~~~q~~----ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~-----~~Ilv~~PrR~lA~qva~rv 588 (1176)
.++.|.+ +..++.++..+++.+|||+|||..+..+++......+ .+|++..+|..+..+....+
T Consensus 9 ~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l 81 (289)
T smart00488 9 PYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEEL 81 (289)
T ss_pred CCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHH
Confidence 4778888 5555678999999999999999888877764322222 27999999988866665444
No 291
>PRK09202 nusA transcription elongation factor NusA; Validated
Probab=96.88 E-value=0.0023 Score=76.94 Aligned_cols=64 Identities=19% Similarity=0.239 Sum_probs=57.0
Q ss_pred CCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEeC--c--EeEEEEeec
Q 001046 223 LYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVSG--Q--KLSLSMRDV 295 (1176)
Q Consensus 223 ~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id~--~--ki~Ls~k~~ 295 (1176)
.|+++.|+|.++.++|+||+++ +.+|++|.+++. |.+.+++||.|+|.|++++. + .|-||.+..
T Consensus 134 ~GeIV~G~V~ri~~~giiVDLg---gvea~LP~sE~i------p~E~~~~GdrIka~I~~Vd~~~kg~qIilSRt~p 201 (470)
T PRK09202 134 VGEIITGVVKRVERGNIIVDLG---RAEAILPRKEQI------PRENFRPGDRVRAYVYEVRKEARGPQIILSRTHP 201 (470)
T ss_pred cCCEEEEEEEEEecCCEEEEEC---CeEEEecHHHcC------CCccCCCCCEEEEEEEEEecCCCCCeEEEEeCcH
Confidence 8999999999999999999994 689999999984 78889999999999999982 2 788888764
No 292
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=96.88 E-value=0.006 Score=72.54 Aligned_cols=122 Identities=23% Similarity=0.278 Sum_probs=73.3
Q ss_pred CeEEEEcCCCCcHHHHHHHHHHHhcccCCCEE--EEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCceEE
Q 001046 540 QVLVVIGETGSGKTTQVTQYLAEAGYTTRGKI--GCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTVIK 617 (1176)
Q Consensus 540 ~~vIv~apTGSGKTt~~~~~lle~~~~~~~~I--lv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t~I~ 617 (1176)
.++.++|++|+||||.+........ ..+.+| +.+-|.|..|..+.+..++..+.++ |....+ .
T Consensus 101 ~vi~lvG~~GvGKTTtaaKLA~~l~-~~G~kV~lV~~D~~R~aA~eQLk~~a~~~~vp~-----~~~~~~-----~---- 165 (429)
T TIGR01425 101 NVIMFVGLQGSGKTTTCTKLAYYYQ-RKGFKPCLVCADTFRAGAFDQLKQNATKARIPF-----YGSYTE-----S---- 165 (429)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHH-HCCCCEEEEcCcccchhHHHHHHHHhhccCCeE-----EeecCC-----C----
Confidence 5788999999999988877665432 223343 4466889888888776666554332 100000 0
Q ss_pred EeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHh-hCCCccEEEEcCCCC
Q 001046 618 YMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVK-RRPDLRLIVTSATLD 679 (1176)
Q Consensus 618 ~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~-~r~~~kvIlmSATl~ 679 (1176)
.|-.+....+....-.++++||||=+. |...-+-++..+..+.. ..|+..+++++||..
T Consensus 166 --dp~~i~~~~l~~~~~~~~DvViIDTaG-r~~~d~~lm~El~~i~~~~~p~e~lLVlda~~G 225 (429)
T TIGR01425 166 --DPVKIASEGVEKFKKENFDIIIVDTSG-RHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIG 225 (429)
T ss_pred --CHHHHHHHHHHHHHhCCCCEEEEECCC-CCcchHHHHHHHHHHhhhcCCcEEEEEeccccC
Confidence 111111111111112579999999998 55554556666666554 457888999999973
No 293
>PF10447 EXOSC1: Exosome component EXOSC1/CSL4; InterPro: IPR019495 The exosome mediates degradation of unstable mRNAs that contain AU-rich elements (AREs) within their 3' untranslated regions []. The proteins in this entry are components of the exosome 3'->5' exoribonuclease complex. They do not have exonuclease activity, but are required for the 3'-processing of the 7S pre-RNA to the mature 5.8S rRNA and for mRNA decay [, ].; PDB: 2NN6_I.
Probab=96.87 E-value=0.0027 Score=57.71 Aligned_cols=63 Identities=19% Similarity=0.260 Sum_probs=43.5
Q ss_pred CCCCCEEEEEEEEEeeceeEEEeCCC----------C------CeeeeeecccccccccC--CcccccCCCCEEEEEEEE
Q 001046 221 PELYQVYKGRVSRVVDTGCFVQLNDF----------R------GKEGLVHVSQIATRRIG--NAKDVVKRDQEVYVKVIS 282 (1176)
Q Consensus 221 ~~~g~~~~g~V~~i~~~G~fV~l~~~----------~------~~eGlvhisels~~~~~--~~~~~~~~Gd~V~VkV~~ 282 (1176)
|++|+++.|+|++|++--++++|-.. . ...|++|.+++...... .+.+.|++||.|+++|++
T Consensus 2 P~vGdiV~~rVtrv~~~~a~v~Il~v~~~~~~~~~~~~~~l~~~f~GiIR~~DVR~te~Dkv~~~~~FrpGDIVrA~ViS 81 (82)
T PF10447_consen 2 PKVGDIVIARVTRVNPRQAKVEILCVEGKGNDSINAGDRPLKEPFQGIIRKQDVRATEKDKVKMYDCFRPGDIVRARVIS 81 (82)
T ss_dssp --TT-EEEEEEEEE-SSEEEEEEEES----------SSS----SS-S-EEEEGGGT-SS----GGGT--SSSEEEEEEEE
T ss_pred CCCCCEEEEEEEEEeccEEEEEEEEEEeccccccccCCcccccccEEEEEeeeecccccchhhHHhccCCCCEEEEEEee
Confidence 78999999999999999999988644 1 23699999998765444 468889999999999987
Q ss_pred E
Q 001046 283 V 283 (1176)
Q Consensus 283 i 283 (1176)
.
T Consensus 82 l 82 (82)
T PF10447_consen 82 L 82 (82)
T ss_dssp E
T ss_pred C
Confidence 3
No 294
>COG0557 VacB Exoribonuclease R [Transcription]
Probab=96.86 E-value=0.0022 Score=81.83 Aligned_cols=70 Identities=33% Similarity=0.523 Sum_probs=58.3
Q ss_pred CCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccC-----------CcccccCCCCEEEEEEEEEe--CcEe
Q 001046 222 ELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIG-----------NAKDVVKRDQEVYVKVISVS--GQKL 288 (1176)
Q Consensus 222 ~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~-----------~~~~~~~~Gd~V~VkV~~id--~~ki 288 (1176)
.+|+.+.|.|++|+.||+||.|.++ +.+|+||++.+..+++. +....+..||.|+|+|.+++ .++|
T Consensus 621 ~vg~~f~g~V~~v~~~g~~V~l~~~-~ieglV~~s~L~~d~y~~~~~~~~l~~~~~~~~~~lgd~v~v~v~~v~~~~~~i 699 (706)
T COG0557 621 RVGEEFDGVVTGVTSFGFFVELPEL-GLEGLVHISSLPDDYYHFDERGQALVGEKSGKVYRLGDEVKVKVTSVDLDERKI 699 (706)
T ss_pred hcCCEEEEEEEEEEeccEEEEeccc-ccccceEcccCCCceeeeccccceeeccccccccccCCEEEEEEEEEcccccce
Confidence 4689999999999999999999874 58999999999865332 44557999999999999997 5567
Q ss_pred EEEE
Q 001046 289 SLSM 292 (1176)
Q Consensus 289 ~Ls~ 292 (1176)
.+++
T Consensus 700 ~~~~ 703 (706)
T COG0557 700 DFEL 703 (706)
T ss_pred EEEe
Confidence 6665
No 295
>PF13173 AAA_14: AAA domain
Probab=96.85 E-value=0.0059 Score=60.75 Aligned_cols=99 Identities=20% Similarity=0.207 Sum_probs=56.2
Q ss_pred cCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCceEE
Q 001046 538 DNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTVIK 617 (1176)
Q Consensus 538 ~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t~I~ 617 (1176)
+++.++|.||.|+||||.+-+++.... ....++++.=........... .
T Consensus 1 n~~~~~l~G~R~vGKTtll~~~~~~~~--~~~~~~yi~~~~~~~~~~~~~---------------------------~-- 49 (128)
T PF13173_consen 1 NRKIIILTGPRGVGKTTLLKQLAKDLL--PPENILYINFDDPRDRRLADP---------------------------D-- 49 (128)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHHhc--ccccceeeccCCHHHHHHhhh---------------------------h--
Confidence 367899999999999999999876643 223444432111111000000 0
Q ss_pred EeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCCC
Q 001046 618 YMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSATL 678 (1176)
Q Consensus 618 ~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSATl 678 (1176)
....+++. ...+-.+|+|||+|.-. -+...++.+....++.++|+++-..
T Consensus 50 --~~~~~~~~-----~~~~~~~i~iDEiq~~~----~~~~~lk~l~d~~~~~~ii~tgS~~ 99 (128)
T PF13173_consen 50 --LLEYFLEL-----IKPGKKYIFIDEIQYLP----DWEDALKFLVDNGPNIKIILTGSSS 99 (128)
T ss_pred --hHHHHHHh-----hccCCcEEEEehhhhhc----cHHHHHHHHHHhccCceEEEEccch
Confidence 00111111 11256789999999422 2455666666666788888876554
No 296
>smart00311 PWI PWI, domain in splicing factors.
Probab=96.85 E-value=0.0028 Score=56.85 Aligned_cols=67 Identities=21% Similarity=0.248 Sum_probs=57.7
Q ss_pred ccccchhHHHHHHHHhhhCCCChhHHHHHHHHHhhCCChHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 001046 13 LEYFSLVSKVCSELETHLGFGDKVLAEFITELGRNCETVDEFDSKLKENGAEMPDYFVRTLLTIIHA 79 (1176)
Q Consensus 13 le~lslvskv~~el~nhlgi~dk~laefii~l~~~~~~~~~F~~~l~~~ga~~~~~~~~~l~~li~~ 79 (1176)
+..-.+-.-|...+...||++|.+|.+||++++.++++.+.....|...|-+=...|+..|++++..
T Consensus 4 v~~~~lk~WI~~kv~e~LG~~d~~vvd~i~~~l~~~~~~~~l~~~L~~~~f~da~~Fv~~Lw~~l~~ 70 (74)
T smart00311 4 LKLDEIKPWITKKVIEFLGFEEDTLVEFILSQIRQHKGPQAKLLQINLTGFEDAEEFVDKLWRLLIF 70 (74)
T ss_pred hHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCChHHHHHHHHhhcchhHHHHHHHHHHHHHH
Confidence 3444566778899999999999999999999999999999999999998654367799999999854
No 297
>PRK08181 transposase; Validated
Probab=96.83 E-value=0.014 Score=65.65 Aligned_cols=115 Identities=15% Similarity=0.171 Sum_probs=62.0
Q ss_pred HHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCc
Q 001046 535 AVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDT 614 (1176)
Q Consensus 535 ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t 614 (1176)
.+..+++++++||+|+|||..+..+..+. ...+..++++. ...+...+... ...
T Consensus 102 ~~~~~~nlll~Gp~GtGKTHLa~Aia~~a-~~~g~~v~f~~-~~~L~~~l~~a----~~~-------------------- 155 (269)
T PRK08181 102 WLAKGANLLLFGPPGGGKSHLAAAIGLAL-IENGWRVLFTR-TTDLVQKLQVA----RRE-------------------- 155 (269)
T ss_pred HHhcCceEEEEecCCCcHHHHHHHHHHHH-HHcCCceeeee-HHHHHHHHHHH----HhC--------------------
Confidence 35678899999999999997766554433 22344555543 23333333211 000
Q ss_pred eEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCch---hHHHHHHHHHHhhCCCccEEEEcCCCCHHHHHhhhcC
Q 001046 615 VIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHT---DVLFGLLKQLVKRRPDLRLIVTSATLDAEKFSGYFFN 689 (1176)
Q Consensus 615 ~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~---d~ll~llk~~~~~r~~~kvIlmSATl~~~~~~~~f~~ 689 (1176)
.+...+++. +.++++|||||++--.... +.++.++..... ... +++|.-++...+...|.+
T Consensus 156 ----~~~~~~l~~------l~~~dLLIIDDlg~~~~~~~~~~~Lf~lin~R~~---~~s-~IiTSN~~~~~w~~~~~D 219 (269)
T PRK08181 156 ----LQLESAIAK------LDKFDLLILDDLAYVTKDQAETSVLFELISARYE---RRS-ILITANQPFGEWNRVFPD 219 (269)
T ss_pred ----CcHHHHHHH------HhcCCEEEEeccccccCCHHHHHHHHHHHHHHHh---CCC-EEEEcCCCHHHHHHhcCC
Confidence 011222222 4678999999998433322 245555543322 234 455555566666666643
No 298
>COG1097 RRP4 RNA-binding protein Rrp4 and related proteins (contain S1 domain and KH domain) [Translation, ribosomal structure and biogenesis]
Probab=96.83 E-value=0.0035 Score=67.49 Aligned_cols=73 Identities=23% Similarity=0.407 Sum_probs=63.7
Q ss_pred CCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccC----CcccccCCCCEEEEEEEEEe-CcEeEEEEee
Q 001046 220 EPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIG----NAKDVVKRDQEVYVKVISVS-GQKLSLSMRD 294 (1176)
Q Consensus 220 ~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~----~~~~~~~~Gd~V~VkV~~id-~~ki~Ls~k~ 294 (1176)
-|+.|+++-|+|..|...|+.|+|.. ...+++|+|++.+..++ +....+++||.|.++|..++ ..+..|++|+
T Consensus 61 iP~~gD~VIG~I~~v~~~~W~VDI~s--p~~A~L~ls~~~~r~~~~~~~~~r~~l~vGD~v~AkV~~vd~~~~~~L~~k~ 138 (239)
T COG1097 61 IPEVGDVVIGKIIEVGPSGWKVDIGS--PYPALLSLSDFLRRKFENAEKDLRPFLNVGDLVYAKVVDVDRDGEVELTLKD 138 (239)
T ss_pred cCCCCCEEEEEEEEEcccceEEEcCC--ccceEeehhhhhcccccccccccccccccCCEEEEEEEEccCCCceEEEeec
Confidence 58899999999999999999999975 46999999999665543 66778999999999999999 5688888855
No 299
>PF05729 NACHT: NACHT domain
Probab=96.77 E-value=0.0055 Score=63.02 Aligned_cols=58 Identities=24% Similarity=0.381 Sum_probs=38.1
Q ss_pred eEEEcCCCcCCCchh-----HHHHHHHHHHhh--CCCccEEEEcCCCCHHHHHhhhcCCCeEecC
Q 001046 639 VIMLDEAHERTIHTD-----VLFGLLKQLVKR--RPDLRLIVTSATLDAEKFSGYFFNCNIFTIP 696 (1176)
Q Consensus 639 ~IIiDEaHeR~~~~d-----~ll~llk~~~~~--r~~~kvIlmSATl~~~~~~~~f~~~~v~~i~ 696 (1176)
+||||=++|-..... .+..++..++.. .++.++|+.|.+-....+..++.....+.+.
T Consensus 84 llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~ 148 (166)
T PF05729_consen 84 LLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELE 148 (166)
T ss_pred EEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEEC
Confidence 488888886443222 245556666554 6789999998887766677777655444444
No 300
>TIGR00959 ffh signal recognition particle protein. This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.
Probab=96.76 E-value=0.011 Score=70.86 Aligned_cols=122 Identities=23% Similarity=0.237 Sum_probs=73.9
Q ss_pred CeEEEEcCCCCcHHHHHHHHHHHhcccCCCE--EEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCceEE
Q 001046 540 QVLVVIGETGSGKTTQVTQYLAEAGYTTRGK--IGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTVIK 617 (1176)
Q Consensus 540 ~~vIv~apTGSGKTt~~~~~lle~~~~~~~~--Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t~I~ 617 (1176)
.+++++|++|+||||.+..++.......+.+ ++.+-++|..|..+.++++...|.++- .... .
T Consensus 100 ~vi~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D~~R~~a~~QL~~~a~~~gvp~~-----~~~~--~-------- 164 (428)
T TIGR00959 100 TVILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACDLYRPAAIEQLKVLGQQVGVPVF-----ALGK--G-------- 164 (428)
T ss_pred EEEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEeccccchHHHHHHHHHHHhcCCceE-----ecCC--C--------
Confidence 4788999999999999887766532122333 456678888888777777666654321 0000 0
Q ss_pred EeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHh-hCCCccEEEEcCCC
Q 001046 618 YMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVK-RRPDLRLIVTSATL 678 (1176)
Q Consensus 618 ~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~-~r~~~kvIlmSATl 678 (1176)
..|.-+...........+|++||||=+- |....+.++..+..+.. ..|+-.+++++||.
T Consensus 165 -~~P~~i~~~al~~~~~~~~DvVIIDTaG-r~~~d~~l~~eL~~i~~~~~p~e~lLVvda~t 224 (428)
T TIGR00959 165 -QSPVEIARRALEYAKENGFDVVIVDTAG-RLQIDEELMEELAAIKEILNPDEILLVVDAMT 224 (428)
T ss_pred -CCHHHHHHHHHHHHHhcCCCEEEEeCCC-ccccCHHHHHHHHHHHHhhCCceEEEEEeccc
Confidence 0122222222221224678999999998 55544455666655544 34666688888876
No 301
>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1
Probab=96.76 E-value=0.0039 Score=70.02 Aligned_cols=139 Identities=17% Similarity=0.154 Sum_probs=82.6
Q ss_pred CCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeE-EEeecccccCCCceEE
Q 001046 539 NQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVG-YAIRFEDCTGPDTVIK 617 (1176)
Q Consensus 539 ~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vG-y~ir~~~~~~~~t~I~ 617 (1176)
..-.++==.||.||--++.-.|++..+..+.+.+++...-.|-....+.+.. .|..--.... ......+...-..-|+
T Consensus 62 R~Gf~lGDGtGvGKGR~iAgiI~~n~l~Gr~r~vwvS~s~dL~~Da~RDl~D-IG~~~i~v~~l~~~~~~~~~~~~~Gvl 140 (303)
T PF13872_consen 62 RAGFFLGDGTGVGKGRQIAGIILENWLRGRKRAVWVSVSNDLKYDAERDLRD-IGADNIPVHPLNKFKYGDIIRLKEGVL 140 (303)
T ss_pred CcEEEeccCCCcCccchhHHHHHHHHHcCCCceEEEECChhhhhHHHHHHHH-hCCCcccceechhhccCcCCCCCCCcc
Confidence 3455666679999999999999998666566677777777787776665543 3332111111 0111111222344589
Q ss_pred EeChHHHHHHHhhCC-----------CC--CCCceEEEcCCCc-CCCchh-----HHHHHHHHHHhhCCCccEEEEcCCC
Q 001046 618 YMTDGMLLREILIDD-----------NL--SQYSVIMLDEAHE-RTIHTD-----VLFGLLKQLVKRRPDLRLIVTSATL 678 (1176)
Q Consensus 618 ~~T~g~Llr~l~~~~-----------~L--~~~s~IIiDEaHe-R~~~~d-----~ll~llk~~~~~r~~~kvIlmSATl 678 (1176)
|+|.-.|........ ++ .-=.+||+||||. -+.... -.-.....+....|+.++|-+|||-
T Consensus 141 F~TYs~L~~~~~~~~~~~sRl~ql~~W~g~dfdgvivfDEcH~akn~~~~~~~~sk~g~avl~LQ~~LP~ARvvY~SATg 220 (303)
T PF13872_consen 141 FSTYSTLISESQSGGKYRSRLDQLVDWCGEDFDGVIVFDECHKAKNLSSGSKKPSKTGIAVLELQNRLPNARVVYASATG 220 (303)
T ss_pred chhHHHHHhHHhccCCccchHHHHHHHHhcCCCceEEeccchhcCCCCccCccccHHHHHHHHHHHhCCCCcEEEecccc
Confidence 999887776643211 11 1125999999995 122110 1111233444566899999999996
No 302
>PRK10867 signal recognition particle protein; Provisional
Probab=96.74 E-value=0.0083 Score=71.77 Aligned_cols=122 Identities=23% Similarity=0.284 Sum_probs=74.9
Q ss_pred CeEEEEcCCCCcHHHHHHHHHHHhcccCCCE--EEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCceEE
Q 001046 540 QVLVVIGETGSGKTTQVTQYLAEAGYTTRGK--IGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTVIK 617 (1176)
Q Consensus 540 ~~vIv~apTGSGKTt~~~~~lle~~~~~~~~--Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t~I~ 617 (1176)
.+++++|++||||||.+..++.......+.+ ++.+-++|..|....+.+++..|.++ |....
T Consensus 101 ~vI~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~D~~R~aa~eQL~~~a~~~gv~v-----~~~~~----------- 164 (433)
T PRK10867 101 TVIMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAADVYRPAAIEQLKTLGEQIGVPV-----FPSGD----------- 164 (433)
T ss_pred EEEEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEccccchHHHHHHHHHHhhcCCeE-----EecCC-----------
Confidence 4788999999999998877765432221333 45677899988877776776665432 11000
Q ss_pred EeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHh-hCCCccEEEEcCCC
Q 001046 618 YMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVK-RRPDLRLIVTSATL 678 (1176)
Q Consensus 618 ~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~-~r~~~kvIlmSATl 678 (1176)
...|.-+...........+|++||||=+- |...-+.++..+..+.. ..|+--+++++||.
T Consensus 165 ~~dp~~i~~~a~~~a~~~~~DvVIIDTaG-rl~~d~~lm~eL~~i~~~v~p~evllVlda~~ 225 (433)
T PRK10867 165 GQDPVDIAKAALEEAKENGYDVVIVDTAG-RLHIDEELMDELKAIKAAVNPDEILLVVDAMT 225 (433)
T ss_pred CCCHHHHHHHHHHHHHhcCCCEEEEeCCC-CcccCHHHHHHHHHHHHhhCCCeEEEEEeccc
Confidence 01233333333322234679999999997 55444445555555443 35666688888887
No 303
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=96.73 E-value=0.0053 Score=69.84 Aligned_cols=86 Identities=26% Similarity=0.323 Sum_probs=56.3
Q ss_pred cCCeEEEEcCCCCcHHHHHHHHHHHhccc-CCCE--EEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCc
Q 001046 538 DNQVLVVIGETGSGKTTQVTQYLAEAGYT-TRGK--IGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDT 614 (1176)
Q Consensus 538 ~~~~vIv~apTGSGKTt~~~~~lle~~~~-~~~~--Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t 614 (1176)
.+++++++||||+||||.+..++...... .+.+ ++-+-|.|+.+.+....++..+|+++. +
T Consensus 193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~~r~~a~eql~~~~~~~~~p~~--~-------------- 256 (282)
T TIGR03499 193 QGGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTDTYRIGAVEQLKTYAKILGVPVK--V-------------- 256 (282)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCccchhHHHHHHHHHHHhCCcee--c--------------
Confidence 56789999999999999988777654332 1233 455667788887777777766654431 0
Q ss_pred eEEEeChHHHHHHHhhCCCCCCCceEEEcCC
Q 001046 615 VIKYMTDGMLLREILIDDNLSQYSVIMLDEA 645 (1176)
Q Consensus 615 ~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEa 645 (1176)
..++.-+...+. .+.++++||||.+
T Consensus 257 ---~~~~~~l~~~l~---~~~~~d~vliDt~ 281 (282)
T TIGR03499 257 ---ARDPKELRKALD---RLRDKDLILIDTA 281 (282)
T ss_pred ---cCCHHHHHHHHH---HccCCCEEEEeCC
Confidence 113444443332 2467899999986
No 304
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=96.69 E-value=0.0097 Score=71.35 Aligned_cols=121 Identities=27% Similarity=0.340 Sum_probs=72.6
Q ss_pred CCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEE--EEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCceE
Q 001046 539 NQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKI--GCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTVI 616 (1176)
Q Consensus 539 ~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~I--lv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t~I 616 (1176)
..+++++|+||+||||.+..+..... ..+.++ +.+-+.|..|.++.+.++...+.++ ++ .. . .
T Consensus 95 p~vI~lvG~~GsGKTTtaakLA~~L~-~~g~kV~lV~~D~~R~aa~eQL~~la~~~gvp~---~~--~~--~----~--- 159 (437)
T PRK00771 95 PQTIMLVGLQGSGKTTTAAKLARYFK-KKGLKVGLVAADTYRPAAYDQLKQLAEKIGVPF---YG--DP--D----N--- 159 (437)
T ss_pred CeEEEEECCCCCcHHHHHHHHHHHHH-HcCCeEEEecCCCCCHHHHHHHHHHHHHcCCcE---Ee--cC--C----c---
Confidence 35788999999999998877665432 223343 4455667777777777777665442 10 00 0 0
Q ss_pred EEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHh-hCCCccEEEEcCCCC
Q 001046 617 KYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVK-RRPDLRLIVTSATLD 679 (1176)
Q Consensus 617 ~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~-~r~~~kvIlmSATl~ 679 (1176)
..+..+++..+. .+..+++||||.+- |....+.++..++.+.. ..|+..+++++||..
T Consensus 160 --~d~~~i~~~al~--~~~~~DvVIIDTAG-r~~~d~~lm~El~~l~~~~~pdevlLVvda~~g 218 (437)
T PRK00771 160 --KDAVEIAKEGLE--KFKKADVIIVDTAG-RHALEEDLIEEMKEIKEAVKPDEVLLVIDATIG 218 (437)
T ss_pred --cCHHHHHHHHHH--HhhcCCEEEEECCC-cccchHHHHHHHHHHHHHhcccceeEEEecccc
Confidence 011122222221 12345999999997 44455556666665544 457888899999874
No 305
>cd05790 S1_Rrp40 S1_Rrp40: Rrp40 S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Rrp4 protein is a subunit of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in eukarytes and archaea. Its functions include the removal of incorrectly processed RNA and the maintenance of proper levels of mRNA, rRNA and a number of small RNA species. In Saccharomyces cerevisiae, the exosome includes nine core components, six of which are homologous to bacterial RNase PH. These form a hexameric ring structure. The other three subunits (RrP4, Rrp40, and Csl4) contain an S1 RNA binding domain and are part of the "S1 pore structure".
Probab=96.68 E-value=0.0081 Score=55.23 Aligned_cols=72 Identities=14% Similarity=0.089 Sum_probs=59.1
Q ss_pred CCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEeC-cEeEEEEee
Q 001046 220 EPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVSG-QKLSLSMRD 294 (1176)
Q Consensus 220 ~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id~-~ki~Ls~k~ 294 (1176)
-|+.|+.+-|+|+.+...+++|+|.. ...|++|.+++... -.+.+..+++||-|.++|.+++. ....|++.+
T Consensus 3 ~P~~gD~VIG~V~~~~~~~~~VdI~s--~~~a~L~~~~f~ga-tk~~rp~L~~GDlV~ArV~~~~~~~~~eLtc~~ 75 (86)
T cd05790 3 VPAKGDHVIGIVVAKAGDFFKVDIGG--SEPASLSYLAFEGA-TKRNRPNLNVGDLVYARVVKANRDMEPELSCVD 75 (86)
T ss_pred cCCCCCEEEEEEEEEcCCeEEEEcCC--CcceEechHHcccc-cccccccCCCCCEEEEEEEecCCCCCeEEEEeC
Confidence 37889999999999999999999986 46899999888654 22335569999999999999984 467777766
No 306
>TIGR00596 rad1 DNA repair protein (rad1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford Universit
Probab=96.67 E-value=0.01 Score=76.06 Aligned_cols=66 Identities=15% Similarity=0.084 Sum_probs=48.5
Q ss_pred CceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCCCC
Q 001046 613 DTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSATLD 679 (1176)
Q Consensus 613 ~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSATl~ 679 (1176)
...|+++|+.+|..-++... .+..++.||||||| |...+-...-+++.....+++--|.+|||.+.
T Consensus 7 ~ggi~~~T~rIl~~DlL~~ri~~~~itgiiv~~Ah-r~~~~~~eaFI~rlyr~~n~~gfIkafSdsP~ 73 (814)
T TIGR00596 7 EGGIFSITSRILVVDLLTGIIPPELITGILVLRAD-RIIESSQEAFILRLYRQKNKTGFIKAFSDNPE 73 (814)
T ss_pred cCCEEEEechhhHhHHhcCCCCHHHccEEEEeecc-cccccccHHHHHHHHHHhCCCcceEEecCCCc
Confidence 35689999999988877766 78999999999999 54433323333344444666778999999984
No 307
>PF00580 UvrD-helicase: UvrD/REP helicase N-terminal domain; InterPro: IPR000212 Members of this family are helicases that catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. THe family includes both Rep and UvrD helcases. The Rep family helicases are composed of four structural domains []. The Rep proteins function as dimers.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 1UAA_B 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A 1QHG_A 1PJR_A ....
Probab=96.59 E-value=0.0033 Score=72.02 Aligned_cols=65 Identities=25% Similarity=0.291 Sum_probs=49.6
Q ss_pred HHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcc---cCCCEEEEeccHHHHHHHHHHHHHHHhC
Q 001046 527 KLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGY---TTRGKIGCTQPRRVAAMSVAKRVAEEFG 593 (1176)
Q Consensus 527 ~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~---~~~~~Ilv~~PrR~lA~qva~rva~e~g 593 (1176)
+-|.+++.. .++.++|.|..|||||+++..-++.... ....+|+|+.+|+.+|.++..|+...++
T Consensus 3 ~eQ~~~i~~--~~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~aa~e~~~ri~~~l~ 70 (315)
T PF00580_consen 3 DEQRRIIRS--TEGPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNAAAQEMRERIRELLE 70 (315)
T ss_dssp HHHHHHHHS---SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHhC--CCCCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHHHHHHHHHHHHHhcC
Confidence 457777776 6788999999999999988775544322 2345899999999999999999987654
No 308
>PRK07952 DNA replication protein DnaC; Validated
Probab=96.58 E-value=0.029 Score=62.21 Aligned_cols=114 Identities=17% Similarity=0.221 Sum_probs=62.7
Q ss_pred CeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCceEEEe
Q 001046 540 QVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTVIKYM 619 (1176)
Q Consensus 540 ~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t~I~~~ 619 (1176)
..+++.|++|+|||+.+...+.+. ...+..++++ +... +...+...+... -.
T Consensus 100 ~~~~l~G~~GtGKThLa~aia~~l-~~~g~~v~~i-t~~~----l~~~l~~~~~~~----------------------~~ 151 (244)
T PRK07952 100 ASFIFSGKPGTGKNHLAAAICNEL-LLRGKSVLII-TVAD----IMSAMKDTFSNS----------------------ET 151 (244)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHH-HhcCCeEEEE-EHHH----HHHHHHHHHhhc----------------------cc
Confidence 579999999999998776655543 2334456555 2222 222222222100 01
Q ss_pred ChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhC-CCccEEEEcCCCCHHHHHhhhc
Q 001046 620 TDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRR-PDLRLIVTSATLDAEKFSGYFF 688 (1176)
Q Consensus 620 T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r-~~~kvIlmSATl~~~~~~~~f~ 688 (1176)
+...+++. +.++++|||||++.-. .++.-..++-.++..| .+.+-+++|--++.+.+...++
T Consensus 152 ~~~~~l~~------l~~~dlLvIDDig~~~-~s~~~~~~l~~Ii~~Ry~~~~~tiitSNl~~~~l~~~~g 214 (244)
T PRK07952 152 SEEQLLND------LSNVDLLVIDEIGVQT-ESRYEKVIINQIVDRRSSSKRPTGMLTNSNMEEMTKLLG 214 (244)
T ss_pred cHHHHHHH------hccCCEEEEeCCCCCC-CCHHHHHHHHHHHHHHHhCCCCEEEeCCCCHHHHHHHhC
Confidence 22233333 5679999999999533 4555555555555533 2234445555566666666553
No 309
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=96.53 E-value=0.0035 Score=75.16 Aligned_cols=66 Identities=15% Similarity=0.291 Sum_probs=56.4
Q ss_pred chHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHH
Q 001046 525 IYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAE 590 (1176)
Q Consensus 525 i~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~ 590 (1176)
+...|..++++++++...+|+||+|+|||....-.++.......+.|+|+.|.-+++.++|..+.+
T Consensus 411 LN~SQ~~AV~~VL~rplsLIQGPPGTGKTvtsa~IVyhl~~~~~~~VLvcApSNiAVDqLaeKIh~ 476 (935)
T KOG1802|consen 411 LNASQSNAVKHVLQRPLSLIQGPPGTGKTVTSATIVYHLARQHAGPVLVCAPSNIAVDQLAEKIHK 476 (935)
T ss_pred hchHHHHHHHHHHcCCceeeecCCCCCceehhHHHHHHHHHhcCCceEEEcccchhHHHHHHHHHh
Confidence 667899999999999999999999999996666666654444678999999999999999998743
No 310
>TIGR00376 DNA helicase, putative. The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.
Probab=96.52 E-value=0.0057 Score=77.09 Aligned_cols=66 Identities=18% Similarity=0.322 Sum_probs=54.8
Q ss_pred CchHHHHHHHHHHHcC-CeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHH
Q 001046 524 PIYKLKKELIQAVHDN-QVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAE 590 (1176)
Q Consensus 524 Pi~~~q~~ii~ai~~~-~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~ 590 (1176)
.+...|.+++..+..+ ..++|.||+|+|||+.+...+... ...+.+|+|+.|+..++..+..++..
T Consensus 157 ~ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~t~~~ii~~~-~~~g~~VLv~a~sn~Avd~l~e~l~~ 223 (637)
T TIGR00376 157 NLNESQKEAVSFALSSKDLFLIHGPPGTGKTRTLVELIRQL-VKRGLRVLVTAPSNIAVDNLLERLAL 223 (637)
T ss_pred CCCHHHHHHHHHHhcCCCeEEEEcCCCCCHHHHHHHHHHHH-HHcCCCEEEEcCcHHHHHHHHHHHHh
Confidence 4677888888888766 789999999999999888777664 33456899999999999999999865
No 311
>PTZ00162 DNA-directed RNA polymerase II subunit 7; Provisional
Probab=96.49 E-value=0.011 Score=62.09 Aligned_cols=72 Identities=19% Similarity=0.210 Sum_probs=55.5
Q ss_pred CCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeeccccccc-ccC-----------CcccccCCCCEEEEEEEEEe--C
Q 001046 220 EPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATR-RIG-----------NAKDVVKRDQEVYVKVISVS--G 285 (1176)
Q Consensus 220 ~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~-~~~-----------~~~~~~~~Gd~V~VkV~~id--~ 285 (1176)
.|..|+++.|+|+++.++|+||.++. .+++||.+++.+. .+. +....+..|+.|++||..+. .
T Consensus 78 rPf~gEVv~g~V~~v~~~G~~v~~Gp---~~ifI~~~~l~~~~~fd~~~~~~~~~~~~~~~~i~~g~~VR~rV~~v~~~~ 154 (176)
T PTZ00162 78 KPFKDEVLDAIVTDVNKLGFFAQAGP---LKAFVSRSAIPPDFVYDSDSAYPCYISSDGQIQIKPNTEVRLRLQGVRYDA 154 (176)
T ss_pred ecCCCCEEEEEEEEEecceEEEEeeC---eEEEEcHHHCCCccEECCCCCcceEecCCCcEEECCCCEEEEEEEEEEecC
Confidence 68899999999999999999999953 5799999999743 111 22446899999999998876 1
Q ss_pred --cEeEEEEee
Q 001046 286 --QKLSLSMRD 294 (1176)
Q Consensus 286 --~ki~Ls~k~ 294 (1176)
-.+-.+||+
T Consensus 155 ~~~~~i~T~~~ 165 (176)
T PTZ00162 155 SNLFAIATINS 165 (176)
T ss_pred CCcEEEEEecC
Confidence 234446665
No 312
>PRK09183 transposase/IS protein; Provisional
Probab=96.45 E-value=0.025 Score=63.56 Aligned_cols=39 Identities=28% Similarity=0.328 Sum_probs=28.4
Q ss_pred HHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEec
Q 001046 536 VHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQ 575 (1176)
Q Consensus 536 i~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~ 575 (1176)
+..+.++++.||+|+|||+.+..+..... ..+..+.++.
T Consensus 99 i~~~~~v~l~Gp~GtGKThLa~al~~~a~-~~G~~v~~~~ 137 (259)
T PRK09183 99 IERNENIVLLGPSGVGKTHLAIALGYEAV-RAGIKVRFTT 137 (259)
T ss_pred hhcCCeEEEEeCCCCCHHHHHHHHHHHHH-HcCCeEEEEe
Confidence 56789999999999999988777654432 2344666653
No 313
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=96.45 E-value=0.0093 Score=67.06 Aligned_cols=24 Identities=33% Similarity=0.637 Sum_probs=20.0
Q ss_pred CCeEEEEcCCCCcHHHHHHHHHHH
Q 001046 539 NQVLVVIGETGSGKTTQVTQYLAE 562 (1176)
Q Consensus 539 ~~~vIv~apTGSGKTt~~~~~lle 562 (1176)
...++++||+|+||||.+-.++..
T Consensus 43 ~~~~~l~G~~G~GKTtl~~~l~~~ 66 (269)
T TIGR03015 43 EGFILITGEVGAGKTTLIRNLLKR 66 (269)
T ss_pred CCEEEEEcCCCCCHHHHHHHHHHh
Confidence 347999999999999998877654
No 314
>KOG2340 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.42 E-value=0.026 Score=66.58 Aligned_cols=322 Identities=19% Similarity=0.184 Sum_probs=176.0
Q ss_pred HHHhcCCchHHHHHHHHHHHcCCeEEEEcCC-CCcH--HHHHHHHHHHhccc----------------------------
Q 001046 518 EQRQSLPIYKLKKELIQAVHDNQVLVVIGET-GSGK--TTQVTQYLAEAGYT---------------------------- 566 (1176)
Q Consensus 518 ~~r~~LPi~~~q~~ii~ai~~~~~vIv~apT-GSGK--Tt~~~~~lle~~~~---------------------------- 566 (1176)
.+.++.|+.+.|.+++....+-++++..-.| +.|+ +..+.+.++.+.+.
T Consensus 210 ~~K~s~pltalQ~~L~~~m~~YrDl~y~~~s~kn~~e~R~lYclH~lNHi~K~r~~IL~Nn~r~~Sqk~g~~~~~~frDQ 289 (698)
T KOG2340|consen 210 DQKKSEPLTALQKELFKIMFNYRDLLYPTRSQKNGEEYRSLYCLHALNHILKTRDLILGNNRRLASQKEGENPDESFRDQ 289 (698)
T ss_pred cccccCcchHHHHHHHHHHHhhhhhccccccccccchhhhhHHHHHHHHHHHHHHHHhcchHhhhhhhcCCCCchhhhhc
Confidence 4678899999999999999999988653222 3444 23344433332211
Q ss_pred --CCCEEEEeccHHHHHHHHHHHHHHH-hCCccCCeeEE-Eeecccc-------------------------cC------
Q 001046 567 --TRGKIGCTQPRRVAAMSVAKRVAEE-FGCRLGEEVGY-AIRFEDC-------------------------TG------ 611 (1176)
Q Consensus 567 --~~~~Ilv~~PrR~lA~qva~rva~e-~g~~~G~~vGy-~ir~~~~-------------------------~~------ 611 (1176)
.+.+|++++|+|+.|..+...+... .|..-|....+ .-||+.. +.
T Consensus 290 G~tRpkVLivvpfRe~A~riVn~lis~l~G~~q~k~~V~Nk~RF~~eys~~te~~~~~~~kP~D~~~lf~GNtDD~FriG 369 (698)
T KOG2340|consen 290 GFTRPKVLIVVPFRESAYRIVNLLISLLSGDDQGKSEVWNKKRFEGEYSGPTELPPPRAKKPEDFEELFSGNTDDAFRIG 369 (698)
T ss_pred CCCCceEEEEecchHHHHHHHHHHHHHhcCccccchhhhhhhhhchhcCCCcccCCCCCCCchhHHHHhcCCCcchhhhh
Confidence 1348999999999999998877665 44433322111 0111110 00
Q ss_pred --------------CCceEEEeChHHHHHHHhhC--------CCCCCCceEEEcCCCc-CCCchhHHHHHHHHHHhhC--
Q 001046 612 --------------PDTVIKYMTDGMLLREILID--------DNLSQYSVIMLDEAHE-RTIHTDVLFGLLKQLVKRR-- 666 (1176)
Q Consensus 612 --------------~~t~I~~~T~g~Llr~l~~~--------~~L~~~s~IIiDEaHe-R~~~~d~ll~llk~~~~~r-- 666 (1176)
...+|++|+|=-| |+++.+ ..|+.+.++|||-||- -.-+.+-++.++..+-...
T Consensus 370 l~ftkKtikLys~fy~SDIlVaSPLGL-Rmil~n~gdkkrd~dfLSSIEl~iIDQa~~~l~QNwEhl~~ifdHLn~~P~k 448 (698)
T KOG2340|consen 370 LAFTKKTIKLYSKFYKSDILVASPLGL-RMILGNTGDKKRDFDFLSSIELLIIDQADIMLMQNWEHLLHIFDHLNLQPSK 448 (698)
T ss_pred HHHHHHHHHHHhhhcccCeEEecchhh-hhhhcCCCcccccchhhhhhhhhhhhhHHHHHHhhHHHHHHHHHHhhcCccc
Confidence 2678999998443 555541 1589999999999993 1122223333333332211
Q ss_pred -CC------------------ccEEEEcCCCCHH---HHHhhhcC-------CCeE---ecCCceeeeEEEEecCC----
Q 001046 667 -PD------------------LRLIVTSATLDAE---KFSGYFFN-------CNIF---TIPGRTFPVEILYTKQP---- 710 (1176)
Q Consensus 667 -~~------------------~kvIlmSATl~~~---~~~~~f~~-------~~v~---~i~gr~~pv~~~~~~~~---- 710 (1176)
++ .|++++|+-.++. .|..|..+ .++. .+..-.+|+...|....
T Consensus 449 ~h~~DfSRVR~wyL~~qsr~~rQtl~Fs~y~~~~~nS~fn~~c~N~~Gkv~~~~~~~~gsi~~v~~~l~Qvf~ri~~~si 528 (698)
T KOG2340|consen 449 QHDVDFSRVRMWYLDGQSRYFRQTLLFSRYSHPLFNSLFNQYCQNMAGKVKARNLQSGGSISNVGIPLCQVFQRIEVKSI 528 (698)
T ss_pred ccCCChhheehheeccHHHHHHHHHHHHhhccHHHHHHHHHhhhhhcceeeeccccCCCchhhccchhhhhhhheeccCc
Confidence 11 2455566554321 22222211 0111 11111233332222211
Q ss_pred --CchhHHH-HHHHHHHHHhcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEe--cCCCCHHHHHhhcCC
Q 001046 711 --ESDYLDA-SLITVLQIHLTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPV--YSALPSEMQSRIFDP 785 (1176)
Q Consensus 711 --~~~~~~~-~l~~v~~i~~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~l--hs~l~~~~r~~i~~~ 785 (1176)
..|+.-. .+..++--........|||+.|+.-+--++-..+.+.. +....+ |+.-..-.|.+ +-
T Consensus 529 ~~~~D~RFkyFv~~ImPq~~k~t~s~~LiyIPSYfDFVRvRNy~K~e~---------i~F~~i~EYssk~~vsRAR--~l 597 (698)
T KOG2340|consen 529 IETPDARFKYFVDKIMPQLIKRTESGILIYIPSYFDFVRVRNYMKKEE---------ISFVMINEYSSKSKVSRAR--EL 597 (698)
T ss_pred ccCchHHHHHHHHhhchhhcccccCceEEEecchhhHHHHHHHhhhhh---------cchHHHhhhhhHhhhhHHH--HH
Confidence 1121111 11222222222335679999999988877777766531 222222 33332222322 34
Q ss_pred CCCCCceEEEEcchhh--hccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC-----CcEEE
Q 001046 786 APPGKRKVVVATNIAE--ASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG-----PGKCY 858 (1176)
Q Consensus 786 f~~g~~kVlVATniae--~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g-----~G~c~ 858 (1176)
|-.|...|++-|-=|- +--+|.||+-||-|+. ...|.=....+.+.+|+--.| .-.|-
T Consensus 598 F~qgr~~vlLyTER~hffrR~~ikGVk~vVfYqp---------------P~~P~FYsEiinm~~k~~~~gn~d~d~~t~~ 662 (698)
T KOG2340|consen 598 FFQGRKSVLLYTERAHFFRRYHIKGVKNVVFYQP---------------PNNPHFYSEIINMSDKTTSQGNTDLDIFTVR 662 (698)
T ss_pred HHhcCceEEEEehhhhhhhhheecceeeEEEecC---------------CCCcHHHHHHHhhhhhhhccCCccccceEEE
Confidence 5678899999996543 4678999999996666 112566778888888885444 24689
Q ss_pred EecChHHH
Q 001046 859 RLYTESAY 866 (1176)
Q Consensus 859 ~L~t~~~~ 866 (1176)
.||++-+-
T Consensus 663 ilytKyD~ 670 (698)
T KOG2340|consen 663 ILYTKYDR 670 (698)
T ss_pred EEeechhh
Confidence 99998654
No 315
>PF05127 Helicase_RecD: Helicase; InterPro: IPR007807 This domain is about 350 amino acid residues long and appears to have a P-loop motif, suggesting this is an ATPase. This domain is often N-terminal to a GCN5-related N-acetyltransferase domain IPR000182 from INTERPRO and C-terminal to IPR013562 from INTERPRO.; PDB: 2ZPA_B.
Probab=96.41 E-value=0.0024 Score=66.97 Aligned_cols=117 Identities=24% Similarity=0.284 Sum_probs=57.0
Q ss_pred EEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeec-------ccccCCCce
Q 001046 543 VVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRF-------EDCTGPDTV 615 (1176)
Q Consensus 543 Iv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~-------~~~~~~~t~ 615 (1176)
||+|+-|-|||+++-+.+.........+|+|+.|+...+..+.+.+...+. ..||.... .........
T Consensus 1 VltA~RGRGKSa~lGl~~a~l~~~~~~~I~vtAP~~~~~~~lf~~~~~~l~-----~~~~~~~~~~~~~~~~~~~~~~~~ 75 (177)
T PF05127_consen 1 VLTADRGRGKSAALGLAAAALIQKGKIRILVTAPSPENVQTLFEFAEKGLK-----ALGYKEEKKKRIGQIIKLRFNKQR 75 (177)
T ss_dssp -EEE-TTSSHHHHHHHCCCCSSS-----EEEE-SS--S-HHHHHCC-------------------------------CCC
T ss_pred CccCCCCCCHHHHHHHHHHHHHHhcCceEEEecCCHHHHHHHHHHHHhhcc-----ccccccccccccccccccccccce
Confidence 689999999999988877664333335799999999998888775433321 12221100 001123567
Q ss_pred EEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCCCC
Q 001046 616 IKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSATLD 679 (1176)
Q Consensus 616 I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSATl~ 679 (1176)
|.|..|..+... -...+++|||||= .+.. .+|+.++.. ...++||.|+.
T Consensus 76 i~f~~Pd~l~~~------~~~~DlliVDEAA--aIp~----p~L~~ll~~---~~~vv~stTi~ 124 (177)
T PF05127_consen 76 IEFVAPDELLAE------KPQADLLIVDEAA--AIPL----PLLKQLLRR---FPRVVFSTTIH 124 (177)
T ss_dssp --B--HHHHCCT----------SCEEECTGG--GS-H----HHHHHHHCC---SSEEEEEEEBS
T ss_pred EEEECCHHHHhC------cCCCCEEEEechh--cCCH----HHHHHHHhh---CCEEEEEeecc
Confidence 888888766332 2245899999985 3333 445555433 35678888884
No 316
>cd04462 S1_RNAPII_Rpb7 S1_RNAPII_Rpb7: Eukaryotic RNA polymerase II (RNAPII) Rpb7 subunit C-terminal S1 domain. RNAPII is composed of 12 subunits (Rpb1-12). Rpb4 and Rpb7 form a heterodimer that associate with the RNAPII core. Rpb7 is a homolog of the Rpc25 of RNA polymerase III, RpoE of the archaeal RNA polymerase, and Rpa43 of eukaryotic RNA polymerase I. Rpb7 has two domains, an N-terminal ribonucleoprotein (RNP) domain and a C-terminal S1 domain, both of which bind single-stranded RNA. It is possible that the S1 domain interacts with the nascent RNA transcript, assisted by the RNP domain. In yeast, Rpb4/Rpb7 is necessary for promoter-directed transcription initiation. They also play a role in regulating transcription-coupled repair in the Rad26-dependent pathway, in efficient mRNA export, and in transcription termination.
Probab=96.41 E-value=0.011 Score=54.76 Aligned_cols=59 Identities=24% Similarity=0.254 Sum_probs=47.5
Q ss_pred CCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCC-----------cccccCCCCEEEEEEEEEe
Q 001046 223 LYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGN-----------AKDVVKRDQEVYVKVISVS 284 (1176)
Q Consensus 223 ~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~-----------~~~~~~~Gd~V~VkV~~id 284 (1176)
.|+++.|+|+++.++|+||.++ ..+||+|.+.+..+..-+ ....+..|+.|++||+.+.
T Consensus 1 kgEVi~g~V~~v~~~G~~v~~G---pl~~f~~~~~ip~~~~~~~~~~~~~~~~~~~~~i~~g~~VR~rV~~v~ 70 (88)
T cd04462 1 KGEVVDAIVTSVNKTGFFAEVG---PLSIFISRHLIPSDMEFDPNASPPCFTSNEDIVIKKDTEVRLKIIGTR 70 (88)
T ss_pred CCcEEEEEEEEEeccEEEEEEc---CceEEEEeeecCccceECCcCCCCeEeCCCcEEECCCCEEEEEEEEEE
Confidence 4899999999999999999996 368999998886542222 2345889999999998875
No 317
>TIGR02062 RNase_B exoribonuclease II. This family consists of exoribonuclease II, the product of the rnb gene, as found in a number of gamma proteobacteria. In Escherichia coli, it is one of eight different exoribonucleases. It is involved in mRNA degradation and tRNA precursor end processing.
Probab=96.35 E-value=0.0078 Score=75.78 Aligned_cols=66 Identities=14% Similarity=0.207 Sum_probs=52.0
Q ss_pred CCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccc--ccc--C--C-----cc-cccCCCCEEEEEEEEEe--CcEeE
Q 001046 224 YQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIAT--RRI--G--N-----AK-DVVKRDQEVYVKVISVS--GQKLS 289 (1176)
Q Consensus 224 g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~--~~~--~--~-----~~-~~~~~Gd~V~VkV~~id--~~ki~ 289 (1176)
|..|.|.|++++.||+||+|.+ .+.+||||++.+.. +.+ . . .+ ..++.||.|+|+|.++| .++|.
T Consensus 558 ~~~f~g~I~~v~~~g~~v~l~~-~~~~g~v~~~~l~~~~~~~~~~~~~~~~~l~g~~~~~lgd~v~V~v~~vd~~~~~i~ 636 (639)
T TIGR02062 558 NTRFAAEIVDISRGGMRVRLLE-NGAIAFIPAAFLHANREELVCNQENGTVQIKGETVYKIGDVIDVVLTEVRMETRSII 636 (639)
T ss_pred CcEEEEEEEeeeCCcEEEEEec-CceEEEEEhhhcCCCCcceEEcccccEEEEeccEEEecCCEEEEEEEEeccccCcEe
Confidence 5599999999999999999975 47899999999965 222 1 0 01 26999999999999998 45555
Q ss_pred E
Q 001046 290 L 290 (1176)
Q Consensus 290 L 290 (1176)
+
T Consensus 637 ~ 637 (639)
T TIGR02062 637 A 637 (639)
T ss_pred e
Confidence 4
No 318
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=96.29 E-value=0.02 Score=71.75 Aligned_cols=32 Identities=25% Similarity=0.386 Sum_probs=23.0
Q ss_pred HHHHHHcCC---eEEEEcCCCCcHHHHHHHHHHHh
Q 001046 532 LIQAVHDNQ---VLVVIGETGSGKTTQVTQYLAEA 563 (1176)
Q Consensus 532 ii~ai~~~~---~vIv~apTGSGKTt~~~~~lle~ 563 (1176)
+.+++..++ -+|++|+.|+||||.+..+....
T Consensus 28 L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaL 62 (830)
T PRK07003 28 LTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKAL 62 (830)
T ss_pred HHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence 344455543 56899999999999887766553
No 319
>COG1444 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]
Probab=96.29 E-value=0.14 Score=64.40 Aligned_cols=120 Identities=23% Similarity=0.283 Sum_probs=73.3
Q ss_pred CeEEEEcCCCCcHHHHHHHHHHHhcccC-CCEEEEeccHHHHHHHHHHHHHH---HhCCccCCeeEEEeeccc--ccCCC
Q 001046 540 QVLVVIGETGSGKTTQVTQYLAEAGYTT-RGKIGCTQPRRVAAMSVAKRVAE---EFGCRLGEEVGYAIRFED--CTGPD 613 (1176)
Q Consensus 540 ~~vIv~apTGSGKTt~~~~~lle~~~~~-~~~Ilv~~PrR~lA~qva~rva~---e~g~~~G~~vGy~ir~~~--~~~~~ 613 (1176)
+.++|.|.=|=|||.++-+.++...... ...|+||.|+.+.+..+.+..-+ .+|...+ |.+...++. .....
T Consensus 232 ~~~vlTAdRGRGKSA~lGi~~~~~~~~~~~~~iiVTAP~~~nv~~Lf~fa~~~l~~lg~~~~--v~~d~~g~~~~~~~~~ 309 (758)
T COG1444 232 RALVLTADRGRGKSAALGIALAAAARLAGSVRIIVTAPTPANVQTLFEFAGKGLEFLGYKRK--VAPDALGEIREVSGDG 309 (758)
T ss_pred ceEEEEcCCCCcHhHHHhHHHHHHHHhcCCceEEEeCCCHHHHHHHHHHHHHhHHHhCCccc--cccccccceeeecCCc
Confidence 3899999999999988775553322111 45899999999999988875433 2332211 111110111 11234
Q ss_pred ceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCCCC
Q 001046 614 TVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSATLD 679 (1176)
Q Consensus 614 t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSATl~ 679 (1176)
..|-|.+|.... ..-++||||||= .+.. .+|..+... .+.++||.|+.
T Consensus 310 ~~i~y~~P~~a~---------~~~DllvVDEAA--aIpl----plL~~l~~~---~~rv~~sTTIh 357 (758)
T COG1444 310 FRIEYVPPDDAQ---------EEADLLVVDEAA--AIPL----PLLHKLLRR---FPRVLFSTTIH 357 (758)
T ss_pred eeEEeeCcchhc---------ccCCEEEEehhh--cCCh----HHHHHHHhh---cCceEEEeeec
Confidence 457888875542 126899999985 3444 344444443 36789999994
No 320
>TIGR02881 spore_V_K stage V sporulation protein K. Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.
Probab=96.11 E-value=0.027 Score=63.31 Aligned_cols=22 Identities=27% Similarity=0.315 Sum_probs=18.0
Q ss_pred CCeEEEEcCCCCcHHHHHHHHH
Q 001046 539 NQVLVVIGETGSGKTTQVTQYL 560 (1176)
Q Consensus 539 ~~~vIv~apTGSGKTt~~~~~l 560 (1176)
..++++.||+||||||.+-.+.
T Consensus 42 ~~~vll~GppGtGKTtlA~~ia 63 (261)
T TIGR02881 42 VLHMIFKGNPGTGKTTVARILG 63 (261)
T ss_pred cceEEEEcCCCCCHHHHHHHHH
Confidence 3578999999999998876554
No 321
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.08 E-value=0.024 Score=68.27 Aligned_cols=32 Identities=25% Similarity=0.359 Sum_probs=23.8
Q ss_pred HHHHHHcCC---eEEEEcCCCCcHHHHHHHHHHHh
Q 001046 532 LIQAVHDNQ---VLVVIGETGSGKTTQVTQYLAEA 563 (1176)
Q Consensus 532 ii~ai~~~~---~vIv~apTGSGKTt~~~~~lle~ 563 (1176)
+..++..++ .++++||.|+||||.+-.++...
T Consensus 30 L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~L 64 (484)
T PRK14956 30 LQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRL 64 (484)
T ss_pred HHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhc
Confidence 444556665 36999999999999888776553
No 322
>cd01120 RecA-like_NTPases RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Probab=96.08 E-value=0.047 Score=55.65 Aligned_cols=35 Identities=34% Similarity=0.436 Sum_probs=26.2
Q ss_pred eEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEecc
Q 001046 541 VLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQP 576 (1176)
Q Consensus 541 ~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~P 576 (1176)
.++|+|++|+|||+.+..++..... .++.++++..
T Consensus 1 ~~~i~G~~G~GKT~l~~~i~~~~~~-~~~~v~~~~~ 35 (165)
T cd01120 1 LILVFGPTGSGKTTLALQLALNIAT-KGGKVVYVDI 35 (165)
T ss_pred CeeEeCCCCCCHHHHHHHHHHHHHh-cCCEEEEEEC
Confidence 3689999999999998888776543 4566666544
No 323
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda. Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.
Probab=96.06 E-value=0.042 Score=60.03 Aligned_cols=26 Identities=31% Similarity=0.483 Sum_probs=21.0
Q ss_pred HcCCeEEEEcCCCCcHHHHHHHHHHH
Q 001046 537 HDNQVLVVIGETGSGKTTQVTQYLAE 562 (1176)
Q Consensus 537 ~~~~~vIv~apTGSGKTt~~~~~lle 562 (1176)
..+..+++.||+|+|||+.+-.+...
T Consensus 36 ~~~~~lll~G~~G~GKT~la~~~~~~ 61 (226)
T TIGR03420 36 KGDRFLYLWGESGSGKSHLLQAACAA 61 (226)
T ss_pred CCCCeEEEECCCCCCHHHHHHHHHHH
Confidence 34678999999999999888766544
No 324
>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]
Probab=96.03 E-value=0.018 Score=74.43 Aligned_cols=77 Identities=21% Similarity=0.307 Sum_probs=70.9
Q ss_pred CCCCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe--CcEeEEEEeec
Q 001046 218 GNEPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS--GQKLSLSMRDV 295 (1176)
Q Consensus 218 ~~~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id--~~ki~Ls~k~~ 295 (1176)
-++.+.|+++.|.|..+.+.|+|+.+.. +.++++++|+++..+.......|.+||.|.++|++++ .++|.|+++..
T Consensus 1157 ~eDlk~g~iv~G~V~nv~~~glfi~ls~--~v~a~v~is~~~ds~~k~w~k~~~~gklv~~rv~~ve~~s~riel~Lk~s 1234 (1710)
T KOG1070|consen 1157 IEDLKIGDIVRGFVKNVETKGLFIALSR--KVEAFVPISGLSDSFEKEWEKHLPVGKLVTGRVLSVEEDSKRIELSLKNS 1234 (1710)
T ss_pred hhhcccCceeEEEEEEecCCcEEEEEcc--ceEEEEEccccccchhhhhhccCCccceeeeEEEEeeccCceEEEEEecc
Confidence 4689999999999999999999999975 7899999999999999889999999999999999999 56999999985
Q ss_pred c
Q 001046 296 D 296 (1176)
Q Consensus 296 d 296 (1176)
+
T Consensus 1235 ~ 1235 (1710)
T KOG1070|consen 1235 D 1235 (1710)
T ss_pred c
Confidence 3
No 325
>PRK06835 DNA replication protein DnaC; Validated
Probab=96.03 E-value=0.044 Score=63.54 Aligned_cols=37 Identities=24% Similarity=0.245 Sum_probs=24.9
Q ss_pred cCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEec
Q 001046 538 DNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQ 575 (1176)
Q Consensus 538 ~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~ 575 (1176)
.+..+++.|+||+|||+.+...+.+ ....+..|+++.
T Consensus 182 ~~~~Lll~G~~GtGKThLa~aIa~~-l~~~g~~V~y~t 218 (329)
T PRK06835 182 NNENLLFYGNTGTGKTFLSNCIAKE-LLDRGKSVIYRT 218 (329)
T ss_pred cCCcEEEECCCCCcHHHHHHHHHHH-HHHCCCeEEEEE
Confidence 4689999999999999865544333 333344565543
No 326
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=96.01 E-value=0.058 Score=59.19 Aligned_cols=37 Identities=19% Similarity=0.317 Sum_probs=24.7
Q ss_pred cCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEec
Q 001046 538 DNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQ 575 (1176)
Q Consensus 538 ~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~ 575 (1176)
.++.++++||+|+|||+.+-.+..+. ...+..++++.
T Consensus 41 ~~~~~~l~G~~G~GKT~La~ai~~~~-~~~~~~~~~i~ 77 (227)
T PRK08903 41 ADRFFYLWGEAGSGRSHLLQALVADA-SYGGRNARYLD 77 (227)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHHH-HhCCCcEEEEe
Confidence 45689999999999998777655443 22333444443
No 327
>PRK08727 hypothetical protein; Validated
Probab=96.00 E-value=0.034 Score=61.50 Aligned_cols=35 Identities=23% Similarity=0.212 Sum_probs=22.9
Q ss_pred CCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEe
Q 001046 539 NQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCT 574 (1176)
Q Consensus 539 ~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~ 574 (1176)
.+.+++.|++|+|||..+..+..+. ...+.+++|+
T Consensus 41 ~~~l~l~G~~G~GKThL~~a~~~~~-~~~~~~~~y~ 75 (233)
T PRK08727 41 SDWLYLSGPAGTGKTHLALALCAAA-EQAGRSSAYL 75 (233)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHH-HHcCCcEEEE
Confidence 3569999999999997666544432 2223355554
No 328
>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins. TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].
Probab=95.95 E-value=0.044 Score=61.92 Aligned_cols=119 Identities=14% Similarity=0.204 Sum_probs=68.8
Q ss_pred CeEEEEcCCCCcHHHHHHHHHHHhcccCC------CEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCC
Q 001046 540 QVLVVIGETGSGKTTQVTQYLAEAGYTTR------GKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPD 613 (1176)
Q Consensus 540 ~~vIv~apTGSGKTt~~~~~lle~~~~~~------~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~ 613 (1176)
.+++|+|+||-|||+.+-.|.-.+..... ..+.+-.|...-....+..+...+|.+....-
T Consensus 62 p~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lgaP~~~~~------------- 128 (302)
T PF05621_consen 62 PNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEALGAPYRPRD------------- 128 (302)
T ss_pred CceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHHhCcccCCCC-------------
Confidence 58999999999999999888766432211 12344456666666667777777776643210
Q ss_pred ceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCc--CC--CchhHHHHHHHHHHhhCCCccEEEEcCCCC
Q 001046 614 TVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHE--RT--IHTDVLFGLLKQLVKRRPDLRLIVTSATLD 679 (1176)
Q Consensus 614 t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHe--R~--~~~d~ll~llk~~~~~r~~~kvIlmSATl~ 679 (1176)
.+.-.+. ..++.+. --++.+|||||+|. .+ ...-..+..||.+.+. -.+.+|++ .|.+
T Consensus 129 -~~~~~~~-~~~~llr----~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~Ne-L~ipiV~v-Gt~~ 190 (302)
T PF05621_consen 129 -RVAKLEQ-QVLRLLR----RLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNE-LQIPIVGV-GTRE 190 (302)
T ss_pred -CHHHHHH-HHHHHHH----HcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhc-cCCCeEEe-ccHH
Confidence 0000011 1111111 24678999999995 22 2233567777777543 24556655 4543
No 329
>KOG2146 consensus Splicing coactivator SRm160/300, subunit SRm160 (contains PWI domain) [RNA processing and modification; General function prediction only]
Probab=95.95 E-value=0.032 Score=60.65 Aligned_cols=57 Identities=21% Similarity=0.351 Sum_probs=44.1
Q ss_pred HHHHHHHhhhCCCChhHHHHHHHHHhhCCChHHHHHHHHHcCCCCC-----HHHHHHHHHHHHh
Q 001046 21 KVCSELETHLGFGDKVLAEFITELGRNCETVDEFDSKLKENGAEMP-----DYFVRTLLTIIHA 79 (1176)
Q Consensus 21 kv~~el~nhlgi~dk~laefii~l~~~~~~~~~F~~~l~~~ga~~~-----~~~~~~l~~li~~ 79 (1176)
=|++-|...||+.|.+|.|||..+-++.++++- ++|+=|=.+|= -+|+..||.||..
T Consensus 48 WItkrvneilgfEDdVViefvynqLee~k~ldp--kkmQiNlTGFLngrnAreFmgeLW~LliS 109 (354)
T KOG2146|consen 48 WITKRVNEILGFEDDVVIEFVYNQLEEAKNLDP--KKMQINLTGFLNGRNAREFMGELWSLLIS 109 (354)
T ss_pred HHHHHHHHhhccccchhHHHHHHHHhhhcCCCc--hheeeeeehhcccccHHHHHHHHHHHHHh
Confidence 467788889999999999999999998776662 33333333443 4799999999986
No 330
>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=95.94 E-value=0.021 Score=66.19 Aligned_cols=65 Identities=20% Similarity=0.283 Sum_probs=55.9
Q ss_pred CCCCEEEEEEEEEeece-eEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEeC----cEeEEEEeec
Q 001046 222 ELYQVYKGRVSRVVDTG-CFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVSG----QKLSLSMRDV 295 (1176)
Q Consensus 222 ~~g~~~~g~V~~i~~~G-~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id~----~ki~Ls~k~~ 295 (1176)
+.|+++.|+|.++.+.| +||+++ +.+|++|.++.. |++.+++||.++|.|.+++. ..|-||.+..
T Consensus 130 k~GeiV~G~V~~v~~~g~v~VdiG---~~ea~LP~~E~i------p~E~~~~Gd~ik~~V~~V~~~~kg~qIivSRt~~ 199 (341)
T TIGR01953 130 KEGEIISGTVKRVNRRGNLYVELG---KTEGILPKKEQI------PGEKFRIGDRIKAYVYEVRKTAKGPQIILSRTHP 199 (341)
T ss_pred hcCCEEEEEEEEEecCCcEEEEEC---CeEEEecHHHcC------CCcCCCCCCEEEEEEEEEEcCCCCCeEEEEeCcH
Confidence 58999999999999988 699994 679999999875 45669999999999999982 3688888764
No 331
>PRK12377 putative replication protein; Provisional
Probab=95.90 E-value=0.23 Score=55.36 Aligned_cols=26 Identities=19% Similarity=0.239 Sum_probs=19.9
Q ss_pred cCCeEEEEcCCCCcHHHHHHHHHHHh
Q 001046 538 DNQVLVVIGETGSGKTTQVTQYLAEA 563 (1176)
Q Consensus 538 ~~~~vIv~apTGSGKTt~~~~~lle~ 563 (1176)
....+++.|++|+|||+.+..++...
T Consensus 100 ~~~~l~l~G~~GtGKThLa~AIa~~l 125 (248)
T PRK12377 100 GCTNFVFSGKPGTGKNHLAAAIGNRL 125 (248)
T ss_pred cCCeEEEECCCCCCHHHHHHHHHHHH
Confidence 34689999999999997766655443
No 332
>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif. They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.
Probab=95.90 E-value=0.013 Score=61.90 Aligned_cols=115 Identities=16% Similarity=0.247 Sum_probs=55.5
Q ss_pred HHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCce
Q 001046 536 VHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTV 615 (1176)
Q Consensus 536 i~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t~ 615 (1176)
+..++++++.|+||+|||..+...+.+.. ..+..++++ ....|...+.. ... . +
T Consensus 44 ~~~~~~l~l~G~~G~GKThLa~ai~~~~~-~~g~~v~f~-~~~~L~~~l~~----~~~--------------~----~-- 97 (178)
T PF01695_consen 44 IENGENLILYGPPGTGKTHLAVAIANEAI-RKGYSVLFI-TASDLLDELKQ----SRS--------------D----G-- 97 (178)
T ss_dssp -SC--EEEEEESTTSSHHHHHHHHHHHHH-HTT--EEEE-EHHHHHHHHHC----CHC--------------C----T--
T ss_pred cccCeEEEEEhhHhHHHHHHHHHHHHHhc-cCCcceeEe-ecCceeccccc----ccc--------------c----c--
Confidence 56788999999999999987766655542 334455554 33333333221 000 0 0
Q ss_pred EEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCc---hhHHHHHHHHHHhhCCCccEEEEcCCCCHHHHHhhhcCC
Q 001046 616 IKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIH---TDVLFGLLKQLVKRRPDLRLIVTSATLDAEKFSGYFFNC 690 (1176)
Q Consensus 616 I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~---~d~ll~llk~~~~~r~~~kvIlmSATl~~~~~~~~f~~~ 690 (1176)
+...+++. +.+++++||||+---... .+.++.++..-.. ...+|+ |.-++.+.+.+.+++.
T Consensus 98 ----~~~~~~~~------l~~~dlLilDDlG~~~~~~~~~~~l~~ii~~R~~---~~~tIi-TSN~~~~~l~~~~~d~ 161 (178)
T PF01695_consen 98 ----SYEELLKR------LKRVDLLILDDLGYEPLSEWEAELLFEIIDERYE---RKPTII-TSNLSPSELEEVLGDR 161 (178)
T ss_dssp ----THCHHHHH------HHTSSCEEEETCTSS---HHHHHCTHHHHHHHHH---T-EEEE-EESS-HHHHHT-----
T ss_pred ----chhhhcCc------cccccEecccccceeeecccccccchhhhhHhhc---ccCeEe-eCCCchhhHhhccccc
Confidence 11223333 456899999998732221 2233444433322 224555 4456788888888643
No 333
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=95.88 E-value=0.04 Score=71.09 Aligned_cols=32 Identities=22% Similarity=0.323 Sum_probs=23.3
Q ss_pred HHHHHHcC---CeEEEEcCCCCcHHHHHHHHHHHh
Q 001046 532 LIQAVHDN---QVLVVIGETGSGKTTQVTQYLAEA 563 (1176)
Q Consensus 532 ii~ai~~~---~~vIv~apTGSGKTt~~~~~lle~ 563 (1176)
+..++..+ +-+|+.||.|+||||.+..+....
T Consensus 27 L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L 61 (824)
T PRK07764 27 LSTALDSGRINHAYLFSGPRGCGKTSSARILARSL 61 (824)
T ss_pred HHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence 44455554 347899999999999887766553
No 334
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.86 E-value=0.042 Score=70.20 Aligned_cols=49 Identities=22% Similarity=0.419 Sum_probs=29.0
Q ss_pred hCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCCCCHHH
Q 001046 630 IDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSATLDAEK 682 (1176)
Q Consensus 630 ~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSATl~~~~ 682 (1176)
..+.-.++.++||||||. +..+..-.+||.+-.-.+.+++|+. |-+...
T Consensus 113 ~~P~~gk~KViIIDEAh~--LT~eAqNALLKtLEEPP~~vrFILa--TTe~~k 161 (944)
T PRK14949 113 YRPSRGRFKVYLIDEVHM--LSRSSFNALLKTLEEPPEHVKFLLA--TTDPQK 161 (944)
T ss_pred hhhhcCCcEEEEEechHh--cCHHHHHHHHHHHhccCCCeEEEEE--CCCchh
Confidence 344456889999999994 3455555555554333334555554 554443
No 335
>PRK06893 DNA replication initiation factor; Validated
Probab=95.83 E-value=0.075 Score=58.56 Aligned_cols=47 Identities=19% Similarity=0.306 Sum_probs=28.6
Q ss_pred CCCCceEEEcCCCcCCCch---hHHHHHHHHHHhhCCCccEEEEcCCCCHHH
Q 001046 634 LSQYSVIMLDEAHERTIHT---DVLFGLLKQLVKRRPDLRLIVTSATLDAEK 682 (1176)
Q Consensus 634 L~~~s~IIiDEaHeR~~~~---d~ll~llk~~~~~r~~~kvIlmSATl~~~~ 682 (1176)
+.++++|||||+|.-.... ..++.++...... +..+|++|++..+..
T Consensus 89 ~~~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~--~~~illits~~~p~~ 138 (229)
T PRK06893 89 LEQQDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQ--GKTLLLISADCSPHA 138 (229)
T ss_pred cccCCEEEEeChhhhcCChHHHHHHHHHHHHHHHc--CCcEEEEeCCCChHH
Confidence 4578899999999532222 2455555554332 345778888875543
No 336
>PRK08939 primosomal protein DnaI; Reviewed
Probab=95.81 E-value=0.13 Score=59.12 Aligned_cols=113 Identities=13% Similarity=0.119 Sum_probs=59.0
Q ss_pred cCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEE-EEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCceE
Q 001046 538 DNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKI-GCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTVI 616 (1176)
Q Consensus 538 ~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~I-lv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t~I 616 (1176)
.++.+++.|++|+|||+.+...+.+.. ..+..+ .+..| .++..+... ++. +
T Consensus 155 ~~~gl~L~G~~G~GKThLa~Aia~~l~-~~g~~v~~~~~~--~l~~~lk~~----~~~------------------~--- 206 (306)
T PRK08939 155 KVKGLYLYGDFGVGKSYLLAAIANELA-KKGVSSTLLHFP--EFIRELKNS----ISD------------------G--- 206 (306)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHHHH-HcCCCEEEEEHH--HHHHHHHHH----Hhc------------------C---
Confidence 456899999999999987776555543 223333 34445 233333322 110 0
Q ss_pred EEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhC-CCccEEEEcCCCCHHHHHhhh
Q 001046 617 KYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRR-PDLRLIVTSATLDAEKFSGYF 687 (1176)
Q Consensus 617 ~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r-~~~kvIlmSATl~~~~~~~~f 687 (1176)
+...+++. +.++++|||||+.--.......-.++..++..| ..-+-.++|.-++.+.+...|
T Consensus 207 ---~~~~~l~~------l~~~dlLiIDDiG~e~~s~~~~~~ll~~Il~~R~~~~~~ti~TSNl~~~el~~~~ 269 (306)
T PRK08939 207 ---SVKEKIDA------VKEAPVLMLDDIGAEQMSSWVRDEVLGVILQYRMQEELPTFFTSNFDFDELEHHL 269 (306)
T ss_pred ---cHHHHHHH------hcCCCEEEEecCCCccccHHHHHHHHHHHHHHHHHCCCeEEEECCCCHHHHHHHH
Confidence 11122222 568999999999843332222112333333322 122344455556666666665
No 337
>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.
Probab=95.79 E-value=0.048 Score=57.13 Aligned_cols=121 Identities=21% Similarity=0.274 Sum_probs=62.4
Q ss_pred eEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEE--eccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCceEEE
Q 001046 541 VLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGC--TQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTVIKY 618 (1176)
Q Consensus 541 ~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv--~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t~I~~ 618 (1176)
++++.|++|+||||.+..++.... ..+.++++ +-++|..+.......+...+.++ ... ..+
T Consensus 2 ~~~~~G~~G~GKTt~~~~la~~~~-~~g~~v~~i~~D~~~~~~~~~l~~~~~~~~~~~--------~~~--~~~------ 64 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLALYLK-KKGKKVLLVAADTYRPAAIEQLRVLGEQVGVPV--------FEE--GEG------ 64 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHH-HCCCcEEEEEcCCCChHHHHHHHHhcccCCeEE--------Eec--CCC------
Confidence 578999999999998777665432 22345543 34666544444333333332111 000 000
Q ss_pred eChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHh-hCCCccEEEEcCCCC
Q 001046 619 MTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVK-RRPDLRLIVTSATLD 679 (1176)
Q Consensus 619 ~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~-~r~~~kvIlmSATl~ 679 (1176)
..+..++........-.++++||||..+...... ..+..+..+.. ..++-.+++++|+..
T Consensus 65 ~~~~~~~~~~~~~~~~~~~d~viiDt~g~~~~~~-~~l~~l~~l~~~~~~~~~~lVv~~~~~ 125 (173)
T cd03115 65 KDPVSIAKRAIEHAREENFDVVIVDTAGRLQIDE-NLMEELKKIKRVVKPDEVLLVVDAMTG 125 (173)
T ss_pred CCHHHHHHHHHHHHHhCCCCEEEEECcccchhhH-HHHHHHHHHHhhcCCCeEEEEEECCCC
Confidence 0122222222211223578999999998433322 33444444443 246777777887653
No 338
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=95.77 E-value=0.0072 Score=71.65 Aligned_cols=70 Identities=30% Similarity=0.416 Sum_probs=58.6
Q ss_pred CCCCCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEeC--cEeEEEEeecc
Q 001046 219 NEPELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVSG--QKLSLSMRDVD 296 (1176)
Q Consensus 219 ~~~~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id~--~ki~Ls~k~~d 296 (1176)
++.+.|+.|+|+|++|..||+||+|+. ...||+|-++++.. .-+.+||.+-|+|..+.. +.|+|....++
T Consensus 118 ~Dve~g~~Y~g~v~~v~~~GvFv~Ln~--~v~GL~~~~d~~~~------~~~~vgdeiiV~v~~vr~~~geidf~~~~~~ 189 (715)
T COG1107 118 EDVEAGKYYKGIVSRVEKYGVFVELNS--HVRGLIHRRDLGGD------PDYAVGDEIIVQVSDVRPEKGEIDFEPVGLD 189 (715)
T ss_pred hhcccceeeeccccchhhhcceeecCh--hhhccccccccCCC------CCCCCCCeEEEEeeccCCCCCccceeecCCc
Confidence 478999999999999999999999986 57999999998762 237899999999999973 56777666554
No 339
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=95.76 E-value=0.24 Score=61.39 Aligned_cols=142 Identities=15% Similarity=0.119 Sum_probs=87.2
Q ss_pred HcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhC---C-----ccCCeeE-----EE
Q 001046 537 HDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFG---C-----RLGEEVG-----YA 603 (1176)
Q Consensus 537 ~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g---~-----~~G~~vG-----y~ 603 (1176)
...+..++.+|=|.|||+.+..++.......+-+|+++.|...-+.++.+++...+. . ..+..+. ..
T Consensus 185 fkq~~tV~taPRqrGKS~iVgi~l~~La~f~Gi~IlvTAH~~~ts~evF~rv~~~le~lg~~~~fp~~~~iv~vkgg~E~ 264 (752)
T PHA03333 185 YGKCYTAATVPRRCGKTTIMAIILAAMISFLEIDIVVQAQRKTMCLTLYNRVETVVHAYQHKPWFPEEFKIVTLKGTDEN 264 (752)
T ss_pred HhhcceEEEeccCCCcHHHHHHHHHHHHHhcCCeEEEECCChhhHHHHHHHHHHHHHHhccccccCCCceEEEeeCCeeE
Confidence 345678889999999998887665543332356899999999999998887666442 1 1111111 01
Q ss_pred eecccccC---CCceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCCCC
Q 001046 604 IRFEDCTG---PDTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSATLD 679 (1176)
Q Consensus 604 ir~~~~~~---~~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSATl~ 679 (1176)
+.+..... ..+.|.|++.+ .+. .-..+++||+|||+. +..+.+.+++--+.. .+-++|++|-+-+
T Consensus 265 I~f~~p~gak~G~sti~F~Ars-------~~s~RG~~~DLLIVDEAAf--I~~~~l~aIlP~l~~--~~~k~IiISS~~~ 333 (752)
T PHA03333 265 LEYISDPAAKEGKTTAHFLASS-------PNAARGQNPDLVIVDEAAF--VNPGALLSVLPLMAV--KGTKQIHISSPVD 333 (752)
T ss_pred EEEecCcccccCcceeEEeccc-------CCCcCCCCCCEEEEECccc--CCHHHHHHHHHHHcc--CCCceEEEeCCCC
Confidence 11111111 11455554432 111 113578999999984 444555554444333 3678999999988
Q ss_pred HHHHHhhhcC
Q 001046 680 AEKFSGYFFN 689 (1176)
Q Consensus 680 ~~~~~~~f~~ 689 (1176)
...+..++.+
T Consensus 334 ~~s~tS~L~n 343 (752)
T PHA03333 334 ADSWISRVGE 343 (752)
T ss_pred cchHHHHhhh
Confidence 8888777755
No 340
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=95.75 E-value=0.095 Score=59.67 Aligned_cols=122 Identities=21% Similarity=0.237 Sum_probs=78.4
Q ss_pred CeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEe--ccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCceEE
Q 001046 540 QVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCT--QPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTVIK 617 (1176)
Q Consensus 540 ~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~--~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t~I~ 617 (1176)
.+++++|-.|+||||.+....... ...+.+|++. -..|++|+++.+-.++..|+.+- ... .-+..+.+
T Consensus 140 ~Vil~vGVNG~GKTTTIaKLA~~l-~~~g~~VllaA~DTFRAaAiEQL~~w~er~gv~vI-------~~~-~G~DpAaV- 209 (340)
T COG0552 140 FVILFVGVNGVGKTTTIAKLAKYL-KQQGKSVLLAAGDTFRAAAIEQLEVWGERLGVPVI-------SGK-EGADPAAV- 209 (340)
T ss_pred EEEEEEecCCCchHhHHHHHHHHH-HHCCCeEEEEecchHHHHHHHHHHHHHHHhCCeEE-------ccC-CCCCcHHH-
Confidence 378889999999999988766553 2334455443 46799999998877777776541 111 00111111
Q ss_pred EeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHh-hCCCc------cEEEEcCCCC
Q 001046 618 YMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVK-RRPDL------RLIVTSATLD 679 (1176)
Q Consensus 618 ~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~-~r~~~------kvIlmSATl~ 679 (1176)
..+-+ ....-+++++|++|-|- |..+-.-|+.-|+++.+ ..++. .++++=||.-
T Consensus 210 ------afDAi-~~Akar~~DvvliDTAG-RLhnk~nLM~EL~KI~rV~~k~~~~ap~e~llvlDAttG 270 (340)
T COG0552 210 ------AFDAI-QAAKARGIDVVLIDTAG-RLHNKKNLMDELKKIVRVIKKDDPDAPHEILLVLDATTG 270 (340)
T ss_pred ------HHHHH-HHHHHcCCCEEEEeCcc-cccCchhHHHHHHHHHHHhccccCCCCceEEEEEEcccC
Confidence 22222 22346889999999998 77777777777777766 33333 4566689983
No 341
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=95.74 E-value=0.042 Score=62.71 Aligned_cols=57 Identities=21% Similarity=0.204 Sum_probs=43.6
Q ss_pred hcCCchHHHHHHHHHHHcC--CeEEEEcCCCCcHHHHHHHHHHHhcccC--CCEEEEeccH
Q 001046 521 QSLPIYKLKKELIQAVHDN--QVLVVIGETGSGKTTQVTQYLAEAGYTT--RGKIGCTQPR 577 (1176)
Q Consensus 521 ~~LPi~~~q~~ii~ai~~~--~~vIv~apTGSGKTt~~~~~lle~~~~~--~~~Ilv~~Pr 577 (1176)
...|-...|.-++++++.. ..|.+.|+-|||||..+...-+++.+.. ..+|+++-|+
T Consensus 225 Gi~prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~ 285 (436)
T COG1875 225 GIRPRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPT 285 (436)
T ss_pred ccCcccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCC
Confidence 3456777888899999765 5788899999999987777766654443 3489999886
No 342
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=95.73 E-value=0.065 Score=72.71 Aligned_cols=124 Identities=16% Similarity=0.148 Sum_probs=76.3
Q ss_pred CchHHHHHHHHHHHc--CCeEEEEcCCCCcHHHHHHHHHH--Hhcc-cCCCEEEEeccHHHHHHHHHHHHHHHhCCccCC
Q 001046 524 PIYKLKKELIQAVHD--NQVLVVIGETGSGKTTQVTQYLA--EAGY-TTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGE 598 (1176)
Q Consensus 524 Pi~~~q~~ii~ai~~--~~~vIv~apTGSGKTt~~~~~ll--e~~~-~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~ 598 (1176)
.+.+-|.+++..+.. +++++|+|..|+||||.+-..+. .... ..+..|+.+.||--+|..+.. .|+..
T Consensus 835 ~Lt~~Qr~Av~~iLts~dr~~~IqG~AGTGKTT~l~~i~~~~~~l~e~~g~~V~glAPTgkAa~~L~e-----~Gi~A-- 907 (1623)
T PRK14712 835 KLTSGQRAATRMILETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRS-----AGVDA-- 907 (1623)
T ss_pred ccCHHHHHHHHHHHhCCCceEEEEeCCCCCHHHHHHHHHHHHHHHhhccCceEEEEechHHHHHHHHH-----hCchH--
Confidence 578899999999874 48999999999999998644332 2211 234578889999888766642 23211
Q ss_pred eeEEEeecccccCCCceEEEeChHHHHHH-----HhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEE
Q 001046 599 EVGYAIRFEDCTGPDTVIKYMTDGMLLRE-----ILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIV 673 (1176)
Q Consensus 599 ~vGy~ir~~~~~~~~t~I~~~T~g~Llr~-----l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIl 673 (1176)
.|-..||.. ...+......++||||||- ++....+..+++.+. ..+.++|+
T Consensus 908 --------------------~TIasfL~~~~~~~~~~~~~~~~~~llIVDEAS--MV~~~~m~~ll~~~~--~~garvVL 963 (1623)
T PRK14712 908 --------------------QTLASFLHDTQLQQRSGETPDFSNTLFLLDESS--MVGNTDMARAYALIA--AGGGRAVA 963 (1623)
T ss_pred --------------------hhHHHHhccccchhhcccCCCCCCcEEEEEccc--cccHHHHHHHHHhhh--hCCCEEEE
Confidence 121222211 0111123456899999995 566555555555432 23578888
Q ss_pred EcCCC
Q 001046 674 TSATL 678 (1176)
Q Consensus 674 mSATl 678 (1176)
+.=+-
T Consensus 964 VGD~~ 968 (1623)
T PRK14712 964 SGDTD 968 (1623)
T ss_pred Ecchh
Confidence 87653
No 343
>PRK08116 hypothetical protein; Validated
Probab=95.72 E-value=0.16 Score=57.39 Aligned_cols=36 Identities=22% Similarity=0.186 Sum_probs=23.6
Q ss_pred CCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEec
Q 001046 539 NQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQ 575 (1176)
Q Consensus 539 ~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~ 575 (1176)
+..+++.|++|+|||..+..++.+. ...+..++++.
T Consensus 114 ~~gl~l~G~~GtGKThLa~aia~~l-~~~~~~v~~~~ 149 (268)
T PRK08116 114 NVGLLLWGSVGTGKTYLAACIANEL-IEKGVPVIFVN 149 (268)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHH-HHcCCeEEEEE
Confidence 4469999999999997766544432 33344555553
No 344
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=95.71 E-value=0.068 Score=62.18 Aligned_cols=35 Identities=37% Similarity=0.446 Sum_probs=25.7
Q ss_pred HHHHHHHHHcCC--eEEEEcCCCCcHHHHHHHHHHHh
Q 001046 529 KKELIQAVHDNQ--VLVVIGETGSGKTTQVTQYLAEA 563 (1176)
Q Consensus 529 q~~ii~ai~~~~--~vIv~apTGSGKTt~~~~~lle~ 563 (1176)
...+..++..++ .+++.||+|+|||+.+-.+..+.
T Consensus 24 ~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l 60 (337)
T PRK12402 24 VERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALAREL 60 (337)
T ss_pred HHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence 344445555665 89999999999999887766543
No 345
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=95.70 E-value=0.025 Score=70.81 Aligned_cols=32 Identities=25% Similarity=0.304 Sum_probs=24.3
Q ss_pred HHHHHHHcCCe---EEEEcCCCCcHHHHHHHHHHH
Q 001046 531 ELIQAVHDNQV---LVVIGETGSGKTTQVTQYLAE 562 (1176)
Q Consensus 531 ~ii~ai~~~~~---vIv~apTGSGKTt~~~~~lle 562 (1176)
.+..++..++. +|++||.|+||||.+-.+...
T Consensus 27 ~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~ 61 (647)
T PRK07994 27 ALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKG 61 (647)
T ss_pred HHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHh
Confidence 44556666665 799999999999988776544
No 346
>PRK12327 nusA transcription elongation factor NusA; Provisional
Probab=95.68 E-value=0.032 Score=65.01 Aligned_cols=64 Identities=17% Similarity=0.199 Sum_probs=54.3
Q ss_pred CCCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEeC----cEeEEEEee
Q 001046 222 ELYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVSG----QKLSLSMRD 294 (1176)
Q Consensus 222 ~~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id~----~ki~Ls~k~ 294 (1176)
+.|+++.|+|.++.++|+||+++ +.+|++|.++.. |++.+++||.++|.|.+++. ..|.||...
T Consensus 133 k~GeiV~G~V~~~~~~~~~Vdlg---~vEa~LP~~E~i------p~e~~~~Gd~Ika~V~~V~~~~kgp~IivSRt~ 200 (362)
T PRK12327 133 REGDIVTGVVQRRDNRFVYVNLG---KIEAVLPPAEQI------PGETYKHGDRIKVYVVKVEKTTKGPQIFVSRTH 200 (362)
T ss_pred hcCCEEEEEEEEEeCCcEEEEeC---CeEEEecHHHcC------CCCCCCCCCEEEEEEEEEecCCCCCeEEEEeCC
Confidence 78999999999999999999995 479999987763 47789999999999999982 257777654
No 347
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.66 E-value=0.05 Score=67.37 Aligned_cols=33 Identities=24% Similarity=0.336 Sum_probs=24.2
Q ss_pred HHHHHHHcCC---eEEEEcCCCCcHHHHHHHHHHHh
Q 001046 531 ELIQAVHDNQ---VLVVIGETGSGKTTQVTQYLAEA 563 (1176)
Q Consensus 531 ~ii~ai~~~~---~vIv~apTGSGKTt~~~~~lle~ 563 (1176)
.+.+++.+++ -+|++||.|+||||.+-.+....
T Consensus 27 ~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaL 62 (700)
T PRK12323 27 ALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSL 62 (700)
T ss_pred HHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence 4445566664 56999999999999887766543
No 348
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.60 E-value=0.049 Score=66.17 Aligned_cols=48 Identities=25% Similarity=0.404 Sum_probs=28.1
Q ss_pred HHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEE
Q 001046 625 LREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVT 674 (1176)
Q Consensus 625 lr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlm 674 (1176)
+......|...++.++||||+|. +..+..-++++.+-.-.+...+|+.
T Consensus 105 ie~~~~~P~~~~~KVvIIDEah~--Ls~~A~NaLLK~LEePp~~v~fIla 152 (491)
T PRK14964 105 LENSCYLPISSKFKVYIIDEVHM--LSNSAFNALLKTLEEPAPHVKFILA 152 (491)
T ss_pred HHHHHhccccCCceEEEEeChHh--CCHHHHHHHHHHHhCCCCCeEEEEE
Confidence 34444556778999999999994 3333444445544333334444443
No 349
>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.
Probab=95.52 E-value=0.05 Score=55.41 Aligned_cols=105 Identities=19% Similarity=0.288 Sum_probs=63.8
Q ss_pred HHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCce
Q 001046 536 VHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTV 615 (1176)
Q Consensus 536 i~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t~ 615 (1176)
+..|+.+.|.|++||||||.+-...-.. ....|.|.+-.- ..++|...
T Consensus 23 ~~~Ge~~~i~G~nGsGKStLl~~l~G~~-~~~~G~i~~~~~---------------------~~i~~~~~---------- 70 (144)
T cd03221 23 INPGDRIGLVGRNGAGKSTLLKLIAGEL-EPDEGIVTWGST---------------------VKIGYFEQ---------- 70 (144)
T ss_pred ECCCCEEEEECCCCCCHHHHHHHHcCCC-CCCceEEEECCe---------------------EEEEEEcc----------
Confidence 4678999999999999998776643321 122445433210 13444322
Q ss_pred EEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCCC
Q 001046 616 IKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSATL 678 (1176)
Q Consensus 616 I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSATl 678 (1176)
.+.|+..+..+....+.+..++|+||.- .+++.+....+...+... ...+|+.|..+
T Consensus 71 ---lS~G~~~rv~laral~~~p~illlDEP~-~~LD~~~~~~l~~~l~~~--~~til~~th~~ 127 (144)
T cd03221 71 ---LSGGEKMRLALAKLLLENPNLLLLDEPT-NHLDLESIEALEEALKEY--PGTVILVSHDR 127 (144)
T ss_pred ---CCHHHHHHHHHHHHHhcCCCEEEEeCCc-cCCCHHHHHHHHHHHHHc--CCEEEEEECCH
Confidence 6788888877777788899999999976 455554333333322222 23455554443
No 350
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=95.52 E-value=0.085 Score=61.82 Aligned_cols=34 Identities=26% Similarity=0.322 Sum_probs=25.8
Q ss_pred HHHHHHHHHcCC---eEEEEcCCCCcHHHHHHHHHHH
Q 001046 529 KKELIQAVHDNQ---VLVVIGETGSGKTTQVTQYLAE 562 (1176)
Q Consensus 529 q~~ii~ai~~~~---~vIv~apTGSGKTt~~~~~lle 562 (1176)
...+..++.+++ -++++||+|+||||.+-.++..
T Consensus 32 ~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~ 68 (351)
T PRK09112 32 EAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANH 68 (351)
T ss_pred HHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHH
Confidence 445666677776 5899999999999887765544
No 351
>PRK10811 rne ribonuclease E; Reviewed
Probab=95.48 E-value=0.026 Score=71.41 Aligned_cols=63 Identities=29% Similarity=0.521 Sum_probs=51.0
Q ss_pred CCCCCCEEEEEEEEEeec--eeEEEeCCCCCeeeeeecccccccccC---------CcccccCCCCEEEEEEEEEe
Q 001046 220 EPELYQVYKGRVSRVVDT--GCFVQLNDFRGKEGLVHVSQIATRRIG---------NAKDVVKRDQEVYVKVISVS 284 (1176)
Q Consensus 220 ~~~~g~~~~g~V~~i~~~--G~fV~l~~~~~~eGlvhisels~~~~~---------~~~~~~~~Gd~V~VkV~~id 284 (1176)
...+|+||.|+|.+|.+- ++||+|+. +..||+|++++....+. +.++.++.||.|-|.|.+-.
T Consensus 35 e~~vGnIYkGkVenIvPGInAAFVDIG~--gknGFL~L~Di~~~~f~~~~~~~~~~~i~~~Lk~GqeILVQV~KEa 108 (1068)
T PRK10811 35 EQKKANIYKGKITRIEPSLEAAFVDYGA--ERHGFLPLKEIAREYFPANYSAHGRPNIKDVLREGQEVIVQIDKEE 108 (1068)
T ss_pred ccCccceEEEEEecccCCcceeEEEecC--CcceEEEhhhccccccccccccccccccccccCCCCEEEEEEeecc
Confidence 456899999999999885 89999986 78999999998543221 23567999999999998843
No 352
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.47 E-value=0.07 Score=66.26 Aligned_cols=33 Identities=24% Similarity=0.274 Sum_probs=23.8
Q ss_pred HHHHHHHcCC---eEEEEcCCCCcHHHHHHHHHHHh
Q 001046 531 ELIQAVHDNQ---VLVVIGETGSGKTTQVTQYLAEA 563 (1176)
Q Consensus 531 ~ii~ai~~~~---~vIv~apTGSGKTt~~~~~lle~ 563 (1176)
.+..++..++ -++++||.|+||||.+-.+....
T Consensus 26 ~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~L 61 (702)
T PRK14960 26 ALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCL 61 (702)
T ss_pred HHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence 3445555554 56999999999999887765543
No 353
>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=95.47 E-value=0.042 Score=56.63 Aligned_cols=118 Identities=19% Similarity=0.287 Sum_probs=64.4
Q ss_pred HHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCce
Q 001046 536 VHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTV 615 (1176)
Q Consensus 536 i~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t~ 615 (1176)
+..|+.+.|.|++|+||||.+-...-.. ....|.|.+--. ..... ...++. ..++|...
T Consensus 22 i~~g~~~~i~G~nGsGKStll~~l~g~~-~~~~G~i~~~~~-~~~~~-~~~~~~--------~~i~~~~q---------- 80 (157)
T cd00267 22 LKAGEIVALVGPNGSGKSTLLRAIAGLL-KPTSGEILIDGK-DIAKL-PLEELR--------RRIGYVPQ---------- 80 (157)
T ss_pred EcCCCEEEEECCCCCCHHHHHHHHhCCC-CCCccEEEECCE-EcccC-CHHHHH--------hceEEEee----------
Confidence 3578999999999999998766644322 122344432211 00000 000010 12333322
Q ss_pred EEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhC-CCccEEEEcCCC
Q 001046 616 IKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRR-PDLRLIVTSATL 678 (1176)
Q Consensus 616 I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r-~~~kvIlmSATl 678 (1176)
.+.|+..+..+....+.+..++|+||.- .+++......+...+.... .+..+|+.|.-+
T Consensus 81 ---lS~G~~~r~~l~~~l~~~~~i~ilDEp~-~~lD~~~~~~l~~~l~~~~~~~~tii~~sh~~ 140 (157)
T cd00267 81 ---LSGGQRQRVALARALLLNPDLLLLDEPT-SGLDPASRERLLELLRELAEEGRTVIIVTHDP 140 (157)
T ss_pred ---CCHHHHHHHHHHHHHhcCCCEEEEeCCC-cCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCH
Confidence 6778877776666667788999999987 5565544333333333221 235566666554
No 354
>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX. Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.
Probab=95.47 E-value=0.075 Score=60.54 Aligned_cols=21 Identities=29% Similarity=0.434 Sum_probs=17.2
Q ss_pred CCeEEEEcCCCCcHHHHHHHH
Q 001046 539 NQVLVVIGETGSGKTTQVTQY 559 (1176)
Q Consensus 539 ~~~vIv~apTGSGKTt~~~~~ 559 (1176)
+..+++.||+|||||+.+-.+
T Consensus 58 ~~~vll~G~pGTGKT~lA~~i 78 (284)
T TIGR02880 58 TLHMSFTGNPGTGKTTVALRM 78 (284)
T ss_pred CceEEEEcCCCCCHHHHHHHH
Confidence 457999999999999877443
No 355
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=95.47 E-value=0.14 Score=57.25 Aligned_cols=118 Identities=21% Similarity=0.301 Sum_probs=68.5
Q ss_pred HHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccC
Q 001046 532 LIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTG 611 (1176)
Q Consensus 532 ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~ 611 (1176)
..+.+..+.++++.|++|+|||..+..+..+.. ..+..+ ...+.-.++.++...... |
T Consensus 98 ~~~~~~~~~nl~l~G~~G~GKThLa~Ai~~~l~-~~g~sv-~f~~~~el~~~Lk~~~~~------~-------------- 155 (254)
T COG1484 98 LVEFFERGENLVLLGPPGVGKTHLAIAIGNELL-KAGISV-LFITAPDLLSKLKAAFDE------G-------------- 155 (254)
T ss_pred HHHHhccCCcEEEECCCCCcHHHHHHHHHHHHH-HcCCeE-EEEEHHHHHHHHHHHHhc------C--------------
Confidence 333455788999999999999987776666654 323333 344555666555553311 0
Q ss_pred CCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCC---chhHHHHHHHHHHhhCCCccEEEEcCCCCHHHHHhhhc
Q 001046 612 PDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTI---HTDVLFGLLKQLVKRRPDLRLIVTSATLDAEKFSGYFF 688 (1176)
Q Consensus 612 ~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~---~~d~ll~llk~~~~~r~~~kvIlmSATl~~~~~~~~f~ 688 (1176)
.....|++. +.+++++||||+--... ..+.++.++......+ .. ++|.-.+...+...|.
T Consensus 156 -------~~~~~l~~~------l~~~dlLIiDDlG~~~~~~~~~~~~~q~I~~r~~~~---~~-~~tsN~~~~~~~~~~~ 218 (254)
T COG1484 156 -------RLEEKLLRE------LKKVDLLIIDDIGYEPFSQEEADLLFQLISRRYESR---SL-IITSNLSFGEWDELFG 218 (254)
T ss_pred -------chHHHHHHH------hhcCCEEEEecccCccCCHHHHHHHHHHHHHHHhhc---cc-eeecCCChHHHHhhcc
Confidence 022334443 56799999999873222 2456666655544433 22 4555555555555543
No 356
>PRK08084 DNA replication initiation factor; Provisional
Probab=95.46 E-value=0.13 Score=57.02 Aligned_cols=35 Identities=14% Similarity=0.261 Sum_probs=23.8
Q ss_pred CCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEe
Q 001046 539 NQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCT 574 (1176)
Q Consensus 539 ~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~ 574 (1176)
+..+++.||+|||||+.+-.+..+.. ..+.++.++
T Consensus 45 ~~~l~l~Gp~G~GKThLl~a~~~~~~-~~~~~v~y~ 79 (235)
T PRK08084 45 SGYIYLWSREGAGRSHLLHAACAELS-QRGRAVGYV 79 (235)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHH-hCCCeEEEE
Confidence 46899999999999987765554432 223455554
No 357
>PRK06921 hypothetical protein; Provisional
Probab=95.46 E-value=0.16 Score=57.22 Aligned_cols=37 Identities=22% Similarity=0.260 Sum_probs=25.3
Q ss_pred cCCeEEEEcCCCCcHHHHHHHHHHHhcccC-CCEEEEec
Q 001046 538 DNQVLVVIGETGSGKTTQVTQYLAEAGYTT-RGKIGCTQ 575 (1176)
Q Consensus 538 ~~~~vIv~apTGSGKTt~~~~~lle~~~~~-~~~Ilv~~ 575 (1176)
.+..+++.|+||+|||+.+..++.+. ... +..++++.
T Consensus 116 ~~~~l~l~G~~G~GKThLa~aia~~l-~~~~g~~v~y~~ 153 (266)
T PRK06921 116 RKNSIALLGQPGSGKTHLLTAAANEL-MRKKGVPVLYFP 153 (266)
T ss_pred CCCeEEEECCCCCcHHHHHHHHHHHH-hhhcCceEEEEE
Confidence 46789999999999998776554443 333 34555554
No 358
>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....
Probab=95.44 E-value=0.074 Score=52.38 Aligned_cols=21 Identities=29% Similarity=0.434 Sum_probs=17.3
Q ss_pred EEEEcCCCCcHHHHHHHHHHH
Q 001046 542 LVVIGETGSGKTTQVTQYLAE 562 (1176)
Q Consensus 542 vIv~apTGSGKTt~~~~~lle 562 (1176)
+++.||+|+|||+.+-..+-.
T Consensus 1 ill~G~~G~GKT~l~~~la~~ 21 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLARALAQY 21 (132)
T ss_dssp EEEESSTTSSHHHHHHHHHHH
T ss_pred CEEECcCCCCeeHHHHHHHhh
Confidence 689999999999887765554
No 359
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.43 E-value=0.14 Score=63.81 Aligned_cols=31 Identities=23% Similarity=0.343 Sum_probs=22.9
Q ss_pred HHHHHHcCC---eEEEEcCCCCcHHHHHHHHHHH
Q 001046 532 LIQAVHDNQ---VLVVIGETGSGKTTQVTQYLAE 562 (1176)
Q Consensus 532 ii~ai~~~~---~vIv~apTGSGKTt~~~~~lle 562 (1176)
+..++..++ -++++||.|+||||.+-.+...
T Consensus 25 L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~ 58 (584)
T PRK14952 25 LSSALDAGRINHAYLFSGPRGCGKTSSARILARS 58 (584)
T ss_pred HHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 444455554 4689999999999988876654
No 360
>PRK05642 DNA replication initiation factor; Validated
Probab=95.42 E-value=0.087 Score=58.28 Aligned_cols=35 Identities=9% Similarity=0.040 Sum_probs=22.3
Q ss_pred CeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEec
Q 001046 540 QVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQ 575 (1176)
Q Consensus 540 ~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~ 575 (1176)
..++++|++|+|||..+..+. ......+.+++|+.
T Consensus 46 ~~l~l~G~~G~GKTHLl~a~~-~~~~~~~~~v~y~~ 80 (234)
T PRK05642 46 SLIYLWGKDGVGRSHLLQAAC-LRFEQRGEPAVYLP 80 (234)
T ss_pred CeEEEECCCCCCHHHHHHHHH-HHHHhCCCcEEEee
Confidence 568999999999997754443 32222234555553
No 361
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.41 E-value=0.046 Score=67.17 Aligned_cols=32 Identities=25% Similarity=0.271 Sum_probs=22.8
Q ss_pred HHHHHHHcCC---eEEEEcCCCCcHHHHHHHHHHH
Q 001046 531 ELIQAVHDNQ---VLVVIGETGSGKTTQVTQYLAE 562 (1176)
Q Consensus 531 ~ii~ai~~~~---~vIv~apTGSGKTt~~~~~lle 562 (1176)
.+.+++..++ -++++||.|+||||.+-.+...
T Consensus 27 ~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~ 61 (509)
T PRK14958 27 ALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKC 61 (509)
T ss_pred HHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHH
Confidence 3444555543 4689999999999987776554
No 362
>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis. The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.
Probab=95.40 E-value=0.097 Score=55.18 Aligned_cols=129 Identities=18% Similarity=0.198 Sum_probs=69.2
Q ss_pred HHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEec-cHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccC---
Q 001046 536 VHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQ-PRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTG--- 611 (1176)
Q Consensus 536 i~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~-PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~--- 611 (1176)
+..|+.+.|.|++||||||.+-...-.. ....|.|.+-- +.... ...+.. .++|.........
T Consensus 25 i~~Ge~~~i~G~nGsGKStLl~~l~G~~-~~~~G~i~~~g~~~~~~----~~~~~~--------~i~~~~q~~~~~~~tv 91 (178)
T cd03247 25 LKQGEKIALLGRSGSGKSTLLQLLTGDL-KPQQGEITLDGVPVSDL----EKALSS--------LISVLNQRPYLFDTTL 91 (178)
T ss_pred EcCCCEEEEECCCCCCHHHHHHHHhccC-CCCCCEEEECCEEHHHH----HHHHHh--------hEEEEccCCeeecccH
Confidence 3579999999999999998776654332 23355665421 11111 111111 2333221100000
Q ss_pred CCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCCC
Q 001046 612 PDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSATL 678 (1176)
Q Consensus 612 ~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSATl 678 (1176)
....+...+.|+..+..+....+.+..++|+||.= .+++......++..+.....+..+|+.|.-+
T Consensus 92 ~~~i~~~LS~G~~qrv~laral~~~p~~lllDEP~-~~LD~~~~~~l~~~l~~~~~~~tii~~sh~~ 157 (178)
T cd03247 92 RNNLGRRFSGGERQRLALARILLQDAPIVLLDEPT-VGLDPITERQLLSLIFEVLKDKTLIWITHHL 157 (178)
T ss_pred HHhhcccCCHHHHHHHHHHHHHhcCCCEEEEECCc-ccCCHHHHHHHHHHHHHHcCCCEEEEEecCH
Confidence 00003446778888888777788999999999975 4555443333333332222345566665544
No 363
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=95.36 E-value=0.06 Score=68.47 Aligned_cols=118 Identities=19% Similarity=0.273 Sum_probs=91.3
Q ss_pred hcCCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCC--ceEEEEcchhhhcc
Q 001046 727 LTEPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGK--RKVVVATNIAEASL 804 (1176)
Q Consensus 727 ~~~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~--~kVlVATniae~GI 804 (1176)
+...+..+|||..=....+-+-..|. ..++..+-+.|....++|+..++.|.... ...|++|---..||
T Consensus 1272 Lk~eghRvLIfTQMtkmLDVLeqFLn---------yHgylY~RLDg~t~vEqRQaLmerFNaD~RIfcfILSTrSggvGi 1342 (1958)
T KOG0391|consen 1272 LKSEGHRVLIFTQMTKMLDVLEQFLN---------YHGYLYVRLDGNTSVEQRQALMERFNADRRIFCFILSTRSGGVGI 1342 (1958)
T ss_pred HHhcCceEEehhHHHHHHHHHHHHHh---------hcceEEEEecCCccHHHHHHHHHHhcCCCceEEEEEeccCCcccc
Confidence 34456789999754444433333332 35788888999999999999999998765 47889999999999
Q ss_pred CCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCCCcEEEEecChHHHhh
Q 001046 805 TIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTGPGKCYRLYTESAYRN 868 (1176)
Q Consensus 805 dIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g~G~c~~L~t~~~~~~ 868 (1176)
|+-+.+.|| +||..-+ |.=-+.+.-|+-|.|++..=+.|||+++...+.
T Consensus 1343 NLtgADTVv--------FYDsDwN-------PtMDaQAQDrChRIGqtRDVHIYRLISe~TIEe 1391 (1958)
T KOG0391|consen 1343 NLTGADTVV--------FYDSDWN-------PTMDAQAQDRCHRIGQTRDVHIYRLISERTIEE 1391 (1958)
T ss_pred ccccCceEE--------EecCCCC-------chhhhHHHHHHHhhcCccceEEEEeeccchHHH
Confidence 999999999 4555433 555577888999999999999999999877654
No 364
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=95.33 E-value=0.058 Score=64.55 Aligned_cols=42 Identities=29% Similarity=0.402 Sum_probs=31.0
Q ss_pred cCCchHHHHHHHHHHHc--CCeEEEEcCCCCcHHHHHHHHHHHh
Q 001046 522 SLPIYKLKKELIQAVHD--NQVLVVIGETGSGKTTQVTQYLAEA 563 (1176)
Q Consensus 522 ~LPi~~~q~~ii~ai~~--~~~vIv~apTGSGKTt~~~~~lle~ 563 (1176)
.|..++.+.+.+..+.+ +-.++|.|||||||||.+-.++.+.
T Consensus 239 ~Lg~~~~~~~~~~~~~~~p~GliLvTGPTGSGKTTTLY~~L~~l 282 (500)
T COG2804 239 KLGMSPFQLARLLRLLNRPQGLILVTGPTGSGKTTTLYAALSEL 282 (500)
T ss_pred HhCCCHHHHHHHHHHHhCCCeEEEEeCCCCCCHHHHHHHHHHHh
Confidence 35566667666666543 4578899999999999888777664
No 365
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=95.32 E-value=0.08 Score=74.58 Aligned_cols=125 Identities=16% Similarity=0.133 Sum_probs=78.4
Q ss_pred cCCchHHHHHHHHHHHc--CCeEEEEcCCCCcHHHHHH---HHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCcc
Q 001046 522 SLPIYKLKKELIQAVHD--NQVLVVIGETGSGKTTQVT---QYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRL 596 (1176)
Q Consensus 522 ~LPi~~~q~~ii~ai~~--~~~vIv~apTGSGKTt~~~---~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~ 596 (1176)
...+.+.|.+++..+.. ++.++|+|..|+||||.+- ..+.+.....+.+|+.+.|+-.+|..+.. .|...
T Consensus 1017 ~~~Lt~~Q~~Ai~~il~~~~~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~~g~~v~glApT~~Aa~~L~~-----~g~~a 1091 (1960)
T TIGR02760 1017 LERLTHGQKQAIHLIISTKDRFVAVQGLAGVGKTTMLESRYKPVLQAFESEQLQVIGLAPTHEAVGELKS-----AGVQA 1091 (1960)
T ss_pred cCCCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHhHHHHHHHHHHHHHhcCCeEEEEeChHHHHHHHHh-----cCCch
Confidence 35678999999999865 4789999999999999883 23333322335578889999888766642 12210
Q ss_pred CCeeEEEeecccccCCCceEEEeChHHHHHH---HhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEE
Q 001046 597 GEEVGYAIRFEDCTGPDTVIKYMTDGMLLRE---ILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIV 673 (1176)
Q Consensus 597 G~~vGy~ir~~~~~~~~t~I~~~T~g~Llr~---l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIl 673 (1176)
.|-..++.. ....+.+...++||||||- ++.+..+..+++.+. .++.++|+
T Consensus 1092 ----------------------~Ti~s~l~~~~~~~~~~~~~~~~v~ivDEas--Mv~~~~~~~l~~~~~--~~~ak~vl 1145 (1960)
T TIGR02760 1092 ----------------------QTLDSFLTDISLYRNSGGDFRNTLFILDESS--MVSNFQLTHATELVQ--KSGSRAVS 1145 (1960)
T ss_pred ----------------------HhHHHHhcCcccccccCCCCcccEEEEEccc--cccHHHHHHHHHhcc--CCCCEEEE
Confidence 011222210 0112235667899999995 566666666665443 34567777
Q ss_pred EcCC
Q 001046 674 TSAT 677 (1176)
Q Consensus 674 mSAT 677 (1176)
+-=+
T Consensus 1146 vGD~ 1149 (1960)
T TIGR02760 1146 LGDI 1149 (1960)
T ss_pred eCCh
Confidence 6544
No 366
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=95.30 E-value=0.059 Score=67.41 Aligned_cols=31 Identities=26% Similarity=0.394 Sum_probs=23.0
Q ss_pred HHHHHHcCC---eEEEEcCCCCcHHHHHHHHHHH
Q 001046 532 LIQAVHDNQ---VLVVIGETGSGKTTQVTQYLAE 562 (1176)
Q Consensus 532 ii~ai~~~~---~vIv~apTGSGKTt~~~~~lle 562 (1176)
+..++..++ .+|++||.|+||||.+..+...
T Consensus 28 L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~ 61 (709)
T PRK08691 28 LQNALDEGRLHHAYLLTGTRGVGKTTIARILAKS 61 (709)
T ss_pred HHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHH
Confidence 344455554 5799999999999988776655
No 367
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=95.30 E-value=0.088 Score=62.79 Aligned_cols=23 Identities=35% Similarity=0.592 Sum_probs=19.6
Q ss_pred CeEEEEcCCCCcHHHHHHHHHHH
Q 001046 540 QVLVVIGETGSGKTTQVTQYLAE 562 (1176)
Q Consensus 540 ~~vIv~apTGSGKTt~~~~~lle 562 (1176)
.+++|.||+|+|||+.+-..+-+
T Consensus 56 ~~~lI~G~~GtGKT~l~~~v~~~ 78 (394)
T PRK00411 56 LNVLIYGPPGTGKTTTVKKVFEE 78 (394)
T ss_pred CeEEEECCCCCCHHHHHHHHHHH
Confidence 67999999999999988776654
No 368
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=95.29 E-value=0.11 Score=61.09 Aligned_cols=132 Identities=26% Similarity=0.328 Sum_probs=85.9
Q ss_pred CeEEEEcCCCCcHHHHHHHHHHHhcccCCCE--EEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCceEE
Q 001046 540 QVLVVIGETGSGKTTQVTQYLAEAGYTTRGK--IGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTVIK 617 (1176)
Q Consensus 540 ~~vIv~apTGSGKTt~~~~~lle~~~~~~~~--Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t~I~ 617 (1176)
.+++++|=-||||||.+..+...... .+.+ ++++-.+|.+|..+.+.+++..+.++-.. + ...
T Consensus 101 ~vImmvGLQGsGKTTt~~KLA~~lkk-~~~kvllVaaD~~RpAA~eQL~~La~q~~v~~f~~-~---------~~~---- 165 (451)
T COG0541 101 TVILMVGLQGSGKTTTAGKLAKYLKK-KGKKVLLVAADTYRPAAIEQLKQLAEQVGVPFFGS-G---------TEK---- 165 (451)
T ss_pred eEEEEEeccCCChHhHHHHHHHHHHH-cCCceEEEecccCChHHHHHHHHHHHHcCCceecC-C---------CCC----
Confidence 46888999999999987765544322 2333 56677889999999999988887654211 0 001
Q ss_pred EeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHh-hCCCccEEEEcCCC--CHHHHHhhhcC
Q 001046 618 YMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVK-RRPDLRLIVTSATL--DAEKFSGYFFN 689 (1176)
Q Consensus 618 ~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~-~r~~~kvIlmSATl--~~~~~~~~f~~ 689 (1176)
.|--+.+.-+.......+++||||-|-...++ +-|+.-++.+.. .+|+--++++-|++ ++...+.-|..
T Consensus 166 --~Pv~Iak~al~~ak~~~~DvvIvDTAGRl~id-e~Lm~El~~Ik~~~~P~E~llVvDam~GQdA~~~A~aF~e 237 (451)
T COG0541 166 --DPVEIAKAALEKAKEEGYDVVIVDTAGRLHID-EELMDELKEIKEVINPDETLLVVDAMIGQDAVNTAKAFNE 237 (451)
T ss_pred --CHHHHHHHHHHHHHHcCCCEEEEeCCCccccc-HHHHHHHHHHHhhcCCCeEEEEEecccchHHHHHHHHHhh
Confidence 11112233333334567899999999844444 445555655554 67888889999988 46666666643
No 369
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=95.28 E-value=0.17 Score=62.00 Aligned_cols=30 Identities=20% Similarity=0.288 Sum_probs=22.7
Q ss_pred HHHHcCC---eEEEEcCCCCcHHHHHHHHHHHh
Q 001046 534 QAVHDNQ---VLVVIGETGSGKTTQVTQYLAEA 563 (1176)
Q Consensus 534 ~ai~~~~---~vIv~apTGSGKTt~~~~~lle~ 563 (1176)
.++..++ .++++||.|+||||.+-.+....
T Consensus 35 ~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~L 67 (507)
T PRK06645 35 YTILNDRLAGGYLLTGIRGVGKTTSARIIAKAV 67 (507)
T ss_pred HHHHcCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence 3455554 68999999999999887766543
No 370
>CHL00181 cbbX CbbX; Provisional
Probab=95.25 E-value=0.12 Score=58.98 Aligned_cols=24 Identities=25% Similarity=0.339 Sum_probs=19.1
Q ss_pred cCCeEEEEcCCCCcHHHHHHHHHH
Q 001046 538 DNQVLVVIGETGSGKTTQVTQYLA 561 (1176)
Q Consensus 538 ~~~~vIv~apTGSGKTt~~~~~ll 561 (1176)
.+-++++.||+|+|||+.+-.+..
T Consensus 58 ~~~~ill~G~pGtGKT~lAr~la~ 81 (287)
T CHL00181 58 PGLHMSFTGSPGTGKTTVALKMAD 81 (287)
T ss_pred CCceEEEECCCCCCHHHHHHHHHH
Confidence 355789999999999988776543
No 371
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=95.24 E-value=0.04 Score=58.18 Aligned_cols=52 Identities=19% Similarity=0.183 Sum_probs=33.2
Q ss_pred eEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCc
Q 001046 541 VLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCR 595 (1176)
Q Consensus 541 ~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~ 595 (1176)
.++|.||+|+|||+...+++.+.. ..+.+++++.. ...+.++.++. ..+|..
T Consensus 1 ~~li~G~~G~GKT~l~~~~~~~~~-~~g~~v~~~s~-e~~~~~~~~~~-~~~g~~ 52 (187)
T cd01124 1 STLLSGGPGTGKTTFALQFLYAGL-ARGEPGLYVTL-EESPEELIENA-ESLGWD 52 (187)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHH-HCCCcEEEEEC-CCCHHHHHHHH-HHcCCC
Confidence 378999999999999999888754 33455655532 23344444442 333443
No 372
>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=95.23 E-value=0.93 Score=55.78 Aligned_cols=90 Identities=18% Similarity=0.168 Sum_probs=67.8
Q ss_pred CCeEEEEecCCCCHHHHHhhcCCCC---CCCceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCH
Q 001046 763 PELIILPVYSALPSEMQSRIFDPAP---PGKRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQ 839 (1176)
Q Consensus 763 ~~~~v~~lhs~l~~~~r~~i~~~f~---~g~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~ 839 (1176)
.++....+||.+...+|..+++.|. .|.+-.||+=..-+-|||+-+-+++|-.|+ .|| |.=-
T Consensus 769 ~g~~y~si~Gqv~vK~Rq~iv~~FN~~k~~~rVmLlSLtAGGVGLNL~GaNHlilvDl----HWN-----------PaLE 833 (901)
T KOG4439|consen 769 GGHIYTSITGQVLVKDRQEIVDEFNQEKGGARVMLLSLTAGGVGLNLIGANHLILVDL----HWN-----------PALE 833 (901)
T ss_pred CCeeeeeecCccchhHHHHHHHHHHhccCCceEEEEEEccCcceeeecccceEEEEec----ccC-----------HHHH
Confidence 3567888999999999999998884 335556666677788999999999997777 444 3333
Q ss_pred HHHHHHhcccCCCCCcEEEEecChHHHh
Q 001046 840 ASAKQRAGRAGRTGPGKCYRLYTESAYR 867 (1176)
Q Consensus 840 as~~QR~GRAGR~g~G~c~~L~t~~~~~ 867 (1176)
.++--|+=|.|-..+-..|||......+
T Consensus 834 qQAcDRIYR~GQkK~V~IhR~~~~gTvE 861 (901)
T KOG4439|consen 834 QQACDRIYRMGQKKDVFIHRLMCKGTVE 861 (901)
T ss_pred HHHHHHHHHhcccCceEEEEEEecCcHH
Confidence 4566677777777788889998876654
No 373
>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]
Probab=95.21 E-value=0.028 Score=62.46 Aligned_cols=141 Identities=18% Similarity=0.248 Sum_probs=75.7
Q ss_pred HHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEE------EEeccHHHHHHHHHHHHHHHhCCccCCeeEEEe-----
Q 001046 536 VHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKI------GCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAI----- 604 (1176)
Q Consensus 536 i~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~I------lv~~PrR~lA~qva~rva~e~g~~~G~~vGy~i----- 604 (1176)
+..|.++.|.||.||||||.+-...-- .....|.| +...|++++|..++- |.+......+.+|--.|
T Consensus 25 i~~G~i~~iiGpNG~GKSTLLk~l~g~-l~p~~G~V~l~g~~i~~~~~kelAk~ia~-vpQ~~~~~~~~tV~d~V~~GR~ 102 (258)
T COG1120 25 IPKGEITGILGPNGSGKSTLLKCLAGL-LKPKSGEVLLDGKDIASLSPKELAKKLAY-VPQSPSAPFGLTVYELVLLGRY 102 (258)
T ss_pred ecCCcEEEEECCCCCCHHHHHHHHhcc-CCCCCCEEEECCCchhhcCHHHHhhhEEE-eccCCCCCCCcEEeehHhhcCC
Confidence 467999999999999999876554321 12224444 344567777666553 22222222222221111
Q ss_pred ----ecccccC------------------CCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCC--cCCCchhHHHHHHH
Q 001046 605 ----RFEDCTG------------------PDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAH--ERTIHTDVLFGLLK 660 (1176)
Q Consensus 605 ----r~~~~~~------------------~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaH--eR~~~~d~ll~llk 660 (1176)
.+..... ....+--.+.|...+.++.....++..++++||=- ..-.+.-.++.+++
T Consensus 103 p~~~~~~~~~~~D~~~v~~aL~~~~~~~la~r~~~~LSGGerQrv~iArALaQ~~~iLLLDEPTs~LDi~~Q~evl~ll~ 182 (258)
T COG1120 103 PHLGLFGRPSKEDEEIVEEALELLGLEHLADRPVDELSGGERQRVLIARALAQETPILLLDEPTSHLDIAHQIEVLELLR 182 (258)
T ss_pred cccccccCCCHhHHHHHHHHHHHhCcHHHhcCcccccChhHHHHHHHHHHHhcCCCEEEeCCCccccCHHHHHHHHHHHH
Confidence 1110000 01123334556666766666678889999999943 22233334566666
Q ss_pred HHHhhCCCccEEEEcCCCC
Q 001046 661 QLVKRRPDLRLIVTSATLD 679 (1176)
Q Consensus 661 ~~~~~r~~~kvIlmSATl~ 679 (1176)
++... .+.-+|+...-+|
T Consensus 183 ~l~~~-~~~tvv~vlHDlN 200 (258)
T COG1120 183 DLNRE-KGLTVVMVLHDLN 200 (258)
T ss_pred HHHHh-cCCEEEEEecCHH
Confidence 65543 2455666555543
No 374
>KOG0386 consensus Chromatin remodeling complex SWI/SNF, component SWI2 and related ATPases (DNA/RNA helicase superfamily) [Chromatin structure and dynamics; Transcription]
Probab=95.16 E-value=0.09 Score=66.47 Aligned_cols=112 Identities=18% Similarity=0.161 Sum_probs=74.2
Q ss_pred CCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCC---CCCCceEEEEcchhhhccCC
Q 001046 730 PEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPA---PPGKRKVVVATNIAEASLTI 806 (1176)
Q Consensus 730 ~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f---~~g~~kVlVATniae~GIdI 806 (1176)
.++.||.|+.-..-+..+-..|. ..++..+-+-|....++|-..++.| .......|++|-....|+|+
T Consensus 725 tgHRVLlF~qMTrlmdimEdyL~---------~~~~kYlRLDG~TK~~eRg~ll~~FN~Pds~yf~FllstragglglNl 795 (1157)
T KOG0386|consen 725 TGHRVLLFSQMTRLMDILEDYLQ---------IREYKYLRLDGQTKVEERGDLLEIFNAPDSPYFIFLLSTRAGGLGLNL 795 (1157)
T ss_pred cCcchhhHHHHHHHHHHHHHHHh---------hhhhheeeecCCcchhhHHHHHHHhcCCCCceeeeeeeecccccccch
Confidence 35677777654332222222222 1356677788888888876555544 45568999999999999999
Q ss_pred CCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC---CcEEEEecChHHHhh
Q 001046 807 DGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG---PGKCYRLYTESAYRN 868 (1176)
Q Consensus 807 p~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g---~G~c~~L~t~~~~~~ 868 (1176)
--.+.||- ||+. -.+-...|+.-||-|.| .-.+++|.+-..+..
T Consensus 796 Qtadtvii--------fdsd----------wnp~~d~qaqdrahrigq~~evRv~rl~tv~sveE 842 (1157)
T KOG0386|consen 796 QTADTVII--------FDSD----------WNPHQDLQAQDRAHRIGQKKEVRVLRLITVNSVEE 842 (1157)
T ss_pred hhcceEEE--------ecCC----------CCchhHHHHHHHHHHhhchhheeeeeeehhhHHHH
Confidence 98888883 3332 22345667777777777 567889988776653
No 375
>PRK11712 ribonuclease G; Provisional
Probab=95.14 E-value=0.037 Score=67.10 Aligned_cols=62 Identities=29% Similarity=0.525 Sum_probs=49.7
Q ss_pred CCCCCCEEEEEEEEEeec--eeEEEeCCCCCeeeeeeccccccc------------ccCCcccccCCCCEEEEEEEEE
Q 001046 220 EPELYQVYKGRVSRVVDT--GCFVQLNDFRGKEGLVHVSQIATR------------RIGNAKDVVKRDQEVYVKVISV 283 (1176)
Q Consensus 220 ~~~~g~~~~g~V~~i~~~--G~fV~l~~~~~~eGlvhisels~~------------~~~~~~~~~~~Gd~V~VkV~~i 283 (1176)
...+|+||.|+|.+|.+- +|||+|+. +..||+|++++... ....+.+.++.||.|-|.|.+-
T Consensus 35 ~~~vGnIY~G~V~~v~pg~~AAFVdIG~--~k~gFL~~~d~~~~~~~~~~~~~~~~~~~~i~~~l~~Gq~iLVQV~Ke 110 (489)
T PRK11712 35 RGIVGNIYKGRVSRVLPGMQAAFVDIGL--DKAAFLHASDIVPHTECVAGEEQKQFVVRDISELVRQGQDIMVQVVKD 110 (489)
T ss_pred ccccccEEEEEEeecCCCCceeEEeeCC--CccEEEEhhhccchhhhcccccccccccccHHHhccCCCEEEEEEEeC
Confidence 456899999999999885 89999986 78999999987321 1123456799999999999874
No 376
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=95.09 E-value=0.16 Score=70.11 Aligned_cols=126 Identities=16% Similarity=0.135 Sum_probs=78.1
Q ss_pred cCCchHHHHHHHHHHHc--CCeEEEEcCCCCcHHHHHHHHHHH--hc-ccCCCEEEEeccHHHHHHHHHHHHHHHhCCcc
Q 001046 522 SLPIYKLKKELIQAVHD--NQVLVVIGETGSGKTTQVTQYLAE--AG-YTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRL 596 (1176)
Q Consensus 522 ~LPi~~~q~~ii~ai~~--~~~vIv~apTGSGKTt~~~~~lle--~~-~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~ 596 (1176)
...+.+-|.+++..+.. +++++|+|..|+||||.+-..+.. .. ...+..|+.+.||--+|..+.. .|..
T Consensus 965 ~~~Lt~~Q~~Av~~il~s~dr~~~I~G~AGTGKTT~l~~v~~~~~~l~~~~~~~V~glAPTgrAAk~L~e-----~Gi~- 1038 (1747)
T PRK13709 965 MEGLTSGQRAATRMILESTDRFTVVQGYAGVGKTTQFRAVMSAVNTLPESERPRVVGLGPTHRAVGEMRS-----AGVD- 1038 (1747)
T ss_pred cCCCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhhcccCceEEEECCcHHHHHHHHh-----cCcc-
Confidence 34678899999999876 479999999999999987554322 11 1224478889999877765432 2221
Q ss_pred CCeeEEEeecccccCCCceEEEeChHHHHHHHh-----hCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccE
Q 001046 597 GEEVGYAIRFEDCTGPDTVIKYMTDGMLLREIL-----IDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRL 671 (1176)
Q Consensus 597 G~~vGy~ir~~~~~~~~t~I~~~T~g~Llr~l~-----~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kv 671 (1176)
..|-..||.... ........++|||||+= ++.+..+..+++.+.. .+.++
T Consensus 1039 ---------------------A~TI~s~L~~~~~~~~~~~~~~~~~~llIVDEaS--Mv~~~~m~~Ll~~~~~--~garv 1093 (1747)
T PRK13709 1039 ---------------------AQTLASFLHDTQLQQRSGETPDFSNTLFLLDESS--MVGNTDMARAYALIAA--GGGRA 1093 (1747)
T ss_pred ---------------------hhhHHHHhcccccccccccCCCCCCcEEEEEccc--cccHHHHHHHHHhhhc--CCCEE
Confidence 112222222110 01122345899999995 5666666666655432 35788
Q ss_pred EEEcCCC
Q 001046 672 IVTSATL 678 (1176)
Q Consensus 672 IlmSATl 678 (1176)
|++.=+-
T Consensus 1094 VLVGD~~ 1100 (1747)
T PRK13709 1094 VSSGDTD 1100 (1747)
T ss_pred EEecchH
Confidence 8776553
No 377
>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=95.06 E-value=0.088 Score=55.15 Aligned_cols=129 Identities=19% Similarity=0.224 Sum_probs=66.4
Q ss_pred HHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEec-cHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCc
Q 001046 536 VHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQ-PRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDT 614 (1176)
Q Consensus 536 i~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~-PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t 614 (1176)
+..|..+.|.||+||||||.+-...-.. ....|.|.+-- +..... ...+. ..+||....... .+.+
T Consensus 25 i~~G~~~~l~G~nGsGKstLl~~i~G~~-~~~~G~i~~~g~~~~~~~---~~~~~--------~~i~~~~~~~~~-~~~t 91 (171)
T cd03228 25 IKPGEKVAIVGPSGSGKSTLLKLLLRLY-DPTSGEILIDGVDLRDLD---LESLR--------KNIAYVPQDPFL-FSGT 91 (171)
T ss_pred EcCCCEEEEECCCCCCHHHHHHHHHcCC-CCCCCEEEECCEEhhhcC---HHHHH--------hhEEEEcCCchh-ccch
Confidence 4679999999999999998766654332 22345554421 111000 01111 113332111100 0000
Q ss_pred eE-EEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCCC
Q 001046 615 VI-KYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSATL 678 (1176)
Q Consensus 615 ~I-~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSATl 678 (1176)
.. -+.+.|+..+..+....+.+.+++++||-= .+++......+.+.+........+|+.|..+
T Consensus 92 ~~e~lLS~G~~~rl~la~al~~~p~llllDEP~-~gLD~~~~~~l~~~l~~~~~~~tii~~sh~~ 155 (171)
T cd03228 92 IRENILSGGQRQRIAIARALLRDPPILILDEAT-SALDPETEALILEALRALAKGKTVIVIAHRL 155 (171)
T ss_pred HHHHhhCHHHHHHHHHHHHHhcCCCEEEEECCC-cCCCHHHHHHHHHHHHHhcCCCEEEEEecCH
Confidence 00 016778877777766678888999999965 4555443333333333222344455555544
No 378
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.06 E-value=0.057 Score=63.80 Aligned_cols=31 Identities=19% Similarity=0.266 Sum_probs=22.4
Q ss_pred HHHHHHcCC---eEEEEcCCCCcHHHHHHHHHHH
Q 001046 532 LIQAVHDNQ---VLVVIGETGSGKTTQVTQYLAE 562 (1176)
Q Consensus 532 ii~ai~~~~---~vIv~apTGSGKTt~~~~~lle 562 (1176)
+..++..++ .+++.||.|+||||.+-.++..
T Consensus 28 l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~ 61 (363)
T PRK14961 28 ISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKS 61 (363)
T ss_pred HHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHH
Confidence 344455554 4689999999999988776554
No 379
>PHA02533 17 large terminase protein; Provisional
Probab=95.05 E-value=0.13 Score=63.51 Aligned_cols=154 Identities=16% Similarity=0.234 Sum_probs=92.3
Q ss_pred hcCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHH-HhcccCCCEEEEeccHHHHHHHHHHHHHHHhCC-ccCC
Q 001046 521 QSLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLA-EAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGC-RLGE 598 (1176)
Q Consensus 521 ~~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~ll-e~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~-~~G~ 598 (1176)
..+++.++|.+++..+..++..++.-+=..|||+.+..+++ ......+..++++.|++.-|..+.+++...... +.-.
T Consensus 56 ~Pf~L~p~Q~~i~~~~~~~R~~ii~~aRq~GKStl~a~~al~~a~~~~~~~v~i~A~~~~QA~~vF~~ik~~ie~~P~l~ 135 (534)
T PHA02533 56 IKVQMRDYQKDMLKIMHKNRFNACNLSRQLGKTTVVAIFLLHYVCFNKDKNVGILAHKASMAAEVLDRTKQAIELLPDFL 135 (534)
T ss_pred eecCCcHHHHHHHHHHhcCeEEEEEEcCcCChHHHHHHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHHHHhCHHHh
Confidence 35789999999999987788888999999999998876554 344455669999999999999988777543311 0000
Q ss_pred eeEE------EeecccccCCCceEEEeChHHHHHHHhhCCCCC--CCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCcc
Q 001046 599 EVGY------AIRFEDCTGPDTVIKYMTDGMLLREILIDDNLS--QYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLR 670 (1176)
Q Consensus 599 ~vGy------~ir~~~~~~~~t~I~~~T~g~Llr~l~~~~~L~--~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~k 670 (1176)
..+. .+.+ ..+..|.+.|..- ...+ ++.++||||+|...-..+++-+ +...+.....-+
T Consensus 136 ~~~i~~~~~~~I~l----~NGS~I~~lss~~--------~t~rG~~~~~liiDE~a~~~~~~e~~~a-i~p~lasg~~~r 202 (534)
T PHA02533 136 QPGIVEWNKGSIEL----ENGSKIGAYASSP--------DAVRGNSFAMIYIDECAFIPNFIDFWLA-IQPVISSGRSSK 202 (534)
T ss_pred hcceeecCccEEEe----CCCCEEEEEeCCC--------CccCCCCCceEEEeccccCCCHHHHHHH-HHHHHHcCCCce
Confidence 0010 1111 2344555544320 1122 3567999999953322233333 333344434456
Q ss_pred EEEEcCCCCHHHHHhhh
Q 001046 671 LIVTSATLDAEKFSGYF 687 (1176)
Q Consensus 671 vIlmSATl~~~~~~~~f 687 (1176)
++++|..-....|-..+
T Consensus 203 ~iiiSTp~G~n~fye~~ 219 (534)
T PHA02533 203 IIITSTPNGLNHFYDIW 219 (534)
T ss_pred EEEEECCCchhhHHHHH
Confidence 76666665333354444
No 380
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.03 E-value=0.11 Score=64.15 Aligned_cols=50 Identities=20% Similarity=0.393 Sum_probs=29.0
Q ss_pred HHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEc
Q 001046 624 LLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTS 675 (1176)
Q Consensus 624 Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmS 675 (1176)
++..+...|...++.++||||||. +.....-.+|+.+-...+...+|+.+
T Consensus 107 l~~~~~~~p~~~~~kVvIIDEad~--ls~~a~naLLK~LEepp~~~~fIL~t 156 (527)
T PRK14969 107 LLDNAQYAPTRGRFKVYIIDEVHM--LSKSAFNAMLKTLEEPPEHVKFILAT 156 (527)
T ss_pred HHHHHhhCcccCCceEEEEcCccc--CCHHHHHHHHHHHhCCCCCEEEEEEe
Confidence 334444556778899999999994 22333344555443333445555543
No 381
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.02 E-value=0.1 Score=65.25 Aligned_cols=31 Identities=26% Similarity=0.358 Sum_probs=22.1
Q ss_pred HHHHHHcCC---eEEEEcCCCCcHHHHHHHHHHH
Q 001046 532 LIQAVHDNQ---VLVVIGETGSGKTTQVTQYLAE 562 (1176)
Q Consensus 532 ii~ai~~~~---~vIv~apTGSGKTt~~~~~lle 562 (1176)
+.+++..++ -++++||.|+||||.+-.+...
T Consensus 28 L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~ 61 (618)
T PRK14951 28 LTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKS 61 (618)
T ss_pred HHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 334455554 4699999999999988776544
No 382
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=94.94 E-value=0.26 Score=62.64 Aligned_cols=22 Identities=36% Similarity=0.590 Sum_probs=17.2
Q ss_pred CeEEEEcCCCCcHHHHHHHHHH
Q 001046 540 QVLVVIGETGSGKTTQVTQYLA 561 (1176)
Q Consensus 540 ~~vIv~apTGSGKTt~~~~~ll 561 (1176)
+.+.|.|+||+|||+++-..+-
T Consensus 782 nvLYIyG~PGTGKTATVK~VLr 803 (1164)
T PTZ00112 782 QILYISGMPGTGKTATVYSVIQ 803 (1164)
T ss_pred ceEEEECCCCCCHHHHHHHHHH
Confidence 3456999999999988766553
No 383
>PF13509 S1_2: S1 domain; PDB: 3GO5_A.
Probab=94.94 E-value=0.094 Score=45.16 Aligned_cols=61 Identities=25% Similarity=0.254 Sum_probs=34.9
Q ss_pred CCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEeCcEeEEEEe
Q 001046 223 LYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVSGQKLSLSMR 293 (1176)
Q Consensus 223 ~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id~~ki~Ls~k 293 (1176)
+|++...+|+.+.++|+|++.++ +.+-++|.++... -+++||.|.|-|-.=..+++..++|
T Consensus 1 iG~~~~L~V~~~~~~g~fL~~~~--~~~vlLp~~e~~~--------~~~~Gd~v~VFvY~D~~~rl~AT~k 61 (61)
T PF13509_consen 1 IGQINTLKVVDKNEFGYFLDDGE--GKEVLLPKSEVPE--------PLKVGDEVEVFVYLDKEGRLVATTK 61 (61)
T ss_dssp --------EEEE-SSEEEEEETT---EEEEEEGGG--------------TTSEEEEEEEE-TTS-EEEE--
T ss_pred CCCCcceEEEEEeCCEEEEECCC--CCEEEechHHcCC--------CCCCCCEEEEEEEECCCCCEEEecC
Confidence 58899999999999999999764 5789999988742 3789999999887644567776664
No 384
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=94.90 E-value=0.17 Score=61.53 Aligned_cols=36 Identities=19% Similarity=0.140 Sum_probs=23.1
Q ss_pred CeEEEEcCCCCcHHHHHHHHHHHhccc-CCCEEEEec
Q 001046 540 QVLVVIGETGSGKTTQVTQYLAEAGYT-TRGKIGCTQ 575 (1176)
Q Consensus 540 ~~vIv~apTGSGKTt~~~~~lle~~~~-~~~~Ilv~~ 575 (1176)
+.+++.||+|+|||+.+-.+..+.... .+.+++++.
T Consensus 149 ~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~ 185 (450)
T PRK00149 149 NPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVT 185 (450)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEE
Confidence 568999999999997765544432211 134566653
No 385
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.89 E-value=0.099 Score=62.54 Aligned_cols=31 Identities=19% Similarity=0.301 Sum_probs=22.8
Q ss_pred HHHHHHcCC---eEEEEcCCCCcHHHHHHHHHHH
Q 001046 532 LIQAVHDNQ---VLVVIGETGSGKTTQVTQYLAE 562 (1176)
Q Consensus 532 ii~ai~~~~---~vIv~apTGSGKTt~~~~~lle 562 (1176)
+..++.+++ .+|+.||.|+||||.+..+...
T Consensus 28 L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~ 61 (397)
T PRK14955 28 IQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKA 61 (397)
T ss_pred HHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHH
Confidence 344555554 4889999999999988776544
No 386
>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.
Probab=94.88 E-value=0.098 Score=55.20 Aligned_cols=119 Identities=25% Similarity=0.336 Sum_probs=66.3
Q ss_pred HHcCCeEEEEcCCCCcHHHHHHHHHHHhcc---cC------CCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeec
Q 001046 536 VHDNQVLVVIGETGSGKTTQVTQYLAEAGY---TT------RGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRF 606 (1176)
Q Consensus 536 i~~~~~vIv~apTGSGKTt~~~~~lle~~~---~~------~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~ 606 (1176)
+..|..+.|+||.||||||.+-..+...+. .. ...++++.. ..+.+.++.. ..
T Consensus 18 i~~G~~~~l~G~nG~GKSTLl~~il~~~G~v~~~~~~~~~~~~~~~~~~q---------~~~l~~~~L~--~~------- 79 (176)
T cd03238 18 IPLNVLVVVTGVSGSGKSTLVNEGLYASGKARLISFLPKFSRNKLIFIDQ---------LQFLIDVGLG--YL------- 79 (176)
T ss_pred EcCCCEEEEECCCCCCHHHHHHHHhhcCCcEEECCcccccccccEEEEhH---------HHHHHHcCCC--cc-------
Confidence 457899999999999999988755322110 00 001222211 1122223211 00
Q ss_pred ccccCCCceEEEeChHHHHHHHhhCCCCCC--CceEEEcCCCcCCCchh---HHHHHHHHHHhhCCCccEEEEcCCCC
Q 001046 607 EDCTGPDTVIKYMTDGMLLREILIDDNLSQ--YSVIMLDEAHERTIHTD---VLFGLLKQLVKRRPDLRLIVTSATLD 679 (1176)
Q Consensus 607 ~~~~~~~t~I~~~T~g~Llr~l~~~~~L~~--~s~IIiDEaHeR~~~~d---~ll~llk~~~~~r~~~kvIlmSATl~ 679 (1176)
.....+.-.+.|+..+..+....+.+ .+++++||.= .+++.. .+..+++.+.. .+..+|+.|.-++
T Consensus 80 ----~~~~~~~~LSgGq~qrl~laral~~~~~p~llLlDEPt-~~LD~~~~~~l~~~l~~~~~--~g~tvIivSH~~~ 150 (176)
T cd03238 80 ----TLGQKLSTLSGGELQRVKLASELFSEPPGTLFILDEPS-TGLHQQDINQLLEVIKGLID--LGNTVILIEHNLD 150 (176)
T ss_pred ----ccCCCcCcCCHHHHHHHHHHHHHhhCCCCCEEEEeCCc-ccCCHHHHHHHHHHHHHHHh--CCCEEEEEeCCHH
Confidence 01122334567887777777667788 8999999975 445444 34444544432 3566777776653
No 387
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.87 E-value=0.095 Score=64.64 Aligned_cols=31 Identities=26% Similarity=0.344 Sum_probs=23.4
Q ss_pred HHHHHHcCC---eEEEEcCCCCcHHHHHHHHHHH
Q 001046 532 LIQAVHDNQ---VLVVIGETGSGKTTQVTQYLAE 562 (1176)
Q Consensus 532 ii~ai~~~~---~vIv~apTGSGKTt~~~~~lle 562 (1176)
+..++..++ .+|++||.|+||||.+-.++..
T Consensus 28 L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~ 61 (546)
T PRK14957 28 LVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKC 61 (546)
T ss_pred HHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 455566655 3789999999999988776654
No 388
>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.
Probab=94.79 E-value=0.13 Score=54.30 Aligned_cols=108 Identities=18% Similarity=0.239 Sum_probs=66.0
Q ss_pred HHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCce
Q 001046 536 VHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTV 615 (1176)
Q Consensus 536 i~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t~ 615 (1176)
+..|..+.|+||+||||||.+-...-. .....|.|.+-. ..++|..... .
T Consensus 22 i~~Ge~~~l~G~nGsGKSTLl~~l~Gl-~~p~~G~i~~~g----------------------~~i~~~~q~~-------~ 71 (177)
T cd03222 22 VKEGEVIGIVGPNGTGKTTAVKILAGQ-LIPNGDNDEWDG----------------------ITPVYKPQYI-------D 71 (177)
T ss_pred ECCCCEEEEECCCCChHHHHHHHHHcC-CCCCCcEEEECC----------------------EEEEEEcccC-------C
Confidence 568999999999999999987764322 222345554421 1244432110 0
Q ss_pred EEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhH---HHHHHHHHHhhCCCccEEEEcCCC
Q 001046 616 IKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDV---LFGLLKQLVKRRPDLRLIVTSATL 678 (1176)
Q Consensus 616 I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~---ll~llk~~~~~r~~~kvIlmSATl 678 (1176)
.+.|+..+..+....+.+.+++++||-- .+++... +..++..+... ...-+|+.|..+
T Consensus 72 ---LSgGq~qrv~laral~~~p~lllLDEPt-s~LD~~~~~~l~~~l~~~~~~-~~~tiiivsH~~ 132 (177)
T cd03222 72 ---LSGGELQRVAIAAALLRNATFYLFDEPS-AYLDIEQRLNAARAIRRLSEE-GKKTALVVEHDL 132 (177)
T ss_pred ---CCHHHHHHHHHHHHHhcCCCEEEEECCc-ccCCHHHHHHHHHHHHHHHHc-CCCEEEEEECCH
Confidence 6788887777777778889999999975 4555443 34444443322 224566666554
No 389
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.78 E-value=0.21 Score=60.92 Aligned_cols=31 Identities=29% Similarity=0.465 Sum_probs=22.6
Q ss_pred HHHHHHcCC---eEEEEcCCCCcHHHHHHHHHHH
Q 001046 532 LIQAVHDNQ---VLVVIGETGSGKTTQVTQYLAE 562 (1176)
Q Consensus 532 ii~ai~~~~---~vIv~apTGSGKTt~~~~~lle 562 (1176)
+..++..++ .+++.||+|+||||.+-.+...
T Consensus 26 L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~ 59 (472)
T PRK14962 26 IINALKKNSISHAYIFAGPRGTGKTTVARILAKS 59 (472)
T ss_pred HHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 334455554 3799999999999988776554
No 390
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=94.77 E-value=0.28 Score=61.38 Aligned_cols=50 Identities=24% Similarity=0.432 Sum_probs=29.8
Q ss_pred HHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEc
Q 001046 624 LLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTS 675 (1176)
Q Consensus 624 Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmS 675 (1176)
++..+...|....+.+|||||+|.- .....-.+++.+-.-.+...+|+.+
T Consensus 120 Iie~~~~~P~~a~~KVvIIDEad~L--s~~a~naLLKtLEePp~~~~fIl~t 169 (598)
T PRK09111 120 IIESVRYRPVSARYKVYIIDEVHML--STAAFNALLKTLEEPPPHVKFIFAT 169 (598)
T ss_pred HHHHHHhchhcCCcEEEEEEChHhC--CHHHHHHHHHHHHhCCCCeEEEEEe
Confidence 4444555667889999999999942 3333344444433333455566544
No 391
>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.
Probab=94.74 E-value=0.095 Score=54.49 Aligned_cols=116 Identities=19% Similarity=0.238 Sum_probs=68.5
Q ss_pred HHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEec-cHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCc
Q 001046 536 VHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQ-PRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDT 614 (1176)
Q Consensus 536 i~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~-PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t 614 (1176)
+..|+.+.|.|+.||||||.+-...-.. ....|.|.+-- +.... .... .. ...+||...
T Consensus 23 i~~Ge~~~l~G~nGsGKSTLl~~i~G~~-~~~~G~v~~~g~~~~~~--~~~~----~~----~~~i~~~~q--------- 82 (163)
T cd03216 23 VRRGEVHALLGENGAGKSTLMKILSGLY-KPDSGEILVDGKEVSFA--SPRD----AR----RAGIAMVYQ--------- 82 (163)
T ss_pred EeCCCEEEEECCCCCCHHHHHHHHhCCC-CCCCeEEEECCEECCcC--CHHH----HH----hcCeEEEEe---------
Confidence 4679999999999999999877654322 22345554321 10000 0000 00 112454322
Q ss_pred eEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhH---HHHHHHHHHhhCCCccEEEEcCCC
Q 001046 615 VIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDV---LFGLLKQLVKRRPDLRLIVTSATL 678 (1176)
Q Consensus 615 ~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~---ll~llk~~~~~r~~~kvIlmSATl 678 (1176)
.+.|+..+..+....+.+.+++++||-- .+++.+. +..+++.+.. ....+|+.|..+
T Consensus 83 ----LS~G~~qrl~laral~~~p~illlDEP~-~~LD~~~~~~l~~~l~~~~~--~~~tiii~sh~~ 142 (163)
T cd03216 83 ----LSVGERQMVEIARALARNARLLILDEPT-AALTPAEVERLFKVIRRLRA--QGVAVIFISHRL 142 (163)
T ss_pred ----cCHHHHHHHHHHHHHhcCCCEEEEECCC-cCCCHHHHHHHHHHHHHHHH--CCCEEEEEeCCH
Confidence 7888888888877788889999999975 4555443 4444444322 245566666554
No 392
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=94.72 E-value=0.1 Score=58.51 Aligned_cols=25 Identities=20% Similarity=0.332 Sum_probs=20.9
Q ss_pred CCeEEEEcCCCCcHHHHHHHHHHHh
Q 001046 539 NQVLVVIGETGSGKTTQVTQYLAEA 563 (1176)
Q Consensus 539 ~~~vIv~apTGSGKTt~~~~~lle~ 563 (1176)
..+.+..||+|+|||.++..+..+.
T Consensus 57 lp~~LFyGPpGTGKTStalafar~L 81 (346)
T KOG0989|consen 57 LPHYLFYGPPGTGKTSTALAFARAL 81 (346)
T ss_pred CceEEeeCCCCCcHhHHHHHHHHHh
Confidence 4689999999999998888776653
No 393
>COG2996 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]
Probab=94.72 E-value=0.076 Score=58.13 Aligned_cols=66 Identities=27% Similarity=0.389 Sum_probs=56.9
Q ss_pred CCCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEe-CcEeEEEEeecccc
Q 001046 223 LYQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVS-GQKLSLSMRDVDQN 298 (1176)
Q Consensus 223 ~g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id-~~ki~Ls~k~~dq~ 298 (1176)
.++.+.|+|.++..-|.||-+++ +.-|+||-||.- ...+.|+.+.++|+.+. .+++.||++.+-.+
T Consensus 155 ~nq~v~~tVYr~~~~G~fv~~e~--~~~GfIh~sEr~--------~~prlG~~l~~rVi~~reDg~lnLSl~p~~~E 221 (287)
T COG2996 155 KNQEVDATVYRLLESGTFVITEN--GYLGFIHKSERF--------AEPRLGERLTARVIGVREDGKLNLSLRPRAHE 221 (287)
T ss_pred hcCeeeeEEEEEeccceEEEEcC--CeEEEEcchhhc--------ccccCCceEEEEEEEEccCCeeecccccccHH
Confidence 48899999999999999999976 789999998752 33678999999999998 78999999877443
No 394
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=94.72 E-value=0.27 Score=56.83 Aligned_cols=32 Identities=25% Similarity=0.325 Sum_probs=20.9
Q ss_pred HHHHHHHcCC---eEEEEcCCCCcHHHHHHHHHHH
Q 001046 531 ELIQAVHDNQ---VLVVIGETGSGKTTQVTQYLAE 562 (1176)
Q Consensus 531 ~ii~ai~~~~---~vIv~apTGSGKTt~~~~~lle 562 (1176)
.+...+..++ .+++.||+|+|||+.+-.+..+
T Consensus 32 ~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~ 66 (316)
T PHA02544 32 TFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNE 66 (316)
T ss_pred HHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHH
Confidence 3444444553 4555899999999887665443
No 395
>PRK06620 hypothetical protein; Validated
Probab=94.70 E-value=0.13 Score=56.00 Aligned_cols=19 Identities=32% Similarity=0.377 Sum_probs=16.4
Q ss_pred CeEEEEcCCCCcHHHHHHH
Q 001046 540 QVLVVIGETGSGKTTQVTQ 558 (1176)
Q Consensus 540 ~~vIv~apTGSGKTt~~~~ 558 (1176)
+.+++.||+|||||+.+-.
T Consensus 45 ~~l~l~Gp~G~GKThLl~a 63 (214)
T PRK06620 45 FTLLIKGPSSSGKTYLTKI 63 (214)
T ss_pred ceEEEECCCCCCHHHHHHH
Confidence 5699999999999987664
No 396
>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB. The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.
Probab=94.65 E-value=0.073 Score=61.07 Aligned_cols=93 Identities=26% Similarity=0.269 Sum_probs=55.9
Q ss_pred HHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcc-cCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeeccc
Q 001046 530 KELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGY-TTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFED 608 (1176)
Q Consensus 530 ~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~-~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~ 608 (1176)
..+..++..+.+++|+|+|||||||.+-..+-.... ....+|+++.-..++.. .....+.+..
T Consensus 123 ~~L~~~v~~~~~ilI~G~tGSGKTTll~al~~~i~~~~~~~ri~tiEd~~El~~------------~~~~~v~~~~---- 186 (299)
T TIGR02782 123 DVLREAVLARKNILVVGGTGSGKTTLANALLAEIAKNDPTDRVVIIEDTRELQC------------AAPNVVQLRT---- 186 (299)
T ss_pred HHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHhhccCCCceEEEECCchhhcC------------CCCCEEEEEe----
Confidence 344455677889999999999999988665533211 22468888887776532 1111222211
Q ss_pred ccCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCC
Q 001046 609 CTGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTI 650 (1176)
Q Consensus 609 ~~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~ 650 (1176)
..+. .|...+++..+ -.+.+.||+.|+ |+.
T Consensus 187 --~~~~----~~~~~~l~~aL----R~~pD~iivGEi--R~~ 216 (299)
T TIGR02782 187 --SDDA----ISMTRLLKATL----RLRPDRIIVGEV--RGG 216 (299)
T ss_pred --cCCC----CCHHHHHHHHh----cCCCCEEEEecc--CCH
Confidence 1111 15555555543 356789999999 554
No 397
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=94.58 E-value=0.16 Score=58.92 Aligned_cols=39 Identities=23% Similarity=0.365 Sum_probs=29.9
Q ss_pred CchHHHHHHHHHHHcCC----eEEEEcCCCCcHHHHHHHHHHH
Q 001046 524 PIYKLKKELIQAVHDNQ----VLVVIGETGSGKTTQVTQYLAE 562 (1176)
Q Consensus 524 Pi~~~q~~ii~ai~~~~----~vIv~apTGSGKTt~~~~~lle 562 (1176)
++||+|...++.+.... -+++.||.|+|||+.+..+...
T Consensus 3 ~~yPWl~~~~~~~~~~~r~~ha~Lf~G~~G~GK~~~A~~~A~~ 45 (328)
T PRK05707 3 EIYPWQQSLWQQLAGRGRHPHAYLLHGPAGIGKRALAERLAAA 45 (328)
T ss_pred cCCCCcHHHHHHHHHCCCcceeeeeECCCCCCHHHHHHHHHHH
Confidence 46888888888875433 5789999999999887765544
No 398
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.
Probab=94.57 E-value=0.19 Score=65.75 Aligned_cols=119 Identities=26% Similarity=0.408 Sum_probs=61.5
Q ss_pred eEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCceEEEeC
Q 001046 541 VLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTVIKYMT 620 (1176)
Q Consensus 541 ~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t~I~~~T 620 (1176)
+++++||||+|||..+-.. .+..+.....++++. ..-.+-...++...|.+.| .+||. .
T Consensus 598 ~~lf~Gp~GvGKT~lA~~L-a~~l~~~~~~~~~~d---mse~~~~~~~~~l~g~~~g-yvg~~----------------~ 656 (852)
T TIGR03345 598 VFLLVGPSGVGKTETALAL-AELLYGGEQNLITIN---MSEFQEAHTVSRLKGSPPG-YVGYG----------------E 656 (852)
T ss_pred EEEEECCCCCCHHHHHHHH-HHHHhCCCcceEEEe---HHHhhhhhhhccccCCCCC-ccccc----------------c
Confidence 5899999999999766543 333333333344332 1111112233334444433 24432 3
Q ss_pred hHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCC-----------CccEEEEcCCCCHHHHHhhh
Q 001046 621 DGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRP-----------DLRLIVTSATLDAEKFSGYF 687 (1176)
Q Consensus 621 ~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~-----------~~kvIlmSATl~~~~~~~~f 687 (1176)
.|.|...+.. ..+++|+|||++. .+.++. .+|..++.... .-.+|+||..+..+.+...+
T Consensus 657 ~g~L~~~v~~----~p~svvllDEiek--a~~~v~-~~Llq~ld~g~l~d~~Gr~vd~~n~iiI~TSNlg~~~~~~~~ 727 (852)
T TIGR03345 657 GGVLTEAVRR----KPYSVVLLDEVEK--AHPDVL-ELFYQVFDKGVMEDGEGREIDFKNTVILLTSNAGSDLIMALC 727 (852)
T ss_pred cchHHHHHHh----CCCcEEEEechhh--cCHHHH-HHHHHHhhcceeecCCCcEEeccccEEEEeCCCchHHHHHhc
Confidence 4566665554 4579999999973 333332 22222222110 12577777777666655544
No 399
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.54 E-value=0.21 Score=61.45 Aligned_cols=29 Identities=24% Similarity=0.342 Sum_probs=20.8
Q ss_pred HHHHcCC---eEEEEcCCCCcHHHHHHHHHHH
Q 001046 534 QAVHDNQ---VLVVIGETGSGKTTQVTQYLAE 562 (1176)
Q Consensus 534 ~ai~~~~---~vIv~apTGSGKTt~~~~~lle 562 (1176)
.++..++ .++++||+|+||||.+-.+...
T Consensus 28 ~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~ 59 (504)
T PRK14963 28 AALRQGRLGHAYLFSGPRGVGKTTTARLIAMA 59 (504)
T ss_pred HHHHcCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 3344443 3599999999999988766544
No 400
>PRK09087 hypothetical protein; Validated
Probab=94.53 E-value=0.23 Score=54.62 Aligned_cols=38 Identities=11% Similarity=0.304 Sum_probs=24.4
Q ss_pred ceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCCC
Q 001046 638 SVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSATL 678 (1176)
Q Consensus 638 s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSATl 678 (1176)
++|+||++|......+.++.++..+... . +.|+++++.
T Consensus 89 ~~l~iDDi~~~~~~~~~lf~l~n~~~~~--g-~~ilits~~ 126 (226)
T PRK09087 89 GPVLIEDIDAGGFDETGLFHLINSVRQA--G-TSLLMTSRL 126 (226)
T ss_pred CeEEEECCCCCCCCHHHHHHHHHHHHhC--C-CeEEEECCC
Confidence 4899999996544555667777666543 2 445555554
No 401
>PF13307 Helicase_C_2: Helicase C-terminal domain; PDB: 4A15_A 2VSF_A 3CRV_A 3CRW_1 2VL7_A.
Probab=94.50 E-value=0.019 Score=60.10 Aligned_cols=123 Identities=19% Similarity=0.235 Sum_probs=73.2
Q ss_pred CCCCCEEEEeCCHHHHHHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEcc--hhhhccCC
Q 001046 729 EPEGDILLFLTGQEEIDFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVATN--IAEASLTI 806 (1176)
Q Consensus 729 ~~~g~iLVFl~~~~ei~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVATn--iae~GIdI 806 (1176)
..+|.+|||+|+....+.+...+...... .++.++. . .......+++.|..+.--|++|+. .+..|||+
T Consensus 7 ~~~g~~lv~f~Sy~~l~~~~~~~~~~~~~-----~~~~v~~-q---~~~~~~~~l~~~~~~~~~il~~v~~g~~~EGiD~ 77 (167)
T PF13307_consen 7 AVPGGVLVFFPSYRRLEKVYERLKERLEE-----KGIPVFV-Q---GSKSRDELLEEFKRGEGAILLAVAGGSFSEGIDF 77 (167)
T ss_dssp CCSSEEEEEESSHHHHHHHHTT-TSS-E------ETSCEEE-S---TCCHHHHHHHHHCCSSSEEEEEETTSCCGSSS--
T ss_pred cCCCCEEEEeCCHHHHHHHHHHHHhhccc-----ccceeee-c---CcchHHHHHHHHHhccCeEEEEEecccEEEeecC
Confidence 34699999999999988887776542110 0122222 2 234566777788888899999998 99999999
Q ss_pred CC--eeEEEeCCcccceeccCCC----------CC--ccccccccCHHHHHHHhcccCCCCC--cEEEEe
Q 001046 807 DG--IFYVIDPGFAKQNVYNPKQ----------GL--DSLVITPISQASAKQRAGRAGRTGP--GKCYRL 860 (1176)
Q Consensus 807 p~--V~~VId~g~~k~~~yd~~~----------g~--~~l~~~p~S~as~~QR~GRAGR~g~--G~c~~L 860 (1176)
++ ++.||=.|+.-....|+.. +. ......|...-...|-+||+=|... |..+.|
T Consensus 78 ~~~~~r~vii~glPfp~~~d~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~Qa~GR~iR~~~D~g~i~ll 147 (167)
T PF13307_consen 78 PGDLLRAVIIVGLPFPPPSDPLVQAKREYLDKQGKNPFRDWYLPPAIRKLKQAIGRLIRSEDDYGVIILL 147 (167)
T ss_dssp ECESEEEEEEES-----TTCHHHHHHHHHHHHCCTTCHHHHTHHHHHHHHHHHHHCC--STT-EEEEEEE
T ss_pred CCchhheeeecCCCCCCCCCHHHHHHHHHHHHHhccchhhHhhHHHHHHHhhhcCcceeccCCcEEEEEE
Confidence 97 8888877775433333211 00 1112234445578899999999884 555433
No 402
>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.
Probab=94.44 E-value=0.073 Score=56.26 Aligned_cols=127 Identities=18% Similarity=0.292 Sum_probs=69.6
Q ss_pred HHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEec-c-----HHHHHHHHH--HHHHHHhCCccCCeeEEEeecc
Q 001046 536 VHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQ-P-----RRVAAMSVA--KRVAEEFGCRLGEEVGYAIRFE 607 (1176)
Q Consensus 536 i~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~-P-----rR~lA~qva--~rva~e~g~~~G~~vGy~ir~~ 607 (1176)
+..|+.+.|.|++||||||.+-...-. .....|.|.+-- + .......+. -.+.+.+|..
T Consensus 22 i~~G~~~~l~G~nGsGKStLl~~i~G~-~~~~~G~v~~~g~~~~~~~~~~~~~~i~~~~q~l~~~gl~------------ 88 (180)
T cd03214 22 IEAGEIVGILGPNGAGKSTLLKTLAGL-LKPSSGEILLDGKDLASLSPKELARKIAYVPQALELLGLA------------ 88 (180)
T ss_pred ECCCCEEEEECCCCCCHHHHHHHHhCC-CCCCCcEEEECCEECCcCCHHHHHHHHhHHHHHHHHcCCH------------
Confidence 357899999999999999876664432 223345554321 1 111111111 0012222211
Q ss_pred cccCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchh---HHHHHHHHHHhhCCCccEEEEcCCCC
Q 001046 608 DCTGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTD---VLFGLLKQLVKRRPDLRLIVTSATLD 679 (1176)
Q Consensus 608 ~~~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d---~ll~llk~~~~~r~~~kvIlmSATl~ 679 (1176)
.. ....+.-.+.|+..+..+....+.+..++|+||.= .+++.+ .+..+++.+... ....+|+.|.-++
T Consensus 89 ~~--~~~~~~~LS~G~~qrl~laral~~~p~llllDEP~-~~LD~~~~~~~~~~l~~~~~~-~~~tiii~sh~~~ 159 (180)
T cd03214 89 HL--ADRPFNELSGGERQRVLLARALAQEPPILLLDEPT-SHLDIAHQIELLELLRRLARE-RGKTVVMVLHDLN 159 (180)
T ss_pred hH--hcCCcccCCHHHHHHHHHHHHHhcCCCEEEEeCCc-cCCCHHHHHHHHHHHHHHHHh-cCCEEEEEeCCHH
Confidence 00 11233456788888777777778889999999975 445543 444445444322 1456666665543
No 403
>TIGR02928 orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.
Probab=94.34 E-value=0.18 Score=59.50 Aligned_cols=23 Identities=30% Similarity=0.514 Sum_probs=18.8
Q ss_pred CeEEEEcCCCCcHHHHHHHHHHH
Q 001046 540 QVLVVIGETGSGKTTQVTQYLAE 562 (1176)
Q Consensus 540 ~~vIv~apTGSGKTt~~~~~lle 562 (1176)
..++|.||+|+|||+.+-.++.+
T Consensus 41 ~~i~I~G~~GtGKT~l~~~~~~~ 63 (365)
T TIGR02928 41 SNVFIYGKTGTGKTAVTKYVMKE 63 (365)
T ss_pred CcEEEECCCCCCHHHHHHHHHHH
Confidence 58999999999999887665543
No 404
>PLN03025 replication factor C subunit; Provisional
Probab=94.33 E-value=0.24 Score=57.43 Aligned_cols=23 Identities=35% Similarity=0.540 Sum_probs=19.0
Q ss_pred CeEEEEcCCCCcHHHHHHHHHHH
Q 001046 540 QVLVVIGETGSGKTTQVTQYLAE 562 (1176)
Q Consensus 540 ~~vIv~apTGSGKTt~~~~~lle 562 (1176)
..+++.||+|+|||+.+-.++.+
T Consensus 35 ~~lll~Gp~G~GKTtla~~la~~ 57 (319)
T PLN03025 35 PNLILSGPPGTGKTTSILALAHE 57 (319)
T ss_pred ceEEEECCCCCCHHHHHHHHHHH
Confidence 47899999999999887766554
No 405
>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.
Probab=94.32 E-value=0.1 Score=56.63 Aligned_cols=23 Identities=30% Similarity=0.381 Sum_probs=17.7
Q ss_pred CeEEEEcCCCCcHHHHHHHHHHH
Q 001046 540 QVLVVIGETGSGKTTQVTQYLAE 562 (1176)
Q Consensus 540 ~~vIv~apTGSGKTt~~~~~lle 562 (1176)
..+|+.||+|+||||.+-...-+
T Consensus 51 ~h~lf~GPPG~GKTTLA~IIA~e 73 (233)
T PF05496_consen 51 DHMLFYGPPGLGKTTLARIIANE 73 (233)
T ss_dssp -EEEEESSTTSSHHHHHHHHHHH
T ss_pred ceEEEECCCccchhHHHHHHHhc
Confidence 37999999999999876654333
No 406
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=94.32 E-value=0.13 Score=64.25 Aligned_cols=52 Identities=17% Similarity=0.153 Sum_probs=40.2
Q ss_pred CceEEEEcchhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCC---CcEEEE
Q 001046 790 KRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTG---PGKCYR 859 (1176)
Q Consensus 790 ~~kVlVATniae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g---~G~c~~ 859 (1176)
.++.|++-.++-.|-|=|+|-.+. |... .-|-.+=.|.+||.-|-. .|.-++
T Consensus 483 plRFIFS~waLrEGWDNPNVFtIc-----kL~~-------------S~SeiSK~QeVGRGLRLaVNe~G~RV~ 537 (985)
T COG3587 483 PLRFIFSKWALREGWDNPNVFTIC-----KLRS-------------SGSEISKLQEVGRGLRLAVNENGERVT 537 (985)
T ss_pred cceeeeehhHHhhcCCCCCeeEEE-----EecC-------------CCcchHHHHHhccceeeeeccccceec
Confidence 489999999999999999986665 1111 456677899999999976 566554
No 407
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=94.27 E-value=0.35 Score=57.04 Aligned_cols=53 Identities=19% Similarity=0.252 Sum_probs=33.2
Q ss_pred HHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCCC
Q 001046 624 LLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSATL 678 (1176)
Q Consensus 624 Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSATl 678 (1176)
+.+.+...+....+.+|||||+|. .+....-.+|+.+-.-.+...+|++|...
T Consensus 129 l~~~~~~~~~~~~~kVviIDead~--m~~~aanaLLK~LEepp~~~~~IL~t~~~ 181 (365)
T PRK07471 129 LISFFGLTAAEGGWRVVIVDTADE--MNANAANALLKVLEEPPARSLFLLVSHAP 181 (365)
T ss_pred HHHHhCcCcccCCCEEEEEechHh--cCHHHHHHHHHHHhcCCCCeEEEEEECCc
Confidence 444444455678899999999994 34455556666554433455566655554
No 408
>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases. Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.
Probab=94.27 E-value=0.3 Score=55.02 Aligned_cols=41 Identities=20% Similarity=0.368 Sum_probs=31.3
Q ss_pred HHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEec
Q 001046 535 AVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQ 575 (1176)
Q Consensus 535 ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~ 575 (1176)
-+..+..++|.|+||+|||+.+.+++.......+.+++++.
T Consensus 26 G~~~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS 66 (271)
T cd01122 26 GLRKGELIILTAGTGVGKTTFLREYALDLITQHGVRVGTIS 66 (271)
T ss_pred EEcCCcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEE
Confidence 35678899999999999999999988775433345666553
No 409
>PRK04195 replication factor C large subunit; Provisional
Probab=94.26 E-value=0.44 Score=58.58 Aligned_cols=25 Identities=24% Similarity=0.426 Sum_probs=20.7
Q ss_pred CCeEEEEcCCCCcHHHHHHHHHHHh
Q 001046 539 NQVLVVIGETGSGKTTQVTQYLAEA 563 (1176)
Q Consensus 539 ~~~vIv~apTGSGKTt~~~~~lle~ 563 (1176)
.+.+++.||+|+||||.+-.++-+.
T Consensus 39 ~~~lLL~GppG~GKTtla~ala~el 63 (482)
T PRK04195 39 KKALLLYGPPGVGKTSLAHALANDY 63 (482)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHc
Confidence 4689999999999999887765554
No 410
>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.
Probab=94.26 E-value=0.54 Score=51.49 Aligned_cols=117 Identities=17% Similarity=0.211 Sum_probs=62.0
Q ss_pred CeEEEEcCCCCcHHHHHHHHHHHhcc--cCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCceEE
Q 001046 540 QVLVVIGETGSGKTTQVTQYLAEAGY--TTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTVIK 617 (1176)
Q Consensus 540 ~~vIv~apTGSGKTt~~~~~lle~~~--~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t~I~ 617 (1176)
+.++|.|++|+|||..+ +.+..... ..+.+|+|+... ......+..+.. +
T Consensus 35 ~~l~l~G~~G~GKTHLL-~Ai~~~~~~~~~~~~v~y~~~~-~f~~~~~~~~~~------~-------------------- 86 (219)
T PF00308_consen 35 NPLFLYGPSGLGKTHLL-QAIANEAQKQHPGKRVVYLSAE-EFIREFADALRD------G-------------------- 86 (219)
T ss_dssp SEEEEEESTTSSHHHHH-HHHHHHHHHHCTTS-EEEEEHH-HHHHHHHHHHHT------T--------------------
T ss_pred CceEEECCCCCCHHHHH-HHHHHHHHhccccccceeecHH-HHHHHHHHHHHc------c--------------------
Confidence 46899999999999743 33333222 134567666433 222222222111 0
Q ss_pred EeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCc---hhHHHHHHHHHHhhCCCccEEEEcCCCC------HHHHHhhhc
Q 001046 618 YMTDGMLLREILIDDNLSQYSVIMLDEAHERTIH---TDVLFGLLKQLVKRRPDLRLIVTSATLD------AEKFSGYFF 688 (1176)
Q Consensus 618 ~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~---~d~ll~llk~~~~~r~~~kvIlmSATl~------~~~~~~~f~ 688 (1176)
....+.. .+..+++||||.+|.-... .+.++.++..+... +.++|+.|...+ ...+...|.
T Consensus 87 --~~~~~~~------~~~~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~--~k~li~ts~~~P~~l~~~~~~L~SRl~ 156 (219)
T PF00308_consen 87 --EIEEFKD------RLRSADLLIIDDIQFLAGKQRTQEELFHLFNRLIES--GKQLILTSDRPPSELSGLLPDLRSRLS 156 (219)
T ss_dssp --SHHHHHH------HHCTSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHT--TSEEEEEESS-TTTTTTS-HHHHHHHH
T ss_pred --cchhhhh------hhhcCCEEEEecchhhcCchHHHHHHHHHHHHHHhh--CCeEEEEeCCCCccccccChhhhhhHh
Confidence 1111222 2467899999999953222 34666666666554 457777775553 234555555
Q ss_pred CCCeEe
Q 001046 689 NCNIFT 694 (1176)
Q Consensus 689 ~~~v~~ 694 (1176)
...++.
T Consensus 157 ~Gl~~~ 162 (219)
T PF00308_consen 157 WGLVVE 162 (219)
T ss_dssp CSEEEE
T ss_pred hcchhh
Confidence 444433
No 411
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=94.26 E-value=0.18 Score=60.31 Aligned_cols=34 Identities=15% Similarity=0.259 Sum_probs=27.7
Q ss_pred HHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHH
Q 001046 528 LKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLA 561 (1176)
Q Consensus 528 ~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~ll 561 (1176)
..+.++.++..++++++.||+|+|||+.+-....
T Consensus 183 ~le~l~~~L~~~~~iil~GppGtGKT~lA~~la~ 216 (459)
T PRK11331 183 TIETILKRLTIKKNIILQGPPGVGKTFVARRLAY 216 (459)
T ss_pred HHHHHHHHHhcCCCEEEECCCCCCHHHHHHHHHH
Confidence 3456777888899999999999999988865443
No 412
>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra
Probab=94.26 E-value=0.14 Score=53.77 Aligned_cols=127 Identities=19% Similarity=0.241 Sum_probs=68.5
Q ss_pred HHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEec-cHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCc
Q 001046 536 VHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQ-PRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDT 614 (1176)
Q Consensus 536 i~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~-PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t 614 (1176)
+..|+.+.|+||+||||||.+-..+-.. ....|.|.+-- +.... . ...+. ..++|..... ...+.+
T Consensus 25 i~~Ge~~~i~G~nGsGKStLl~~l~G~~-~~~~G~i~~~g~~~~~~--~-~~~~~--------~~i~~~~q~~-~~~~~t 91 (173)
T cd03246 25 IEPGESLAIIGPSGSGKSTLARLILGLL-RPTSGRVRLDGADISQW--D-PNELG--------DHVGYLPQDD-ELFSGS 91 (173)
T ss_pred ECCCCEEEEECCCCCCHHHHHHHHHhcc-CCCCCeEEECCEEcccC--C-HHHHH--------hheEEECCCC-ccccCc
Confidence 3578999999999999998776554332 22345554321 10000 0 00111 1133321110 000001
Q ss_pred eEE-EeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchh---HHHHHHHHHHhhCCCccEEEEcCCC
Q 001046 615 VIK-YMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTD---VLFGLLKQLVKRRPDLRLIVTSATL 678 (1176)
Q Consensus 615 ~I~-~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d---~ll~llk~~~~~r~~~kvIlmSATl 678 (1176)
..- +.+.|+..+..+....+.+.+++|+||.= .+++.. .+..+++.+.. .+..+|+.|.-+
T Consensus 92 v~~~lLS~G~~qrv~la~al~~~p~~lllDEPt-~~LD~~~~~~l~~~l~~~~~--~~~tii~~sh~~ 156 (173)
T cd03246 92 IAENILSGGQRQRLGLARALYGNPRILVLDEPN-SHLDVEGERALNQAIAALKA--AGATRIVIAHRP 156 (173)
T ss_pred HHHHCcCHHHHHHHHHHHHHhcCCCEEEEECCc-cccCHHHHHHHHHHHHHHHh--CCCEEEEEeCCH
Confidence 000 16788888888877788999999999975 444443 44455554432 245566666654
No 413
>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=94.24 E-value=0.029 Score=59.18 Aligned_cols=131 Identities=17% Similarity=0.190 Sum_probs=70.1
Q ss_pred HHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEec-cHHHHHHHHHHHHHHHhCCccCCeeEEEeeccccc---C
Q 001046 536 VHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQ-PRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCT---G 611 (1176)
Q Consensus 536 i~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~-PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~---~ 611 (1176)
+..|+.+.|+|+.||||||.+-..+-.. ....|.|.+-- +..... +....+. ..++|........ +
T Consensus 23 i~~G~~~~i~G~nGsGKSTLl~~l~G~~-~~~~G~i~~~g~~~~~~~-~~~~~~~--------~~i~~~~q~~~~~~~~t 92 (178)
T cd03229 23 IEAGEIVALLGPSGSGKSTLLRCIAGLE-EPDSGSILIDGEDLTDLE-DELPPLR--------RRIGMVFQDFALFPHLT 92 (178)
T ss_pred EcCCCEEEEECCCCCCHHHHHHHHhCCC-CCCceEEEECCEEccccc-hhHHHHh--------hcEEEEecCCccCCCCC
Confidence 4678999999999999999776654221 22345554421 100000 0001111 1234332111111 1
Q ss_pred CCceEEE-eChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchh---HHHHHHHHHHhhCCCccEEEEcCCC
Q 001046 612 PDTVIKY-MTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTD---VLFGLLKQLVKRRPDLRLIVTSATL 678 (1176)
Q Consensus 612 ~~t~I~~-~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d---~ll~llk~~~~~r~~~kvIlmSATl 678 (1176)
-...+.+ .+.|+..+..+....+.+..++|+||-- .+++.+ .+..+++.+... .+..+|+.|.-+
T Consensus 93 ~~~~l~~~lS~G~~qr~~la~al~~~p~llilDEP~-~~LD~~~~~~l~~~l~~~~~~-~~~tiii~sH~~ 161 (178)
T cd03229 93 VLENIALGLSGGQQQRVALARALAMDPDVLLLDEPT-SALDPITRREVRALLKSLQAQ-LGITVVLVTHDL 161 (178)
T ss_pred HHHheeecCCHHHHHHHHHHHHHHCCCCEEEEeCCc-ccCCHHHHHHHHHHHHHHHHh-cCCEEEEEeCCH
Confidence 0112333 7889988888877788899999999976 455554 344444444332 134555555543
No 414
>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=94.19 E-value=0.11 Score=54.38 Aligned_cols=127 Identities=22% Similarity=0.296 Sum_probs=68.1
Q ss_pred HHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEec-cHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCc
Q 001046 536 VHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQ-PRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDT 614 (1176)
Q Consensus 536 i~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~-PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t 614 (1176)
+..|+.+.|+|+.||||||.+-...-. .....|.|.+-- +..... ... ...++|...........+
T Consensus 23 i~~Ge~~~i~G~nGsGKStLl~~l~G~-~~~~~G~i~~~g~~~~~~~----~~~--------~~~i~~~~q~~~~~~~~t 89 (173)
T cd03230 23 VEKGEIYGLLGPNGAGKTTLIKIILGL-LKPDSGEIKVLGKDIKKEP----EEV--------KRRIGYLPEEPSLYENLT 89 (173)
T ss_pred EcCCcEEEEECCCCCCHHHHHHHHhCC-CCCCCeEEEECCEEcccch----Hhh--------hccEEEEecCCccccCCc
Confidence 367899999999999999876654322 122345554321 111000 111 112444322111100000
Q ss_pred --eEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchh---HHHHHHHHHHhhCCCccEEEEcCCC
Q 001046 615 --VIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTD---VLFGLLKQLVKRRPDLRLIVTSATL 678 (1176)
Q Consensus 615 --~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d---~ll~llk~~~~~r~~~kvIlmSATl 678 (1176)
.-+..+.|+..+..+......+..++++||-- .+++.+ .+..+++.+... ...+|+.|.-+
T Consensus 90 v~~~~~LS~G~~qrv~laral~~~p~illlDEPt-~~LD~~~~~~l~~~l~~~~~~--g~tiii~th~~ 155 (173)
T cd03230 90 VRENLKLSGGMKQRLALAQALLHDPELLILDEPT-SGLDPESRREFWELLRELKKE--GKTILLSSHIL 155 (173)
T ss_pred HHHHhhcCHHHHHHHHHHHHHHcCCCEEEEeCCc-cCCCHHHHHHHHHHHHHHHHC--CCEEEEECCCH
Confidence 00116778888877777778889999999976 455544 344444444332 45566666543
No 415
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=94.19 E-value=0.092 Score=66.29 Aligned_cols=65 Identities=17% Similarity=0.262 Sum_probs=48.6
Q ss_pred chHHHHH-HHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHH
Q 001046 525 IYKLKKE-LIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAE 590 (1176)
Q Consensus 525 i~~~q~~-ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~ 590 (1176)
+..-|.+ ++.++......+|.|-+|+||||.+...+--. ...+.+|+.+.-|-.++..+..++..
T Consensus 670 LN~dQr~A~~k~L~aedy~LI~GMPGTGKTTtI~~LIkiL-~~~gkkVLLtsyThsAVDNILiKL~~ 735 (1100)
T KOG1805|consen 670 LNNDQRQALLKALAAEDYALILGMPGTGKTTTISLLIKIL-VALGKKVLLTSYTHSAVDNILIKLKG 735 (1100)
T ss_pred cCHHHHHHHHHHHhccchheeecCCCCCchhhHHHHHHHH-HHcCCeEEEEehhhHHHHHHHHHHhc
Confidence 4444544 45556777889999999999999887765443 44577999999999998888776643
No 416
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=94.14 E-value=0.08 Score=61.13 Aligned_cols=54 Identities=24% Similarity=0.300 Sum_probs=36.1
Q ss_pred HHHHHHH-HHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcc-cCCCEEEEeccHHHH
Q 001046 527 KLKKELI-QAVHDNQVLVVIGETGSGKTTQVTQYLAEAGY-TTRGKIGCTQPRRVA 580 (1176)
Q Consensus 527 ~~q~~ii-~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~-~~~~~Ilv~~PrR~l 580 (1176)
+.|.+++ .++..+.+++|+|+|||||||.+-..+..... ....+++++....++
T Consensus 131 ~~~~~~L~~~v~~~~nilI~G~tGSGKTTll~aL~~~i~~~~~~~rivtiEd~~El 186 (323)
T PRK13833 131 EAQASVIRSAIDSRLNIVISGGTGSGKTTLANAVIAEIVASAPEDRLVILEDTAEI 186 (323)
T ss_pred HHHHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHHhcCCCCceEEEecCCccc
Confidence 4444444 45677889999999999999988554433211 234578888776665
No 417
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=94.13 E-value=0.11 Score=58.35 Aligned_cols=19 Identities=42% Similarity=0.642 Sum_probs=15.6
Q ss_pred cCCeEEEEcCCCCcHHHHH
Q 001046 538 DNQVLVVIGETGSGKTTQV 556 (1176)
Q Consensus 538 ~~~~vIv~apTGSGKTt~~ 556 (1176)
...+++++||||||||+.+
T Consensus 96 ~KSNILLiGPTGsGKTlLA 114 (408)
T COG1219 96 SKSNILLIGPTGSGKTLLA 114 (408)
T ss_pred eeccEEEECCCCCcHHHHH
Confidence 4568999999999999543
No 418
>cd05699 S1_Rrp5_repeat_hs7 S1_Rrp5_repeat_hs7: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 7 (hs7). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=94.10 E-value=0.16 Score=44.92 Aligned_cols=68 Identities=10% Similarity=0.131 Sum_probs=53.9
Q ss_pred CCEEEEEEEEEeeceeEEEeCCCCCeeeeeecccccccccCC---cccccCCCCEE-EEEEEEEeCcEeEEEEe
Q 001046 224 YQVYKGRVSRVVDTGCFVQLNDFRGKEGLVHVSQIATRRIGN---AKDVVKRDQEV-YVKVISVSGQKLSLSMR 293 (1176)
Q Consensus 224 g~~~~g~V~~i~~~G~fV~l~~~~~~eGlvhisels~~~~~~---~~~~~~~Gd~V-~VkV~~id~~ki~Ls~k 293 (1176)
|+++.|+|..-+.-+++|++.+. +..|+++..++++ .+++ .-..+++||++ .+.|+....+.|.||.|
T Consensus 1 G~lV~~~V~EKt~D~l~v~l~~~-~l~a~l~~~HLsD-~~~k~~~~~~klrvG~~L~~~lvL~~~~r~i~lt~K 72 (72)
T cd05699 1 GKLVDARVLKKTLNGLEVAILPE-EIRAFLPTMHLSD-HVSNCPLLWHCLQEGDTIPNLMCLSNYKGRIILTKK 72 (72)
T ss_pred CceEEEEEEEEcCCcEEEEecCC-CcEEEEEccccCC-chhhCHHHHhhhhcCCCccceEEEeccccEEEEecC
Confidence 68899999999999999999973 6899999999998 5542 23458899999 89998333556777654
No 419
>KOG1856 consensus Transcription elongation factor SPT6 [RNA processing and modification]
Probab=94.10 E-value=0.056 Score=68.86 Aligned_cols=77 Identities=23% Similarity=0.312 Sum_probs=64.5
Q ss_pred CCCCCCCCCCEEEEEEEEEeece---eEEEeCCCCCeeeeeecccccccccCCcccccCCCCEEEEEEEEEeCcEe--EE
Q 001046 216 YRGNEPELYQVYKGRVSRVVDTG---CFVQLNDFRGKEGLVHVSQIATRRIGNAKDVVKRDQEVYVKVISVSGQKL--SL 290 (1176)
Q Consensus 216 ~~~~~~~~g~~~~g~V~~i~~~G---~fV~l~~~~~~eGlvhisels~~~~~~~~~~~~~Gd~V~VkV~~id~~ki--~L 290 (1176)
+..+.+..|.++.++|++|+.-- +-|.++. |..|+||.++++...+.+|...+++||.|.+||++++..++ .|
T Consensus 978 et~et~~~g~iV~~~V~~vt~rr~~Cv~v~ld~--G~~g~i~~~~~Sd~~v~~p~~~v~vgq~v~~kvi~id~e~f~v~L 1055 (1299)
T KOG1856|consen 978 ETPETFYEGAIVPVTVTKVTHRRGICVRVRLDC--GVTGFILAKNLSDRDVRRPENRVKVGQTVYCKVIKIDKERFSVEL 1055 (1299)
T ss_pred CChhHhccCceEEEeeeEEEecccceeEEEecC--CCceeeeccccChhhccCHHHhhccCceEEEEeeeeeHhhhhhhh
Confidence 33456889999999999998765 4567776 89999999999999999999999999999999999996654 45
Q ss_pred EEee
Q 001046 291 SMRD 294 (1176)
Q Consensus 291 s~k~ 294 (1176)
|.+.
T Consensus 1056 s~r~ 1059 (1299)
T KOG1856|consen 1056 SCRT 1059 (1299)
T ss_pred hhhh
Confidence 5554
No 420
>TIGR00362 DnaA chromosomal replication initiator protein DnaA. DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).
Probab=94.09 E-value=0.33 Score=58.23 Aligned_cols=35 Identities=20% Similarity=0.264 Sum_probs=22.7
Q ss_pred CeEEEEcCCCCcHHHHHHHHHHHhcccC--CCEEEEec
Q 001046 540 QVLVVIGETGSGKTTQVTQYLAEAGYTT--RGKIGCTQ 575 (1176)
Q Consensus 540 ~~vIv~apTGSGKTt~~~~~lle~~~~~--~~~Ilv~~ 575 (1176)
+.+++.|++|+|||+.+-.+ ....... +..++++.
T Consensus 137 n~l~l~G~~G~GKThL~~ai-~~~l~~~~~~~~v~yi~ 173 (405)
T TIGR00362 137 NPLFIYGGVGLGKTHLLHAI-GNEILENNPNAKVVYVS 173 (405)
T ss_pred CeEEEECCCCCcHHHHHHHH-HHHHHHhCCCCcEEEEE
Confidence 46899999999999876443 3332222 34566664
No 421
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.05 E-value=0.25 Score=61.92 Aligned_cols=33 Identities=21% Similarity=0.393 Sum_probs=23.5
Q ss_pred HHHHHHHHcCC---eEEEEcCCCCcHHHHHHHHHHH
Q 001046 530 KELIQAVHDNQ---VLVVIGETGSGKTTQVTQYLAE 562 (1176)
Q Consensus 530 ~~ii~ai~~~~---~vIv~apTGSGKTt~~~~~lle 562 (1176)
..+..++..++ .+|+.||.|+||||.+-.+...
T Consensus 26 ~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~ 61 (576)
T PRK14965 26 RTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKA 61 (576)
T ss_pred HHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHh
Confidence 34445555654 4689999999999988776544
No 422
>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt
Probab=94.00 E-value=0.14 Score=53.44 Aligned_cols=118 Identities=16% Similarity=0.166 Sum_probs=63.5
Q ss_pred HHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeeccccc--CCC
Q 001046 536 VHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCT--GPD 613 (1176)
Q Consensus 536 i~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~--~~~ 613 (1176)
+..|+.+.|+|+.||||||.+-..+-.. ....|.|.+-.. ..++|........ +-.
T Consensus 24 i~~Ge~~~i~G~nGsGKSTLl~~l~G~~-~~~~G~i~~~~~---------------------~~i~~~~q~~~~~~~tv~ 81 (166)
T cd03223 24 IKPGDRLLITGPSGTGKSSLFRALAGLW-PWGSGRIGMPEG---------------------EDLLFLPQRPYLPLGTLR 81 (166)
T ss_pred ECCCCEEEEECCCCCCHHHHHHHHhcCC-CCCCceEEECCC---------------------ceEEEECCCCccccccHH
Confidence 4679999999999999999776654332 222444433110 1122211100000 000
Q ss_pred c-----eEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCCC
Q 001046 614 T-----VIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSATL 678 (1176)
Q Consensus 614 t-----~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSATl 678 (1176)
. ...-.+.|+..+..+....+.+.+++|+||-- .+++.+....+...+... ...+|+.|.-+
T Consensus 82 ~nl~~~~~~~LS~G~~~rv~laral~~~p~~lllDEPt-~~LD~~~~~~l~~~l~~~--~~tiiivsh~~ 148 (166)
T cd03223 82 EQLIYPWDDVLSGGEQQRLAFARLLLHKPKFVFLDEAT-SALDEESEDRLYQLLKEL--GITVISVGHRP 148 (166)
T ss_pred HHhhccCCCCCCHHHHHHHHHHHHHHcCCCEEEEECCc-cccCHHHHHHHHHHHHHh--CCEEEEEeCCh
Confidence 0 12235677777777777778889999999965 445544333333322222 34566665554
No 423
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=93.99 E-value=0.4 Score=60.76 Aligned_cols=52 Identities=23% Similarity=0.404 Sum_probs=30.2
Q ss_pred HHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCC
Q 001046 623 MLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSAT 677 (1176)
Q Consensus 623 ~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSAT 677 (1176)
.+...+...|....+.++||||||. +.....-++++.+ ...|+.-++++.+|
T Consensus 105 eLie~~~~~P~~g~~KV~IIDEa~~--LT~~A~NALLKtL-EEPP~~tifILaTt 156 (725)
T PRK07133 105 ELIENVKNLPTQSKYKIYIIDEVHM--LSKSAFNALLKTL-EEPPKHVIFILATT 156 (725)
T ss_pred HHHHHHHhchhcCCCEEEEEEChhh--CCHHHHHHHHHHh-hcCCCceEEEEEcC
Confidence 3445555567788999999999994 3334444445443 33343333334333
No 424
>KOG2036 consensus Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]
Probab=93.98 E-value=1.2 Score=54.71 Aligned_cols=315 Identities=19% Similarity=0.269 Sum_probs=160.6
Q ss_pred HHHHHHHc---CCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCC-ccCCeeEEEeec
Q 001046 531 ELIQAVHD---NQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGC-RLGEEVGYAIRF 606 (1176)
Q Consensus 531 ~ii~ai~~---~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~-~~G~~vGy~ir~ 606 (1176)
+++++|.. +-.+-++|.-|-|||.++-+.++.+.......|.|+.|.-+-...+..-|.+-+.. ..-+.+-|.+-.
T Consensus 264 ~f~dai~eK~lr~~vsLtA~RGRGKSAALGlsiA~AVa~GysnIyvtSPspeNlkTlFeFv~kGfDaL~Yqeh~Dy~iI~ 343 (1011)
T KOG2036|consen 264 TFFDAIVEKTLRSTVSLTASRGRGKSAALGLSIAGAVAFGYSNIYVTSPSPENLKTLFEFVFKGFDALEYQEHVDYDIIQ 343 (1011)
T ss_pred HHHHHHHHhhhcceEEEEecCCCCchhhhhHHHHHHHhcCcceEEEcCCChHHHHHHHHHHHcchhhhcchhhcchhhhh
Confidence 34555533 44678899999999999888887764444458999999988877777766553311 001111121111
Q ss_pred -------------ccccCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEE
Q 001046 607 -------------EDCTGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIV 673 (1176)
Q Consensus 607 -------------~~~~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIl 673 (1176)
+-.....--|-|..|.- ...|....+||||||-- +=+.+++.++ ..-++.
T Consensus 344 s~np~fkkaivRInifr~hrQtIQYi~P~D-------~~kl~q~eLlVIDEAAA------IPLplvk~Li----gPylVf 406 (1011)
T KOG2036|consen 344 STNPDFKKAIVRINIFREHRQTIQYISPHD-------HQKLGQAELLVIDEAAA------IPLPLVKKLI----GPYLVF 406 (1011)
T ss_pred hcChhhhhhEEEEEEeccccceeEeeccch-------hhhccCCcEEEechhhc------CCHHHHHHhh----cceeEE
Confidence 00011112233443310 11477889999999962 3345566654 446899
Q ss_pred EcCCCCH---------HHHHhhhcCCC---e------EecCCceee-e----EEEEecCCCchhHHHHHHHHHHHHhcC-
Q 001046 674 TSATLDA---------EKFSGYFFNCN---I------FTIPGRTFP-V----EILYTKQPESDYLDASLITVLQIHLTE- 729 (1176)
Q Consensus 674 mSATl~~---------~~~~~~f~~~~---v------~~i~gr~~p-v----~~~~~~~~~~~~~~~~l~~v~~i~~~~- 729 (1176)
|+.|++. -++.+-+.... . -.-.|++++ + .+.|.. .|-++.-+..++-+....
T Consensus 407 maSTinGYEGTGRSlSlKLlqqLr~qs~~~~~~~~k~~~~sg~~~kei~l~EsIRY~~---gD~IE~WLn~lLcLDas~~ 483 (1011)
T KOG2036|consen 407 MASTINGYEGTGRSLSLKLLQQLRKQSRASNARENKSSSKSGRTLKEISLEESIRYAP---GDPIEKWLNRLLCLDASNC 483 (1011)
T ss_pred EeecccccccccceehHHHHHHHHHhccccccccCcccccccceeccccccccccCCC---CCcHHHHHhhhhhhccccC
Confidence 9999861 12222221110 0 011233322 1 233332 233333333322221111
Q ss_pred ---C-----C-CCEEEEeCCHHHH---HHHHHHHHHHHhccCCCCCCeEEEEecCCCCHHHHHhhcCCCCCCCceEEEEc
Q 001046 730 ---P-----E-GDILLFLTGQEEI---DFACQSLYERMKGLGKNVPELIILPVYSALPSEMQSRIFDPAPPGKRKVVVAT 797 (1176)
Q Consensus 730 ---~-----~-g~iLVFl~~~~ei---~~l~~~L~~~~~~l~~~~~~~~v~~lhs~l~~~~r~~i~~~f~~g~~kVlVAT 797 (1176)
. + ..-|-+++. ... ...++.+.+++-. +.|..+|-.-|.+.| ++.+.|....- ++-+
T Consensus 484 ~~~~~g~P~Ps~CeLyyVnR-dtLFSyh~~sE~FLqr~ma-------l~VSSHYKNSPNDLQ--llsDAPaH~LF-vLl~ 552 (1011)
T KOG2036|consen 484 LPITSGCPSPSACELYYVNR-DTLFSYHKASEAFLQRLMA-------LYVSSHYKNSPNDLQ--LLSDAPAHHLF-VLLG 552 (1011)
T ss_pred CcccCCCCChhHceEEEEcc-hhhhcCCchHHHHHHHHHH-------HHHHHhccCCchhhh--hhccCcccceE-EEec
Confidence 1 1 122333321 100 0112222222211 223334455554443 44555555544 4456
Q ss_pred chhhhccCCCCeeEEEeCCcccceeccCCCCCccccccccCHHHHHHHhcccCCCCCcEEEEecChHHHhhhCCCCC---
Q 001046 798 NIAEASLTIDGIFYVIDPGFAKQNVYNPKQGLDSLVITPISQASAKQRAGRAGRTGPGKCYRLYTESAYRNEMSPTS--- 874 (1176)
Q Consensus 798 niae~GIdIp~V~~VId~g~~k~~~yd~~~g~~~l~~~p~S~as~~QR~GRAGR~g~G~c~~L~t~~~~~~~l~~~~--- 874 (1176)
+|-..+=+||+|-+||+.++ ...+|..+..+-.+|.-|++--..=..+++......++...
T Consensus 553 PVd~~~~~iPdvlcviQv~l----------------EG~isr~si~~sL~~G~~a~GdlIpW~vseQf~D~~F~~l~GaR 616 (1011)
T KOG2036|consen 553 PVDPSQNAIPDVLCVIQVCL----------------EGRISRQSIENSLRRGKRAAGDLIPWTVSEQFQDEDFPKLSGAR 616 (1011)
T ss_pred CcCcccCCCCcceEEEEEee----------------cceecHHHHHHHHhccccccCCccceehhhhhcccchhcccCce
Confidence 78888889999999998887 22678888888777777766333334445544333344322
Q ss_pred ------chhhhhcChHHHHHHHHH
Q 001046 875 ------IPEIQRINLGFTTLTMKA 892 (1176)
Q Consensus 875 ------~pEI~r~~L~~~~L~lk~ 892 (1176)
-||-+...-....++|..
T Consensus 617 IVRIAvhP~y~~MGYGsrAvqLL~ 640 (1011)
T KOG2036|consen 617 IVRIAVHPEYQKMGYGSRAVQLLT 640 (1011)
T ss_pred EEEEEeccchhccCccHHHHHHHH
Confidence 256566655566666543
No 425
>TIGR00678 holB DNA polymerase III, delta' subunit. At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.
Probab=93.98 E-value=0.34 Score=51.47 Aligned_cols=32 Identities=19% Similarity=0.297 Sum_probs=23.9
Q ss_pred HHHHHHHcC---CeEEEEcCCCCcHHHHHHHHHHH
Q 001046 531 ELIQAVHDN---QVLVVIGETGSGKTTQVTQYLAE 562 (1176)
Q Consensus 531 ~ii~ai~~~---~~vIv~apTGSGKTt~~~~~lle 562 (1176)
.+.+++.++ +.+++.||+|+|||+.+-.++..
T Consensus 3 ~l~~~i~~~~~~~~~L~~G~~G~gkt~~a~~~~~~ 37 (188)
T TIGR00678 3 QLKRALEKGRLAHAYLFAGPEGVGKELLALALAKA 37 (188)
T ss_pred HHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 345556665 35889999999999887776554
No 426
>PRK10865 protein disaggregation chaperone; Provisional
Probab=93.97 E-value=0.45 Score=62.43 Aligned_cols=82 Identities=28% Similarity=0.389 Sum_probs=43.9
Q ss_pred eEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCceEEEeC
Q 001046 541 VLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTVIKYMT 620 (1176)
Q Consensus 541 ~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t~I~~~T 620 (1176)
.++++||||+|||+.+-. +....+..+...+++.-. .... ...+...+|.+.| .+||. .
T Consensus 600 ~~Lf~Gp~G~GKT~lA~a-La~~l~~~~~~~i~id~s-e~~~--~~~~~~LiG~~pg-y~g~~----------------~ 658 (857)
T PRK10865 600 SFLFLGPTGVGKTELCKA-LANFMFDSDDAMVRIDMS-EFME--KHSVSRLVGAPPG-YVGYE----------------E 658 (857)
T ss_pred eEEEECCCCCCHHHHHHH-HHHHhhcCCCcEEEEEhH-Hhhh--hhhHHHHhCCCCc-ccccc----------------h
Confidence 689999999999987744 445444433334433221 1111 1123344555443 34432 1
Q ss_pred hHHHHHHHhhCCCCCCCceEEEcCCCc
Q 001046 621 DGMLLREILIDDNLSQYSVIMLDEAHE 647 (1176)
Q Consensus 621 ~g~Llr~l~~~~~L~~~s~IIiDEaHe 647 (1176)
.|.|...+.. ..+++|+|||++.
T Consensus 659 ~g~l~~~v~~----~p~~vLllDEiek 681 (857)
T PRK10865 659 GGYLTEAVRR----RPYSVILLDEVEK 681 (857)
T ss_pred hHHHHHHHHh----CCCCeEEEeehhh
Confidence 1333333322 3468999999983
No 427
>PF01480 PWI: PWI domain; InterPro: IPR002483 The PWI domain, named after a highly conserved PWI tri-peptide located within its N-terminal region, is a ~80 amino acid module, which is found either at the N terminus or at the C terminus of eukaryotic proteins involved in pre-mRNA processing []. It is generally found in association with other domains such as RRM and RS. The PWI domain is a RNA/DNA-binding domain that has an equal preference for single- and double-stranded nucleic acids and is likely to have multiple important functions in pre-mRNA processing []. Proteins containing this domain include the SR-related nuclear matrix protein of 160kDa (SRm160) splicing and 3'-end cleavage-stimulatory factor, and the mammalian splicing factor PRP3. The PWI domain is a soluble, globular and independently folded domain which consists of a four-helix bundle, with structured N- and C-terminal elements [].; GO: 0006397 mRNA processing; PDB: 1MP1_A 1X4Q_A.
Probab=93.93 E-value=0.12 Score=46.77 Aligned_cols=63 Identities=27% Similarity=0.420 Sum_probs=47.6
Q ss_pred hhHHHHHHHHhhhCCCChhHHHHHHHHHhhCC-----ChHHHHHHHHHcCCCCCHHHHHHHHHHHHhh
Q 001046 18 LVSKVCSELETHLGFGDKVLAEFITELGRNCE-----TVDEFDSKLKENGAEMPDYFVRTLLTIIHAI 80 (1176)
Q Consensus 18 lvskv~~el~nhlgi~dk~laefii~l~~~~~-----~~~~F~~~l~~~ga~~~~~~~~~l~~li~~~ 80 (1176)
|-.-|+..|...+|.+|.+|++||+++-.+.. +.......|.+.=.+=...|+..||+++..-
T Consensus 4 lk~WI~~kl~e~lG~edd~lvdyI~~~l~~~~~~~~~~~~~l~~~L~~fL~~~a~~Fv~~Lw~~l~~~ 71 (77)
T PF01480_consen 4 LKPWISKKLEEILGFEDDVLVDYIVALLKSHKSSNEPDPKELQEQLEDFLDEEAEEFVDELWRLLISA 71 (77)
T ss_dssp HHHHHHHHHHHHHSS--CHHHHHHHHHCCTT--SSS--HHHHHHHHTTTTGHHCHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhCCCcHHHHHHHHHHHHhccccccccHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence 45668889999999999999999999999765 6777777776632244677999999999875
No 428
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=93.89 E-value=0.52 Score=57.30 Aligned_cols=101 Identities=15% Similarity=0.251 Sum_probs=53.2
Q ss_pred CeEEEEcCCCCcHHHHHHHHHHHhcc--cCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCceEE
Q 001046 540 QVLVVIGETGSGKTTQVTQYLAEAGY--TTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTVIK 617 (1176)
Q Consensus 540 ~~vIv~apTGSGKTt~~~~~lle~~~--~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t~I~ 617 (1176)
+.+++.|++|+|||+.+ +.+..... ..+.+++|+.+ ..+...+...+.. ..
T Consensus 142 npl~i~G~~G~GKTHLl-~Ai~~~l~~~~~~~~v~yv~~-~~f~~~~~~~l~~----~~--------------------- 194 (450)
T PRK14087 142 NPLFIYGESGMGKTHLL-KAAKNYIESNFSDLKVSYMSG-DEFARKAVDILQK----TH--------------------- 194 (450)
T ss_pred CceEEECCCCCcHHHHH-HHHHHHHHHhCCCCeEEEEEH-HHHHHHHHHHHHH----hh---------------------
Confidence 45899999999999766 44444222 22446666654 3333333332211 00
Q ss_pred EeChHHHHHHHhhCCCCCCCceEEEcCCCcCCC---chhHHHHHHHHHHhhCCCccEEEEcC
Q 001046 618 YMTDGMLLREILIDDNLSQYSVIMLDEAHERTI---HTDVLFGLLKQLVKRRPDLRLIVTSA 676 (1176)
Q Consensus 618 ~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~---~~d~ll~llk~~~~~r~~~kvIlmSA 676 (1176)
+.+ ..+. ..+.++++|||||+|.-.. ..+.++.++..+.... .++|++|-
T Consensus 195 ----~~~-~~~~--~~~~~~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~--k~iIltsd 247 (450)
T PRK14087 195 ----KEI-EQFK--NEICQNDVLIIDDVQFLSYKEKTNEIFFTIFNNFIEND--KQLFFSSD 247 (450)
T ss_pred ----hHH-HHHH--HHhccCCEEEEeccccccCCHHHHHHHHHHHHHHHHcC--CcEEEECC
Confidence 111 1111 1245788999999994322 2345666666655432 24444443
No 429
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.88 E-value=0.22 Score=60.92 Aligned_cols=32 Identities=28% Similarity=0.297 Sum_probs=22.0
Q ss_pred HHHHHHHcCC---eEEEEcCCCCcHHHHHHHHHHH
Q 001046 531 ELIQAVHDNQ---VLVVIGETGSGKTTQVTQYLAE 562 (1176)
Q Consensus 531 ~ii~ai~~~~---~vIv~apTGSGKTt~~~~~lle 562 (1176)
.+.+++..++ ..++.||.|+||||.+-.+...
T Consensus 27 ~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~lAk~ 61 (486)
T PRK14953 27 ILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKV 61 (486)
T ss_pred HHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 4445555554 3578999999998877665543
No 430
>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]. These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....
Probab=93.87 E-value=0.065 Score=60.51 Aligned_cols=44 Identities=30% Similarity=0.310 Sum_probs=31.3
Q ss_pred HHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHH
Q 001046 535 AVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRV 579 (1176)
Q Consensus 535 ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~ 579 (1176)
++..+.+++++|+|||||||++..++.. .-....+|+++....+
T Consensus 123 ~v~~~~~ili~G~tGSGKTT~l~all~~-i~~~~~~iv~iEd~~E 166 (270)
T PF00437_consen 123 AVRGRGNILISGPTGSGKTTLLNALLEE-IPPEDERIVTIEDPPE 166 (270)
T ss_dssp CHHTTEEEEEEESTTSSHHHHHHHHHHH-CHTTTSEEEEEESSS-
T ss_pred ccccceEEEEECCCccccchHHHHHhhh-ccccccceEEeccccc
Confidence 3566889999999999999999666543 2222368888775544
No 431
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=93.87 E-value=0.079 Score=61.77 Aligned_cols=46 Identities=20% Similarity=0.244 Sum_probs=33.8
Q ss_pred HHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHH
Q 001046 533 IQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVA 580 (1176)
Q Consensus 533 i~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~l 580 (1176)
-.++..+.+++|+|+|||||||.+-.++.. +....+++.+..+.++
T Consensus 156 ~~~v~~~~nilI~G~tGSGKTTll~aLl~~--i~~~~rivtiEd~~El 201 (344)
T PRK13851 156 HACVVGRLTMLLCGPTGSGKTTMSKTLISA--IPPQERLITIEDTLEL 201 (344)
T ss_pred HHHHHcCCeEEEECCCCccHHHHHHHHHcc--cCCCCCEEEECCCccc
Confidence 345678899999999999999988654433 3344578888777655
No 432
>PRK11823 DNA repair protein RadA; Provisional
Probab=93.86 E-value=0.093 Score=63.61 Aligned_cols=55 Identities=27% Similarity=0.361 Sum_probs=38.3
Q ss_pred HcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCC
Q 001046 537 HDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGC 594 (1176)
Q Consensus 537 ~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~ 594 (1176)
..+..++|.|++|+||||.+.+++.... ..+.+++++.- .+...|+..+ +..+|.
T Consensus 78 ~~Gs~~lI~G~pG~GKTtL~lq~a~~~a-~~g~~vlYvs~-Ees~~qi~~r-a~rlg~ 132 (446)
T PRK11823 78 VPGSVVLIGGDPGIGKSTLLLQVAARLA-AAGGKVLYVSG-EESASQIKLR-AERLGL 132 (446)
T ss_pred cCCEEEEEECCCCCCHHHHHHHHHHHHH-hcCCeEEEEEc-cccHHHHHHH-HHHcCC
Confidence 4578999999999999999999987754 33567777653 3344556555 444554
No 433
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=93.86 E-value=0.093 Score=67.02 Aligned_cols=67 Identities=24% Similarity=0.276 Sum_probs=50.6
Q ss_pred chHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcc---cCCCEEEEeccHHHHHHHHHHHHHHHhC
Q 001046 525 IYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGY---TTRGKIGCTQPRRVAAMSVAKRVAEEFG 593 (1176)
Q Consensus 525 i~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~---~~~~~Ilv~~PrR~lA~qva~rva~e~g 593 (1176)
+.+.|.+++... ...++|.|..|||||+++..-+..... ....+|+++..|+.+|.++..|+...+|
T Consensus 3 Ln~~Q~~av~~~--~g~~lV~AgpGSGKT~vL~~Ria~Li~~~~v~p~~IL~lTFT~kAA~em~~Rl~~~l~ 72 (672)
T PRK10919 3 LNPGQQQAVEFV--TGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQTLG 72 (672)
T ss_pred CCHHHHHHHhCC--CCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeeeEechHHHHHHHHHHHHHHhC
Confidence 456677777643 456778899999999888776655321 1245799999999999999999988765
No 434
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=93.80 E-value=0.19 Score=55.47 Aligned_cols=37 Identities=19% Similarity=0.287 Sum_probs=28.9
Q ss_pred cCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEec
Q 001046 538 DNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQ 575 (1176)
Q Consensus 538 ~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~ 575 (1176)
.+..++|.|++|||||+.+.+++++.. ..+.+++++.
T Consensus 24 ~g~~~~i~G~~GsGKt~l~~~~~~~~~-~~g~~~~y~~ 60 (234)
T PRK06067 24 FPSLILIEGDHGTGKSVLSQQFVYGAL-KQGKKVYVIT 60 (234)
T ss_pred CCcEEEEECCCCCChHHHHHHHHHHHH-hCCCEEEEEE
Confidence 478999999999999999999988753 3455665553
No 435
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=93.77 E-value=0.45 Score=56.68 Aligned_cols=52 Identities=13% Similarity=0.223 Sum_probs=29.6
Q ss_pred HHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCCC
Q 001046 624 LLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSATL 678 (1176)
Q Consensus 624 Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSATl 678 (1176)
+.+.+...|...++.++||||||.- +....-.+|+.+ ...|+-.++++.||-
T Consensus 105 l~~~~~~~p~~~~~kViiIDead~m--~~~aanaLLk~L-Eep~~~~~fIL~a~~ 156 (394)
T PRK07940 105 LVTIAARRPSTGRWRIVVIEDADRL--TERAANALLKAV-EEPPPRTVWLLCAPS 156 (394)
T ss_pred HHHHHHhCcccCCcEEEEEechhhc--CHHHHHHHHHHh-hcCCCCCeEEEEECC
Confidence 3444445566788999999999942 222333444443 434444455555543
No 436
>KOG2373 consensus Predicted mitochondrial DNA helicase twinkle [Replication, recombination and repair]
Probab=93.76 E-value=0.018 Score=64.67 Aligned_cols=130 Identities=21% Similarity=0.259 Sum_probs=66.6
Q ss_pred HHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEE----eccHHHHHHHHHHHHHHHhCCccCCeeEEEe
Q 001046 529 KKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGC----TQPRRVAAMSVAKRVAEEFGCRLGEEVGYAI 604 (1176)
Q Consensus 529 q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv----~~PrR~lA~qva~rva~e~g~~~G~~vGy~i 604 (1176)
-..++.-.+.|.-.|+.|||||||||.+.-|.++... ++-+.++ +.-.|.++.-+.+.+...+...+...--|.-
T Consensus 263 LNk~LkGhR~GElTvlTGpTGsGKTTFlsEYsLDL~~-QGVnTLwgSFEi~n~rla~~mL~Qyagyrl~drl~~y~HWad 341 (514)
T KOG2373|consen 263 LNKYLKGHRPGELTVLTGPTGSGKTTFLSEYSLDLFT-QGVNTLWGSFEIPNKRLAHWMLVQYAGYRLLDRLNSYKHWAD 341 (514)
T ss_pred HHHHhccCCCCceEEEecCCCCCceeEehHhhHHHHh-hhhhheeeeeecchHHHHHHHHHHHccCchHhhhhhhhHHHH
Confidence 4445555667889999999999999999988887532 2222222 3344555444333211100001111111333
Q ss_pred ecccccCCCceEEEeCh------HHHHHHHhhCCCCCCCceEEEcCCC----------cCCCchhHHHHHHHHHHh
Q 001046 605 RFEDCTGPDTVIKYMTD------GMLLREILIDDNLSQYSVIMLDEAH----------ERTIHTDVLFGLLKQLVK 664 (1176)
Q Consensus 605 r~~~~~~~~t~I~~~T~------g~Llr~l~~~~~L~~~s~IIiDEaH----------eR~~~~d~ll~llk~~~~ 664 (1176)
+|+.. .+-+||- .-.+..+.......++.|||||..+ .|-...|.+.+.++.+..
T Consensus 342 rFErl-----plyfmtfhgqq~~~~vi~~i~ha~yV~di~HViIDNLQFmmg~~~~~~Drf~~QD~iig~fR~fAT 412 (514)
T KOG2373|consen 342 RFERL-----PLYFMTFHGQQFMEKVINEIAHAIYVEDIQHVIIDNLQFMMGQGMMALDRFHLQDRIIGYFRQFAT 412 (514)
T ss_pred HHhcc-----chHhhhhcccchHHHHHHHHHHHHHHHhhhhhhhhhHHHHhccchhccchhhhHHHHHHHHHHHhh
Confidence 44332 2334442 1223344433456678889999865 133334555555555433
No 437
>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP.; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.
Probab=93.76 E-value=0.11 Score=56.49 Aligned_cols=32 Identities=28% Similarity=0.577 Sum_probs=23.6
Q ss_pred HHHHHHHc--CCeEEEEcCCCCcHHHHHHHHHHH
Q 001046 531 ELIQAVHD--NQVLVVIGETGSGKTTQVTQYLAE 562 (1176)
Q Consensus 531 ~ii~ai~~--~~~vIv~apTGSGKTt~~~~~lle 562 (1176)
.+.+.+.. ++.++|.||.|+|||+.+-.++-.
T Consensus 10 ~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~ 43 (234)
T PF01637_consen 10 KLKELLESGPSQHILLYGPRGSGKTSLLKEFINE 43 (234)
T ss_dssp HHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHH
T ss_pred HHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHH
Confidence 34444554 589999999999999976665554
No 438
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=93.57 E-value=0.093 Score=57.88 Aligned_cols=39 Identities=8% Similarity=0.153 Sum_probs=29.1
Q ss_pred HHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEec
Q 001046 536 VHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQ 575 (1176)
Q Consensus 536 i~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~ 575 (1176)
+..+..+++.|++||||||.+.+++.... ..+.+++++.
T Consensus 21 i~~g~~~~i~G~~G~GKTtl~~~~~~~~~-~~g~~~~yi~ 59 (230)
T PRK08533 21 IPAGSLILIEGDESTGKSILSQRLAYGFL-QNGYSVSYVS 59 (230)
T ss_pred CCCCcEEEEECCCCCCHHHHHHHHHHHHH-hCCCcEEEEe
Confidence 35588999999999999999888887642 3344555554
No 439
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=93.57 E-value=0.27 Score=57.16 Aligned_cols=27 Identities=30% Similarity=0.455 Sum_probs=20.7
Q ss_pred HHHcCC--eEEEEcCCCCcHHHHHHHHHH
Q 001046 535 AVHDNQ--VLVVIGETGSGKTTQVTQYLA 561 (1176)
Q Consensus 535 ai~~~~--~vIv~apTGSGKTt~~~~~ll 561 (1176)
++..++ ..|+.||+|+||||.+-+..-
T Consensus 42 ~v~~~~l~SmIl~GPPG~GKTTlA~liA~ 70 (436)
T COG2256 42 AVEAGHLHSMILWGPPGTGKTTLARLIAG 70 (436)
T ss_pred HHhcCCCceeEEECCCCCCHHHHHHHHHH
Confidence 455554 789999999999998776544
No 440
>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit. The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.
Probab=93.57 E-value=0.31 Score=60.61 Aligned_cols=57 Identities=19% Similarity=0.282 Sum_probs=41.2
Q ss_pred eChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcC
Q 001046 619 MTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSA 676 (1176)
Q Consensus 619 ~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSA 676 (1176)
.+.|.-.|..+....+++..++|+||+= -.++.+....+.+.+....++.-+|+.|.
T Consensus 471 LSGGQrQRiaiARall~~~~iliLDE~T-SaLD~~te~~I~~~l~~~~~~~TvIiItH 527 (529)
T TIGR02868 471 LSGGERQRLALARALLADAPILLLDEPT-EHLDAGTESELLEDLLAALSGKTVVVITH 527 (529)
T ss_pred CCHHHHHHHHHHHHHhcCCCEEEEeCCc-ccCCHHHHHHHHHHHHHhcCCCEEEEEec
Confidence 3678888888888889999999999986 45666655566666655556666666553
No 441
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.56 E-value=0.26 Score=61.46 Aligned_cols=32 Identities=28% Similarity=0.410 Sum_probs=23.1
Q ss_pred HHHHHHHcCC---eEEEEcCCCCcHHHHHHHHHHH
Q 001046 531 ELIQAVHDNQ---VLVVIGETGSGKTTQVTQYLAE 562 (1176)
Q Consensus 531 ~ii~ai~~~~---~vIv~apTGSGKTt~~~~~lle 562 (1176)
.+..++.+++ .+|+.||.|+||||.+-.+...
T Consensus 27 ~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~ 61 (624)
T PRK14959 27 ILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKA 61 (624)
T ss_pred HHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHh
Confidence 3444455554 5889999999999988776544
No 442
>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []. This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.
Probab=93.56 E-value=0.086 Score=59.79 Aligned_cols=66 Identities=20% Similarity=0.275 Sum_probs=39.3
Q ss_pred HHHHHHHHc----CCeEEEEcCCCCcHHHHHHHHHHHhccc-C-CCEEEEeccHHHHHHHHHHHHHHHhCCc
Q 001046 530 KELIQAVHD----NQVLVVIGETGSGKTTQVTQYLAEAGYT-T-RGKIGCTQPRRVAAMSVAKRVAEEFGCR 595 (1176)
Q Consensus 530 ~~ii~ai~~----~~~vIv~apTGSGKTt~~~~~lle~~~~-~-~~~Ilv~~PrR~lA~qva~rva~e~g~~ 595 (1176)
+++.+.+.. .+++.|+|..|+|||+.+..++.+.... . .+.+.+.........++...+...++..
T Consensus 6 ~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~ 77 (287)
T PF00931_consen 6 EKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEP 77 (287)
T ss_dssp HHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC
T ss_pred HHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeeccccccccccccccccccccccccccccccccccccccc
Confidence 345555554 5689999999999999998877552211 1 2233333333333355555566666554
No 443
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=93.52 E-value=0.49 Score=57.32 Aligned_cols=36 Identities=25% Similarity=0.314 Sum_probs=24.3
Q ss_pred CeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEecc
Q 001046 540 QVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQP 576 (1176)
Q Consensus 540 ~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~P 576 (1176)
+.+++.||+|+|||+.+-.+..+ ....+.+++++..
T Consensus 142 npl~L~G~~G~GKTHLl~Ai~~~-l~~~~~~v~yi~~ 177 (445)
T PRK12422 142 NPIYLFGPEGSGKTHLMQAAVHA-LRESGGKILYVRS 177 (445)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHH-HHHcCCCEEEeeH
Confidence 46899999999999766544433 2233456777654
No 444
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.52 E-value=0.41 Score=60.21 Aligned_cols=31 Identities=23% Similarity=0.374 Sum_probs=22.8
Q ss_pred HHHHHHcCC---eEEEEcCCCCcHHHHHHHHHHH
Q 001046 532 LIQAVHDNQ---VLVVIGETGSGKTTQVTQYLAE 562 (1176)
Q Consensus 532 ii~ai~~~~---~vIv~apTGSGKTt~~~~~lle 562 (1176)
+..++..++ .+|++||.|+||||.+-.++-.
T Consensus 28 L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~ 61 (585)
T PRK14950 28 LRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKA 61 (585)
T ss_pred HHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHH
Confidence 444555554 4589999999999988777644
No 445
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=93.50 E-value=0.14 Score=61.82 Aligned_cols=65 Identities=32% Similarity=0.389 Sum_probs=47.4
Q ss_pred HHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccC-----CCEEEEeccHHHHHHHHHHHHHHHhCC
Q 001046 528 LKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTT-----RGKIGCTQPRRVAAMSVAKRVAEEFGC 594 (1176)
Q Consensus 528 ~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~-----~~~Ilv~~PrR~lA~qva~rva~e~g~ 594 (1176)
-|.+||.. ..+..+||+|..||||||++.+-++...+.. .+.|+++.|-++.+.=++. |--++|.
T Consensus 216 EQneIIR~-ek~~ilVVQGaAGSGKTtiALHRvAyLlY~~R~~l~~k~vlvl~PN~vFleYis~-VLPeLGe 285 (747)
T COG3973 216 EQNEIIRF-EKNKILVVQGAAGSGKTTIALHRVAYLLYGYRGPLQAKPVLVLGPNRVFLEYISR-VLPELGE 285 (747)
T ss_pred hHHHHHhc-cCCCeEEEecCCCCCchhHHHHHHHHHHhccccccccCceEEEcCcHHHHHHHHH-hchhhcc
Confidence 36666542 5688999999999999999988776654443 2359999999998765554 5556654
No 446
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=93.48 E-value=0.12 Score=59.87 Aligned_cols=54 Identities=30% Similarity=0.338 Sum_probs=36.6
Q ss_pred HHHHHHHH-HHHcCCeEEEEcCCCCcHHHHHHHHHHHhc-ccCCCEEEEeccHHHH
Q 001046 527 KLKKELIQ-AVHDNQVLVVIGETGSGKTTQVTQYLAEAG-YTTRGKIGCTQPRRVA 580 (1176)
Q Consensus 527 ~~q~~ii~-ai~~~~~vIv~apTGSGKTt~~~~~lle~~-~~~~~~Ilv~~PrR~l 580 (1176)
+.+.+.+. ++..+.+++|+|+|||||||.+-..+.... .....+++++..+.++
T Consensus 135 ~~~~~~L~~~v~~~~~ilI~G~tGSGKTTll~aL~~~~~~~~~~~rivtIEd~~El 190 (319)
T PRK13894 135 AAQREAIIAAVRAHRNILVIGGTGSGKTTLVNAIINEMVIQDPTERVFIIEDTGEI 190 (319)
T ss_pred HHHHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHhhhhcCCCceEEEEcCCCcc
Confidence 34455555 567889999999999999988765543321 2334577777766654
No 447
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=93.40 E-value=0.24 Score=61.42 Aligned_cols=32 Identities=25% Similarity=0.436 Sum_probs=22.9
Q ss_pred HHHHHHHcC---CeEEEEcCCCCcHHHHHHHHHHH
Q 001046 531 ELIQAVHDN---QVLVVIGETGSGKTTQVTQYLAE 562 (1176)
Q Consensus 531 ~ii~ai~~~---~~vIv~apTGSGKTt~~~~~lle 562 (1176)
.+..++..+ +-+++.||.|+||||.+..+...
T Consensus 27 ~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~ 61 (605)
T PRK05896 27 ILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKA 61 (605)
T ss_pred HHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence 344455454 45789999999999887776544
No 448
>PTZ00293 thymidine kinase; Provisional
Probab=93.38 E-value=0.26 Score=53.28 Aligned_cols=39 Identities=26% Similarity=0.315 Sum_probs=30.4
Q ss_pred cCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccH
Q 001046 538 DNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPR 577 (1176)
Q Consensus 538 ~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~Pr 577 (1176)
.|...++.||-+|||||.++..+..... .+.+++++-|.
T Consensus 3 ~G~i~vi~GpMfSGKTteLLr~i~~y~~-ag~kv~~~kp~ 41 (211)
T PTZ00293 3 RGTISVIIGPMFSGKTTELMRLVKRFTY-SEKKCVVIKYS 41 (211)
T ss_pred ceEEEEEECCCCChHHHHHHHHHHHHHH-cCCceEEEEec
Confidence 4678899999999999999988776533 35577777774
No 449
>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.
Probab=93.37 E-value=0.16 Score=55.62 Aligned_cols=40 Identities=30% Similarity=0.389 Sum_probs=29.1
Q ss_pred HcCCeEEEEcCCCCcHHHHHHHHHHHhcccC-----CCEEEEecc
Q 001046 537 HDNQVLVVIGETGSGKTTQVTQYLAEAGYTT-----RGKIGCTQP 576 (1176)
Q Consensus 537 ~~~~~vIv~apTGSGKTt~~~~~lle~~~~~-----~~~Ilv~~P 576 (1176)
..+..+.|.|++|||||+.+.+++....... ...++++..
T Consensus 17 ~~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~ 61 (226)
T cd01393 17 PTGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDT 61 (226)
T ss_pred cCCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEec
Confidence 4578999999999999999888877643322 145666543
No 450
>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c
Probab=93.34 E-value=0.13 Score=55.54 Aligned_cols=23 Identities=26% Similarity=0.390 Sum_probs=18.9
Q ss_pred cCCeEEEEcCCCCcHHHHHHHHH
Q 001046 538 DNQVLVVIGETGSGKTTQVTQYL 560 (1176)
Q Consensus 538 ~~~~vIv~apTGSGKTt~~~~~l 560 (1176)
.++.++|.||+|+||||.+-...
T Consensus 28 ~~~~~~l~G~n~~GKstll~~i~ 50 (204)
T cd03282 28 SSRFHIITGPNMSGKSTYLKQIA 50 (204)
T ss_pred CCcEEEEECCCCCCHHHHHHHHH
Confidence 46889999999999998765543
No 451
>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A ....
Probab=93.28 E-value=0.19 Score=52.28 Aligned_cols=53 Identities=21% Similarity=0.361 Sum_probs=31.2
Q ss_pred HHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCCC
Q 001046 624 LLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSATL 678 (1176)
Q Consensus 624 Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSATl 678 (1176)
+...+...+.-..+.++||||||. +..+..-++||.+-.-..+..+|++|-.+
T Consensus 90 i~~~~~~~~~~~~~KviiI~~ad~--l~~~a~NaLLK~LEepp~~~~fiL~t~~~ 142 (162)
T PF13177_consen 90 IIEFLSLSPSEGKYKVIIIDEADK--LTEEAQNALLKTLEEPPENTYFILITNNP 142 (162)
T ss_dssp HHHHCTSS-TTSSSEEEEEETGGG--S-HHHHHHHHHHHHSTTTTEEEEEEES-G
T ss_pred HHHHHHHHHhcCCceEEEeehHhh--hhHHHHHHHHHHhcCCCCCEEEEEEECCh
Confidence 334444445567899999999994 45555556665554444456666666554
No 452
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=93.27 E-value=0.14 Score=58.47 Aligned_cols=53 Identities=15% Similarity=0.167 Sum_probs=38.0
Q ss_pred hHHHHHHHHHH-HcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHH
Q 001046 526 YKLKKELIQAV-HDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVA 580 (1176)
Q Consensus 526 ~~~q~~ii~ai-~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~l 580 (1176)
.+-+..++..+ ....+++|+|.|||||||.+-.++..- ....+|+|+.-+.+|
T Consensus 159 ~~~~a~~L~~av~~r~NILisGGTGSGKTTlLNal~~~i--~~~eRvItiEDtaEL 212 (355)
T COG4962 159 IRRAAKFLRRAVGIRCNILISGGTGSGKTTLLNALSGFI--DSDERVITIEDTAEL 212 (355)
T ss_pred CHHHHHHHHHHHhhceeEEEeCCCCCCHHHHHHHHHhcC--CCcccEEEEeehhhh
Confidence 34455555554 555699999999999999887766553 233489999887665
No 453
>PF03354 Terminase_1: Phage Terminase ; InterPro: IPR005021 This entry is represented by Lactococcus phage bIL285, Orf41 (terminase). The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=93.20 E-value=0.28 Score=60.25 Aligned_cols=146 Identities=18% Similarity=0.220 Sum_probs=78.9
Q ss_pred HHHHHHHHHHc---------CCeEEEEcCCCCcHHHHHHHHHHHhccc---CCCEEEEeccHHHHHHHHHHHHHHHhCCc
Q 001046 528 LKKELIQAVHD---------NQVLVVIGETGSGKTTQVTQYLAEAGYT---TRGKIGCTQPRRVAAMSVAKRVAEEFGCR 595 (1176)
Q Consensus 528 ~q~~ii~ai~~---------~~~vIv~apTGSGKTt~~~~~lle~~~~---~~~~Ilv~~PrR~lA~qva~rva~e~g~~ 595 (1176)
+|.-++..+.. -+.+++.-+=|-|||+.+....+-..+. .+..|+++.+++.-|..+...+.......
T Consensus 2 wQ~fi~~~i~G~~~~~g~rrf~~~~l~v~RkNGKS~l~a~i~ly~l~~~g~~~~~i~~~A~~~~QA~~~f~~~~~~i~~~ 81 (477)
T PF03354_consen 2 WQKFILRSIFGWRKDDGRRRFREVYLEVPRKNGKSTLAAAIALYMLFLDGEPGAEIYCAANTRDQAKIVFDEAKKMIEAS 81 (477)
T ss_pred cHHHHHHHHhceEcCCCCEEEEEEEEEEcCccCccHHHHHHHHHHHhcCCccCceEEEEeCCHHHHHHHHHHHHHHHHhC
Confidence 46666665541 2357777799999997766554433322 24579999999999999988766544221
Q ss_pred --cCCeeEEEeecccccCCCceEEEeChHHHHHHHhhCC-C--CCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCcc
Q 001046 596 --LGEEVGYAIRFEDCTGPDTVIKYMTDGMLLREILIDD-N--LSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLR 670 (1176)
Q Consensus 596 --~G~~vGy~ir~~~~~~~~t~I~~~T~g~Llr~l~~~~-~--L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~k 670 (1176)
+....+..+ .......|.+-.++-+++.+..++ . =.+.+++|+||+|+.. .+-+...++.-...+++..
T Consensus 82 ~~l~~~~~~~~----~~~~~~~i~~~~~~s~~~~~s~~~~~~dG~~~~~~i~DE~h~~~--~~~~~~~l~~g~~~r~~pl 155 (477)
T PF03354_consen 82 PELRKRKKPKI----IKSNKKEIEFPKTGSFFKALSSDADSLDGLNPSLAIFDELHAHK--DDELYDALESGMGARPNPL 155 (477)
T ss_pred hhhccchhhhh----hhhhceEEEEcCCCcEEEEEecCCCCccCCCCceEEEeCCCCCC--CHHHHHHHHhhhccCCCce
Confidence 111111000 001112222222222222222222 1 1256899999999632 2335566666665565554
Q ss_pred -EEEEcCCCC
Q 001046 671 -LIVTSATLD 679 (1176)
Q Consensus 671 -vIlmSATl~ 679 (1176)
+++.||..+
T Consensus 156 ~~~ISTag~~ 165 (477)
T PF03354_consen 156 IIIISTAGDD 165 (477)
T ss_pred EEEEeCCCCC
Confidence 455556554
No 454
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.17 E-value=0.39 Score=60.53 Aligned_cols=50 Identities=16% Similarity=0.432 Sum_probs=29.5
Q ss_pred HHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCC
Q 001046 625 LREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSAT 677 (1176)
Q Consensus 625 lr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSAT 677 (1176)
+..+...|....+.+|||||||.- ..+..-+++ ..+...|+--++++.+|
T Consensus 110 i~~~~~~P~~~~~KVvIIdea~~L--s~~a~naLL-K~LEepp~~tifIL~tt 159 (614)
T PRK14971 110 IEQVRIPPQIGKYKIYIIDEVHML--SQAAFNAFL-KTLEEPPSYAIFILATT 159 (614)
T ss_pred HHHHhhCcccCCcEEEEEECcccC--CHHHHHHHH-HHHhCCCCCeEEEEEeC
Confidence 344455678899999999999953 223333333 44444444445555554
No 455
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=93.16 E-value=0.13 Score=59.93 Aligned_cols=47 Identities=23% Similarity=0.275 Sum_probs=33.2
Q ss_pred HHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHH
Q 001046 532 LIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVA 580 (1176)
Q Consensus 532 ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~l 580 (1176)
+..++..+.+++|+|+|||||||.+-..+ .. +....+|+++.-+.++
T Consensus 153 L~~~v~~~~nili~G~tgSGKTTll~aL~-~~-ip~~~ri~tiEd~~El 199 (332)
T PRK13900 153 LEHAVISKKNIIISGGTSTGKTTFTNAAL-RE-IPAIERLITVEDAREI 199 (332)
T ss_pred HHHHHHcCCcEEEECCCCCCHHHHHHHHH-hh-CCCCCeEEEecCCCcc
Confidence 33456788999999999999999885543 33 3445677777655554
No 456
>KOG3938 consensus RGS-GAIP interacting protein GIPC, contains PDZ domain [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=93.16 E-value=0.1 Score=56.54 Aligned_cols=61 Identities=33% Similarity=0.430 Sum_probs=56.4
Q ss_pred HHHHHHHHhhhCCCChhHHHHHHHHHhhCCChHHHHHHHHHcC---CCCCHHHHHHHHHHHHhh
Q 001046 20 SKVCSELETHLGFGDKVLAEFITELGRNCETVDEFDSKLKENG---AEMPDYFVRTLLTIIHAI 80 (1176)
Q Consensus 20 skv~~el~nhlgi~dk~laefii~l~~~~~~~~~F~~~l~~~g---a~~~~~~~~~l~~li~~~ 80 (1176)
-||...|+.++||.|..||-=+.+++.++.|..+|..+|++-. -+|||.||..+|-.|-..
T Consensus 262 ~kindllesymGirD~eLA~~i~e~~~~~~n~~efaeaideseL~~F~FpDefVfdvWg~IgDa 325 (334)
T KOG3938|consen 262 EKINDLLESYMGIRDTELASTIWETGKDKENPDEFAEAIDESELGDFAFPDEFVFDVWGAIGDA 325 (334)
T ss_pred HHHHHHHHHhcCCCcHHHHHHHHHhccccCCHHHHHHHhhhcccccccCCcceeeehhhhhhHH
Confidence 3888999999999999999999999999999999999999973 479999999999999664
No 457
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=93.12 E-value=0.53 Score=57.99 Aligned_cols=43 Identities=19% Similarity=0.486 Sum_probs=26.6
Q ss_pred CCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEc
Q 001046 631 DDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTS 675 (1176)
Q Consensus 631 ~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmS 675 (1176)
.|....+.++||||||. +..+..-++++.+-.-.+...+|+.+
T Consensus 112 ~P~~~~~KVvIIDEad~--Lt~~A~NALLK~LEEpp~~t~FIL~t 154 (535)
T PRK08451 112 KPSMARFKIFIIDEVHM--LTKEAFNALLKTLEEPPSYVKFILAT 154 (535)
T ss_pred CcccCCeEEEEEECccc--CCHHHHHHHHHHHhhcCCceEEEEEE
Confidence 46678899999999994 33444445555444333445555544
No 458
>PRK13342 recombination factor protein RarA; Reviewed
Probab=93.11 E-value=0.39 Score=57.85 Aligned_cols=21 Identities=29% Similarity=0.461 Sum_probs=17.7
Q ss_pred eEEEEcCCCCcHHHHHHHHHH
Q 001046 541 VLVVIGETGSGKTTQVTQYLA 561 (1176)
Q Consensus 541 ~vIv~apTGSGKTt~~~~~ll 561 (1176)
.+++.||+|+||||.+-.+.-
T Consensus 38 ~ilL~GppGtGKTtLA~~ia~ 58 (413)
T PRK13342 38 SMILWGPPGTGKTTLARIIAG 58 (413)
T ss_pred eEEEECCCCCCHHHHHHHHHH
Confidence 789999999999988776544
No 459
>TIGR02688 conserved hypothetical protein TIGR02688. Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.
Probab=93.10 E-value=0.43 Score=56.54 Aligned_cols=31 Identities=26% Similarity=0.365 Sum_probs=24.2
Q ss_pred HHHHHHcCCeEEEEcCCCCcHHHHHHHHHHH
Q 001046 532 LIQAVHDNQVLVVIGETGSGKTTQVTQYLAE 562 (1176)
Q Consensus 532 ii~ai~~~~~vIv~apTGSGKTt~~~~~lle 562 (1176)
+++.+..+.++|..||+|+|||..+......
T Consensus 202 l~~fve~~~Nli~lGp~GTGKThla~~l~~~ 232 (449)
T TIGR02688 202 LLPLVEPNYNLIELGPKGTGKSYIYNNLSPY 232 (449)
T ss_pred hHHHHhcCCcEEEECCCCCCHHHHHHHHhHH
Confidence 3455889999999999999999776654333
No 460
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.09 E-value=0.5 Score=59.42 Aligned_cols=31 Identities=19% Similarity=0.320 Sum_probs=23.0
Q ss_pred HHHHHHcCC---eEEEEcCCCCcHHHHHHHHHHH
Q 001046 532 LIQAVHDNQ---VLVVIGETGSGKTTQVTQYLAE 562 (1176)
Q Consensus 532 ii~ai~~~~---~vIv~apTGSGKTt~~~~~lle 562 (1176)
+..++..++ -+|++||.|+||||.+..+...
T Consensus 28 L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~ 61 (620)
T PRK14954 28 IQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKA 61 (620)
T ss_pred HHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHH
Confidence 444565654 4889999999999988776544
No 461
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=93.07 E-value=0.75 Score=55.81 Aligned_cols=37 Identities=16% Similarity=0.110 Sum_probs=23.6
Q ss_pred CeEEEEcCCCCcHHHHHHHHHHHhcc-cCCCEEEEecc
Q 001046 540 QVLVVIGETGSGKTTQVTQYLAEAGY-TTRGKIGCTQP 576 (1176)
Q Consensus 540 ~~vIv~apTGSGKTt~~~~~lle~~~-~~~~~Ilv~~P 576 (1176)
+.+++.||+|+|||+.+-.+..+... ..+.+++++..
T Consensus 131 n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~ 168 (440)
T PRK14088 131 NPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITS 168 (440)
T ss_pred CeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 46999999999999766544333211 12346777654
No 462
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=92.98 E-value=0.17 Score=64.74 Aligned_cols=66 Identities=24% Similarity=0.254 Sum_probs=50.5
Q ss_pred hHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhccc---CCCEEEEeccHHHHHHHHHHHHHHHhC
Q 001046 526 YKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYT---TRGKIGCTQPRRVAAMSVAKRVAEEFG 593 (1176)
Q Consensus 526 ~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~---~~~~Ilv~~PrR~lA~qva~rva~e~g 593 (1176)
.+.|.+++.. ....++|.|..|||||+++..-+...... ...+|+++..++-+|.++-.|+...+|
T Consensus 3 n~~Q~~av~~--~~~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~~~p~~IL~vTFt~~Aa~em~~Rl~~~l~ 71 (664)
T TIGR01074 3 NPQQQEAVEY--VTGPCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKERVAKTLG 71 (664)
T ss_pred CHHHHHHHhC--CCCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeEEEeccHHHHHHHHHHHHHHhC
Confidence 4567777654 35678999999999998888766654321 245799999999999999999988775
No 463
>COG1119 ModF ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]
Probab=92.94 E-value=0.22 Score=54.45 Aligned_cols=60 Identities=15% Similarity=0.260 Sum_probs=39.6
Q ss_pred EeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCc---hhHHHHHHHHHHhhCCCccEEEEcCCC
Q 001046 618 YMTDGMLLREILIDDNLSQYSVIMLDEAHERTIH---TDVLFGLLKQLVKRRPDLRLIVTSATL 678 (1176)
Q Consensus 618 ~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~---~d~ll~llk~~~~~r~~~kvIlmSATl 678 (1176)
..+.|.--+.|+....+.+..++|+||.= -+++ ...++..+..+....+...+|+.|.-.
T Consensus 171 ~LS~Ge~rrvLiaRALv~~P~LLiLDEP~-~GLDl~~re~ll~~l~~~~~~~~~~~ll~VtHh~ 233 (257)
T COG1119 171 SLSQGEQRRVLIARALVKDPELLILDEPA-QGLDLIAREQLLNRLEELAASPGAPALLFVTHHA 233 (257)
T ss_pred hcCHhHHHHHHHHHHHhcCCCEEEecCcc-ccCChHHHHHHHHHHHHHhcCCCCceEEEEEcch
Confidence 34556666667767778888999999975 2333 335566666666665667777776643
No 464
>PRK11054 helD DNA helicase IV; Provisional
Probab=92.89 E-value=0.25 Score=63.01 Aligned_cols=71 Identities=24% Similarity=0.313 Sum_probs=54.3
Q ss_pred hcCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHH---HHhcccCCCEEEEeccHHHHHHHHHHHHHHHhC
Q 001046 521 QSLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYL---AEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFG 593 (1176)
Q Consensus 521 ~~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~l---le~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g 593 (1176)
.+-|+.+.|.+++.. ....++|.|..|||||+++..-+ +......+.+|+++..++.+|..+..|+...+|
T Consensus 193 e~~~L~~~Q~~av~~--~~~~~lV~agaGSGKT~vl~~r~ayLl~~~~~~~~~IL~ltft~~AA~em~eRL~~~lg 266 (684)
T PRK11054 193 ESSPLNPSQARAVVN--GEDSLLVLAGAGSGKTSVLVARAGWLLARGQAQPEQILLLAFGRQAAEEMDERIRERLG 266 (684)
T ss_pred cCCCCCHHHHHHHhC--CCCCeEEEEeCCCCHHHHHHHHHHHHHHhCCCCHHHeEEEeccHHHHHHHHHHHHHhcC
Confidence 346788889888753 34567899999999998876544 333333456899999999999999999977664
No 465
>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.
Probab=92.81 E-value=0.23 Score=52.79 Aligned_cols=32 Identities=34% Similarity=0.511 Sum_probs=24.2
Q ss_pred HHHHHH-HHHcCCeEEEEcCCCCcHHHHHHHHH
Q 001046 529 KKELIQ-AVHDNQVLVVIGETGSGKTTQVTQYL 560 (1176)
Q Consensus 529 q~~ii~-ai~~~~~vIv~apTGSGKTt~~~~~l 560 (1176)
+.+++. ++..+..++|+|||||||||.+-..+
T Consensus 14 ~~~~l~~~v~~g~~i~I~G~tGSGKTTll~aL~ 46 (186)
T cd01130 14 QAAYLWLAVEARKNILISGGTGSGKTTLLNALL 46 (186)
T ss_pred HHHHHHHHHhCCCEEEEECCCCCCHHHHHHHHH
Confidence 344444 45778999999999999999875543
No 466
>cd01131 PilT Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.
Probab=92.73 E-value=0.14 Score=55.01 Aligned_cols=35 Identities=26% Similarity=0.368 Sum_probs=23.5
Q ss_pred eEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEec
Q 001046 541 VLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQ 575 (1176)
Q Consensus 541 ~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~ 575 (1176)
.++|+|||||||||.+-..+........+.|+++.
T Consensus 3 lilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~e 37 (198)
T cd01131 3 LVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTIE 37 (198)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEEc
Confidence 58899999999999986554443222245665554
No 467
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=92.71 E-value=0.3 Score=60.90 Aligned_cols=37 Identities=27% Similarity=0.449 Sum_probs=23.8
Q ss_pred HHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHH
Q 001046 624 LLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQL 662 (1176)
Q Consensus 624 Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~ 662 (1176)
+...+...|....+.++||||+|. +..+..-++++.+
T Consensus 107 i~~~v~~~p~~~~~kViIIDE~~~--Lt~~a~naLLKtL 143 (559)
T PRK05563 107 IRDKVKYAPSEAKYKVYIIDEVHM--LSTGAFNALLKTL 143 (559)
T ss_pred HHHHHhhCcccCCeEEEEEECccc--CCHHHHHHHHHHh
Confidence 334444456788899999999994 3344444555543
No 468
>COG4555 NatA ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]
Probab=92.69 E-value=0.18 Score=53.35 Aligned_cols=148 Identities=18% Similarity=0.205 Sum_probs=72.0
Q ss_pred HHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEE------------------EEe-----ccHHHHHHHHHHHHHHHh
Q 001046 536 VHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKI------------------GCT-----QPRRVAAMSVAKRVAEEF 592 (1176)
Q Consensus 536 i~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~I------------------lv~-----~PrR~lA~qva~rva~e~ 592 (1176)
+..|+++-+-||.|+||||.+-...-- .....|+| .|+ .+-|..|.+....++...
T Consensus 25 ae~Gei~GlLG~NGAGKTT~LRmiatl-L~P~~G~v~idg~d~~~~p~~vrr~IGVl~~e~glY~RlT~rEnl~~Fa~L~ 103 (245)
T COG4555 25 AEEGEITGLLGENGAGKTTLLRMIATL-LIPDSGKVTIDGVDTVRDPSFVRRKIGVLFGERGLYARLTARENLKYFARLN 103 (245)
T ss_pred eccceEEEEEcCCCCCchhHHHHHHHh-ccCCCceEEEeecccccChHHHhhhcceecCCcChhhhhhHHHHHHHHHHHh
Confidence 468999999999999999886543322 12222322 221 244566666655555544
Q ss_pred CCccCCeeE----EEeecccccCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCC
Q 001046 593 GCRLGEEVG----YAIRFEDCTGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPD 668 (1176)
Q Consensus 593 g~~~G~~vG----y~ir~~~~~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~ 668 (1176)
|..-+..-. ..-+++-..--+.++-=-+.||-.+..+......+.+++|+||.- -+++.-....+...+.+.+..
T Consensus 104 ~l~~~~~kari~~l~k~l~l~~~~~rRv~~~S~G~kqkV~iARAlvh~P~i~vlDEP~-sGLDi~~~r~~~dfi~q~k~e 182 (245)
T COG4555 104 GLSRKEIKARIAELSKRLQLLEYLDRRVGEFSTGMKQKVAIARALVHDPSILVLDEPT-SGLDIRTRRKFHDFIKQLKNE 182 (245)
T ss_pred hhhhhHHHHHHHHHHHHhChHHHHHHHHhhhchhhHHHHHHHHHHhcCCCeEEEcCCC-CCccHHHHHHHHHHHHHhhcC
Confidence 322110000 000000000001112122445555555555567788999999986 455443333333344444433
Q ss_pred ccEEEEcC-CC-CHHHHHh
Q 001046 669 LRLIVTSA-TL-DAEKFSG 685 (1176)
Q Consensus 669 ~kvIlmSA-Tl-~~~~~~~ 685 (1176)
-+.|++|. -+ +.+.+.+
T Consensus 183 gr~viFSSH~m~EvealCD 201 (245)
T COG4555 183 GRAVIFSSHIMQEVEALCD 201 (245)
T ss_pred CcEEEEecccHHHHHHhhh
Confidence 44555554 33 3444444
No 469
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=92.67 E-value=0.7 Score=57.53 Aligned_cols=36 Identities=22% Similarity=0.232 Sum_probs=23.2
Q ss_pred CeEEEEcCCCCcHHHHHHHHHHHhcc-cCCCEEEEec
Q 001046 540 QVLVVIGETGSGKTTQVTQYLAEAGY-TTRGKIGCTQ 575 (1176)
Q Consensus 540 ~~vIv~apTGSGKTt~~~~~lle~~~-~~~~~Ilv~~ 575 (1176)
+.++|.|++|+|||..+-.+..+... ..+.+++|+.
T Consensus 315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yit 351 (617)
T PRK14086 315 NPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVS 351 (617)
T ss_pred CcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEee
Confidence 45899999999999766655444321 1234566654
No 470
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=92.66 E-value=0.13 Score=57.63 Aligned_cols=37 Identities=24% Similarity=0.321 Sum_probs=25.7
Q ss_pred cCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEe
Q 001046 538 DNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCT 574 (1176)
Q Consensus 538 ~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~ 574 (1176)
...-++|.|||||||||.+...+-.-.......|+-+
T Consensus 124 ~~GLILVTGpTGSGKSTTlAamId~iN~~~~~HIlTI 160 (353)
T COG2805 124 PRGLILVTGPTGSGKSTTLAAMIDYINKHKAKHILTI 160 (353)
T ss_pred CCceEEEeCCCCCcHHHHHHHHHHHHhccCCcceEEe
Confidence 3457888999999999998877655433334455544
No 471
>PHA00729 NTP-binding motif containing protein
Probab=92.65 E-value=0.36 Score=52.79 Aligned_cols=23 Identities=35% Similarity=0.488 Sum_probs=18.6
Q ss_pred CeEEEEcCCCCcHHHHHHHHHHH
Q 001046 540 QVLVVIGETGSGKTTQVTQYLAE 562 (1176)
Q Consensus 540 ~~vIv~apTGSGKTt~~~~~lle 562 (1176)
.+++|.|++|+|||+.+...+..
T Consensus 18 ~nIlItG~pGvGKT~LA~aLa~~ 40 (226)
T PHA00729 18 VSAVIFGKQGSGKTTYALKVARD 40 (226)
T ss_pred EEEEEECCCCCCHHHHHHHHHHH
Confidence 37999999999999887765543
No 472
>TIGR01547 phage_term_2 phage terminase, large subunit, PBSX family. This model detects members of a highly divergent family of the large subunit of phage terminase. All members are encoded by phage genomes or within prophage regions of bacterial genomes. This is a distinct family from pfam03354.
Probab=92.63 E-value=0.57 Score=56.05 Aligned_cols=132 Identities=14% Similarity=0.130 Sum_probs=72.7
Q ss_pred CeEEEEcCCCCcHHHHHHHHHHHhccc--CCCEEEEeccHHH-HHHHHHHHHHHHhCCccCCeeEEEeecc--ccc--CC
Q 001046 540 QVLVVIGETGSGKTTQVTQYLAEAGYT--TRGKIGCTQPRRV-AAMSVAKRVAEEFGCRLGEEVGYAIRFE--DCT--GP 612 (1176)
Q Consensus 540 ~~vIv~apTGSGKTt~~~~~lle~~~~--~~~~Ilv~~PrR~-lA~qva~rva~e~g~~~G~~vGy~ir~~--~~~--~~ 612 (1176)
+..++.|..|||||..+...++...+. .+.+++|+-|+.- +..++...+...+.. +|...-+...-. ... ..
T Consensus 2 ~~~i~~GgrgSGKS~~~~~~~~~~~~~~~~~~~~~~~r~~~~sl~~sv~~~l~~~i~~-~g~~~~~~~~~~~~~i~~~~~ 80 (396)
T TIGR01547 2 EEIIAKGGRRSGKTFAIALKLVEKLAINKKQQNILAARKVQNSIRDSVFKDIENLLSI-EGINYEFKKSKSSMEIKILNT 80 (396)
T ss_pred ceEEEeCCCCcccHHHHHHHHHHHHHhcCCCcEEEEEehhhhHHHHHHHHHHHHHHHH-cCChhheeecCCccEEEecCC
Confidence 467899999999998877777665555 5678999988866 666666666543321 222111111101 011 11
Q ss_pred CceEEEeCh-HHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCCCC
Q 001046 613 DTVIKYMTD-GMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSATLD 679 (1176)
Q Consensus 613 ~t~I~~~T~-g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSATl~ 679 (1176)
+..|+|..- .--- .+ .....+..+.+|||.+- ..+.+-.++..+.. ......|++|.|++
T Consensus 81 g~~i~f~g~~d~~~-~i---k~~~~~~~~~idEa~~~--~~~~~~~l~~rlr~-~~~~~~i~~t~NP~ 141 (396)
T TIGR01547 81 GKKFIFKGLNDKPN-KL---KSGAGIAIIWFEEASQL--TFEDIKELIPRLRE-TGGKKFIIFSSNPE 141 (396)
T ss_pred CeEEEeecccCChh-Hh---hCcceeeeehhhhhhhc--CHHHHHHHHHHhhc-cCCccEEEEEcCcC
Confidence 345555432 1110 01 12344789999999864 33444444444321 11222478888885
No 473
>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism]
Probab=92.62 E-value=0.63 Score=49.31 Aligned_cols=116 Identities=22% Similarity=0.262 Sum_probs=64.6
Q ss_pred CCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCceEEE
Q 001046 539 NQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTVIKY 618 (1176)
Q Consensus 539 ~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t~I~~ 618 (1176)
++..+++||-.||||+-+++.+...... +.++++.-|.. -..++. | .|.-.+. . ...-+.+
T Consensus 4 g~l~~i~gpM~SGKT~eLl~r~~~~~~~-g~~v~vfkp~i----------D~R~~~--~-~V~Sr~G----~-~~~A~~i 64 (201)
T COG1435 4 GWLEFIYGPMFSGKTEELLRRARRYKEA-GMKVLVFKPAI----------DTRYGV--G-KVSSRIG----L-SSEAVVI 64 (201)
T ss_pred EEEEEEEccCcCcchHHHHHHHHHHHHc-CCeEEEEeccc----------cccccc--c-eeeeccC----C-cccceec
Confidence 5667899999999999988887765333 45677776631 011111 0 1111000 0 1122334
Q ss_pred eChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEcCCCC
Q 001046 619 MTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTSATLD 679 (1176)
Q Consensus 619 ~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmSATl~ 679 (1176)
-.+.-+...+........+.+|.||||+ +...-+...|.++... +-+-++-+.++
T Consensus 65 ~~~~~i~~~i~~~~~~~~~~~v~IDEaQ---F~~~~~v~~l~~lad~---lgi~Vi~~GL~ 119 (201)
T COG1435 65 PSDTDIFDEIAALHEKPPVDCVLIDEAQ---FFDEELVYVLNELADR---LGIPVICYGLD 119 (201)
T ss_pred CChHHHHHHHHhcccCCCcCEEEEehhH---hCCHHHHHHHHHHHhh---cCCEEEEeccc
Confidence 4555566666655444448999999999 3333445555555442 23344445554
No 474
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=92.61 E-value=0.57 Score=55.26 Aligned_cols=20 Identities=35% Similarity=0.639 Sum_probs=15.9
Q ss_pred eEEEEcCCCCcHHHHHHHHH
Q 001046 541 VLVVIGETGSGKTTQVTQYL 560 (1176)
Q Consensus 541 ~vIv~apTGSGKTt~~~~~l 560 (1176)
+++|.|+||+|||+++-..+
T Consensus 44 n~~iyG~~GTGKT~~~~~v~ 63 (366)
T COG1474 44 NIIIYGPTGTGKTATVKFVM 63 (366)
T ss_pred cEEEECCCCCCHhHHHHHHH
Confidence 68999999999986655443
No 475
>cd03239 ABC_SMC_head The structural maintenance of chromosomes (SMC) proteins are essential for successful chromosome transmission during replication and segregation of the genome in all organisms. SMCs are generally present as single proteins in bacteria, and as at least six distinct proteins in eukaryotes. The proteins range in size from approximately 110 to 170 kDa, and each has five distinct domains: amino- and carboxy-terminal globular domains, which contain sequences characteristic of ATPases, two coiled-coil regions separating the terminal domains , and a central flexible hinge. SMC proteins function together with other proteins in a range of chromosomal transactions, including chromosome condensation, sister-chromatid cohesion, recombination, DNA repair, and epigenetic silencing of gene expression.
Probab=92.61 E-value=0.76 Score=48.59 Aligned_cols=59 Identities=12% Similarity=0.087 Sum_probs=34.4
Q ss_pred eChHHHHHHHhhCC----CCCCCceEEEcCCCcCCCchhHHHHHHHHHHhh-CCCccEEEEcCCC
Q 001046 619 MTDGMLLREILIDD----NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKR-RPDLRLIVTSATL 678 (1176)
Q Consensus 619 ~T~g~Llr~l~~~~----~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~-r~~~kvIlmSATl 678 (1176)
.+.|+..+..+... .+.+.+++|+||.. .+++......+++.+... ..+..+|+.|.-+
T Consensus 95 LS~Ge~~r~~Laral~~~~~~~p~llilDEp~-~~LD~~~~~~i~~~L~~~~~~g~tiIiiSH~~ 158 (178)
T cd03239 95 LSGGEKSLSALALIFALQEIKPSPFYVLDEID-AALDPTNRRRVSDMIKEMAKHTSQFIVITLKK 158 (178)
T ss_pred CCHHHHHHHHHHHHHHHhcCCCCCEEEEECCC-CCCCHHHHHHHHHHHHHHHhCCCEEEEEECCH
Confidence 67777666554432 14678999999997 566654433333333322 2246677776653
No 476
>cd01125 repA Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.
Probab=92.60 E-value=1 Score=49.85 Aligned_cols=37 Identities=16% Similarity=0.249 Sum_probs=27.5
Q ss_pred CCeEEEEcCCCCcHHHHHHHHHHHhc-----------ccCCCEEEEec
Q 001046 539 NQVLVVIGETGSGKTTQVTQYLAEAG-----------YTTRGKIGCTQ 575 (1176)
Q Consensus 539 ~~~vIv~apTGSGKTt~~~~~lle~~-----------~~~~~~Ilv~~ 575 (1176)
|.+.+++||.|+|||+.+.++++... ...+++|+++.
T Consensus 1 g~~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~ 48 (239)
T cd01125 1 GYVSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLS 48 (239)
T ss_pred CceeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEE
Confidence 35689999999999999988877522 12356787776
No 477
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=92.56 E-value=0.078 Score=64.28 Aligned_cols=17 Identities=18% Similarity=0.323 Sum_probs=8.3
Q ss_pred CCCHHHHHHHHHHHHhh
Q 001046 64 EMPDYFVRTLLTIIHAI 80 (1176)
Q Consensus 64 ~~~~~~~~~l~~li~~~ 80 (1176)
=||+.++..+.+.....
T Consensus 556 ifpe~~l~~l~~~Flg~ 572 (877)
T KOG0151|consen 556 IFPEDFLIGLQNTFLGL 572 (877)
T ss_pred hCcHHHHHHHHHHHhcC
Confidence 35555555555544443
No 478
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=92.53 E-value=0.21 Score=57.05 Aligned_cols=55 Identities=22% Similarity=0.258 Sum_probs=42.5
Q ss_pred cCCchHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhccc-CCCEEEEecc
Q 001046 522 SLPIYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYT-TRGKIGCTQP 576 (1176)
Q Consensus 522 ~LPi~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~-~~~~Ilv~~P 576 (1176)
..|..+-|..-++++.++..+..+||-|+|||+.......+.... .-.+|+.+-|
T Consensus 126 I~~kt~~Q~~y~eai~~~di~fGiGpAGTGKTyLava~av~al~~~~v~rIiLtRP 181 (348)
T COG1702 126 IIPKTPGQNMYPEAIEEHDIVFGIGPAGTGKTYLAVAKAVDALGAGQVRRIILTRP 181 (348)
T ss_pred eEecChhHHHHHHHHHhcCeeeeecccccCChhhhHHhHhhhhhhcccceeeecCc
Confidence 356778899999999999999999999999996655554443221 2247899988
No 479
>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []. It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.
Probab=92.51 E-value=0.9 Score=47.61 Aligned_cols=22 Identities=32% Similarity=0.563 Sum_probs=17.6
Q ss_pred eEEEEcCCCCcHHHHHHHHHHH
Q 001046 541 VLVVIGETGSGKTTQVTQYLAE 562 (1176)
Q Consensus 541 ~vIv~apTGSGKTt~~~~~lle 562 (1176)
.++|+|+.|+||||.+..++-.
T Consensus 1 ~i~iTG~pG~GKTTll~k~i~~ 22 (168)
T PF03266_consen 1 HIFITGPPGVGKTTLLKKVIEE 22 (168)
T ss_dssp EEEEES-TTSSHHHHHHHHHHH
T ss_pred CEEEECcCCCCHHHHHHHHHHH
Confidence 4789999999999998776644
No 480
>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau. This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.
Probab=92.51 E-value=0.86 Score=53.45 Aligned_cols=37 Identities=27% Similarity=0.439 Sum_probs=23.8
Q ss_pred HHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHH
Q 001046 624 LLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQL 662 (1176)
Q Consensus 624 Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~ 662 (1176)
++..+...|......+|||||||.- ..+..-.+++.+
T Consensus 105 l~~~~~~~p~~~~~~vviidea~~l--~~~~~~~Ll~~l 141 (355)
T TIGR02397 105 ILDNVKYAPSSGKYKVYIIDEVHML--SKSAFNALLKTL 141 (355)
T ss_pred HHHHHhcCcccCCceEEEEeChhhc--CHHHHHHHHHHH
Confidence 5555555677888999999999842 233334444444
No 481
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.41 E-value=0.32 Score=61.31 Aligned_cols=32 Identities=25% Similarity=0.350 Sum_probs=23.0
Q ss_pred HHHHHHcC---CeEEEEcCCCCcHHHHHHHHHHHh
Q 001046 532 LIQAVHDN---QVLVVIGETGSGKTTQVTQYLAEA 563 (1176)
Q Consensus 532 ii~ai~~~---~~vIv~apTGSGKTt~~~~~lle~ 563 (1176)
+..++..+ ..+++.||.|+||||.+-.++...
T Consensus 28 L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L 62 (620)
T PRK14948 28 LKNALISNRIAPAYLFTGPRGTGKTSSARILAKSL 62 (620)
T ss_pred HHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHh
Confidence 34445555 356999999999999887766553
No 482
>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. In members of Carb_Monos family the single hydrophobic gene product forms a homodimer, while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.
Probab=92.41 E-value=0.4 Score=50.73 Aligned_cols=129 Identities=16% Similarity=0.237 Sum_probs=67.6
Q ss_pred HHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEec-cHHHHHHHHHHHHHHHhCCccCCeeEEEeec------cc
Q 001046 536 VHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQ-PRRVAAMSVAKRVAEEFGCRLGEEVGYAIRF------ED 608 (1176)
Q Consensus 536 i~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~-PrR~lA~qva~rva~e~g~~~G~~vGy~ir~------~~ 608 (1176)
+..|+.+.|+|+.||||||.+-...-.. ....|.|.+-- +...... ...+. ..++|.... ..
T Consensus 23 i~~G~~~~i~G~nGsGKSTLl~~l~G~~-~~~~G~i~~~g~~~~~~~~--~~~~~--------~~i~~~~q~~~~~~~~~ 91 (182)
T cd03215 23 VRAGEIVGIAGLVGNGQTELAEALFGLR-PPASGEITLDGKPVTRRSP--RDAIR--------AGIAYVPEDRKREGLVL 91 (182)
T ss_pred EcCCcEEEEECCCCCCHHHHHHHHhCCC-CCCCceEEECCEECCccCH--HHHHh--------CCeEEecCCcccCcccC
Confidence 3578999999999999998766544322 22345554421 1000000 00000 123332211 00
Q ss_pred ccCCCceEEE---eChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchh---HHHHHHHHHHhhCCCccEEEEcCCC
Q 001046 609 CTGPDTVIKY---MTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTD---VLFGLLKQLVKRRPDLRLIVTSATL 678 (1176)
Q Consensus 609 ~~~~~t~I~~---~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d---~ll~llk~~~~~r~~~kvIlmSATl 678 (1176)
..+-.-.+.+ .+.|+..+..+....+.+..++++||-- .+++.. .+..+++.+.. .+..+|+.|.-+
T Consensus 92 ~~t~~e~l~~~~~LS~G~~qrl~la~al~~~p~llllDEP~-~~LD~~~~~~l~~~l~~~~~--~~~tiii~sh~~ 164 (182)
T cd03215 92 DLSVAENIALSSLLSGGNQQKVVLARWLARDPRVLILDEPT-RGVDVGAKAEIYRLIRELAD--AGKAVLLISSEL 164 (182)
T ss_pred CCcHHHHHHHHhhcCHHHHHHHHHHHHHccCCCEEEECCCC-cCCCHHHHHHHHHHHHHHHH--CCCEEEEEeCCH
Confidence 0000001111 6778887777777788899999999975 344443 44455554432 245566666554
No 483
>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases. Some of the members are found in positive-strand single stranded RNA viruses. The helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis [].; GO: 0004386 helicase activity
Probab=92.40 E-value=0.12 Score=56.67 Aligned_cols=22 Identities=41% Similarity=0.661 Sum_probs=18.2
Q ss_pred EEEEcCCCCcHHHHHHHHHHHh
Q 001046 542 LVVIGETGSGKTTQVTQYLAEA 563 (1176)
Q Consensus 542 vIv~apTGSGKTt~~~~~lle~ 563 (1176)
++|.|+.||||||.+...+...
T Consensus 1 ~vv~G~pGsGKSt~i~~~~~~~ 22 (234)
T PF01443_consen 1 IVVHGVPGSGKSTLIKKLLKDR 22 (234)
T ss_pred CEEEcCCCCCHHHHHHHHHHhc
Confidence 4789999999999888776653
No 484
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=92.39 E-value=0.35 Score=55.78 Aligned_cols=22 Identities=36% Similarity=0.490 Sum_probs=18.2
Q ss_pred eEEEEcCCCCcHHHHHHHHHHH
Q 001046 541 VLVVIGETGSGKTTQVTQYLAE 562 (1176)
Q Consensus 541 ~vIv~apTGSGKTt~~~~~lle 562 (1176)
-+++.||+|+|||+.+..+.-+
T Consensus 26 alL~~Gp~G~Gktt~a~~lA~~ 47 (325)
T COG0470 26 ALLFYGPPGVGKTTAALALAKE 47 (325)
T ss_pred eeeeeCCCCCCHHHHHHHHHHH
Confidence 3999999999999887766554
No 485
>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR). DR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. Compared to other members of the ABC transporter subfamilies, the ABCG transporter family is composed of proteins that have an ATP-binding cassette domain at the N-terminus and a TM (transmembrane) domain at the C-terminus.
Probab=92.38 E-value=0.32 Score=52.12 Aligned_cols=126 Identities=16% Similarity=0.264 Sum_probs=66.7
Q ss_pred HHcCCeEEEEcCCCCcHHHHHHHHHHHhc-ccCCCEEEEe-ccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccC--
Q 001046 536 VHDNQVLVVIGETGSGKTTQVTQYLAEAG-YTTRGKIGCT-QPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTG-- 611 (1176)
Q Consensus 536 i~~~~~vIv~apTGSGKTt~~~~~lle~~-~~~~~~Ilv~-~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~-- 611 (1176)
+..|+.+.|.||.||||||.+-..+-... ....|.|.+- ++... . .+. ..++|.........
T Consensus 32 i~~Ge~~~l~G~nGsGKStLl~~i~Gl~~~~~~~G~i~~~g~~~~~--~----~~~--------~~i~~~~q~~~~~~~~ 97 (194)
T cd03213 32 AKPGELTAIMGPSGAGKSTLLNALAGRRTGLGVSGEVLINGRPLDK--R----SFR--------KIIGYVPQDDILHPTL 97 (194)
T ss_pred EcCCcEEEEECCCCCCHHHHHHHHhCCCCCCCCceEEEECCEeCch--H----hhh--------heEEEccCcccCCCCC
Confidence 46789999999999999987665543220 2234555431 11100 0 010 11232211100000
Q ss_pred ---CC----ceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhH---HHHHHHHHHhhCCCccEEEEcCCC
Q 001046 612 ---PD----TVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDV---LFGLLKQLVKRRPDLRLIVTSATL 678 (1176)
Q Consensus 612 ---~~----t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~---ll~llk~~~~~r~~~kvIlmSATl 678 (1176)
.+ ..+.-.+.|+..+..+....+.+..++|+||.- .+++.+. +..+++.+.. ....+|+.|.-+
T Consensus 98 t~~~~i~~~~~~~~LS~G~~qrv~laral~~~p~illlDEP~-~~LD~~~~~~l~~~l~~~~~--~~~tiii~sh~~ 171 (194)
T cd03213 98 TVRETLMFAAKLRGLSGGERKRVSIALELVSNPSLLFLDEPT-SGLDSSSALQVMSLLRRLAD--TGRTIICSIHQP 171 (194)
T ss_pred cHHHHHHHHHHhccCCHHHHHHHHHHHHHHcCCCEEEEeCCC-cCCCHHHHHHHHHHHHHHHh--CCCEEEEEecCc
Confidence 00 001146778877777777778889999999987 5565554 3444444322 245566666554
No 486
>TIGR02858 spore_III_AA stage III sporulation protein AA. Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.
Probab=92.34 E-value=0.98 Score=51.05 Aligned_cols=23 Identities=22% Similarity=0.206 Sum_probs=19.1
Q ss_pred CeEEEEcCCCCcHHHHHHHHHHH
Q 001046 540 QVLVVIGETGSGKTTQVTQYLAE 562 (1176)
Q Consensus 540 ~~vIv~apTGSGKTt~~~~~lle 562 (1176)
+++++.|||||||||.+-..+-.
T Consensus 112 ~~~~i~g~~g~GKttl~~~l~~~ 134 (270)
T TIGR02858 112 LNTLIISPPQCGKTTLLRDLARI 134 (270)
T ss_pred eEEEEEcCCCCCHHHHHHHHhCc
Confidence 68999999999999987765543
No 487
>TIGR02012 tigrfam_recA protein RecA. This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.
Probab=92.34 E-value=0.35 Score=55.78 Aligned_cols=42 Identities=24% Similarity=0.362 Sum_probs=32.1
Q ss_pred HHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHH
Q 001046 536 VHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRR 578 (1176)
Q Consensus 536 i~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR 578 (1176)
+..+..+.|.||+||||||.+.+++.+.. ..++.++++..-.
T Consensus 52 lp~G~iteI~G~~GsGKTtLaL~~~~~~~-~~g~~v~yId~E~ 93 (321)
T TIGR02012 52 LPRGRIIEIYGPESSGKTTLALHAIAEAQ-KAGGTAAFIDAEH 93 (321)
T ss_pred CcCCeEEEEECCCCCCHHHHHHHHHHHHH-HcCCcEEEEcccc
Confidence 34578999999999999999999888753 3456777765433
No 488
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.32 E-value=0.58 Score=55.37 Aligned_cols=30 Identities=33% Similarity=0.513 Sum_probs=21.9
Q ss_pred HHHHHHHcCC---eEEEEcCCCCcHHHHHHHHH
Q 001046 531 ELIQAVHDNQ---VLVVIGETGSGKTTQVTQYL 560 (1176)
Q Consensus 531 ~ii~ai~~~~---~vIv~apTGSGKTt~~~~~l 560 (1176)
.+.+.+..++ .+++.||+|+|||+.+-.+.
T Consensus 28 ~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la 60 (367)
T PRK14970 28 TLLNAIENNHLAQALLFCGPRGVGKTTCARILA 60 (367)
T ss_pred HHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHH
Confidence 3444455553 78899999999998877663
No 489
>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]
Probab=92.24 E-value=0.88 Score=50.11 Aligned_cols=125 Identities=22% Similarity=0.273 Sum_probs=60.3
Q ss_pred HHHHHHcCC-eEEEEcCCCCcHHHHHHHHHHHhcccCCCEEE-EeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccc
Q 001046 532 LIQAVHDNQ-VLVVIGETGSGKTTQVTQYLAEAGYTTRGKIG-CTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDC 609 (1176)
Q Consensus 532 ii~ai~~~~-~vIv~apTGSGKTt~~~~~lle~~~~~~~~Il-v~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~ 609 (1176)
+-.++..++ .+.++|+-|||||+..- .+++. +..+..++ ++--..+....+..++...+...
T Consensus 43 l~~~i~d~qg~~~vtGevGsGKTv~~R-al~~s-~~~d~~~~v~i~~~~~s~~~~~~ai~~~l~~~-------------- 106 (269)
T COG3267 43 LHAAIADGQGILAVTGEVGSGKTVLRR-ALLAS-LNEDQVAVVVIDKPTLSDATLLEAIVADLESQ-------------- 106 (269)
T ss_pred HHHHHhcCCceEEEEecCCCchhHHHH-HHHHh-cCCCceEEEEecCcchhHHHHHHHHHHHhccC--------------
Confidence 334567777 99999999999998777 44443 33333333 33222333334444454444221
Q ss_pred cCCCceEEEeChHHHHHHHhhCC-CCCCCceEEEcCCCcCCCchhHHHHHHHHHHhh-CCCccEEEEc
Q 001046 610 TGPDTVIKYMTDGMLLREILIDD-NLSQYSVIMLDEAHERTIHTDVLFGLLKQLVKR-RPDLRLIVTS 675 (1176)
Q Consensus 610 ~~~~t~I~~~T~g~Llr~l~~~~-~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~-r~~~kvIlmS 675 (1176)
+...+-..+. ...+.+..-. ...+--++++||||.-+.+..-.+.++-..... ...+++++.-
T Consensus 107 --p~~~~~~~~e-~~~~~L~al~~~g~r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~G 171 (269)
T COG3267 107 --PKVNVNAVLE-QIDRELAALVKKGKRPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIG 171 (269)
T ss_pred --ccchhHHHHH-HHHHHHHHHHHhCCCCeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecC
Confidence 1111111111 1122222111 233336899999996555554444444333322 1224555543
No 490
>COG1127 Ttg2A ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=92.23 E-value=0.45 Score=51.89 Aligned_cols=142 Identities=21% Similarity=0.276 Sum_probs=74.6
Q ss_pred HHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEe-ccHHHHHHHHHHHHHHHhCC-----------ccCCeeEEE
Q 001046 536 VHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCT-QPRRVAAMSVAKRVAEEFGC-----------RLGEEVGYA 603 (1176)
Q Consensus 536 i~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~-~PrR~lA~qva~rva~e~g~-----------~~G~~vGy~ 603 (1176)
+..|+++.|.||.||||||.+-+.+-.. ....|.|.+. .....+-..-...+.+.+|. .+-+.|++-
T Consensus 31 V~~Gei~~iiGgSGsGKStlLr~I~Gll-~P~~GeI~i~G~~i~~ls~~~~~~ir~r~GvlFQ~gALFssltV~eNVafp 109 (263)
T COG1127 31 VPRGEILAILGGSGSGKSTLLRLILGLL-RPDKGEILIDGEDIPQLSEEELYEIRKRMGVLFQQGALFSSLTVFENVAFP 109 (263)
T ss_pred ecCCcEEEEECCCCcCHHHHHHHHhccC-CCCCCeEEEcCcchhccCHHHHHHHHhheeEEeeccccccccchhHhhhee
Confidence 4679999999999999999877765443 2234444332 22222222222223333322 222233333
Q ss_pred eecccccCC----------------CceEE-----EeChHHHHHHHhhCCCCCCCceEEEcCCC--cCCCchhHHHHHHH
Q 001046 604 IRFEDCTGP----------------DTVIK-----YMTDGMLLREILIDDNLSQYSVIMLDEAH--ERTIHTDVLFGLLK 660 (1176)
Q Consensus 604 ir~~~~~~~----------------~t~I~-----~~T~g~Llr~l~~~~~L~~~s~IIiDEaH--eR~~~~d~ll~llk 660 (1176)
.+-....++ ...+. =.+-||--|..+......+..+|++||=- ...+....+-.+++
T Consensus 110 lre~~~lp~~~i~~lv~~KL~~VGL~~~~~~~~PsELSGGM~KRvaLARAialdPell~~DEPtsGLDPI~a~~~~~LI~ 189 (263)
T COG1127 110 LREHTKLPESLIRELVLMKLELVGLRGAAADLYPSELSGGMRKRVALARAIALDPELLFLDEPTSGLDPISAGVIDELIR 189 (263)
T ss_pred hHhhccCCHHHHHHHHHHHHHhcCCChhhhhhCchhhcchHHHHHHHHHHHhcCCCEEEecCCCCCCCcchHHHHHHHHH
Confidence 222221110 00000 01335555544444445566899999954 45566667777777
Q ss_pred HHHhhCCCccEEEEcCCCC
Q 001046 661 QLVKRRPDLRLIVTSATLD 679 (1176)
Q Consensus 661 ~~~~~r~~~kvIlmSATl~ 679 (1176)
.+... -.+.+|+.|.-++
T Consensus 190 ~L~~~-lg~T~i~VTHDl~ 207 (263)
T COG1127 190 ELNDA-LGLTVIMVTHDLD 207 (263)
T ss_pred HHHHh-hCCEEEEEECChH
Confidence 76654 3566777776653
No 491
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=92.23 E-value=0.23 Score=58.64 Aligned_cols=89 Identities=19% Similarity=0.229 Sum_probs=52.1
Q ss_pred HHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCce
Q 001046 536 VHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTV 615 (1176)
Q Consensus 536 i~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t~ 615 (1176)
+..+..++|.|++|+||||.+.+++.... ..+++++++.-- +...|+..+ +..+|...... .
T Consensus 79 i~~GslvLI~G~pG~GKStLllq~a~~~a-~~g~~VlYvs~E-Es~~qi~~R-a~rlg~~~~~l---------------~ 140 (372)
T cd01121 79 LVPGSVILIGGDPGIGKSTLLLQVAARLA-KRGGKVLYVSGE-ESPEQIKLR-ADRLGISTENL---------------Y 140 (372)
T ss_pred ccCCeEEEEEeCCCCCHHHHHHHHHHHHH-hcCCeEEEEECC-cCHHHHHHH-HHHcCCCcccE---------------E
Confidence 34578999999999999999999887643 234677776432 223444443 33344322110 0
Q ss_pred EEEeC-hHHHHHHHhhCCCCCCCceEEEcCCC
Q 001046 616 IKYMT-DGMLLREILIDDNLSQYSVIMLDEAH 646 (1176)
Q Consensus 616 I~~~T-~g~Llr~l~~~~~L~~~s~IIiDEaH 646 (1176)
+.-.| -..++..+. -.+.++||||+++
T Consensus 141 l~~e~~le~I~~~i~----~~~~~lVVIDSIq 168 (372)
T cd01121 141 LLAETNLEDILASIE----ELKPDLVIIDSIQ 168 (372)
T ss_pred EEccCcHHHHHHHHH----hcCCcEEEEcchH
Confidence 11011 233444432 2467899999987
No 492
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=92.23 E-value=0.82 Score=52.78 Aligned_cols=131 Identities=25% Similarity=0.288 Sum_probs=85.3
Q ss_pred CeEEEEcCCCCcHHHHHHHHHHHhcccC-CCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCceEEE
Q 001046 540 QVLVVIGETGSGKTTQVTQYLAEAGYTT-RGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTVIKY 618 (1176)
Q Consensus 540 ~~vIv~apTGSGKTt~~~~~lle~~~~~-~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t~I~~ 618 (1176)
.+++++|=-|+||||....+.+..-... ..-++|--..|+.|..+.+..+...++++ +| . .|.
T Consensus 102 sVimfVGLqG~GKTTtc~KlA~y~kkkG~K~~LvcaDTFRagAfDQLkqnA~k~~iP~---yg---s-------yte--- 165 (483)
T KOG0780|consen 102 SVIMFVGLQGSGKTTTCTKLAYYYKKKGYKVALVCADTFRAGAFDQLKQNATKARVPF---YG---S-------YTE--- 165 (483)
T ss_pred cEEEEEeccCCCcceeHHHHHHHHHhcCCceeEEeecccccchHHHHHHHhHhhCCee---Ee---c-------ccc---
Confidence 4788899999999999888776532111 12457777889999988887777666654 11 0 011
Q ss_pred eChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHh-hCCCccEEEEcCCCC--HHHHHhhh
Q 001046 619 MTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVK-RRPDLRLIVTSATLD--AEKFSGYF 687 (1176)
Q Consensus 619 ~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~-~r~~~kvIlmSATl~--~~~~~~~f 687 (1176)
+-|-.+...-.....-.+|++||+|-.- |.-....|+.-++.+.. ..|+.-|++|-|++- ++..+.-|
T Consensus 166 ~dpv~ia~egv~~fKke~fdvIIvDTSG-Rh~qe~sLfeEM~~v~~ai~Pd~vi~VmDasiGQaae~Qa~aF 236 (483)
T KOG0780|consen 166 ADPVKIASEGVDRFKKENFDVIIVDTSG-RHKQEASLFEEMKQVSKAIKPDEIIFVMDASIGQAAEAQARAF 236 (483)
T ss_pred cchHHHHHHHHHHHHhcCCcEEEEeCCC-chhhhHHHHHHHHHHHhhcCCCeEEEEEeccccHhHHHHHHHH
Confidence 1122222222223345789999999997 55555566666666655 679999999999984 44444444
No 493
>KOG0058 consensus Peptide exporter, ABC superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=92.17 E-value=0.3 Score=60.74 Aligned_cols=27 Identities=30% Similarity=0.340 Sum_probs=22.6
Q ss_pred ChHHHHHHHhhCCCCCCCceEEEcCCC
Q 001046 620 TDGMLLREILIDDNLSQYSVIMLDEAH 646 (1176)
Q Consensus 620 T~g~Llr~l~~~~~L~~~s~IIiDEaH 646 (1176)
+-|.=.|..+....+++..++|+|||-
T Consensus 606 SGGQKQRIAIARALlr~P~VLILDEAT 632 (716)
T KOG0058|consen 606 SGGQKQRIAIARALLRNPRVLILDEAT 632 (716)
T ss_pred cchHHHHHHHHHHHhcCCCEEEEechh
Confidence 557777777777889999999999996
No 494
>PRK13695 putative NTPase; Provisional
Probab=92.16 E-value=0.59 Score=49.03 Aligned_cols=21 Identities=33% Similarity=0.430 Sum_probs=17.4
Q ss_pred eEEEEcCCCCcHHHHHHHHHH
Q 001046 541 VLVVIGETGSGKTTQVTQYLA 561 (1176)
Q Consensus 541 ~vIv~apTGSGKTt~~~~~ll 561 (1176)
.++++|++||||||.+-..+.
T Consensus 2 ~i~ltG~~G~GKTTll~~i~~ 22 (174)
T PRK13695 2 KIGITGPPGVGKTTLVLKIAE 22 (174)
T ss_pred EEEEECCCCCCHHHHHHHHHH
Confidence 478999999999998886543
No 495
>PRK13541 cytochrome c biogenesis protein CcmA; Provisional
Probab=92.15 E-value=0.1 Score=55.94 Aligned_cols=60 Identities=15% Similarity=0.067 Sum_probs=35.6
Q ss_pred EeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHh-hCCCccEEEEcCCC
Q 001046 618 YMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVK-RRPDLRLIVTSATL 678 (1176)
Q Consensus 618 ~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~-~r~~~kvIlmSATl 678 (1176)
-.+.|+..+..+....+.+..++|+||.- .+++.+....+...+.. ...+.-+|+.|.-+
T Consensus 123 ~LS~G~~~rl~la~al~~~p~~lllDEP~-~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~ 183 (195)
T PRK13541 123 SLSSGMQKIVAIARLIACQSDLWLLDEVE-TNLSKENRDLLNNLIVMKANSGGIVLLSSHLE 183 (195)
T ss_pred hCCHHHHHHHHHHHHHhcCCCEEEEeCCc-ccCCHHHHHHHHHHHHHHHhCCCEEEEEeCCc
Confidence 34667776666666677888999999987 56655443333332221 12345566665544
No 496
>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters. PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=92.12 E-value=0.094 Score=56.58 Aligned_cols=114 Identities=18% Similarity=0.285 Sum_probs=60.8
Q ss_pred HHcCCeEEEEcCCCCcHHHHHHHHHHHhcc--cCCCEEEEec-cHHHHHHHHHHHHHHHhCCccCCeeEEEeeccc----
Q 001046 536 VHDNQVLVVIGETGSGKTTQVTQYLAEAGY--TTRGKIGCTQ-PRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFED---- 608 (1176)
Q Consensus 536 i~~~~~vIv~apTGSGKTt~~~~~lle~~~--~~~~~Ilv~~-PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~---- 608 (1176)
+..|+.+.|+|+.||||||.+-...-.... ...|.|.+-- +..... ... -..++|......
T Consensus 30 i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~~~~G~i~i~g~~~~~~~----~~~--------~~~i~~~~q~~~~~~~ 97 (202)
T cd03233 30 VKPGEMVLVLGRPGSGCSTLLKALANRTEGNVSVEGDIHYNGIPYKEFA----EKY--------PGEIIYVSEEDVHFPT 97 (202)
T ss_pred ECCCcEEEEECCCCCCHHHHHHHhcccCCCCCCcceEEEECCEECccch----hhh--------cceEEEEecccccCCC
Confidence 467899999999999999977664432210 2245444311 111000 000 011222111000
Q ss_pred -----------ccCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchh---HHHHHHHHH
Q 001046 609 -----------CTGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTD---VLFGLLKQL 662 (1176)
Q Consensus 609 -----------~~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d---~ll~llk~~ 662 (1176)
....+..+.-.+.|+..+..+....+.+..++|+||-= .+++.. .+..+++.+
T Consensus 98 ~tv~~~l~~~~~~~~~~~~~~LS~Ge~qrl~laral~~~p~llllDEPt-~~LD~~~~~~~~~~l~~~ 164 (202)
T cd03233 98 LTVRETLDFALRCKGNEFVRGISGGERKRVSIAEALVSRASVLCWDNST-RGLDSSTALEILKCIRTM 164 (202)
T ss_pred CcHHHHHhhhhhhccccchhhCCHHHHHHHHHHHHHhhCCCEEEEcCCC-ccCCHHHHHHHHHHHHHH
Confidence 00012334445778887777777778889999999965 444443 344444444
No 497
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=92.11 E-value=0.25 Score=63.82 Aligned_cols=67 Identities=24% Similarity=0.256 Sum_probs=51.0
Q ss_pred chHHHHHHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcc---cCCCEEEEeccHHHHHHHHHHHHHHHhC
Q 001046 525 IYKLKKELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGY---TTRGKIGCTQPRRVAAMSVAKRVAEEFG 593 (1176)
Q Consensus 525 i~~~q~~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~---~~~~~Ilv~~PrR~lA~qva~rva~e~g 593 (1176)
+.+.|.+++.. ....++|.|..|||||+++..-+..... ....+|+++..|+-+|.++..|+...++
T Consensus 5 Ln~~Q~~av~~--~~g~~lV~AgaGSGKT~~L~~Ria~Li~~~~v~p~~IL~lTFTnkAA~em~~Rl~~~~~ 74 (715)
T TIGR01075 5 LNDKQREAVAA--PPGNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRHRIGALLG 74 (715)
T ss_pred cCHHHHHHHcC--CCCCEEEEecCCCCHHHHHHHHHHHHHHcCCCCHHHeEeeeccHHHHHHHHHHHHHHhc
Confidence 45667777654 3457899999999999888776655321 1245899999999999999999988765
No 498
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=92.10 E-value=1.3 Score=51.10 Aligned_cols=109 Identities=19% Similarity=0.237 Sum_probs=0.0
Q ss_pred HHHHHHHHcCCe--EEEEcCCCCcHHHHHHHHHHHhcccC-CCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeec
Q 001046 530 KELIQAVHDNQV--LVVIGETGSGKTTQVTQYLAEAGYTT-RGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRF 606 (1176)
Q Consensus 530 ~~ii~ai~~~~~--vIv~apTGSGKTt~~~~~lle~~~~~-~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~ 606 (1176)
..+...+..+.. +++.||+|+|||+.+-.+..+..-.. ....+.+.+............
T Consensus 27 ~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~~~~~------------------ 88 (319)
T PRK00440 27 ERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELYGEDWRENFLELNASDERGIDVIRNK------------------ 88 (319)
T ss_pred HHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCCccccceEEeccccccchHHHHHH------------------
Q ss_pred ccccCCCceEEEeChHHHHHHHhhCCCC-CCCceEEEcCCCcCCCchhHHHHHHHHHHhhCCCccEEEEc
Q 001046 607 EDCTGPDTVIKYMTDGMLLREILIDDNL-SQYSVIMLDEAHERTIHTDVLFGLLKQLVKRRPDLRLIVTS 675 (1176)
Q Consensus 607 ~~~~~~~t~I~~~T~g~Llr~l~~~~~L-~~~s~IIiDEaHeR~~~~d~ll~llk~~~~~r~~~kvIlmS 675 (1176)
+.......|.. ....+|||||+| .+..+..-.+++.+-...+...+|+.+
T Consensus 89 -----------------i~~~~~~~~~~~~~~~vviiDe~~--~l~~~~~~~L~~~le~~~~~~~lIl~~ 139 (319)
T PRK00440 89 -----------------IKEFARTAPVGGAPFKIIFLDEAD--NLTSDAQQALRRTMEMYSQNTRFILSC 139 (319)
T ss_pred -----------------HHHHHhcCCCCCCCceEEEEeCcc--cCCHHHHHHHHHHHhcCCCCCeEEEEe
No 499
>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed
Probab=91.99 E-value=0.66 Score=58.57 Aligned_cols=127 Identities=15% Similarity=0.138 Sum_probs=0.0
Q ss_pred HHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEE------------------------------------------
Q 001046 536 VHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGC------------------------------------------ 573 (1176)
Q Consensus 536 i~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv------------------------------------------ 573 (1176)
+..|+.+.|+|++||||||.+-+.+-.. ...|.|.+
T Consensus 373 i~~G~~vaIvG~SGsGKSTL~~lL~g~~--p~~G~I~i~g~~i~~~~~~~lr~~i~~v~Q~~~LF~~TI~eNI~~g~~~~ 450 (588)
T PRK11174 373 LPAGQRIALVGPSGAGKTSLLNALLGFL--PYQGSLKINGIELRELDPESWRKHLSWVGQNPQLPHGTLRDNVLLGNPDA 450 (588)
T ss_pred EcCCCEEEEECCCCCCHHHHHHHHhcCC--CCCcEEEECCEecccCCHHHHHhheEEecCCCcCCCcCHHHHhhcCCCCC
Q ss_pred eccHHHHHHHHHHHHHHHhCCccCCeeEEEeecccccCCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchh
Q 001046 574 TQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCTGPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTD 653 (1176)
Q Consensus 574 ~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d 653 (1176)
+.-.-..|...+.--......+.|...-..-++... +.|.-.|..+....+++..++|+||+= -.++.+
T Consensus 451 ~~eei~~al~~a~l~~~i~~lp~G~dT~vge~G~~L----------SGGQrQRialARAll~~~~IliLDE~T-SaLD~~ 519 (588)
T PRK11174 451 SDEQLQQALENAWVSEFLPLLPQGLDTPIGDQAAGL----------SVGQAQRLALARALLQPCQLLLLDEPT-ASLDAH 519 (588)
T ss_pred CHHHHHHHHHHhCHHHHHHhcccccccccccCCCCC----------CHHHHHHHHHHHHHhcCCCEEEEeCCc-cCCCHH
Q ss_pred HHHHHHHHHHhhCCCccEEEEc
Q 001046 654 VLFGLLKQLVKRRPDLRLIVTS 675 (1176)
Q Consensus 654 ~ll~llk~~~~~r~~~kvIlmS 675 (1176)
....+...+....++.-+|+.|
T Consensus 520 te~~i~~~l~~~~~~~TvIiIt 541 (588)
T PRK11174 520 SEQLVMQALNAASRRQTTLMVT 541 (588)
T ss_pred HHHHHHHHHHHHhCCCEEEEEe
No 500
>PRK04841 transcriptional regulator MalT; Provisional
Probab=91.97 E-value=0.65 Score=61.66 Aligned_cols=156 Identities=12% Similarity=0.139 Sum_probs=0.0
Q ss_pred HHHHHHHcCCeEEEEcCCCCcHHHHHHHHHHHhcccCCCEEEEeccHHHHHHHHHHHHHHHhCCccCCeeEEEeeccccc
Q 001046 531 ELIQAVHDNQVLVVIGETGSGKTTQVTQYLAEAGYTTRGKIGCTQPRRVAAMSVAKRVAEEFGCRLGEEVGYAIRFEDCT 610 (1176)
Q Consensus 531 ~ii~ai~~~~~vIv~apTGSGKTt~~~~~lle~~~~~~~~Ilv~~PrR~lA~qva~rva~e~g~~~G~~vGy~ir~~~~~ 610 (1176)
+.+......+.++|+||.|+||||.+.+|+.... ...-+.+.+.-.-.......+...++.................
T Consensus 24 ~~l~~~~~~~~~~v~apaG~GKTtl~~~~~~~~~---~~~w~~l~~~d~~~~~f~~~l~~~l~~~~~~~~~~~~~~~~~~ 100 (903)
T PRK04841 24 AKLSGANNYRLVLVTSPAGYGKTTLISQWAAGKN---NLGWYSLDESDNQPERFASYLIAALQQATNGHCSKSEALAQKR 100 (903)
T ss_pred HHHhcccCCCeEEEECCCCCCHHHHHHHHHHhCC---CeEEEecCcccCCHHHHHHHHHHHHHHhcCcccchhhhhhccC
Q ss_pred CCCceEEEeChHHHHHHHhhCCCCCCCceEEEcCCCcCCCchhHHHHHHHHHHh-hCCCccEEEEcCCCCHHHHHhhhcC
Q 001046 611 GPDTVIKYMTDGMLLREILIDDNLSQYSVIMLDEAHERTIHTDVLFGLLKQLVK-RRPDLRLIVTSATLDAEKFSGYFFN 689 (1176)
Q Consensus 611 ~~~t~I~~~T~g~Llr~l~~~~~L~~~s~IIiDEaHeR~~~~d~ll~llk~~~~-~r~~~kvIlmSATl~~~~~~~~f~~ 689 (1176)
...... ..+-..+..-.....--+||||++|. ++...+...+..++. ..+.+.+|++|-+.+.-.+..+...
T Consensus 101 ~~~~~~-----~~~~~~~~~l~~~~~~~~lvlDD~h~--~~~~~~~~~l~~l~~~~~~~~~lv~~sR~~~~~~~~~l~~~ 173 (903)
T PRK04841 101 QYASLS-----SLFAQLFIELADWHQPLYLVIDDYHL--ITNPEIHEAMRFFLRHQPENLTLVVLSRNLPPLGIANLRVR 173 (903)
T ss_pred CcCCHH-----HHHHHHHHHHhcCCCCEEEEEeCcCc--CCChHHHHHHHHHHHhCCCCeEEEEEeCCCCCCchHhHHhc
Q ss_pred CCeEecC
Q 001046 690 CNIFTIP 696 (1176)
Q Consensus 690 ~~v~~i~ 696 (1176)
..+..+.
T Consensus 174 ~~~~~l~ 180 (903)
T PRK04841 174 DQLLEIG 180 (903)
T ss_pred CcceecC
Done!