Query gi|254780945|ref|YP_003065358.1| ATP-dependent DNA helicase RecG [Candidatus Liberibacter asiaticus str. psy62] Match_columns 700 No_of_seqs 269 out of 3258 Neff 6.5 Searched_HMMs 39220 Date Mon May 30 03:32:44 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780945.hhm -d /home/congqian_1/database/cdd/Cdd.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 COG1200 RecG RecG-like helicas 100.0 0 0 1842.9 62.4 660 1-671 1-663 (677) 2 PRK10917 ATP-dependent DNA hel 100.0 0 0 1836.0 65.2 659 5-675 2-661 (677) 3 TIGR00643 recG ATP-dependent D 100.0 0 0 1832.2 50.4 627 36-663 1-721 (721) 4 TIGR00580 mfd transcription-re 100.0 0 0 1068.2 31.2 412 240-664 476-899 (997) 5 PRK10689 transcription-repair 100.0 0 0 1045.4 40.2 414 240-664 568-987 (1148) 6 COG1197 Mfd Transcription-repa 100.0 0 0 981.7 35.7 415 240-665 562-982 (1139) 7 PRK05580 primosome assembly pr 100.0 1.5E-35 3.9E-40 298.4 30.3 376 268-666 164-627 (699) 8 COG1198 PriA Primosomal protei 100.0 1.1E-32 2.9E-37 275.9 30.4 393 269-683 195-682 (730) 9 PRK11192 ATP-dependent RNA hel 100.0 1.6E-26 4.1E-31 227.6 30.6 332 256-614 9-365 (417) 10 PRK01172 ski2-like helicase; P 99.9 3.2E-24 8.2E-29 209.5 27.3 319 260-599 10-378 (674) 11 PRK11776 ATP-dependent RNA hel 99.9 1.5E-23 3.9E-28 204.2 29.9 332 256-615 10-361 (459) 12 PRK11634 ATP-dependent RNA hel 99.9 7.2E-23 1.8E-27 199.0 30.7 331 257-615 13-364 (629) 13 PRK02362 ski2-like helicase; P 99.9 1E-23 2.6E-28 205.6 25.8 320 261-599 11-397 (736) 14 PRK10590 ATP-dependent RNA hel 99.9 1.7E-22 4.3E-27 196.0 30.4 320 257-599 8-352 (457) 15 PTZ00110 helicase; Provisional 99.9 3.9E-22 9.9E-27 193.2 31.0 347 262-631 193-567 (602) 16 PRK04837 ATP-dependent RNA hel 99.9 2.9E-22 7.5E-27 194.1 29.9 331 255-614 14-374 (423) 17 TIGR00595 priA primosomal prot 99.9 2.6E-23 6.6E-28 202.4 24.0 318 297-624 1-417 (524) 18 PRK00254 ski2-like helicase; P 99.9 6E-23 1.5E-27 199.5 24.9 322 260-599 10-387 (717) 19 PRK13766 Hef nuclease; Provisi 99.9 2.2E-23 5.5E-28 203.0 20.9 312 272-601 15-481 (764) 20 PRK04537 ATP-dependent RNA hel 99.9 1E-21 2.6E-26 190.0 29.3 317 257-598 16-363 (574) 21 PRK01297 ATP-dependent RNA hel 99.9 4E-22 1E-26 193.1 26.8 318 258-599 92-439 (472) 22 COG0513 SrmB Superfamily II DN 99.9 9E-21 2.3E-25 182.5 29.2 320 257-599 36-380 (513) 23 KOG0344 consensus 99.9 9.9E-25 2.5E-29 213.5 7.9 350 267-640 152-534 (593) 24 COG4098 comFA Superfamily II D 99.9 4.4E-20 1.1E-24 177.1 24.1 299 271-598 96-416 (441) 25 PRK11057 ATP-dependent DNA hel 99.9 1.6E-18 4.1E-23 164.8 29.0 309 265-599 17-343 (607) 26 COG1204 Superfamily II helicas 99.9 6.8E-19 1.7E-23 167.7 24.2 319 258-591 16-398 (766) 27 COG1111 MPH1 ERCC4-like helica 99.9 2.6E-18 6.7E-23 163.1 25.1 334 274-622 17-509 (542) 28 PRK13767 ATP-dependent helicas 99.9 4.2E-18 1.1E-22 161.6 26.0 312 265-598 26-397 (878) 29 COG1061 SSL2 DNA or RNA helica 99.9 2.5E-18 6.3E-23 163.4 24.1 294 267-592 31-383 (442) 30 COG1203 CRISPR-associated heli 99.8 1.8E-17 4.7E-22 156.6 24.2 324 260-599 183-550 (733) 31 COG1205 Distinct helicase fami 99.8 1.3E-16 3.4E-21 149.8 25.9 326 256-599 54-422 (851) 32 KOG0354 consensus 99.8 1.5E-17 3.9E-22 157.1 19.0 329 264-610 54-539 (746) 33 KOG0952 consensus 99.8 7.4E-16 1.9E-20 144.0 24.1 316 267-598 104-490 (1230) 34 TIGR03158 cas3_cyano CRISPR-as 99.8 8.2E-17 2.1E-21 151.4 18.7 283 277-584 2-357 (357) 35 KOG0331 consensus 99.8 5.5E-16 1.4E-20 145.0 21.9 336 272-630 113-482 (519) 36 pfam00270 DEAD DEAD/DEAH box h 99.8 1.8E-17 4.7E-22 156.5 13.3 151 274-435 1-164 (167) 37 PRK05298 excinuclease ABC subu 99.8 5.1E-15 1.3E-19 137.4 24.2 309 268-602 9-559 (657) 38 COG1201 Lhr Lhr-like helicases 99.7 5.4E-15 1.4E-19 137.2 23.9 319 260-597 10-360 (814) 39 KOG0335 consensus 99.7 8.6E-15 2.2E-19 135.6 23.6 330 272-616 96-461 (482) 40 KOG0350 consensus 99.7 1.4E-15 3.6E-20 141.8 18.7 332 275-616 162-554 (620) 41 COG0514 RecQ Superfamily II DN 99.7 1E-14 2.6E-19 135.0 22.9 305 272-600 17-338 (590) 42 KOG0344 consensus 99.7 8.4E-20 2.1E-24 174.9 -3.9 448 34-573 121-593 (593) 43 smart00487 DEXDc DEAD-like hel 99.7 3.2E-16 8.2E-21 146.8 13.5 155 268-431 4-171 (201) 44 cd00079 HELICc Helicase superf 99.7 2.9E-16 7.3E-21 147.2 13.1 129 457-595 1-131 (131) 45 KOG0348 consensus 99.7 6.7E-15 1.7E-19 136.5 19.0 350 258-626 144-575 (708) 46 KOG0342 consensus 99.7 8.9E-15 2.3E-19 135.5 19.3 314 261-598 92-436 (543) 47 KOG0333 consensus 99.7 4.7E-14 1.2E-18 129.8 22.4 321 259-602 254-627 (673) 48 KOG0345 consensus 99.7 1.3E-13 3.2E-18 126.4 24.2 316 260-598 15-363 (567) 49 PRK09751 putative ATP-dependen 99.7 4.1E-14 1.1E-18 130.2 21.3 278 302-596 5-382 (1490) 50 COG1202 Superfamily II helicas 99.7 1.6E-14 4.2E-19 133.4 16.9 315 262-598 205-552 (830) 51 PRK09694 hypothetical protein; 99.7 2.5E-13 6.4E-18 124.1 22.2 311 270-597 286-682 (878) 52 cd00046 DEXDc DEAD-like helica 99.6 3.1E-15 7.8E-20 139.1 11.8 131 295-430 2-144 (144) 53 COG0556 UvrB Helicase subunit 99.6 7.1E-13 1.8E-17 120.6 22.3 195 392-601 329-558 (663) 54 KOG0343 consensus 99.6 2.7E-13 6.8E-18 123.9 19.7 297 272-599 91-422 (758) 55 PRK09401 reverse gyrase; Revie 99.6 6.3E-13 1.6E-17 121.0 20.4 283 261-565 67-403 (1176) 56 PRK11664 ATP-dependent RNA hel 99.6 2.4E-12 6.1E-17 116.4 22.9 293 279-598 8-338 (812) 57 KOG0334 consensus 99.6 1.2E-11 3E-16 111.0 25.9 372 260-677 375-799 (997) 58 KOG4284 consensus 99.6 1.2E-13 3E-18 126.7 14.2 321 272-611 47-388 (980) 59 KOG0339 consensus 99.6 5.6E-12 1.4E-16 113.5 22.7 332 258-615 231-591 (731) 60 KOG0328 consensus 99.6 7.1E-13 1.8E-17 120.6 16.5 305 260-597 37-371 (400) 61 KOG0330 consensus 99.6 3.1E-12 8E-17 115.5 19.7 323 255-611 66-418 (476) 62 KOG0338 consensus 99.5 7.5E-12 1.9E-16 112.5 21.4 322 265-616 195-546 (691) 63 COG4581 Superfamily II RNA hel 99.5 1.6E-12 4.1E-17 117.8 17.6 318 262-601 109-539 (1041) 64 COG1110 Reverse gyrase [DNA re 99.5 6.4E-12 1.6E-16 113.1 20.6 281 260-566 70-412 (1187) 65 TIGR00631 uvrb excinuclease AB 99.5 6.8E-12 1.7E-16 112.9 19.8 305 270-602 7-560 (667) 66 KOG0951 consensus 99.5 1.4E-12 3.5E-17 118.3 15.3 305 277-597 306-700 (1674) 67 KOG0347 consensus 99.5 1.9E-12 4.9E-17 117.2 15.7 371 263-670 193-642 (731) 68 KOG0326 consensus 99.5 4.1E-12 1.1E-16 114.6 17.1 293 267-596 114-426 (459) 69 KOG0336 consensus 99.5 2.5E-11 6.5E-16 108.4 18.8 292 297-615 254-588 (629) 70 KOG0332 consensus 99.5 4.3E-11 1.1E-15 106.6 19.5 313 274-612 114-453 (477) 71 cd00268 DEADc DEAD-box helicas 99.5 7.7E-12 2E-16 112.4 15.5 167 256-433 5-187 (203) 72 TIGR01587 cas3_core CRISPR-ass 99.4 2.6E-12 6.7E-17 116.1 12.1 288 297-599 3-393 (424) 73 KOG0340 consensus 99.4 4.1E-10 1E-14 98.9 22.7 319 260-613 16-371 (442) 74 cd04488 RecG_wedge_OBF RecG_we 99.4 3.5E-12 8.9E-17 115.1 11.7 74 71-145 1-74 (75) 75 KOG0327 consensus 99.4 7.4E-11 1.9E-15 104.7 18.3 293 269-596 44-367 (397) 76 KOG0351 consensus 99.4 6.3E-10 1.6E-14 97.4 21.8 319 273-622 265-612 (941) 77 TIGR01054 rgy reverse gyrase; 99.3 6.3E-10 1.6E-14 97.4 19.2 281 260-561 72-436 (1843) 78 KOG0346 consensus 99.3 8.1E-10 2.1E-14 96.6 18.8 322 264-611 32-421 (569) 79 PRK11131 ATP-dependent RNA hel 99.3 5.6E-09 1.4E-13 90.0 21.8 288 282-598 80-410 (1295) 80 PRK04914 ATP-dependent helicas 99.3 2.1E-10 5.4E-15 101.1 14.4 318 272-618 151-629 (955) 81 KOG0337 consensus 99.3 5E-10 1.3E-14 98.2 16.1 315 256-596 27-365 (529) 82 KOG0950 consensus 99.3 4.2E-10 1.1E-14 98.8 14.6 314 275-599 215-611 (1008) 83 PRK11448 hsdR type I restricti 99.2 2.9E-09 7.3E-14 92.3 17.9 299 270-598 414-816 (1126) 84 KOG0341 consensus 99.2 1.7E-10 4.4E-15 101.8 10.7 284 301-611 215-540 (610) 85 KOG0352 consensus 99.2 1.8E-08 4.6E-13 86.0 20.0 313 274-632 22-383 (641) 86 pfam04851 ResIII Type III rest 99.2 1.2E-10 3.2E-15 103.0 8.6 100 271-431 2-102 (103) 87 PRK12903 secA preprotein trans 99.2 4.8E-09 1.2E-13 90.5 16.4 279 301-599 99-539 (885) 88 smart00490 HELICc helicase sup 99.2 1E-10 2.7E-15 103.6 7.9 79 507-587 4-82 (82) 89 pfam00271 Helicase_C Helicase 99.1 1.6E-10 4.1E-15 102.1 7.6 73 514-587 6-78 (78) 90 KOG0947 consensus 99.1 4.7E-08 1.2E-12 82.7 20.2 357 260-639 285-780 (1248) 91 PRK12906 secA preprotein trans 99.1 7.4E-09 1.9E-13 89.0 13.8 280 301-597 101-580 (823) 92 KOG0948 consensus 99.1 1.8E-09 4.6E-14 93.8 10.5 328 266-622 123-564 (1041) 93 PRK12326 preprotein translocas 99.1 1.6E-08 4.1E-13 86.4 15.2 287 296-599 100-558 (775) 94 PRK09200 preprotein translocas 99.1 5E-08 1.3E-12 82.5 17.4 278 301-598 99-544 (799) 95 PRK12904 preprotein translocas 99.1 2.9E-08 7.5E-13 84.3 16.2 281 301-598 102-571 (833) 96 COG1643 HrpA HrpA-like helicas 99.1 2.1E-07 5.3E-12 77.7 20.2 306 261-598 41-386 (845) 97 CHL00122 secA preprotein trans 99.0 7E-08 1.8E-12 81.4 17.3 242 301-557 97-490 (891) 98 PRK13103 secA preprotein trans 99.0 6.2E-08 1.6E-12 81.8 15.1 96 301-402 103-210 (913) 99 PRK08074 bifunctional ATP-depe 99.0 4.6E-06 1.2E-10 67.2 24.4 134 270-406 256-468 (932) 100 PRK12898 secA preprotein trans 99.0 8.8E-08 2.2E-12 80.6 15.6 280 301-598 139-600 (673) 101 TIGR00614 recQ_fam ATP-depende 98.9 3.1E-06 8E-11 68.4 22.1 317 274-617 13-364 (497) 102 PRK13104 secA preprotein trans 98.9 2.8E-07 7.2E-12 76.6 16.6 96 301-402 103-210 (896) 103 PRK12902 secA preprotein trans 98.9 1.2E-07 3.2E-12 79.4 13.9 96 301-402 106-213 (946) 104 PRK12900 secA preprotein trans 98.9 6.1E-07 1.6E-11 74.0 16.9 163 421-598 490-666 (983) 105 PRK12899 secA preprotein trans 98.8 8.6E-07 2.2E-11 72.9 15.6 79 301-385 115-193 (969) 106 TIGR01389 recQ ATP-dependent D 98.8 3E-07 7.6E-12 76.4 13.1 300 274-599 15-333 (607) 107 PRK13107 preprotein translocas 98.7 1.8E-06 4.7E-11 70.2 16.1 96 301-402 103-210 (908) 108 PRK12901 secA preprotein trans 98.7 3E-06 7.8E-11 68.5 16.2 96 301-402 192-300 (1111) 109 KOG0920 consensus 98.7 3.1E-07 8E-12 76.3 10.2 309 260-598 163-543 (924) 110 COG4096 HsdR Type I site-speci 98.6 4.8E-06 1.2E-10 67.0 15.8 295 272-585 165-524 (875) 111 KOG0922 consensus 98.6 1E-05 2.7E-10 64.3 17.0 300 267-598 48-389 (674) 112 KOG0349 consensus 98.6 1.5E-06 3.9E-11 70.9 12.1 302 314-652 279-696 (725) 113 pfam00176 SNF2_N SNF2 family N 98.6 1.8E-06 4.6E-11 70.3 12.0 145 295-445 18-171 (295) 114 PRK10917 ATP-dependent DNA hel 98.6 7.8E-07 2E-11 73.2 10.2 120 309-431 455-586 (677) 115 COG4889 Predicted helicase [Ge 98.5 2.2E-05 5.6E-10 61.8 16.7 352 269-636 158-636 (1518) 116 COG0653 SecA Preprotein transl 98.5 2E-05 5.1E-10 62.1 14.9 110 281-402 87-208 (822) 117 KOG0953 consensus 98.4 5.4E-05 1.4E-09 58.8 16.2 276 266-587 158-462 (700) 118 PRK07246 bifunctional ATP-depe 98.4 0.00044 1.1E-08 51.6 23.4 137 268-407 241-449 (820) 119 COG1200 RecG RecG-like helicas 98.4 3.4E-06 8.6E-11 68.2 9.2 116 313-431 465-592 (677) 120 KOG0385 consensus 98.4 0.00033 8.5E-09 52.5 19.3 361 273-643 168-659 (971) 121 pfam07517 SecA_DEAD SecA DEAD- 98.3 3E-06 7.8E-11 68.5 7.7 102 295-402 92-205 (381) 122 PRK13480 3'-5' exoribonuclease 98.2 3.8E-05 9.6E-10 60.0 12.0 88 59-147 3-91 (314) 123 KOG0387 consensus 98.2 1.6E-05 4.1E-10 62.9 9.6 318 275-603 208-663 (923) 124 TIGR00643 recG ATP-dependent D 98.2 1.1E-05 2.9E-10 64.1 8.8 122 471-600 345-473 (721) 125 KOG0353 consensus 98.2 0.00044 1.1E-08 51.6 16.7 366 275-669 97-556 (695) 126 KOG0329 consensus 98.2 1.7E-05 4.2E-10 62.8 9.4 282 270-625 61-375 (387) 127 pfam01336 tRNA_anti OB-fold nu 98.2 3.6E-05 9.2E-10 60.1 10.3 73 70-145 1-74 (75) 128 PRK11747 dinG ATP-dependent DN 98.1 9.5E-05 2.4E-09 56.8 12.0 84 468-563 520-607 (697) 129 KOG0951 consensus 98.1 0.0013 3.2E-08 48.0 17.1 280 295-599 1161-1494(1674) 130 TIGR01970 DEAH_box_HrpB ATP-de 98.1 0.00031 7.9E-09 52.8 13.9 322 281-648 7-386 (858) 131 pfam07652 Flavi_DEAD Flaviviru 98.0 5.9E-05 1.5E-09 58.5 8.6 119 297-430 6-134 (146) 132 PRK10689 transcription-repair 97.9 0.00012 3E-09 56.1 9.6 107 467-581 634-744 (1148) 133 KOG0924 consensus 97.9 0.0021 5.4E-08 46.3 16.0 271 296-598 374-696 (1042) 134 TIGR00963 secA preprotein tran 97.9 5E-05 1.3E-09 59.0 7.4 138 297-451 72-253 (904) 135 KOG0923 consensus 97.9 0.00087 2.2E-08 49.3 13.5 346 296-674 283-674 (902) 136 TIGR01054 rgy reverse gyrase; 97.9 2.7E-05 6.9E-10 61.1 5.6 308 256-579 309-685 (1843) 137 KOG0390 consensus 97.9 0.0046 1.2E-07 43.6 22.2 330 270-607 236-716 (776) 138 TIGR01407 dinG_rel DnaQ family 97.8 0.00058 1.5E-08 50.6 11.2 155 253-407 229-475 (944) 139 COG0610 Type I site-specific r 97.7 0.0072 1.8E-07 42.1 21.1 330 276-615 252-667 (962) 140 PRK12366 replication factor A; 97.7 0.00068 1.7E-08 50.1 9.9 99 43-142 48-155 (649) 141 PRK07373 DNA polymerase III su 97.7 0.001 2.6E-08 48.8 10.5 93 424-526 247-342 (447) 142 KOG0389 consensus 97.7 0.00042 1.1E-08 51.8 8.6 330 270-608 397-897 (941) 143 COG1197 Mfd Transcription-repa 97.6 0.00069 1.8E-08 50.1 9.2 120 466-600 627-753 (1139) 144 smart00489 DEXDc3 DEAD-like he 97.6 0.002 5.2E-08 46.4 11.6 76 268-345 4-85 (289) 145 smart00488 DEXDc2 DEAD-like he 97.6 0.002 5.2E-08 46.4 11.6 76 268-345 4-85 (289) 146 PRK07279 dnaE DNA polymerase I 97.6 0.0016 4E-08 47.3 10.8 61 508-579 696-758 (1033) 147 PRK07012 consensus 97.6 0.0014 3.6E-08 47.6 10.5 67 508-580 767-843 (1173) 148 PRK05580 primosome assembly pr 97.6 0.0004 1E-08 51.9 7.6 72 327-401 455-528 (699) 149 KOG0925 consensus 97.6 0.0081 2.1E-07 41.7 14.3 278 288-599 59-387 (699) 150 PRK07374 dnaE DNA polymerase I 97.6 0.0014 3.7E-08 47.6 10.3 81 508-594 775-867 (1171) 151 TIGR00580 mfd transcription-re 97.6 0.00051 1.3E-08 51.1 7.9 117 469-600 544-671 (997) 152 PRK07892 consensus 97.5 0.003 7.7E-08 45.0 11.3 83 508-596 794-888 (1180) 153 PRK06826 dnaE DNA polymerase I 97.5 0.0072 1.8E-07 42.1 13.1 82 508-595 769-862 (1157) 154 PRK05673 dnaE DNA polymerase I 97.4 0.0072 1.8E-07 42.1 12.6 67 508-580 763-832 (1143) 155 PRK05672 dnaE2 error-prone DNA 97.4 0.0036 9.1E-08 44.5 10.6 106 508-620 751-872 (1050) 156 PRK06658 consensus 97.3 0.0061 1.5E-07 42.7 10.9 127 508-640 762-919 (1145) 157 TIGR03117 cas_csf4 CRISPR-asso 97.3 0.0046 1.2E-07 43.6 10.0 165 469-668 456-634 (636) 158 PRK09401 reverse gyrase; Revie 97.3 0.00075 1.9E-08 49.8 6.0 106 258-385 280-385 (1176) 159 KOG1803 consensus 97.2 0.022 5.6E-07 38.3 13.1 68 262-334 175-242 (649) 160 COG1110 Reverse gyrase [DNA re 97.2 0.0012 3.1E-08 48.1 6.3 370 258-679 289-753 (1187) 161 pfam09848 DUF2075 Uncharacteri 97.2 0.0013 3.4E-08 47.8 6.5 85 296-406 4-91 (348) 162 COG1198 PriA Primosomal protei 97.2 0.0021 5.4E-08 46.2 7.5 111 332-445 491-618 (730) 163 PRK09074 consensus 97.2 0.0076 1.9E-07 41.9 10.3 134 508-648 771-935 (1149) 164 PRK06637 consensus 97.2 0.011 2.8E-07 40.6 11.0 39 508-546 771-812 (1182) 165 PRK06920 dnaE DNA polymerase I 97.2 0.0069 1.8E-07 42.2 9.9 68 508-581 742-812 (1107) 166 PRK07211 replication factor A; 97.2 0.0042 1.1E-07 43.9 8.7 91 54-144 49-148 (473) 167 cd04492 YhaM_OBF_like YhaM_OBF 97.1 0.0069 1.8E-07 42.2 9.2 70 78-148 8-78 (83) 168 PRK08957 consensus 97.1 0.0078 2E-07 41.8 9.3 68 508-581 772-843 (1159) 169 PRK06461 single-stranded DNA-b 97.0 0.0081 2.1E-07 41.7 9.3 103 57-163 3-119 (130) 170 cd04485 DnaE_OBF DnaE_OBF: A s 97.0 0.01 2.6E-07 40.9 9.5 72 71-142 1-73 (84) 171 PRK06326 consensus 97.0 0.025 6.3E-07 37.9 11.3 81 508-594 810-902 (1240) 172 cd00079 HELICc Helicase superf 97.0 0.0059 1.5E-07 42.8 8.0 85 315-404 22-106 (131) 173 TIGR00348 hsdR type I site-spe 96.9 0.0036 9.1E-08 44.5 6.8 194 240-446 268-506 (813) 174 KOG0384 consensus 96.9 0.042 1.1E-06 36.1 11.9 324 272-606 370-819 (1373) 175 PRK11192 ATP-dependent RNA hel 96.9 0.0052 1.3E-07 43.2 7.1 87 309-400 235-321 (417) 176 PRK09183 transposase/IS protei 96.9 0.0041 1E-07 44.0 6.6 129 193-335 11-143 (258) 177 PRK08181 transposase; Validate 96.9 0.014 3.4E-07 39.9 9.1 131 192-335 14-148 (269) 178 KOG0386 consensus 96.8 0.0039 1E-07 44.1 6.3 291 295-599 415-839 (1157) 179 PRK04537 ATP-dependent RNA hel 96.8 0.011 2.9E-07 40.5 8.4 78 318-400 254-331 (574) 180 PRK04837 ATP-dependent RNA hel 96.8 0.0089 2.3E-07 41.4 7.7 77 319-400 254-330 (423) 181 smart00490 HELICc helicase sup 96.7 0.0028 7.1E-08 45.3 4.9 63 340-403 2-64 (82) 182 PRK10590 ATP-dependent RNA hel 96.7 0.015 3.7E-07 39.7 8.2 84 312-400 236-319 (457) 183 pfam00271 Helicase_C Helicase 96.6 0.0046 1.2E-07 43.6 5.3 59 344-403 2-60 (78) 184 PRK06526 transposase; Provisio 96.6 0.031 8E-07 37.1 9.5 130 192-335 7-140 (254) 185 PRK08116 hypothetical protein; 96.6 0.0067 1.7E-07 42.3 6.1 65 271-335 81-150 (262) 186 PRK11634 ATP-dependent RNA hel 96.6 0.011 2.9E-07 40.5 7.2 98 308-411 233-338 (629) 187 cd04478 RPA2_DBD_D RPA2_DBD_D: 96.5 0.027 6.9E-07 37.6 8.8 69 70-142 2-73 (95) 188 COG1199 DinG Rad3-related DNA 96.5 0.012 2.9E-07 40.5 6.7 170 420-601 403-619 (654) 189 PRK05298 excinuclease ABC subu 96.5 0.016 4E-07 39.4 7.4 89 314-407 439-527 (657) 190 cd00009 AAA The AAA+ (ATPases 96.5 0.014 3.5E-07 39.9 7.0 54 276-329 2-55 (151) 191 PRK08512 consensus 96.4 0.047 1.2E-06 35.7 9.5 81 508-594 788-883 (1185) 192 KOG1123 consensus 96.4 0.014 3.6E-07 39.8 6.8 339 273-662 303-707 (776) 193 PTZ00110 helicase; Provisional 96.4 0.031 7.9E-07 37.1 8.6 68 409-492 297-370 (602) 194 cd03524 RPA2_OBF_family RPA2_O 96.4 0.052 1.3E-06 35.4 9.6 68 72-140 2-70 (75) 195 PRK08533 flagellar accessory p 96.4 0.0082 2.1E-07 41.6 5.4 48 282-329 11-60 (230) 196 cd04489 ExoVII_LU_OBF ExoVII_L 96.4 0.031 7.8E-07 37.1 8.3 70 70-142 2-73 (78) 197 pfam02562 PhoH PhoH-like prote 96.4 0.12 3.1E-06 32.5 12.6 139 272-426 4-152 (205) 198 PRK11776 ATP-dependent RNA hel 96.4 0.036 9.2E-07 36.6 8.5 95 312-411 233-335 (459) 199 COG1107 Archaea-specific RecJ- 96.3 0.084 2.1E-06 33.7 10.3 103 56-182 203-307 (715) 200 KOG0392 consensus 96.3 0.13 3.2E-06 32.3 14.9 311 290-611 991-1469(1549) 201 PRK00286 xseA exodeoxyribonucl 96.3 0.044 1.1E-06 35.9 8.8 160 37-210 4-189 (443) 202 PRK01216 DNA polymerase IV; Va 96.3 0.0028 7E-08 45.4 2.6 65 279-357 123-187 (351) 203 PRK00448 polC DNA polymerase I 96.2 0.12 3E-06 32.6 10.6 86 54-139 220-311 (1436) 204 cd04484 polC_OBF polC_OBF: A s 96.2 0.083 2.1E-06 33.8 9.8 66 69-134 1-68 (82) 205 KOG0949 consensus 96.2 0.013 3.3E-07 40.1 5.6 81 517-597 964-1046(1330) 206 COG1570 XseA Exonuclease VII, 96.2 0.045 1.2E-06 35.8 8.3 73 68-143 24-98 (440) 207 PRK08744 consensus 96.2 0.09 2.3E-06 33.5 9.8 127 508-640 787-945 (1195) 208 COG0513 SrmB Superfamily II DN 96.2 0.035 9E-07 36.7 7.7 72 323-399 275-346 (513) 209 smart00382 AAA ATPases associa 96.2 0.03 7.6E-07 37.2 7.3 117 295-436 4-135 (148) 210 PRK07211 replication factor A; 96.1 0.059 1.5E-06 34.9 8.7 107 58-165 162-279 (473) 211 COG0553 HepA Superfamily II DN 96.1 0.0062 1.6E-07 42.6 3.6 317 271-594 337-815 (866) 212 cd04474 RPA1_DBD_A RPA1_DBD_A: 96.1 0.045 1.1E-06 35.8 7.8 84 60-144 1-93 (104) 213 cd04491 SoSSB_OBF SoSSB_OBF: A 96.1 0.059 1.5E-06 34.9 8.4 67 71-140 1-73 (82) 214 COG0556 UvrB Helicase subunit 96.0 0.039 1E-06 36.3 7.3 127 270-407 398-527 (663) 215 PRK12366 replication factor A; 96.0 0.097 2.5E-06 33.2 9.1 87 57-146 174-267 (649) 216 PRK07952 DNA replication prote 96.0 0.038 9.8E-07 36.4 7.0 97 272-410 73-172 (242) 217 cd01700 Pol_V Pol V was discov 95.9 0.0062 1.6E-07 42.6 2.8 18 276-293 137-154 (344) 218 COG4098 comFA Superfamily II D 95.9 0.048 1.2E-06 35.6 7.4 93 317-416 301-393 (441) 219 PRK01297 ATP-dependent RNA hel 95.9 0.025 6.3E-07 37.9 5.9 75 321-400 332-406 (472) 220 TIGR01448 recD_rel helicase, R 95.9 0.059 1.5E-06 34.9 7.8 116 261-410 339-468 (769) 221 PRK03348 DNA polymerase IV; Pr 95.9 0.0057 1.5E-07 42.9 2.5 17 518-534 336-352 (456) 222 KOG1000 consensus 95.9 0.054 1.4E-06 35.2 7.5 326 267-617 198-626 (689) 223 PRK02406 DNA polymerase IV; Va 95.8 0.0068 1.7E-07 42.3 2.8 40 301-352 145-184 (355) 224 KOG1802 consensus 95.8 0.036 9.1E-07 36.6 6.4 80 268-358 407-487 (935) 225 cd04483 hOBFC1_like hOBFC1_lik 95.8 0.11 2.8E-06 32.8 8.9 67 72-142 2-88 (92) 226 cd01701 Pol_zeta Pol_zeta, a m 95.8 0.0064 1.6E-07 42.5 2.5 15 403-417 261-275 (405) 227 PRK06835 DNA replication prote 95.7 0.042 1.1E-06 36.1 6.3 48 287-335 178-225 (330) 228 PRK06921 hypothetical protein; 95.7 0.061 1.6E-06 34.8 7.1 53 283-335 103-159 (265) 229 COG3267 ExeA Type II secretory 95.6 0.027 6.9E-07 37.6 5.2 54 273-329 32-86 (269) 230 KOG4150 consensus 95.6 0.088 2.2E-06 33.6 7.8 286 302-598 310-639 (1034) 231 TIGR02621 cas3_GSU0051 CRISPR- 95.6 0.013 3.4E-07 40.0 3.6 282 302-597 41-432 (975) 232 PRK04036 DNA polymerase II sma 95.6 0.18 4.5E-06 31.2 9.3 103 38-143 106-224 (497) 233 TIGR00631 uvrb excinuclease AB 95.6 0.019 4.9E-07 38.7 4.3 81 314-399 440-520 (667) 234 cd01124 KaiC KaiC is a circadi 95.6 0.052 1.3E-06 35.4 6.5 48 296-344 2-49 (187) 235 KOG1805 consensus 95.5 0.26 6.6E-06 29.9 10.9 51 92-144 127-184 (1100) 236 COG5235 RFA2 Single-stranded D 95.5 0.083 2.1E-06 33.8 7.4 72 68-144 67-141 (258) 237 PRK03103 DNA polymerase IV; Re 95.5 0.011 2.8E-07 40.6 2.8 15 574-588 372-386 (410) 238 PRK00440 rfc replication facto 95.5 0.19 4.9E-06 30.9 9.1 204 276-541 20-241 (318) 239 COG2176 PolC DNA polymerase II 95.5 0.27 6.8E-06 29.8 9.8 94 49-142 220-319 (1444) 240 PRK02794 DNA polymerase IV; Pr 95.5 0.011 2.8E-07 40.6 2.7 14 341-354 202-215 (417) 241 TIGR00150 TIGR00150 conserved 95.5 0.031 8E-07 37.1 5.0 60 274-336 6-68 (147) 242 PRK13767 ATP-dependent helicas 95.4 0.14 3.6E-06 32.0 8.3 87 313-400 276-364 (878) 243 TIGR00617 rpa1 replication fac 95.4 0.045 1.1E-06 35.9 5.7 120 49-171 205-333 (671) 244 pfam01695 IstB IstB-like ATP b 95.4 0.034 8.6E-07 36.8 4.9 61 272-335 29-89 (178) 245 PRK08939 primosomal protein Dn 95.3 0.17 4.4E-06 31.2 8.5 71 271-346 130-205 (306) 246 PRK03352 DNA polymerase IV; Va 95.3 0.014 3.5E-07 39.9 2.8 17 403-419 213-231 (345) 247 cd04490 PolII_SU_OBF PolII_SU_ 95.3 0.19 4.8E-06 31.0 8.6 71 69-142 1-76 (79) 248 KOG0333 consensus 95.3 0.081 2.1E-06 33.8 6.6 89 322-411 493-610 (673) 249 PRK03858 DNA polymerase IV; Va 95.2 0.014 3.6E-07 39.8 2.6 12 576-587 367-378 (398) 250 PRK11773 uvrD DNA-dependent he 95.1 0.099 2.5E-06 33.2 6.6 49 605-660 595-645 (722) 251 PRK12377 putative replication 95.0 0.11 2.9E-06 32.7 6.7 62 273-335 79-143 (248) 252 COG4085 Predicted RNA-binding 95.0 0.29 7.5E-06 29.4 8.7 73 65-139 49-126 (204) 253 COG1061 SSL2 DNA or RNA helica 94.9 0.096 2.4E-06 33.3 6.2 76 320-401 282-357 (442) 254 PRK13342 recombination factor 94.9 0.13 3.4E-06 32.1 6.9 108 276-429 17-127 (417) 255 KOG0391 consensus 94.8 0.22 5.6E-06 30.4 7.8 120 515-636 1300-1429(1958) 256 cd03586 Pol_IV_kappa Pol_IV_ka 94.8 0.023 5.9E-07 38.1 2.8 11 341-351 165-175 (337) 257 TIGR03015 pepcterm_ATPase puta 94.8 0.081 2.1E-06 33.8 5.5 177 272-482 23-208 (269) 258 pfam03796 DnaB_C DnaB-like hel 94.8 0.096 2.5E-06 33.2 5.9 84 280-367 8-92 (186) 259 COG1484 DnaC DNA replication p 94.7 0.17 4.4E-06 31.3 6.9 61 272-334 86-146 (254) 260 pfam04466 Terminase_3 Phage te 94.6 0.44 1.1E-05 28.0 9.0 131 295-433 4-141 (387) 261 pfam00580 UvrD-helicase UvrD/R 94.6 0.1 2.6E-06 33.0 5.7 21 395-415 213-233 (494) 262 COG3587 Restriction endonuclea 94.6 0.053 1.4E-06 35.3 4.2 15 430-444 593-607 (985) 263 PRK09361 radB DNA repair and r 94.6 0.24 6.2E-06 30.1 7.5 48 283-331 11-60 (224) 264 cd01702 Pol_eta Pol eta is mem 94.5 0.029 7.4E-07 37.3 2.8 18 340-357 174-191 (358) 265 PRK00652 lpxK tetraacyldisacch 94.5 0.47 1.2E-05 27.8 11.0 205 303-549 61-291 (334) 266 COG3973 Superfamily I DNA and 94.4 0.085 2.2E-06 33.7 4.9 368 282-669 218-653 (747) 267 PRK03609 umuC DNA polymerase V 94.3 0.026 6.6E-07 37.7 2.1 10 507-516 377-386 (422) 268 PRK12727 flagellar biosynthesi 94.3 0.52 1.3E-05 27.5 13.9 223 255-513 302-543 (557) 269 PRK07135 dnaE DNA polymerase I 94.3 0.53 1.3E-05 27.4 9.0 66 508-579 695-763 (987) 270 KOG3108 consensus 94.3 0.39 1E-05 28.5 8.0 88 69-161 70-161 (265) 271 COG0587 DnaE DNA polymerase II 94.3 0.53 1.4E-05 27.4 9.3 129 508-642 762-919 (1139) 272 PRK07217 replication factor A; 94.3 0.53 1.4E-05 27.4 8.9 82 54-139 67-150 (311) 273 cd00424 Pol_Y Y-family of DNA 94.2 0.037 9.4E-07 36.5 2.7 19 403-421 210-229 (341) 274 PRK06067 flagellar accessory p 94.1 0.095 2.4E-06 33.3 4.6 57 283-340 20-78 (241) 275 TIGR00595 priA primosomal prot 94.0 0.26 6.5E-06 29.9 6.6 126 323-451 273-416 (524) 276 PRK09694 hypothetical protein; 93.9 0.53 1.4E-05 27.4 8.1 99 311-413 551-664 (878) 277 PRK08402 replication factor A; 93.8 0.49 1.2E-05 27.7 7.8 108 16-138 34-153 (357) 278 TIGR03117 cas_csf4 CRISPR-asso 93.7 0.66 1.7E-05 26.7 8.8 80 277-358 2-86 (636) 279 smart00487 DEXDc DEAD-like hel 93.6 0.69 1.8E-05 26.6 10.3 115 474-600 44-171 (201) 280 PRK06386 replication factor A; 93.3 0.76 1.9E-05 26.2 8.9 77 58-139 2-84 (358) 281 PRK00484 lysS lysyl-tRNA synth 93.3 0.77 2E-05 26.2 12.6 97 46-147 23-134 (491) 282 COG5271 MDN1 AAA ATPase contai 93.2 0.7 1.8E-05 26.5 7.7 37 271-309 1830-1866(4600) 283 PRK04328 hypothetical protein; 93.2 0.19 4.9E-06 30.9 4.9 54 289-343 18-73 (250) 284 pfam00270 DEAD DEAD/DEAH box h 93.1 0.45 1.2E-05 28.0 6.7 80 481-572 44-132 (167) 285 PRK05159 aspC aspartyl-tRNA sy 93.0 0.83 2.1E-05 25.9 10.6 86 57-147 6-99 (434) 286 COG1444 Predicted P-loop ATPas 93.0 0.6 1.5E-05 27.0 7.2 272 272-589 211-513 (758) 287 pfam03354 Terminase_1 Phage Te 92.9 0.27 6.9E-06 29.8 5.3 140 297-440 26-174 (473) 288 TIGR02928 TIGR02928 orc1/cdc6 92.9 0.2 5.2E-06 30.7 4.7 143 275-448 23-182 (383) 289 PRK11057 ATP-dependent DNA hel 92.9 0.87 2.2E-05 25.7 11.0 76 319-399 234-309 (607) 290 cd01122 GP4d_helicase GP4d_hel 92.9 0.55 1.4E-05 27.3 6.8 62 281-345 20-82 (271) 291 COG0389 DinP Nucleotidyltransf 92.8 0.073 1.9E-06 34.2 2.2 69 267-346 155-223 (354) 292 KOG0388 consensus 92.7 0.88 2.2E-05 25.7 7.7 155 272-437 567-740 (1185) 293 cd00268 DEADc DEAD-box helicas 92.7 0.68 1.7E-05 26.6 7.1 111 480-603 67-187 (203) 294 pfam05970 DUF889 PIF1 helicase 92.7 0.13 3.2E-06 32.3 3.3 19 89-107 74-92 (418) 295 PRK06731 flhF flagellar biosyn 92.6 0.93 2.4E-05 25.5 7.8 185 291-509 73-265 (270) 296 COG0017 AsnS Aspartyl/asparagi 92.5 0.97 2.5E-05 25.4 10.3 84 60-147 9-98 (435) 297 PRK08074 bifunctional ATP-depe 92.4 0.99 2.5E-05 25.3 8.3 85 469-562 742-829 (932) 298 cd04487 RecJ_OBF2_like RecJ_OB 92.3 1 2.6E-05 25.2 7.6 67 70-142 1-69 (73) 299 pfam03237 Terminase_6 Terminas 92.2 1 2.6E-05 25.2 7.7 136 297-440 1-144 (380) 300 cd04497 hPOT1_OB1_like hPOT1_O 92.2 1 2.7E-05 25.1 9.2 83 58-141 3-94 (138) 301 PRK00476 aspS aspartyl-tRNA sy 92.2 1 2.7E-05 25.1 10.7 69 58-131 8-79 (587) 302 COG0378 HypB Ni2+-binding GTPa 92.1 1.1 2.7E-05 25.0 9.3 171 291-479 10-200 (202) 303 TIGR02237 recomb_radB DNA repa 92.1 0.16 4.2E-06 31.4 3.3 47 298-348 17-64 (223) 304 PRK05898 dnaE DNA polymerase I 92.1 1.1 2.7E-05 25.0 8.9 82 508-596 690-785 (971) 305 TIGR01405 polC_Gram_pos DNA po 92.0 1.1 2.8E-05 25.0 9.3 78 65-143 5-91 (1264) 306 COG4626 Phage terminase-like p 92.0 0.46 1.2E-05 28.0 5.5 134 267-415 56-204 (546) 307 PRK10919 ATP-dependent DNA hel 91.9 0.54 1.4E-05 27.4 5.8 75 569-653 550-637 (672) 308 TIGR02903 spore_lon_C ATP-depe 91.9 0.24 6.2E-06 30.1 4.0 47 270-316 153-199 (616) 309 PRK08840 replicative DNA helic 91.9 0.84 2.1E-05 25.9 6.8 73 296-370 220-293 (464) 310 pfam11731 Cdd1 Pathogenicity l 91.8 0.12 3.2E-06 32.4 2.5 39 11-55 12-50 (92) 311 pfam05707 Zot Zonular occluden 91.8 0.24 6.2E-06 30.1 3.9 35 294-328 1-36 (183) 312 PRK10536 hypothetical protein; 91.8 0.36 9.2E-06 28.8 4.8 142 271-426 58-209 (262) 313 pfam05496 RuvB_N Holliday junc 91.8 1.2 3E-05 24.7 7.7 20 397-416 104-123 (234) 314 cd01120 RecA-like_NTPases RecA 91.7 0.72 1.8E-05 26.4 6.3 46 296-342 2-47 (165) 315 PRK04195 replication factor C 91.6 1.2 3E-05 24.7 8.3 17 296-312 43-59 (403) 316 TIGR02236 recomb_radA DNA repa 91.6 0.11 2.8E-06 32.7 2.0 101 12-121 1-120 (333) 317 PRK02983 lysS lysyl-tRNA synth 91.5 1.2 3.2E-05 24.5 12.0 117 21-148 618-740 (1099) 318 pfam04076 BOF Bacterial OB fol 91.3 1.3 3.3E-05 24.4 7.5 73 59-145 49-121 (126) 319 COG3743 Uncharacterized conser 91.2 0.17 4.4E-06 31.3 2.7 29 11-45 67-95 (133) 320 smart00483 POLXc DNA polymeras 91.2 0.19 4.9E-06 30.9 2.9 10 372-381 179-188 (334) 321 PRK10416 cell division protein 91.0 1.4 3.5E-05 24.2 7.1 170 288-489 290-474 (499) 322 COG0467 RAD55 RecA-superfamily 90.7 0.51 1.3E-05 27.6 4.7 59 281-343 12-72 (260) 323 KOG0952 consensus 90.7 0.28 7.2E-06 29.6 3.3 31 354-384 401-431 (1230) 324 COG1203 CRISPR-associated heli 90.6 1 2.6E-05 25.3 6.2 95 314-415 433-538 (733) 325 pfam06745 KaiC KaiC. This fami 90.6 0.5 1.3E-05 27.6 4.6 56 288-344 12-70 (231) 326 KOG0921 consensus 90.5 0.066 1.7E-06 34.6 -0.1 332 263-636 371-813 (1282) 327 PTZ00205 DNA polymerase kappa; 90.5 0.22 5.7E-06 30.4 2.7 18 164-181 54-71 (571) 328 TIGR02782 TrbB_P P-type conjug 90.4 0.32 8.2E-06 29.2 3.5 39 272-315 123-161 (315) 329 pfam10391 DNA_pol_lambd_f Fing 90.4 0.25 6.5E-06 29.9 2.9 28 13-46 4-31 (52) 330 PRK08506 replicative DNA helic 90.3 1.5 3.9E-05 23.8 7.1 73 297-371 197-269 (473) 331 TIGR02538 type_IV_pilB type IV 90.3 0.28 7E-06 29.7 3.0 133 169-319 193-351 (577) 332 cd03769 SR_IS607_transposase_l 90.2 1.6 4.1E-05 23.7 8.2 93 275-371 17-112 (134) 333 cd00141 NT_POLXc Nucleotidyltr 90.1 0.27 6.9E-06 29.7 2.9 29 602-631 254-282 (307) 334 cd01394 radB RadB. The archaea 90.1 1.6 4.1E-05 23.6 8.5 49 282-331 6-56 (218) 335 PRK12278 50S ribosomal protein 89.8 0.27 6.8E-06 29.8 2.6 29 165-193 160-188 (216) 336 cd04317 EcAspRS_like_N EcAspRS 89.7 1.7 4.4E-05 23.4 10.9 65 62-131 9-76 (135) 337 PRK06995 flhF flagellar biosyn 89.5 1.8 4.5E-05 23.3 13.7 244 258-538 131-391 (404) 338 PRK00076 recR recombination pr 89.5 0.17 4.4E-06 31.3 1.5 29 1-29 1-29 (197) 339 pfam02367 UPF0079 Uncharacteri 89.4 0.35 8.9E-06 28.9 3.0 51 282-337 6-56 (123) 340 PHA00012 assembly protein 89.3 0.85 2.2E-05 25.8 4.9 82 296-403 4-90 (361) 341 pfam06431 Polyoma_lg_T_C Polyo 89.2 1.9 4.8E-05 23.2 7.0 109 223-334 81-194 (417) 342 PRK12445 lysyl-tRNA synthetase 89.2 1.9 4.8E-05 23.1 11.9 97 47-147 35-147 (505) 343 KOG1808 consensus 89.1 0.74 1.9E-05 26.3 4.5 40 271-312 419-459 (1856) 344 PRK07218 replication factor A; 89.0 1.9 4.9E-05 23.0 8.4 84 50-139 46-141 (430) 345 pfam11798 IMS_HHH IMS family H 88.9 0.25 6.5E-06 30.0 2.0 26 3-30 6-31 (33) 346 PRK12726 flagellar biosynthesi 88.6 1.7 4.4E-05 23.4 6.1 162 296-490 209-377 (407) 347 PRK10867 signal recognition pa 88.5 2 5.2E-05 22.8 9.5 217 288-541 95-327 (453) 348 COG0802 Predicted ATPase or ki 88.5 0.47 1.2E-05 27.9 3.1 57 276-337 9-66 (149) 349 PRK13889 conjugal transfer rel 88.4 1.6 4.1E-05 23.7 5.8 140 269-413 343-508 (992) 350 pfam00158 Sigma54_activat Sigm 88.4 0.55 1.4E-05 27.3 3.4 23 291-313 20-42 (168) 351 PRK08769 DNA polymerase III su 88.4 0.91 2.3E-05 25.6 4.5 50 272-321 4-54 (319) 352 PRK00313 lpxK tetraacyldisacch 88.3 2.1 5.4E-05 22.7 6.5 120 303-430 63-204 (332) 353 TIGR00603 rad25 DNA repair hel 88.3 0.74 1.9E-05 26.3 4.0 329 273-666 270-688 (756) 354 PRK03932 asnC asparaginyl-tRNA 88.3 2.1 5.4E-05 22.7 11.6 77 66-146 16-99 (462) 355 PRK04301 radA DNA repair and r 88.2 0.35 8.9E-06 28.9 2.3 142 11-175 7-158 (318) 356 cd04316 ND_PkAspRS_like_N ND_P 88.1 2.2 5.5E-05 22.6 10.9 83 61-148 6-96 (108) 357 PRK08903 hypothetical protein; 88.0 1.5 3.9E-05 23.8 5.5 116 279-450 27-148 (227) 358 pfam04994 TfoX_C TfoX C-termin 88.0 0.46 1.2E-05 27.9 2.8 31 13-49 1-31 (77) 359 COG3390 Uncharacterized protei 88.0 2.2 5.6E-05 22.6 7.9 75 68-144 46-127 (196) 360 pfam00154 RecA recA bacterial 88.0 2.2 5.7E-05 22.6 7.6 82 290-379 47-134 (322) 361 cd04496 SSB_OBF SSB_OBF: A sub 87.7 2.3 5.8E-05 22.5 7.2 38 96-133 41-78 (100) 362 KOG0949 consensus 87.7 0.6 1.5E-05 27.0 3.3 153 271-435 510-676 (1330) 363 PRK10646 putative ATPase; Prov 87.5 0.37 9.4E-06 28.7 2.1 42 293-337 28-69 (153) 364 COG2247 LytB Putative cell wal 87.4 1.2 3.1E-05 24.6 4.7 67 500-573 112-186 (337) 365 KOG2383 consensus 87.3 0.42 1.1E-05 28.2 2.3 42 290-343 111-154 (467) 366 PRK08006 replicative DNA helic 87.2 2.4 6.2E-05 22.3 7.4 71 297-369 228-299 (471) 367 PRK09302 circadian clock prote 87.2 0.81 2.1E-05 26.0 3.7 36 294-329 267-302 (501) 368 PRK13341 recombination factor 87.2 2.2 5.6E-05 22.6 5.9 152 1-181 22-183 (726) 369 cd04482 RPA2_OBF_like RPA2_OBF 87.1 2.5 6.3E-05 22.2 9.7 61 71-133 2-64 (91) 370 pfam03969 AFG1_ATPase AFG1-lik 87.0 2 5.1E-05 22.9 5.6 43 293-346 61-103 (361) 371 COG0541 Ffh Signal recognition 86.9 2.5 6.5E-05 22.1 9.5 122 288-429 95-223 (451) 372 PRK08609 hypothetical protein; 86.7 0.65 1.6E-05 26.8 3.0 30 12-46 89-118 (570) 373 PRK05703 flhF flagellar biosyn 86.7 2.6 6.6E-05 22.0 15.2 159 297-489 214-379 (412) 374 PRK13844 recombination protein 86.6 0.32 8.1E-06 29.2 1.4 29 1-29 5-33 (200) 375 COG1571 Predicted DNA-binding 86.5 2.6 6.7E-05 22.0 6.9 104 15-133 217-332 (421) 376 TIGR00455 apsK adenylylsulfate 86.5 0.59 1.5E-05 27.1 2.6 104 296-492 22-130 (187) 377 TIGR02759 TraD_Ftype type IV c 86.4 0.78 2E-05 26.1 3.3 37 295-332 210-246 (613) 378 COG2874 FlaH Predicted ATPases 86.4 1.6 4E-05 23.8 4.8 50 282-332 15-66 (235) 379 pfam10236 DAP3 Mitochondrial r 86.4 1.3 3.3E-05 24.4 4.4 38 291-329 21-58 (274) 380 PRK11608 pspF phage shock prot 86.3 0.84 2.1E-05 25.9 3.4 33 279-313 17-49 (325) 381 PRK10875 recD exonuclease V su 86.3 2 5E-05 23.0 5.3 88 255-349 128-222 (607) 382 KOG0987 consensus 86.3 1.8 4.7E-05 23.2 5.1 72 262-334 107-178 (540) 383 PRK06696 uridine kinase; Valid 85.8 2.1 5.2E-05 22.8 5.2 60 277-336 7-75 (227) 384 PRK06893 DNA replication initi 85.8 2.8 7.3E-05 21.7 9.0 34 296-329 42-75 (229) 385 pfam02606 LpxK Tetraacyldisacc 85.7 0.46 1.2E-05 27.9 1.8 204 303-548 47-279 (318) 386 PRK06904 replicative DNA helic 85.6 2.7 6.8E-05 21.9 5.7 70 297-369 225-297 (472) 387 PRK05022 anaerobic nitric oxid 85.6 0.62 1.6E-05 26.9 2.4 38 276-313 190-229 (510) 388 PRK12820 bifunctional aspartyl 85.4 3 7.5E-05 21.6 10.2 92 53-148 4-109 (706) 389 PRK07004 replicative DNA helic 85.3 3 7.6E-05 21.5 6.9 72 296-369 216-288 (460) 390 cd00984 DnaB_C DnaB helicase C 85.2 2.6 6.8E-05 22.0 5.5 72 295-368 15-87 (242) 391 TIGR03600 phage_DnaB phage rep 84.9 3.1 7.9E-05 21.4 6.1 71 296-369 197-269 (421) 392 PRK13609 diacylglycerol glucos 84.9 3.1 7.9E-05 21.4 10.4 159 365-552 94-288 (388) 393 PRK05642 DNA replication initi 84.8 3.1 8E-05 21.4 8.8 33 297-329 49-81 (234) 394 PRK12374 putative dithiobiotin 84.8 0.9 2.3E-05 25.6 2.9 33 297-329 6-39 (231) 395 COG0132 BioD Dethiobiotin synt 84.7 0.87 2.2E-05 25.7 2.8 30 300-329 10-39 (223) 396 PRK07263 consensus 84.5 3.2 8.2E-05 21.3 8.0 86 280-369 192-278 (453) 397 cd03468 Pol_Y_like Pol_Y_like: 84.4 0.97 2.5E-05 25.4 2.9 49 277-333 114-162 (330) 398 PRK08084 DNA replication initi 84.3 3.3 8.4E-05 21.2 6.2 36 296-332 48-83 (235) 399 TIGR00615 recR recombination p 84.3 0.41 1E-05 28.3 1.0 136 3-166 4-157 (205) 400 cd00983 recA RecA is a bacter 84.3 3.3 8.4E-05 21.2 7.0 83 290-380 50-138 (325) 401 COG0210 UvrD Superfamily I DNA 84.2 3.3 8.5E-05 21.2 6.6 34 605-643 597-632 (655) 402 KOG3416 consensus 84.1 3.3 8.5E-05 21.2 8.0 102 58-167 4-109 (134) 403 PRK12402 replication factor C 84.1 1.5 3.8E-05 23.9 3.8 42 276-317 19-60 (337) 404 PRK05480 uridine kinase; Provi 84.1 2 5E-05 23.0 4.4 25 288-312 1-25 (209) 405 PRK07459 single-stranded DNA-b 84.0 3.4 8.6E-05 21.2 8.4 63 69-131 5-76 (121) 406 PRK08760 replicative DNA helic 84.0 2 5.1E-05 22.9 4.4 72 297-370 233-305 (476) 407 PRK00090 bioD dithiobiotin syn 84.0 1 2.6E-05 25.3 2.9 32 298-329 4-36 (223) 408 COG3111 Periplasmic protein wi 83.9 3.4 8.7E-05 21.1 7.6 71 59-138 49-119 (128) 409 PRK11388 DNA-binding transcrip 83.8 1.3 3.2E-05 24.5 3.3 160 275-481 332-515 (639) 410 PRK08763 single-stranded DNA-b 83.8 3.4 8.7E-05 21.1 7.7 64 68-131 6-84 (160) 411 PRK08727 hypothetical protein; 83.7 3.1 7.9E-05 21.4 5.3 36 296-332 44-79 (233) 412 PRK05636 replicative DNA helic 83.6 3.5 8.9E-05 21.0 6.7 72 297-370 271-343 (507) 413 cd02028 UMPK_like Uridine mono 83.6 1.3 3.4E-05 24.3 3.4 31 297-327 3-33 (179) 414 PRK07471 DNA polymerase III su 83.5 1.8 4.6E-05 23.3 4.0 41 275-315 20-61 (363) 415 pfam05876 Terminase_GpA Phage 83.5 3.5 8.9E-05 21.0 5.8 130 272-407 16-147 (552) 416 COG1663 LpxK Tetraacyldisaccha 83.3 1.5 3.7E-05 24.0 3.5 95 303-408 59-173 (336) 417 COG3421 Uncharacterized protei 83.3 0.68 1.7E-05 26.6 1.8 60 264-328 408-468 (812) 418 TIGR01447 recD exodeoxyribonuc 83.1 3.6 9.3E-05 20.9 7.3 142 263-426 211-366 (753) 419 cd01127 TrwB Bacterial conjuga 83.0 2.3 5.8E-05 22.5 4.4 111 441-561 254-371 (410) 420 PRK12373 NADH dehydrogenase su 83.0 0.78 2E-05 26.1 2.0 12 151-162 21-32 (403) 421 pfam00485 PRK Phosphoribulokin 83.0 1.7 4.3E-05 23.5 3.7 27 297-323 3-29 (196) 422 PRK06674 DNA polymerase III su 82.8 3.7 9.5E-05 20.8 8.1 19 89-107 119-137 (563) 423 PRK08486 single-stranded DNA-b 82.6 3.8 9.7E-05 20.7 7.7 63 69-131 4-81 (180) 424 COG3972 Superfamily I DNA and 82.2 1.9 4.9E-05 23.0 3.8 142 259-408 150-309 (660) 425 PHA00350 putative assembly pro 82.2 1.3 3.3E-05 24.4 2.9 18 475-492 364-382 (402) 426 cd02025 PanK Pantothenate kina 82.0 1.4 3.5E-05 24.2 2.9 30 298-327 4-35 (220) 427 PRK10053 hypothetical protein; 82.0 4 0.0001 20.6 7.3 64 61-133 55-118 (130) 428 PRK10365 transcriptional regul 81.9 2.1 5.4E-05 22.7 3.9 35 277-313 148-182 (441) 429 pfam06068 TIP49 TIP49 C-termin 81.9 2.5 6.3E-05 22.2 4.2 132 276-428 28-182 (395) 430 TIGR00101 ureG urease accessor 81.9 2.2 5.5E-05 22.7 3.9 61 297-360 5-67 (199) 431 COG2256 MGS1 ATPase related to 81.8 3.1 8E-05 21.4 4.7 101 284-429 39-139 (436) 432 COG0593 DnaA ATPase involved i 81.6 1.8 4.5E-05 23.3 3.4 98 297-437 117-224 (408) 433 PRK06751 single-stranded DNA-b 81.3 4.2 0.00011 20.4 7.7 63 69-131 3-78 (172) 434 COG1485 Predicted ATPase [Gene 81.0 1.5 3.9E-05 23.8 2.9 72 297-404 69-140 (367) 435 PRK08694 consensus 80.9 4.3 0.00011 20.3 6.9 73 296-370 221-294 (468) 436 KOG3928 consensus 80.9 2.4 6.2E-05 22.3 3.9 38 291-329 176-214 (461) 437 cd03115 SRP The signal recogni 80.8 4.3 0.00011 20.3 5.8 156 297-477 4-164 (173) 438 cd01983 Fer4_NifH The Fer4_Nif 80.8 1.4 3.6E-05 24.1 2.6 30 299-328 5-34 (99) 439 COG3911 Predicted ATPase [Gene 80.7 2 5.1E-05 22.9 3.4 44 292-339 4-51 (183) 440 TIGR03420 DnaA_homol_Hda DnaA 80.6 4.4 0.00011 20.2 8.4 92 297-437 42-139 (226) 441 PRK10820 DNA-binding transcrip 80.6 2 5.1E-05 22.9 3.4 100 292-432 226-342 (513) 442 PRK10246 exonuclease subunit S 80.5 1.3 3.2E-05 24.5 2.3 13 370-382 499-511 (1047) 443 TIGR00963 secA preprotein tran 80.5 0.6 1.5E-05 27.0 0.7 81 578-695 645-728 (904) 444 PRK06863 single-stranded DNA-b 80.5 4.4 0.00011 20.2 5.4 65 68-132 5-85 (168) 445 PRK11361 acetoacetate metaboli 80.3 2.7 7E-05 21.9 4.0 36 276-313 151-186 (457) 446 KOG0701 consensus 80.2 0.61 1.6E-05 27.0 0.6 66 529-596 709-786 (1606) 447 TIGR00382 clpX ATP-dependent C 80.2 0.95 2.4E-05 25.5 1.6 19 292-310 151-169 (452) 448 PRK07275 single-stranded DNA-b 80.1 4.5 0.00012 20.1 7.6 63 69-131 4-79 (163) 449 pfam07015 VirC1 VirC1 protein. 79.9 1.7 4.2E-05 23.6 2.8 31 298-328 7-37 (231) 450 PRK13765 ATP-dependent proteas 79.9 4.6 0.00012 20.1 5.5 102 380-484 209-336 (637) 451 PRK07220 DNA topoisomerase I; 79.7 1.7 4.4E-05 23.4 2.8 13 391-403 415-427 (740) 452 cd02023 UMPK Uridine monophosp 79.6 3.6 9.2E-05 20.9 4.4 29 297-327 3-31 (198) 453 pfam06309 Torsin Torsin. This 79.6 4.3 0.00011 20.3 4.8 54 271-324 28-84 (127) 454 pfam03808 Glyco_tran_WecB Glyc 79.5 4.7 0.00012 20.0 7.1 98 472-591 38-137 (172) 455 cd01393 recA_like RecA is a b 79.4 3.2 8.2E-05 21.3 4.1 40 283-322 7-48 (226) 456 COG0353 RecR Recombinational D 79.2 0.89 2.3E-05 25.7 1.2 29 1-29 2-30 (198) 457 KOG1942 consensus 79.2 2 5E-05 23.0 3.0 57 276-333 42-103 (456) 458 COG1221 PspF Transcriptional r 79.1 4 0.0001 20.6 4.5 201 276-539 86-312 (403) 459 KOG2093 consensus 79.1 1.7 4.3E-05 23.5 2.6 195 160-361 418-660 (1016) 460 PRK10923 glnG nitrogen regulat 79.1 2.4 6.1E-05 22.3 3.4 33 279-311 145-179 (469) 461 pfam05729 NACHT NACHT domain. 78.9 1.7 4.2E-05 23.6 2.5 25 296-320 3-27 (165) 462 pfam00493 MCM MCM2/3/5 family. 78.8 3.4 8.5E-05 21.2 4.1 86 294-416 58-143 (327) 463 PRK07274 single-stranded DNA-b 78.6 5 0.00013 19.8 7.9 80 69-148 4-104 (131) 464 cd01294 DHOase Dihydroorotase 78.6 1.5 3.9E-05 23.8 2.2 25 360-384 219-244 (335) 465 PRK12311 rpsB 30S ribosomal pr 78.5 1.5 3.9E-05 23.9 2.2 15 113-127 59-73 (332) 466 COG3640 CooC CO dehydrogenase 78.5 3 7.7E-05 21.5 3.7 35 294-328 1-36 (255) 467 PRK09354 recA recombinase A; P 78.4 5.1 0.00013 19.7 6.6 85 290-381 55-144 (350) 468 pfam10412 TrwB_AAD_bind Type I 78.4 4.8 0.00012 19.9 4.7 125 421-555 204-338 (386) 469 TIGR03491 RecB family nuclease 78.3 2.8 7.1E-05 21.8 3.5 41 114-154 60-102 (457) 470 PRK08058 DNA polymerase III su 78.3 5.1 0.00013 19.7 6.6 143 272-439 6-157 (329) 471 PRK09112 DNA polymerase III su 78.2 2.6 6.6E-05 22.0 3.3 44 275-318 26-70 (352) 472 PRK06958 single-stranded DNA-b 78.2 5.1 0.00013 19.7 7.3 64 68-131 5-84 (181) 473 TIGR03167 tRNA_sel_U_synt tRNA 78.1 3.3 8.5E-05 21.2 3.9 77 260-348 89-171 (311) 474 TIGR01292 TRX_reduct thioredox 78.1 4.4 0.00011 20.3 4.5 81 478-568 147-231 (321) 475 COG2251 Predicted nuclease (Re 78.1 2.1 5.3E-05 22.8 2.8 34 427-464 232-265 (474) 476 pfam02399 Herpes_ori_bp Origin 78.0 4.9 0.00012 19.9 4.7 25 529-553 588-612 (829) 477 PRK13732 single-stranded DNA-b 78.0 5.2 0.00013 19.7 7.8 65 68-132 7-87 (175) 478 cd04486 YhcR_OBF_like YhcR_OBF 78.0 5.2 0.00013 19.6 6.2 68 71-145 1-74 (78) 479 COG1341 Predicted GTPase or GT 77.9 5.2 0.00013 19.6 5.6 65 270-334 45-125 (398) 480 pfam02765 Telo_bind Telomeric 77.9 5.3 0.00013 19.6 9.9 80 61-140 6-94 (141) 481 KOG0554 consensus 77.8 5.3 0.00013 19.6 6.1 99 64-174 17-118 (446) 482 cd03109 DTBS Dethiobiotin synt 77.3 2.6 6.7E-05 22.0 3.1 34 298-331 4-37 (134) 483 cd04323 AsnRS_cyto_like_N AsnR 77.3 5.4 0.00014 19.5 10.3 62 69-134 1-64 (84) 484 COG1224 TIP49 DNA helicase TIP 77.2 3.4 8.7E-05 21.1 3.7 173 276-469 43-247 (450) 485 pfam07728 AAA_5 AAA domain (dy 76.8 1.7 4.4E-05 23.4 2.1 18 296-313 2-19 (139) 486 PRK05201 hslU ATP-dependent pr 76.8 1.5 3.9E-05 23.8 1.8 22 292-313 49-70 (442) 487 PRK05733 single-stranded DNA-b 76.7 5.6 0.00014 19.4 7.9 66 68-133 6-87 (172) 488 PTZ00301 uridine kinase; Provi 76.7 3 7.5E-05 21.6 3.3 14 297-310 7-20 (210) 489 PRK13849 putative crown gall t 76.6 2.4 6.1E-05 22.3 2.8 31 298-328 7-37 (231) 490 COG4962 CpaF Flp pilus assembl 76.5 5.4 0.00014 19.5 4.6 60 272-337 157-216 (355) 491 PRK05748 replicative DNA helic 76.5 5.7 0.00015 19.4 6.3 73 296-370 206-279 (448) 492 PRK05973 replicative DNA helic 76.4 5.7 0.00015 19.3 6.4 58 283-343 56-113 (237) 493 TIGR01967 DEAH_box_HrpA ATP-de 76.3 1.6 4E-05 23.7 1.8 271 276-599 71-423 (1320) 494 PTZ00150 phosphoglucomutase; P 76.2 2.7 6.9E-05 21.9 3.0 20 522-541 472-491 (593) 495 cd04480 RPA1_DBD_A_like RPA1_D 76.2 5.8 0.00015 19.3 9.6 74 72-145 2-78 (86) 496 pfam00436 SSB Single-strand bi 75.7 5.9 0.00015 19.2 8.0 64 69-132 3-81 (104) 497 pfam00308 Bac_DnaA Bacterial d 75.7 5.9 0.00015 19.2 6.7 48 280-329 22-72 (219) 498 pfam00448 SRP54 SRP54-type pro 75.7 6 0.00015 19.2 6.6 87 293-380 1-88 (196) 499 PHA02518 ParA-like protein; Pr 75.6 2.6 6.7E-05 22.0 2.8 25 303-327 11-35 (211) 500 PRK07276 DNA polymerase III su 75.5 4 0.0001 20.6 3.7 46 272-317 2-48 (290) No 1 >COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription] Probab=100.00 E-value=0 Score=1842.93 Aligned_cols=660 Identities=47% Similarity=0.780 Sum_probs=644.1 Q ss_pred CCCCHHCHHCCCHHHCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCHHHCCCCCEEEEEEEEEEEE Q ss_conf 97102021017721367858899999887401246885548987870897401344446478889987899999998975 Q gi|254780945|r 1 MRPSFLNPLFAPLSTFRGVGKKYSLFLSKIINCGNANETRFIDLLFYHPSSFIDRHYRPKISEISEERIVTITGYISQHS 80 (700) Q Consensus 1 mrp~~l~~L~~pI~~LkGVGpk~a~~L~kl~~l~~~GI~ti~DLL~~~PrrYeDr~~~~~I~~l~~g~~vti~g~V~~~~ 80 (700) |++..+++ +.|+++|+||||+++++|+++ ||+|+.|||+|||++|+||+....|.++.+|+.+|++|+|.++. T Consensus 1 ~~~~~~~~-~~~l~~l~gig~~~a~~l~~L------gi~tv~DLL~~~P~~YeD~~~~~~i~~~~~g~~vti~g~V~~~~ 73 (677) T COG1200 1 MMLSLLDP-FVPLSTLKGIGPKTAEKLKKL------GIHTVQDLLLYLPRRYEDRTLLPGIAEARPGEIVTIEGTVLSHE 73 (677) T ss_pred CCCCCCCC-CCCHHHHCCCCHHHHHHHHHC------CCCCHHHHHHHCCCCHHHCCCCCCHHHCCCCCEEEEEEEEEEEE T ss_conf 97331356-543255238687789999871------98759999986862142146567843537786699999997640 Q ss_pred EECCCCCCEEEEEEECCCCEEEEEEECCCHHHHHHHCCCCCEEEEEEEEEECCCEEEEECCEEEECCCCCCCCCCCCCCC Q ss_conf 42158983389999818936999995188789987328988899998997318779997786896264334444411000 Q gi|254780945|r 81 SFQLQKRRPYKILLNDGTGEITLLFFYRKTEMLKNVFFEGRKITVTGKIKKLKNRIIMVHPHYIFHNSQDVNFPLIEAVY 160 (700) Q Consensus 81 ~~~~~~r~~~~v~v~D~tg~i~lvfFn~~~~yl~k~lk~G~~v~vsGKv~~~~~~~qi~hPe~~~~~~~~~~~~~I~PIY 160 (700) ..+.++++++++.+.|++|.+.++|||++ +|+++.|++|+++++|||++.+++.+||+||+|....+.....+.++||| T Consensus 74 ~~~~~~~~~l~v~~~d~~~~l~l~fFn~~-~~l~~~~~~G~~v~v~Gk~~~~~~~~~~~hpe~~~~~~~~~~~~~i~PvY 152 (677) T COG1200 74 KFPFGKRKLLKVTLSDGTGVLTLVFFNFP-AYLKKKLKVGERVIVYGKVKRFKGGLQITHPEYIVNDDGSELEERLTPVY 152 (677) T ss_pred CCCCCCCCEEEEEEECCCEEEEEEEECCC-HHHHHHCCCCCEEEEEEEEEECCCCEEEECCEEEECCCCCCCCCCEEEEE T ss_conf 25778873499999629689999997866-88884187998899999895036835887666783278765556235511 Q ss_pred CCCHHHHHHHHHHHHHHHHHHHC-CCCCCCCHHHHHCCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 00000004543001345787404-68433897786205699988999862045896565667999999987666666677 Q gi|254780945|r 161 SLPTGLSVDLFKKIIVEALSRLP-VLPEWIEKDLLQKKSFPSIAEAFNIIHNPRKAKDFEWTSPARERLAYDELLAGQIA 239 (700) Q Consensus 161 plt~GLsqk~irk~I~~aL~~~~-~i~E~LP~~ll~k~~L~s~~eAL~~IH~P~~~~dle~~~~ArkRLafeELl~~QL~ 239 (700) |+|+||+|+.+|++|.+||+.++ .++||+|..++++|+++++.+|++.||+|++..+++ .+++||+|||+|++|++ T Consensus 153 ~~t~gl~~~~lrk~i~~aL~~~~~~l~e~lp~~l~~k~~l~~~~~al~~lH~P~~~~~~~---~~~rRL~f~Ell~~ql~ 229 (677) T COG1200 153 PLTEGLKQKTLRKLIQQALEVLPSELEELLPEELLEKYGLPSLDEALRTLHFPKDEEDLK---RARRRLAFEELLALQLS 229 (677) T ss_pred ECCCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHCCCCCCHHHHH---HHHHHHHHHHHHHHHHH T ss_conf 101354879999999999985154303347788986306854999998655999777899---99876789999999999 Q ss_pred HHHHHHHHHHCCCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHH Q ss_conf 77655554320357678775789999863024679889999999998410013430788621442236999999733444 Q gi|254780945|r 240 LLLMRKQFKKEIGIPINVEGKIAQKILRNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVE 319 (700) Q Consensus 240 l~~~r~~~~~~~~~~~~~~~~~~~~f~~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~ 319 (700) |+.+|.+.++..+.++..++.+.++|+++|||+||++|++|++||..||+++.|||||||||||||||+||++||+++++ T Consensus 230 l~~~r~~~~~~~~~~~~~~~~l~~~~~~~LPF~LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~ 309 (677) T COG1200 230 LLLRRAKRQKRSGIPLPANGELLAKFLAALPFKLTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIE 309 (677) T ss_pred HHHHHHHHHHCCCCCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHCCCCCCCHHHHHHHHHHHHHH T ss_conf 99999987522688888647999999985899767899999999986644866667875267677789999999999987 Q ss_pred HHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEE Q ss_conf 30545886127999999998621101457865899624642256676877621347548641112013345544441788 Q gi|254780945|r 320 AGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKLILVI 399 (700) Q Consensus 320 ~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvV 399 (700) +|||||+||||||||+|||+++++||+++|++|+|||||+++++|+++++.|++|+++|||||||||||+|.|+|||||| T Consensus 310 ~G~Q~ALMAPTEILA~QH~~~~~~~l~~~~i~V~lLtG~~kgk~r~~~l~~l~~G~~~ivVGTHALiQd~V~F~~LgLVI 389 (677) T COG1200 310 AGYQAALMAPTEILAEQHYESLRKWLEPLGIRVALLTGSLKGKARKEILEQLASGEIDIVVGTHALIQDKVEFHNLGLVI 389 (677) T ss_pred CCCEEEEECCHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCHHHHHHHHHHHHCCCCCEEEECCHHHHCCEEECCEEEEE T ss_conf 28816886637999999999999876651974898644665067999999874799897997221220450442023899 Q ss_pred ECCCCCCCHHHHHHHHHCCC-CCCCEEECHHHHHHHHHHHHHHCCCHHHHCCCCCCCCCCEEEEEECCCHHHHHHHHHHH Q ss_conf 52101335688998740256-77610101013227899997520101111023557666207999702002689999763 Q gi|254780945|r 400 VDEQHRFGVQQRLKLTQKAT-APHVLLMTATPIPRTLVLTSLGDIDISKITEKPAGRKPIKTVIIPINRIDEVIERLKVV 478 (700) Q Consensus 400 iDEQHRFGV~QR~~L~~Kg~-~ph~L~MtATPIPRTLal~~ygdldvS~i~e~P~gR~~I~T~~~~~~~~~~~~~~i~~~ 478 (700) |||||||||+||..|.+||. +||+|+|||||||||||||.|||||+|+|||+|+||+||+|+|++.+++++++++|+++ T Consensus 390 iDEQHRFGV~QR~~L~~KG~~~Ph~LvMTATPIPRTLAlt~fgDldvS~IdElP~GRkpI~T~~i~~~~~~~v~e~i~~e 469 (677) T COG1200 390 IDEQHRFGVHQRLALREKGEQNPHVLVMTATPIPRTLALTAFGDLDVSIIDELPPGRKPITTVVIPHERRPEVYERIREE 469 (677) T ss_pred EECCCCCCHHHHHHHHHHCCCCCCEEEEECCCCHHHHHHHHHCCCCCHHHCCCCCCCCCEEEEEECCCCHHHHHHHHHHH T ss_conf 72521022999999997378999679995798507889888614630111257989974089996444479999999999 Q ss_pred HCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCC-CEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCC Q ss_conf 10387389997120122111210146666666866371-03120146998999999999755986999980034104688 Q gi|254780945|r 479 LSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTS-SIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDV 557 (700) Q Consensus 479 l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~-~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdv 557 (700) +.+|+|||||||||||||++++++|+++|++|+..||. +||++||||+++|||+||.+|++||++|||||||||||||| T Consensus 470 i~~GrQaY~VcPLIeeSE~l~l~~a~~~~~~L~~~~~~~~vgL~HGrm~~~eKd~vM~~Fk~~e~~ILVaTTVIEVGVdV 549 (677) T COG1200 470 IAKGRQAYVVCPLIEESEKLELQAAEELYEELKSFLPELKVGLVHGRMKPAEKDAVMEAFKEGEIDILVATTVIEVGVDV 549 (677) T ss_pred HHCCCEEEEEECCCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEEECCCCHHHHHHHHHHHHCCCCCEEEEEEEEEECCCC T ss_conf 97499799995253543311365499999999987054636777568986779999999980887689981389952357 Q ss_pred CCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHCHHHHHHHHHHHHCCCCCCCCCH Q ss_conf 87658998585254746887730116678983599997088899879999999984142589999998520630002600 Q gi|254780945|r 558 VDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILLYHPPLSKNSYTRLSVLKNTEDGFLIAEEDLKQRKEGEILGIK 637 (700) Q Consensus 558 pna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~~~~~~~~~~Rl~~l~~~~dGf~iAe~Dl~lRG~G~~~G~~ 637 (700) ||||+||||||||||||||||||||||||+.+|||+|+|+++.++.+++||++|++|+|||+|||+||++|||||+||++ T Consensus 550 PnATvMVIe~AERFGLaQLHQLRGRVGRG~~qSyC~Ll~~~~~~~~a~~RL~im~~t~DGF~IAE~DLklRGpGe~lG~r 629 (677) T COG1200 550 PNATVMVIENAERFGLAQLHQLRGRVGRGDLQSYCVLLYKPPLSEVAKQRLKIMRETTDGFVIAEEDLKLRGPGELLGTR 629 (677) T ss_pred CCCEEEEEECHHHHHHHHHHHHCCCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHCCCCCEEHHHHHHCCCCCCCCCCC T ss_conf 88707999654330378888752655788754489999679877568999998874487601046567413886546875 Q ss_pred HCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCC Q ss_conf 0698744000388759999999999999998484 Q gi|254780945|r 638 QSGMPKFLIAQPELHDSLLEIARKDAKHILTQDP 671 (700) Q Consensus 638 QsG~~~~~~~d~~~d~~ll~~a~~~a~~~~~~d~ 671 (700) |||.|+|++||+++|+++|+.||++|..++.+|| T Consensus 630 QSG~~~f~~Adl~~D~~ile~ar~~a~~~~~~~~ 663 (677) T COG1200 630 QSGLPEFRVADLVRDYDILEEARKDAAKLLSRDP 663 (677) T ss_pred CCCCCCEEEEEHHHHHHHHHHHHHHHHHHHHHCC T ss_conf 5688654773087569999999999999976184 No 2 >PRK10917 ATP-dependent DNA helicase RecG; Provisional Probab=100.00 E-value=0 Score=1836.02 Aligned_cols=659 Identities=45% Similarity=0.746 Sum_probs=640.3 Q ss_pred HHCHHCCCHHHCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCHHHCCCCCEEEEEEEEEEEEEECC Q ss_conf 20210177213678588999998874012468855489878708974013444464788899878999999989754215 Q gi|254780945|r 5 FLNPLFAPLSTFRGVGKKYSLFLSKIINCGNANETRFIDLLFYHPSSFIDRHYRPKISEISEERIVTITGYISQHSSFQL 84 (700) Q Consensus 5 ~l~~L~~pI~~LkGVGpk~a~~L~kl~~l~~~GI~ti~DLL~~~PrrYeDr~~~~~I~~l~~g~~vti~g~V~~~~~~~~ 84 (700) .+..|++||++|||||||+++.|+|+ ||+|+.|||+|||+||+||+.+++|+++.+|+.+++.|+|.++.. .+ T Consensus 2 ~~~~L~~pI~~LKGVGpK~a~~L~kL------GI~TV~DLL~~fPrrYeDRt~i~~I~el~~Ge~vtI~g~V~~~~~-~~ 74 (677) T PRK10917 2 MLLLLDAPLTSLKGVGPKTAEKLAKL------GIHTVQDLLLHLPRRYEDRTRLKPIAELRPGEKVTVEGTVLSAEV-YF 74 (677) T ss_pred CCHHHCCCHHHCCCCCHHHHHHHHHC------CCCCHHHHHHCCCCCEEECCCCCCHHHCCCCCEEEEEEEEEEEEC-CC T ss_conf 21032488755799789999999976------999499998519985187686777789799987999999999843-77 Q ss_pred CCCCEEEEEEECCCCEEEEEEECCCHHHHHHHCCCCCEEEEEEEEEECCCEEEEECCEEEECCCCCCCCCCCCCCCCCCH Q ss_conf 89833899998189369999951887899873289888999989973187799977868962643344444110000000 Q gi|254780945|r 85 QKRRPYKILLNDGTGEITLLFFYRKTEMLKNVFFEGRKITVTGKIKKLKNRIIMVHPHYIFHNSQDVNFPLIEAVYSLPT 164 (700) Q Consensus 85 ~~r~~~~v~v~D~tg~i~lvfFn~~~~yl~k~lk~G~~v~vsGKv~~~~~~~qi~hPe~~~~~~~~~~~~~I~PIYplt~ 164 (700) ++|+++++.+.|++|.+.++|||. .+|+++.|++|++++||||++.|++.+||+||+|+..+++ ...+.|+||||+|+ T Consensus 75 ~~r~~l~v~v~D~tG~I~lvfFn~-~pyl~k~l~~G~~v~VsGKV~~~~~~lQm~hPe~e~~~~~-~~~~~I~PVYplT~ 152 (677) T PRK10917 75 GPRRRLRVTLSDGTGVLTLVFFNN-QPYLKKQLKVGKRVAVYGKVKRGKYGLEIVHPEYEVLGEE-TSIGRLTPVYPLTE 152 (677) T ss_pred CCCCEEEEEEEECCEEEEEEEECC-CHHHHHHCCCCCEEEEEEEEEEECCEEEEECCEEEECCCC-CCCCCEEEECCCCC T ss_conf 897249999998987999999898-4789963899998999999985599899978989813875-45685455350776 Q ss_pred HHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHCCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 00045430013457874046843389778620569998899986204589656566799999998766666667777655 Q gi|254780945|r 165 GLSVDLFKKIIVEALSRLPVLPEWIEKDLLQKKSFPSIAEAFNIIHNPRKAKDFEWTSPARERLAYDELLAGQIALLLMR 244 (700) Q Consensus 165 GLsqk~irk~I~~aL~~~~~i~E~LP~~ll~k~~L~s~~eAL~~IH~P~~~~dle~~~~ArkRLafeELl~~QL~l~~~r 244 (700) ||+|++||++|.++|+.++.++||+|.+++++|+|+++.+||++||||++.+++ .+||+||+|||||++|+++..+| T Consensus 153 GLsqk~irklI~~aL~~~~~l~E~LP~~ll~k~~L~s~~~AL~~IHfP~s~edl---~~ArrRLaFEELf~~QL~l~~~r 229 (677) T PRK10917 153 GLKQKTLRKLIKQALERLPALPELLPEELLEKYGLLSLAEALRAIHFPPSDEDL---HPARRRLKFEELFALQLSLLLLR 229 (677) T ss_pred CCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHCCCCCHHHHHHHHHCCCCHHHH---HHHHHHHHHHHHHHHHHHHHHHH T ss_conf 678699999999999874314333998889663899899999997589976789---99999999999999999999999 Q ss_pred HHHHHCCCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCE Q ss_conf 55432035767877578999986302467988999999999841001343078862144223699999973344430545 Q gi|254780945|r 245 KQFKKEIGIPINVEGKIAQKILRNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQA 324 (700) Q Consensus 245 ~~~~~~~~~~~~~~~~~~~~f~~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~ 324 (700) ++.++.++.++..++.+.+.|+++|||+||++|++|++||.+||+++.||+||||||||||||+||++||+.|++||||| T Consensus 230 ~~~~~~~~~~~~~~~~~~~~~~~~LPF~LT~~Q~~~~~ei~~dl~~~~~m~rllqGDVGsGKT~va~~a~~~~~~~g~q~ 309 (677) T PRK10917 230 AERRKLAAPPLPADGELLKKFLASLPFELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIEAGYQA 309 (677) T ss_pred HHHHHCCCCCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHCCCCCCCHHHHHHHHHHHHHHHCCEE T ss_conf 99873268777887699999998099988988999999999876599542777328767888999999999999819948 Q ss_pred EEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEEECCCC Q ss_conf 88612799999999862110145786589962464225667687762134754864111201334554444178852101 Q gi|254780945|r 325 VIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKLILVIVDEQH 404 (700) Q Consensus 325 alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvViDEQH 404 (700) |+||||||||+|||++|+++|++++++|+||||++++++|+++++++++|+++||||||||||++|.|+||||||||||| T Consensus 310 a~maPTeiLa~Qh~~~~~~~~~~~~i~v~lltg~~~~~~~~~~~~~~~~g~~~i~iGTHal~~~~v~f~~LglvviDEQH 389 (677) T PRK10917 310 ALMAPTEILAEQHYRNLKKWLEPLGIRVALLTGSLKGKERREILEALASGEADIVIGTHALIQDDVEFHNLGLVIIDEQH 389 (677) T ss_pred EEECCCHHHHHHHHHHHHHHHHHCCCEEEEEECCCHHHHHHHHHHHHHCCCCCEEEEHHHHHHCCCCCCCCCEEEECHHH T ss_conf 99876799999999999987763498899840774177899999998579977897307877355644666569953057 Q ss_pred CCCHHHHHHHHHCCCCCCCEEECHHHHHHHHHHHHHHCCCHHHHCCCCCCCCCCEEEEEECCCHHHHHHHHHHHHCCCCE Q ss_conf 33568899874025677610101013227899997520101111023557666207999702002689999763103873 Q gi|254780945|r 405 RFGVQQRLKLTQKATAPHVLLMTATPIPRTLVLTSLGDIDISKITEKPAGRKPIKTVIIPINRIDEVIERLKVVLSEGKK 484 (700) Q Consensus 405 RFGV~QR~~L~~Kg~~ph~L~MtATPIPRTLal~~ygdldvS~i~e~P~gR~~I~T~~~~~~~~~~~~~~i~~~l~~g~q 484 (700) ||||+||.+|.+||.+||+|+|||||||||||||+|||||+|+|+|+|+||+||+|++++.++++++|++|++++++|+| T Consensus 390 rFGV~QR~~l~~k~~~~~~L~mtATPIPRtla~~~~g~~d~s~i~~~P~~r~~i~T~~~~~~~~~~~~~~i~~~~~~g~q 469 (677) T PRK10917 390 RFGVHQRLALREKGENPHVLVMTATPIPRTLAMTAYGDLDVSVIDELPPGRKPITTVVIPDSRRDEVYERIREEIAKGRQ 469 (677) T ss_pred HHHHHHHHHHHHCCCCCEEEEEECCCCHHHHHHHHHCCCCEEECCCCCCCCCCCEEEEECHHHHHHHHHHHHHHHHCCCE T ss_conf 76399999998439997299983688438899987357666666779999987269997625689999999999975992 Q ss_pred EEEEECCCCCCCCCCCCHHHHHHHHHHHHCCC-CEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEE Q ss_conf 89997120122111210146666666866371-03120146998999999999755986999980034104688876589 Q gi|254780945|r 485 AYWICPQIEEKKESNFRSVVERFNSLHEHFTS-SIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASII 563 (700) Q Consensus 485 ~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~-~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~m 563 (700) ||||||+|||||++|+.|+++.|+.|++.||+ +|+++||||+++||+++|++|++|++|||||||||||||||||||+| T Consensus 470 ~y~v~p~ieese~~~~~~~~~~~~~l~~~~~~~~v~~~hG~m~~~ek~~~m~~F~~g~~~iLvsTtviEvGvdvpna~~m 549 (677) T PRK10917 470 AYVVCPLIEESEKLDLQSAEETYEELQKALPELRVGLLHGRMKPAEKDAVMAAFKAGEIDILVATTVIEVGVDVPNATVM 549 (677) T ss_pred EEEEECCCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHHCCCCCEEEECCEEECCCCCCCCCEE T ss_conf 89994131123320177799999999844899759983078987899999999983999999989897558678888589 Q ss_pred EEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHCHHHHHHHHHHHHCCCCCCCCCHHCCCCC Q ss_conf 98585254746887730116678983599997088899879999999984142589999998520630002600069874 Q gi|254780945|r 564 IIENAEHFGLAQLHQLRGRVGRGEEISSCILLYHPPLSKNSYTRLSVLKNTEDGFLIAEEDLKQRKEGEILGIKQSGMPK 643 (700) Q Consensus 564 vI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~~~~~~~~~~Rl~~l~~~~dGf~iAe~Dl~lRG~G~~~G~~QsG~~~ 643 (700) ||+||||||||||||||||||||+.+|||||+++++.++.+++||++|++|+|||+|||+||++|||||+||++|||.|+ T Consensus 550 vi~~aerfGlsqLhQLRGRVgRg~~~~~c~l~~~~~~~~~~~~Rl~~~~~~~dGf~iae~Dl~lRg~G~~~G~~QsG~~~ 629 (677) T PRK10917 550 VIENAERFGLAQLHQLRGRVGRGAAQSYCVLLYKDPLSETARERLKIMRETNDGFEIAEKDLELRGPGELLGTRQSGLPE 629 (677) T ss_pred EEECCCCCCHHHHHHHCCCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCCCCCCCCCC T ss_conf 99770105367887742743678884589998389999789999999998587499999999615885668876669887 Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCC Q ss_conf 40003887599999999999999984846366 Q gi|254780945|r 644 FLIAQPELHDSLLEIARKDAKHILTQDPDLTS 675 (700) Q Consensus 644 ~~~~d~~~d~~ll~~a~~~a~~~~~~d~~l~~ 675 (700) |++||+.+|.+||+.||++|+.++++||+|.. T Consensus 630 f~~adl~~D~~il~~Ar~~A~~il~~dp~l~~ 661 (677) T PRK10917 630 FKVADLVRDQELLEEARKEARELLERDPELAE 661 (677) T ss_pred CEEEEHHHHHHHHHHHHHHHHHHHHHCHHHHH T ss_conf 44740887799999999999999987979899 No 3 >TIGR00643 recG ATP-dependent DNA helicase RecG; InterPro: IPR004609 The ATP-dependent DNA helicase RecG 3.6.1 from EC plays a critical role in recombination and DNA repair. It helps to process Holliday junction intermediates to mature products by catalysing branch migration. RecG has DNA unwinding activity characteristic of a DNA helicase with 3' to 5' polarity.; GO: 0004003 ATP-dependent DNA helicase activity, 0006281 DNA repair, 0006310 DNA recombination. Probab=100.00 E-value=0 Score=1832.22 Aligned_cols=627 Identities=42% Similarity=0.670 Sum_probs=595.4 Q ss_pred CCCCCHHHHHHHCCCCCCCCC----------CCCCHHHCCCCC--EEEEEEEEE-----------EEE----EECCCCCC Q ss_conf 885548987870897401344----------446478889987--899999998-----------975----42158983 Q gi|254780945|r 36 ANETRFIDLLFYHPSSFIDRH----------YRPKISEISEER--IVTITGYIS-----------QHS----SFQLQKRR 88 (700) Q Consensus 36 ~GI~ti~DLL~~~PrrYeDr~----------~~~~I~~l~~g~--~vti~g~V~-----------~~~----~~~~~~r~ 88 (700) +||+||.|||+|||++|+|++ ....|.++.+|+ .+++.++|. ++. ....++++ T Consensus 1 lgi~tv~DLL~yfP~~Y~D~~naqvdiedGq~~~~~~~~~~~~g~~~~~~~~V~~~~~~~~~~~~~~~Pedl~~~~~~~~ 80 (721) T TIGR00643 1 LGIHTVQDLLFYFPRRYEDRTNAQVDIEDGQQLQTIGELLSGEGVRVTVVGEVLEVIVSTEPKGRSLKPEDLIFGFKRRK 80 (721) T ss_pred CCCCHHHHHHHHCCCCEECCCCCCCCHHCCHHHEEHHHCCCCCCEEEEEEEEEEEEEEECCCCCCCCCCHHHHHCCCCCC T ss_conf 96001789996488750000234010002401100211122474599999999999997267888667212110146775 Q ss_pred EEEEEEEC--CCCEEEEEEEC--CCHHHHHHHCCCCCEEEEEEEEEECCC----------EEEEECCEEEECCCC-C--C Q ss_conf 38999981--89369999951--887899873289888999989973187----------799977868962643-3--4 Q gi|254780945|r 89 PYKILLND--GTGEITLLFFY--RKTEMLKNVFFEGRKITVTGKIKKLKN----------RIIMVHPHYIFHNSQ-D--V 151 (700) Q Consensus 89 ~~~v~v~D--~tg~i~lvfFn--~~~~yl~k~lk~G~~v~vsGKv~~~~~----------~~qi~hPe~~~~~~~-~--~ 151 (700) .+++.+.| +...+.++||| + .+|+++.|++|++++||||++.+++ .-.|.||++...... + . T Consensus 81 ~l~~~~~~~~~~~~~~~~ffnrGf-~~~~~~~f~~G~~v~~yG~~k~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e 159 (721) T TIGR00643 81 VLKLRLKDGKGEKVLELRFFNRGF-RAFLKKKFKVGSKVVVYGKVKSSKFEDQLEMRRYLKALLSHPEVKSEKDSVDEFE 159 (721) T ss_pred EEEEEEEECCCEEEEEEEEECCCH-HHHHHHHCCCCCEEEEEEEEEECCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCH T ss_conf 368999971414789999616661-5899975266979999987761320210001355467650775200212377401 Q ss_pred CCCCCCCCCCCCHH-----HHHHHHHHHHHHHHHHHCC-----CCCCCCHHHHHCCCCCCHHHHHHHHC-CCCCHHH--H Q ss_conf 44441100000000-----0045430013457874046-----84338977862056999889998620-4589656--5 Q gi|254780945|r 152 NFPLIEAVYSLPTG-----LSVDLFKKIIVEALSRLPV-----LPEWIEKDLLQKKSFPSIAEAFNIIH-NPRKAKD--F 218 (700) Q Consensus 152 ~~~~I~PIYplt~G-----Lsqk~irk~I~~aL~~~~~-----i~E~LP~~ll~k~~L~s~~eAL~~IH-~P~~~~d--l 218 (700) ..++|.||||+++| |+|+.+++.|.+||+.+.. ++|.||++++++|+|+++.+||+.|| +|++.++ + T Consensus 160 ~~~~i~PvY~~~~gGelqe~~~~~l~k~i~~AL~~l~~~~yry~~~~lP~~l~~ky~l~~~~~al~~~H~~P~~~~~~~L 239 (721) T TIGR00643 160 LEGKILPVYPLTEGGELQELKQKKLRKLIKQALDQLDKSLYRYLEDPLPEELREKYGLLSLEDALRAIHRFPKTLELEAL 239 (721) T ss_pred HCCCEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHCCCCCCCCCHHHH T ss_conf 05721223423557421103877888999999999987776530333674678640578879999843889986116877 Q ss_pred H-HHHHHHHHHHHHHHHHHHHHHHHHHHH----------HH-HCCCCCCCCCC-HHHHHHHH-HCCCCCCHHHHHHHHHH Q ss_conf 6-679999999876666666777765555----------43-20357678775-78999986-30246798899999999 Q gi|254780945|r 219 E-WTSPARERLAYDELLAGQIALLLMRKQ----------FK-KEIGIPINVEG-KIAQKILR-NIPFSPTKSQESAIKDI 284 (700) Q Consensus 219 e-~~~~ArkRLafeELl~~QL~l~~~r~~----------~~-~~~~~~~~~~~-~~~~~f~~-~LPF~LT~~Q~~ai~eI 284 (700) + ..+.||+||+|||+|++|+++..+|.+ .+ +..+.+...+. ++.++|++ +|||+||+||++||+|| T Consensus 240 ~~g~~~A~~rLif~E~f~lQl~~~~~~~~~~~~~~l~~~~~~~~~a~~~~~~~~~~l~k~~~~~LPF~LT~aQ~r~v~EI 319 (721) T TIGR00643 240 ESGLELARRRLIFDELFLLQLAMLARRLEKLIEKDLLREEKQQFSAPPLNVSENELLEKFLAKSLPFELTRAQKRVVKEI 319 (721) T ss_pred HHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEECHHHHHHHHHHHCCCCCCCHHHHHHHHHH T ss_conf 76543143011699999999999988875431145565454305665110020579999998528887767789999999 Q ss_pred HHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHH Q ss_conf 98410013430788621442236999999733444305458861279999999986211014578658996246422566 Q gi|254780945|r 285 LQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHR 364 (700) Q Consensus 285 ~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er 364 (700) ..||+++.|||||||||||||||+||++||+.++++||||||||||||||+|||+++.+||++++++|+|||||+++++| T Consensus 320 ~~DL~~~~pMnRLlQGDVGSGKT~VA~la~l~~i~~GYQ~ALMAPTEiLA~QHy~~~~~~l~p~~~~vaLLTGs~k~~~r 399 (721) T TIGR00643 320 LQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIESGYQVALMAPTEILAEQHYDSLRNLLAPLGIEVALLTGSLKGKQR 399 (721) T ss_pred HHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHHHHHHHCCCCCEEEEEECCCCHHHH T ss_conf 98614787532221101066389999999999984698099917768999999999999623548578886156678789 Q ss_pred HHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEEECCCCCCCHHHHHHHHHCCC-------CCCCEEECHHHHHHHHHH Q ss_conf 7687762134754864111201334554444178852101335688998740256-------776101010132278999 Q gi|254780945|r 365 RKALERIAHGQAHIIIGTHALFQDSIQYYKLILVIVDEQHRFGVQQRLKLTQKAT-------APHVLLMTATPIPRTLVL 437 (700) Q Consensus 365 ~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFGV~QR~~L~~Kg~-------~ph~L~MtATPIPRTLal 437 (700) +++++.|++|++++||||||||||.|+|++||||||||||||||.||.+|.+||. +||+|+|||||||||||| T Consensus 400 ~~~~e~i~~G~~~~~vGTHALiqe~vef~~L~lVIiDEQHRFGV~QR~~L~~KG~~~~~~G~~PH~L~MtATPIPRTLAL 479 (721) T TIGR00643 400 KELLETIASGEIHLVVGTHALIQEKVEFKRLGLVIIDEQHRFGVEQRKKLREKGQEGSMIGFAPHVLVMTATPIPRTLAL 479 (721) T ss_pred HHHHHHHHCCCCEEEEHHHHHHHHHHHHHCCCEEEEECCCCCHHHHHHHHHHHHHCCCCCCCCCCEEEEECCCCHHHHHH T ss_conf 99999986395205733135545214431477489932335607899999986220688677777646637881478997 Q ss_pred HHHHCCCHHHHCCCCCCCCCCEEEEEECCCH----HHHHHHHHHHHCCCCEEEEEECCCCCCCCC-CCCHHHHHHHHHHH Q ss_conf 9752010111102355766620799970200----268999976310387389997120122111-21014666666686 Q gi|254780945|r 438 TSLGDIDISKITEKPAGRKPIKTVIIPINRI----DEVIERLKVVLSEGKKAYWICPQIEEKKES-NFRSVVERFNSLHE 512 (700) Q Consensus 438 ~~ygdldvS~i~e~P~gR~~I~T~~~~~~~~----~~~~~~i~~~l~~g~q~y~VcPlIeese~~-~~~~~~~~~~~l~~ 512 (700) |+|||||+|+|||||+||+||+|+|+..++. ++||+++.+||++|+|||||||+|||||++ |+++|++.|+.|++ T Consensus 480 t~yGDld~S~I~elP~GR~pi~T~~~~~~~~~aW~~~v~~~~~~E~~~GrQaYvv~PlI~ESE~lp~lk~A~~~~~~l~~ 559 (721) T TIGR00643 480 TVYGDLDVSIIDELPPGRKPITTYLIKHKEKGAWIDIVYEFIEEEIAKGRQAYVVYPLIEESEKLPDLKAAEALYERLKK 559 (721) T ss_pred HHHHCCEEEEECCCCCCCCEEEEEEEECCCCCCCHHHHHHHHHHHHHCCCCEEEEECCCCCCCCCCHHHHHHHHHHHHHH T ss_conf 76500003343168545933899888427887756899999999983289089996440320047168999999999888 Q ss_pred HC-CC-CEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCE Q ss_conf 63-71-03120146998999999999755986999980034104688876589985852547468877301166789835 Q gi|254780945|r 513 HF-TS-SIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGEEIS 590 (700) Q Consensus 513 ~~-~~-~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s 590 (700) .| |. +|+|+||||+++|||+||++|++|++||||||||||||||||||||||||||||||||||||||||||||+++| T Consensus 560 ~f~~~~~v~LlHGrm~~~eK~~vm~~F~~~~~~ILVsTTVIEVGVDVPnAtvMVIe~AeRFGLSQLHQLRGRVGRG~~~S 639 (721) T TIGR00643 560 AFLPKYNVGLLHGRMKSDEKEAVMEEFREGEVDILVSTTVIEVGVDVPNATVMVIEDAERFGLSQLHQLRGRVGRGDHQS 639 (721) T ss_pred HHCCCCEEEEECCCCCHHHHHHHHHHHHHCCCEEEEEEEEEEEEEECCCCCEEEEECCCHHHHHHHHHHCEEECCCCCCC T ss_conf 61221001133068984789999998521583699997689998617977278886655103688876350012689750 Q ss_pred EEEEEEC----CCCCHHHHHHHHHHHHHCHHHHHHHHHHHHCCCCCCCC---CHHCC-CCCCCCCCHHH-HHHHHHHHHH Q ss_conf 9999708----88998799999999841425899999985206300026---00069-87440003887-5999999999 Q gi|254780945|r 591 SCILLYH----PPLSKNSYTRLSVLKNTEDGFLIAEEDLKQRKEGEILG---IKQSG-MPKFLIAQPEL-HDSLLEIARK 661 (700) Q Consensus 591 ~c~l~~~----~~~~~~~~~Rl~~l~~~~dGf~iAe~Dl~lRG~G~~~G---~~QsG-~~~~~~~d~~~-d~~ll~~a~~ 661 (700) ||+|+++ +|.++.+++||++|.+|+|||.|||+||++|||||+|| ++||| +++|++|||++ |.++|..||+ T Consensus 640 yC~L~~kdei~~p~~~~~~~RL~~~~~~~DGF~iAE~DL~lRGPGd~lGtk~~~QSG~~~~F~vA~l~~qD~~~l~~ar~ 719 (721) T TIGR00643 640 YCLLVYKDEIKNPKSESAKKRLRVMAETLDGFVIAEEDLKLRGPGDLLGTKGTKQSGKLPEFRVADLVRQDREILQEARE 719 (721) T ss_pred EEEEECCCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHH T ss_conf 79981253257888646899999985155606778875532588242358884021556674213767722899999998 Q ss_pred HH Q ss_conf 99 Q gi|254780945|r 662 DA 663 (700) Q Consensus 662 ~a 663 (700) +| T Consensus 720 ~a 721 (721) T TIGR00643 720 AA 721 (721) T ss_pred HC T ss_conf 39 No 4 >TIGR00580 mfd transcription-repair coupling factor; InterPro: IPR004576 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 transcribed 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. A lesion in the template strand blocks the RNA polymerase complex (RNAP). The RNAP-DNA-RNA complex is specifically recognised by TcrF, which releases RNAP and the truncated transcript. The TcrF may replace RNAP at the lesion site and then recruit the UvrA/B/C repair system.; GO: 0003684 damaged DNA binding, 0005524 ATP binding, 0006281 DNA repair. Probab=100.00 E-value=0 Score=1068.19 Aligned_cols=412 Identities=37% Similarity=0.561 Sum_probs=389.1 Q ss_pred HHHHHHHHHHCCCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHH Q ss_conf 77655554320357678775789999863024679889999999998410013430788621442236999999733444 Q gi|254780945|r 240 LLLMRKQFKKEIGIPINVEGKIAQKILRNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVE 319 (700) Q Consensus 240 l~~~r~~~~~~~~~~~~~~~~~~~~f~~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~ 319 (700) |..+..+++...|.+++.+.++...|-+++||+-|+||.+||+||.+||.++.||-|||+||||-|||.|||.|++.|+. T Consensus 476 Li~lyA~R~~~~G~af~~D~e~~~~Fe~~FPfeeT~DQ~~AI~eik~Dm~~~~~MDRL~CGDVGfGKTEVAmRAaFkAv~ 555 (997) T TIGR00580 476 LIELYAKRKASKGHAFPPDDEWQAEFEDSFPFEETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVL 555 (997) T ss_pred HHHHHHHHHHCCCCCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHC T ss_conf 99999987515898898880899999983878897789999999999740689873465245488536888878887633 Q ss_pred HH----CCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCC Q ss_conf 30----54588612799999999862110145786589962464225667687762134754864111201334554444 Q gi|254780945|r 320 AG----GQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKL 395 (700) Q Consensus 320 ~G----~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~L 395 (700) +| +|||+||||.|||+|||+||++.|.++||+|++|.+=.+++|.++|+.++++|+||||||||+|+|.+|.|+|| T Consensus 556 ~gneylKQVavLVPTT~LA~QHf~tf~~RF~~fPv~I~~LSRF~~~~E~~~iL~~la~G~iDI~IGTH~lL~k~v~FKdL 635 (997) T TIGR00580 556 DGNEYLKQVAVLVPTTILAQQHFETFKERFANFPVTIELLSRFRSAKEKKEILKELASGKIDILIGTHKLLQKDVKFKDL 635 (997) T ss_pred CCCCEECEEEEECCHHHHHHHHHHHHHHHHCCCCEEEEECCCCCCCHHHHHHHHHHHCCCEEEEECCHHHHCCCEEEECC T ss_conf 87822011689627044277788999997378981687527756737899999997559422663010412785468638 Q ss_pred CEEEECCCCCCCHHHHHHHHHCCCCCCCEEECHHHHHHHHHHHHHHCCCHHHHCCCCCCCCCCEEEEEECCCHHHHHHHH Q ss_conf 17885210133568899874025677610101013227899997520101111023557666207999702002689999 Q gi|254780945|r 396 ILVIVDEQHRFGVQQRLKLTQKATAPHVLLMTATPIPRTLVLTSLGDIDISKITEKPAGRKPIKTVIIPINRIDEVIERL 475 (700) Q Consensus 396 gLvViDEQHRFGV~QR~~L~~Kg~~ph~L~MtATPIPRTLal~~ygdldvS~i~e~P~gR~~I~T~~~~~~~~~~~~~~i 475 (700) ||+||||+|||||+|.++|.+=-.+.|+|.||||||||||-|++-|=-|+|+|.++|.+|.||.|++.+.+. .-|=++| T Consensus 636 GLlIiDEEQRFGV~~KE~lK~~~~~VDvLtlsATPIPRTL~MSl~g~RdlS~I~TPP~~R~pv~T~v~~~~~-~~~~~AI 714 (997) T TIGR00580 636 GLLIIDEEQRFGVKQKEKLKELKTSVDVLTLSATPIPRTLHMSLSGIRDLSIIATPPEDRLPVRTFVMEYDD-ELVREAI 714 (997) T ss_pred CCEEEECCCCCCCCHHHHHCCCCCCCCEEEEECCCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCH-HHHHHHH T ss_conf 646983143488311555300156765676337896055899987553322105788877424887742786-8999999 Q ss_pred HHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCC-CEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCC Q ss_conf 76310387389997120122111210146666666866371-03120146998999999999755986999980034104 Q gi|254780945|r 476 KVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTS-SIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVG 554 (700) Q Consensus 476 ~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~-~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVG 554 (700) ++||.+|+|||+|+|.|| |.+..-..|++..|+ +|++.||||..+|-|.||.+|..|+.|||||||+||-| T Consensus 715 ~rEL~RgGQvFyv~Nrie--------~i~~~~~~l~~LVP~arIaiaHGqM~e~eLE~~m~~F~~~~~~vLvcTTIIE~G 786 (997) T TIGR00580 715 RRELLRGGQVFYVHNRIE--------SIEKLKTQLRELVPEARIAIAHGQMTENELEEVMLEFYKGEFDVLVCTTIIESG 786 (997) T ss_pred HHHHCCCCEEEEEECCCC--------CHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCC T ss_conf 975313981899808813--------578999999850843267888335684568999998626843301322146505 Q ss_pred CCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEECC--CCCHHHHHHHHHHHHHCH---HHHHHHHHHHHCC Q ss_conf 68887658998585254746887730116678983599997088--899879999999984142---5899999985206 Q gi|254780945|r 555 IDVVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILLYHP--PLSKNSYTRLSVLKNTED---GFLIAEEDLKQRK 629 (700) Q Consensus 555 vdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~~--~~~~~~~~Rl~~l~~~~d---Gf~iAe~Dl~lRG 629 (700) |||||||+|||++||.||||||||||||||||.+++||||+|.+ ++|+.|.+||++|.+.++ ||.||-+||++|| T Consensus 787 IDIPnANTiIi~~AD~FGLaQLYQLRGRVGRs~~~AYAYlL~~~~~~Lt~~A~~RL~ai~~f~eLGaGf~iA~hDlEIRG 866 (997) T TIGR00580 787 IDIPNANTIIIDRADKFGLAQLYQLRGRVGRSKKKAYAYLLYPHQKALTEDALKRLEAIQEFSELGAGFKIALHDLEIRG 866 (997) T ss_pred CCHHHHHHHHHHHHCCCCHHHHHHCCCEECCCCCEEEEEECCCCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHCCCCCC T ss_conf 64100126868752114703474536312058712689833477400145899999999730113521678863110035 Q ss_pred CCCCCCCHHCCCCCCCCCCHHHHH--HHHHHHHHHHH Q ss_conf 300026000698744000388759--99999999999 Q gi|254780945|r 630 EGEILGIKQSGMPKFLIAQPELHD--SLLEIARKDAK 664 (700) Q Consensus 630 ~G~~~G~~QsG~~~~~~~d~~~d~--~ll~~a~~~a~ 664 (700) .|++||..||| .+..+-.|. .+|++|=+.-+ T Consensus 867 aGNLLG~eQSG----~I~~vGfdLY~~lL~eAi~~~~ 899 (997) T TIGR00580 867 AGNLLGEEQSG----HIESVGFDLYVELLEEAIEELK 899 (997) T ss_pred CHHHCCCCCCC----HHHHHHHHHHHHHHHHHHHHHH T ss_conf 50012601264----0656778999999999999987 No 5 >PRK10689 transcription-repair coupling factor; Provisional Probab=100.00 E-value=0 Score=1045.40 Aligned_cols=414 Identities=36% Similarity=0.526 Sum_probs=388.0 Q ss_pred HHHHHHHHHHCCCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHH Q ss_conf 77655554320357678775789999863024679889999999998410013430788621442236999999733444 Q gi|254780945|r 240 LLLMRKQFKKEIGIPINVEGKIAQKILRNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVE 319 (700) Q Consensus 240 l~~~r~~~~~~~~~~~~~~~~~~~~f~~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~ 319 (700) |.....+++..+|+++..+..+..+|-+++||+.|.||.+||+||.+||.+++||.|||+||||.|||.||+.|++.|+. T Consensus 568 Ll~lYA~R~~~~G~af~~d~~~~~eFe~~FpyeET~DQl~AI~eV~~DMes~~PMDRLiCGDVGfGKTEVA~RAAFkav~ 647 (1148) T PRK10689 568 LLDIYAQRAAKEGFAFKHDREQYQLFCDSFPFETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVE 647 (1148) T ss_pred HHHHHHHHHCCCCCCCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCCCEEEECCCCCCHHHHHHHHHHHHHH T ss_conf 99999987205688678984999999960999787689999999987763886774156768888779999999999996 Q ss_pred HHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEE Q ss_conf 30545886127999999998621101457865899624642256676877621347548641112013345544441788 Q gi|254780945|r 320 AGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKLILVI 399 (700) Q Consensus 320 ~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvV 399 (700) +|+|||+||||+|||+|||++|++.|.+++|+|++|+.-.++||++++++++++|++|||||||+|+|++|.|+||||+| T Consensus 648 ~gkQVavlvPTTiLA~QH~~tF~~Rf~~~pv~i~~LsRf~s~ke~~~i~~~l~~G~idIvIGTH~ll~~dv~f~~LGLlI 727 (1148) T PRK10689 648 NHKQVAVLVPTTLLAQQHYDNFRDRFANWPVRIEMLSRFRSAKEQTQILAEAAEGKIDILIGTHKLLQSDVKWKDLGLLI 727 (1148) T ss_pred CCCEEEEEECCCCCHHHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHHCCCCCEEEHHHHHHCCCCCCCCCCEEE T ss_conf 39808998366223799999999876415733775038888999999999986699877620488866986546664378 Q ss_pred ECCCCCCCHHHHHHHHHCCCCCCCEEECHHHHHHHHHHHHHHCCCHHHHCCCCCCCCCCEEEEEECCCHHHHHHHHHHHH Q ss_conf 52101335688998740256776101010132278999975201011110235576662079997020026899997631 Q gi|254780945|r 400 VDEQHRFGVQQRLKLTQKATAPHVLLMTATPIPRTLVLTSLGDIDISKITEKPAGRKPIKTVIIPINRIDEVIERLKVVL 479 (700) Q Consensus 400 iDEQHRFGV~QR~~L~~Kg~~ph~L~MtATPIPRTLal~~ygdldvS~i~e~P~gR~~I~T~~~~~~~~~~~~~~i~~~l 479 (700) |||+|||||.|+++|.+...++|+|+||||||||||.|++.|..|+|+|.+.|.+|.||+|++...+.. -+-++|.+|+ T Consensus 728 iDEEqrFGV~~KE~lk~l~~~vdvLtltATPIPRTL~msl~G~rdlS~i~tpP~~R~~v~T~v~~~~~~-~i~eai~re~ 806 (1148) T PRK10689 728 VDEEHRFGVRHKERIKAMRADVDILTLTATPIPRTLNMAMSGMRDLSIIATPPARRLAVKTFVREYDSL-VVREAILREI 806 (1148) T ss_pred ECCCHHCCHHHHHHHHHCCCCCCEEEEECCCCHHHHHHHHCCCCCEEEECCCCCCCCCCEEEEECCCHH-HHHHHHHHHH T ss_conf 601021379999999722899878976255644699998807733022136999898708998358729-9999999999 Q ss_pred CCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCC-CEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCC Q ss_conf 0387389997120122111210146666666866371-031201469989999999997559869999800341046888 Q gi|254780945|r 480 SEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTS-SIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVV 558 (700) Q Consensus 480 ~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~-~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvp 558 (700) .+|+|||||||.|+ ++++..+.|++.+|+ +|++.||+|+..|.|++|.+|.+|++|||||||+||+||||| T Consensus 807 ~rggq~~~~~~~~~--------~i~~~~~~~~~~~p~~~~~~~hg~m~~~~~e~~m~~f~~~~~~~l~~ttiie~g~dip 878 (1148) T PRK10689 807 LRGGQVYYLYNDVE--------NIQKAAERLAELVPEARIAIGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIP 878 (1148) T ss_pred HHCCEEEEEECCHH--------HHHHHHHHHHHHCCCCCEEEEECCCCHHHHHHHHHHHHCCCCCEEEECCEEECCCCCC T ss_conf 81880899953254--------1999999999748777189998999989999999999759988999897876586677 Q ss_pred CCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEECC--CCCHHHHHHHHHHHHHCH---HHHHHHHHHHHCCCCCC Q ss_conf 7658998585254746887730116678983599997088--899879999999984142---58999999852063000 Q gi|254780945|r 559 DASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILLYHP--PLSKNSYTRLSVLKNTED---GFLIAEEDLKQRKEGEI 633 (700) Q Consensus 559 na~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~~--~~~~~~~~Rl~~l~~~~d---Gf~iAe~Dl~lRG~G~~ 633 (700) |||+|||++||+||||||||||||||||++++||||++++ .+++.|++||+++.+.++ ||.||..||++||+|++ T Consensus 879 ~ant~ii~~a~~~gl~ql~qlrgrvgr~~~~ayaYll~~~~~~lt~~A~kRL~ai~~~~~lGsGf~iA~~DLeIRGaG~l 958 (1148) T PRK10689 879 TANTIIIERADHFGLAQLHQLRGRVGRSHHQAYAWLLTPHPKAMTTDAQKRLEAIASLEDLGAGFALATHDLEIRGAGEL 958 (1148) T ss_pred CCCEEEEECHHHCCHHHHHHHCCCCCCCCCEEEEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHCCCCCCC T ss_conf 88479997532145577775436557788707999986787778989999999999706776439999987722778567 Q ss_pred CCCHHCCCCCCCCCCHHHHHHHHHHHHHHHH Q ss_conf 2600069874400038875999999999999 Q gi|254780945|r 634 LGIKQSGMPKFLIAQPELHDSLLEIARKDAK 664 (700) Q Consensus 634 ~G~~QsG~~~~~~~d~~~d~~ll~~a~~~a~ 664 (700) ||..|||.-.=.=.|++ .++|++|-...+ T Consensus 959 LG~~QsG~i~~vG~~lY--~~mL~~av~~lk 987 (1148) T PRK10689 959 LGEEQSGSMETIGFSLY--MELLENAVDALK 987 (1148) T ss_pred CCCCCCCCHHHCCHHHH--HHHHHHHHHHHH T ss_conf 88645631555069999--999999999986 No 6 >COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription] Probab=100.00 E-value=0 Score=981.72 Aligned_cols=415 Identities=34% Similarity=0.528 Sum_probs=389.4 Q ss_pred HHHHHHHHHHCCCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHH Q ss_conf 77655554320357678775789999863024679889999999998410013430788621442236999999733444 Q gi|254780945|r 240 LLLMRKQFKKEIGIPINVEGKIAQKILRNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVE 319 (700) Q Consensus 240 l~~~r~~~~~~~~~~~~~~~~~~~~f~~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~ 319 (700) |.....+++..+|+++..+..+.++|.+++||+.|.||.+||+||.+||.+++||.||++||||-|||.||+.|++.|+. T Consensus 562 Li~lyA~R~~~~G~af~~d~~~q~~F~~~FPyeET~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV~ 641 (1139) T COG1197 562 LIKLYAKRQAKKGFAFPPDTEWQEEFEASFPYEETPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAVM 641 (1139) T ss_pred HHHHHHHHHHCCCCCCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCCCCHHEEECCCCCCHHHHHHHHHHHHHC T ss_conf 99999987305687879985899999854998578789999999998860698661025657687599999999999863 Q ss_pred HHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEE Q ss_conf 30545886127999999998621101457865899624642256676877621347548641112013345544441788 Q gi|254780945|r 320 AGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKLILVI 399 (700) Q Consensus 320 ~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvV 399 (700) +|+|||+||||.|||+|||+||++.|.+++|+|++|..-.++||.+++++++++|++|||||||+|+|++|+|+||||+| T Consensus 642 ~GKQVAvLVPTTlLA~QHy~tFkeRF~~fPV~I~~LSRF~s~kE~~~il~~la~G~vDIvIGTHrLL~kdv~FkdLGLlI 721 (1139) T COG1197 642 DGKQVAVLVPTTLLAQQHYETFKERFAGFPVRIEVLSRFRSAKEQKEILKGLAEGKVDIVIGTHRLLSKDVKFKDLGLLI 721 (1139) T ss_pred CCCEEEEECCCHHHHHHHHHHHHHHHCCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCEEEECHHHHCCCCEEECCCEEE T ss_conf 79749999260786899899999873389825888605578899999999985698458996317647896770476489 Q ss_pred ECCCCCCCHHHHHHHHHCCCCCCCEEECHHHHHHHHHHHHHHCCCHHHHCCCCCCCCCCEEEEEECCCHHHHHHHHHHHH Q ss_conf 52101335688998740256776101010132278999975201011110235576662079997020026899997631 Q gi|254780945|r 400 VDEQHRFGVQQRLKLTQKATAPHVLLMTATPIPRTLVLTSLGDIDISKITEKPAGRKPIKTVIIPINRIDEVIERLKVVL 479 (700) Q Consensus 400 iDEQHRFGV~QR~~L~~Kg~~ph~L~MtATPIPRTLal~~ygdldvS~i~e~P~gR~~I~T~~~~~~~~~~~~~~i~~~l 479 (700) |||+|||||.|+++|.+--.+.|+|.||||||||||-|++-|--|+|+|.+.|.+|.||.|++.+.+. .-+-+.|.+|+ T Consensus 722 IDEEqRFGVk~KEkLK~Lr~~VDvLTLSATPIPRTL~Msm~GiRdlSvI~TPP~~R~pV~T~V~~~d~-~~ireAI~REl 800 (1139) T COG1197 722 IDEEQRFGVKHKEKLKELRANVDVLTLSATPIPRTLNMSLSGIRDLSVIATPPEDRLPVKTFVSEYDD-LLIREAILREL 800 (1139) T ss_pred EECHHHCCCCHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHCCHHHHHCCCCCCCCCCEEEEEECCCH-HHHHHHHHHHH T ss_conf 74435327117899987750572897417887544777774430331114799877212888715882-89999999987 Q ss_pred CCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCC-CEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCC Q ss_conf 0387389997120122111210146666666866371-031201469989999999997559869999800341046888 Q gi|254780945|r 480 SEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTS-SIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVV 558 (700) Q Consensus 480 ~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~-~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvp 558 (700) .+|+|||+|||.|+ +.++..+.|++..|+ +|++.||+|...|-|++|.+|.+|+.|||||||+||-||||| T Consensus 801 ~RgGQvfYv~NrV~--------~Ie~~~~~L~~LVPEarI~vaHGQM~e~eLE~vM~~F~~g~~dVLv~TTIIEtGIDIP 872 (1139) T COG1197 801 LRGGQVFYVHNRVE--------SIEKKAERLRELVPEARIAVAHGQMRERELEEVMLDFYNGEYDVLVCTTIIETGIDIP 872 (1139) T ss_pred HCCCEEEEEECCCC--------CHHHHHHHHHHHCCCEEEEEEECCCCHHHHHHHHHHHHCCCCCEEEEEEEEECCCCCC T ss_conf 15987999943331--------2999999999859846888852588889999999999728888898823430476777 Q ss_pred CCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEECC--CCCHHHHHHHHHHHHHCH---HHHHHHHHHHHCCCCCC Q ss_conf 7658998585254746887730116678983599997088--899879999999984142---58999999852063000 Q gi|254780945|r 559 DASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILLYHP--PLSKNSYTRLSVLKNTED---GFLIAEEDLKQRKEGEI 633 (700) Q Consensus 559 na~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~~--~~~~~~~~Rl~~l~~~~d---Gf~iAe~Dl~lRG~G~~ 633 (700) |||+|+|++||+|||||||||||||||+++++||||+|++ .+++.|.+||+++.+.++ ||.||.+||++||.|++ T Consensus 873 nANTiIIe~AD~fGLsQLyQLRGRVGRS~~~AYAYfl~p~~k~lT~~A~kRL~aI~~~~~LGaGf~lA~~DLeIRGaGNl 952 (1139) T COG1197 873 NANTIIIERADKFGLAQLYQLRGRVGRSNKQAYAYFLYPPQKALTEDAEKRLEAIASFTELGAGFKLAMHDLEIRGAGNL 952 (1139) T ss_pred CCCEEEEECCCCCCHHHHHHHCCCCCCCCCEEEEEEEECCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHCCHHCCCCCCC T ss_conf 87558896543345788887516547767628999962675545878999999997233237517887520100454134 Q ss_pred CCCHHCCCCCCCCCCHHHHHHHHHHHHHHHHH Q ss_conf 26000698744000388759999999999999 Q gi|254780945|r 634 LGIKQSGMPKFLIAQPELHDSLLEIARKDAKH 665 (700) Q Consensus 634 ~G~~QsG~~~~~~~d~~~d~~ll~~a~~~a~~ 665 (700) ||..|||.-.=.=+||+ .++|++|-..-+. T Consensus 953 LG~eQSG~I~~VGf~LY--~~mLeeAI~~lk~ 982 (1139) T COG1197 953 LGEEQSGHIESVGFDLY--MEMLEEAIAALKG 982 (1139) T ss_pred CCCCCCCCHHEECHHHH--HHHHHHHHHHHHC T ss_conf 67545676101229999--9999999998736 No 7 >PRK05580 primosome assembly protein PriA; Validated Probab=100.00 E-value=1.5e-35 Score=298.36 Aligned_cols=376 Identities=24% Similarity=0.337 Sum_probs=285.9 Q ss_pred HCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHH-HHHHHHHHHHHHCC Q ss_conf 30246798899999999984100134307886214422369999997334443054588612799-99999986211014 Q gi|254780945|r 268 NIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGI-LAQQHYEFIKKYTQ 346 (700) Q Consensus 268 ~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEI-LA~QH~~~~~~~~~ 346 (700) .-+..||++|+.|+++|.+. .... .-||+|..|||||.|++-++..++..|.||.+|+| || |+.|-.+.|++.|+ T Consensus 164 ~~~~~L~~eQ~~a~~~i~~~-~~~~--~~LL~GvTGSGKTevYl~li~~~l~~GkqvLiLvP-EI~lt~q~~~rl~~~fg 239 (699) T PRK05580 164 TEPPTLNEEQAAALAAIRAA-GGFS--AFLLDGVTGSGKTEVYLQAIAEALAQGKQALVLVP-EIALTPQLLARFRARFG 239 (699) T ss_pred CCCCCCCHHHHHHHHHHHHC-CCCC--CEEEECCCCCHHHHHHHHHHHHHHHCCCCEEEEEC-CHHHHHHHHHHHHHHHC T ss_conf 67878899999999999855-8887--17874789860799999999999973997899917-67878999999998709 Q ss_pred CCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEEC-HHHCCCCCCCCCCCEEEECCCC----------CCCHHHHHHHH Q ss_conf 578658996246422566768776213475486411-1201334554444178852101----------33568899874 Q gi|254780945|r 347 NTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGT-HALFQDSIQYYKLILVIVDEQH----------RFGVQQRLKLT 415 (700) Q Consensus 347 ~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGT-HAL~q~~v~F~~LgLvViDEQH----------RFGV~QR~~L~ 415 (700) .++++++++++.++|.+.|.++.+|+++||||| .|+| ..|+||||+||||+| ||-+..=+.++ T Consensus 240 ---~~v~v~HS~ls~~eR~~~w~~i~~G~~~IVIGtRSAvF---aP~~nLgLIIVDEEhd~SYKq~~~Pry~ARdvA~~R 313 (699) T PRK05580 240 ---ARVAVLHSGLSDGERYRAWLAALRGEARVVIGTRSALF---APFKNLGLIIVDEEHDDSYKQQDGPRYHARDVAVLR 313 (699) T ss_pred ---CCEEEECCCCCHHHHHHHHHHHHCCCCEEEEECCCEEE---CCCCCCCEEEEECCCCHHHCCCCCCCCCHHHHHHHH T ss_conf ---95799648898579999999997699719997360110---657898489997365454446668761199999999 Q ss_pred HCCCCCCCEEECHHHHHHHHHHHHHHCCCHHHHCCCCCCCCCCEEEEEECCC--------H-HHHHHHHHHHHCCCCEEE Q ss_conf 0256776101010132278999975201011110235576662079997020--------0-268999976310387389 Q gi|254780945|r 416 QKATAPHVLLMTATPIPRTLVLTSLGDIDISKITEKPAGRKPIKTVIIPINR--------I-DEVIERLKVVLSEGKKAY 486 (700) Q Consensus 416 ~Kg~~ph~L~MtATPIPRTLal~~ygdldvS~i~e~P~gR~~I~T~~~~~~~--------~-~~~~~~i~~~l~~g~q~y 486 (700) .+-.+..++..||||==.|...+.-|......+++...+...-.-.++...+ + ..+++.|++.|++|+||. T Consensus 314 a~~~~~~liLgSaTPSlEs~~~~~~g~~~~~~l~~r~~~~~~P~v~ivDm~~~~~~~~~~ls~~l~~~i~~~L~~g~qvl 393 (699) T PRK05580 314 AKQEGCPVVLGSATPSLESLANAESGKYHLLRLTRRAGAAALPRVEIIDMREEPLERGAGLSPPLLEAIREALERGEQVL 393 (699) T ss_pred HHHHCCCEEECCCCCCHHHHHHHHCCCCEEECCCCCCCCCCCCEEEECCCCCCCCCCCCCCCHHHHHHHHHHHHCCCEEE T ss_conf 99849988961689999999999759976644653223478983793354214100257546999999999997388479 Q ss_pred EEECCCC-------------------------C-------------------------CCCCC--CCHHHHHHHHHHHHC Q ss_conf 9971201-------------------------2-------------------------21112--101466666668663 Q gi|254780945|r 487 WICPQIE-------------------------E-------------------------KKESN--FRSVVERFNSLHEHF 514 (700) Q Consensus 487 ~VcPlIe-------------------------e-------------------------se~~~--~~~~~~~~~~l~~~~ 514 (700) +.-|.=. . |.+.. -...+...++|++.| T Consensus 394 l~lnRrGya~~~~C~~Cg~~~~C~~C~~~L~~h~~~~~l~Ch~Cg~~~~~~~~Cp~Cgs~~l~~~g~Gteri~eel~~~F 473 (699) T PRK05580 394 LFLNRRGYAPFLLCRDCGWVARCPHCDGPLTLHRAGRRLRCHHCGYQEPIPRACPECGSTDLRAVGVGTERTEEELARLF 473 (699) T ss_pred EEECCCCCCCEEECHHCCCEEECCCCCCEEEECCCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHC T ss_conf 99547752251474531994565678986342068983322646883657554656799752411168599999999778 Q ss_pred CC-CEECCCCCC--CHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHC-----------CHHHHHHHH Q ss_conf 71-031201469--9899999999975598699998003410468887658998585254-----------746887730 Q gi|254780945|r 515 TS-SIAIIHGRM--SDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHF-----------GLAQLHQLR 580 (700) Q Consensus 515 ~~-~v~~lHGkm--~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerf-----------GLsqLHQLR 580 (700) |+ +|..+.+-- +...-+.++++|.+|++||||.|..|--|.|.||.++.+|.|||.. -...|+|.= T Consensus 474 P~~~i~r~d~d~~~~~~~~~~~~~~~~~~~~dIlvGTqmiakG~df~~v~lv~vldaD~~l~~pd~ra~E~~~qll~qva 553 (699) T PRK05580 474 PGARVLRIDRDTTRRKGALEQLLEDFARGEADILVGTQMLAKGHDFPNVTLVGVLDADTGLFSPDFRAAERTFQLLTQVA 553 (699) T ss_pred CCCCEEEECCCCCCCCCCHHHHHHHHHCCCCCEEECCCCCCCCCCCCCEEEEEEECHHHHCCCCCCCHHHHHHHHHHHHH T ss_conf 99988998475567863168899997468987897773345567777626998732265354888347999999999998 Q ss_pred HCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHCHHHHHHHHHHHHCCCCCCCCCHHCCCCCCC-CCCHHHHHHHHHHH Q ss_conf 11667898359999708889987999999998414258999999852063000260006987440-00388759999999 Q gi|254780945|r 581 GRVGRGEEISSCILLYHPPLSKNSYTRLSVLKNTEDGFLIAEEDLKQRKEGEILGIKQSGMPKFL-IAQPELHDSLLEIA 659 (700) Q Consensus 581 GRVGRg~~~s~c~l~~~~~~~~~~~~Rl~~l~~~~dGf~iAe~Dl~lRG~G~~~G~~QsG~~~~~-~~d~~~d~~ll~~a 659 (700) ||+||+.++|..++-+..+.+.. ++.+.+ .|-...++..|+.| ++.++|.|. ++-+.-...-.+.+ T Consensus 554 gragr~~~~g~viiQt~~p~~~~----~~~l~~-~d~~~f~~~el~~R--------~~~~~PPf~~l~~i~~~~~~~~~~ 620 (699) T PRK05580 554 GRAGRAEKPGEVLIQTYEPEHPL----LQALLR-WDYDAFAEAELAER--------REAGLPPFVRLALVRGSAKAVAKA 620 (699) T ss_pred HHHCCCCCCCEEEEEECCCCCHH----HHHHHH-CCHHHHHHHHHHHH--------HHCCCCCHHHHHEEEEECCCHHHH T ss_conf 76556788987999937999899----999996-89999999999999--------970999868751789953999999 Q ss_pred HHHHHHH Q ss_conf 9999999 Q gi|254780945|r 660 RKDAKHI 666 (700) Q Consensus 660 ~~~a~~~ 666 (700) .+.+..+ T Consensus 621 ~~~~~~~ 627 (699) T PRK05580 621 LKFAQQL 627 (699) T ss_pred HHHHHHH T ss_conf 9999999 No 8 >COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair] Probab=100.00 E-value=1.1e-32 Score=275.86 Aligned_cols=393 Identities=24% Similarity=0.349 Sum_probs=292.7 Q ss_pred CCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHH-HHHHHHHHHHHHCCC Q ss_conf 0246798899999999984100134307886214422369999997334443054588612799-999999862110145 Q gi|254780945|r 269 IPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGI-LAQQHYEFIKKYTQN 347 (700) Q Consensus 269 LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEI-LA~QH~~~~~~~~~~ 347 (700) -+..|+..|+.|++.|...+.... .-||+|..|||||.|.+-++..++..|+||.+|+| || |..|-.+.|+.+|+ T Consensus 195 ~~~~Ln~~Q~~a~~~i~~~~~~~~--~~Ll~GvTGSGKTEvYl~~i~~~L~~GkqvLvLVP-EI~Ltpq~~~rf~~rFg- 270 (730) T COG1198 195 EWLALNQEQQAAVEAILSSLGGFA--PFLLDGVTGSGKTEVYLEAIAKVLAQGKQVLVLVP-EIALTPQLLARFKARFG- 270 (730) T ss_pred CCCCCCHHHHHHHHHHHHHCCCCC--CEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEC-CCCCHHHHHHHHHHHHC- T ss_conf 311038899999999997505666--53676777885899999999999975987999956-53456999999999867- Q ss_pred CCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEEC-HHHCCCCCCCCCCCEEEECCCCCCCHHH----------HHHHHH Q ss_conf 78658996246422566768776213475486411-1201334554444178852101335688----------998740 Q gi|254780945|r 348 TQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGT-HALFQDSIQYYKLILVIVDEQHRFGVQQ----------RLKLTQ 416 (700) Q Consensus 348 ~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGT-HAL~q~~v~F~~LgLvViDEQHRFGV~Q----------R~~L~~ 416 (700) .+|+.++++++.++|.+.|.++.+|++.||||| .||| ..|+||||+||||+|--.-.| =+.++. T Consensus 271 --~~v~vlHS~Ls~~er~~~W~~~~~G~~~vVIGtRSAlF---~Pf~~LGLIIvDEEHD~sYKq~~~prYhARdvA~~Ra 345 (730) T COG1198 271 --AKVAVLHSGLSPGERYRVWRRARRGEARVVIGTRSALF---LPFKNLGLIIVDEEHDSSYKQEDGPRYHARDVAVLRA 345 (730) T ss_pred --CCHHHHCCCCCHHHHHHHHHHHHCCCCEEEEEECHHHC---CCHHHCCEEEEECCCCCCCCCCCCCCCCHHHHHHHHH T ss_conf --87453146579278999999985597159997122330---7231257699702456432477777767899999998 Q ss_pred CCCCCCCEEECHHHHHHHHHHHHHHCCCHHHHCCCCCCCCCCEEEEEECCC----H-----HHHHHHHHHHHCCCCEEEE Q ss_conf 256776101010132278999975201011110235576662079997020----0-----2689999763103873899 Q gi|254780945|r 417 KATAPHVLLMTATPIPRTLVLTSLGDIDISKITEKPAGRKPIKTVIIPINR----I-----DEVIERLKVVLSEGKKAYW 487 (700) Q Consensus 417 Kg~~ph~L~MtATPIPRTLal~~ygdldvS~i~e~P~gR~~I~T~~~~~~~----~-----~~~~~~i~~~l~~g~q~y~ 487 (700) +-.+.-++.=||||==-|.+...-|.-....+.....+-.+..-.++...+ . ..+++.|++.+++|+|+-+ T Consensus 346 ~~~~~pvvLgSATPSLES~~~~~~g~y~~~~L~~R~~~a~~p~v~iiDmr~e~~~~~~~lS~~Ll~~i~~~l~~geQ~ll 425 (730) T COG1198 346 KKENAPVVLGSATPSLESYANAESGKYKLLRLTNRAGRARLPRVEIIDMRKEPLETGRSLSPALLEAIRKTLERGEQVLL 425 (730) T ss_pred HHCCCCEEEECCCCCHHHHHHHHCCCEEEEECCCCCCCCCCCCCEEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEE T ss_conf 86099889826887789998665385589970354555678762587356665546775799999999999842986899 Q ss_pred EECC--------------------CC------------------------------CCCCCC--CCHHHHHHHHHHHHCC Q ss_conf 9712--------------------01------------------------------221112--1014666666686637 Q gi|254780945|r 488 ICPQ--------------------IE------------------------------EKKESN--FRSVVERFNSLHEHFT 515 (700) Q Consensus 488 VcPl--------------------Ie------------------------------ese~~~--~~~~~~~~~~l~~~~~ 515 (700) .-|. -+ .|+.+- -...+...++|++.|| T Consensus 426 flnRRGys~~l~C~~Cg~v~~Cp~Cd~~lt~H~~~~~L~CH~Cg~~~~~p~~Cp~Cgs~~L~~~G~GterieeeL~~~FP 505 (730) T COG1198 426 FLNRRGYAPLLLCRDCGYIAECPNCDSPLTLHKATGQLRCHYCGYQEPIPQSCPECGSEHLRAVGPGTERIEEELKRLFP 505 (730) T ss_pred EECCCCCCCEEECCCCCCCCCCCCCCCCEEEECCCCEEEECCCCCCCCCCCCCCCCCCCEEEEECCCHHHHHHHHHHHCC T ss_conf 97167765400425689802489999512786479806707799989988779899997369964619999999998789 Q ss_pred C-CEECCCCCCCH--HHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHH-C----------CHHHHHHHHH Q ss_conf 1-03120146998--9999999997559869999800341046888765899858525-4----------7468877301 Q gi|254780945|r 516 S-SIAIIHGRMSD--IDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEH-F----------GLAQLHQLRG 581 (700) Q Consensus 516 ~-~v~~lHGkm~~--~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aer-f----------GLsqLHQLRG 581 (700) + +|.-+-+-... ..-+..+++|.+||+||||.|..|--|.|.||.|+..|.|||- + ....|.|.=| T Consensus 506 ~~rv~r~d~Dtt~~k~~~~~~l~~~~~ge~dILiGTQmiaKG~~fp~vtLVgvl~aD~~L~~~DfRAsEr~fqll~QvaG 585 (730) T COG1198 506 GARIIRIDSDTTRRKGALEDLLDQFANGEADILIGTQMIAKGHDFPNVTLVGVLDADTGLGSPDFRASERTFQLLMQVAG 585 (730) T ss_pred CCCEEEECCCCCCCHHHHHHHHHHHHCCCCCEEECCHHHHCCCCCCCCEEEEEEECHHHHCCCCCCHHHHHHHHHHHHHH T ss_conf 99479984666664356899999975799886634166642788666318999963143158884357899999999975 Q ss_pred CCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHCHHHHHHHHHHHHCCCCCCCCCHHCCCCCCCCC-CHH----HHHHHH Q ss_conf 166789835999970888998799999999841425899999985206300026000698744000-388----759999 Q gi|254780945|r 582 RVGRGEEISSCILLYHPPLSKNSYTRLSVLKNTEDGFLIAEEDLKQRKEGEILGIKQSGMPKFLIA-QPE----LHDSLL 656 (700) Q Consensus 582 RVGRg~~~s~c~l~~~~~~~~~~~~Rl~~l~~~~dGf~iAe~Dl~lRG~G~~~G~~QsG~~~~~~~-d~~----~d~~ll 656 (700) |.||++++|--++-+-.+ +..+.+ .++.+-.++| +|.-|+.| ++-|+|.|... -+. .....+ T Consensus 586 RAgR~~~~G~VvIQT~~P-~hp~i~--~~~~~dy~~F--~~~El~~R--------k~~~~PPf~~l~~v~~~~~~~~~~~ 652 (730) T COG1198 586 RAGRAGKPGEVVIQTYNP-DHPAIQ--ALKRGDYEAF--YEQELAER--------KELGLPPFSRLAAVIASAKNEEKAL 652 (730) T ss_pred HHCCCCCCCEEEEEECCC-CCHHHH--HHHHCCHHHH--HHHHHHHH--------HHCCCCCHHHHEEEEECCCCHHHHH T ss_conf 532678898699996799-857999--9986699999--99999988--------8618997065446673378989999 Q ss_pred HHHHHHH---HHHHHHCCCCCCCCCHHHHH Q ss_conf 9999999---99998484636655648899 Q gi|254780945|r 657 EIARKDA---KHILTQDPDLTSVRGQSIRI 683 (700) Q Consensus 657 ~~a~~~a---~~~~~~d~~l~~~~~~~l~~ 683 (700) +.++..+ +.....|..+-.|-...+.. T Consensus 653 ~~~~~~~~~l~~~~~~~~~vLGP~~a~~~r 682 (730) T COG1198 653 EFARALRELLKEALPVDVEVLGPAPAPLAK 682 (730) T ss_pred HHHHHHHHHHHHCCCCCCEEECCCCCHHHH T ss_conf 999999999986275565046887562677 No 9 >PRK11192 ATP-dependent RNA helicase SrmB; Provisional Probab=99.97 E-value=1.6e-26 Score=227.60 Aligned_cols=332 Identities=19% Similarity=0.256 Sum_probs=238.0 Q ss_pred CCCCHHHHHHHHHCCC-CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHH-------HHCCEEEE Q ss_conf 8775789999863024-679889999999998410013430788621442236999999733444-------30545886 Q gi|254780945|r 256 NVEGKIAQKILRNIPF-SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVE-------AGGQAVIM 327 (700) Q Consensus 256 ~~~~~~~~~f~~~LPF-~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~-------~G~Q~alM 327 (700) ..+..+.+.+ +.+.| ++|.=|..||-.|.+. -+-+++.-.|||||+.+++.++.-+. ++-++.++ T Consensus 9 ~L~~~l~~~L-~~~g~~~pT~IQ~~aIp~il~g------~dvl~~A~TGSGKTlaylLPil~~l~~~~~~~~~~~~~LIl 81 (417) T PRK11192 9 DLDPSLLEAL-QDKGYTRPTAIQAEAIPPALDG------RDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILIL 81 (417) T ss_pred CCCHHHHHHH-HHCCCCCCCHHHHHHHHHHHCC------CCEEEECCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEEE T ss_conf 9899999999-9779999999999999999779------98899899986799999999999987521036899649999 Q ss_pred EHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHH-----HCCCCCCCCCCCEEEECC Q ss_conf 127999999998621101457865899624642256676877621347548641112-----013345544441788521 Q gi|254780945|r 328 APIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHA-----LFQDSIQYYKLILVIVDE 402 (700) Q Consensus 328 aPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHA-----L~q~~v~F~~LgLvViDE 402 (700) +||--||.|.++.++.+....++++.+++|+++..+..+.+. ..++|+|||-. +-+..+.++++.++|+|| T Consensus 82 ~PTrELa~Qi~~~~~~l~~~~~i~~~~i~Gg~~~~~q~~~l~----~~~dIlV~TPgRL~~~l~~~~~~l~~l~~lVlDE 157 (417) T PRK11192 82 TPTRELAMQVADQARELAKHTHLDIATITGGVAYMNHAEVFS----ENQDIVVATPGRLLQYIKEENFDCRAVETLILDE 157 (417) T ss_pred ECHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCHHHHHHHHH----CCCCEEEECCCHHHHHHHHCCCCCCCCCEEEEEC T ss_conf 471999999999999864005730599856878799999983----6999899786077778863670104574899967 Q ss_pred CCCCCH----HHHHHHHHC-CCCCCCEEECHHHH---HHHHHHHHHHCCCHHHHCCCCCCC--CCCEEEEEECCCHHHHH Q ss_conf 013356----889987402-56776101010132---278999975201011110235576--66207999702002689 Q gi|254780945|r 403 QHRFGV----QQRLKLTQK-ATAPHVLLMTATPI---PRTLVLTSLGDIDISKITEKPAGR--KPIKTVIIPINRIDEVI 472 (700) Q Consensus 403 QHRFGV----~QR~~L~~K-g~~ph~L~MtATPI---PRTLal~~ygdldvS~i~e~P~gR--~~I~T~~~~~~~~~~~~ 472 (700) -||.=- .+=..+... ......+.+|||-= -+.++-.+..+ -..|...|+++ ..|.-.++..++.+.-+ T Consensus 158 AD~mld~gF~~~i~~I~~~~~~~~Q~llfSATl~~~~v~~l~~~~l~~--p~~i~~~~~~~~~~~i~q~~~~~~~~~~k~ 235 (417) T PRK11192 158 ADRMLDMGFAQDVEHIAAETRWRKQTLLFSATLEGDGVQDFAERLLND--PVEVDAEPSRRERKKIHQWYYRADDLEHKT 235 (417) T ss_pred CCCCCCCCCHHHHHHHHHHCCCCCEEEEEEEECCHHHHHHHHHHHCCC--CEEEEECCCCCCCCCEEEEEEEECCHHHHH T ss_conf 552111354789999986476772389997326847899999983679--889996467666674369999937689999 Q ss_pred HHHHHHHCC--CCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHH Q ss_conf 999763103--873899971201221112101466666668663710312014699899999999975598699998003 Q gi|254780945|r 473 ERLKVVLSE--GKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTV 550 (700) Q Consensus 473 ~~i~~~l~~--g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtv 550 (700) ..+..-+.. ..|+.|-|... ..++..++.|.+. +-++..+||.|+.++++++|++|++|+++|||||-| T Consensus 236 ~~L~~ll~~~~~~k~iIF~~t~--------~~~~~l~~~L~~~-g~~~~~lhg~l~q~~R~~~l~~F~~g~~~vLVaTDv 306 (417) T PRK11192 236 ALLCHLLKQEEVTRSIVFVRTR--------ERVHELAGWLRKA-GINCCYLEGEMVQKKRNEAIKRLTDGRVNVLVATDV 306 (417) T ss_pred HHHHHHHHCCCCCCCEEEECCH--------HHHHHHHHHHHCC-CCCEEEECCCCCHHHHHHHHHHHHCCCCCEEEECCH T ss_conf 9999998534766521531124--------6676898865314-883575400179999999999997699989998124 Q ss_pred HHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHH Q ss_conf 4104688876589985852547468877301166789835999970888998799999999841 Q gi|254780945|r 551 IEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILLYHPPLSKNSYTRLSVLKNT 614 (700) Q Consensus 551 iEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~~~~~~~~~~Rl~~l~~~ 614 (700) ..-|+|+|+.+..|-+|.=+---+=+|. =||.||.+..|.|+-++.+. -...|+.+++. T Consensus 307 aaRGiDi~~V~~VInyd~P~~~~~YvHR-iGRTGR~G~~G~ait~v~~~----d~~~~~~ie~~ 365 (417) T PRK11192 307 AARGIDIDDISHVINFDMPRSADTYLHR-IGRTGRAGKKGTAISLVEAH----DHLLLGKIERY 365 (417) T ss_pred HHCCCCCCCCCEEEEECCCCCHHHHHHH-CCHHHCCCCCEEEEEEECHH----HHHHHHHHHHH T ss_conf 3467770469889997999988892330-67723489954899987489----99999999999 No 10 >PRK01172 ski2-like helicase; Provisional Probab=99.95 E-value=3.2e-24 Score=209.52 Aligned_cols=319 Identities=19% Similarity=0.285 Sum_probs=235.0 Q ss_pred HHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHH Q ss_conf 78999986302467988999999999841001343078862144223699999973344430545886127999999998 Q gi|254780945|r 260 KIAQKILRNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYE 339 (700) Q Consensus 260 ~~~~~f~~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~ 339 (700) +.+.+|.++-.|+|-+-|..|++.+. .++ |-++.--.|||||+||.+||+.++..|..+.+++|+--||+|-|+ T Consensus 10 ~~~~~~~~~~g~~l~p~Q~ea~~~~~----~gk--NllvsaPTgsGKTlvAe~ai~~~l~~~~k~iyi~P~kAL~~EK~~ 83 (674) T PRK01172 10 DEFLNLFTGNDFELYDHQRMAIEQLR----KGE--NVIVSVPTAAGKTLIAYSAIYETFLAGLKSIYIVPLRSLAMEKYE 83 (674) T ss_pred HHHHHHHHHCCCCCCHHHHHHHHHHH----CCC--CEEEECCCCCCHHHHHHHHHHHHHHHCCCEEEECCHHHHHHHHHH T ss_conf 79999999679988989999999997----799--599978999869999999999999858979998778999999999 Q ss_pred HHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEEC----HHHCCCC-CCCCCCCEEEECCCCCCCHHHHHHH Q ss_conf 6211014578658996246422566768776213475486411----1201334-5544441788521013356889987 Q gi|254780945|r 340 FIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGT----HALFQDS-IQYYKLILVIVDEQHRFGVQQRLKL 414 (700) Q Consensus 340 ~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGT----HAL~q~~-v~F~~LgLvViDEQHRFGV~QR~~L 414 (700) .|+++ .++|++|...||....... ..+..+|+|-| ++|+..+ -.++++|+|||||=|=.|=..|-.. T Consensus 84 ~~~~~-~~~g~~v~~~tGd~~~~~~-------~~~~~~I~V~T~Ek~~sl~~~~~~~l~~v~~vViDEiH~i~d~~RG~~ 155 (674) T PRK01172 84 ELSRL-RSLGMRVKISIGDYDDPPD-------FIKRYDVVILTSEKADSLIHHDPYIINDVGLIVADEIHIIGDEDRGPT 155 (674) T ss_pred HHHHH-HCCCCEEEEEECCCCCCCC-------CCCCCCEEEECHHHHHHHHHCCCHHHCCCCEEEEECCEECCCCCCHHH T ss_conf 99988-7379827788538889801-------025589999878999999864950221369899826525068772499 Q ss_pred HH--------CCCCCCCEEECHHHHHHH--HHHHHHHCCCHHHHCCCCCCCCCCEEEEEECCC---------HHHHHHHH Q ss_conf 40--------256776101010132278--999975201011110235576662079997020---------02689999 Q gi|254780945|r 415 TQ--------KATAPHVLLMTATPIPRT--LVLTSLGDIDISKITEKPAGRKPIKTVIIPINR---------IDEVIERL 475 (700) Q Consensus 415 ~~--------Kg~~ph~L~MtATPIPRT--Lal~~ygdldvS~i~e~P~gR~~I~T~~~~~~~---------~~~~~~~i 475 (700) .+ -+..+.++.|||| ||-. +|-=+-+++-.| +..| .|....++..++ ...+...+ T Consensus 156 lE~~l~kl~~l~~~~qiIgLSAT-i~N~~~la~WL~a~~~~~--~~RP---VpL~~~v~~~~~~~~~~~~~~~~~~~~l~ 229 (674) T PRK01172 156 LETVLSSARYVNPDARILALSAT-VSNANELAQWLNASLIKS--NFRP---VPLKLGILYRKRLILDGYERSQVDINSLI 229 (674) T ss_pred HHHHHHHHHHCCCCEEEEEECCC-CCCHHHHHHHHCCCEEEC--CCCC---CCCEEEEEECCCCCCCCHHHCCCCHHHHH T ss_conf 99999999853866079971578-689999998838855647--9998---66089888346011470432345399999 Q ss_pred HHHHCCCCEEEEEECCCCCCCCC------------C--CCH--HHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHC Q ss_conf 76310387389997120122111------------2--101--4666666686637103120146998999999999755 Q gi|254780945|r 476 KVVLSEGKKAYWICPQIEEKKES------------N--FRS--VVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKN 539 (700) Q Consensus 476 ~~~l~~g~q~y~VcPlIeese~~------------~--~~~--~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~ 539 (700) .+.+.+|+||.|-||.=...|+. + +.+ ..-.-+.|.+..+..|+.-|+-|..+|++.|=+.|++ T Consensus 230 ~~~~~~~~~~LVF~~sR~~~e~~A~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~GVafHHaGL~~~eR~lVE~~f~~ 309 (674) T PRK01172 230 KETVNDGGQVLVFVSSRKNAEDYAEMLIQHFPEFNDFKVSSENNNVYDDSLNEMLPHGVAFHHAGLSNEQRRFIEEMFRN 309 (674) T ss_pred HHHHHCCCCEEEEEECHHHHHHHHHHHHHHHHHCCCHHCCHHHHHCCCHHHHHHHHCCEEEECCCCCHHHHHHHHHHHHC T ss_conf 99996699479995075889999999998532101001031543112099999996282830689998999999999986 Q ss_pred CCEEEEEECHHHHCCCCCCCCCEEEEECHHHC--------CHHHHHHHHHCCCCCC--CCEEEEEEECCC Q ss_conf 98699998003410468887658998585254--------7468877301166789--835999970888 Q gi|254780945|r 540 GTCKLLIATTVIEVGIDVVDASIIIIENAEHF--------GLAQLHQLRGRVGRGE--EISSCILLYHPP 599 (700) Q Consensus 540 g~~~iLvaTtviEVGvdvpna~~mvI~~aerf--------GLsqLHQLRGRVGRg~--~~s~c~l~~~~~ 599 (700) |.+++||||+-.-.|||.|.-+|+ |.+-.|| .-++.+|.-||-||-+ ..|+|+++...+ T Consensus 310 g~i~vl~aT~TLAaGVNlPAr~VI-i~~~~r~~~~~~~~l~~~e~~QM~GRAGR~g~D~~G~~ii~~~~~ 378 (674) T PRK01172 310 RYIKVIVATPTLAAGVNLPARLVI-VRDITRYGNGGIRYLSNMEIKQMIGRAGRPGYDQYGIGYIYAASP 378 (674) T ss_pred CCCEEEEECCHHHHHCCCCEEEEE-EEEEEEECCCCEEECCHHHHHHHCCCCCCCCCCCCCCEEEEECCC T ss_conf 996499714467654478605999-930078179971577789899861358999999887089997282 No 11 >PRK11776 ATP-dependent RNA helicase DbpA; Provisional Probab=99.95 E-value=1.5e-23 Score=204.25 Aligned_cols=332 Identities=21% Similarity=0.334 Sum_probs=232.0 Q ss_pred CCCCHHHHHHHHHCCC-CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHH---HCCEEEEEHHH Q ss_conf 8775789999863024-6798899999999984100134307886214422369999997334443---05458861279 Q gi|254780945|r 256 NVEGKIAQKILRNIPF-SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEA---GGQAVIMAPIG 331 (700) Q Consensus 256 ~~~~~~~~~f~~~LPF-~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~---G~Q~alMaPTE 331 (700) ..+..+.+. ++.+.| ++|.=|+.||..|.+. + +-+.|.-.|||||+.+++.++.-++. +-|+.+++||- T Consensus 10 ~L~~~ll~a-L~~~G~~~pTpIQ~~aIP~il~G----~--Dvi~~A~TGSGKTlAfllPil~~l~~~~~~~qaLIL~PTR 82 (459) T PRK11776 10 PLPPALLAN-LDELGYTEMTPIQAQSLPAILAG----K--DVIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQALVLCPTR 82 (459) T ss_pred CCCHHHHHH-HHHCCCCCCCHHHHHHHHHHHCC----C--CEEEECCCCCHHHHHHHHHHHHHCCCCCCCCCEEEEECHH T ss_conf 979999999-99779999998999999999779----9--8899889985899999999998411367898599996759 Q ss_pred HHHHHHHHHHHHHCCCC-CCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHH-----HCCCCCCCCCCCEEEECCCCC Q ss_conf 99999998621101457-865899624642256676877621347548641112-----013345544441788521013 Q gi|254780945|r 332 ILAQQHYEFIKKYTQNT-QIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHA-----LFQDSIQYYKLILVIVDEQHR 405 (700) Q Consensus 332 ILA~QH~~~~~~~~~~~-~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHA-----L~q~~v~F~~LgLvViDEQHR 405 (700) =||.|-++.++++-... ++++..++|+.+..+. ...++.| ++|||||-. +-+..+.++++.++|+||-++ T Consensus 83 ELa~QV~~~~~~l~~~~~~ikv~~l~GG~~~~~q---~~~L~~~-~~IvV~TPGRl~d~l~~~~l~l~~v~~lVlDEAD~ 158 (459) T PRK11776 83 ELADQVAKEIRRLARFIPNIKVLTLCGGVPMGPQ---IGSLEHG-AHIIVGTPGRILDHLRKGTLDLDALNTLVLDEADR 158 (459) T ss_pred HHHHHHHHHHHHHHHHCCCCEEEEEECCCCHHHH---HHHHHCC-CCEEEECCHHHHHHHHCCCCCCCCEEEEEEECCHH T ss_conf 9999999999999850588259999899327999---9997469-99999895899988751663223103899706245 Q ss_pred C---CH-HHHHHHHHC-CCCCCCEEECHHHHHHH--HHHHHHHC-CCHHHHCCCCCCCCCCEEEEEECC--CHHHHHHHH Q ss_conf 3---56-889987402-56776101010132278--99997520-101111023557666207999702--002689999 Q gi|254780945|r 406 F---GV-QQRLKLTQK-ATAPHVLLMTATPIPRT--LVLTSLGD-IDISKITEKPAGRKPIKTVIIPIN--RIDEVIERL 475 (700) Q Consensus 406 F---GV-~QR~~L~~K-g~~ph~L~MtATPIPRT--Lal~~ygd-ldvS~i~e~P~gR~~I~T~~~~~~--~~~~~~~~i 475 (700) . |- ++=..+.+. ......+.+|||=-+.. ++-.+..+ .-+. +.... ....|.-+++..+ ++..+...+ T Consensus 159 mLd~gF~~~i~~Il~~~p~~rQ~~lfSAT~p~~i~~l~~~~l~~p~~i~-v~~~~-~~~~I~q~~~~v~~~~K~~~L~~l 236 (459) T PRK11776 159 MLDMGFQDAIDAIIRQAPARRQTLLFSATYPEGIAAISARFQRDPVEVK-VESTH-DDSTIEQRFYEVDPDERLPALQRL 236 (459) T ss_pred HHCCCCHHHHHHHHHHCCCCCEEEEEECCCCHHHHHHHHHHCCCCEEEE-ECCCC-CCCCCEEEEEEECHHHHHHHHHHH T ss_conf 4327866889999986881302688845689899999999778989999-67877-798637999997718789999999 Q ss_pred HHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCC Q ss_conf 76310387389997120122111210146666666866371031201469989999999997559869999800341046 Q gi|254780945|r 476 KVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGI 555 (700) Q Consensus 476 ~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGv 555 (700) -... +..++.|-|... ..+++.++.|++. +-.+..+||.|+..+++++|++|++|+++|||||.|..=|+ T Consensus 237 l~~~-~~~~~IIFcntk--------~~v~~l~~~L~~~-g~~~~~lHg~m~q~~R~~~l~~F~~g~~~iLVaTDvaaRGI 306 (459) T PRK11776 237 LLHY-RPESCVVFCNTK--------KECQEVADALNAQ-GFSALALHGDLEQRDRDQVLVRFANRSCSVLVATDVAARGL 306 (459) T ss_pred HHHC-CCCCEEEEECCH--------HHHHHHHHHHHHC-CCCEEEEECCCCHHHHHHHHHHHHCCCCCEEEEHHHHHCCC T ss_conf 9736-876603761748--------9999999999867-99689987999999999999999779997998810434767 Q ss_pred CCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHC Q ss_conf 888765899858525474688773011667898359999708889987999999998414 Q gi|254780945|r 556 DVVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILLYHPPLSKNSYTRLSVLKNTE 615 (700) Q Consensus 556 dvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~~~~~~~~~~Rl~~l~~~~ 615 (700) |+|+.+..|-+|.-.-=-+=+|- =||.||.++.|.||.+..+ .-..+|+.+++.. T Consensus 307 Di~~V~~VInyDlP~~~e~YvHR-iGRTGRaG~~G~ait~vt~----~e~~~l~~ie~~~ 361 (459) T PRK11776 307 DIKSLEAVINYELARDPEVHVHR-IGRTGRAGSKGLALSLVAP----EEMQRAAAIEDYL 361 (459) T ss_pred CCCCCCEEEEECCCCCHHHHHHC-CCHHHCCCCCEEEEEEECH----HHHHHHHHHHHHH T ss_conf 71359889997898974552020-5251378996579999868----9999999999997 No 12 >PRK11634 ATP-dependent RNA helicase DeaD; Provisional Probab=99.94 E-value=7.2e-23 Score=198.95 Aligned_cols=331 Identities=20% Similarity=0.282 Sum_probs=232.7 Q ss_pred CCCHHHHHHHHHCCC-CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHH---HCCEEEEEHHHH Q ss_conf 775789999863024-6798899999999984100134307886214422369999997334443---054588612799 Q gi|254780945|r 257 VEGKIAQKILRNIPF-SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEA---GGQAVIMAPIGI 332 (700) Q Consensus 257 ~~~~~~~~f~~~LPF-~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~---G~Q~alMaPTEI 332 (700) .+..+++. ++.+.| ++|.=|++||--|... -+-+.|--.|||||+-.++.++..++. +-|+.++|||-= T Consensus 13 L~~~ll~a-L~~~Gf~~PTpIQ~~aIP~iL~G------kDvi~~AqTGSGKTlAFlLPiL~~l~~~~~~pqaLIL~PTRE 85 (629) T PRK11634 13 LKAPILEA-LNDLGYEKPSPIQAECIPHLLNG------RDVLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILVLAPTRE 85 (629) T ss_pred CCHHHHHH-HHHCCCCCCCHHHHHHHHHHHCC------CCEEEECCCCCHHHHHHHHHHHHHHHHCCCCCCEEEECCCHH T ss_conf 89999999-99879999999999999999679------988997888478999999999998662368986899789989 Q ss_pred HHHHHHHHHHHHCCCC-CCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHH-H----CCCCCCCCCCCEEEECCCCC- Q ss_conf 9999998621101457-865899624642256676877621347548641112-0----13345544441788521013- Q gi|254780945|r 333 LAQQHYEFIKKYTQNT-QIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHA-L----FQDSIQYYKLILVIVDEQHR- 405 (700) Q Consensus 333 LA~QH~~~~~~~~~~~-~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHA-L----~q~~v~F~~LgLvViDEQHR- 405 (700) ||.|-++.++.+...+ ++++..+.|+.+.. ..+..++.| ++|||||-. | -...+.++++-.+|+||=.+ T Consensus 86 LA~QV~~~~~~l~~~~~~i~v~~l~GG~~~~---~q~~~L~~g-~~IVVgTPGRL~d~l~~~~l~L~~l~~lVLDEAD~m 161 (629) T PRK11634 86 LAVQVAEAMTDFSKHMRGVNVVALYGGQRYD---VQLRALRQG-PQIVVGTPGRLLDHLKRGTLDLSKLSGLVLDEADEM 161 (629) T ss_pred HHHHHHHHHHHHHHCCCCCEEEEEECCCCHH---HHHHHHCCC-CCEEEECHHHHHHHHHCCCCCHHHCCEEEEECHHHH T ss_conf 9999999999997217997799998997789---999986279-999996989999999729641200767898671553 Q ss_pred ----CCHHHHHHHHHC-CCCCCCEEECHHHHH--HHHHHHHHHCCCHHHHCCCCCCCCCCEEEEEEC--C-CHHHHHHHH Q ss_conf ----356889987402-567761010101322--789999752010111102355766620799970--2-002689999 Q gi|254780945|r 406 ----FGVQQRLKLTQK-ATAPHVLLMTATPIP--RTLVLTSLGDIDISKITEKPAGRKPIKTVIIPI--N-RIDEVIERL 475 (700) Q Consensus 406 ----FGV~QR~~L~~K-g~~ph~L~MtATPIP--RTLal~~ygdldvS~i~e~P~gR~~I~T~~~~~--~-~~~~~~~~i 475 (700) |- ++=..+.+. ......++.|||-=+ +.++-.+..+-..-.+......+..|.-.++.. . +.+.+...+ T Consensus 162 L~~gF~-~di~~Il~~lp~~~Qt~LfSATmp~~i~~la~~~l~~P~~i~i~~~~~t~~~i~q~~~~v~~~~K~~aL~~~L 240 (629) T PRK11634 162 LRMGFI-EDVETIMAQIPEGHQTALFSATMPEAIRRITRRFMKEPQEVRIQSSVTTRPDISQSYWTVWGMRKNEALVRFL 240 (629) T ss_pred CCCCCH-HHHHHHHHHCCCCCEEEEEECCCCHHHHHHHHHHCCCCEEEEECCCCCCCCCCEEEEEEECCHHHHHHHHHHH T ss_conf 363659-9999999867403144666314659999999987569879740455555776305999965245799999998 Q ss_pred HHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCC Q ss_conf 76310387389997120122111210146666666866371031201469989999999997559869999800341046 Q gi|254780945|r 476 KVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGI 555 (700) Q Consensus 476 ~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGv 555 (700) .. ..-.++.|-|... ..+.+.++.|.+ .+.++..+||.|+..+++.+|++|++|+++|||||-|.-=|+ T Consensus 241 ~~--~~~~~~IIF~~Tk--------~~~~~l~~~L~~-~g~~~~~LHgdm~q~~R~~~l~~Fr~g~~~ILVaTDvaARGL 309 (629) T PRK11634 241 EA--EDFDAAIIFVRTK--------NATLEVAEALER-NGYNSAALNGDMNQALREQTLERLKDGRLDILIATDVAARGL 309 (629) T ss_pred HH--CCCCEEEEEEECH--------HHHHHHHHHHHH-CCCCEEEEECCCCHHHHHHHHHHHHCCCCCEEEECCCCCCCC T ss_conf 61--5888489998227--------889999999997-699657656899999999999999759998898786210557 Q ss_pred CCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHC Q ss_conf 888765899858525474688773011667898359999708889987999999998414 Q gi|254780945|r 556 DVVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILLYHPPLSKNSYTRLSVLKNTE 615 (700) Q Consensus 556 dvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~~~~~~~~~~Rl~~l~~~~ 615 (700) |||+.+..|-+|.=.---+=+|- =||.||.+.+|.|+++..+. -+..|+.++... T Consensus 310 Di~~V~~VINyDlP~d~e~YVHR-iGRTGRaGr~G~Aitfv~~~----e~~~l~~ier~~ 364 (629) T PRK11634 310 DVERISLVVNYDIPMDSESYVHR-IGRTGRAGRAGRALLFVENR----ERRLLRNIERTM 364 (629) T ss_pred CCCCCCEEEEECCCCCHHHCCCC-CCCCCCCCCCEEEEEEECHH----HHHHHHHHHHHH T ss_conf 72568889996898974340102-58331689964699988889----999999999997 No 13 >PRK02362 ski2-like helicase; Provisional Probab=99.94 E-value=1e-23 Score=205.60 Aligned_cols=320 Identities=20% Similarity=0.292 Sum_probs=232.3 Q ss_pred HHHHHHHHCCC-CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHH Q ss_conf 89999863024-67988999999999841001343078862144223699999973344430545886127999999998 Q gi|254780945|r 261 IAQKILRNIPF-SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYE 339 (700) Q Consensus 261 ~~~~f~~~LPF-~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~ 339 (700) .+.++++...+ +|-+-|..|++. .+-.++ |=++.-=.|||||+||-+||+.++..|..+.+++|+--||+|-|. T Consensus 11 ~~~~~~~~~gI~~Lyp~Q~eal~~---gl~~g~--NlvvsaPTgsGKTlvAElail~~l~~g~k~vYi~P~kALa~EK~~ 85 (736) T PRK02362 11 GVIDFYEGSGIEELYPPQAEAVEA---GLLEGK--NLLAAIPTASGKTLLAELAMLKAIAEGGKALYIVPLRALASEKFE 85 (736) T ss_pred HHHHHHHHCCCCCCCHHHHHHHHH---HHCCCC--CEEEECCCCCCHHHHHHHHHHHHHHHCCEEEEECCHHHHHHHHHH T ss_conf 999999976997578999999986---435698--189979999858999999999999839979998587999999999 Q ss_pred HHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEEC----HHHCCCCC-CCCCCCEEEECCCCCCCHHHHHHH Q ss_conf 6211014578658996246422566768776213475486411----12013345-544441788521013356889987 Q gi|254780945|r 340 FIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGT----HALFQDSI-QYYKLILVIVDEQHRFGVQQRLKL 414 (700) Q Consensus 340 ~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGT----HAL~q~~v-~F~~LgLvViDEQHRFGV~QR~~L 414 (700) .|++ |.++|++|.++||......+ . -+..+|+|-| .+|+.... -+.++|+|||||=|=.|=..|-.. T Consensus 86 ~~~~-~~~~gi~V~~~tGd~~~~~~-----~--l~~~dIiV~T~EK~dsl~r~~~~~l~~v~lVViDEiHli~d~~RG~~ 157 (736) T PRK02362 86 EFSE-FSELGLRVGISTGDYDRRDE-----Y--LGRNDIIVATSEKTDSLLRNGAPWIDDISCVVADEVHLIDSPNRGPT 157 (736) T ss_pred HHHH-HHCCCCEEEEEECCCCCCHH-----H--CCCCCEEEECHHHHHHHHHCCCHHHHCCCEEEEECCEEECCCCCHHH T ss_conf 9998-74579989998089887831-----4--36899999997999999844816765089899817678668872499 Q ss_pred HH--------CCCCCCCEEECHH-HHHHHHHHHHHHCCCHHHHCCCCCCCCCCEEEEE--------------ECCCHHHH Q ss_conf 40--------2567761010101-3227899997520101111023557666207999--------------70200268 Q gi|254780945|r 415 TQ--------KATAPHVLLMTAT-PIPRTLVLTSLGDIDISKITEKPAGRKPIKTVII--------------PINRIDEV 471 (700) Q Consensus 415 ~~--------Kg~~ph~L~MtAT-PIPRTLal~~ygdldvS~i~e~P~gR~~I~T~~~--------------~~~~~~~~ 471 (700) .+ .+.++.++.|||| |=|.-+|--+-+++=.| +-.|. |....++ .....+.. T Consensus 158 lE~~lskl~~~~~~iqiIgLSATl~N~~~la~WL~a~~~~s--~~RPV---~L~~~v~~~~~~~~~~~~~~~~~~~~~~~ 232 (736) T PRK02362 158 LEVTLAKLRRLNPDMQVIALSATIGNADELAAWLDAELVDS--EWRPV---DLREGVFYGGAIHFKDTERELEVPSKDED 232 (736) T ss_pred HHHHHHHHHHCCCCCEEEEEECCCCCHHHHHHHHCCCCCCC--CCCCC---CCEEEEEECCEECCCCCCCHHCCCCCCHH T ss_conf 99999999733877438986245589999999838862158--98886---75565650770103510030002564058 Q ss_pred HHHHHHHHCCCCEEEEEECCCCCCCCCC------------------CCHH---------HHHHHHHHHHCCCCEECCCCC Q ss_conf 9999763103873899971201221112------------------1014---------666666686637103120146 Q gi|254780945|r 472 IERLKVVLSEGKKAYWICPQIEEKKESN------------------FRSV---------VERFNSLHEHFTSSIAIIHGR 524 (700) Q Consensus 472 ~~~i~~~l~~g~q~y~VcPlIeese~~~------------------~~~~---------~~~~~~l~~~~~~~v~~lHGk 524 (700) ...+.+.+.+|+||.|-||-=...|+.- +... ++..+.|++..+..|+.-|.- T Consensus 233 ~~l~~~~~~~~~~~LVF~~SR~~~e~~A~~la~~~~~~~~~~~~~~l~~~~~~i~~~~~~~~~~~L~~~l~~GVafHHAG 312 (736) T PRK02362 233 LNLVLDTLDEGGQCLVFVSSRRNAEAFAKRAASALKKALSAEEREALAGIAEEIREVSETDTSKVLADCVRSGAAFHHAG 312 (736) T ss_pred HHHHHHHHHCCCCEEEEEECHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCEEEECCC T ss_conf 99999999739906999824999999999998752421575668899999999973444203599999996094851599 Q ss_pred CCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHC---------CHHHHHHHHHCCCCC--CCCEEEE Q ss_conf 99899999999975598699998003410468887658998585254---------746887730116678--9835999 Q gi|254780945|r 525 MSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHF---------GLAQLHQLRGRVGRG--EEISSCI 593 (700) Q Consensus 525 m~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerf---------GLsqLHQLRGRVGRg--~~~s~c~ 593 (700) |..++|+.|-+.|++|.++||+||+-.-.|||.|--+|+ |-+-.|| ..++.+|.-||-||- +..|+|+ T Consensus 313 L~~~~R~lVE~~Fr~g~Ikvl~aTsTLA~GVNLPAr~VI-i~~~~~~~~~~g~~~l~~~e~~QM~GRAGRpg~D~~G~ai 391 (736) T PRK02362 313 LSREHRELVEEGFRDGLIKVISSTPTLAAGLNLPARRVI-IRDYRRYDSGAGMQPIPVLEYHQMAGRAGRPRLDPYGEAV 391 (736) T ss_pred CCHHHHHHHHHHHHCCCCCEEEECCHHHCCCCCCEEEEE-EECCEEECCCCCCEECCHHHHHHHHHHCCCCCCCCCCEEE T ss_conf 998999999999987998389725166505578526999-8043673698883368899999998524899889886299 Q ss_pred EEECCC Q ss_conf 970888 Q gi|254780945|r 594 LLYHPP 599 (700) Q Consensus 594 l~~~~~ 599 (700) +++++. T Consensus 392 li~~~~ 397 (736) T PRK02362 392 LLAKSY 397 (736) T ss_pred EEECCH T ss_conf 996782 No 14 >PRK10590 ATP-dependent RNA helicase RhlE; Provisional Probab=99.94 E-value=1.7e-22 Score=196.03 Aligned_cols=320 Identities=18% Similarity=0.271 Sum_probs=227.4 Q ss_pred CCCHHHHHHHHHCCC-CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHH---------CCEEE Q ss_conf 775789999863024-67988999999999841001343078862144223699999973344430---------54588 Q gi|254780945|r 257 VEGKIAQKILRNIPF-SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAG---------GQAVI 326 (700) Q Consensus 257 ~~~~~~~~f~~~LPF-~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G---------~Q~al 326 (700) .+..+++.+ +.+.| ++|.=|.+||-.|.+. -+-+.+--.|||||+.+++.++.-+... .|+.+ T Consensus 8 L~~~ll~aL-~~~G~~~PTpIQ~~aIP~iL~G------rDvl~~A~TGSGKTlAflLPil~~l~~~~~~~~~~~~~~aLI 80 (457) T PRK10590 8 LSPDILRAV-AEQGYREPTPIQQQAIPAVLEG------RDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALI 80 (457) T ss_pred CCHHHHHHH-HHCCCCCCCHHHHHHHHHHHCC------CCEEEECCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCEEEE T ss_conf 899999999-9779999999999999999779------988998898118999999999999863676544568824999 Q ss_pred EEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECH-----HHCCCCCCCCCCCEEEEC Q ss_conf 612799999999862110145786589962464225667687762134754864111-----201334554444178852 Q gi|254780945|r 327 MAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTH-----ALFQDSIQYYKLILVIVD 401 (700) Q Consensus 327 MaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTH-----AL~q~~v~F~~LgLvViD 401 (700) ++||-=||.|-++.++.+-..+++++.++.|+.+.... ...+.. .++|||||= -+-+..+.++++-++|+| T Consensus 81 L~PTRELA~Qi~~~~~~l~~~~~~~~~~~~Gg~~~~~q---~~~l~~-~~dIlVaTPGRLldl~~~~~~~l~~v~~lVlD 156 (457) T PRK10590 81 LTPTRELAAQIGENVRDYSKYLNIRSLVVFGGVSINPQ---MMKLRG-GVDVLVATPGRLLDLEHQNAVKLDQVEILVLD 156 (457) T ss_pred ECCHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHH---HHHHCC-CCCEEEECCHHHHHHHHCCCCCCCCCEEEEEE T ss_conf 76879999999999997425589459999799777599---998618-99989989288898886267765752399983 Q ss_pred CCCCC---C-HHHHHHHHHC-CCCCCCEEECHHHHH--HHHHHHHHHC-CCHHHHCCCCCCCCCCEEEEEE--CCCHHHH Q ss_conf 10133---5-6889987402-567761010101322--7899997520-1011110235576662079997--0200268 Q gi|254780945|r 402 EQHRF---G-VQQRLKLTQK-ATAPHVLLMTATPIP--RTLVLTSLGD-IDISKITEKPAGRKPIKTVIIP--INRIDEV 471 (700) Q Consensus 402 EQHRF---G-V~QR~~L~~K-g~~ph~L~MtATPIP--RTLal~~ygd-ldvS~i~e~P~gR~~I~T~~~~--~~~~~~~ 471 (700) |=+|. | .++=..+..+ ......+..|||==+ +.++-.+..+ ..+++-..-.. -..|.-++.- .++...+ T Consensus 157 EAD~mLd~gF~~di~~Il~~lp~~rQ~llfSAT~~~~v~~l~~~~l~~p~~i~v~~~~~~-~~~i~q~~~~v~~~~k~~~ 235 (457) T PRK10590 157 EADRMLDMGFIHDIRRVLAKLPAKRQNLLFSATFSDDIKALAEKLLHNPLEIEVARRNTA-SEQVTQHVHFVDKKRKREL 235 (457) T ss_pred CCHHHHCCCCHHHHHHHHHHCCCCCEEEEEECCCCHHHHHHHHHHCCCCEEEEECCCCCC-CCCEEEEEEEECHHHHHHH T ss_conf 705651566536689998638765268999504888999999997689889996367665-6130489999566789999 Q ss_pred HHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHH Q ss_conf 99997631038738999712012211121014666666686637103120146998999999999755986999980034 Q gi|254780945|r 472 IERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVI 551 (700) Q Consensus 472 ~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtvi 551 (700) +..+-... ...|+.|-|... ..++..++.|.+. +-.+..+||.|+..+++.+|++|++|+++|||||-|. T Consensus 236 L~~ll~~~-~~~~~iIF~~tk--------~~a~~l~~~L~~~-g~~~~~lHg~~sq~~R~~~l~~F~~g~~~vLVaTDva 305 (457) T PRK10590 236 LSQMIGKG-NWQQVLVFTRTK--------HGANHLAEQLNKD-GIRSAAIHGNKSQGARTRALADFKSGDIRVLVATDIA 305 (457) T ss_pred HHHHHHHC-CCCCEEEEECHH--------HHHHHHHHHHHHC-CCCCEEEECCCCHHHHHHHHHHHHCCCCCEEEECCCC T ss_conf 99998615-866335884119--------9999999998556-9982323247899999999999986998299957701 Q ss_pred HCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEECCC Q ss_conf 104688876589985852547468877301166789835999970888 Q gi|254780945|r 552 EVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILLYHPP 599 (700) Q Consensus 552 EVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~~~ 599 (700) .=|||+|+.+..|=+|.=+---+=+|- =||.||.+..|.|+-++.++ T Consensus 306 aRGiDi~~V~~VInyD~P~~~e~YvHR-iGRTGRaG~~G~ait~v~~~ 352 (457) T PRK10590 306 ARGLDIEELPHVVNYELPNVPEDYVHR-IGRTGRAAATGEALSLVCVD 352 (457) T ss_pred CCCCCCCCCCEEEEECCCCCHHHEECC-CCCCCCCCCCEEEEEEECHH T ss_conf 155663568879993899974450022-67060589953699986689 No 15 >PTZ00110 helicase; Provisional Probab=99.94 E-value=3.9e-22 Score=193.20 Aligned_cols=347 Identities=20% Similarity=0.268 Sum_probs=243.0 Q ss_pred HHHHHHHCCC-CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHH--------HHCCEEEEEHHHH Q ss_conf 9999863024-679889999999998410013430788621442236999999733444--------3054588612799 Q gi|254780945|r 262 AQKILRNIPF-SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVE--------AGGQAVIMAPIGI 332 (700) Q Consensus 262 ~~~f~~~LPF-~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~--------~G~Q~alMaPTEI 332 (700) +-+-+++..| ++|.=|.++|--+++ ++-| +-+--.|||||+-.++-++.-+. .|-+|.+||||-= T Consensus 193 il~~i~~~GF~~PTPIQ~qaIPiaLs----GrDv--IgiAqTGSGKTLAFlLP~l~hi~~q~~~~~~~gP~aLILaPTRE 266 (602) T PTZ00110 193 ILKSIEAAGFTEPTPIQVQGWPIALS----GRDM--IGIAETGSGKTLAFLLPAIVHINAQPLLRPGDGPIVLVLAPTRE 266 (602) T ss_pred HHHHHHHCCCCCCCHHHHHHHHHHHC----CCCE--EEECCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEECCHHH T ss_conf 99999976999999899999879856----9867--99878978899999999999985163436789976999738399 Q ss_pred HHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECH-----HHCCCCCCCCCCCEEEECCCCC-- Q ss_conf 999999862110145786589962464225667687762134754864111-----2013345544441788521013-- Q gi|254780945|r 333 LAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTH-----ALFQDSIQYYKLILVIVDEQHR-- 405 (700) Q Consensus 333 LA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTH-----AL~q~~v~F~~LgLvViDEQHR-- 405 (700) ||.|-++.+.++-...+++++++.|+.+.++ ....|+.| ++|||||- -|=...+.++++.++|+||=-| T Consensus 267 LA~QI~~e~~~~~~~~~ir~~~i~GG~~~~~---Q~~~L~~G-~dIvVATPGRLiDlL~~~~~~L~~v~yLVLDEADRML 342 (602) T PTZ00110 267 LAEQIREQALQFGRSSKLKNSVAYGGVPKRF---QTYALRRG-VEILIACPGRLIDFLESNVTNLRRVTYLVLDEADRML 342 (602) T ss_pred HHHHHHHHHHHHHCCCCCEEEEEECCCCHHH---HHHHHCCC-CCEEEECCHHHHHHHHCCCCCCCCEEEEEEECHHHHH T ss_conf 9999999999971547854999979968799---99987169-9999979238999996499874310289987577663 Q ss_pred ---CCHHHHHHHHHCCCCCCCEEECHHHHHHH--HHHHHHHC----CCHHHHCCCCCCCCCCEEEEE--E-CCCHHHHHH Q ss_conf ---35688998740256776101010132278--99997520----101111023557666207999--7-020026899 Q gi|254780945|r 406 ---FGVQQRLKLTQKATAPHVLLMTATPIPRT--LVLTSLGD----IDISKITEKPAGRKPIKTVII--P-INRIDEVIE 473 (700) Q Consensus 406 ---FGV~QR~~L~~Kg~~ph~L~MtATPIPRT--Lal~~ygd----ldvS~i~e~P~gR~~I~T~~~--~-~~~~~~~~~ 473 (700) |--.=|.-+..-...--.|++|||-=+.- ||-.+..+ +++..++.... ..|.-.++ . .++...+.. T Consensus 343 DmGFe~qI~~Il~~i~pdRQTlLFSAT~p~~V~~LA~~~L~~~Pv~I~Vg~~~~~a~--~~I~Q~v~vv~~~eK~~~L~~ 420 (602) T PTZ00110 343 DMGFEPQIRKIVSQIRPDRQTLMWSATWPKEVQSLARDLCKEEPVHVNVGSLDLTTC--HNIKQEVFVIEEHEKRAKLKE 420 (602) T ss_pred CCCCHHHHHHHHHHCCCCCEEEEEECCCCHHHHHHHHHHHCCCCEEEEECCCCCCCC--CCCEEEEEEECHHHHHHHHHH T ss_conf 546299999999858978779999558998999999998206988999368887777--870589999651889999999 Q ss_pred HHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHC Q ss_conf 99763103873899971201221112101466666668663710312014699899999999975598699998003410 Q gi|254780945|r 474 RLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEV 553 (700) Q Consensus 474 ~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEV 553 (700) .+++. ..+.++.|-|-.. ..++..+..|+. .+-.+..+||.|+..|.+.+|++|++|+++|||||-|.-= T Consensus 421 lL~~~-~~~~kvIIFvnTK--------~~ad~L~~~L~~-~G~~a~~LHGd~~Q~eR~~~L~~Fr~G~~~ILVATDVAAR 490 (602) T PTZ00110 421 LLGQI-MDGGKILIFSETK--------KGADTLTKELRL-DGWPALCIHGDKKQEERTWVLNEFKTGKHPIMIATDVASR 490 (602) T ss_pred HHHHC-CCCCCEEEEECCH--------HHHHHHHHHHHH-CCCCEEEEECCCCHHHHHHHHHHHHCCCCCEEEECCHHHC T ss_conf 99852-7899689992973--------899999999986-7995798208899999999999997699988988222331 Q ss_pred CCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHCHHHHHHHHHHHHCCCC Q ss_conf 468887658998585254746887730116678983599997088899879999999984142589999998520630 Q gi|254780945|r 554 GIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILLYHPPLSKNSYTRLSVLKNTEDGFLIAEEDLKQRKEG 631 (700) Q Consensus 554 Gvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~~~~~~~~~~Rl~~l~~~~dGf~iAe~Dl~lRG~G 631 (700) |+|||+.+..|=+|.-+=-=.=.|-. ||.||.+..|..+-...+.....+++=.++|++.+-----.-+.|..+.++ T Consensus 491 GLDI~dV~~VINYD~P~~~edYVHRI-GRTGRAG~kG~A~TF~Tpd~~~~a~~Lv~~L~ea~q~vp~~L~~la~~~~~ 567 (602) T PTZ00110 491 GLDVRDVKYVINFDFPNQIEDYVHRI-GRTGRAGAKGASYTFLTPDKYRSARELVKLMREAKQEIPPELEKLANERSY 567 (602) T ss_pred CCCCCCCCEEEEECCCCCCCCCCCCC-CCCCCCCCCEEEEEEECCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCC T ss_conf 55515798799958979802210135-615068993169999777707789999999998389999899998735688 No 16 >PRK04837 ATP-dependent RNA helicase RhlB; Provisional Probab=99.93 E-value=2.9e-22 Score=194.14 Aligned_cols=331 Identities=20% Similarity=0.232 Sum_probs=226.1 Q ss_pred CCCCCHHHHHHHHHCCC-CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHH----------HHCC Q ss_conf 78775789999863024-679889999999998410013430788621442236999999733444----------3054 Q gi|254780945|r 255 INVEGKIAQKILRNIPF-SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVE----------AGGQ 323 (700) Q Consensus 255 ~~~~~~~~~~f~~~LPF-~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~----------~G~Q 323 (700) +..+..+++.+ +.+.| .+|.=|..||--|.+. -+-+.|--.|||||+..++.++..+- ++-+ T Consensus 14 lgL~~~ll~~L-~~~g~~~pTpIQ~~aIP~il~G------~Dvi~~A~TGSGKTlAfllPil~~ll~~~~~~~~~~~~p~ 86 (423) T PRK04837 14 FALHPKVVEAL-EKKGFEYCTPIQALALPLTLAG------RDVAGQAQTGTGKTMAFLTATFHHLLSHPAPEGRKVNQPR 86 (423) T ss_pred CCCCHHHHHHH-HHCCCCCCCHHHHHHHHHHHCC------CCEEEECCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCE T ss_conf 79699999999-9779999999999999999679------9889989998749999999999999837453345567861 Q ss_pred EEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHH-----HCCCCCCCCCCCEE Q ss_conf 5886127999999998621101457865899624642256676877621347548641112-----01334554444178 Q gi|254780945|r 324 AVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHA-----LFQDSIQYYKLILV 398 (700) Q Consensus 324 ~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHA-----L~q~~v~F~~LgLv 398 (700) +.+||||-=||.|-++.++.+....++++.++.|+.+..+... .+.+| ++|||||-. +-+..+.++++-.+ T Consensus 87 aLIL~PTRELa~Qi~~~~~~l~~~~~l~~~~~~GG~~~~~q~~---~l~~~-~dIlV~TPgRL~d~~~~~~~~l~~i~~l 162 (423) T PRK04837 87 ALIMAPTRELAVQIHADAEPLAQATGLKLGLAYGGEGYDKQLK---VLESG-VDILIGTTGRLIDYAKQNHINLGAIQVV 162 (423) T ss_pred EEEEECCHHHHHHHHHHHHHHHCCCCCEEEEEECCCCHHHHHH---HHHCC-CCEEEECHHHHHHHHHHCCCCCCCCEEE T ss_conf 8999388999999999999974325845999989988799999---87179-9989989189999986422123664289 Q ss_pred EECCCCC-----CCHHHHHHHHHCCCCC-C--CEEECHHHHHHHHHHHHHHCC-CHHHHCCCCCCC--CCCEEEEEECC- Q ss_conf 8521013-----3568899874025677-6--101010132278999975201-011110235576--66207999702- Q gi|254780945|r 399 IVDEQHR-----FGVQQRLKLTQKATAP-H--VLLMTATPIPRTLVLTSLGDI-DISKITEKPAGR--KPIKTVIIPIN- 466 (700) Q Consensus 399 ViDEQHR-----FGV~QR~~L~~Kg~~p-h--~L~MtATPIPRTLal~~ygdl-dvS~i~e~P~gR--~~I~T~~~~~~- 466 (700) |+||=+| |.=.-+ .+..+-..+ . .+..|||==++.-.+ .+-.| +-..|.-.|... ..|.-.++-.+ T Consensus 163 VlDEAD~lld~gF~~~i~-~i~~~~p~~~~r~~~lfSATl~~~v~~l-a~~~l~~p~~i~v~~~~~~~~~i~~~~~~~~~ 240 (423) T PRK04837 163 VLDEADRMFDLGFIKDIR-WLFRRMPPANQRLNMLFSATLSYRVREL-AFEHMNNPEYVEVEPEQKTGHRIKEELFYPSN 240 (423) T ss_pred EEECHHHHHHCCCHHHHH-HHHHHCCCCHHEEEEEEECCCCHHHHHH-HHHHCCCCEEEEECCCCCCCCCEEEEEEEECH T ss_conf 963446543026399999-9999689622108999703688899999-99977898799965776566542699999172 Q ss_pred --CHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEE Q ss_conf --002689999763103873899971201221112101466666668663710312014699899999999975598699 Q gi|254780945|r 467 --RIDEVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKL 544 (700) Q Consensus 467 --~~~~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~i 544 (700) +..-++..+++. ...|+.|-|... ..++..++.|.+ .+.+++.+||.|+..++..+|++|++|+++| T Consensus 241 ~~K~~~L~~ll~~~--~~~k~iIF~nt~--------~~~~~l~~~L~~-~g~~~~~lhg~~~q~~R~~~l~~F~~g~~~v 309 (423) T PRK04837 241 EEKMRLLQTLIEEE--WPDRAIIFANTK--------HRCEEIWGHLAA-DGHRVGLLTGDVPQKKRLRILEQFTRGDLDI 309 (423) T ss_pred HHHHHHHHHHHHHH--CCCCEEEECCHH--------HHHHHHHHHHHH-CCCCEEEECCCCCHHHHHHHHHHHHCCCCCE T ss_conf 77999999999840--887468861628--------889999999976-5981787225457999999999997699989 Q ss_pred EEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHH Q ss_conf 9980034104688876589985852547468877301166789835999970888998799999999841 Q gi|254780945|r 545 LIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILLYHPPLSKNSYTRLSVLKNT 614 (700) Q Consensus 545 LvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~~~~~~~~~~Rl~~l~~~ 614 (700) ||||-|.-=|+|+|+.+..|-+|.-.=--.=+|- =||.||.+..|.|+-++. +.-...|..+++. T Consensus 310 LVaTDvaaRGLDi~~V~~VInyD~P~~~~~YiHR-iGRTgRaG~~G~aitf~~----~~~~~~l~~ie~~ 374 (423) T PRK04837 310 LVATDVAARGLHIPDVTHVFNYDLPDDCEDYVHR-IGRTGRAGASGHSISFAC----EEYALNLPAIETY 374 (423) T ss_pred EEEHHHHHCCCCCCCCCEEEEECCCCCHHHEECC-CCHHHCCCCCEEEEEEEC----HHHHHHHHHHHHH T ss_conf 9870043277772679889996998974551004-654127899468999873----9999999999999 No 17 >TIGR00595 priA primosomal protein N'; InterPro: IPR005259 All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.; GO: 0003677 DNA binding, 0006260 DNA replication. Probab=99.93 E-value=2.6e-23 Score=202.42 Aligned_cols=318 Identities=25% Similarity=0.377 Sum_probs=257.1 Q ss_pred EEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHH-HHHHHHHHHHHHCCCCCCEEEEEECC-CCHHHHHHHHHHHCCC Q ss_conf 886214422369999997334443054588612799-99999986211014578658996246-4225667687762134 Q gi|254780945|r 297 ILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGI-LAQQHYEFIKKYTQNTQIIVEIITGN-MPQAHRRKALERIAHG 374 (700) Q Consensus 297 LLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEI-LA~QH~~~~~~~~~~~~i~v~lLtg~-~~~~er~~i~~~i~~G 374 (700) ||.|+.|||||.|.+-++..+...|.|+.+|+| || |+.|--..|+..|.. .++++.++ ++..+|...|.++..| T Consensus 1 ll~G~tGsGkte~y~~~~~~~l~~g~~~~~l~P-ei~l~~q~~~~~~~~fg~---~~~~~h~~~l~~~~~~~~w~~~~~g 76 (524) T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKVLALGKSALVLVP-EIALTPQTLQRFKGRFGS---QVAVLHSGKLSDSEKLDAWRKVKLG 76 (524) T ss_pred CCCCCCCCCHHHHHHHHHHHHHHCCCEEEEEEC-CHHHHHHHHHHHHHHHCC---CHHHHCCCCCCCHHHHHHHHHHHCC T ss_conf 954567886168889999999733771789704-211016789999997187---2010100136734568899998518 Q ss_pred CCEEEEEC-HHHCCCCCCCCCCCEEEECCCCCCCHHHHHH-H----------HHCCCCCCCEEECHHHHHHHHHHHHHHC Q ss_conf 75486411-1201334554444178852101335688998-7----------4025677610101013227899997520 Q gi|254780945|r 375 QAHIIIGT-HALFQDSIQYYKLILVIVDEQHRFGVQQRLK-L----------TQKATAPHVLLMTATPIPRTLVLTSLGD 442 (700) Q Consensus 375 ~~~iiIGT-HAL~q~~v~F~~LgLvViDEQHRFGV~QR~~-L----------~~Kg~~ph~L~MtATPIPRTLal~~ygd 442 (700) ++.+|||| .|+| ..|+||||+|+||+|-+.-+|-.. - ..+..+.-+++-||||---|..-..-|- T Consensus 77 ~~~~v~G~rsa~f---~P~~~lglii~deehd~~yk~~~~~p~y~ar~~~~~~~~~~~~p~~lgsatP~le~~~~~~~~~ 153 (524) T TIGR00595 77 EALVVIGTRSALF---LPLKNLGLIIVDEEHDSSYKQEELPPRYHARDVAVYRAKLFNCPVVLGSATPSLESYHNAKRGK 153 (524) T ss_pred CCEEEECCCHHHH---CCCCCCCEEEEECCCCCCCCCCCCCCCCCHHHHHHHHHHHCCCCEEECCCCCCHHHHHHHHCCC T ss_conf 6005640303432---4621145478734645210013688552067889887640488578805672278999987166 Q ss_pred CC----HHHHCCCCCCCCCCEEEEEECCCH----------HHHHHHHHHHHCCCCEEEEEE------------------- Q ss_conf 10----111102355766620799970200----------268999976310387389997------------------- Q gi|254780945|r 443 ID----ISKITEKPAGRKPIKTVIIPINRI----------DEVIERLKVVLSEGKKAYWIC------------------- 489 (700) Q Consensus 443 ld----vS~i~e~P~gR~~I~T~~~~~~~~----------~~~~~~i~~~l~~g~q~y~Vc------------------- 489 (700) .+ ...+...-.++.+-.-.++..+.. ..++..+++.+++|+|+.+-. T Consensus 154 ~~p~~~~~~l~~r~~~~~~p~~~~~d~~~~~~~~~~~~~~~~l~~~~~~~~~~~~q~~~f~n~rg~~~~~~c~~cg~~~~ 233 (524) T TIGR00595 154 YRPQRHLLVLPRRVGGRKPPEVKLIDLRKEPRQGNRSFLSPELLTALEETLAAGEQAILFLNRRGYSPNLLCRSCGYVLE 233 (524) T ss_pred CCCHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCCCCCHHHHHHHHHHHHCCCCEEEEEECCCCCCCEEECCCCCCEE T ss_conf 56203211101320577575156762210002132102258999999988741670689861556653000002675010 Q ss_pred -CCCCC----------------------------------CCC-CC--CCHHHHHHHHHHHHCCC-CEECCCCCCCHHHH Q ss_conf -12012----------------------------------211-12--10146666666866371-03120146998999 Q gi|254780945|r 490 -PQIEE----------------------------------KKE-SN--FRSVVERFNSLHEHFTS-SIAIIHGRMSDIDK 530 (700) Q Consensus 490 -PlIee----------------------------------se~-~~--~~~~~~~~~~l~~~~~~-~v~~lHGkm~~~ek 530 (700) |.-+- |+. +. -...+...+.+.+.||. ++..+-.--...++ T Consensus 234 cp~c~~~~~~h~~~~~g~p~l~ch~c~~~~~~p~~cp~c~~~~~~~~~g~G~~~~~~~l~~~~p~~~~~~~d~d~~~~~~ 313 (524) T TIGR00595 234 CPNCDVSLTYHKKEGNGQPKLRCHYCGYQEPVPKTCPACGSEDTLKYKGLGTEKVEEELAKLFPGARIARLDSDTTSRKG 313 (524) T ss_pred CCCCCEEEEEEEECCCCCCEEEEECCCCCCCCCCCCCCCCCCCCEEECCCCHHHHHHHHHHHCCCCCEEEEECCCCCCCH T ss_conf 56653023553213688620122105766777543644466430120354278999999985588736764122123514 Q ss_pred --HHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHH-----------CCHHHHHHHHHCCCCCCCCEEEEEEEC Q ss_conf --9999997559869999800341046888765899858525-----------474688773011667898359999708 Q gi|254780945|r 531 --ESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEH-----------FGLAQLHQLRGRVGRGEEISSCILLYH 597 (700) Q Consensus 531 --~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aer-----------fGLsqLHQLRGRVGRg~~~s~c~l~~~ 597 (700) +..+++|.+|++|||+.|.+|--|.|.|+.++..|.++|- -+.+-|+|.-||-||+..+|..++-+. T Consensus 314 ~~~~~~~~f~~g~~d~l~Gtq~~~kG~~fp~~~l~g~~~~d~~l~~~d~r~~e~~~~l~~q~~Gr~gr~~~~g~v~iqt~ 393 (524) T TIGR00595 314 AHEALLNQFANGKADILIGTQMIAKGHDFPNVTLVGVLDADSGLHSPDFRAAERGFQLLTQVAGRAGRAEDPGEVIIQTY 393 (524) T ss_pred HHHHHHHHHHCCCCEEEECHHHHHCCCCCCCEEEEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEE T ss_conf 68999999750784067500344315774420367787312002554213467788888876410023468874799730 Q ss_pred CCCCHHHHHHHHHHHHHCHHHHHHHHH Q ss_conf 889987999999998414258999999 Q gi|254780945|r 598 PPLSKNSYTRLSVLKNTEDGFLIAEED 624 (700) Q Consensus 598 ~~~~~~~~~Rl~~l~~~~dGf~iAe~D 624 (700) .+ +..+. .....+..++|+--|.+ T Consensus 394 ~P-~~~~~--~~~~~~~~~~f~~~~~~ 417 (524) T TIGR00595 394 NP-GHPAI--QAALTGDYEAFYEQELA 417 (524) T ss_pred CC-CHHHH--HHHHHCCCHHHHHHHHH T ss_conf 77-51688--98760681678999887 No 18 >PRK00254 ski2-like helicase; Provisional Probab=99.93 E-value=6e-23 Score=199.54 Aligned_cols=322 Identities=21% Similarity=0.315 Sum_probs=231.2 Q ss_pred HHHHHHHHHCCC-CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHH-HHHHHCCEEEEEHHHHHHHHH Q ss_conf 789999863024-679889999999998410013430788621442236999999733-444305458861279999999 Q gi|254780945|r 260 KIAQKILRNIPF-SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAA-AVEAGGQAVIMAPIGILAQQH 337 (700) Q Consensus 260 ~~~~~f~~~LPF-~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~-~~~~G~Q~alMaPTEILA~QH 337 (700) +.+.++++.-.. +|-+-|..|++. .+-.++ |=++.-=.|||||+||-+||+. +...|..+.+++|+--||+|- T Consensus 10 ~~~~~~~~~~gI~~l~p~Q~e~l~~---g~~~g~--NllvsaPT~sGKTlvAElail~~~l~~~~k~iyi~P~kALa~EK 84 (717) T PRK00254 10 ERIKEILKERGIEELYPPQAEALTS---GVLEGK--NLLIAIPTASGKTLIAEIAMVNKLLREGGKAVYLVPLKALAEEK 84 (717) T ss_pred HHHHHHHHHCCCCCCCHHHHHHHHH---HHCCCC--CEEEECCCCCCHHHHHHHHHHHHHHHCCCEEEEECCHHHHHHHH T ss_conf 8999999976987268999999874---233698--18998998874899999999999985299299992679999999 Q ss_pred HHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEEC----HHHCCCCC-CCCCCCEEEECCCCCCCHHHHH Q ss_conf 986211014578658996246422566768776213475486411----12013345-5444417885210133568899 Q gi|254780945|r 338 YEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGT----HALFQDSI-QYYKLILVIVDEQHRFGVQQRL 412 (700) Q Consensus 338 ~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGT----HAL~q~~v-~F~~LgLvViDEQHRFGV~QR~ 412 (700) |..|++ |..+|++|..+||......+ .-++.+|+|-| ++|+.... -+.++|+|||||=|=.|=..|- T Consensus 85 ~~~f~~-~~~~g~~V~~~tGd~~~~~~-------~l~~~dIiV~T~Ek~dsl~r~~~~~l~~i~lvViDEiH~igD~~RG 156 (717) T PRK00254 85 FREFKD-WEVLGLRVAMATGDYDSKDE-------WLGKYDIIIATAEKFDSLLRHGSSWIKDVKLLVADEIHLIGSRDRG 156 (717) T ss_pred HHHHHH-HHHCCCEEEEEECCCCCCCC-------CCCCCCEEEECHHHHHHHHHCCHHHHHCCCEEEEECEEECCCCCCH T ss_conf 999987-77449889897489888701-------0468999998889999999716256532698999760788898740 Q ss_pred HHHH----C-CCCCCCEEECHH-HHHHHHHHHHHHCCCHHHHCCCCCCCCCCEEEEEEC----------CCHHHHHHHHH Q ss_conf 8740----2-567761010101-322789999752010111102355766620799970----------20026899997 Q gi|254780945|r 413 KLTQ----K-ATAPHVLLMTAT-PIPRTLVLTSLGDIDISKITEKPAGRKPIKTVIIPI----------NRIDEVIERLK 476 (700) Q Consensus 413 ~L~~----K-g~~ph~L~MtAT-PIPRTLal~~ygdldvS~i~e~P~gR~~I~T~~~~~----------~~~~~~~~~i~ 476 (700) ...+ | -..+.++.|||| |=|.-+|--+-+++ -.=+..| .|....+... ++....-+.+. T Consensus 157 ~~lE~~l~~l~~~~qiIgLSATi~N~~~la~WL~a~~--~~~~~RP---VpL~~~v~~~~~~~~~~~~~~~~~~~~~l~~ 231 (717) T PRK00254 157 ATLEFILTHMLGRAQIIGLSATIGNPEELAEWLNAEL--IVSDWRP---VKLRKGVFYQGFVFWEDGKIDRYNSWEELVY 231 (717) T ss_pred HHHHHHHHHHHCCCEEEEEEEECCCHHHHHHHHCCCC--CCCCCCC---CCEEEEEEECCEEEECCCCCHHHHHHHHHHH T ss_conf 9999999951003669999633499899999828852--1568857---7527644206601104562054430789999 Q ss_pred HHHCCCCEEEEEECCCCCCCCC--CCC-------------HHHHH---------HHHHHHHCCCCEECCCCCCCHHHHHH Q ss_conf 6310387389997120122111--210-------------14666---------66668663710312014699899999 Q gi|254780945|r 477 VVLSEGKKAYWICPQIEEKKES--NFR-------------SVVER---------FNSLHEHFTSSIAIIHGRMSDIDKES 532 (700) Q Consensus 477 ~~l~~g~q~y~VcPlIeese~~--~~~-------------~~~~~---------~~~l~~~~~~~v~~lHGkm~~~ek~~ 532 (700) +.+.+|+||-|-||.=...|+. ++. ...+. .+.|.+.+...|+.-|+-|..++++. T Consensus 232 ~~~~~~~~~LVF~~tR~~~e~~A~~la~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~L~~~l~~GVafHHAGL~~~~R~l 311 (717) T PRK00254 232 DAVKRGKGALIFVNMRRKAEKTALELAKKIKNLLTKPELRELKELADSLEENPTNEKLAKALRGGVAFHHAGLGRDERVL 311 (717) T ss_pred HHHHCCCCCEEEEECHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCHHHHCCCCCHHHHHH T ss_conf 99974998189995579999999999998876307688999999999987376518999999708312158999889999 Q ss_pred HHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEE-------CHHHCCHHHHHHHHHCCCCC--CCCEEEEEEECCC Q ss_conf 9999755986999980034104688876589985-------85254746887730116678--9835999970888 Q gi|254780945|r 533 VMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIE-------NAEHFGLAQLHQLRGRVGRG--EEISSCILLYHPP 599 (700) Q Consensus 533 ~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~-------~aerfGLsqLHQLRGRVGRg--~~~s~c~l~~~~~ 599 (700) |=..|++|.++||+||+-.-.|||.|.-+|+|-. +-+....++.+|.-||-||- +..|+|++++..+ T Consensus 312 VE~~Fr~g~Ikvl~aTsTLA~GVNLPAr~VIi~~~~~~~~~g~~~i~~~e~~QM~GRAGR~G~D~~G~~iii~~~~ 387 (717) T PRK00254 312 VEDNFRKGLIKVVVATPTLSAGINTPAFRVIIRDTWRYSEFGMERIPVLEIQQMMGRAGRPKYDEVGEAIIVSTTE 387 (717) T ss_pred HHHHHHCCCCEEEEECCHHHCCCCCCCEEEEEECCEEECCCCCEECCHHHHHHHHHHCCCCCCCCCCEEEEEECCC T ss_conf 9999987995899816446504577605999926567079972378753688862506999878885089995485 No 19 >PRK13766 Hef nuclease; Provisional Probab=99.93 E-value=2.2e-23 Score=203.02 Aligned_cols=312 Identities=24% Similarity=0.359 Sum_probs=195.4 Q ss_pred CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHH-HHCCEEEEEHHHHHHHHHHHHHHHHCCCCCC Q ss_conf 679889999999998410013430788621442236999999733444-3054588612799999999862110145786 Q gi|254780945|r 272 SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVE-AGGQAVIMAPIGILAQQHYEFIKKYTQNTQI 350 (700) Q Consensus 272 ~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~-~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i 350 (700) +.=.-|...++.-.. . |-|+.=+.|||||.||++.|..... .+..+.|||||--|+.||++.|++++.--+. T Consensus 15 e~R~YQ~el~~~Al~---~----NtiVvLPTG~GKT~IA~lvi~~~l~~~~gKilFLaPT~pLV~Qq~~~~~~~l~i~~~ 87 (764) T PRK13766 15 EARLYQQLLAAKALK---G----NTLVVLPTGLGKTAIALLVIAERLQKYGGKVLILAPTKPLVEQHAEFFRKFLNIDPE 87 (764) T ss_pred CCCHHHHHHHHHHHH---C----CEEEEECCCCCHHHHHHHHHHHHHHHCCCEEEEECCCHHHHHHHHHHHHHHCCCCCC T ss_conf 653879999999985---8----989995998668999999999999748988999858888999999999997099955 Q ss_pred EEEEEECCCCHHHHHHHHHHHCCCCCEEEEECH-----HHCCCCCCCCCCCEEEECCCCCC-C------HHHHHHHHHCC Q ss_conf 589962464225667687762134754864111-----20133455444417885210133-5------68899874025 Q gi|254780945|r 351 IVEIITGNMPQAHRRKALERIAHGQAHIIIGTH-----ALFQDSIQYYKLILVIVDEQHRF-G------VQQRLKLTQKA 418 (700) Q Consensus 351 ~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTH-----AL~q~~v~F~~LgLvViDEQHRF-G------V~QR~~L~~Kg 418 (700) ++..+||.++..+|.++|+ +.+|+|.|- +|....+..+++.|+|+||=||- | +.++ +.... T Consensus 88 ~i~~ltG~~~~~~r~~~w~-----~~~Viv~TPQvl~ndL~~g~i~l~dv~lLVfDEaHha~Gnh~Y~~I~~~--y~~~~ 160 (764) T PRK13766 88 KIVVLTGEISPEKRAALWE-----KAKVIVATPQVIENDLLAGRISLEDVSLLIFDEAHRAVGNYAYVFIAER--YHEDA 160 (764) T ss_pred EEEEEECCCCHHHHHHHHC-----CCCEEEECCHHHHHHHHHCCCCHHHCCEEEEECCCCCCCCCCHHHHHHH--HHHCC T ss_conf 2899988878276899860-----7999999908999999829867888228999746666677628999999--98537 Q ss_pred CCCCCEEECHHHHHHHHH--HHHHHCCCHHHHCCCCC---------CCCCCEEEEEEC-CCHHHHHHHHH----HHHCCC Q ss_conf 677610101013227899--99752010111102355---------766620799970-20026899997----631038 Q gi|254780945|r 419 TAPHVLLMTATPIPRTLV--LTSLGDIDISKITEKPA---------GRKPIKTVIIPI-NRIDEVIERLK----VVLSEG 482 (700) Q Consensus 419 ~~ph~L~MtATPIPRTLa--l~~ygdldvS~i~e~P~---------gR~~I~T~~~~~-~~~~~~~~~i~----~~l~~g 482 (700) .+|++|-|||||-= ... ..+-..|.++.+.-... .++.+....+.. +...++.+.+. ..+..- T Consensus 161 ~~PrILGLTASPGs-~~e~I~ev~~nL~i~~ie~rte~d~dv~~yv~~~~ie~i~V~l~~~~~~i~~~l~~~l~~~l~~L 239 (764) T PRK13766 161 KNPLVLGLTASPGS-DEEKIKEVCENLGIEHVEVKTEDDPDVRPYVHKVKVEWIRVELPEELKEIRDLLNEALKDRLKKL 239 (764) T ss_pred CCCEEEEECCCCCC-CHHHHHHHHHHCCCCEEEEECCCCHHHHHHCCCCCEEEEEECCCHHHHHHHHHHHHHHHHHHHHH T ss_conf 78558850368876-44899999986598728961444434454335673279980797899999999999999999999 Q ss_pred CEEEEEECC---C-----------------------------------------------------------CCCCCC-- Q ss_conf 738999712---0-----------------------------------------------------------122111-- Q gi|254780945|r 483 KKAYWICPQ---I-----------------------------------------------------------EEKKES-- 498 (700) Q Consensus 483 ~q~y~VcPl---I-----------------------------------------------------------eese~~-- 498 (700) ....+.++. + ++.... T Consensus 240 ~~~~~~~~~~~~~sk~~l~~~~~~~~~~i~~~~~~~~~~~~~~a~~~kl~~a~ell~tqg~~~~~~yl~~l~~~~~~~~~ 319 (764) T PRK13766 240 KELGVIVSISPDVSKKELLGLQKRIQQEIARGDPEGYEAISIHAEAMKLRHAVELLETQGVEALRRYLERLREEARSSGS 319 (764) T ss_pred HHCCCEECCCCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC T ss_conf 96697004555468999999999999988646879999999999999999999999985189999999999973013332 Q ss_pred -----------------------------------------------------CCCHHHHHHHHHHHHCCCCEECCCC-- Q ss_conf -----------------------------------------------------2101466666668663710312014-- Q gi|254780945|r 499 -----------------------------------------------------NFRSVVERFNSLHEHFTSSIAIIHG-- 523 (700) Q Consensus 499 -----------------------------------------------------~~~~~~~~~~~l~~~~~~~v~~lHG-- 523 (700) .-.+|...++.|.+. +-+...+.| T Consensus 320 k~~k~l~~d~~~~~~~~~~~~~~~~hPKl~kL~eiL~~~~~~~~~sRvIIFv~~R~Ta~~L~~~L~~~-~ik~~~fVGq~ 398 (764) T PRK13766 320 KASKRLVEDPRFKKAVRLLKELDIEHPKLEKLLEIVKEQLGKKPDSRIIVFTQYRDTAEKIVDLLNKN-GIKAIRFVGQA 398 (764) T ss_pred HHHHHHHHCHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCCEEEEEECCHHHHHHHHHHHHHC-CCCCEEEEECC T ss_conf 67899875877899999876446789379999999999972699980899927679999999998658-99722898368 Q ss_pred ------CCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEE-EEEE Q ss_conf ------699899999999975598699998003410468887658998585254746887730116678983599-9970 Q gi|254780945|r 524 ------RMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSC-ILLY 596 (700) Q Consensus 524 ------km~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c-~l~~ 596 (700) -|+..+..+++++|++|++++||||+|-|=|+|||..++.|-+++.-=-+-+ =|=|||-||... |.| +|++ T Consensus 399 s~~~~kGmsqkeQ~evL~~FR~Ge~NvLVATSV~EEGLDIP~cdLVI~Yd~v~S~IR~-IQR~GRTGR~r~-G~v~vLi~ 476 (764) T PRK13766 399 SRDGDKGMSQKEQIETLDRFRAGEYNVLVATSVAEEGLDIPSVDLVIFYEPVPSEIRS-IQRKGRTGRQRG-GRVVVLIA 476 (764) T ss_pred CCCCCCCCCHHHHHHHHHHHHCCCCCEEEECCHHHCCCCCCCCCEEEEECCCCCHHHH-HHHCCCCCCCCC-CEEEEEEE T ss_conf 9878889898999999999857998889876766448888778889993799619999-997466567789-74999995 Q ss_pred CCCCC Q ss_conf 88899 Q gi|254780945|r 597 HPPLS 601 (700) Q Consensus 597 ~~~~~ 601 (700) ..... T Consensus 477 ~gt~d 481 (764) T PRK13766 477 KGTRD 481 (764) T ss_pred CCCHH T ss_conf 68626 No 20 >PRK04537 ATP-dependent RNA helicase RhlB; Provisional Probab=99.93 E-value=1e-21 Score=189.96 Aligned_cols=317 Identities=21% Similarity=0.260 Sum_probs=223.4 Q ss_pred CCCHHHHHHHHHCCC-CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHH----------HHCCEE Q ss_conf 775789999863024-679889999999998410013430788621442236999999733444----------305458 Q gi|254780945|r 257 VEGKIAQKILRNIPF-SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVE----------AGGQAV 325 (700) Q Consensus 257 ~~~~~~~~f~~~LPF-~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~----------~G~Q~a 325 (700) .+..+++. ++.+.| .+|.=|++||--|.+. + +-+.|--.|||||+-+++.++..+. .+-|+. T Consensus 16 L~~~Ll~a-L~~~Gf~~PTpIQ~~aIP~iL~G----k--Dvi~~A~TGSGKTLAYlLPiL~~Ll~~~~l~~~~~~~p~aL 88 (574) T PRK04537 16 LHPALVAG-LESAGFTRCTPIQALTLPVALPG----G--DVAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDPRAL 88 (574) T ss_pred CCHHHHHH-HHHCCCCCCCHHHHHHHHHHHCC----C--CEEEECCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCEEE T ss_conf 89999999-99779998999999999999579----9--88998489888999999999999983744345778996199 Q ss_pred EEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECH-HHC----CCC-CCCCCCCEEE Q ss_conf 8612799999999862110145786589962464225667687762134754864111-201----334-5544441788 Q gi|254780945|r 326 IMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTH-ALF----QDS-IQYYKLILVI 399 (700) Q Consensus 326 lMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTH-AL~----q~~-v~F~~LgLvV 399 (700) +++||-=||.|-++.+.++...+++++.++.|+.+..+..+. +.. .++|||||= .|+ +.+ +.++++-++| T Consensus 89 ILvPTRELA~QI~~~~~~l~~~~~lr~~~l~GG~~~~~q~~~---L~~-g~dIVVaTPGRLld~L~~~~~~~L~~vk~LV 164 (574) T PRK04537 89 ILAPTRELAIQIHKDAVKFGADLGLRFALVYGGVDYDKQREL---LQQ-GVDVIIATPGRLIDYVKQHKVVSLHACEICV 164 (574) T ss_pred EECCCHHHHHHHHHHHHHHHCCCCCEEEEEECCCCHHHHHHH---HCC-CCCEEEECHHHHHHHHHHCCCCCCCCEEEEE T ss_conf 977989999999999999864589779999799668899998---735-9998998989999999817986533315899 Q ss_pred ECCCCC-----CCHHHHHHHHHCC--CCCCCEEECHHHHHHHHHHH--HHHCCCHHHHC--CCCCCCCCCEEEEEE--CC Q ss_conf 521013-----3568899874025--67761010101322789999--75201011110--235576662079997--02 Q gi|254780945|r 400 VDEQHR-----FGVQQRLKLTQKA--TAPHVLLMTATPIPRTLVLT--SLGDIDISKIT--EKPAGRKPIKTVIIP--IN 466 (700) Q Consensus 400 iDEQHR-----FGV~QR~~L~~Kg--~~ph~L~MtATPIPRTLal~--~ygdldvS~i~--e~P~gR~~I~T~~~~--~~ 466 (700) +||=.+ |--.-+.-|..-. .....++.|||==++-..++ ...+-..-.+. +... ..|.-.++- .+ T Consensus 165 LDEAD~LLd~gF~~di~~IL~~lP~~~~rQ~iLfSATl~~~V~~la~~~l~~P~~i~v~~~~~~~--~~I~Q~~~~~~~~ 242 (574) T PRK04537 165 LDEADRMFDLGFIKDIRFLLRRMPERGTRQTLLFSATLSHRVLELAYEHMNEPEKLVVETETITA--ARVRQRIYFPSDE 242 (574) T ss_pred ECCCHHHHCCCCHHHHHHHHHHCCCCCCCEEEEEEECCCHHHHHHHHHHCCCCEEEEECCCCCCC--CCEEEEEEECCHH T ss_conf 62732654287799999999966655685589998327779999999977998699965665457--7603899977778 Q ss_pred -CHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEE Q ss_conf -0026899997631038738999712012211121014666666686637103120146998999999999755986999 Q gi|254780945|r 467 -RIDEVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLL 545 (700) Q Consensus 467 -~~~~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iL 545 (700) +...++..+.+ ..+.|+.|-|... ..++..++.|++. +.++..+||.|+..+++.+|++|++|+++|| T Consensus 243 ~K~~~L~~LL~~--~~~~k~IIF~nT~--------~~ve~l~~~L~~~-g~~v~~LHG~lsQ~eR~~~L~~Fk~G~~~VL 311 (574) T PRK04537 243 EKQTLLLGLLSR--SEGARTMVFVNTK--------AFVERVARTLERH-GYRVGVLSGDVPQKKRESLLNRFQKGQLEIL 311 (574) T ss_pred HHHHHHHHHHHH--CCCCCCEEECCHH--------HHHHHHHHHHHHC-CCCEEEEECCCCHHHHHHHHHHHHCCCCCEE T ss_conf 999999999972--6776511533418--------9999999999977-9968997099999999999999976999799 Q ss_pred EECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEECC Q ss_conf 98003410468887658998585254746887730116678983599997088 Q gi|254780945|r 546 IATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILLYHP 598 (700) Q Consensus 546 vaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~~ 598 (700) |||-|.-=|+|+|+.+..|=+|.=.---+=+|- =||.||.+.+|.|+-+..+ T Consensus 312 VaTDVAARGIDIp~V~~VINYDlP~~~e~YVHR-IGRTGRaGr~G~AITfv~~ 363 (574) T PRK04537 312 VATDVAARGLHIDGVKYVYNYDLPFDAEDYVHR-IGRTARLGEEGDAISFACE 363 (574) T ss_pred EECCCCCCCCCCCCCCEEEEECCCCCHHHHHCC-CCHHHCCCCCEEEEEEECH T ss_conf 773500233571469979995796982141124-5350378993359998777 No 21 >PRK01297 ATP-dependent RNA helicase RhlB; Provisional Probab=99.93 E-value=4e-22 Score=193.12 Aligned_cols=318 Identities=19% Similarity=0.207 Sum_probs=224.0 Q ss_pred CCHHHHHHHHHCCC-CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHH----------HCCEEE Q ss_conf 75789999863024-6798899999999984100134307886214422369999997334443----------054588 Q gi|254780945|r 258 EGKIAQKILRNIPF-SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEA----------GGQAVI 326 (700) Q Consensus 258 ~~~~~~~f~~~LPF-~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~----------G~Q~al 326 (700) ...+++ -++.+.| .+|.=|.+||-.|.+- + +-+++--.|||||+.+++.++.-+.+ +-|+.+ T Consensus 92 ~~~ll~-aL~~~Gf~~PTpIQ~~aIP~iL~G----k--Dvi~~A~TGSGKTlAyLLPil~~ll~~~~~~~~~~~~p~aLI 164 (472) T PRK01297 92 APELMH-AIHDLGFPYCTPIQAQVLGYTLAG----H--DAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEPRALI 164 (472) T ss_pred CHHHHH-HHHHCCCCCCCHHHHHHHHHHHCC----C--CEEEECCCCCHHHHHHHHHHHHHHHHCCCCHHCCCCCCEEEE T ss_conf 999999-999779999999999999999769----9--889989998679999999999999717751011368952999 Q ss_pred EEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHH-----HCCCCCCCCCCCEEEEC Q ss_conf 6127999999998621101457865899624642256676877621347548641112-----01334554444178852 Q gi|254780945|r 327 MAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHA-----LFQDSIQYYKLILVIVD 401 (700) Q Consensus 327 MaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHA-----L~q~~v~F~~LgLvViD 401 (700) +|||-=||.|-++.++.+....++++.+++|++... +....+.+..++|||||=. +-+..+.++++-++|+| T Consensus 165 L~PTRELa~QI~~~~~~L~~~~~l~v~~~~GG~~~~---~q~~~l~~~~~dIvVaTPGRL~~l~~~~~~~l~~v~~lVlD 241 (472) T PRK01297 165 IAPTRELVVQIAKDAAALTKYTGLNVMTFVGGMDFD---KQLKQLEARFCDILVATPGRLLDFNQRGEVHLDMVEVMVLD 241 (472) T ss_pred ECCCHHHHHHHHHHHHHHHCCCCCEEEEEECCCCHH---HHHHHHHCCCCCEEEECHHHHHHHHCCCCEECCCCEEEEEE T ss_conf 879999999999999997462797699997898879---99999855899889979799998743482542552299998 Q ss_pred CCCCC-----CHHHHHHHHH--CCCCCCCEEECHHHHHHHHHHH--HHHCCCHHHHCCCCCCC--CCCEEEEEECCC--- Q ss_conf 10133-----5688998740--2567761010101322789999--75201011110235576--662079997020--- Q gi|254780945|r 402 EQHRF-----GVQQRLKLTQ--KATAPHVLLMTATPIPRTLVLT--SLGDIDISKITEKPAGR--KPIKTVIIPINR--- 467 (700) Q Consensus 402 EQHRF-----GV~QR~~L~~--Kg~~ph~L~MtATPIPRTLal~--~ygdldvS~i~e~P~gR--~~I~T~~~~~~~--- 467 (700) |=+|. .-.-+.-+.. +...--.++.|||--+-...+. +..+ -..+.--+.+. ..|.-+++.... T Consensus 242 EAD~LLd~gf~~~v~~Il~~~p~~~~rQ~~lfSATl~~~v~~l~~~~~~~--p~~v~i~~~~~~~~~v~q~~~~~~~~dk 319 (472) T PRK01297 242 EADRMLDMGFIPQVRQIIRQTPRKEERQTLLFSATFTDDVMNLAKQWTTD--PAIVEIEPENVASDTVEQHVYAVAGSDK 319 (472) T ss_pred CHHHHHCCCCHHHHHHHHHHCCCCCCCEEEEEECCCCHHHHHHHHHHCCC--CEEEEECCCCCCCCCEEEEEEECCHHHH T ss_conf 73121025759999999996898557169998525778999999997799--8899965776677760289998188899 Q ss_pred HHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEE Q ss_conf 02689999763103873899971201221112101466666668663710312014699899999999975598699998 Q gi|254780945|r 468 IDEVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIA 547 (700) Q Consensus 468 ~~~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLva 547 (700) ..-+++.++.. .-.|+.|-|...+ .++..++.|.+ .+-++..+||.|+..++..+|++|++|++.|||| T Consensus 320 ~~~L~~ll~~~--~~~k~IIF~nt~~--------~~~~l~~~L~~-~g~~~~~lhg~l~q~~R~~~l~~F~~g~~~iLVa 388 (472) T PRK01297 320 YKLLYNLVTQN--PWERVMVFANRKD--------EVRRIEERLVK-DGINAAQLSGDVPQHKRIKTLEGFREGKIRVLVA 388 (472) T ss_pred HHHHHHHHHHC--CCCCEEEECCCHH--------HHHHHHHHHHH-CCCCEEEEECCCCHHHHHHHHHHHHCCCCCEEEE T ss_conf 99999999847--9873689617499--------99999987654-4961686437789999999999997699969988 Q ss_pred CHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEECCC Q ss_conf 0034104688876589985852547468877301166789835999970888 Q gi|254780945|r 548 TTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILLYHPP 599 (700) Q Consensus 548 TtviEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~~~ 599 (700) |-|..=|+|+|+.+..|-+|.=+---+=+|- =||.||.+..|.|+.++.+. T Consensus 389 TDvaaRGLDi~~V~~VInyD~P~~~~~YIHR-iGRTGRaG~~G~aisfv~~~ 439 (472) T PRK01297 389 TDVAGRGIHIDGISHVINFTLPEDPDDYVHR-IGRTGRAGASGVSISFAGED 439 (472) T ss_pred CCHHHCCCCCCCCCEEEEECCCCCHHHHHHC-CCHHHCCCCCEEEEEEECHH T ss_conf 6613366775788889996898976760102-65312689963799986388 No 22 >COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis] Probab=99.91 E-value=9e-21 Score=182.48 Aligned_cols=320 Identities=24% Similarity=0.314 Sum_probs=227.4 Q ss_pred CCCHHHHHHHHHCCC-CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHH----HCC-EEEEEHH Q ss_conf 775789999863024-6798899999999984100134307886214422369999997334443----054-5886127 Q gi|254780945|r 257 VEGKIAQKILRNIPF-SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEA----GGQ-AVIMAPI 330 (700) Q Consensus 257 ~~~~~~~~f~~~LPF-~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~----G~Q-~alMaPT 330 (700) .+..+.+.+.+ +.| ++|.=|.++|-.+..- -.-+.|.-.|||||.-..+.++..+.. .++ +.+++|| T Consensus 36 l~~~ll~~l~~-~gf~~pt~IQ~~~iP~~l~g------~Dvi~~A~TGsGKT~Af~lP~l~~i~~~~~~~~~~aLil~PT 108 (513) T COG0513 36 LSPELLQALKD-LGFEEPTPIQLAAIPLILAG------RDVLGQAQTGTGKTAAFLLPLLQKILKSVERKYVSALILAPT 108 (513) T ss_pred CCHHHHHHHHH-CCCCCCCHHHHHHCHHHHCC------CCEEEECCCCCHHHHHHHHHHHHHHHHCCCCCCCCEEEECCC T ss_conf 99999999996-59899898999658776369------997998689871789999999999740045577756997799 Q ss_pred HHHHHHHHHHHHHHCCCC-CCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHH----HCC-CCCCCCCCCEEEECCCC Q ss_conf 999999998621101457-865899624642256676877621347548641112----013-34554444178852101 Q gi|254780945|r 331 GILAQQHYEFIKKYTQNT-QIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHA----LFQ-DSIQYYKLILVIVDEQH 404 (700) Q Consensus 331 EILA~QH~~~~~~~~~~~-~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHA----L~q-~~v~F~~LgLvViDEQH 404 (700) -=||.|-++.+.++-... ++++++++|+++..... ..++.| ++|||||.. +++ ..+.++++..+|+||-- T Consensus 109 RELA~Qi~~~~~~~~~~~~~~~~~~i~GG~~~~~q~---~~l~~g-~~ivVaTPGRllD~i~~~~l~l~~v~~lVlDEAD 184 (513) T COG0513 109 RELAVQIAEELRKLGKNLGGLRVAVVYGGVSIRKQI---EALKRG-VDIVVATPGRLLDLIKRGKLDLSGVETLVLDEAD 184 (513) T ss_pred HHHHHHHHHHHHHHHHHCCCCEEEEEECCCCHHHHH---HHHHCC-CCEEEECCCHHHHHHHCCCCCCCCEEEEEECCHH T ss_conf 999999999999998624584299998998989999---987249-9899979608999986488554650189967617 Q ss_pred CC---CHHHH-HHHHHC-CCCCCCEEECHHHHHHHHHHHHHHCC-CHHHHCCCCCC----CCCCEEEEEECCCHH---HH Q ss_conf 33---56889-987402-56776101010132278999975201-01111023557----666207999702002---68 Q gi|254780945|r 405 RF---GVQQR-LKLTQK-ATAPHVLLMTATPIPRTLVLTSLGDI-DISKITEKPAG----RKPIKTVIIPINRID---EV 471 (700) Q Consensus 405 RF---GV~QR-~~L~~K-g~~ph~L~MtATPIPRTLal~~ygdl-dvS~i~e~P~g----R~~I~T~~~~~~~~~---~~ 471 (700) |. |...= ..+... .....+|..|||-=+....++ ..-| +-..|.--|.. -..|.-.++.....+ .+ T Consensus 185 rmld~gf~~~i~~I~~~~p~~~qtllfSAT~~~~i~~l~-~~~l~~p~~i~v~~~~~~~~~~~i~q~~~~v~~~~~k~~~ 263 (513) T COG0513 185 RMLDMGFIDDIEKILKALPPDRQTLLFSATMPDDIRELA-RRYLNDPVEIEVSVEKLERTLKKIKQFYLEVESEEEKLEL 263 (513) T ss_pred HHCCCCCHHHHHHHHHHCCCCCEEEEEEECCCHHHHHHH-HHHCCCCCEEEECCCCCCCCCCCCEEEEEEECCHHHHHHH T ss_conf 663887689999999738977489999824898999999-9973688079964322335300470799980856779999 Q ss_pred HHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHH Q ss_conf 99997631038738999712012211121014666666686637103120146998999999999755986999980034 Q gi|254780945|r 472 IERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVI 551 (700) Q Consensus 472 ~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtvi 551 (700) ...+-+....+ |++|.|... ..+...+..|... +-++..+||.|+.++.++++++|++|+.+|||||-|. T Consensus 264 L~~ll~~~~~~-~~IVF~~tk--------~~~~~l~~~l~~~-g~~~~~lhG~l~q~~R~~~l~~F~~g~~~iLVaTDva 333 (513) T COG0513 264 LLKLLKDEDEG-RVIVFVRTK--------RLVEELAESLRKR-GFKVAALHGDLPQEERDRALEKFKDGELRVLVATDVA 333 (513) T ss_pred HHHHHHCCCCC-EEEEEECCH--------HHHHHHHHHHHHC-CCEEEEEECCCCHHHHHHHHHHHHCCCCCEEEEECHH T ss_conf 99998278888-399995767--------7699999999978-9659997388998899999999975998989980654 Q ss_pred HCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEECCC Q ss_conf 104688876589985852547468877301166789835999970888 Q gi|254780945|r 552 EVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILLYHPP 599 (700) Q Consensus 552 EVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~~~ 599 (700) --|+|+|+.+..|=+|...=-=.-+|- -||.||.+..|.++.+..+. T Consensus 334 aRGiDi~~v~~VinyD~p~~~e~yvHR-iGRTgRaG~~G~ai~fv~~~ 380 (513) T COG0513 334 ARGLDIPDVSHVINYDLPLDPEDYVHR-IGRTGRAGRKGVAISFVTEE 380 (513) T ss_pred HCCCCCCCCCEEEECCCCCCCCCCCCC-CCCCCCCCCCCEEEEEECCH T ss_conf 468996667479978799980413173-45343489987279985562 No 23 >KOG0344 consensus Probab=99.91 E-value=9.9e-25 Score=213.52 Aligned_cols=350 Identities=21% Similarity=0.310 Sum_probs=253.3 Q ss_pred HHCCC-CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHH--------HHHCCEEEEEHHHHHHHHH Q ss_conf 63024-67988999999999841001343078862144223699999973344--------4305458861279999999 Q gi|254780945|r 267 RNIPF-SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAV--------EAGGQAVIMAPIGILAQQH 337 (700) Q Consensus 267 ~~LPF-~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~--------~~G~Q~alMaPTEILA~QH 337 (700) ..++| +.|..|.+|+--... --+-|-++-.|||||+-..+-++.-+ ..|.++++++||+-||.|- T Consensus 152 ~~~~F~~Pt~iq~~aipvfl~------~r~~lAcapTGsgKtlaf~~Pil~~L~~~~~~~~~~gl~a~Il~ptreLa~Qi 225 (593) T KOG0344 152 QELGFDEPTPIQKQAIPVFLE------KRDVLACAPTGSGKTLAFNLPILQHLKDLSQEKHKVGLRALILSPTRELAAQI 225 (593) T ss_pred HHCCCCCCCCCCCHHHHHHHC------CCCEEEECCCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEECCHHHHHHHH T ss_conf 627888877310011566641------33058863578862056556999999875203576542788844449999999 Q ss_pred HHHHHHHC--CCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHH----HCCCC---CCCCCCCEEEECCCCC--- Q ss_conf 98621101--457865899624642256676877621347548641112----01334---5544441788521013--- Q gi|254780945|r 338 YEFIKKYT--QNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHA----LFQDS---IQYYKLILVIVDEQHR--- 405 (700) Q Consensus 338 ~~~~~~~~--~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHA----L~q~~---v~F~~LgLvViDEQHR--- 405 (700) |....++- +..+.+++.++....+++|..-+.. -..+++|+|-+ +++-+ +.+.+.--.|+||+-| T Consensus 226 ~re~~k~~~~~~t~~~a~~~~~~~~~~qk~a~~~~---~k~dili~TP~ri~~~~~~~~~~idl~~V~~lV~dEaD~lfe 302 (593) T KOG0344 226 YREMRKYSIDEGTSLRAAQFSKPAYPSQKPAFLSD---EKYDILISTPMRIVGLLGLGKLNIDLSKVEWLVVDEADLLFE 302 (593) T ss_pred HHHHHHCCCCCCCCHHHHHCCCCCCHHHCCCHHHH---HHHHHHHCCHHHHHHHHCCCCCCCHHHEEEEEEECHHHHHHC T ss_conf 99998557777875345516666531103324677---788788618799999855897532012035676646876508 Q ss_pred --CCHHHHHHHHHCCCCCCCEE--ECHHHHHHHHHHHHHHCCCHHHHCCCCCCCCCCEEEEEE-----CCCHHHHHHHHH Q ss_conf --35688998740256776101--010132278999975201011110235576662079997-----020026899997 Q gi|254780945|r 406 --FGVQQRLKLTQKATAPHVLL--MTATPIPRTLVLTSLGDIDISKITEKPAGRKPIKTVIIP-----INRIDEVIERLK 476 (700) Q Consensus 406 --FGV~QR~~L~~Kg~~ph~L~--MtATPIPRTLal~~ygdldvS~i~e~P~gR~~I~T~~~~-----~~~~~~~~~~i~ 476 (700) |=++|=..+.+--.+||+.+ .|||= |-- -.-|..+-.|.+.-.+-|.++-.+-.+. --+...-+-.++ T Consensus 303 ~~~f~~Qla~I~sac~s~~i~~a~FSat~-~~~--VEE~~~~i~~~~~~vivg~~~sa~~~V~QelvF~gse~~K~lA~r 379 (593) T KOG0344 303 PEFFVEQLADIYSACQSPDIRVALFSATI-SVY--VEEWAELIKSDLKRVIVGLRNSANETVDQELVFCGSEKGKLLALR 379 (593) T ss_pred HHHHHHHHHHHHHHHCCCCHHHHHHHCCC-CHH--HHHHHHHHHCCCEEEEEECCHHHHHHHHHHHEEEECCHHHHHHHH T ss_conf 15699999999998528522256632146-077--999999865053368984252576554555121104345778899 Q ss_pred HHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCC-CEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCC Q ss_conf 6310387389997120122111210146666666866371-031201469989999999997559869999800341046 Q gi|254780945|r 477 VVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTS-SIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGI 555 (700) Q Consensus 477 ~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~-~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGv 555 (700) +-++.|-+-=++-+. .+..-+.+.|+.|. .|++ +|+.+||..++.+.+++|++|+.|+|.+|+||-|++-|+ T Consensus 380 q~v~~g~~PP~lIfV------Qs~eRak~L~~~L~-~~~~i~v~vIh~e~~~~qrde~~~~FR~g~IwvLicTdll~RGi 452 (593) T KOG0344 380 QLVASGFKPPVLIFV------QSKERAKQLFEELE-IYDNINVDVIHGERSQKQRDETMERFRIGKIWVLICTDLLARGI 452 (593) T ss_pred HHHHCCCCCCEEEEE------ECHHHHHHHHHHHH-HCCCCCEEEEECCCCHHHHHHHHHHHHCCCEEEEEEHHHHHCCC T ss_conf 998615899748988------53888999999864-23576634676366666778999998506706888504665455 Q ss_pred CCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHC--HHHHHHHHHHHHCCCCCC Q ss_conf 888765899858525474688773011667898359999708889987999999998414--258999999852063000 Q gi|254780945|r 556 DVVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILLYHPPLSKNSYTRLSVLKNTE--DGFLIAEEDLKQRKEGEI 633 (700) Q Consensus 556 dvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~~~~~~~~~~Rl~~l~~~~--dGf~iAe~Dl~lRG~G~~ 633 (700) |.-|++++|.+|---+++|++|++ ||+||.+..|..|..|.+ .+..|+++++++- .||+++|.++.+++.++. T Consensus 453 Df~gvn~VInyD~p~s~~syihrI-GRtgRag~~g~Aitfytd----~d~~~ir~iae~~~~sG~evpe~~m~~~k~~~~ 527 (593) T KOG0344 453 DFKGVNLVINYDFPQSDLSYIHRI-GRTGRAGRSGKAITFYTD----QDMPRIRSIAEVMEQSGCEVPEKIMGIKKLSRL 527 (593) T ss_pred CCCCCCEEEECCCCCHHHHHHHHH-HCCCCCCCCCCEEEEECC----CCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHH T ss_conf 645763689537872247888873-025788988616998632----553455568999997188633999865666655 Q ss_pred CCCHHCC Q ss_conf 2600069 Q gi|254780945|r 634 LGIKQSG 640 (700) Q Consensus 634 ~G~~QsG 640 (700) .+..+.- T Consensus 528 ~kk~~~k 534 (593) T KOG0344 528 KKKKLLK 534 (593) T ss_pred HHHHHHH T ss_conf 5555431 No 24 >COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair] Probab=99.89 E-value=4.4e-20 Score=177.10 Aligned_cols=299 Identities=24% Similarity=0.394 Sum_probs=228.0 Q ss_pred CCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCC Q ss_conf 46798899999999984100134307886214422369999997334443054588612799999999862110145786 Q gi|254780945|r 271 FSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQI 350 (700) Q Consensus 271 F~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i 350 (700) =+||..|++|-+....-+++..+| |++.-.|||||..-+-++..++.+|.-+++-.|--=.+--.|..++.-|.+ + T Consensus 96 G~Ls~~Q~~as~~l~q~i~~k~~~--lv~AV~GaGKTEMif~~i~~al~~G~~vciASPRvDVclEl~~Rlk~aF~~--~ 171 (441) T COG4098 96 GTLSPGQKKASNQLVQYIKQKEDT--LVWAVTGAGKTEMIFQGIEQALNQGGRVCIASPRVDVCLELYPRLKQAFSN--C 171 (441) T ss_pred CCCCHHHHHHHHHHHHHHHHCCCE--EEEEECCCCCHHHHHHHHHHHHHCCCEEEEECCCCCCHHHHHHHHHHHHCC--C T ss_conf 532724789999999998715768--999742798510169999999965986998468610117778999976214--9 Q ss_pred EEEEEECCCCHHHHHHHHHHHCCCCCEEEEEC-HHHCCCCCCCCCCCEEEECCCCCCCHH--HHHHHHHC-C--CCCCCE Q ss_conf 58996246422566768776213475486411-120133455444417885210133568--89987402-5--677610 Q gi|254780945|r 351 IVEIITGNMPQAHRRKALERIAHGQAHIIIGT-HALFQDSIQYYKLILVIVDEQHRFGVQ--QRLKLTQK-A--TAPHVL 424 (700) Q Consensus 351 ~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGT-HAL~q~~v~F~~LgLvViDEQHRFGV~--QR~~L~~K-g--~~ph~L 424 (700) .+.+|.|..+..- ...+||-| |-|+-=+=.| -++||||=--|--. |-...+-+ . .....+ T Consensus 172 ~I~~Lyg~S~~~f-----------r~plvVaTtHQLlrFk~aF---D~liIDEVDAFP~~~d~~L~~Av~~ark~~g~~I 237 (441) T COG4098 172 DIDLLYGDSDSYF-----------RAPLVVATTHQLLRFKQAF---DLLIIDEVDAFPFSDDQSLQYAVKKARKKEGATI 237 (441) T ss_pred CEEEEECCCCHHC-----------CCCEEEEEHHHHHHHHHHC---CEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCEE T ss_conf 8666725871313-----------3447997668888888643---3899830245656678889999997512367369 Q ss_pred EECHHHHHHHHH-HHHHHCCCHHHHCCCCCCCC-CC-EEEEEECCC-------H-HHHHHHHHHHHCCCCEEEEEECCCC Q ss_conf 101013227899-99752010111102355766-62-079997020-------0-2689999763103873899971201 Q gi|254780945|r 425 LMTATPIPRTLV-LTSLGDIDISKITEKPAGRK-PI-KTVIIPINR-------I-DEVIERLKVVLSEGKKAYWICPQIE 493 (700) Q Consensus 425 ~MtATPIPRTLa-l~~ygdldvS~i~e~P~gR~-~I-~T~~~~~~~-------~-~~~~~~i~~~l~~g~q~y~VcPlIe 493 (700) +||||| |++|- -..-|.+-.-.|...=.|+. || ++.|++.-+ + .+++..++++...|.-+++-.|-|+ T Consensus 238 ylTATp-~k~l~r~~~~g~~~~~klp~RfH~~pLpvPkf~w~~~~~k~l~r~kl~~kl~~~lekq~~~~~P~liF~p~I~ 316 (441) T COG4098 238 YLTATP-TKKLERKILKGNLRILKLPARFHGKPLPVPKFVWIGNWNKKLQRNKLPLKLKRWLEKQRKTGRPVLIFFPEIE 316 (441) T ss_pred EEECCC-HHHHHHHHHHCCEEEEECCHHHCCCCCCCCCEEEECCHHHHHHHCCCCHHHHHHHHHHHHCCCCEEEEECCHH T ss_conf 996488-0788887540775676344654389989874288644777766444778999999998743882899925058 Q ss_pred CCCCCCCCHHHHHHHHHHHHCCC-CEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHH-C Q ss_conf 22111210146666666866371-031201469989999999997559869999800341046888765899858525-4 Q gi|254780945|r 494 EKKESNFRSVVERFNSLHEHFTS-SIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEH-F 571 (700) Q Consensus 494 ese~~~~~~~~~~~~~l~~~~~~-~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aer-f 571 (700) ..++..+-|++.+|. +++.+|.. +..+-+..++|++|+++||++||+.|-||.+||..+-|+..-.| | T Consensus 317 --------~~eq~a~~lk~~~~~~~i~~Vhs~--d~~R~EkV~~fR~G~~~lLiTTTILERGVTfp~vdV~Vlgaeh~vf 386 (441) T COG4098 317 --------TMEQVAAALKKKLPKETIASVHSE--DQHRKEKVEAFRDGKITLLITTTILERGVTFPNVDVFVLGAEHRVF 386 (441) T ss_pred --------HHHHHHHHHHHHCCCCCEEEEECC--CCCHHHHHHHHHCCCEEEEEEEEHHHCCCCCCCCEEEEECCCCCCC T ss_conf --------899999999861886421565336--7017899999875863899984403326643562399954776420 Q ss_pred CHHHHHHHHHCCCCCCCC---EEEEEEECC Q ss_conf 746887730116678983---599997088 Q gi|254780945|r 572 GLAQLHQLRGRVGRGEEI---SSCILLYHP 598 (700) Q Consensus 572 GLsqLHQLRGRVGRg~~~---s~c~l~~~~ 598 (700) -=|-|-|.-|||||+-.. -.||+.+.. T Consensus 387 TesaLVQIaGRvGRs~~~PtGdv~FFH~G~ 416 (441) T COG4098 387 TESALVQIAGRVGRSLERPTGDVLFFHYGK 416 (441) T ss_pred CHHHHHHHHHHCCCCCCCCCCCEEEEECCC T ss_conf 188999975231678768987589996463 No 25 >PRK11057 ATP-dependent DNA helicase RecQ; Provisional Probab=99.88 E-value=1.6e-18 Score=164.81 Aligned_cols=309 Identities=18% Similarity=0.285 Sum_probs=226.3 Q ss_pred HHHHCCC-CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHH Q ss_conf 9863024-679889999999998410013430788621442236999999733444305458861279999999986211 Q gi|254780945|r 265 ILRNIPF-SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKK 343 (700) Q Consensus 265 f~~~LPF-~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~ 343 (700) +.+.+.| ++-..|..+|+.|.+- .+ -|..==.|+||++.+-+.++. . +.-+.+..|+==|.......+.. T Consensus 17 L~~~FG~~~Fr~~Q~e~i~~~l~g--~D----~l~~mpTG~GKSlcyQlPal~--~-~g~tiVisPLisLm~DQv~~L~~ 87 (607) T PRK11057 17 LQETFGYQQFRPGQEEIIDTVLSG--RD----CLVVMPTGGGKSLCYQIPALV--L-DGLTLVVSPLISLMKDQVDQLLA 87 (607) T ss_pred HHHHCCCCCCCHHHHHHHHHHHCC--CC----EEEECCCCCHHHHHHHHHHHH--C-CCCEEEECCHHHHHHHHHHHHHH T ss_conf 998669843457699999999869--98----899878995597999999987--7-99889986879999999999997 Q ss_pred HCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECH-HH----CCCCCCCCCCCEEEECCCCC---CCHHHHHH-- Q ss_conf 0145786589962464225667687762134754864111-20----13345544441788521013---35688998-- Q gi|254780945|r 344 YTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTH-AL----FQDSIQYYKLILVIVDEQHR---FGVQQRLK-- 413 (700) Q Consensus 344 ~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTH-AL----~q~~v~F~~LgLvViDEQHR---FGV~QR~~-- 413 (700) . ||+.+.|+|+++..++.+++.++.+|+++++.-|- -| |.+.+.-.+++++||||=|. .|=.-|-. T Consensus 88 ~----gi~a~~l~s~~~~~e~~~~~~~~~~g~~~llyvtPErl~~~~~~~~l~~~~i~~~viDEAHcvs~WGhdFRp~Y~ 163 (607) T PRK11057 88 N----GVAAACLNSTQTREQQLEVMAGCRTGQIKLLYIAPERLMMDNFLEHLAHWNPVLLAVDEAHCISQWGHDFRPEYA 163 (607) T ss_pred C----CCCEEEECCCCCHHHHHHHHHHHHCCCCCEEEECHHHHCCHHHHHHHHHCCCCEEEEEHHHHHHHCCCCCHHHHH T ss_conf 8----992999569999999999999997599879998855856978999997188664885306667541550038899 Q ss_pred ----HHHCCCCCCCEEECHHHHHHHHHHHH--HHCCCHHHHCCCCCCCCCCEEEEEEC-CCHHHHHHHHHHHHCCCCEEE Q ss_conf ----74025677610101013227899997--52010111102355766620799970-200268999976310387389 Q gi|254780945|r 414 ----LTQKATAPHVLLMTATPIPRTLVLTS--LGDIDISKITEKPAGRKPIKTVIIPI-NRIDEVIERLKVVLSEGKKAY 486 (700) Q Consensus 414 ----L~~Kg~~ph~L~MtATPIPRTLal~~--ygdldvS~i~e~P~gR~~I~T~~~~~-~~~~~~~~~i~~~l~~g~q~y 486 (700) |.++=..+-++.+|||--|++-.-.. .+--+--+.. --..|..+.-.++.. +..+.++++++.+ .|.... T Consensus 164 ~l~~l~~~~~~~p~~AlTATAt~~v~~di~~~L~l~~~~~~~-~~f~RpNl~~~v~~~~~~~~~~~~~~~~~--~~~sgI 240 (607) T PRK11057 164 ALGQLRQRFPTLPFMALTATADDTTRQDIVRLLGLNDPLIQI-SSFDRPNIRYMLMEKFKPLDQLMRYVQEQ--RGKSGI 240 (607) T ss_pred HHHHHHHHCCCCCEEEEEECCCHHHHHHHHHHHCCCCCCEEE-CCCCCCCCEEEEEECCCHHHHHHHHHHHC--CCCCEE T ss_conf 999999976999748999636878999999970899980782-57788874145554477399999998706--899779 Q ss_pred EEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEE Q ss_conf 99712012211121014666666686637103120146998999999999755986999980034104688876589985 Q gi|254780945|r 487 WICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIE 566 (700) Q Consensus 487 ~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~ 566 (700) |-|+.. +.+++.++.|++. +-++..-||.|++++++.+.++|.+|+++|+|||.---.|||-||....|=. T Consensus 241 IYc~tr--------k~~e~la~~L~~~-G~~~~~YHagl~~~~R~~~q~~f~~~~~~vivAT~AFGMGIdk~dVR~ViH~ 311 (607) T PRK11057 241 IYCNSR--------AKVEDTAARLQSR-GISAAAYHAGLDNDVRADVQEAFQRDDLQIVVATVAFGMGINKPNVRFVVHF 311 (607) T ss_pred EEECCH--------HHHHHHHHHHHHC-CCCEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEHHHHCCCCCCCCCEEEEC T ss_conf 996928--------9999999999857-9754530589997899999998756887589975011057677776679977 Q ss_pred CHHHCCHHHHHHHHHCCCCCCCCEEEEEEECCC Q ss_conf 852547468877301166789835999970888 Q gi|254780945|r 567 NAEHFGLAQLHQLRGRVGRGEEISSCILLYHPP 599 (700) Q Consensus 567 ~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~~~ 599 (700) +.- -.+....|==||-||-+.+|.|+|+|+.. T Consensus 312 ~~P-~s~e~yyQE~GRAGRDG~~a~c~l~y~~~ 343 (607) T PRK11057 312 DIP-RNIESYYQETGRAGRDGLPAEAMLFYDPA 343 (607) T ss_pred CCC-CCHHHHHHHHHHCCCCCCCCEEEEEECHH T ss_conf 899-99999999886352589854189985687 No 26 >COG1204 Superfamily II helicase [General function prediction only] Probab=99.87 E-value=6.8e-19 Score=167.74 Aligned_cols=319 Identities=21% Similarity=0.288 Sum_probs=233.0 Q ss_pred CCHHHHHHHHHCCC-CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHH-HCCEEEEEHHHHHHH Q ss_conf 75789999863024-6798899999999984100134307886214422369999997334443-054588612799999 Q gi|254780945|r 258 EGKIAQKILRNIPF-SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEA-GGQAVIMAPIGILAQ 335 (700) Q Consensus 258 ~~~~~~~f~~~LPF-~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~-G~Q~alMaPTEILA~ 335 (700) ....+.++.+.-++ +|=+.|+.++....-+ +. |=|+.-=.|||||.||++|++..+.. |.-+.+.|||--||+ T Consensus 16 ~~~~v~~i~~~~~~~el~~~qq~av~~~~~~---~~--N~li~aPTgsGKTlIA~lai~~~l~~~~~k~vYivPlkALa~ 90 (766) T COG1204 16 LDDRVLEILKGDGIDELFNPQQEAVEKGLLS---DE--NVLISAPTGSGKTLIALLAILSTLLEGGGKVVYIVPLKALAE 90 (766) T ss_pred CCHHHHHHHCCCCHHHHHHHHHHHHHCCCCC---CC--CEEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEEECHHHHHH T ss_conf 2078998860488477557899874111257---98--679976788866999999999999855983899907599999 Q ss_pred HHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECH----HHC-CCCCCCCCCCEEEECCCCCCCHHH Q ss_conf 999862110145786589962464225667687762134754864111----201-334554444178852101335688 Q gi|254780945|r 336 QHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTH----ALF-QDSIQYYKLILVIVDEQHRFGVQQ 410 (700) Q Consensus 336 QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTH----AL~-q~~v~F~~LgLvViDEQHRFGV~Q 410 (700) |-|++|+ +|+.+|++|..+||...... -.-+..+|||.|- ++. ....-..+.+||||||=|--|=.- T Consensus 91 Ek~~~~~-~~~~~GirV~~~TgD~~~~~-------~~l~~~~ViVtT~EK~Dsl~R~~~~~~~~V~lvViDEiH~l~d~~ 162 (766) T COG1204 91 EKYEEFS-RLEELGIRVGISTGDYDLDD-------ERLARYDVIVTTPEKLDSLTRKRPSWIEEVDLVVIDEIHLLGDRT 162 (766) T ss_pred HHHHHHH-HHHHCCCEEEEECCCCCCCH-------HHHCCCCEEEECHHHHHHHHHCCCCHHHCCCEEEEEEEEECCCCC T ss_conf 9999866-68865977999648865553-------341458879974678667650675333401689994210148756 Q ss_pred HHHHHH----C----CCCCCCEEECHHHHHH--HHHHHHHHCCCHHHHCCCCCCCCCCEEE-EEECC---------CHHH Q ss_conf 998740----2----5677610101013227--8999975201011110235576662079-99702---------0026 Q gi|254780945|r 411 RLKLTQ----K----ATAPHVLLMTATPIPR--TLVLTSLGDIDISKITEKPAGRKPIKTV-IIPIN---------RIDE 470 (700) Q Consensus 411 R~~L~~----K----g~~ph~L~MtATPIPR--TLal~~ygdldvS~i~e~P~gR~~I~T~-~~~~~---------~~~~ 470 (700) |-.-.+ + +...-++-.||| +|. .+|--+-+.+..|.-.--|--|+-..+. +.... ..+. T Consensus 163 RG~~lE~iv~r~~~~~~~~rivgLSAT-lpN~~evA~wL~a~~~~~~~rp~~l~~~v~~~~~~~~~~~~~k~~~~~~~~~ 241 (766) T COG1204 163 RGPVLESIVARMRRLNELIRIVGLSAT-LPNAEEVADWLNAKLVESDWRPVPLRRGVPYVGAFLGADGKKKTWPLLIDNL 241 (766) T ss_pred CCCEEHHHHHHHHHHCCCEEEEEEEEE-CCCHHHHHHHHCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCCCCCCHHH T ss_conf 586402279888852755179887311-6888999998588355567788620157765317987147643454210579 Q ss_pred HHHHHHHHHCCCCEEEEEECCCCCCCC------------------C--C--------CCHHHHHHHHHHHHCCCCEECCC Q ss_conf 899997631038738999712012211------------------1--2--------10146666666866371031201 Q gi|254780945|r 471 VIERLKVVLSEGKKAYWICPQIEEKKE------------------S--N--------FRSVVERFNSLHEHFTSSIAIIH 522 (700) Q Consensus 471 ~~~~i~~~l~~g~q~y~VcPlIeese~------------------~--~--------~~~~~~~~~~l~~~~~~~v~~lH 522 (700) +++.+.+.++.|+||-+-||.=.+.+. . + ..+-....+.|.+.++..|++=| T Consensus 242 ~~~~v~~~~~~~~qvLvFv~sR~~a~~~A~~l~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~l~e~v~~GvafHh 321 (766) T COG1204 242 ALELVLESLAEGGQVLVFVHSRKEAEKTAKKLRIKMSATLSDDEKIVLDEGASPILIPETPTSEDEELAELVLRGVAFHH 321 (766) T ss_pred HHHHHHHHHHCCCEEEEEEECCCHHHHHHHHHHHHHHHCCCHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCC T ss_conf 99999999856986999974572599999999998751277165430122344211235543221789999972754112 Q ss_pred CCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCC---------HHHHHHHHHCCCCCCCCEE Q ss_conf 46998999999999755986999980034104688876589985852547---------4688773011667898359 Q gi|254780945|r 523 GRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFG---------LAQLHQLRGRVGRGEEISS 591 (700) Q Consensus 523 Gkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfG---------LsqLHQLRGRVGRg~~~s~ 591 (700) .-|..++++.+=+.|++|.++|||||.-.-.|||.|-= .-||-+..||. ..--.|+=||-||-+...| T Consensus 322 AGL~~~~R~~vE~~Fr~g~ikVlv~TpTLA~GVNLPA~-~VIIk~~~~y~~~~g~~~i~~~dv~QM~GRAGRPg~d~~ 398 (766) T COG1204 322 AGLPREDRQLVEDAFRKGKIKVLVSTPTLAAGVNLPAR-TVIIKDTRRYDPKGGIVDIPVLDVLQMAGRAGRPGYDDY 398 (766) T ss_pred CCCCHHHHHHHHHHHHCCCCEEEEECHHHHHHCCCCCE-EEEEEEEEEECCCCCEEECCHHHHHHCCCCCCCCCCCCC T ss_conf 68978899999999866985499954577621688632-899910387757788477764148655676799875777 No 27 >COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair] Probab=99.86 E-value=2.6e-18 Score=163.15 Aligned_cols=334 Identities=22% Similarity=0.282 Sum_probs=216.1 Q ss_pred CHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHH-HHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEE Q ss_conf 988999999999841001343078862144223699999973344-4305458861279999999986211014578658 Q gi|254780945|r 274 TKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAV-EAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIV 352 (700) Q Consensus 274 T~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~-~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v 352 (700) -.-|.........- |-|+-=-.|=|||+||++-|+.-. ..+..+.|||||--|..||++.+++.+.--.-.+ T Consensus 17 R~YQ~~i~a~al~~-------NtLvvlPTGLGKT~IA~~V~~~~l~~~~~kvlfLAPTKPLV~Qh~~~~~~v~~ip~~~i 89 (542) T COG1111 17 RLYQLNIAAKALFK-------NTLVVLPTGLGKTFIAAMVIANRLRWFGGKVLFLAPTKPLVLQHAEFCRKVTGIPEDEI 89 (542) T ss_pred HHHHHHHHHHHHHC-------CEEEEECCCCCHHHHHHHHHHHHHHHCCCEEEEECCCCHHHHHHHHHHHHHHCCCHHHE T ss_conf 89999999998644-------83899528750799999999999874588489965895179999999999858984332 Q ss_pred EEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCC-----CCCCCCCCEEEECCCCCCCHHHH-----HHHHHCCCCCC Q ss_conf 996246422566768776213475486411120133-----45544441788521013356889-----98740256776 Q gi|254780945|r 353 EIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQD-----SIQYYKLILVIVDEQHRFGVQQR-----LKLTQKATAPH 422 (700) Q Consensus 353 ~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~-----~v~F~~LgLvViDEQHRFGV~QR-----~~L~~Kg~~ph 422 (700) +-|||..+..+|+..|. +.+|+|-|--.++. .+.-.+.-++|+||-||===+-- .....-..+|+ T Consensus 90 ~~ltGev~p~~R~~~w~-----~~kVfvaTPQvveNDl~~Grid~~dv~~lifDEAHRAvGnyAYv~Va~~y~~~~k~~~ 164 (542) T COG1111 90 AALTGEVRPEEREELWA-----KKKVFVATPQVVENDLKAGRIDLDDVSLLIFDEAHRAVGNYAYVFVAKEYLRSAKNPL 164 (542) T ss_pred EEECCCCCHHHHHHHHH-----HCCEEEECCHHHHHHHHCCCCCHHHCEEEEECHHHHCCCCCHHHHHHHHHHHHCCCCE T ss_conf 31117778688999875-----1778995638777687617667678058986235541376069999999998256843 Q ss_pred CEEECHHHHHHHH-HHHHHHCCCHHHHCCCCCC-------CCCCEEEEEEC---CCHHHH-------HHHHHHHHCCCCE Q ss_conf 1010101322789-9997520101111023557-------66620799970---200268-------9999763103873 Q gi|254780945|r 423 VLLMTATPIPRTL-VLTSLGDIDISKITEKPAG-------RKPIKTVIIPI---NRIDEV-------IERLKVVLSEGKK 484 (700) Q Consensus 423 ~L~MtATPIPRTL-al~~ygdldvS~i~e~P~g-------R~~I~T~~~~~---~~~~~~-------~~~i~~~l~~g~q 484 (700) +|-|||||=--.= -+.+--.|.+|.|--+--+ =++++-.|+.- +.++++ ++-.-+.|+..+= T Consensus 165 ilgLTASPGs~~ekI~eV~~nLgIe~vevrTE~d~DV~~Yv~~~kve~ikV~lp~e~~~ir~~l~~~l~~~Lk~L~~~g~ 244 (542) T COG1111 165 ILGLTASPGSDLEKIQEVVENLGIEKVEVRTEEDPDVRPYVKKIKVEWIKVDLPEEIKEIRDLLRDALKPRLKPLKELGV 244 (542) T ss_pred EEEEECCCCCCHHHHHHHHHHCCCCEEEEECCCCCCHHHHHCCCEEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHCCC T ss_conf 79872389998799999998379542898457885177751404248996368589999999999999999999997695 Q ss_pred EEEEECCCC------------------CCCCC-------------------C---------------------------- Q ss_conf 899971201------------------22111-------------------2---------------------------- Q gi|254780945|r 485 AYWICPQIE------------------EKKES-------------------N---------------------------- 499 (700) Q Consensus 485 ~y~VcPlIe------------------ese~~-------------------~---------------------------- 499 (700) .--.|| +. ++++- + T Consensus 245 ~~~~~~-~~~kdl~~~~~~~~~~a~~~~~~~~~~l~~~a~~~kl~~a~elletqGi~~~~~Yl~~l~e~~~~~~sk~a~~ 323 (542) T COG1111 245 IESSSP-VSKKDLLELRQIRLIMAKNEDSDKFRLLSVLAEAIKLAHALELLETQGIRPFYQYLEKLEEEATKGGSKAAKS 323 (542) T ss_pred EECCCC-CCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHCCCCHHHHHH T ss_conf 323573-1076899999989986357617888999999999888899999985086999999999998750352077898 Q ss_pred ----------------------------------------------------CCHHHHHHHHHHHHCCCCEECCCC---- Q ss_conf ----------------------------------------------------101466666668663710312014---- Q gi|254780945|r 500 ----------------------------------------------------FRSVVERFNSLHEHFTSSIAIIHG---- 523 (700) Q Consensus 500 ----------------------------------------------------~~~~~~~~~~l~~~~~~~v~~lHG---- 523 (700) ..+|+...+.|++.++......-| T Consensus 324 l~~d~~~~~al~~~~~~~~~~v~HPKl~~l~eilke~~~k~~~~RvIVFT~yRdTae~i~~~L~~~~~~~~~rFiGQa~r 403 (542) T COG1111 324 LLADPYFKRALRLLIRADESGVEHPKLEKLREILKEQLEKNGDSRVIVFTEYRDTAEEIVNFLKKIGIKARVRFIGQASR 403 (542) T ss_pred HHCCHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEEEHHHHHHHHHHHHHHHCCCCCEEEEEECCCC T ss_conf 75382047999999974003688961899999999997238985599996147589999999985287520688611454 Q ss_pred ----CCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEE-EEEECC Q ss_conf ----699899999999975598699998003410468887658998585254746887730116678983599-997088 Q gi|254780945|r 524 ----RMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSC-ILLYHP 598 (700) Q Consensus 524 ----km~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c-~l~~~~ 598 (700) -|+..|..+++++|++|+.++||||+|=|=|+|+|...++|-+.|--=-. ---|=+||-||+ ..|+. +|++.+ T Consensus 404 ~~~~GMsQkeQ~eiI~~Fr~Ge~nVLVaTSVgEEGLDIp~vDlVifYEpvpSeI-R~IQR~GRTGR~-r~Grv~vLvt~g 481 (542) T COG1111 404 EGDKGMSQKEQKEIIDQFRKGEYNVLVATSVGEEGLDIPEVDLVIFYEPVPSEI-RSIQRKGRTGRK-RKGRVVVLVTEG 481 (542) T ss_pred CCCCCCCHHHHHHHHHHHHCCCCEEEEECCCCCCCCCCCCCCEEEEECCCCHHH-HHHHHHCCCCCC-CCCEEEEEEECC T ss_conf 556665888999999998657851899812322467887656799956885788-999860744557-797499999658 Q ss_pred CCC----HHHHHHHHHHHHHCHHHHHHH Q ss_conf 899----879999999984142589999 Q gi|254780945|r 599 PLS----KNSYTRLSVLKNTEDGFLIAE 622 (700) Q Consensus 599 ~~~----~~~~~Rl~~l~~~~dGf~iAe 622 (700) ... ..|++|.+-|.++--|...+. T Consensus 482 trdeayy~~s~rke~~m~e~i~~~~~~~ 509 (542) T COG1111 482 TRDEAYYYSSRRKEQKMIESIRGLSLEL 509 (542) T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 6278999999999999999999888762 No 28 >PRK13767 ATP-dependent helicase; Provisional Probab=99.86 E-value=4.2e-18 Score=161.57 Aligned_cols=312 Identities=21% Similarity=0.283 Sum_probs=227.1 Q ss_pred HHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHH---------HHHCCEEEEEHHHHHHH Q ss_conf 986302467988999999999841001343078862144223699999973344---------43054588612799999 Q gi|254780945|r 265 ILRNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAV---------EAGGQAVIMAPIGILAQ 335 (700) Q Consensus 265 f~~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~---------~~G~Q~alMaPTEILA~ 335 (700) |.+.. -++|.-|+.|+..|.+. + |-|+.--.|||||.-|++.++..+ ..|-++.++.|+--||+ T Consensus 26 f~~~~-~~p~~~Q~~a~~~i~~G----~--~~Li~ApTGsGKTlAaflp~l~~l~~~~~~~~~~~~~~~LyIsPLkAL~~ 98 (878) T PRK13767 26 FKRKF-GTFTPPQRYAIPLIHEG----K--NVLISSPTGSGKTLAAFLGIIDELFRLAEEGELEDSVYCIYVSPLRALNN 98 (878) T ss_pred HHHCC-CCCCHHHHHHHHHHHCC----C--CEEEECCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCEEEEEECCHHHHHH T ss_conf 98537-99998999999999679----9--88998999813999999999999985000367788728999684798899 Q ss_pred HHHHHHHHHCCC------------CCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEEC----HHHCCC---CCCCCCCC Q ss_conf 999862110145------------78658996246422566768776213475486411----120133---45544441 Q gi|254780945|r 336 QHYEFIKKYTQN------------TQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGT----HALFQD---SIQYYKLI 396 (700) Q Consensus 336 QH~~~~~~~~~~------------~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGT----HAL~q~---~v~F~~Lg 396 (700) ..+.++..-+.. .+|+|+.-||.|+.++|++... ..++|+|-| |.|+.. .-.|++|- T Consensus 99 D~~r~L~~pl~~i~~~~~~~g~~~~~i~v~vr~GDT~~~er~r~~~----~pp~ILiTTPEsL~lll~~~~~~~~l~~l~ 174 (878) T PRK13767 99 DIHRNLEEPLEEIREIAKERGIELPEIRHAVRTGDTSSYEKQKMLR----KPPHILITTPETLAILLNSPKFREKLRTVK 174 (878) T ss_pred HHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEECCCCCHHHHHHHHH----CCCCEEECCHHHHHHHHCCHHHHHHHCCCC T ss_conf 9999888699999999875278877744776369999999999974----899879879899999954967999855899 Q ss_pred EEEECCCCC-----CCHHHHHHHHHC----CCCCCCEEECHHHH-HHHHHHHHHH------CCCHHHHCCCCCCCCCCEE Q ss_conf 788521013-----356889987402----56776101010132-2789999752------0101111023557666207 Q gi|254780945|r 397 LVIVDEQHR-----FGVQQRLKLTQK----ATAPHVLLMTATPI-PRTLVLTSLG------DIDISKITEKPAGRKPIKT 460 (700) Q Consensus 397 LvViDEQHR-----FGV~QR~~L~~K----g~~ph~L~MtATPI-PRTLal~~yg------dldvS~i~e~P~gR~~I~T 460 (700) .|||||=|- +|+.=...|..- +..+-.+-+|||-= |...|-.+.| .-++.+++... .+++.- T Consensus 175 ~VIvDE~H~l~~~kRG~~l~l~L~RL~~~~~~~~~riglSATv~~~~~~a~~L~g~~~~g~~r~~~iv~~~~--~k~~~~ 252 (878) T PRK13767 175 WVIVDEIHSLAENKRGVHLSLSLERLEELVGGEFVRIGLSATIEPLEEVAKFLVGYNDDGEPRDCEIVDTRF--AKPIDI 252 (878) T ss_pred EEEECCCHHHHCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCHHHHHHHHCCCCCCCCCCCEEEECCCC--CCCCEE T ss_conf 999817167524774589999999999866899879999646489999999851556679998528954687--787426 Q ss_pred EEEEC-C-----C----HHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCC-----CEECCCCCC Q ss_conf 99970-2-----0----0268999976310387389997120122111210146666666866371-----031201469 Q gi|254780945|r 461 VIIPI-N-----R----IDEVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTS-----SIAIIHGRM 525 (700) Q Consensus 461 ~~~~~-~-----~----~~~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~-----~v~~lHGkm 525 (700) .++.. . . -..+++.+.+.++++..+-+-|- .-..+|..+..|++.+++ +|++-||-| T Consensus 253 ~~~~p~~~~~~~~~~~~~~~~~~~l~~~i~~~~~tLvF~N--------tR~~aE~~~~~L~~~~~~~~~~~~i~~HHgSl 324 (878) T PRK13767 253 KVLCPVDDLIHTPAEEISEALYETLDELIQEHRTTLIFTN--------TRSGAERVVYKLRKRYPEEYDEDNIGAHHSSL 324 (878) T ss_pred EEECCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEEC--------CHHHHHHHHHHHHHHHHHCCCCCCEEEECCCC T ss_conf 8844562124588556899999999999983897799915--------58999999999998534306754322201778 Q ss_pred CHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCC-CCCEEEEEEECC Q ss_conf 9899999999975598699998003410468887658998585254746887730116678-983599997088 Q gi|254780945|r 526 SDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRG-EEISSCILLYHP 598 (700) Q Consensus 526 ~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg-~~~s~c~l~~~~ 598 (700) +.++..++-++|++|+++.+|||+-.|-|||+.+....|=.++-+ +.|-|-|==||-|.. +..|..+++..+ T Consensus 325 s~e~R~~vE~~lk~G~l~~vV~TsSLELGIDiG~Vd~Viq~gsP~-svarllQR~GRsGH~~g~~s~g~~vp~~ 397 (878) T PRK13767 325 SREVRLEVEEKLKRGELKVVVSSTSLELGIDIGYIDLVVLLGSPK-SVSRLLQRIGRAGHRLGEVSKGRIIVVD 397 (878) T ss_pred CHHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCEEEECCCCH-HHHHHHHHHCCCCCCCCCEEEEEEEECC T ss_conf 999999999998579986899827365077777525899758961-1899999833578999980469999798 No 29 >COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair] Probab=99.85 E-value=2.5e-18 Score=163.36 Aligned_cols=294 Identities=23% Similarity=0.309 Sum_probs=193.9 Q ss_pred HHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCC Q ss_conf 63024679889999999998410013430788621442236999999733444305458861279999999986211014 Q gi|254780945|r 267 RNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQ 346 (700) Q Consensus 267 ~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~ 346 (700) ....|+|-.-|+.|++.+.+...+ .+.-++.-=.|||||+||+.++..+-.+ +.++|||+.|+.|-++.+.+.+. T Consensus 31 ~~~~~~lr~yQ~~al~a~~~~~~~--~~~gvivlpTGaGKT~va~~~~~~~~~~---~Lvlv~~~~L~~Qw~~~~~~~~~ 105 (442) T COG1061 31 VAFEFELRPYQEEALDALVKNRRT--ERRGVIVLPTGAGKTVVAAEAIAELKRS---TLVLVPTKELLDQWAEALKKFLL 105 (442) T ss_pred CCCCCCCHHHHHHHHHHHHHHCCC--CCCEEEEECCCCCHHHHHHHHHHHHCCC---EEEEECCHHHHHHHHHHHHHHCC T ss_conf 235788859999999999962225--7867999679998899999999982698---89997829999999999997348 Q ss_pred CCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEEC-HHHCC----CCCCCCCCCEEEECCCCCCCHHHHHHHHHCCCCC Q ss_conf 578658996246422566768776213475486411-12013----3455444417885210133568899874025677 Q gi|254780945|r 347 NTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGT-HALFQ----DSIQYYKLILVIVDEQHRFGVQQRLKLTQKATAP 421 (700) Q Consensus 347 ~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGT-HAL~q----~~v~F~~LgLvViDEQHRFGV~QR~~L~~Kg~~p 421 (700) .. ..+..+.|..+.-+ + ..|.|+| .++.. +...-..-+|+|+||=|..+-.==..+.+--.++ T Consensus 106 ~~-~~~g~~~~~~~~~~----------~-~~i~vat~qtl~~~~~l~~~~~~~~~liI~DE~Hh~~a~~~~~~~~~~~~~ 173 (442) T COG1061 106 LN-DEIGIYGGGEKELE----------P-AKVTVATVQTLARRQLLDEFLGNEFGLIIFDEVHHLPAPSYRRILELLSAA 173 (442) T ss_pred CC-CCCCEECCCCCCCC----------C-CCEEEEEEHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHHHHHHHHHHHCC T ss_conf 86-76603368723357----------7-748999838976415555403566675999752457847799999975103 Q ss_pred C-CEEECHHHHHHHHH-H--HHHHCC-----CHHHHCCCCCCCC-CCEEEEEEC--C-CHH------------------- Q ss_conf 6-10101013227899-9--975201-----0111102355766-620799970--2-002------------------- Q gi|254780945|r 422 H-VLLMTATPIPRTLV-L--TSLGDI-----DISKITEKPAGRK-PIKTVIIPI--N-RID------------------- 469 (700) Q Consensus 422 h-~L~MtATPIPRTLa-l--~~ygdl-----dvS~i~e~P~gR~-~I~T~~~~~--~-~~~------------------- 469 (700) - +|-+||||. |+-. . -+|.-+ +++.-+..=.|-. |..-..+.. . ... T Consensus 174 ~~~LGLTATp~-R~D~~~~~~l~~~~g~~vy~~~~~~li~~g~Lap~~~~~i~~~~t~~~~~~~~~~~~~~~~~~~~~~~ 252 (442) T COG1061 174 YPRLGLTATPE-REDGGRIGDLFDLIGPIVYEVSLKELIDEGYLAPYKYVEIKVTLTEDEEREYAKESARFRELLRARGT 252 (442) T ss_pred CEEEEEECCCC-CCCCCCHHHHHHHCCCEEEECCHHHHHHCCCCCCEEEEEEEECCCHHHHHHCCHHHHHHHHHHHHHCC T ss_conf 10467714872-44877524877405755673358998337875774999986236628777403155555555543100 Q ss_pred ---------------HHHHHHHHHHC---CCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCC--CEECCCCCCCHHH Q ss_conf ---------------68999976310---387389997120122111210146666666866371--0312014699899 Q gi|254780945|r 470 ---------------EVIERLKVVLS---EGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTS--SIAIIHGRMSDID 529 (700) Q Consensus 470 ---------------~~~~~i~~~l~---~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~--~v~~lHGkm~~~e 529 (700) .-+..++..+. +|..+-+.|..++.+ ..+.+.|.. -+..+.|+.+.+| T Consensus 253 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lif~~~~~~a------------~~i~~~~~~~~~~~~it~~t~~~e 320 (442) T COG1061 253 LRAENEARRIAIASERKIAAVRGLLLKHARGDKTLIFASDVEHA------------YEIAKLFLAPGIVEAITGETPKEE 320 (442) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEECCHHHH------------HHHHHHHCCCCCEEEEECCCCHHH T ss_conf 13456777776642899999999987532688669997577999------------999998626774246657899889 Q ss_pred HHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCC-HHHHHHHHHCCCC-CCCCEEE Q ss_conf 9999999755986999980034104688876589985852547-4688773011667-8983599 Q gi|254780945|r 530 KESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFG-LAQLHQLRGRVGR-GEEISSC 592 (700) Q Consensus 530 k~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfG-LsqLHQLRGRVGR-g~~~s~c 592 (700) .++++++|+.|++++||++.|..-|||+|+|++.|+..+ .| -.|.-|-.||+=| ...+++| T Consensus 321 R~~il~~fr~g~~~~lv~~~vl~EGvDiP~~~~~i~~~~--t~S~~~~~Q~lGR~LR~~~~k~~~ 383 (442) T COG1061 321 REAILERFRTGGIKVLVTVKVLDEGVDIPDADVLIILRP--TGSRRLFIQRLGRGLRPAEGKEDT 383 (442) T ss_pred HHHHHHHHHCCCCEEEEEEEEECCCCCCCCCCEEEEECC--CCCHHHHHHHHHHHHCCCCCCCCE T ss_conf 999999987089529999614126657888757999779--987999999961663478899965 No 30 >COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms] Probab=99.83 E-value=1.8e-17 Score=156.55 Aligned_cols=324 Identities=23% Similarity=0.266 Sum_probs=219.1 Q ss_pred HHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHH----HCCEEEEEHHHHHHH Q ss_conf 7899998630246798899999999984100134307886214422369999997334443----054588612799999 Q gi|254780945|r 260 KIAQKILRNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEA----GGQAVIMAPIGILAQ 335 (700) Q Consensus 260 ~~~~~f~~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~----G~Q~alMaPTEILA~ 335 (700) ...+.+.+..+......|..+++++..-...+. .-.|+.-.|+|||.+++.-++....+ .-.+-..-|+-.+.+ T Consensus 183 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~vl~aPTG~GKT~asl~~a~~~~~~~~~~~~r~i~vlP~~t~ie 260 (733) T COG1203 183 ARINKFKSFIEHEGYELQEKALELILRLEKRSL--LVVLEAPTGYGKTEASLILALALLDEKIKLKSRVIYVLPFRTIIE 260 (733) T ss_pred HHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCC--EEEEEECCCCCHHHHHHHHHHHHHHCCCCCCCEEEEECCHHHHHH T ss_conf 776543311455113556799999873225575--189991688871999999999975311354562899655899999 Q ss_pred HHHHHHHHHCCCCCCEEEEEECCCCHHH-HHH-----HH----HHHCC-CCCEEEEECHHHCC--C-CCCCC-----CCC Q ss_conf 9998621101457865899624642256-676-----87----76213-47548641112013--3-45544-----441 Q gi|254780945|r 336 QHYEFIKKYTQNTQIIVEIITGNMPQAH-RRK-----AL----ERIAH-GQAHIIIGTHALFQ--D-SIQYY-----KLI 396 (700) Q Consensus 336 QH~~~~~~~~~~~~i~v~lLtg~~~~~e-r~~-----i~----~~i~~-G~~~iiIGTHAL~q--~-~v~F~-----~Lg 396 (700) |-|+.+++++...++....+.|+....- ... .. ..-+. .-.-+++.|+-.+- - ...|. -.+ T Consensus 261 ~~~~r~~~~~~~~~~~~~~~h~~~~~~~~~~~~~~~~~~~~~~ds~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~S 340 (733) T COG1203 261 DMYRRAKEIFGLFSVIGKSLHSSSKEPLLLEPDQDILLTLTTNDSYKKLLLALIVVTPIQILIFSVKGFKFEFLALLLTS 340 (733) T ss_pred HHHHHHHHHHCCCCCCCCCCCCCCHHHHHHCCCCCCCEEEEECCCCCCCCCCCEEECHHHHHHHHHCCCCCHHHHHHHHC T ss_conf 99999987512355433100131025565170100225888124223620452220699985574046672577887646 Q ss_pred EEEECCCCCCCHH--HHHHH----HHCCCCCCCEEECHHHHHHHHH---HHHHHCC-CHHHH-CCCCCCCCCCEEEEEEC Q ss_conf 7885210133568--89987----4025677610101013227899---9975201-01111-02355766620799970 Q gi|254780945|r 397 LVIVDEQHRFGVQ--QRLKL----TQKATAPHVLLMTATPIPRTLV---LTSLGDI-DISKI-TEKPAGRKPIKTVIIPI 465 (700) Q Consensus 397 LvViDEQHRFGV~--QR~~L----~~Kg~~ph~L~MtATPIPRTLa---l~~ygdl-dvS~i-~e~P~gR~~I~T~~~~~ 465 (700) ++|.||=|-+.=+ =+..+ ..+-...-+++||||+ |-.+- ...++.- .++.. ...|....+........ T Consensus 341 ~vIlDE~h~~~~~~~~~~l~~~i~~l~~~g~~ill~SATl-P~~~~~~l~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~ 419 (733) T COG1203 341 LVILDEVHLYADETMLAALLALLEALAEAGVPVLLMSATL-PPFLKEKLKKALGKGREVVENAKFCPKEDEPGLKRKERV 419 (733) T ss_pred CEEEECHHHCCCCCHHHHHHHHHHHHHHCCCCEEEEECCC-CHHHHHHHHHHHCCCCEECCCCCCCCCCCCCCCCEECCH T ss_conf 7787427541654308999999999996899789992789-979999999985037612134432334554330000011 Q ss_pred CCHH----HHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHH---- Q ss_conf 2002----68999976310387389997120122111210146666666866371031201469989999999997---- Q gi|254780945|r 466 NRID----EVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSF---- 537 (700) Q Consensus 466 ~~~~----~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F---- 537 (700) +-.+ ...+.+..++.+|.++.|||-.| ..|.+.|+.|++.-+ .+.++|+||....+++.++.. T Consensus 420 ~~~~~~~~~~~~~~~~~~~~~~kvlvI~NTV--------~~Aie~Y~~Lk~~~~-~v~LlHSRf~~~dR~~ke~~l~~~~ 490 (733) T COG1203 420 DVEDGPQEELIELISEEVKEGKKVLVIVNTV--------DRAIELYEKLKEKGP-KVLLLHSRFTLKDREEKERELKKLF 490 (733) T ss_pred HHHCCCHHHHHHHHHHHHCCCCCEEEEEECH--------HHHHHHHHHHHCCCC-CEEEEECCCCHHHHHHHHHHHHHHH T ss_conf 1320303776655677642588289999278--------999999999855589-5799886355766999999998887 Q ss_pred HCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCC--CCEEEEEEECCC Q ss_conf 55986999980034104688876589985852547468877301166789--835999970888 Q gi|254780945|r 538 KNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGE--EISSCILLYHPP 599 (700) Q Consensus 538 ~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~--~~s~c~l~~~~~ 599 (700) ..++..|+|||.|||||||+- ..+|+-+-| .+.-|=|.=|||.|-+ ..++-+.....+ T Consensus 491 ~~~~~~IvVaTQVIEagvDid-fd~mITe~a---PidSLIQR~GRv~R~g~~~~~~~~v~~~~~ 550 (733) T COG1203 491 KQNEGFIVVATQVIEAGVDID-FDVLITELA---PIDSLIQRAGRVNRHGKKENGKIYVYNDEE 550 (733) T ss_pred HCCCCEEEEECCEEEEEECCC-CCEEEECCC---CHHHHHHHHHHHHHCCCCCCCCEEEEECCC T ss_conf 537862999834599886266-684663478---756799987777415666687169983466 No 31 >COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only] Probab=99.82 E-value=1.3e-16 Score=149.76 Aligned_cols=326 Identities=18% Similarity=0.217 Sum_probs=249.6 Q ss_pred CCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCE--EEEEHHHHH Q ss_conf 877578999986302467988999999999841001343078862144223699999973344430545--886127999 Q gi|254780945|r 256 NVEGKIAQKILRNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQA--VIMAPIGIL 333 (700) Q Consensus 256 ~~~~~~~~~f~~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~--alMaPTEIL 333 (700) ..++.+...+.+.+++.|=.-|..|++-|.+. .|-++.--.|||||.-.+++++..+..+-++ .++=||--| T Consensus 54 ~~~~~l~~~l~~~g~~~lY~HQ~~A~~~~~~G------~~vvVtTgTgSGKTe~FllPIld~~l~~~~a~AL~lYPtnAL 127 (851) T COG1205 54 LRDESLKSALVKAGIERLYSHQVDALRLIREG------RNVVVTTGTGSGKTESFLLPILDHLLRDPSARALLLYPTNAL 127 (851) T ss_pred HCCHHHHHHHHHHCCCCCCHHHHHHHHHHHCC------CCEEEECCCCCCHHHHHHHHHHHHHHCCCCCEEEEEECHHHH T ss_conf 20037889999743442007799999999779------988997899885458989999999830866508998043776 Q ss_pred HHHHHHHHHHHCCCCC--CEEEEEECCCCHHHHHHHHHHHCCCCCEEEEEC----HH-HC----CCCCCCCCCCEEEECC Q ss_conf 9999986211014578--658996246422566768776213475486411----12-01----3345544441788521 Q gi|254780945|r 334 AQQHYEFIKKYTQNTQ--IIVEIITGNMPQAHRRKALERIAHGQAHIIIGT----HA-LF----QDSIQYYKLILVIVDE 402 (700) Q Consensus 334 A~QH~~~~~~~~~~~~--i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGT----HA-L~----q~~v~F~~LgLvViDE 402 (700) |+-..+.|+++...++ +.+...||.++..+|+.+++ +.++|++-+ |- |+ +....|++|-++|+|| T Consensus 128 a~DQ~~rl~~~~~~~~~~v~~~~y~Gdt~~~~r~~~~~----~pp~IllTNpdMLh~~llr~~~~~~~~~~~Lk~lVvDE 203 (851) T COG1205 128 ANDQAERLRELISDLPGKVTFGRYTGDTPPEERRAIIR----NPPDILLTNPDMLHYLLLRNHDAWLWLLRNLKYLVVDE 203 (851) T ss_pred HHHHHHHHHHHHHHCCCCEEEEEECCCCCHHHHHHHHH----CCCCEEEECHHHHHHHHHCCCCCHHHHHHCCCEEEEEC T ss_conf 76699999999984787513544348896788899873----89978983889998986368822788873275899844 Q ss_pred CC----CCCHHH-----HHHHHH--CCCCCCCEEECHHH-HHHHHHHHHHHCCCHHHHCCCCCCCCCCEEEEEEC----- Q ss_conf 01----335688-----998740--25677610101013-22789999752010111102355766620799970----- Q gi|254780945|r 403 QH----RFGVQQ-----RLKLTQ--KATAPHVLLMTATP-IPRTLVLTSLGDIDISKITEKPAGRKPIKTVIIPI----- 465 (700) Q Consensus 403 QH----RFGV~Q-----R~~L~~--Kg~~ph~L~MtATP-IPRTLal~~ygdldvS~i~e~P~gR~~I~T~~~~~----- 465 (700) =| .||-+= |....- -|.+|.++.+|||= =|--.+..++|..-...+++-...+-++...+... T Consensus 204 lHtYrGv~GS~vA~llRRL~~~~~~~~~~~q~i~~SAT~~np~e~~~~l~~~~f~~~v~~~g~~~~~~~~~~~~p~~~~~ 283 (851) T COG1205 204 LHTYRGVQGSEVALLLRRLLRRLRRYGSPLQIICTSATLANPGEFAEELFGRDFEVPVDEDGSPRGLRYFVRREPPIREL 283 (851) T ss_pred CEECCCCHHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHCCCCCEEECCCCCCCCCCEEEEEECCCCHHH T ss_conf 41215603788999999999997245899628998312468288999862872146314788887874899856851133 Q ss_pred ------CCHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHH-------HCCCCEECCCCCCCHHHHHH Q ss_conf ------20026899997631038738999712012211121014666666686-------63710312014699899999 Q gi|254780945|r 466 ------NRIDEVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHE-------HFTSSIAIIHGRMSDIDKES 532 (700) Q Consensus 466 ------~~~~~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~-------~~~~~v~~lHGkm~~~ek~~ 532 (700) +....+-.++...+.+|-|.-|-|-- . +-++..+....+ .+...|..-||-|..+|... T Consensus 284 ~~~~r~s~~~~~~~~~~~~~~~~~~tL~F~~s----r----~~~e~~~~~~~~~~~~~~~~l~~~v~~~~~~~~~~er~~ 355 (851) T COG1205 284 AESIRRSALAELATLAALLVRNGIQTLVFFRS----R----KQVELLYLSPRRRLVREGGKLLDAVSTYRAGLHREERRR 355 (851) T ss_pred HHHCCCCHHHHHHHHHHHHHHCCCEEEEEEEH----H----HHHHHHHHHHHHHHHHCCCCHHHHEEECCCCCCHHHHHH T ss_conf 22112345779999999998769659999835----7----567887541578875406010331342336699999999 Q ss_pred HHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEECCC Q ss_conf 9999755986999980034104688876589985852547468877301166789835999970888 Q gi|254780945|r 533 VMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILLYHPP 599 (700) Q Consensus 533 ~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~~~ 599 (700) +-.+|++|++..++||.-.|+|||+-....+|...==--+.+.+.|-.||.||-...+.-+.+.... T Consensus 356 ie~~~~~g~~~~~~st~AlelgidiG~ldavi~~g~P~~s~~~~~Q~~GRaGR~~~~~l~~~v~~~~ 422 (851) T COG1205 356 IEAEFKEGELLGVIATNALELGIDIGSLDAVIAYGYPGVSVLSFRQRAGRAGRRGQESLVLVVLRSD 422 (851) T ss_pred HHHHHHCCCCCEEEECHHHCCCEEECCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCEEEEEECCC T ss_conf 9999746884178612101226567021145304889702888988611035887875379983788 No 32 >KOG0354 consensus Probab=99.80 E-value=1.5e-17 Score=157.15 Aligned_cols=329 Identities=21% Similarity=0.325 Sum_probs=210.2 Q ss_pred HHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHH--HCCEEEEEHHHHHHHHHHHHH Q ss_conf 998630246798899999999984100134307886214422369999997334443--054588612799999999862 Q gi|254780945|r 264 KILRNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEA--GGQAVIMAPIGILAQQHYEFI 341 (700) Q Consensus 264 ~f~~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~--G~Q~alMaPTEILA~QH~~~~ 341 (700) .+.=-=+|+|-+-|...+. ..|.+ |-|+---.|||||.||+..|+.-.+. ...++|||||--|-.|+...| T Consensus 54 ~~~~p~~~~lR~YQ~eivq---~ALgk----Ntii~lPTG~GKTfIAa~Vm~nh~rw~p~~KiVF~aP~~pLv~QQ~a~~ 126 (746) T KOG0354 54 RWIYPTNLELRNYQEELVQ---PALGK----NTIIALPTGSGKTFIAAVIMKNHFEWRPKGKVVFLAPTRPLVNQQIACF 126 (746) T ss_pred CCCCCCCCCCCHHHHHHHH---HHHCC----CEEEEEECCCCCCCHHHHHHHHHHHCCCCCEEEEEECCCHHHHHHHHHH T ss_conf 4104676656078999867---86268----7699953599861047999999972377643899607711788889887 Q ss_pred HHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCC------CCCCCCEEEECCCCCC------CHH Q ss_conf 1101457865899624642256676877621347548641112013345------5444417885210133------568 Q gi|254780945|r 342 KKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSI------QYYKLILVIVDEQHRF------GVQ 409 (700) Q Consensus 342 ~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v------~F~~LgLvViDEQHRF------GV~ 409 (700) +.++.+.. ..+.++|-.+...|..++. ..+++|-|--+++.++ .|+..-++||||=||= -+- T Consensus 127 ~~~~~~~~-~T~~l~~~~~~~~r~~i~~-----s~~vff~TpQil~ndL~~~~~~~ls~fs~iv~DE~Hra~kn~~Y~~V 200 (746) T KOG0354 127 SIYLIPYS-VTGQLGDTVPRSNRGEIVA-----SKRVFFRTPQILENDLKSGLHDELSDFSLIVFDECHRTSKNHPYNNI 200 (746) T ss_pred HHCCCCCC-CEEECCCCCCCCCHHHHHC-----CCCEEEECHHHHHHHCCCCCCCCCCEEEEEEECCCCCCCCCCCHHHH T ss_conf 62067601-0455057568876245310-----26358967276343325433454551799997222445556617999 Q ss_pred HHHHHHHCCCCCCCEEECHHHHHHHHHHH-----HHHCCCHHHHCCC----CCCCCCCEEEEEE----CCC----HHHHH Q ss_conf 89987402567761010101322789999-----7520101111023----5576662079997----020----02689 Q gi|254780945|r 410 QRLKLTQKATAPHVLLMTATPIPRTLVLT-----SLGDIDISKITEK----PAGRKPIKTVIIP----INR----IDEVI 472 (700) Q Consensus 410 QR~~L~~Kg~~ph~L~MtATPIPRTLal~-----~ygdldvS~i~e~----P~gR~~I~T~~~~----~~~----~~~~~ 472 (700) =|.-|..|...+-+|-+||||=--+.++- ++..||+..+... +.- +.+....+. ... ...++ T Consensus 201 mr~~l~~k~~~~qILgLTASpG~~~~~v~~~I~~L~asldvr~~ssi~~~y~~l-r~~~~i~v~~~~~~~~~~~~f~~~i 279 (746) T KOG0354 201 MREYLDLKNQGNQILGLTASPGSKLEQVQNVIDNLCASLDVRTESSIKSNYEEL-REHVQIPVDLSLCERDIEDPFGMII 279 (746) T ss_pred HHHHHHHHHCCCCEEEEECCCCCCHHHHHHHHHHHHEECCCCHHHHHHHHHHHH-HCCCCCCCCHHHHHHHHHHHHHHHH T ss_conf 999998651466179985588845899999998520332555044565418987-2467524758876411343699999 Q ss_pred HHHHHHHC--------CCCEEE--EEE-------CCCCCCCC-------------------------------------- Q ss_conf 99976310--------387389--997-------12012211-------------------------------------- Q gi|254780945|r 473 ERLKVVLS--------EGKKAY--WIC-------PQIEEKKE-------------------------------------- 497 (700) Q Consensus 473 ~~i~~~l~--------~g~q~y--~Vc-------PlIeese~-------------------------------------- 497 (700) +.+-..+. ...+.| ||. |-..+.++ T Consensus 280 ~p~l~~l~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~f~~~~~~~~~~~ll~~~gir~~~~l~~~~~f~~e~~ 359 (746) T KOG0354 280 EPLLQQLQEEGLIEISDKSTSYEQWVVQAEKAAAPNGPENQRNCFYALHLRKYNLALLISDGIRFVDALDYLEDFYEEVA 359 (746) T ss_pred HHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHCCCCC T ss_conf 99999998638541024333444404330022236887432036789999987888876323403777765554300000 Q ss_pred -------------------------------------C-----------------------C-CCHHHHHHHHHHHHC-C Q ss_conf -------------------------------------1-----------------------2-101466666668663-7 Q gi|254780945|r 498 -------------------------------------S-----------------------N-FRSVVERFNSLHEHF-T 515 (700) Q Consensus 498 -------------------------------------~-----------------------~-~~~~~~~~~~l~~~~-~ 515 (700) + + -.+|......|.+.. + T Consensus 360 ~~k~~~~~~e~~~~~~~~~~m~~~~~l~~~~~~~npkle~l~~~l~e~f~~~~dsR~IIFve~R~sa~~l~~~l~~~~~~ 439 (746) T KOG0354 360 LKKYLKLELEARLIRNFTENMNELEHLSLDPPKENPKLEKLVEILVEQFEQNPDSRTIIFVETRESALALKKWLLQLHEL 439 (746) T ss_pred HHHHHHHHHCCHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCCCEEEEEEHHHHHHHHHHHHHHHHHC T ss_conf 46788987422106778898876443202787668469999999999860598850799973288999999999754013 Q ss_pred C-C----EECCCC----CCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCC Q ss_conf 1-0----312014----699899999999975598699998003410468887658998585254746887730116678 Q gi|254780945|r 516 S-S----IAIIHG----RMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRG 586 (700) Q Consensus 516 ~-~----v~~lHG----km~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg 586 (700) . + ||--+| .|+..+..++|++|++|++.+||||+|-|=|+|||..+++|-+|+--= --+.-|=||| || T Consensus 440 ~ir~~~fiGq~~s~~~~gmtqk~Q~evl~~Fr~G~~NvLVATSV~EEGLDI~ec~lVIcYd~~sn-pIrmIQrrGR-gR- 516 (746) T KOG0354 440 GIKAEIFIGQGKSTQSTGMTQKEQKEVLDKFRDGEINVLVATSVAEEGLDIGECNLVICYDYSSN-PIRMVQRRGR-GR- 516 (746) T ss_pred CCCCCEEEECCCCCCCCCCCHHHHHHHHHHHHCCCCCEEEEECCHHCCCCCCCCCEEEEECCCCC-HHHHHHHHCC-CC- T ss_conf 54402156035445444457899999999985798027998101004677421128999657766-8899998631-01- Q ss_pred CCCEEEEEEECCCCCHHHHHHHHH Q ss_conf 983599997088899879999999 Q gi|254780945|r 587 EEISSCILLYHPPLSKNSYTRLSV 610 (700) Q Consensus 587 ~~~s~c~l~~~~~~~~~~~~Rl~~ 610 (700) .+.|+|+|++. .....-.+|-+. T Consensus 517 a~ns~~vll~t-~~~~~~~E~~~~ 539 (746) T KOG0354 517 ARNSKCVLLTT-GSEVIEFERNNL 539 (746) T ss_pred CCCCEEEEEEC-CHHHHHHHHHHH T ss_conf 01876999972-516889988887 No 33 >KOG0952 consensus Probab=99.78 E-value=7.4e-16 Score=143.96 Aligned_cols=316 Identities=24% Similarity=0.358 Sum_probs=223.0 Q ss_pred HHCCCC-CCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHH----------HHCCEEEEEHHHHHHH Q ss_conf 630246-79889999999998410013430788621442236999999733444----------3054588612799999 Q gi|254780945|r 267 RNIPFS-PTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVE----------AGGQAVIMAPIGILAQ 335 (700) Q Consensus 267 ~~LPF~-LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~----------~G~Q~alMaPTEILA~ 335 (700) .-++|+ |..=|..|..-+.. ++.-| |+..-.|||||.||+++++..+. +++..++.||+--||. T Consensus 104 ~~f~f~~fN~iQS~vFp~aY~---SneNM--LIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~ 178 (1230) T KOG0952 104 GFFSFEEFNRIQSEVFPVAYK---SNENM--LICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAA 178 (1230) T ss_pred HCCCHHHHHHHHHHHHHHHHC---CCCCE--EEECCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCEEEEEECHHHHHH T ss_conf 006688887778774146514---78877--9977789971678999999999850145543468713999925688999 Q ss_pred HHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHC----C----CCCCCCCCCEEEECCCCCCC Q ss_conf 999862110145786589962464225667687762134754864111201----3----34554444178852101335 Q gi|254780945|r 336 QHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALF----Q----DSIQYYKLILVIVDEQHRFG 407 (700) Q Consensus 336 QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~----q----~~v~F~~LgLvViDEQHRFG 407 (700) --+++|.+-|.++|++|.-|||.+...+-+ +. ..+|||-|--=+ - +..-|...+||||||=|=-- T Consensus 179 Em~~~~~kkl~~~gi~v~ELTGD~ql~~te-i~------~tqiiVTTPEKwDvvTRk~~~d~~l~~~V~LviIDEVHlLh 251 (1230) T KOG0952 179 EMVDKFSKKLAPLGISVRELTGDTQLTKTE-IA------DTQIIVTTPEKWDVVTRKSVGDSALFSLVRLVIIDEVHLLH 251 (1230) T ss_pred HHHHHHHHHCCCCCCEEEEECCCCHHHHHH-HH------HCCEEEECCCCEEEEEEEECCCHHHHHHEEEEEEEEEHHHC T ss_conf 999998664242462588841754566778-77------43779706340004665412626555542048853001215 Q ss_pred -----HHH----H-HHHHHCC-CCCCCEEECHHHHHHHHHHHHHHCCC-----HHH-HCCCCCCCCCCEEEEEECCC--- Q ss_conf -----688----9-9874025-67761010101322789999752010-----111-10235576662079997020--- Q gi|254780945|r 408 -----VQQ----R-LKLTQKA-TAPHVLLMTATPIPRTLVLTSLGDID-----ISK-ITEKPAGRKPIKTVIIPINR--- 467 (700) Q Consensus 408 -----V~Q----R-~~L~~Kg-~~ph~L~MtATPIPRTLal~~ygdld-----vS~-i~e~P~gR~~I~T~~~~~~~--- 467 (700) |-- | ..+.+-+ ...-++-.||| +|--+-++.|=-.. .|. ..-.| .|.+..+++.+. T Consensus 252 d~RGpvlEtiVaRtlr~vessqs~IRivgLSAT-lPN~eDvA~fL~vn~~~glfsFd~~yRP---vpL~~~~iG~k~~~~ 327 (1230) T KOG0952 252 DDRGPVLETIVARTLRLVESSQSMIRIVGLSAT-LPNYEDVARFLRVNPYAGLFSFDQRYRP---VPLTQGFIGIKGKKN 327 (1230) T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHEEEEEEECC-CCCHHHHHHHHCCCCCCCEEEECCCCCC---CCEEEEEEEEECCCC T ss_conf 766406999999999998854200578886245-7877999998667875662652023203---431116874212442 Q ss_pred ------HHH-HHHHHHHHHCCCCEEEEEECCCCCCC--------------CCCCCHHHHHHHHHHHHCCCCEECCCCCCC Q ss_conf ------026-89999763103873899971201221--------------112101466666668663710312014699 Q gi|254780945|r 468 ------IDE-VIERLKVVLSEGKKAYWICPQIEEKK--------------ESNFRSVVERFNSLHEHFTSSIAIIHGRMS 526 (700) Q Consensus 468 ------~~~-~~~~i~~~l~~g~q~y~VcPlIeese--------------~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~ 526 (700) +++ .|+.+.+-+++|+||.+.|+.=.+.- ..++-.-..+-+.|++.|...+|+=|.-|. T Consensus 328 ~~~~~~~d~~~~~kv~e~~~~g~qVlvFvhsR~~Ti~tA~~l~~~a~~~g~~~~f~~~~~~k~l~elf~~g~~iHhAGm~ 407 (1230) T KOG0952 328 RQQKKNIDEVCYDKVVEFLQEGHQVLVFVHSRNETIRTAKKLRERAETNGEKDLFLPSPRNKQLKELFQQGMGIHHAGML 407 (1230) T ss_pred HHHHHHHHHHHHHHHHHHHHCCCEEEEEEECCHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCC T ss_conf 00246677789999999997498599999657489999999999988628656567883667899998740102025643 Q ss_pred HHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEE----EECHHH-----CCHHHHHHHHHCCCCC--CCCEEEEEE Q ss_conf 89999999997559869999800341046888765899----858525-----4746887730116678--983599997 Q gi|254780945|r 527 DIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIII----IENAEH-----FGLAQLHQLRGRVGRG--EEISSCILL 595 (700) Q Consensus 527 ~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mv----I~~aer-----fGLsqLHQLRGRVGRg--~~~s~c~l~ 595 (700) -.++.-+=+-|..|-+.||+||.-.-+||+.|.--++| +++|.. .|..-.-|+=||-||- +..|..+++ T Consensus 408 r~DR~l~E~~F~~G~i~vL~cTaTLAwGVNLPA~aViIKGT~~ydsskg~f~dlgilDVlQifGRAGRPqFd~~G~giIi 487 (1230) T KOG0952 408 RSDRQLVEKEFKEGHIKVLCCTATLAWGVNLPAYAVIIKGTQVYDSSKGSFVDLGILDVLQIFGRAGRPQFDSSGEGIII 487 (1230) T ss_pred HHHHHHHHHHHHCCCCEEEEECCEEEECCCCCCEEEEECCCCCCCCCCCCEEEEHHHHHHHHHHCCCCCCCCCCCEEEEE T ss_conf 14689999998559822899612133125776418986487411356684354028888998720689987777628999 Q ss_pred ECC Q ss_conf 088 Q gi|254780945|r 596 YHP 598 (700) Q Consensus 596 ~~~ 598 (700) +.. T Consensus 488 Tt~ 490 (1230) T KOG0952 488 TTR 490 (1230) T ss_pred ECC T ss_conf 665 No 34 >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=99.78 E-value=8.2e-17 Score=151.44 Aligned_cols=283 Identities=20% Similarity=0.302 Sum_probs=174.4 Q ss_pred HHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCC----CEE Q ss_conf 9999999998410013430788621442236999999733444305458861279999999986211014578----658 Q gi|254780945|r 277 QESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQ----IIV 352 (700) Q Consensus 277 Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~----i~v 352 (700) |-.+++.|.+- +.+ --++.--.|||||.-|++.++ .++..+.+..||--||++.+++++++++.++ +++ T Consensus 2 q~~~~~~~~~~---~~~-~ivitAPTgsGKT~Aa~lp~l---~~~~~~lyi~P~kAL~~Dq~~~l~~~~~~~~~~~~~~~ 74 (357) T TIGR03158 2 QVATFEALQSK---DAD-IIFNTAPTGAGKTLAWLTPLL---HGENDTIALYPTNALIEDQTEAIKEFVDVFKPERDVNL 74 (357) T ss_pred HHHHHHHHHCC---CCC-EEEEECCCCCCHHHHHHHHHH---HCCCCEEEECCHHHHHHHHHHHHHHHHHHHCCCCCCCE T ss_conf 68999999768---998-699989998569999999997---38987999777899999999999999987442346440 Q ss_pred EEEECCCCH-----------HHHHHH-----HHHHCCCCCEEEEEC----HHHCCC---------CCCCCCCCEEEECCC Q ss_conf 996246422-----------566768-----776213475486411----120133---------455444417885210 Q gi|254780945|r 353 EIITGNMPQ-----------AHRRKA-----LERIAHGQAHIIIGT----HALFQD---------SIQYYKLILVIVDEQ 403 (700) Q Consensus 353 ~lLtg~~~~-----------~er~~i-----~~~i~~G~~~iiIGT----HAL~q~---------~v~F~~LgLvViDEQ 403 (700) .-++|.+.. ..+.+. ...+.....+|++-| |-++.. .--|.+|.+|||||= T Consensus 75 ~~~~~~~~~~~~~~~~d~~~~~~g~~~~~~~r~~~~~~~p~ILlTtPd~l~~~l~~~~~~~~~~~~~~~~~l~~VViDEi 154 (357) T TIGR03158 75 LHVSKATLKDIKEYANDKVGSSKGEKLYNLLRNPIGTSTPIILLTNPDIFVYLTRFAYIDRGDIAAGFYTKFSTVIFDEF 154 (357) T ss_pred EECCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHCCCCCEEEEECHHHHHHHHHHHCCCCCHHHHHHHHCCCEEEEEEE T ss_conf 21146432334446555534344541025665430258990999288999999762013651039999851674775620 Q ss_pred CCCCHHHHHH----------HHHCCCCCCCEEECHHHHHHHHH-HHHHHC--CCHHHHC---------------CCCCCC Q ss_conf 1335688998----------74025677610101013227899-997520--1011110---------------235576 Q gi|254780945|r 404 HRFGVQQRLK----------LTQKATAPHVLLMTATPIPRTLV-LTSLGD--IDISKIT---------------EKPAGR 455 (700) Q Consensus 404 HRFGV~QR~~----------L~~Kg~~ph~L~MtATPIPRTLa-l~~ygd--ldvS~i~---------------e~P~gR 455 (700) |-|.-.++.. ...+...+.++.|||||-|--.. +...+. -+++.++ +.|.+. T Consensus 155 H~y~~~~~~~~~~~l~~~~~~~~~~~~~~~i~lSAT~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 234 (357) T TIGR03158 155 HLYDAKQLVGMLFLLAYMQLIRFFECRRKFVFLSATPDPALILRLQNAKQAGVKIAPIDGEKYQFPDNPELEADNKTQSF 234 (357) T ss_pred HCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC T ss_conf 00067620899999999999863368980899827998035789863234576434565444456787433345543455 Q ss_pred C----CCEEEEEECC-----CHHHHHHHHHHHHC--CCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHC-CCCEECCCC Q ss_conf 6----6207999702-----00268999976310--3873899971201221112101466666668663-710312014 Q gi|254780945|r 456 K----PIKTVIIPIN-----RIDEVIERLKVVLS--EGKKAYWICPQIEEKKESNFRSVVERFNSLHEHF-TSSIAIIHG 523 (700) Q Consensus 456 ~----~I~T~~~~~~-----~~~~~~~~i~~~l~--~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~-~~~v~~lHG 523 (700) . ||........ ...+..+.+.+.+. .|.++-++|-.+ ..+...++.|++.. +.+++-+|| T Consensus 235 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~v~~~s~--------~~~~~l~~~l~~~~~~~~~~~~~~ 306 (357) T TIGR03158 235 RPVLPPVELELIPAPDFKEEELSELAEEVIERFRQLPGERGAIILDSL--------DEVNRLSDLLQQQGLGDDIGRITG 306 (357) T ss_pred CCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCEEEEECCH--------HHHHHHHHHHHHCCCCCHHHHHCC T ss_conf 444675011234663044679999999999999985267179995589--------999999999986336411455425 Q ss_pred CCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCC Q ss_conf 6998999999999755986999980034104688876589985852547468877301166 Q gi|254780945|r 524 RMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVG 584 (700) Q Consensus 524 km~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVG 584 (700) -...++++ +.++.+++|||+++|+|||+ +..++|.+- +..|.|-|==||+| T Consensus 307 ~~~~~~re------k~~~~~~vVaTsaLElGIDi-~~d~~i~~~---~~v~sl~QR~GRaG 357 (357) T TIGR03158 307 FAPKKDRE------RAMQFDILLGTSTVDVGVDF-KRDWLIFSA---RDAAAFWQRLGRLG 357 (357) T ss_pred CCHHHHHH------CCCCCCEEEECCCCEEEEEC-CCCEEEECC---CCHHHHHHCCCCCC T ss_conf 56188985------04899999987701035611-789899589---87888997266799 No 35 >KOG0331 consensus Probab=99.77 E-value=5.5e-16 Score=144.98 Aligned_cols=336 Identities=22% Similarity=0.327 Sum_probs=230.2 Q ss_pred CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHH---------HCCEEEEEHHHHHHHHHHHHHH Q ss_conf 6798899999999984100134307886214422369999997334443---------0545886127999999998621 Q gi|254780945|r 272 SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEA---------GGQAVIMAPIGILAQQHYEFIK 342 (700) Q Consensus 272 ~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~---------G~Q~alMaPTEILA~QH~~~~~ 342 (700) .+|.=|.+++--... +.-| ...-..|||||+=.++.++.-+.+ |-++.++|||-=||.|-.+.+. T Consensus 113 ~PtpIQaq~wp~~l~----GrD~--v~iA~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P~vLVL~PTRELA~QV~~~~~ 186 (519) T KOG0331 113 KPTPIQAQGWPIALS----GRDL--VGIARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGPIVLVLAPTRELAVQVQAEAR 186 (519) T ss_pred CCCHHHHCCCCEECC----CCCE--EEEECCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCEEEEECCCHHHHHHHHHHHH T ss_conf 885344144651126----8865--7782357862055555799998700444347999869997685999999999999 Q ss_pred HHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHC-----CCCCCCCCCCEEEECCCCC-----CCHHHHH Q ss_conf 10145786589962464225667687762134754864111201-----3345544441788521013-----3568899 Q gi|254780945|r 343 KYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALF-----QDSIQYYKLILVIVDEQHR-----FGVQQRL 412 (700) Q Consensus 343 ~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~-----q~~v~F~~LgLvViDEQHR-----FGV~QR~ 412 (700) ++-..+++++.+++|..+.. ....++..| ++|+|||---+ +..+.++++.++|.||=-| |.= |=. T Consensus 187 ~~~~~~~~~~~cvyGG~~~~---~Q~~~l~~g-vdiviaTPGRl~d~le~g~~~l~~v~ylVLDEADrMldmGFe~-qI~ 261 (519) T KOG0331 187 EFGKSLRLRSTCVYGGAPKG---PQLRDLERG-VDVVIATPGRLIDLLEEGSLNLSRVTYLVLDEADRMLDMGFEP-QIR 261 (519) T ss_pred HHCCCCCCCEEEEECCCCCC---HHHHHHHCC-CCEEEECCHHHHHHHHCCCCCCCCEEEEEECCHHHHHCCCCHH-HHH T ss_conf 97077774079986898863---788987559-8189807717899997488564530399963477663135379-999 Q ss_pred HHHHCCCCCC-CEEE-CHHHHHH---HHHHHHHHC-CCHHHH--CCCCCCCCCCEEEEEEC---CCHHHHHHHHHHHH-C Q ss_conf 8740256776-1010-1013227---899997520-101111--02355766620799970---20026899997631-0 Q gi|254780945|r 413 KLTQKATAPH-VLLM-TATPIPR---TLVLTSLGD-IDISKI--TEKPAGRKPIKTVIIPI---NRIDEVIERLKVVL-S 480 (700) Q Consensus 413 ~L~~Kg~~ph-~L~M-tATPIPR---TLal~~ygd-ldvS~i--~e~P~gR~~I~T~~~~~---~~~~~~~~~i~~~l-~ 480 (700) ++.++-..|+ +.+| ||| .|. -||-.+-++ ..+.+. +++=. +..|.-.+..- .+..++...+.+.. . T Consensus 262 ~Il~~i~~~~rQtlm~saT-wp~~v~~lA~~fl~~~~~i~ig~~~~~~a-~~~i~qive~~~~~~K~~~l~~lL~~~~~~ 339 (519) T KOG0331 262 KILSQIPRPDRQTLMFSAT-WPKEVRQLAEDFLNNPIQINVGNKKELKA-NHNIRQIVEVCDETAKLRKLGKLLEDISSD 339 (519) T ss_pred HHHHHCCCCCCCEEEEEEE-CCHHHHHHHHHHHCCCEEEEECCHHHHHH-HCCHHHHHHHCCHHHHHHHHHHHHHHHHCC T ss_conf 9987558975227888654-64889999999845964899612145544-333146511268788988799999997356 Q ss_pred CCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCC Q ss_conf 38738999712012211121014666666686637103120146998999999999755986999980034104688876 Q gi|254780945|r 481 EGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDA 560 (700) Q Consensus 481 ~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna 560 (700) .++++.|-|-.. ..+++....++.. +-+...+||..+..|.+.+|+.|++|+..|||||-|--=|+|||+. T Consensus 340 ~~~KvIIFc~tk--------r~~~~l~~~l~~~-~~~a~~iHGd~sQ~eR~~~L~~FreG~~~vLVATdVAaRGLDi~dV 410 (519) T KOG0331 340 SEGKVIIFCETK--------RTCDELARNLRRK-GWPAVAIHGDKSQSERDWVLKGFREGKSPVLVATDVAARGLDVPDV 410 (519) T ss_pred CCCCEEEEECCH--------HHHHHHHHHHHHC-CCCEEEECCCCCHHHHHHHHHHCCCCCCCEEEECCCCCCCCCCCCC T ss_conf 898689996433--------6499999887751-7661550066648899999975026885469881531256887666 Q ss_pred CEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHC---HHHHHHHHHHHHCCC Q ss_conf 5899858525474688773011667898359999708889987999999998414---258999999852063 Q gi|254780945|r 561 SIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILLYHPPLSKNSYTRLSVLKNTE---DGFLIAEEDLKQRKE 630 (700) Q Consensus 561 ~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~~~~~~~~~~Rl~~l~~~~---dGf~iAe~Dl~lRG~ 630 (700) .+.|=++--+===.=.|. =||-||.+..|..+.++.......+.+=.+++.+-+ ........+-..=|+ T Consensus 411 ~lVInydfP~~vEdYVHR-iGRTGRa~~~G~A~tfft~~~~~~a~~l~~~l~e~~q~v~~~l~~~~~~~~~~~ 482 (519) T KOG0331 411 DLVINYDFPNNVEDYVHR-IGRTGRAGKKGTAITFFTSDNAKLARELIKVLREAGQTVPPDLLEYARVSGSGG 482 (519) T ss_pred CEEEECCCCCCHHHHHHH-CCCCCCCCCCCEEEEEEEHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHCCCCC T ss_conf 479967899998998865-376545788824899972788777899999999706878747888876204687 No 36 >pfam00270 DEAD DEAD/DEAH box helicase. 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. Probab=99.76 E-value=1.8e-17 Score=156.53 Aligned_cols=151 Identities=31% Similarity=0.412 Sum_probs=121.1 Q ss_pred CHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHH---HHCCEEEEEHHHHHHHHHHHHHHHHCCCCCC Q ss_conf 9889999999998410013430788621442236999999733444---3054588612799999999862110145786 Q gi|254780945|r 274 TKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVE---AGGQAVIMAPIGILAQQHYEFIKKYTQNTQI 350 (700) Q Consensus 274 T~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~---~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i 350 (700) |.-|++|++.+.+ -.+-++++..|||||.+|+++++..+. +|.++.+++||.-|++|+++.+++++...++ T Consensus 1 ~~~Q~~~i~~~~~------g~~~iv~~pTGsGKT~~~~~~~l~~~~~~~~~~~~v~l~Pt~aL~~q~~~~~~~~~~~~~~ 74 (167) T pfam00270 1 TPIQAEAIPAILE------GKDVLVQAPTGSGKTLAFLLPALQALLKNPDGPQALVLAPTRELAEQIYEELKKLGKYLGL 74 (167) T ss_pred CHHHHHHHHHHHC------CCCEEEECCCCCCHHHHHHHHHHHHHHHCCCCCEEEEECCHHHHHHHHHHHHHHHHHCCCC T ss_conf 9459999999976------9978998899975899999999999874778987999906088888999886432102676 Q ss_pred EEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHH-----HCCCCCCCCCCCEEEECCCCCCCH-----HHHHHHHHCCCC Q ss_conf 5899624642256676877621347548641112-----013345544441788521013356-----889987402567 Q gi|254780945|r 351 IVEIITGNMPQAHRRKALERIAHGQAHIIIGTHA-----LFQDSIQYYKLILVIVDEQHRFGV-----QQRLKLTQKATA 420 (700) Q Consensus 351 ~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHA-----L~q~~v~F~~LgLvViDEQHRFGV-----~QR~~L~~Kg~~ 420 (700) ++..++|..+..++...+. ..++|+|+|+. +....+.|++++++|+||-|+++= .-+.-+.....+ T Consensus 75 ~~~~~~g~~~~~~~~~~~~----~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~lIvDE~H~~~~~~~g~~~~~il~~l~~~ 150 (167) T pfam00270 75 KVALLYGGDSPKEQLRKLK----KGPDILVGTPGRLLDLLERGGLLLKNLKLLVLDEAHRLLDQGFGDDLEEILRRLPPK 150 (167) T ss_pred CEEEECCCCCHHHHHHHHC----CCCCEEEECHHHHHHHHHHCCCCCCCEEEEEEECHHHHHCCCHHHHHHHHHHHCCCC T ss_conf 4046417861788987640----577079947899999998033121100389988088673358299999999857999 Q ss_pred CCCEEECHHHHHHHH Q ss_conf 761010101322789 Q gi|254780945|r 421 PHVLLMTATPIPRTL 435 (700) Q Consensus 421 ph~L~MtATPIPRTL 435 (700) +.++.||||+ |+.+ T Consensus 151 ~q~v~~SAT~-~~~~ 164 (167) T pfam00270 151 RQILLLSATL-PRNV 164 (167) T ss_pred CCEEEEECCC-CHHH T ss_conf 9789997269-9778 No 37 >PRK05298 excinuclease ABC subunit B; Provisional Probab=99.75 E-value=5.1e-15 Score=137.36 Aligned_cols=309 Identities=22% Similarity=0.354 Sum_probs=216.5 Q ss_pred HCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHH-HCCEEEEEHHHHHHHHHHHHHHHHCC Q ss_conf 30246798899999999984100134307886214422369999997334443-05458861279999999986211014 Q gi|254780945|r 268 NIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEA-GGQAVIMAPIGILAQQHYEFIKKYTQ 346 (700) Q Consensus 268 ~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~-G~Q~alMaPTEILA~QH~~~~~~~~~ 346 (700) .=||+++.||-+||+++.+.+.++.+-. .|.|-.|||||-. |++++++ +.-+.+|||.-.||-|.|..|+.+|+ T Consensus 9 ~s~~~P~GDQP~AI~~L~~gi~~g~~~Q-~LlGvTGSGKTfT----mAnvI~~~~rPtLVlahNKTLAAQLy~Efk~fFP 83 (657) T PRK05298 9 VSPYKPAGDQPQAIAELVEGIESGEKHQ-TLLGVTGSGKTFT----MANVIARVQRPTLVLAHNKTLAAQLYGEFKEFFP 83 (657) T ss_pred CCCCCCCCCCHHHHHHHHHHHHCCCCEE-EEECCCCCCHHHH----HHHHHHHHCCCEEEECCCHHHHHHHHHHHHHHCC T ss_conf 8889999987999999998997499636-9970367856689----9999998689759976658899999999997688 Q ss_pred CCCCEEEEEECC-------------CC------------HH--------------------------------------- Q ss_conf 578658996246-------------42------------25--------------------------------------- Q gi|254780945|r 347 NTQIIVEIITGN-------------MP------------QA--------------------------------------- 362 (700) Q Consensus 347 ~~~i~v~lLtg~-------------~~------------~~--------------------------------------- 362 (700) +. .|+.-.|- .+ .+ T Consensus 84 ~N--aVEYFVSYyDYYQPEAYip~tDtYIEKdssIN~eId~lR~sAT~SLl~RrDVIVVASVSCIYGLGsPe~Y~~~~l~ 161 (657) T PRK05298 84 EN--AVEYFVSYYDYYQPEAYVPSSDTYIEKDSSINEEIERLRLSATKSLLERRDVIVVASVSCIYGLGSPEEYLKMVLH 161 (657) T ss_pred CC--CEEEEECCCCCCCCCCCCCCCCCEEECCCHHHHHHHHHHHHHHHHHHCCCCEEEEEEHHHCCCCCCHHHHHHCEEE T ss_conf 87--1799851445669711147888524236346699999999999988547986999736761689997999734377 Q ss_pred -------HHHHHHHHH---------------------------------------------------------------- Q ss_conf -------667687762---------------------------------------------------------------- Q gi|254780945|r 363 -------HRRKALERI---------------------------------------------------------------- 371 (700) Q Consensus 363 -------er~~i~~~i---------------------------------------------------------------- 371 (700) .|++++.++ T Consensus 162 l~~G~~i~r~~ll~~LV~~qY~RnD~~~~RG~FRVrGDvVdI~Pa~~ed~aiRIeffgDeIE~I~~~Dpltg~~i~~~~~ 241 (657) T PRK05298 162 LRVGQEIDRRELLRRLVELQYERNDIDFQRGTFRVRGDVIDIFPAEYEDRAIRIEFFGDEIERISEFDPLTGEVLGELDR 241 (657) T ss_pred EECCCEECHHHHHHHHHHHCCCCCCCCCCCCEEEEECCEEEEECCCCCCEEEEEEEECCCEEEEEEECCCCCCCCCCCCE T ss_conf 75897717999999999828776765116855577366478833777761699999578062899982778835243334 Q ss_pred ----------------------------------------------------------CCCCCEE-----------EEEC Q ss_conf ----------------------------------------------------------1347548-----------6411 Q gi|254780945|r 372 ----------------------------------------------------------AHGQAHI-----------IIGT 382 (700) Q Consensus 372 ----------------------------------------------------------~~G~~~i-----------iIGT 382 (700) ..|-+.= --|. T Consensus 242 ~~IfPAshyVt~~e~l~~Ai~~I~~EL~eRl~~f~~~gKllEAqRL~qRT~yDlEMl~E~GyCsGIENYSRhl~gR~pGe 321 (657) T PRK05298 242 VTIYPASHYVTPRERLERAIESIKEELEERLKELEKEGKLLEAQRLEQRTRYDLEMLRELGYCSGIENYSRHLSGRAPGE 321 (657) T ss_pred EEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCCCCC T ss_conf 99817867689979999999999999999999999767779888999998879999998287756012156506999887 Q ss_pred --HHHCCCCCCCCCCCEEEECCCCCCCHHHH-----------HHHHHCC-------------------CCCCCEEECHHH Q ss_conf --12013345544441788521013356889-----------9874025-------------------677610101013 Q gi|254780945|r 383 --HALFQDSIQYYKLILVIVDEQHRFGVQQR-----------LKLTQKA-------------------TAPHVLLMTATP 430 (700) Q Consensus 383 --HAL~q~~v~F~~LgLvViDEQHRFGV~QR-----------~~L~~Kg-------------------~~ph~L~MtATP 430 (700) ..||- -|..=-|.||||-|= -|-|= ..|.+-| ..|.+++.|||| T Consensus 322 ~P~tLlD---Yfp~DfLl~iDESHv-tvPQi~gMy~GDrsRK~~LVe~GFRLPSAlDNRPL~feEFe~~~~q~iyVSATP 397 (657) T PRK05298 322 PPPTLLD---YFPDDFLLFIDESHV-TVPQIGGMYNGDRSRKETLVEYGFRLPSALDNRPLKFEEFEAKVPQTIYVSATP 397 (657) T ss_pred CCCHHHH---HCCCCEEEEECCCCC-CCHHHHHHHCCCHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCCEEEEECCC T ss_conf 8944887---577565999832112-408788786231577888987057787233489978899997448779995698 Q ss_pred HHHHHHHHHHHCCCHHHHCCCCCCCC-CCEEEEEECCCHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHH Q ss_conf 22789999752010111102355766-62079997020026899997631038738999712012211121014666666 Q gi|254780945|r 431 IPRTLVLTSLGDIDISKITEKPAGRK-PIKTVIIPINRIDEVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNS 509 (700) Q Consensus 431 IPRTLal~~ygdldvS~i~e~P~gR~-~I~T~~~~~~~~~~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~ 509 (700) =|--|..+ |..---+ =.|-|=. |++..--..++.+.++..|++.+++|+.+.|. . +.-+-+++..+. T Consensus 398 g~yEl~~s--~~vvEQi--IRPTGLlDP~ievrp~~~Qiddl~~ei~~~~~~~er~Lvt-t-------lTkkmaEdLt~y 465 (657) T PRK05298 398 GDYELEKS--GQVVEQI--IRPTGLLDPEIEVRPTKGQVDDLLSEIRKRVAKGERVLVT-T-------LTKRMAEDLTDY 465 (657) T ss_pred CHHHHHHC--CCEEEEE--ECCCCCCCCCEEEECCCCCHHHHHHHHHHHHHCCCEEEEE-E-------CHHHHHHHHHHH T ss_conf 58988736--6734577--7788787984599648787999999999996369769999-5-------459899999999 Q ss_pred HHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCH----HHHHHHHHCCCC Q ss_conf 6866371031201469989999999997559869999800341046888765899858525474----688773011667 Q gi|254780945|r 510 LHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGL----AQLHQLRGRVGR 585 (700) Q Consensus 510 l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGL----sqLHQLRGRVGR 585 (700) |.+. +-++..+|.-.+.-|.-+++.+++.|++|+||.-...-=|+|+|..++..|.|||.=|. ..|-|-=||..| T Consensus 466 l~~~-~ik~~YlHs~i~t~eR~eIl~~LR~G~~DVlVGINLLREGLDlPEVSLVaILDADKeGFLRs~~SLiQtiGRAAR 544 (657) T PRK05298 466 LKEL-GIKVRYLHSDIDTLERVEIIRDLRLGEFDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAAR 544 (657) T ss_pred HHHC-CCEEEEEECCCCHHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCEEEEEEEECCCCCCCCCCCHHHHHHHHHHH T ss_conf 9967-980799626661889999999985888758975002204578761357988706852210352059999878862 Q ss_pred CCCCEEEEEEECCCCCH Q ss_conf 89835999970888998 Q gi|254780945|r 586 GEEISSCILLYHPPLSK 602 (700) Q Consensus 586 g~~~s~c~l~~~~~~~~ 602 (700) + ..|.|+|.. +++++ T Consensus 545 N-~~G~vIlYA-D~iT~ 559 (657) T PRK05298 545 N-VNGKVILYA-DKITD 559 (657) T ss_pred C-CCCEEEEEE-CCCCH T ss_conf 5-797499981-54509 No 38 >COG1201 Lhr Lhr-like helicases [General function prediction only] Probab=99.75 E-value=5.4e-15 Score=137.16 Aligned_cols=319 Identities=22% Similarity=0.257 Sum_probs=243.6 Q ss_pred HHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHH--------HCCEEEEEHHH Q ss_conf 7899998630246798899999999984100134307886214422369999997334443--------05458861279 Q gi|254780945|r 260 KIAQKILRNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEA--------GGQAVIMAPIG 331 (700) Q Consensus 260 ~~~~~f~~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~--------G~Q~alMaPTE 331 (700) ..+.++.+.-==+||.-|..|+.+|.+.- |-|+--=.|||||.-|+++++..+-. |-.|.+..|=- T Consensus 10 ~~v~~~~~~~~~~~t~~Q~~a~~~i~~G~------nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLk 83 (814) T COG1201 10 PRVREWFKRKFTSLTPPQRYAIPEIHSGE------NVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLK 83 (814) T ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHHCCC------CEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCCEEEEEECCHH T ss_conf 99999999850899878999999985898------469986899973799999999999860688888856999957078 Q ss_pred HHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEEC----HHHCCC---CCCCCCCCEEEECCCC Q ss_conf 999999986211014578658996246422566768776213475486411----120133---4554444178852101 Q gi|254780945|r 332 ILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGT----HALFQD---SIQYYKLILVIVDEQH 404 (700) Q Consensus 332 ILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGT----HAL~q~---~v~F~~LgLvViDEQH 404 (700) -|++--..++..|...+|++|+.-||-|+.++|..... .-++|+|-| .+++.. .=.|.|+-.|||||=| T Consensus 84 ALn~Di~~rL~~~~~~~G~~v~vRhGDT~~~er~r~~~----~PPdILiTTPEsL~lll~~~~~r~~l~~vr~VIVDEiH 159 (814) T COG1201 84 ALNNDIRRRLEEPLRELGIEVAVRHGDTPQSEKQKMLK----NPPHILITTPESLAILLNSPKFRELLRDVRYVIVDEIH 159 (814) T ss_pred HHHHHHHHHHHHHHHHCCCCCCEECCCCCHHHHHHCCC----CCCCEEEECHHHHHHHHCCHHHHHHHCCCCEEEEEHHH T ss_conf 88789999999999975984444228788677630469----99968995834899983688899986078099951254 Q ss_pred CCCHHHHHHHHHCC--------CCCCCEEECHHHHHHHH-HHHHHHCCCHHHHCCCCCCCCCCEEEEEECCC-------H Q ss_conf 33568899874025--------67761010101322789-99975201011110235576662079997020-------0 Q gi|254780945|r 405 RFGVQQRLKLTQKA--------TAPHVLLMTATPIPRTL-VLTSLGDIDISKITEKPAGRKPIKTVIIPINR-------I 468 (700) Q Consensus 405 RFGV~QR~~L~~Kg--------~~ph~L~MtATPIPRTL-al~~ygdldvS~i~e~P~gR~~I~T~~~~~~~-------~ 468 (700) -+--+-|-....-+ ..+--.-.|||==|=.. |--+.|+=+...|-+.+.++++=...+.+... . T Consensus 160 el~~sKRG~~Lsl~LeRL~~l~~~~qRIGLSATV~~~~~varfL~g~~~~~~Iv~~~~~k~~~i~v~~p~~~~~~~~~~~ 239 (814) T COG1201 160 ALAESKRGVQLALSLERLRELAGDFQRIGLSATVGPPEEVAKFLVGFGDPCEIVDVSAAKKLEIKVISPVEDLIYDEELW 239 (814) T ss_pred HHHCCCCCHHHHHHHHHHHHHCCCCEEEEEHHCCCCHHHHHHHHCCCCCCEEEEECCCCCCCEEEEEECCCCCCCCCCHH T ss_conf 54345653134332999985175537975402158889999985478984299974567753179980477500026246 Q ss_pred HHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEEC Q ss_conf 26899997631038738999712012211121014666666686637103120146998999999999755986999980 Q gi|254780945|r 469 DEVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIAT 548 (700) Q Consensus 469 ~~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaT 548 (700) ..+++.|.+.+++-.-+-|... .-..+|..+.+|++.++..|..-||-++.+++..+=++|++|+.+.+||| T Consensus 240 ~~~~~~i~~~v~~~~ttLIF~N--------TR~~aE~l~~~L~~~~~~~i~~HHgSlSre~R~~vE~~lk~G~lravV~T 311 (814) T COG1201 240 AALYERIAELVKKHRTTLIFTN--------TRSGAERLAFRLKKLGPDIIEVHHGSLSRELRLEVEERLKEGELKAVVAT 311 (814) T ss_pred HHHHHHHHHHHHHCCCEEEEEE--------CHHHHHHHHHHHHHHCCCCEEEECCCCCHHHHHHHHHHHHCCCCEEEEEC T ss_conf 7899999999961685899972--------72789999999987268755653166657789999999866886299980 Q ss_pred HHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCC-CEEEEEEEC Q ss_conf 0341046888765899858525474688773011667898-359999708 Q gi|254780945|r 549 TVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGEE-ISSCILLYH 597 (700) Q Consensus 549 tviEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~-~s~c~l~~~ 597 (700) |=.|-|||+-.....|=.++-| +.|-+-|==||.|+.-. .|--+++.. T Consensus 312 SSLELGIDiG~vdlVIq~~SP~-sV~r~lQRiGRsgHr~~~~Skg~ii~~ 360 (814) T COG1201 312 SSLELGIDIGDIDLVIQLGSPK-SVNRFLQRIGRAGHRLGEVSKGIIIAE 360 (814) T ss_pred CCHHHCCCCCCCEEEEEECCCH-HHHHHHHHCCCCCCCCCCCCCEEEEEC T ss_conf 6422050247742999817938-888886850314665688642799816 No 39 >KOG0335 consensus Probab=99.74 E-value=8.6e-15 Score=135.59 Aligned_cols=330 Identities=20% Similarity=0.268 Sum_probs=239.4 Q ss_pred CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHH-------------HCCEEEEEHHHHHHHHHH Q ss_conf 6798899999999984100134307886214422369999997334443-------------054588612799999999 Q gi|254780945|r 272 SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEA-------------GGQAVIMAPIGILAQQHY 338 (700) Q Consensus 272 ~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~-------------G~Q~alMaPTEILA~QH~ 338 (700) .+|.=|+-+|.-|..--.- +..+-.|||||.-.++-++..+-. +-++.+||||-=||.|-| T Consensus 96 ~ptpvQk~sip~i~~Grdl------macAqTGsGKT~aFLiPii~~~~~~~~~~~~~~~~~~~P~~lIlapTReL~~Qi~ 169 (482) T KOG0335 96 KPTPVQKYSIPIISGGRDL------MACAQTGSGKTAAFLIPIISYLLDEGPEDRGESGGGVYPRALILAPTRELVDQIY 169 (482) T ss_pred CCCCCEECCCCEEECCCCE------EEECCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEECCHHHHHHHH T ss_conf 8986156042244258842------7882578851378888899999864865666567788972599817378766788 Q ss_pred HHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEEC----HHHC-CCCCCCCCCCEEEECCCCC------CC Q ss_conf 86211014578658996246422566768776213475486411----1201-3345544441788521013------35 Q gi|254780945|r 339 EFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGT----HALF-QDSIQYYKLILVIVDEQHR------FG 407 (700) Q Consensus 339 ~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGT----HAL~-q~~v~F~~LgLvViDEQHR------FG 407 (700) +..+++....++++...-|.++.. .....+..| ++|+|.| -+++ ..+|...+++++|+||--| || T Consensus 170 nea~k~~~~s~~~~~~~ygg~~~~---~q~~~~~~g-cdIlvaTpGrL~d~~e~g~i~l~~~k~~vLDEADrMlD~mgF~ 245 (482) T KOG0335 170 NEARKFSYLSGMKSVVVYGGTDLG---AQLRFIKRG-CDILVATPGRLKDLIERGKISLDNCKFLVLDEADRMLDEMGFE 245 (482) T ss_pred HHHHHHCCCCCCEEEEEECCCCHH---HHHHHHCCC-CCEEEECCCHHHHHHHCCEEEHHHCCEEEECCHHHHHHHCCCC T ss_conf 888764022122033005784454---422333257-5578855750564554151126238589952367766632666 Q ss_pred HHHHHHHHHCCC----CCCCEEECHH---HHHHHHHHHHHH---CCCHHHHCCCCCCCCCCEEEEEECCCHHHHHHHHHH Q ss_conf 688998740256----7761010101---322789999752---010111102355766620799970200268999976 Q gi|254780945|r 408 VQQRLKLTQKAT----APHVLLMTAT---PIPRTLVLTSLG---DIDISKITEKPAGRKPIKTVIIPINRIDEVIERLKV 477 (700) Q Consensus 408 V~QR~~L~~Kg~----~ph~L~MtAT---PIPRTLal~~yg---dldvS~i~e~P~gR~~I~T~~~~~~~~~~~~~~i~~ 477 (700) -.=|..+...+. +-..++.||| =|+|..+..+.- -+.|..+..-+.+=+.=.+.+...++++++++.+.. T Consensus 246 p~Ir~Iv~~~~~~~~~~~qt~mFSAtfp~~iq~l~~~fl~~~yi~laV~rvg~~~~ni~q~i~~V~~~~kr~~Lldll~~ 325 (482) T KOG0335 246 PQIRKIVEQLGMPPKNNRQTLLFSATFPKEIQRLAADFLKDNYIFLAVGRVGSTSENITQKILFVNEMEKRSKLLDLLNK 325 (482) T ss_pred HHHHHHHCCCCCCCCCCEEEEEEECCCCHHHHHHHHHHHHHCCEEEEEEEECCCCCCCEEEEEEECCHHHHHHHHHHHHC T ss_conf 20799962558887466137887355775666447887641513888753046665634676642111357899988613 Q ss_pred HHCC--CCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCC Q ss_conf 3103--87389997120122111210146666666866371031201469989999999997559869999800341046 Q gi|254780945|r 478 VLSE--GKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGI 555 (700) Q Consensus 478 ~l~~--g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGv 555 (700) .-.. -.-+||=--+|--+-+ +-+.+....|... +...--+||--+..|.++.++.|++|.+++||||.|-.-|+ T Consensus 326 ~~~~~~~~~~~~e~tlvFvEt~---~~~d~l~~~l~~~-~~~~~sIhg~~tq~er~~al~~Fr~g~~pvlVaT~VaaRGl 401 (482) T KOG0335 326 DDGPPSDGEPKWEKTLVFVETK---RGADELAAFLSSN-GYPAKSIHGDRTQIEREQALNDFRNGKAPVLVATNVAARGL 401 (482) T ss_pred CCCCCCCCCCCCCEEEEEEECC---HHHHHHHHHHHCC-CCCCEEECCHHHHHHHHHHHHHHHCCCCCEEEEEHHHHCCC T ss_conf 4678665776431389996130---0326999998617-98745603325563799998776469866798703665478 Q ss_pred CCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHCH Q ss_conf 8887658998585254746887730116678983599997088899879999999984142 Q gi|254780945|r 556 DVVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILLYHPPLSKNSYTRLSVLKNTED 616 (700) Q Consensus 556 dvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~~~~~~~~~~Rl~~l~~~~d 616 (700) |+||.+..|.++=---+=.-+|-. ||+||++.-|...-+++.+....+..=.++|.+++- T Consensus 402 Di~~V~hVInyDmP~d~d~YvHRI-GRTGR~Gn~G~atsf~n~~~~~i~~~L~~~l~ea~q 461 (482) T KOG0335 402 DIPNVKHVINYDMPADIDDYVHRI-GRTGRVGNGGRATSFFNEKNQNIAKALVEILTEANQ 461 (482) T ss_pred CCCCCCEEEEEECCCCHHHHHHHC-CCCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHCC T ss_conf 876874358863675246677741-543557777326887647430068999999998426 No 40 >KOG0350 consensus Probab=99.73 E-value=1.4e-15 Score=141.77 Aligned_cols=332 Identities=19% Similarity=0.264 Sum_probs=212.8 Q ss_pred HHHHHHHHHHHHHHCCCCCCE---EEEEECCCCCHHHHHHHHHHHHHHHH----CCEEEEEHHHHHHHHHHHHHHHHCCC Q ss_conf 889999999998410013430---78862144223699999973344430----54588612799999999862110145 Q gi|254780945|r 275 KSQESAIKDILQDMSQKNRML---RILQGDVGSGKTLVALIAMAAAVEAG----GQAVIMAPIGILAQQHYEFIKKYTQN 347 (700) Q Consensus 275 ~~Q~~ai~eI~~Dl~~~~pM~---RLLQGDVGSGKTiVA~~A~l~~~~~G----~Q~alMaPTEILA~QH~~~~~~~~~~ 347 (700) .=|..++--|+.+..++-|.. -.+-.-.|||||+-+.+-+.+++.+- -+|.+.+||--||-|-|.+|++|.++ T Consensus 162 PVQ~aVlp~ll~~~~~p~~~r~rDIcV~ApTGSGKTLaY~iPIVQ~L~~R~v~~LRavVivPtr~L~~QV~~~f~~~~~~ 241 (620) T KOG0350 162 PVQYAVLPSLLEEIRSPPPSRPRDICVNAPTGSGKTLAYVIPIVQLLSSRPVKRLRAVVIVPTRELALQVYDTFKRLNSG 241 (620) T ss_pred CHHHHHHHHHHHHHCCCCCCCCCCEEEECCCCCCCEEEEHHHHHHHHCCCCCCCEEEEEEEEHHHHHHHHHHHHHHHCCC T ss_conf 05888888999861479998877547755789884566513789997038734057999954799999999999985668 Q ss_pred CCCEEEEEECCCCHHHHHHHHH-HHCCCCCEEEEECHHHC------CCCCCCCCCCEEEECCCCCCCHHHHHHHHH---- Q ss_conf 7865899624642256676877-62134754864111201------334554444178852101335688998740---- Q gi|254780945|r 348 TQIIVEIITGNMPQAHRRKALE-RIAHGQAHIIIGTHALF------QDSIQYYKLILVIVDEQHRFGVQQRLKLTQ---- 416 (700) Q Consensus 348 ~~i~v~lLtg~~~~~er~~i~~-~i~~G~~~iiIGTHAL~------q~~v~F~~LgLvViDEQHRFGV~QR~~L~~---- 416 (700) .|+.|+.++|.-+-+.-...+. .-....+||+|.|-+=+ -+.+..++|.+.||||--|.+=.-+..-.. T Consensus 242 tgL~V~~~sgq~sl~~E~~qL~~~~~~~~~DIlVaTPGRLVDHl~~~k~f~Lk~LrfLVIDEADRll~qsfQ~Wl~~v~~ 321 (620) T KOG0350 242 TGLAVCSLSGQNSLEDEARQLASDPPECRIDILVATPGRLVDHLNNTKSFDLKHLRFLVIDEADRLLDQSFQEWLDTVMS 321 (620) T ss_pred CCEEEEECCCCCCHHHHHHHHHCCCCCCCCCEEECCCHHHHHHCCCCCCCCHHHCEEEEECHHHHHHHHHHHHHHHHHHH T ss_conf 86598860145405789999725997654366973726888860489875644535777525778999999988999999 Q ss_pred --CCC-----CCCCEEECHHHHHHHHHHHHHHCCCHHHHCCCCCCCCCCEEEEEE--CCCHHHHHHHHHH--HHCC-CCE Q ss_conf --256-----776101010132278999975201011110235576662079997--0200268999976--3103-873 Q gi|254780945|r 417 --KAT-----APHVLLMTATPIPRTLVLTSLGDIDISKITEKPAGRKPIKTVIIP--INRIDEVIERLKV--VLSE-GKK 484 (700) Q Consensus 417 --Kg~-----~ph~L~MtATPIPRTLal~~ygdldvS~i~e~P~gR~~I~T~~~~--~~~~~~~~~~i~~--~l~~-g~q 484 (700) |+. .-+++-|.--|-| +.|++++-+..+.-|+--+=+.+..+. .++..++--++-+ ...+ -.- T Consensus 322 ~~~~~k~~~~~~nii~~~~~~~p-----t~~~e~~t~~~~~~~~l~kL~~satLsqdP~Kl~~l~l~~Prl~~v~~~~~~ 396 (620) T KOG0350 322 LCKTMKRVACLDNIIRQRQAPQP-----TVLSELLTKLGKLYPPLWKLVFSATLSQDPSKLKDLTLHIPRLFHVSKPLIG 396 (620) T ss_pred HHCCCHHHCCHHHHHHHCCCCCC-----HHHHHHHHHCCCCCCHHHHHHCCHHHHCCHHHHHHHHCCCCCEEEEECCCCE T ss_conf 83774010471544410146774-----0058777412776752676530133304968876533279835886225432 Q ss_pred EEEEECCCCCC--------------------CC-------CCCCHHHHHHHHHHHHCCC---CEECCCCCCCHHHHHHHH Q ss_conf 89997120122--------------------11-------1210146666666866371---031201469989999999 Q gi|254780945|r 485 AYWICPQIEEK--------------------KE-------SNFRSVVERFNSLHEHFTS---SIAIIHGRMSDIDKESVM 534 (700) Q Consensus 485 ~y~VcPlIees--------------------e~-------~~~~~~~~~~~~l~~~~~~---~v~~lHGkm~~~ek~~~m 534 (700) .|-+|+-++++ +- ....++.....-|+-.|.. ++.-..|.+..+...+.+ T Consensus 397 ryslp~~l~~~~vv~~~~~kpl~~~~lI~~~k~~r~lcf~~S~~sa~Rl~~~L~v~~~~~~~~~s~~t~~l~~k~r~k~l 476 (620) T KOG0350 397 RYSLPSSLSHRLVVTEPKFKPLAVYALITSNKLNRTLCFVNSVSSANRLAHVLKVEFCSDNFKVSEFTGQLNGKRRYKML 476 (620) T ss_pred EEECCHHHHHCEEECCCCCCHHHHHHHHHHHHCCEEEEEECCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHH T ss_conf 66157554213342023554376999997740104899952468899999999998626440255652344388999999 Q ss_pred HHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEECCCCCHHHHHHH-HHHHH Q ss_conf 99755986999980034104688876589985852547468877301166789835999970888998799999-99984 Q gi|254780945|r 535 DSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILLYHPPLSKNSYTRL-SVLKN 613 (700) Q Consensus 535 ~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~~~~~~~~~~Rl-~~l~~ 613 (700) ++|..|++.+|||+-+.--||||.+.++.|=+|.-++-=.=.|- -||-+|-+..||||-+.... . ..+. +.+.+ T Consensus 477 ~~f~~g~i~vLIcSD~laRGiDv~~v~~VINYd~P~~~ktyVHR-~GRTARAgq~G~a~tll~~~---~-~r~F~klL~~ 551 (620) T KOG0350 477 EKFAKGDINVLICSDALARGIDVNDVDNVINYDPPASDKTYVHR-AGRTARAGQDGYAITLLDKH---E-KRLFSKLLKK 551 (620) T ss_pred HHHHCCCCEEEEEHHHHHCCCCCCCCCEEEECCCCCHHHHHHHH-HCCCCCCCCCCEEEEEECCC---C-CHHHHHHHHH T ss_conf 98753895299852365547760246047635898126578776-02210056774478963155---4-0379999987 Q ss_pred HCH Q ss_conf 142 Q gi|254780945|r 614 TED 616 (700) Q Consensus 614 ~~d 616 (700) +++ T Consensus 552 ~~~ 554 (620) T KOG0350 552 TNL 554 (620) T ss_pred HCC T ss_conf 435 No 41 >COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair] Probab=99.73 E-value=1e-14 Score=134.99 Aligned_cols=305 Identities=23% Similarity=0.312 Sum_probs=219.6 Q ss_pred CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCE Q ss_conf 67988999999999841001343078862144223699999973344430545886127999999998621101457865 Q gi|254780945|r 272 SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQII 351 (700) Q Consensus 272 ~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~ 351 (700) .+-.+|+.+|+.+.+- ++-|.-==.|+||.+.+-+.++.- .| =+.+..|===|=+-.-..+.. .|++ T Consensus 17 ~FR~gQ~evI~~~l~g------~d~lvvmPTGgGKSlCyQiPAll~--~G-~TLVVSPLiSLM~DQV~~l~~----~Gi~ 83 (590) T COG0514 17 SFRPGQQEIIDALLSG------KDTLVVMPTGGGKSLCYQIPALLL--EG-LTLVVSPLISLMKDQVDQLEA----AGIR 83 (590) T ss_pred CCCCCHHHHHHHHHCC------CCEEEECCCCCCCCHHHHHHHHHC--CC-CEEEECCHHHHHHHHHHHHHH----CCCE T ss_conf 0388889999999658------867998538987106743678865--99-789978568889999999997----5965 Q ss_pred EEEEECCCCHHHHHHHHHHHCCCCCEEEEECHH-----HCCCCCCCCCCCEEEECCCC---CCCHHHHHHHH------HC Q ss_conf 899624642256676877621347548641112-----01334554444178852101---33568899874------02 Q gi|254780945|r 352 VEIITGNMPQAHRRKALERIAHGQAHIIIGTHA-----LFQDSIQYYKLILVIVDEQH---RFGVQQRLKLT------QK 417 (700) Q Consensus 352 v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHA-----L~q~~v~F~~LgLvViDEQH---RFGV~QR~~L~------~K 417 (700) ++.|.|+++..|+..++..+.+|.++++-=+-. -|.+-+.=-.++|+||||=| .+|=.=|-... .. T Consensus 84 A~~lnS~l~~~e~~~v~~~l~~g~~klLyisPErl~~~~f~~~L~~~~i~l~vIDEAHCiSqWGhdFRP~Y~~lg~l~~~ 163 (590) T COG0514 84 AAYLNSTLSREERQQVLNQLKSGQLKLLYISPERLMSPRFLELLKRLPISLVAIDEAHCISQWGHDFRPDYRRLGRLRAG 163 (590) T ss_pred EEHHHCCCCHHHHHHHHHHHHCCCEEEEEECCHHHCCHHHHHHHHHCCCCEEEECHHHHHHHCCCCCCHHHHHHHHHHHH T ss_conf 20442436787799999998649645999881363176899999708875699621777764177437768999999851 Q ss_pred CCCCCCEEECHHHHHHHHHHH--HHHCCCHHHHCCCCCCCCCCEEEEEECC-CHHHHHHHHHHHHCCCCEEEEEECCCCC Q ss_conf 567761010101322789999--7520101111023557666207999702-0026899997631038738999712012 Q gi|254780945|r 418 ATAPHVLLMTATPIPRTLVLT--SLGDIDISKITEKPAGRKPIKTVIIPIN-RIDEVIERLKVVLSEGKKAYWICPQIEE 494 (700) Q Consensus 418 g~~ph~L~MtATPIPRTLal~--~ygdldvS~i~e~P~gR~~I~T~~~~~~-~~~~~~~~i~~~l~~g~q~y~VcPlIee 494 (700) =.+|-++..|||-=|++-.-. ..+.=+-.++.. -..|..|.-.++... -+.+.. |+.+....+.+.=+||-+ T Consensus 164 ~~~~p~~AlTATA~~~v~~DI~~~L~l~~~~~~~~-sfdRpNi~~~v~~~~~~~~q~~-fi~~~~~~~~~~GIIYc~--- 238 (590) T COG0514 164 LPNPPVLALTATATPRVRDDIREQLGLQDANIFRG-SFDRPNLALKVVEKGEPSDQLA-FLATVLPQLSKSGIIYCL--- 238 (590) T ss_pred CCCCCEEEEECCCCHHHHHHHHHHHCCCCCCEEEE-CCCCCHHHHHHHHCCCHHHHHH-HHHHHCCCCCCCEEEEEE--- T ss_conf 79997799737898678999999846788664871-5898523455642564788899-987413246897289993--- Q ss_pred CCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHH Q ss_conf 21112101466666668663710312014699899999999975598699998003410468887658998585254746 Q gi|254780945|r 495 KKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLA 574 (700) Q Consensus 495 se~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLs 574 (700) .-..+++.+++|.+. +-+++.-||-|+++|++.+=++|.+++++|+|||.---.|||-||....|=+|.-+ -+. T Consensus 239 ----sRk~~E~ia~~L~~~-g~~a~~YHaGl~~~eR~~~q~~f~~~~~~iiVAT~AFGMGIdKpdVRfViH~~lP~-s~E 312 (590) T COG0514 239 ----TRKKVEELAEWLRKN-GISAGAYHAGLSNEERERVQQAFLNDEIKVMVATNAFGMGIDKPDVRFVIHYDLPG-SIE 312 (590) T ss_pred ----EHHHHHHHHHHHHHC-CCCEEEECCCCCHHHHHHHHHHHHCCCCCEEEEECCCCCCCCCCCCEEEEEECCCC-CHH T ss_conf ----377599999999977-97257751898899999999997169986899964624776788840799806998-989 Q ss_pred HHHHHHHCCCCCCCCEEEEEEECCCC Q ss_conf 88773011667898359999708889 Q gi|254780945|r 575 QLHQLRGRVGRGEEISSCILLYHPPL 600 (700) Q Consensus 575 qLHQLRGRVGRg~~~s~c~l~~~~~~ 600 (700) -.-|==||-||.+.+|.|+|+|++.. T Consensus 313 sYyQE~GRAGRDG~~a~aill~~~~D 338 (590) T COG0514 313 SYYQETGRAGRDGLPAEAILLYSPED 338 (590) T ss_pred HHHHHHHHCCCCCCCCEEEEEECCCC T ss_conf 99999713567877021788606300 No 42 >KOG0344 consensus Probab=99.72 E-value=8.4e-20 Score=174.88 Aligned_cols=448 Identities=17% Similarity=0.176 Sum_probs=277.7 Q ss_pred CCCCCCCHHHHHHHCCCCCCCCCCCCCHHHCCC---CCEEEEEEEEEEEEEEC-CCCCCEEEEEEECCCCEEEEEEECCC Q ss_conf 468855489878708974013444464788899---87899999998975421-58983389999818936999995188 Q gi|254780945|r 34 GNANETRFIDLLFYHPSSFIDRHYRPKISEISE---ERIVTITGYISQHSSFQ-LQKRRPYKILLNDGTGEITLLFFYRK 109 (700) Q Consensus 34 ~~~GI~ti~DLL~~~PrrYeDr~~~~~I~~l~~---g~~vti~g~V~~~~~~~-~~~r~~~~v~v~D~tg~i~lvfFn~~ 109 (700) +..|.++..-++.|.|..|.+--.-.-+.++.. .+...++- ...+ +..++-..+-.--++|. ..=||.. T Consensus 121 ~v~G~~~~~~l~~f~~lt~~~~~~~~ll~nl~~~~F~~Pt~iq~-----~aipvfl~~r~~lAcapTGsgK--tlaf~~P 193 (593) T KOG0344 121 NVDGFHLPPPLLSFSDLTYDYSMNKRLLENLQELGFDEPTPIQK-----QAIPVFLEKRDVLACAPTGSGK--TLAFNLP 193 (593) T ss_pred ECCCCCCCCCCCCCCCCCHHHHHCHHHHHHHHHCCCCCCCCCCC-----HHHHHHHCCCCEEEECCCCCCC--HHHHHHH T ss_conf 14477788743453211104321489997676278888773100-----1156664133058863578862--0565569 Q ss_pred -HHHHHHHC----CCCCEEEEEEEEEECCCEEEEECCEEEECCCCCCC-CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHC Q ss_conf -78998732----89888999989973187799977868962643344-4441100000000004543001345787404 Q gi|254780945|r 110 -TEMLKNVF----FEGRKITVTGKIKKLKNRIIMVHPHYIFHNSQDVN-FPLIEAVYSLPTGLSVDLFKKIIVEALSRLP 183 (700) Q Consensus 110 -~~yl~k~l----k~G~~v~vsGKv~~~~~~~qi~hPe~~~~~~~~~~-~~~I~PIYplt~GLsqk~irk~I~~aL~~~~ 183 (700) ...++... +.|-..+|.+..+....+.-..--+|......... ...-.|.||.- .++........+| T Consensus 194 il~~L~~~~~~~~~~gl~a~Il~ptreLa~Qi~re~~k~~~~~~t~~~a~~~~~~~~~~q---k~a~~~~~k~dil---- 266 (593) T KOG0344 194 ILQHLKDLSQEKHKVGLRALILSPTRELAAQIYREMRKYSIDEGTSLRAAQFSKPAYPSQ---KPAFLSDEKYDIL---- 266 (593) T ss_pred HHHHHHHHHCCCCCCCEEEEEECCHHHHHHHHHHHHHHCCCCCCCCHHHHHCCCCCCHHH---CCCHHHHHHHHHH---- T ss_conf 999998752035765427888444499999999999855777787534551666653110---3324677788788---- Q ss_pred CCCCCCCHHHHHCCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHC-C---CCCCCCC Q ss_conf 684338977862056999889998620458965656679999999876-6666667777655554320-3---5767877 Q gi|254780945|r 184 VLPEWIEKDLLQKKSFPSIAEAFNIIHNPRKAKDFEWTSPARERLAYD-ELLAGQIALLLMRKQFKKE-I---GIPINVE 258 (700) Q Consensus 184 ~i~E~LP~~ll~k~~L~s~~eAL~~IH~P~~~~dle~~~~ArkRLafe-ELl~~QL~l~~~r~~~~~~-~---~~~~~~~ 258 (700) =-.|..+..-.++.+...++..+|++-.. +-+ . .|+ |.|..|++-.+.-...... . +..++.. T Consensus 267 ---i~TP~ri~~~~~~~~~~idl~~V~~lV~d-EaD---~-----lfe~~~f~~Qla~I~sac~s~~i~~a~FSat~~~~ 334 (593) T KOG0344 267 ---ISTPMRIVGLLGLGKLNIDLSKVEWLVVD-EAD---L-----LFEPEFFVEQLADIYSACQSPDIRVALFSATISVY 334 (593) T ss_pred ---HCCHHHHHHHHCCCCCCCHHHEEEEEEEC-HHH---H-----HHCHHHHHHHHHHHHHHHCCCCHHHHHHHCCCCHH T ss_conf ---61879999985589753201203567664-687---6-----50815699999999998528522256632146077 Q ss_pred ----CHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHH Q ss_conf ----5789999863024679889999999998410013430788621442236999999733444305458861279999 Q gi|254780945|r 259 ----GKIAQKILRNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILA 334 (700) Q Consensus 259 ----~~~~~~f~~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA 334 (700) ...+..+..+++..++++| |+++.|++|+|||+.++++|+...+.+| |.|+++++ T Consensus 335 VEE~~~~i~~~~~~vivg~~~sa----------------~~~V~QelvF~gse~~K~lA~rq~v~~g-----~~PP~lIf 393 (593) T KOG0344 335 VEEWAELIKSDLKRVIVGLRNSA----------------NETVDQELVFCGSEKGKLLALRQLVASG-----FKPPVLIF 393 (593) T ss_pred HHHHHHHHHCCCEEEEEECCHHH----------------HHHHHHHHEEEECCHHHHHHHHHHHHCC-----CCCCEEEE T ss_conf 99999986505336898425257----------------6554555121104345778899998615-----89974898 Q ss_pred HHHHHHHHHHCCCC----CCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEEECCCCCCCHHH Q ss_conf 99998621101457----86589962464225667687762134754864111201334554444178852101335688 Q gi|254780945|r 335 QQHYEFIKKYTQNT----QIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKLILVIVDEQHRFGVQQ 410 (700) Q Consensus 335 ~QH~~~~~~~~~~~----~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFGV~Q 410 (700) -||++.-+.+|..+ +|.|...+|..+.++|++.+++...|++.++|-|- |++.++.|++..+||.+.=..+++.+ T Consensus 394 VQs~eRak~L~~~L~~~~~i~v~vIh~e~~~~qrde~~~~FR~g~IwvLicTd-ll~RGiDf~gvn~VInyD~p~s~~sy 472 (593) T KOG0344 394 VQSKERAKQLFEELEIYDNINVDVIHGERSQKQRDETMERFRIGKIWVLICTD-LLARGIDFKGVNLVINYDFPQSDLSY 472 (593) T ss_pred EECHHHHHHHHHHHHHCCCCCEEEEECCCCHHHHHHHHHHHHCCCEEEEEEHH-HHHCCCCCCCCCEEEECCCCCHHHHH T ss_conf 85388899999986423576634676366666778999998506706888504-66545564576368953787224788 Q ss_pred HHHHHHCCCCCCCEEECHHHHHHHHHHHHHHCCCHHHHCCCCCCCCCCEEEEEECCCHHHHHHHHHH--HHCCCCEEEEE Q ss_conf 9987402567761010101322789999752010111102355766620799970200268999976--31038738999 Q gi|254780945|r 411 RLKLTQKATAPHVLLMTATPIPRTLVLTSLGDIDISKITEKPAGRKPIKTVIIPINRIDEVIERLKV--VLSEGKKAYWI 488 (700) Q Consensus 411 R~~L~~Kg~~ph~L~MtATPIPRTLal~~ygdldvS~i~e~P~gR~~I~T~~~~~~~~~~~~~~i~~--~l~~g~q~y~V 488 (700) .|-+-||++|+|+..|.|+|+| ..+|..|.++.|.-.+.....+-.-.++. .+.++ T Consensus 473 ----------ihrIGRtgRag~~g~Aitfytd------~d~~~ir~iae~~~~sG~evpe~~m~~~k~~~~~kk------ 530 (593) T KOG0344 473 ----------IHRIGRTGRAGRSGKAITFYTD------QDMPRIRSIAEVMEQSGCEVPEKIMGIKKLSRLKKK------ 530 (593) T ss_pred ----------HHHHHCCCCCCCCCCEEEEECC------CCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHH------ T ss_conf ----------8873025788988616998632------553455568999997188633999865666655555------ Q ss_pred ECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECH Q ss_conf 71201221112101466666668663710312014699899999999975598699998003410468887658998585 Q gi|254780945|r 489 CPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENA 568 (700) Q Consensus 489 cPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~a 568 (700) .-+.++.++.+.-...||. .-|+...++|++++.+++ +|++|.|++.+.+.-|..+++ T Consensus 531 ---------~~~k~~~~r~~I~t~~~p~-----------~~~k~~~~k~~~~ek~~~--~~~~~~~~k~~~~~~~~~~~~ 588 (593) T KOG0344 531 ---------KLLKAASKREEISTKKFPK-----------YKKKEALEKAKSQEKKIL--KQETEIAVKKEGKIKKKVENK 588 (593) T ss_pred ---------HHHHCCCCCCCEEEECCCC-----------CHHHHHHHHHHHHHHHHH--HHHHHHCCCCCHHHHHHHHHH T ss_conf ---------5431554210014412455-----------306788888776778888--887664025520257788866 Q ss_pred HHCCH Q ss_conf 25474 Q gi|254780945|r 569 EHFGL 573 (700) Q Consensus 569 erfGL 573 (700) ++||. T Consensus 589 ~~~~~ 593 (593) T KOG0344 589 ENFGI 593 (593) T ss_pred HHCCC T ss_conf 51279 No 43 >smart00487 DEXDc DEAD-like helicases superfamily. Probab=99.71 E-value=3.2e-16 Score=146.76 Aligned_cols=155 Identities=29% Similarity=0.364 Sum_probs=126.7 Q ss_pred HCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHH--CCEEEEEHHHHHHHHHHHHHHHHC Q ss_conf 302467988999999999841001343078862144223699999973344430--545886127999999998621101 Q gi|254780945|r 268 NIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAG--GQAVIMAPIGILAQQHYEFIKKYT 345 (700) Q Consensus 268 ~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G--~Q~alMaPTEILA~QH~~~~~~~~ 345 (700) ...+.+++.|..+++.+.... ...++++..|||||.++++.++....++ .++.+++||..|+.|.++.+.+++ T Consensus 4 ~~~~~~~~~Q~~~~~~~~~~~-----~~~~i~~~tGsGKT~~~~~~~~~~~~~~~~~~~li~~P~~~l~~q~~~~~~~~~ 78 (201) T smart00487 4 FGFEPLRPYQKEAIEALLSGL-----RDVILAAPTGSGKTLAALLPALEALKRGKGKRVLVLVPTRELAEQWAEELKKLG 78 (201) T ss_pred CCCCCCCHHHHHHHHHHHCCC-----CCEEEECCCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCHHHHHHHHHHHHHCC T ss_conf 379999988999999998389-----988998999960999999999998633899759999085999999998860102 Q ss_pred CCCC-CEEEEEECCCCHHHHHHHHHHHCCCCCEEEEEC-----HHHCCCCCCCCCCCEEEECCCCCCCH-HHHHHHHHC- Q ss_conf 4578-658996246422566768776213475486411-----12013345544441788521013356-889987402- Q gi|254780945|r 346 QNTQ-IIVEIITGNMPQAHRRKALERIAHGQAHIIIGT-----HALFQDSIQYYKLILVIVDEQHRFGV-QQRLKLTQK- 417 (700) Q Consensus 346 ~~~~-i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGT-----HAL~q~~v~F~~LgLvViDEQHRFGV-~QR~~L~~K- 417 (700) +... ..+..++|... ...++.+.++..+|+|+| +.+......+.+.+++|+||-|.+.- .++..+... T Consensus 79 ~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~i~i~t~~~l~~~~~~~~~~~~~~~~vIiDE~H~~~~~~~~~~~~~~~ 154 (201) T smart00487 79 PSLGLKVVGLYGGDSK----REQLRKLESGKTDILVTTPGRLLDLLENDLLELSNVDLVILDEAHRLLDGGFGDQLEKLL 154 (201) T ss_pred CCCEEEEEEEECCCCH----HHHHHHHHCCCCCEEEECHHHHHHHHHHCCCCCCCCEEEEEECHHHHHCCCCHHHHHHHH T ss_conf 1020445565247737----999999975999899955899999997275452543199998967751257099999999 Q ss_pred ---CCCCCCEEECHHHH Q ss_conf ---56776101010132 Q gi|254780945|r 418 ---ATAPHVLLMTATPI 431 (700) Q Consensus 418 ---g~~ph~L~MtATPI 431 (700) ..+++++.|||||+ T Consensus 155 ~~~~~~~~~i~lSAT~~ 171 (201) T smart00487 155 KLLPKNVQLLLLSATPP 171 (201) T ss_pred HHCCCCCCEEEECCCCC T ss_conf 96799997899924898 No 44 >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=99.71 E-value=2.9e-16 Score=147.16 Aligned_cols=129 Identities=31% Similarity=0.505 Sum_probs=110.4 Q ss_pred CCEEEEEE--CCCHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHH Q ss_conf 62079997--0200268999976310387389997120122111210146666666866371031201469989999999 Q gi|254780945|r 457 PIKTVIIP--INRIDEVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVM 534 (700) Q Consensus 457 ~I~T~~~~--~~~~~~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m 534 (700) |+.++.+. +++.+.+++.+++.+.+|+++.|.|+.++ .++..++.|++ .+.++..+||.|+.+|++.+| T Consensus 1 ~~~~~~~~~~~~K~~~l~~~i~~~~~~~~kviIF~~~~~--------~~~~l~~~L~~-~~~~~~~~~~~~~~~~R~~~~ 71 (131) T cd00079 1 PIKQYVLPVEDEKLEALLELLKEHLKKGGKVLIFCPSKK--------MLDELAELLRK-PGIKVAALHGDGSQEEREEVL 71 (131) T ss_pred CCEEEEEECCHHHHHHHHHHHHHHHHCCCEEEEEECCHH--------HHHHHHHHHHH-CCCCEEEEECCCCHHHHHHHH T ss_conf 922899938669999999999999978990999978899--------99999999955-899899998999999999999 Q ss_pred HHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEE Q ss_conf 9975598699998003410468887658998585254746887730116678983599997 Q gi|254780945|r 535 DSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILL 595 (700) Q Consensus 535 ~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~ 595 (700) ++|++|+.+|||||++.+.|+|+|+|+++|+.+.. +..++++|-.||+||.+.+|+|+++ T Consensus 72 ~~F~~~~~~ilv~t~~~~~Gldl~~~~~vI~~~~~-~s~~~~~Q~~GR~~R~gq~~~~~~~ 131 (131) T cd00079 72 KDFREGEIVVLVATDVIARGIDLPNVSVVINYDLP-WSPSSYLQRIGRAGRAGQKGTAILL 131 (131) T ss_pred HHHHHHCEEEEEEEECCEECCCCCCCCEEEEECCC-CCHHHHHHHHHCCCCCCCCEEEEEC T ss_conf 99775401048875112003661028799997899-6989999897216708996379979 No 45 >KOG0348 consensus Probab=99.70 E-value=6.7e-15 Score=136.45 Aligned_cols=350 Identities=23% Similarity=0.371 Sum_probs=215.8 Q ss_pred CCHHHHHHHHHCCC-CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHH---------HHCCEEEE Q ss_conf 75789999863024-679889999999998410013430788621442236999999733444---------30545886 Q gi|254780945|r 258 EGKIAQKILRNIPF-SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVE---------AGGQAVIM 327 (700) Q Consensus 258 ~~~~~~~f~~~LPF-~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~---------~G~Q~alM 327 (700) +..++..+-..+.+ ++|.=|+++|-+|..+ + .-|+.--.|||||+-+++-+...+. .|-=+.+| T Consensus 144 ~~~lv~~L~~~m~i~~pTsVQkq~IP~lL~g--r----D~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki~Rs~G~~ALVi 217 (708) T KOG0348 144 HPHLVSHLNTKMKISAPTSVQKQAIPVLLEG--R----DALVRAQTGSGKTLAYLLPIVQSLQAMEPKIQRSDGPYALVI 217 (708) T ss_pred CHHHHHHHHHHHCCCCCCHHHHCCHHHHHCC--C----CEEEECCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCEEEEE T ss_conf 7799999988745576406765020355258--6----347885778862179999999999726865555688348998 Q ss_pred EHHHHHHHHHHHHHHHHCCCCC--CEEEEEECCCCHHHHHHHHHHHCCCCCEEEEEC------HHHCCCCCCCCCCCEEE Q ss_conf 1279999999986211014578--658996246422566768776213475486411------12013345544441788 Q gi|254780945|r 328 APIGILAQQHYEFIKKYTQNTQ--IIVEIITGNMPQAHRRKALERIAHGQAHIIIGT------HALFQDSIQYYKLILVI 399 (700) Q Consensus 328 aPTEILA~QH~~~~~~~~~~~~--i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGT------HAL~q~~v~F~~LgLvV 399 (700) |||-=||.|-|+++.+++.++. |++.|+-|--+++||..+.. | |+|+||| |-.=-+.+.|++|..+| T Consensus 218 vPTREL~~Q~y~~~qKLl~~~hWIVPg~lmGGEkkKSEKARLRK----G-iNILIgTPGRLvDHLknT~~i~~s~LRwlV 292 (708) T KOG0348 218 VPTRELALQIYETVQKLLKPFHWIVPGVLMGGEKKKSEKARLRK----G-INILIGTPGRLVDHLKNTKSIKFSRLRWLV 292 (708) T ss_pred ECHHHHHHHHHHHHHHHHCCCEEEEECEEECCCCCCCHHHHHHC----C-CEEEECCCHHHHHHHHCCCHHEEEEEEEEE T ss_conf 04199999999999987257437730212236331017888754----8-548975842788987430022100356898 Q ss_pred ECCCCCC-----C--HHHHHHHHHCCC--------CCCC---EEECHHHHH---HHHHHHH----HHCCCHHHHCCC--- Q ss_conf 5210133-----5--688998740256--------7761---010101322---7899997----520101111023--- Q gi|254780945|r 400 VDEQHRF-----G--VQQRLKLTQKAT--------APHV---LLMTATPIP---RTLVLTS----LGDIDISKITEK--- 451 (700) Q Consensus 400 iDEQHRF-----G--V~QR~~L~~Kg~--------~ph~---L~MtATPIP---RTLal~~----ygdldvS~i~e~--- 451 (700) .||--|- + +.|=.+...++. -||. +..|||=-- |---+++ |=++|-|--... T Consensus 293 lDEaDrlleLGfekdit~Il~~v~~~~~~e~~~~~lp~q~q~mLlSATLtd~V~rLa~~sLkDpv~I~ld~s~~~~~p~~ 372 (708) T KOG0348 293 LDEADRLLELGFEKDITQILKAVHSIQNAECKDPKLPHQLQNMLLSATLTDGVNRLADLSLKDPVYISLDKSHSQLNPKD 372 (708) T ss_pred ECCHHHHHHCCCHHHHHHHHHHHHHCCCHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEECCCHHHHCCCCH T ss_conf 53436787624300399999987500200102556637877676665567778887633156855640430122038631 Q ss_pred ---------CCCCCCCEEE-----------EEECC-CHHHHHHHHHHHHCCC-CE---EEEEEC-CCCC-----CCCCCC Q ss_conf ---------5576662079-----------99702-0026899997631038-73---899971-2012-----211121 Q gi|254780945|r 452 ---------PAGRKPIKTV-----------IIPIN-RIDEVIERLKVVLSEG-KK---AYWICP-QIEE-----KKESNF 500 (700) Q Consensus 452 ---------P~gR~~I~T~-----------~~~~~-~~~~~~~~i~~~l~~g-~q---~y~VcP-lIee-----se~~~~ 500 (700) |.|- +.... +++.+ +.--+..++.+.++.- .| ||+-|- ++|- ++.+.- T Consensus 373 ~a~~ev~~~~~~~-~l~~~~iPeqL~qry~vVPpKLRLV~Laa~L~~~~k~~~~qk~iVF~S~~d~VeFHy~lf~~~l~~ 451 (708) T KOG0348 373 KAVQEVDDGPAGD-KLDSFAIPEQLLQRYTVVPPKLRLVALAALLLNKVKFEEKQKMIVFFSCSDSVEFHYSLFSEALLS 451 (708) T ss_pred HHHHHCCCCCCCC-CCCCCCCCHHHHHCEEECCCCHHHHHHHHHHHHHHHHHHHCEEEEEEECHHHHHHHHHHHHHHHHC T ss_conf 4566337753456-320123868765006852874108999999999865444230699996325789999999865402 Q ss_pred ----CHHHHHHHHHHHHCCC-CEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHH Q ss_conf ----0146666666866371-03120146998999999999755986999980034104688876589985852547468 Q gi|254780945|r 501 ----RSVVERFNSLHEHFTS-SIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQ 575 (700) Q Consensus 501 ----~~~~~~~~~l~~~~~~-~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsq 575 (700) .+....-+-+...|-+ ++--|||-|..+|...+...|+.-+--||.||-|.--|+|+|+.+++|=+||--=---- T Consensus 452 ~~e~~s~~~~s~g~~~l~~~~k~~rLHGsm~QeeRts~f~~Fs~~~~~VLLcTDVAaRGLDlP~V~~vVQYd~P~s~ady 531 (708) T KOG0348 452 HLEGSSGAPDSEGLPPLFMDLKFYRLHGSMEQEERTSVFQEFSHSRRAVLLCTDVAARGLDLPHVGLVVQYDPPFSTADY 531 (708) T ss_pred CCCCCCCCCCCCCCHHHHHCCEEEEECCCHHHHHHHHHHHHHCCCCCEEEEEHHHHHCCCCCCCCCEEEEECCCCCHHHH T ss_conf 32366678666798103314637884274348899999875303544278850345426888776769982799988999 Q ss_pred HHHHHHCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHCHHHHHHHHHHH Q ss_conf 877301166789835999970888998799999999841425899999985 Q gi|254780945|r 576 LHQLRGRVGRGEEISSCILLYHPPLSKNSYTRLSVLKNTEDGFLIAEEDLK 626 (700) Q Consensus 576 LHQLRGRVGRg~~~s~c~l~~~~~~~~~~~~Rl~~l~~~~dGf~iAe~Dl~ 626 (700) +|- =||-.|-+..|-.+|..-+. |. +=++.+..+..- +-|.|+. T Consensus 532 lHR-vGRTARaG~kG~alLfL~P~--Ea--ey~~~l~~~~~~--l~q~~~~ 575 (708) T KOG0348 532 LHR-VGRTARAGEKGEALLFLLPS--EA--EYVNYLKKHHIM--LLQFDME 575 (708) T ss_pred HHH-HHHHHHCCCCCCEEEEECCC--HH--HHHHHHHHHCCH--HHCCCHH T ss_conf 998-40454346777157886651--79--999988750223--4326366 No 46 >KOG0342 consensus Probab=99.70 E-value=8.9e-15 Score=135.47 Aligned_cols=314 Identities=21% Similarity=0.304 Sum_probs=228.1 Q ss_pred HHHHHHHHCCC-CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHH-------HHHCCEEEEEHHHH Q ss_conf 89999863024-67988999999999841001343078862144223699999973344-------43054588612799 Q gi|254780945|r 261 IAQKILRNIPF-SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAV-------EAGGQAVIMAPIGI 332 (700) Q Consensus 261 ~~~~f~~~LPF-~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~-------~~G~Q~alMaPTEI 332 (700) ...+-++...| .+|.=|++++.+|..- + .-|.+--.|||||+-.++.+...+ .+|--|.+.+||-. T Consensus 92 ~t~kAi~~~GF~~MT~VQ~~ti~pll~g----k--Dvl~~AKTGtGKTlAFLiPaie~l~k~~~~~r~~~~vlIi~PTRE 165 (543) T KOG0342 92 LTLKAIKEMGFETMTPVQQKTIPPLLEG----K--DVLAAAKTGTGKTLAFLLPAIELLRKLKFKPRNGTGVLIICPTRE 165 (543) T ss_pred HHHHHHHHCCCCCCHHHHHHHCCCCCCC----C--CCEEEECCCCCCEEEEHHHHHHHHHHCCCCCCCCEEEEEECCCHH T ss_conf 8887887358530028887426766798----4--312451268874101046899999853657778714899656289 Q ss_pred HHHHHHHHHHHHCCCC-CCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHC----C--CCCCCCCCCEEEECCCCC Q ss_conf 9999998621101457-86589962464225667687762134754864111201----3--345544441788521013 Q gi|254780945|r 333 LAQQHYEFIKKYTQNT-QIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALF----Q--DSIQYYKLILVIVDEQHR 405 (700) Q Consensus 333 LA~QH~~~~~~~~~~~-~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~----q--~~v~F~~LgLvViDEQHR 405 (700) ||-|-|...++++... ++.|.++-|++.. ..--+++.. -++|+|.|--=+ | ....|+++-.-|+||--| T Consensus 166 LA~Q~~~eak~Ll~~h~~~~v~~viGG~~~---~~e~~kl~k-~~niliATPGRLlDHlqNt~~f~~r~~k~lvlDEADr 241 (543) T KOG0342 166 LAMQIFAEAKELLKYHESITVGIVIGGNNF---SVEADKLVK-GCNILIATPGRLLDHLQNTSGFLFRNLKCLVLDEADR 241 (543) T ss_pred HHHHHHHHHHHHHHHCCCCCEEEEECCCCC---HHHHHHHHC-CCCEEEECCCHHHHHHHCCCCCHHHCCCEEEEECCHH T ss_conf 999899999999972767734787677410---589997515-5527886784177676557841221220357502035 Q ss_pred C-------CHHHHHHHHHCCCCCCCEEECHHHHHH--HHHHHHHHCCCHHHHCCCCCCCCCCE-----EEEEECCC--HH Q ss_conf 3-------568899874025677610101013227--89999752010111102355766620-----79997020--02 Q gi|254780945|r 406 F-------GVQQRLKLTQKATAPHVLLMTATPIPR--TLVLTSLGDIDISKITEKPAGRKPIK-----TVIIPINR--ID 469 (700) Q Consensus 406 F-------GV~QR~~L~~Kg~~ph~L~MtATPIPR--TLal~~ygdldvS~i~e~P~gR~~I~-----T~~~~~~~--~~ 469 (700) - +++|=.++.- ..--.+..|||-=|. -||....+- |-..|+....|..+-. -+++.... .- T Consensus 242 lLd~GF~~di~~Ii~~lp--k~rqt~LFSAT~~~kV~~l~~~~L~~-d~~~v~~~d~~~~~The~l~Qgyvv~~~~~~f~ 318 (543) T KOG0342 242 LLDIGFEEDVEQIIKILP--KQRQTLLFSATQPSKVKDLARGALKR-DPVFVNVDDGGERETHERLEQGYVVAPSDSRFS 318 (543) T ss_pred HHHCCCHHHHHHHHHHCC--CCCCEEEEECCCCHHHHHHHHHHHCC-CCEEEECCCCCCCCHHHCCCCEEEECCCCCHHH T ss_conf 665251888999987523--55304676478968899999876337-746862478997302324664079626541179 Q ss_pred HHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECH Q ss_conf 68999976310387389997120122111210146666666866371031201469989999999997559869999800 Q gi|254780945|r 470 EVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATT 549 (700) Q Consensus 470 ~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTt 549 (700) -+|.++++.+.+ -.+.|-||.+ ..+..+..|-++..-.|-.+|||++....-.+..+|++-+.-|||||- T Consensus 319 ll~~~LKk~~~~-~KiiVF~sT~---------~~vk~~~~lL~~~dlpv~eiHgk~~Q~kRT~~~~~F~kaesgIL~cTD 388 (543) T KOG0342 319 LLYTFLKKNIKR-YKIIVFFSTC---------MSVKFHAELLNYIDLPVLEIHGKQKQNKRTSTFFEFCKAESGILVCTD 388 (543) T ss_pred HHHHHHHHHCCC-CEEEEEECHH---------HHHHHHHHHHHHCCCCHHHHHCCCCCCCCCHHHHHHHHCCCCEEEECC T ss_conf 999999973477-2499993302---------679999999850687532442578532202389988610664399603 Q ss_pred HHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEECC Q ss_conf 3410468887658998585254746887730116678983599997088 Q gi|254780945|r 550 VIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILLYHP 598 (700) Q Consensus 550 viEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~~ 598 (700) |.--|+|+||.+.+|=++.--=-=--.|-+ ||-||.++.|..+|+.-+ T Consensus 389 VaARGlD~P~V~~VvQ~~~P~d~~~YIHRv-GRTaR~gk~G~alL~l~p 436 (543) T KOG0342 389 VAARGLDIPDVDWVVQYDPPSDPEQYIHRV-GRTAREGKEGKALLLLAP 436 (543) T ss_pred HHHCCCCCCCCEEEEEECCCCCHHHHHHHH-CCCCCCCCCCEEEEEECH T ss_conf 221368888840799858999989989873-212236898638999676 No 47 >KOG0333 consensus Probab=99.69 E-value=4.7e-14 Score=129.81 Aligned_cols=321 Identities=23% Similarity=0.299 Sum_probs=210.1 Q ss_pred CHHHHHHHHHCCC-CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHH------------HHHCCEE Q ss_conf 5789999863024-67988999999999841001343078862144223699999973344------------4305458 Q gi|254780945|r 259 GKIAQKILRNIPF-SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAV------------EAGGQAV 325 (700) Q Consensus 259 ~~~~~~f~~~LPF-~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~------------~~G~Q~a 325 (700) .+++. .+....| +.|.=|..||--.. -.. +-|.--..|||||.-.++-++..+ .-|--+. T Consensus 254 ~e~l~-~I~~~~y~eptpIqR~aipl~l--Q~r----D~igvaETgsGktaaf~ipLl~~IsslP~~~~~en~~~gpyai 326 (673) T KOG0333 254 LELLS-VIKKPGYKEPTPIQRQAIPLGL--QNR----DPIGVAETGSGKTAAFLIPLLIWISSLPPMARLENNIEGPYAI 326 (673) T ss_pred HHHHH-HHHHCCCCCCCHHHHHHCCCHH--CCC----CEEEEEECCCCCCCCCHHHHHHHHHCCCCCCHHHHCCCCCEEE T ss_conf 89999-9973489998467886311010--147----7236873167753200015889987089841444234686001 Q ss_pred EEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECH-----HHCCCCCCCCCCCEEEE Q ss_conf 8612799999999862110145786589962464225667687762134754864111-----20133455444417885 Q gi|254780945|r 326 IMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTH-----ALFQDSIQYYKLILVIV 400 (700) Q Consensus 326 lMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTH-----AL~q~~v~F~~LgLvVi 400 (700) +||||-=||+|.++.-.++..++|+++.-+.|..+--|. --.+..| +.|+|||- .|=+-.+..+.-.+||- T Consensus 327 ilaptReLaqqIeeEt~kf~~~lg~r~vsvigg~s~EEq---~fqls~g-ceiviatPgrLid~Lenr~lvl~qctyvvl 402 (673) T KOG0333 327 ILAPTRELAQQIEEETNKFGKPLGIRTVSVIGGLSFEEQ---GFQLSMG-CEIVIATPGRLIDSLENRYLVLNQCTYVVL 402 (673) T ss_pred EECHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHH---HHHHHCC-CEEEECCCHHHHHHHHHHHHHHCCCCEEEC T ss_conf 203379999999999987503014328998546336653---0246415-414424740788877778887505846762 Q ss_pred CCCCCC---CH-HHHHHHHHC--------------C------------CCCCCEEECHHHHHHH--HHHHHHHCCCHHHH Q ss_conf 210133---56-889987402--------------5------------6776101010132278--99997520101111 Q gi|254780945|r 401 DEQHRF---GV-QQRLKLTQK--------------A------------TAPHVLLMTATPIPRT--LVLTSLGDIDISKI 448 (700) Q Consensus 401 DEQHRF---GV-~QR~~L~~K--------------g------------~~ph~L~MtATPIPRT--Lal~~ygdldvS~i 448 (700) ||--|- |- .|=.+.++. | ..--.++.|||==|+- ||-+++-+--+-.| T Consensus 403 deadrmiDmgfE~dv~~iL~~mPssn~k~~tde~~~~~~~~~~~~~~k~yrqT~mftatm~p~verlar~ylr~pv~vti 482 (673) T KOG0333 403 DEADRMIDMGFEPDVQKILEQMPSSNAKPDTDEKEGEERVRKNFSSSKKYRQTVMFTATMPPAVERLARSYLRRPVVVTI 482 (673) T ss_pred CCHHHHHCCCCCHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHCCCCCCEEEEEEEECCCCHHHHHHHHHHHHCCEEEEE T ss_conf 40666542466677888998387634588863102188887510312102578998447876799999998527769995 Q ss_pred C--CCCCCCCCCEEEEEECCCHHHHHHHHHHHHCCCCE-EEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCC Q ss_conf 0--23557666207999702002689999763103873-89997120122111210146666666866371031201469 Q gi|254780945|r 449 T--EKPAGRKPIKTVIIPINRIDEVIERLKVVLSEGKK-AYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRM 525 (700) Q Consensus 449 ~--e~P~gR~~I~T~~~~~~~~~~~~~~i~~~l~~g~q-~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm 525 (700) . .+|.-|. .-+|+....-++ +..+.+.++++.+ -.+|.- ...++++...+.|.+. +.++-.|||-- T Consensus 483 g~~gk~~~rv--eQ~v~m~~ed~k-~kkL~eil~~~~~ppiIIFv-------N~kk~~d~lAk~LeK~-g~~~~tlHg~k 551 (673) T KOG0333 483 GSAGKPTPRV--EQKVEMVSEDEK-RKKLIEILESNFDPPIIIFV-------NTKKGADALAKILEKA-GYKVTTLHGGK 551 (673) T ss_pred CCCCCCCCCH--HEEEEEECCHHH-HHHHHHHHHHCCCCCEEEEE-------ECHHHHHHHHHHHHHC-CCEEEEEECCC T ss_conf 4678986021--117888155688-99999999847999879998-------3132489999998644-32479961785 Q ss_pred CHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEECCCCCH Q ss_conf 98999999999755986999980034104688876589985852547468877301166789835999970888998 Q gi|254780945|r 526 SDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILLYHPPLSK 602 (700) Q Consensus 526 ~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~~~~~~ 602 (700) +.++.+.++++|++|..+|||||.|.--||||||.++.|=++--.==--=+|-. ||-||-++.|..+-.+.+..++ T Consensus 552 ~qeQRe~aL~~fr~~t~dIlVaTDvAgRGIDIpnVSlVinydmaksieDYtHRI-GRTgRAGk~GtaiSflt~~dt~ 627 (673) T KOG0333 552 SQEQRENALADFREGTGDILVATDVAGRGIDIPNVSLVINYDMAKSIEDYTHRI-GRTGRAGKSGTAISFLTPADTA 627 (673) T ss_pred CHHHHHHHHHHHHHCCCCEEEEECCCCCCCCCCCCCEEEECCHHHHHHHHHHHH-CCCCCCCCCCEEEEEECCCHHH T ss_conf 277899999998715787799832212577777612146220556589998874-2344466675368986401117 No 48 >KOG0345 consensus Probab=99.69 E-value=1.3e-13 Score=126.43 Aligned_cols=316 Identities=21% Similarity=0.328 Sum_probs=209.3 Q ss_pred HHHHHHHHHCCC-CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHH--H----HH--CCEEEEEHH Q ss_conf 789999863024-67988999999999841001343078862144223699999973344--4----30--545886127 Q gi|254780945|r 260 KIAQKILRNIPF-SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAV--E----AG--GQAVIMAPI 330 (700) Q Consensus 260 ~~~~~f~~~LPF-~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~--~----~G--~Q~alMaPT 330 (700) .++.+-+....| ..|+-|..+|-...+ .+- -.++--.|||||+-.++-|+-.+ . .. .-+.+.+|| T Consensus 15 ~~l~~~l~~~GF~~mTpVQa~tIPlll~----~KD--VvveavTGSGKTlAFllP~le~i~rr~~~~~~~~vgalIIsPT 88 (567) T KOG0345 15 PWLLEALDESGFEKMTPVQAATIPLLLK----NKD--VVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGALIISPT 88 (567) T ss_pred HHHHHHHHHCCCCCCCHHHHHHHHHHHC----CCC--EEEECCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEEEECCC T ss_conf 8999999862886368778746678852----785--6898567887106689999999986115789651247996571 Q ss_pred HHHHHHHHHHHHHHCCC-CCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECH----HHCC---CCCCCCCCCEEEECC Q ss_conf 99999999862110145-786589962464225667687762134754864111----2013---345544441788521 Q gi|254780945|r 331 GILAQQHYEFIKKYTQN-TQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTH----ALFQ---DSIQYYKLILVIVDE 402 (700) Q Consensus 331 EILA~QH~~~~~~~~~~-~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTH----AL~q---~~v~F~~LgLvViDE 402 (700) -=||.|.++-...++.. .++++.|++|+.+.. +-+..++.-.++|+|||- -++| +.+.|++|.+.|+|| T Consensus 89 RELa~QI~~V~~~F~~~l~~l~~~l~vGG~~v~---~Di~~fkee~~nIlVgTPGRL~di~~~~~~~l~~rsLe~LVLDE 165 (567) T KOG0345 89 RELARQIREVAQPFLEHLPNLNCELLVGGRSVE---EDIKTFKEEGPNILVGTPGRLLDILQREAEKLSFRSLEILVLDE 165 (567) T ss_pred HHHHHHHHHHHHHHHHHCCCCCEEEEECCCCHH---HHHHHHHHHCCCEEEECCHHHHHHHHCHHHCCCCCCCCEEEECC T ss_conf 999999999999999850365459997686477---79999997099589947624999984530003613311577514 Q ss_pred CCCC---C----HHHHHHHHHCCCCCCCEEECHHHHHHHHHHHHHHCC---CHHHHC-C---CCCCCCCCEEEEEEC-CC Q ss_conf 0133---5----688998740256776101010132278999975201---011110-2---355766620799970-20 Q gi|254780945|r 403 QHRF---G----VQQRLKLTQKATAPHVLLMTATPIPRTLVLTSLGDI---DISKIT-E---KPAGRKPIKTVIIPI-NR 467 (700) Q Consensus 403 QHRF---G----V~QR~~L~~Kg~~ph~L~MtATPIPRTLal~~ygdl---dvS~i~-e---~P~gR~~I~T~~~~~-~~ 467 (700) --|+ | |++=....-|.... =..|||-----=-|...|-- .||+=. . .|. +....-.+++. .+ T Consensus 166 ADrLldmgFe~~~n~ILs~LPKQRRT--GLFSATq~~~v~dL~raGLRNpv~V~V~~k~~~~tPS-~L~~~Y~v~~a~eK 242 (567) T KOG0345 166 ADRLLDMGFEASVNTILSFLPKQRRT--GLFSATQTQEVEDLARAGLRNPVRVSVKEKSKSATPS-SLALEYLVCEADEK 242 (567) T ss_pred HHHHHCCCHHHHHHHHHHHCCCCCCC--CCCEEHHHHHHHHHHHHHCCCCEEEEECCCCCCCCCH-HHHHEEEEECHHHH T ss_conf 67674432799999999866210002--4430021466889998535686365412344555842-31112567577888 Q ss_pred HHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCC-CEECCCCCCCHHHHHHHHHHHHCCCEEEEE Q ss_conf 0268999976310387389997120122111210146666666866371-031201469989999999997559869999 Q gi|254780945|r 468 IDEVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTS-SIAIIHGRMSDIDKESVMDSFKNGTCKLLI 546 (700) Q Consensus 468 ~~~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~-~v~~lHGkm~~~ek~~~m~~F~~g~~~iLv 546 (700) ...+++++...-. ..+.|-.|. -.+|+=.+..+....+. .+--+||||+..+.+.++++|++-.-.+|. T Consensus 243 ~~~lv~~L~~~~~--kK~iVFF~T--------CasVeYf~~~~~~~l~~~~i~~iHGK~~q~~R~k~~~~F~~~~~~vl~ 312 (567) T KOG0345 243 LSQLVHLLNNNKD--KKCIVFFPT--------CASVEYFGKLFSRLLKKREIFSIHGKMSQKARAKVLEAFRKLSNGVLF 312 (567) T ss_pred HHHHHHHHHCCCC--CCEEEEECC--------CCHHHHHHHHHHHHHCCCCEEEECCHHCCHHHHHHHHHHHHCCCCEEE T ss_conf 9999999962454--627999347--------540999998888760787479862201234688999998715686188 Q ss_pred ECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEECC Q ss_conf 8003410468887658998585254746887730116678983599997088 Q gi|254780945|r 547 ATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILLYHP 598 (700) Q Consensus 547 aTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~~ 598 (700) ||-|---|+|+|+....|=.|.-.=-=+=.|- -||-||.+.+|..+....+ T Consensus 313 ~TDVaARGlDip~iD~VvQ~DpP~~~~~FvHR-~GRTaR~gr~G~Aivfl~p 363 (567) T KOG0345 313 CTDVAARGLDIPGIDLVVQFDPPKDPSSFVHR-CGRTARAGREGNAIVFLNP 363 (567) T ss_pred EEHHHHCCCCCCCCEEEEECCCCCCHHHHHHH-CCHHHHCCCCCCEEEEECC T ss_conf 60455536898897079970799981477774-1214435676634899766 No 49 >PRK09751 putative ATP-dependent helicase Lhr; Provisional Probab=99.68 E-value=4.1e-14 Score=130.24 Aligned_cols=278 Identities=22% Similarity=0.300 Sum_probs=192.7 Q ss_pred CCCCHHHHHHHHHHHHHH-------------HHCCEEEEEHHHHHHHHHHHHHHHHCC------------CCCCEEEEEE Q ss_conf 442236999999733444-------------305458861279999999986211014------------5786589962 Q gi|254780945|r 302 VGSGKTLVALIAMAAAVE-------------AGGQAVIMAPIGILAQQHYEFIKKYTQ------------NTQIIVEIIT 356 (700) Q Consensus 302 VGSGKTiVA~~A~l~~~~-------------~G~Q~alMaPTEILA~QH~~~~~~~~~------------~~~i~v~lLt 356 (700) .|||||.-|++.++..+- .+.++.+..|+--||.--..|+..-+. ..+|+|+.=| T Consensus 5 TGSGKTLAAFL~aLd~L~~~~~~~~~~~~~~~~~~VLYISPLKALa~Dv~rNL~~PL~gI~~~~~~~g~~~~~i~V~vRt 84 (1490) T PRK09751 5 TGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNLQIPLKGIADERRRRGETEVNLRVGIRT 84 (1490) T ss_pred CCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCEEEEEECCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEC T ss_conf 87439899999999999961455555567889738999592788899999999879988899998625678997586379 Q ss_pred CCCCHHHHHHHHHHHCCCCCEEEEEC----HHHCCC--CCCCCCCCEEEECCCC-----CCCHHHHHHHHHC----CCCC Q ss_conf 46422566768776213475486411----120133--4554444178852101-----3356889987402----5677 Q gi|254780945|r 357 GNMPQAHRRKALERIAHGQAHIIIGT----HALFQD--SIQYYKLILVIVDEQH-----RFGVQQRLKLTQK----ATAP 421 (700) Q Consensus 357 g~~~~~er~~i~~~i~~G~~~iiIGT----HAL~q~--~v~F~~LgLvViDEQH-----RFGV~QR~~L~~K----g~~p 421 (700) |.|+.+||++... .-++|+|-| |.++.. .=.|++|-.|||||=| |+|++==..|..- +..+ T Consensus 85 GDT~~~eR~r~~r----~PPdILITTPESL~LlLtsk~r~~L~~v~~VIVDEiHalagsKRGahLaLsLeRL~~l~~~~~ 160 (1490) T PRK09751 85 GDTPAQERSKLTR----NPPDILITTPESLYLMLTSRARETLRGVETVIIDEVHAVAGSKRGAHLALSLERLDALLHTSA 160 (1490) T ss_pred CCCCHHHHHHHHH----CCCCEEEECHHHHHHHHHHHHHHHHCCCCEEEECCCHHHHCCCCHHHHHHHHHHHHHHCCCCC T ss_conf 9999999999850----899839848899999873569999779989996286442058839999999999998658999 Q ss_pred CCEEECHHHHHHHHHHHHHHC-CCHHHHCCCCCCCCCCEEEEEECCCH-----------------------HHHHHHHHH Q ss_conf 610101013227899997520-10111102355766620799970200-----------------------268999976 Q gi|254780945|r 422 HVLLMTATPIPRTLVLTSLGD-IDISKITEKPAGRKPIKTVIIPINRI-----------------------DEVIERLKV 477 (700) Q Consensus 422 h~L~MtATPIPRTLal~~ygd-ldvS~i~e~P~gR~~I~T~~~~~~~~-----------------------~~~~~~i~~ 477 (700) -..-+|||=-|-..+....|. -.+.+++ .|..++.-...+++..++ ..++..+.+ T Consensus 161 qRIGLSATv~p~e~vA~fLgg~rpv~IV~-~~~~k~~~l~v~vPv~d~~~~~~~~~~~g~~~~~~~~~siw~~v~~~i~~ 239 (1490) T PRK09751 161 QRIGLSATVRSASDVAAFLGGDRPVTVVN-PPAMRHPQIRIVVPVANMDDVSSVASGTGEDSHAGREGSIWPYIETGILD 239 (1490) T ss_pred CEEEEECCCCCHHHHHHHHCCCCCEEEEC-CCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHH T ss_conf 68999776689999998737999837868-88888752799704665333332356776322355545316788999999 Q ss_pred HHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCC------E--------------------------ECCCCCC Q ss_conf 3103873899971201221112101466666668663710------3--------------------------1201469 Q gi|254780945|r 478 VLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSS------I--------------------------AIIHGRM 525 (700) Q Consensus 478 ~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~------v--------------------------~~lHGkm 525 (700) .+.+++-..|-+- .-..+|.....|++.+..+ + ..=||-| T Consensus 240 ~i~~hrsTLVF~N--------TR~~AErl~~~L~el~~erl~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~ia~aHHGSl 311 (1490) T PRK09751 240 EVLRHRSTIVFTN--------SRGLAEKLTARLNELYAARLQRSPSIAVDAAHFESTSGATSNRVQSSDVFIARSHHGSV 311 (1490) T ss_pred HHHHCCCEEEEEC--------CHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC T ss_conf 9972687699978--------87999999999999999873246432211000011122221123566543344555768 Q ss_pred CHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCC----CEEEEEEE Q ss_conf 989999999997559869999800341046888765899858525474688773011667898----35999970 Q gi|254780945|r 526 SDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGEE----ISSCILLY 596 (700) Q Consensus 526 ~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~----~s~c~l~~ 596 (700) +.++...+=+++++|+.+.+|||+=.|-|||+-.....|-.++-+ +.|-+-| ||||.++ .|..+++. T Consensus 312 Ske~R~~vE~~LK~G~LraVVaTSSLELGIDiG~VDlVVQvgsP~-sVAs~lQ---RvGRAGH~vg~~S~g~~~p 382 (1490) T PRK09751 312 SKEQRAITEQALKSGELRCVVATSSLELGIDMGAVDLVIQVATPL-SVASGLQ---RIGRAGHQVGGVSKGLFFP 382 (1490) T ss_pred CHHHHHHHHHHHHCCCCCEEEECCCHHHCCCCCCCCEEEEECCCH-HHHHHHH---HHCCCCCCCCCCCCEEEEC T ss_conf 999999999998679977899778054077644655799806966-7889999---7101257889844079962 No 50 >COG1202 Superfamily II helicase, archaea-specific [General function prediction only] Probab=99.66 E-value=1.6e-14 Score=133.37 Aligned_cols=315 Identities=21% Similarity=0.267 Sum_probs=224.2 Q ss_pred HHHHHHHCC-CCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHH-HCCEEEEEHHHHHHHHHHH Q ss_conf 999986302-46798899999999984100134307886214422369999997334443-0545886127999999998 Q gi|254780945|r 262 AQKILRNIP-FSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEA-GGQAVIMAPIGILAQQHYE 339 (700) Q Consensus 262 ~~~f~~~LP-F~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~-G~Q~alMaPTEILA~QH~~ 339 (700) .+..++.-. =+|+.-|-.|++. -|-.+. |-|+---.+||||+|+-+|-+.-+-+ |..-.+++|---||.|-|+ T Consensus 205 fk~~lk~~G~~eLlPVQ~laVe~---GLLeG~--nllVVSaTasGKTLIgElAGi~~~l~~g~KmlfLvPLVALANQKy~ 279 (830) T COG1202 205 FKRMLKREGIEELLPVQVLAVEA---GLLEGE--NLLVVSATASGKTLIGELAGIPRLLSGGKKMLFLVPLVALANQKYE 279 (830) T ss_pred HHHHHHHCCCCEECCHHHHHHHH---CCCCCC--CEEEEECCCCCCCHHHHHHCCHHHHHCCCEEEEEEHHHHHHCCHHH T ss_conf 99999863864430234655661---440577--3499940577751477763738788378728997316876311189 Q ss_pred HHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEEC-----HHHCCCCCCCCCCCEEEECCCCCCCHHHH--- Q ss_conf 6211014578658996246422566768776213475486411-----12013345544441788521013356889--- Q gi|254780945|r 340 FIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGT-----HALFQDSIQYYKLILVIVDEQHRFGVQQR--- 411 (700) Q Consensus 340 ~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGT-----HAL~q~~v~F~~LgLvViDEQHRFGV~QR--- 411 (700) .|+..+.++|+++++-.|...-+.+.+--..-.+-.+|||||| |.|=. .....+.|-|||||=|-.--+.| T Consensus 280 dF~~rYs~LglkvairVG~srIk~~~~pv~~~t~~dADIIVGTYEGiD~lLRt-g~~lgdiGtVVIDEiHtL~deERG~R 358 (830) T COG1202 280 DFKERYSKLGLKVAIRVGMSRIKTREEPVVVDTSPDADIIVGTYEGIDYLLRT-GKDLGDIGTVVIDEIHTLEDEERGPR 358 (830) T ss_pred HHHHHHHCCCCEEEEEECHHHHCCCCCCCCCCCCCCCCEEEEECHHHHHHHHC-CCCCCCCCEEEEEEEEECCCHHCCCC T ss_conf 99998650166278884234522467753568998776798611107899870-78555443599650120440101632 Q ss_pred -------HHHHHCCCCCCCEEECHHH-HHHHHHHHHHHCCCHHHHCCCCCCCCCCEEEEEECCCHHHHHHHH----HHHH Q ss_conf -------9874025677610101013-227899997520101111023557666207999702002689999----7631 Q gi|254780945|r 412 -------LKLTQKATAPHVLLMTATP-IPRTLVLTSLGDIDISKITEKPAGRKPIKTVIIPINRIDEVIERL----KVVL 479 (700) Q Consensus 412 -------~~L~~Kg~~ph~L~MtATP-IPRTLal~~ygdldvS~i~e~P~gR~~I~T~~~~~~~~~~~~~~i----~~~l 479 (700) ..-.- ..+.++.+|||- =|--||- +=++....-++.| .|+.-+++-..+..+-|+.| +.+- T Consensus 359 LdGLI~RLr~l~--~~AQ~i~LSATVgNp~elA~--~l~a~lV~y~~RP---VplErHlvf~~~e~eK~~ii~~L~k~E~ 431 (830) T COG1202 359 LDGLIGRLRYLF--PGAQFIYLSATVGNPEELAK--KLGAKLVLYDERP---VPLERHLVFARNESEKWDIIARLVKREF 431 (830) T ss_pred HHHHHHHHHHHC--CCCEEEEEEEECCCHHHHHH--HHCCEEEEECCCC---CCHHHEEEEECCCHHHHHHHHHHHHHHH T ss_conf 352899999867--77749998743388699998--8387258655887---8736706640481677789999999997 Q ss_pred C----CC--CEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHC Q ss_conf 0----38--73899971201221112101466666668663710312014699899999999975598699998003410 Q gi|254780945|r 480 S----EG--KKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEV 553 (700) Q Consensus 480 ~----~g--~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEV 553 (700) . +| +|+.|- . ..-+........|... +-+..--|+-|+..|...+=.+|.+++++..|.|.-.-. T Consensus 432 ~~~sskg~rGQtIVF-T-------~SRrr~h~lA~~L~~k-G~~a~pYHaGL~y~eRk~vE~~F~~q~l~~VVTTAAL~A 502 (830) T COG1202 432 STESSKGYRGQTIVF-T-------YSRRRCHELADALTGK-GLKAAPYHAGLPYKERKSVERAFAAQELAAVVTTAALAA 502 (830) T ss_pred HHHHCCCCCCCEEEE-E-------CCHHHHHHHHHHHHCC-CCCCCCCCCCCCHHHHHHHHHHHHCCCCCEEEEHHHHHC T ss_conf 544113767736999-4-------2166699999886107-866654437986788888999976087555764245644 Q ss_pred CCCCCCCCEEE---EECHHHCCHHHHHHHHHCCCCCCC--CEEEEEEECC Q ss_conf 46888765899---858525474688773011667898--3599997088 Q gi|254780945|r 554 GIDVVDASIII---IENAEHFGLAQLHQLRGRVGRGEE--ISSCILLYHP 598 (700) Q Consensus 554 Gvdvpna~~mv---I~~aerfGLsqLHQLRGRVGRg~~--~s~c~l~~~~ 598 (700) |||.|.-.+|. -++.+-.-..-.||.-||-||-+. .|..||+..+ T Consensus 503 GVDFPASQVIFEsLaMG~~WLs~~EF~QM~GRAGRp~yHdrGkVyllvep 552 (830) T COG1202 503 GVDFPASQVIFESLAMGIEWLSVREFQQMLGRAGRPDYHDRGKVYLLVEP 552 (830) T ss_pred CCCCCHHHHHHHHHHCCCCCCCHHHHHHHHCCCCCCCCCCCCEEEEEECC T ss_conf 78875189999998710432789999998504699872337339999557 No 51 >PRK09694 hypothetical protein; Provisional Probab=99.65 E-value=2.5e-13 Score=124.09 Aligned_cols=311 Identities=21% Similarity=0.276 Sum_probs=198.6 Q ss_pred CCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHH-HHHCCEEE-EEHHHHHHHHHHHHHHHHCCC Q ss_conf 2467988999999999841001343078862144223699999973344-43054588-612799999999862110145 Q gi|254780945|r 270 PFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAV-EAGGQAVI-MAPIGILAQQHYEFIKKYTQN 347 (700) Q Consensus 270 PF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~-~~G~Q~al-MaPTEILA~QH~~~~~~~~~~ 347 (700) .|+.|.-|+.+ .++ . ..|-.-+|--..|||||.-|++++..-. ..|....+ -.||--=|++.|..+.+++.. T Consensus 286 ~~~PrplQ~~~-~~l----~-~~PgL~IiEAptG~GKTEAAL~~A~~L~~~~~~~Gl~faLPT~ATaNaMf~Rv~~~~~~ 359 (878) T PRK09694 286 GYQPRQLQTLV-DAL----P-LAPGLTVIEAPTGSGKTETALAYAWKLIDQQLADSVIFALPTQATANAMLSRMEAAASK 359 (878) T ss_pred CCCCCHHHHHH-HHC----C-CCCCEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCEEEECCHHHHHHHHHHHHHHHHHH T ss_conf 99996799999-845----6-79987999758999758999999999997348983699774798899999999999997 Q ss_pred C--CCEEEEEECCCCHHHHHHH------------------HHHHCCC-----CCEEEEEC--HHHCCC-CCCCCCC---- Q ss_conf 7--8658996246422566768------------------7762134-----75486411--120133-4554444---- Q gi|254780945|r 348 T--QIIVEIITGNMPQAHRRKA------------------LERIAHG-----QAHIIIGT--HALFQD-SIQYYKL---- 395 (700) Q Consensus 348 ~--~i~v~lLtg~~~~~er~~i------------------~~~i~~G-----~~~iiIGT--HAL~q~-~v~F~~L---- 395 (700) . .-++.|++|+-.-.+...- -+-+..| -..+.||| +||+.- .+.+..| T Consensus 360 ~~~~~~v~LaHg~a~l~~~~~~l~~~~~~~~~~~~~~~~~~~W~~~~~Kr~LLap~~VGTiDQaLla~L~~kH~~LR~~g 439 (878) T PRK09694 360 LFPSPNLILAHGNSRFNHLFQSIKSRAITEQGQEEAWVQCCQWLSQSNKRVFLGQIGVCTIDQVLISVLPVKHRFIRGLG 439 (878) T ss_pred HCCCCCEEEECCHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHCCCHHHHHCCCCEECCHHHHHHHHHCCCHHHHHHHH T ss_conf 36899769744736550566651013676544543015777664111022313771546799999987461489999998 Q ss_pred ---CEEEECCCCCCCHHHHHHHHH-----CCCCCCCEEECHHHHHHHH---HHHHHHCCCH----------------HHH Q ss_conf ---178852101335688998740-----2567761010101322789---9997520101----------------111 Q gi|254780945|r 396 ---ILVIVDEQHRFGVQQRLKLTQ-----KATAPHVLLMTATPIPRTL---VLTSLGDIDI----------------SKI 448 (700) Q Consensus 396 ---gLvViDEQHRFGV~QR~~L~~-----Kg~~ph~L~MtATPIPRTL---al~~ygdldv----------------S~i 448 (700) ..|||||=|=+-+-...-|.. ......+++||||= |..+ -+..||.-.. .-. T Consensus 440 La~kvvIiDEVHAYD~Ym~~lL~~lL~wl~~~g~~viLLSATL-P~~~R~~L~~ay~~~~~~~~~~~~YP~it~~~~~~~ 518 (878) T PRK09694 440 IGRSVLIVDEVHAYDAYMNGLLEAVLKAQAQVGGSVILLSATL-PMTQKQKLLDTYGLHTDPVENNSAYPLINWRGVNGA 518 (878) T ss_pred HCCCEEEEECCCCCCHHHHHHHHHHHHHHHHCCCCEEEEECCC-CHHHHHHHHHHHCCCCCCCCCCCCCCEEEECCCCCC T ss_conf 6287489725333458899999999999998399889992789-899999999975568876666778861363155666 Q ss_pred CC------CCCCCCCCEEEEEECCC---HHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCC--C Q ss_conf 02------35576662079997020---0268999976310387389997120122111210146666666866371--0 Q gi|254780945|r 449 TE------KPAGRKPIKTVIIPINR---IDEVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTS--S 517 (700) Q Consensus 449 ~e------~P~gR~~I~T~~~~~~~---~~~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~--~ 517 (700) .+ ..+.|+.|.-..+..+. -..+.+.+.+.+++|..|-|||-.|+ .|.+.|+.|++.++. . T Consensus 519 ~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~l~~~~~~G~~v~vI~NTV~--------rAq~~y~~L~~~~~~~~~ 590 (878) T PRK09694 519 QRFDLLAHQLPPRFSIQPEPICLADMLPDLTMLERMIAAANAGAQVCVICNLVD--------DAQVCYQRLKELNNTQVD 590 (878) T ss_pred CCCCCCCCCCCCCCEEEEEEEECCCCCCCHHHHHHHHHHHHCCCEEEEEECCHH--------HHHHHHHHHHHHCCCCCC T ss_conf 753446555677723788876314447648999999999978995999938899--------999999999985289987 Q ss_pred EECCCCCCCHHHH----HHHHHHHHCCC----EEEEEECHHHHCCCCCCCCCEEEEECH------HHCCHHHHHHHHHCC Q ss_conf 3120146998999----99999975598----699998003410468887658998585------254746887730116 Q gi|254780945|r 518 IAIIHGRMSDIDK----ESVMDSFKNGT----CKLLIATTVIEVGIDVVDASIIIIENA------EHFGLAQLHQLRGRV 583 (700) Q Consensus 518 v~~lHGkm~~~ek----~~~m~~F~~g~----~~iLvaTtviEVGvdvpna~~mvI~~a------erfGLsqLHQLRGRV 583 (700) |.++|+|....++ +++++.|-.+. -.|||||.|||+-.|+ ++.+||-+-| .|+|=-+=|+=+.| T Consensus 591 v~L~HsRF~~~DR~~~E~~vl~~~Gk~~~r~~g~IlVaTQVvEQSLDi-DfD~liTDLAPiDlLlQR~GRLhRH~R~~R- 668 (878) T PRK09694 591 IDLFHARFTFNDRREKENRVISNFGKNGKRNVGRILVATQVVEQSLDL-DFDWLITQHCPADLLFQRMGRLHRHHRKYR- 668 (878) T ss_pred EEEEECCCCHHHHHHHHHHHHHHHCCCCCCCCCEEEEECCEEEEEECC-CCCHHHCCCCCHHHHHHHHHHHHCCCCCCC- T ss_conf 799868887766999999999986889889998699977333243033-533011046869999987423205899888- Q ss_pred CCCCCCEEEEEEEC Q ss_conf 67898359999708 Q gi|254780945|r 584 GRGEEISSCILLYH 597 (700) Q Consensus 584 GRg~~~s~c~l~~~ 597 (700) ..|-..-.|+.+.+ T Consensus 669 P~g~~~P~~~Vl~P 682 (878) T PRK09694 669 PAGFEIPVATILLP 682 (878) T ss_pred CCCCCCCEEEEECC T ss_conf 87777876999788 No 52 >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=99.65 E-value=3.1e-15 Score=139.11 Aligned_cols=131 Identities=33% Similarity=0.493 Sum_probs=107.7 Q ss_pred EEEEEECCCCCHHHHHHHHHHHHHH--HHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHC Q ss_conf 0788621442236999999733444--30545886127999999998621101457865899624642256676877621 Q gi|254780945|r 295 LRILQGDVGSGKTLVALIAMAAAVE--AGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIA 372 (700) Q Consensus 295 ~RLLQGDVGSGKTiVA~~A~l~~~~--~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~ 372 (700) +-++++.+|||||.+|+++++..+. .+.++.+|+||..|+.|.++.++++++. +..+...+|..+..++. ... T Consensus 2 ~~lv~~ptGsGKT~~~~~~~~~~~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~-~~~~~~~~~~~~~~~~~----~~~ 76 (144) T cd00046 2 DVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKELFGE-GIKVGYLIGGTSIKQQE----KLL 76 (144) T ss_pred CEEEECCCCCHHHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHHCCC-CCEEEEEECCCCHHHHH----HHH T ss_conf 9999889971799999999999997568976999746799999999999997488-71799996136367789----874 Q ss_pred CCCCEEEEECHHHC-----CCCCCCCCCCEEEECCCCC-----CCHHHHHHHHHCCCCCCCEEECHHH Q ss_conf 34754864111201-----3345544441788521013-----3568899874025677610101013 Q gi|254780945|r 373 HGQAHIIIGTHALF-----QDSIQYYKLILVIVDEQHR-----FGVQQRLKLTQKATAPHVLLMTATP 430 (700) Q Consensus 373 ~G~~~iiIGTHAL~-----q~~v~F~~LgLvViDEQHR-----FGV~QR~~L~~Kg~~ph~L~MtATP 430 (700) .+..+|+|+|..-+ ...+.+++++++|+||-|+ ||..+...+.....+++++.||||| T Consensus 77 ~~~~~ilv~T~~~l~~~~~~~~~~~~~~~~vViDEaH~~~~~~~~~~~~~~~~~~~~~~~~l~lSATp 144 (144) T cd00046 77 SGKTDIVVGTPGRLLDELERLKLSLKKLDLLILDEAHRLLNQGFGLLGLKILLKLPKDRQVLLLSATP 144 (144) T ss_pred CCCCCEEECCHHHHHHHHHCCCCCCCCCCEEEEECHHHHHCCCCHHHHHHHHHHCCCCCCEEEECCCC T ss_conf 58984998288999999973876555100999988887643796999999999679999489982899 No 53 >COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair] Probab=99.63 E-value=7.1e-13 Score=120.57 Aligned_cols=195 Identities=19% Similarity=0.351 Sum_probs=142.7 Q ss_pred CCCCCEEEECCCCCCCHHHH-----------HHHHHCC-------------------CCCCCEEECHHHHHHHHHHHHHH Q ss_conf 44441788521013356889-----------9874025-------------------67761010101322789999752 Q gi|254780945|r 392 YYKLILVIVDEQHRFGVQQR-----------LKLTQKA-------------------TAPHVLLMTATPIPRTLVLTSLG 441 (700) Q Consensus 392 F~~LgLvViDEQHRFGV~QR-----------~~L~~Kg-------------------~~ph~L~MtATPIPRTLal~~yg 441 (700) |..=.|+||||-|- -|-|= ..|.+-| ..+.+++.||||=|--+..+- | T Consensus 329 fp~d~Ll~IDESHv-TvPQi~gMynGDrsRK~~LVeyGFRLPSAlDNRPL~feEf~~~~~q~i~VSATPg~~E~e~s~-~ 406 (663) T COG0556 329 FPDDFLLFIDESHV-TVPQIGGMYNGDRSRKQTLVEYGFRLPSALDNRPLKFEEFEAKIPQTIYVSATPGDYELEQSG-G 406 (663) T ss_pred CCCCEEEEEECCCC-CHHHHHCHHCCCHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCCEEEEECCCCHHHHHHCC-C T ss_conf 88413899824446-507653201333788888987157686111379977799997459779997899748777455-8 Q ss_pred CCCHHHHCCCCCCCC-CCEEEEEECCCHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEEC Q ss_conf 010111102355766-6207999702002689999763103873899971201221112101466666668663710312 Q gi|254780945|r 442 DIDISKITEKPAGRK-PIKTVIIPINRIDEVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAI 520 (700) Q Consensus 442 dldvS~i~e~P~gR~-~I~T~~~~~~~~~~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~ 520 (700) .+---+| .|-|=. |+...--...+.+.+++-|++.+++|.++.|.. +.-+-|++..+.|++. +-+|.. T Consensus 407 ~vveQiI--RPTGLlDP~ievRp~~~QvdDL~~EI~~r~~~~eRvLVTt--------LTKkmAEdLT~Yl~e~-gikv~Y 475 (663) T COG0556 407 NVVEQII--RPTGLLDPEIEVRPTKGQVDDLLSEIRKRVAKNERVLVTT--------LTKKMAEDLTEYLKEL-GIKVRY 475 (663) T ss_pred CEEEEEE--CCCCCCCCCEEEECCCCCHHHHHHHHHHHHHCCCEEEEEE--------EHHHHHHHHHHHHHHC-CCEEEE T ss_conf 4268872--4778889852651487747899999999996497299984--------3688899999999866-964786 Q ss_pred CCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCH----HHHHHHHHCCCCCCCCEEEEEEE Q ss_conf 01469989999999997559869999800341046888765899858525474----68877301166789835999970 Q gi|254780945|r 521 IHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGL----AQLHQLRGRVGRGEEISSCILLY 596 (700) Q Consensus 521 lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGL----sqLHQLRGRVGRg~~~s~c~l~~ 596 (700) +|.-.+.-|.-+++.+.+.|++|+||.-...-=|+|+|..++..|.+||.=|. ..|-|-=||-.|+. .|..+| | T Consensus 476 lHSdidTlER~eIirdLR~G~~DvLVGINLLREGLDiPEVsLVAIlDADKeGFLRse~SLIQtIGRAARN~-~GkvIl-Y 553 (663) T COG0556 476 LHSDIDTLERVEIIRDLRLGEFDVLVGINLLREGLDLPEVSLVAILDADKEGFLRSERSLIQTIGRAARNV-NGKVIL-Y 553 (663) T ss_pred EECCCHHHHHHHHHHHHHCCCCCEEEEEHHHHCCCCCCCEEEEEEEECCCCCCCCCCCHHHHHHHHHHHCC-CCEEEE-E T ss_conf 42440389999999997577874898501331347886455798860685444345325999987886357-973999-7 Q ss_pred CCCCC Q ss_conf 88899 Q gi|254780945|r 597 HPPLS 601 (700) Q Consensus 597 ~~~~~ 601 (700) .++++ T Consensus 554 AD~iT 558 (663) T COG0556 554 ADKIT 558 (663) T ss_pred CCHHH T ss_conf 10114 No 54 >KOG0343 consensus Probab=99.62 E-value=2.7e-13 Score=123.89 Aligned_cols=297 Identities=24% Similarity=0.342 Sum_probs=198.9 Q ss_pred CCCHHHHHHHHHHHHHHCCCCCCEEEEEE-------CCCCCHHHHHHHHHHHHH-------HHHCCEEEEEHHHHHHHHH Q ss_conf 67988999999999841001343078862-------144223699999973344-------4305458861279999999 Q gi|254780945|r 272 SPTKSQESAIKDILQDMSQKNRMLRILQG-------DVGSGKTLVALIAMAAAV-------EAGGQAVIMAPIGILAQQH 337 (700) Q Consensus 272 ~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQG-------DVGSGKTiVA~~A~l~~~-------~~G~Q~alMaPTEILA~QH 337 (700) .+|+=|+.+| ||. ||| -.|||||+-.+...+.++ .-|--|.+..||-=||-|. T Consensus 91 ~~teiQ~~~I-----------p~a--L~G~DvlGAAkTGSGKTLAFlvPvlE~L~r~kWs~~DGlGalIISPTRELA~Qt 157 (758) T KOG0343 91 KMTEIQRDTI-----------PMA--LQGHDVLGAAKTGSGKTLAFLVPVLEALYRLKWSPTDGLGALIISPTRELALQT 157 (758) T ss_pred CHHHHHHHHC-----------CHH--CCCCCCCCCCCCCCCCEEEEHHHHHHHHHHCCCCCCCCCEEEEECCHHHHHHHH T ss_conf 6999987641-----------422--057500010235888446543999999997177887883269956529999999 Q ss_pred HHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEEC-HHHCC---CCCCCC--CCCEEEECCCCCC---CH Q ss_conf 986211014578658996246422566768776213475486411-12013---345544--4417885210133---56 Q gi|254780945|r 338 YEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGT-HALFQ---DSIQYY--KLILVIVDEQHRF---GV 408 (700) Q Consensus 338 ~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGT-HAL~q---~~v~F~--~LgLvViDEQHRF---GV 408 (700) |+.+.+.-...++++.|+-|+.-.+ .+...-..++|+|+| --|+| +.+.|+ +|-+.|.||--|- |- T Consensus 158 FevL~kvgk~h~fSaGLiiGG~~~k-----~E~eRi~~mNILVCTPGRLLQHmde~~~f~t~~lQmLvLDEADR~LDMGF 232 (758) T KOG0343 158 FEVLNKVGKHHDFSAGLIIGGKDVK-----FELERISQMNILVCTPGRLLQHMDENPNFSTSNLQMLVLDEADRMLDMGF 232 (758) T ss_pred HHHHHHHHHCCCCCCCEEECCCHHH-----HHHHHHHCCCEEEECHHHHHHHHHHCCCCCCCCCEEEEECCHHHHHHHHH T ss_conf 9999987520564311366571268-----89976625776996617899875416787877604787320888987767 Q ss_pred -HHHHHHHHC-CCCCCCEEECHHHHHHHHHHHHH--HCCCHHHHCC-----CCCCCCCCEEE-EEE-CCCHHHHHHHHHH Q ss_conf -889987402-56776101010132278999975--2010111102-----35576662079-997-0200268999976 Q gi|254780945|r 409 -QQRLKLTQK-ATAPHVLLMTATPIPRTLVLTSL--GDIDISKITE-----KPAGRKPIKTV-IIP-INRIDEVIERLKV 477 (700) Q Consensus 409 -~QR~~L~~K-g~~ph~L~MtATPIPRTLal~~y--gdldvS~i~e-----~P~gR~~I~T~-~~~-~~~~~~~~~~i~~ 477 (700) .|=..+.+- ...-..|..||||---+--|+-. -|-.+-.+.+ -|..=. .++ +++ .++++-+|.||+. T Consensus 233 k~tL~~Ii~~lP~~RQTLLFSATqt~svkdLaRLsL~dP~~vsvhe~a~~atP~~L~--Q~y~~v~l~~Ki~~L~sFI~s 310 (758) T KOG0343 233 KKTLNAIIENLPKKRQTLLFSATQTKSVKDLARLSLKDPVYVSVHENAVAATPSNLQ--QSYVIVPLEDKIDMLWSFIKS 310 (758) T ss_pred HHHHHHHHHHCCHHHEEEEEECCCCHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHH--HEEEEEEHHHHHHHHHHHHHH T ss_conf 888999987377233046663255113999997534798579972353336836453--327997601478999999984 Q ss_pred HHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCC-CEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCC Q ss_conf 310387389997120122111210146666666866371-0312014699899999999975598699998003410468 Q gi|254780945|r 478 VLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTS-SIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGID 556 (700) Q Consensus 478 ~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~-~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvd 556 (700) ++....-||+- -.-+++-+.+. +++.-|. .+-.|||+|+....-++.++|....--||.||-|.--|+| T Consensus 311 hlk~K~iVF~S-------scKqvkf~~e~---F~rlrpg~~l~~L~G~~~Q~~R~ev~~~F~~~~~~vLF~TDv~aRGLD 380 (758) T KOG0343 311 HLKKKSIVFLS-------SCKQVKFLYEA---FCRLRPGIPLLALHGTMSQKKRIEVYKKFVRKRAVVLFCTDVAARGLD 380 (758) T ss_pred CCCCCEEEEEE-------HHHHHHHHHHH---HHHCCCCCCEEEECCCHHHHHHHHHHHHHHHHCCEEEEEEHHHHCCCC T ss_conf 52543699986-------00689999999---985089983254216313778899999998755558986025543689 Q ss_pred CCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEECCC Q ss_conf 8876589985852547468877301166789835999970888 Q gi|254780945|r 557 VVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILLYHPP 599 (700) Q Consensus 557 vpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~~~ 599 (700) .|..+..|=.++--= .++---=-||-.|-...|-|+|+..+. T Consensus 381 FpaVdwViQ~DCPed-v~tYIHRvGRtAR~~~~G~sll~L~ps 422 (758) T KOG0343 381 FPAVDWVIQVDCPED-VDTYIHRVGRTARYKERGESLLMLTPS 422 (758) T ss_pred CCCCCEEEEECCCHH-HHHHHHHHHHHHCCCCCCCEEEEECCH T ss_conf 864336998068205-889998721221136778568997631 No 55 >PRK09401 reverse gyrase; Reviewed Probab=99.61 E-value=6.3e-13 Score=120.97 Aligned_cols=283 Identities=18% Similarity=0.282 Sum_probs=199.3 Q ss_pred HHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHH Q ss_conf 89999863024679889999999998410013430788621442236999999733444305458861279999999986 Q gi|254780945|r 261 IAQKILRNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEF 340 (700) Q Consensus 261 ~~~~f~~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~ 340 (700) +.+-|.+...|++.+.|+.=.+-+... ... -+---.|.|||--.+.+++..+..|..+.+..||..|+.|-++. T Consensus 67 f~~fF~~~~G~~~w~~Qr~WakR~~~g----~SF--aiiAPTG~GKTtfgl~~sly~a~kgkks~~i~PT~~Lv~Q~~~k 140 (1176) T PRK09401 67 FEEFFKKKVGSEPWSLQRTWAKRLLLG----ESF--AIIAPTGVGKTTFGLVMALYLAKKGKKSYIIFPTRLLVEQVVEK 140 (1176) T ss_pred HHHHHHHHHCCCCCHHHHHHHHHHHCC----CCE--EEECCCCCCHHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHH T ss_conf 999999986899848899999998668----974--89888998888999999999986598399996888999999999 Q ss_pred HHHHCCCCC--CEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCC---CCCCCCEEEECCCCCC--------- Q ss_conf 211014578--65899624642256676877621347548641112013345---5444417885210133--------- Q gi|254780945|r 341 IKKYTQNTQ--IIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSI---QYYKLILVIVDEQHRF--------- 406 (700) Q Consensus 341 ~~~~~~~~~--i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v---~F~~LgLvViDEQHRF--------- 406 (700) +.++-...| +++...+|++++++|++.++.+++|+-+|+|.|.+-+..+. .=.+-.+|.||-=--| T Consensus 141 l~~~~~~~~~~~~~~~y~~~~~~~~kee~~~~~~~gdfdIlitT~~fl~kn~~~l~~~~f~fifvDDVDs~LKssKnid~ 220 (1176) T PRK09401 141 LRKLAEKVGVKVRLLYYHSSLKKKEKEEFLERLEEGDFDILVTTSQFLSKNFDELPKDRFDFVFVDDVDAVLKSSKNIDK 220 (1176) T ss_pred HHHHHHHHCCCCEEEEEECCCCHHHHHHHHHHHHCCCCCEEEEEHHHHHHHHHHCCCCCCCEEEEECHHHHHHHHHHHHH T ss_conf 99999970998408998567766678999988655998689985676765487603568888999341877752340999 Q ss_pred -----CHHH-------------------------HHHHH---HCCCCCCCEEECHHHHHHHHHHHHHHCC---CHHHHCC Q ss_conf -----5688-------------------------99874---0256776101010132278999975201---0111102 Q gi|254780945|r 407 -----GVQQ-------------------------RLKLT---QKATAPHVLLMTATPIPRTLVLTSLGDI---DISKITE 450 (700) Q Consensus 407 -----GV~Q-------------------------R~~L~---~Kg~~ph~L~MtATPIPRTLal~~ygdl---dvS~i~e 450 (700) |..+ +..+. .+....-+.+.|||-=||+.-.-+|-+| |++... T Consensus 221 ~l~llGf~~e~i~~a~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~livsSAT~~prg~r~~lfreLlgFevg~~~- 299 (1176) T PRK09401 221 LLKLLGFSEEDIEKAMELIKLKRKTEELKEEIEELEEKIREIRKKKKGVLVVSSATGRPRGIRIKLFRELLGFEVGRPR- 299 (1176) T ss_pred HHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCHHHHHHHHHCCCCCCCC- T ss_conf 9998399999999999999975234344456778899999874368749999757778888538999998298678864- Q ss_pred CCCCCCCCEEEEEECCCHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHH Q ss_conf 35576662079997020026899997631038738999712012211121014666666686637103120146998999 Q gi|254780945|r 451 KPAGRKPIKTVIIPINRIDEVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDK 530 (700) Q Consensus 451 ~P~gR~~I~T~~~~~~~~~~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek 530 (700) ..-|--+-++....+..+.+.+.+ +.+..|+-+|+= ......-+++..+.|++. +-+++..|..- T Consensus 300 -~~lRni~D~y~~~~~~~~~~~e~v-~~lG~GgLifv~-------~~~g~e~~~~~~~~l~~~-g~~a~~~~~~~----- 364 (1176) T PRK09401 300 -FYLRNIVDVYIEPEDLVEKLVELV-KRLGDGGLVFVP-------TDYGKEYAEELKEYLESH-GIKAEAYSGRK----- 364 (1176) T ss_pred -CCEEEEEEEECCCCCHHHHHHHHH-HHHCCCEEEEEE-------CCCCHHHHHHHHHHHHHC-CCEEEEEECCC----- T ss_conf -230212577605766889999999-984895499976-------765889999999999976-96699960588----- Q ss_pred HHHHHHHHCCCEEEEEEC----HHHHCCCCCCCCCEEEE Q ss_conf 999999755986999980----03410468887658998 Q gi|254780945|r 531 ESVMDSFKNGTCKLLIAT----TVIEVGIDVVDASIIII 565 (700) Q Consensus 531 ~~~m~~F~~g~~~iLvaT----tviEVGvdvpna~~mvI 565 (700) ...+++|.+|++|+||.. .++=-|+|.|..-=-+| T Consensus 365 ~~~le~f~~Ge~dvLvG~asyyg~lvRGiDlP~~irYai 403 (1176) T PRK09401 365 KEFLEKFEEGEIDVLIGVASYYGVLVRGIDLPERIRYAI 403 (1176) T ss_pred HHHHHHHHCCCCCEEEEECCCCCCCCCCCCCCCEEEEEE T ss_conf 668889757886489997012452101577641168999 No 56 >PRK11664 ATP-dependent RNA helicase HrpB; Provisional Probab=99.60 E-value=2.4e-12 Score=116.42 Aligned_cols=293 Identities=19% Similarity=0.262 Sum_probs=194.8 Q ss_pred HHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCC-CCCCEEEEEEC Q ss_conf 99999998410013430788621442236999999733444305458861279999999986211014-57865899624 Q gi|254780945|r 279 SAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQ-NTQIIVEIITG 357 (700) Q Consensus 279 ~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~-~~~i~v~lLtg 357 (700) ....+|.+-+..+.. -+|+|+.|||||-.-=..++..-......++.-|--|-|.--++.+...+. +.|-.|..-.. T Consensus 8 ~~~~~i~~~l~~~~~--~vl~a~tGsGKtTqvP~~ll~~~~~~g~I~~~qPRR~AA~s~A~RvA~e~~e~~G~~VGY~vR 85 (812) T PRK11664 8 AVLPELLTALKTAPQ--VLLKAPTGAGKSTWLPLQLLQQGGINGKIIMLEPRRLAARNVAQRLAEQLGEKPGETVGYRMR 85 (812) T ss_pred HHHHHHHHHHHHCCE--EEEEECCCCCHHHHHHHHHHHCCCCCCCEEEECCHHHHHHHHHHHHHHHHCCCCCCEEEEEEC T ss_conf 899999999997997--999908999989999999996468899389938839999999999999729999986757825 Q ss_pred CCCHHHHHHHHHHHCCCCCEEEEECHHHC----CCCCCCCCCCEEEECCCCCCCHHHHHHH--H---HCC--CCCCCEEE Q ss_conf 64225667687762134754864111201----3345544441788521013356889987--4---025--67761010 Q gi|254780945|r 358 NMPQAHRRKALERIAHGQAHIIIGTHALF----QDSIQYYKLILVIVDEQHRFGVQQRLKL--T---QKA--TAPHVLLM 426 (700) Q Consensus 358 ~~~~~er~~i~~~i~~G~~~iiIGTHAL~----q~~v~F~~LgLvViDEQHRFGV~QR~~L--~---~Kg--~~ph~L~M 426 (700) ..+ -.+....|.+=|-.++ +.+-...+.+.||+||=|-=.++-=..| . .+. ..-.+++| T Consensus 86 ~e~----------~~s~~Tri~~~T~GiLlr~l~~dp~L~~~~~vI~DE~HER~l~~Dl~l~l~~~~~~~~r~dLklvvM 155 (812) T PRK11664 86 AES----------KVGPNTRLEVVTEGILTRMIQRDPELSGVGLVILDEFHERSLQADLALALLLDVQQGLRDDLKLLIM 155 (812) T ss_pred CCC----------CCCCCCEEEEECHHHHHHHHHHCCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEE T ss_conf 677----------8899857999755899999724977677888999575468751899999999999861898289998 Q ss_pred CHHHHHHHHHHHHHHCCCHHHHCCCCCCCC-CCEEEEEECCCHHHHHHH----HHHHHCC-CCEEEEEECCCCCCCCCCC Q ss_conf 101322789999752010111102355766-620799970200268999----9763103-8738999712012211121 Q gi|254780945|r 427 TATPIPRTLVLTSLGDIDISKITEKPAGRK-PIKTVIIPINRIDEVIER----LKVVLSE-GKKAYWICPQIEEKKESNF 500 (700) Q Consensus 427 tATPIPRTLal~~ygdldvS~i~e~P~gR~-~I~T~~~~~~~~~~~~~~----i~~~l~~-g~q~y~VcPlIeese~~~~ 500 (700) |||.=.-.++- ++|+-.+-.+ +||. ||.++..+....+.+.+. ++..+.. .+-+-|--|=++ T Consensus 156 SATld~~~~~~-~~~~~~~i~~----~gr~fpV~~~y~~~~~~~~~~~~~~~~i~~~~~~~~G~iLvFLPG~~------- 223 (812) T PRK11664 156 SATLDNDRLQQ-LLPDAPYIES----EGRSFPVERRYQPLPAHQRFDEAVAVATAELLRQESGSLLLFLPGVG------- 223 (812) T ss_pred CCCCCHHHHHH-HCCCCCEEEE----CCCCCCEEEEECCCCCCCHHHHHHHHHHHHHHHCCCCCEEEECCCHH------- T ss_conf 47888488997-5899988987----87433115785468852069999999999997358998899769989------- Q ss_pred CHHHHHHHHHHHHCCC--CEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEE--------ECHHH Q ss_conf 0146666666866371--0312014699899999999975598699998003410468887658998--------58525 Q gi|254780945|r 501 RSVVERFNSLHEHFTS--SIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIII--------ENAEH 570 (700) Q Consensus 501 ~~~~~~~~~l~~~~~~--~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI--------~~aer 570 (700) .+....+.|.+.++. .|--|||.|+.+|.++++..-..|.-+|.+||.|-|..|.||+.++.|= +|+. T Consensus 224 -EI~~~~~~L~~~~~~~~~i~pL~g~l~~~~Q~~~~~~~~~g~rKvIlaTnIAEtSlTI~gV~~VIDsG~~r~~~~d~~- 301 (812) T PRK11664 224 -EIQRVQEQLASRVGSDVLLCPLYGALSLAEQQKAILPAPAGMRKVVLATNIAETSLTIEGIRLVVDSGLERVARFDPK- 301 (812) T ss_pred -HHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHHCCCCCCCEEEEEECCCHHCEEEECCEEEEEECHHHHHHEECCC- T ss_conf -999999998633557808996447899889877606799995379995020002020178148974022344323435- Q ss_pred CCH----------HHHHHHHHCCCCCCCCEEEEEEECC Q ss_conf 474----------6887730116678983599997088 Q gi|254780945|r 571 FGL----------AQLHQLRGRVGRGEEISSCILLYHP 598 (700) Q Consensus 571 fGL----------sqLHQLRGRVGRg~~~s~c~l~~~~ 598 (700) -|+ |+--|=+||.||- .+|.||=+|+. T Consensus 302 ~g~~~L~~~~iSkasa~QRaGRAGR~-~pG~cyRL~s~ 338 (812) T PRK11664 302 TGLTRLETQRISQASMTQRAGRAGRL-EPGICLHLYAK 338 (812) T ss_pred CCCCEEEEEECCHHHHHCCCCCCCCC-CCCEEEEEECH T ss_conf 79756767704544353136767888-99707873359 No 57 >KOG0334 consensus Probab=99.59 E-value=1.2e-11 Score=110.96 Aligned_cols=372 Identities=23% Similarity=0.322 Sum_probs=228.6 Q ss_pred HHHHHHHHHCCC-CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHH--------HHCCEEEEEHH Q ss_conf 789999863024-679889999999998410013430788621442236999999733444--------30545886127 Q gi|254780945|r 260 KIAQKILRNIPF-SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVE--------AGGQAVIMAPI 330 (700) Q Consensus 260 ~~~~~f~~~LPF-~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~--------~G~Q~alMaPT 330 (700) .++. -+++|.| ..|.=|.+||-.|.. ++- -+-++-.|||||+=.++-|+-.+. -|==+.+|||| T Consensus 375 ~il~-tlkkl~y~k~~~IQ~qAiP~Ims----Grd--vIgvakTgSGKT~af~LPmirhi~dQr~~~~gdGPi~li~aPt 447 (997) T KOG0334 375 KILE-TLKKLGYEKPTPIQAQAIPAIMS----GRD--VIGVAKTGSGKTLAFLLPMIRHIKDQRPLEEGDGPIALILAPT 447 (997) T ss_pred HHHH-HHHHHCCCCCCCHHHHHCCHHCC----CCC--EEEEECCCCCCCHHHHHHHHHHHCCCCCHHCCCCCEEEEECCC T ss_conf 8999-99970689987556643012225----774--5877326886203442115554204797110788647997377 Q ss_pred HHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCC-----CCCCCCCCC---EEEECC Q ss_conf 999999998621101457865899624642256676877621347548641112013-----345544441---788521 Q gi|254780945|r 331 GILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQ-----DSIQYYKLI---LVIVDE 402 (700) Q Consensus 331 EILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q-----~~v~F~~Lg---LvViDE 402 (700) -=||.|.++.+++|...+++++++..|.. .+.+...+++.| ..|+|+|-.-+- ..-.--||- .+|-|| T Consensus 448 rela~QI~r~~~kf~k~l~ir~v~vygg~---~~~~qiaelkRg-~eIvV~tpGRmiD~l~~n~grvtnlrR~t~lv~de 523 (997) T KOG0334 448 RELAMQIHREVRKFLKLLGIRVVCVYGGS---GISQQIAELKRG-AEIVVCTPGRMIDILCANSGRVTNLRRVTYLVLDE 523 (997) T ss_pred HHHHHHHHHHHHHHHHHCCCEEEEECCCC---CHHHHHHHHHCC-CCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEECH T ss_conf 78999999999998774176279842785---188789998678-96599645032336661577623310110355411 Q ss_pred CCCCCHHHHHHHHHCCCCC-----------C-CEEECHHHHHHHHHHHHHHCCCHHHHCCCCCCCCCCEEEEEE------ Q ss_conf 0133568899874025677-----------6-101010132278999975201011110235576662079997------ Q gi|254780945|r 403 QHRFGVQQRLKLTQKATAP-----------H-VLLMTATPIPRTLVLTSLGDIDISKITEKPAGRKPIKTVIIP------ 464 (700) Q Consensus 403 QHRFGV~QR~~L~~Kg~~p-----------h-~L~MtATPIPRTLal~~ygdldvS~i~e~P~gR~~I~T~~~~------ 464 (700) --| .. .+|..| + +.+|++---||.+-- . +.-+++ +||. .++. T Consensus 524 aDr------mf--dmgfePq~~~Ii~nlrpdrQtvlfSatfpr~m~~--l---a~~vl~------~Pve-iiv~~~svV~ 583 (997) T KOG0334 524 ADR------MF--DMGFEPQITRILQNLRPDRQTVLFSATFPRSMEA--L---ARKVLK------KPVE-IIVGGRSVVC 583 (997) T ss_pred HHH------HH--HCCCCCCCEEHHHHCCHHHHHHHHHHHHHHHHHH--H---HHHHHC------CCEE-EEECCCEEEE T ss_conf 235------44--0045754040976466035434566220699999--9---988615------8808-9974630574 Q ss_pred -------------CCCHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHH Q ss_conf -------------0200268999976310387389997120122111210146666666866371031201469989999 Q gi|254780945|r 465 -------------INRIDEVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKE 531 (700) Q Consensus 465 -------------~~~~~~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~ 531 (700) .+++.++.+.+...-..|.-+.+| - .+ ..+-...+.|.+ -+...-.|||--+..+.+ T Consensus 584 k~V~q~v~V~~~e~eKf~kL~eLl~e~~e~~~tiiFv-~---~q-----e~~d~l~~~L~~-ag~~~~slHGgv~q~dR~ 653 (997) T KOG0334 584 KEVTQVVRVCAIENEKFLKLLELLGERYEDGKTIIFV-D---KQ-----EKADALLRDLQK-AGYNCDSLHGGVDQHDRS 653 (997) T ss_pred CCEEEEEEEECCCHHHHHHHHHHHHHHHHCCCEEEEE-C---CC-----HHHHHHHHHHHH-CCCCHHHHCCCCCHHHHH T ss_conf 2404899981483677999999999886248879998-4---71-----478899999985-686054305787567788 Q ss_pred HHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEECCCCCHHHHHHHHHH Q ss_conf 99999755986999980034104688876589985852547468877301166789835999970888998799999999 Q gi|254780945|r 532 SVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILLYHPPLSKNSYTRLSVL 611 (700) Q Consensus 532 ~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~~~~~~~~~~Rl~~l 611 (700) .++++|++|...+||+|.|+--|+||++.-+.|.+++-. +-.++--==||-||.+..|+|+-...+...+.+..=-+.| T Consensus 654 sti~dfK~~~~~LLvaTsvvarGLdv~~l~Lvvnyd~pn-h~edyvhR~gRTgragrkg~AvtFi~p~q~~~a~dl~~al 732 (997) T KOG0334 654 STIEDFKNGVVNLLVATSVVARGLDVKELILVVNYDFPN-HYEDYVHRVGRTGRAGRKGAAVTFITPDQLKYAGDLCKAL 732 (997) T ss_pred HHHHHHHCCCCEEEEEHHHHHCCCCCCCEEEEEECCCCH-HHHHHHHHHCCCCCCCCCCEEEEEECHHHHHHHHHHHHHH T ss_conf 589997456742898514542676665405899736631-2799999851356677763379985778864378899999 Q ss_pred HHHC--HH---HHHHHHHHHHCCCCCCCCCHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCC Q ss_conf 8414--25---899999985206300026000698744000388759999999999999998484636655 Q gi|254780945|r 612 KNTE--DG---FLIAEEDLKQRKEGEILGIKQSGMPKFLIAQPELHDSLLEIARKDAKHILTQDPDLTSVR 677 (700) Q Consensus 612 ~~~~--dG---f~iAe~Dl~lRG~G~~~G~~QsG~~~~~~~d~~~d~~ll~~a~~~a~~~~~~d~~l~~~~ 677 (700) ..+. .- =.+++.=+.---.| --+..++| .|.-..+..| +..++++...++....++++.... T Consensus 733 ~~~~~~~P~~l~~l~~~f~~~~~~~-~s~~~~~G--g~~G~g~~~~-~~~~~~~~~~ke~q~~~~g~~~~d 799 (997) T KOG0334 733 ELSKQPVPKLLQALSERFKAKQKAG-GSQVHGGG--GFGGKGLKFD-EVEEELRQERKEAQRKDLGLKEGD 799 (997) T ss_pred HHCCCCCCHHHHHHHHHHHHHHHCC-CCCCCCCC--CCCCCCCCCC-HHHHHHHHHHHHCCCCCCCCCCCC T ss_conf 8615899567899999988652300-45466667--5467766631-789999988862244567877677 No 58 >KOG4284 consensus Probab=99.58 E-value=1.2e-13 Score=126.68 Aligned_cols=321 Identities=21% Similarity=0.288 Sum_probs=215.9 Q ss_pred CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHH---HHHCCEEEEEHHHHHHHHHHHHHHHHCCCC Q ss_conf 67988999999999841001343078862144223699999973344---430545886127999999998621101457 Q gi|254780945|r 272 SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAV---EAGGQAVIMAPIGILAQQHYEFIKKYTQNT 348 (700) Q Consensus 272 ~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~---~~G~Q~alMaPTEILA~QH~~~~~~~~~~~ 348 (700) ..|.=|..||--|..- |.-++|.--|.|||+|...+++... .+.-|..+++||-=+|-|..++|.++.+.+ T Consensus 47 ~ptkiQaaAIP~~~~k------mDliVQaKSGTGKTlVfsv~av~sl~~~~~~~q~~Iv~PTREiaVQI~~tv~~v~~sf 120 (980) T KOG4284 47 LPTKIQAAAIPAIFSK------MDLIVQAKSGTGKTLVFSVLAVESLDSRSSHIQKVIVTPTREIAVQIKETVRKVAPSF 120 (980) T ss_pred CCCCHHHHHHHHHHCC------CCEEEEECCCCCCEEEEEEEEEHHCCCCCCCCEEEEEECCHHHHHHHHHHHHHHCCCC T ss_conf 7870134321144315------5358981378885589985430222756676206997143566457999999865244 Q ss_pred -CCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHH----HC-CCCCCCCCCCEEEECCCCCC---CHHHH--HHHHHC Q ss_conf -865899624642256676877621347548641112----01-33455444417885210133---56889--987402 Q gi|254780945|r 349 -QIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHA----LF-QDSIQYYKLILVIVDEQHRF---GVQQR--LKLTQK 417 (700) Q Consensus 349 -~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHA----L~-q~~v~F~~LgLvViDEQHRF---GV~QR--~~L~~K 417 (700) |.+|....|++..+.-+.-+ .+..|+|||-. |+ -+-....++.|-|.||--+. |+-|- ..+.+- T Consensus 121 ~g~~csvfIGGT~~~~d~~rl-----k~~rIvIGtPGRi~qL~el~~~n~s~vrlfVLDEADkL~~t~sfq~~In~ii~s 195 (980) T KOG4284 121 TGARCSVFIGGTAHKLDLIRL-----KQTRIVIGTPGRIAQLVELGAMNMSHVRLFVLDEADKLMDTESFQDDINIIINS 195 (980) T ss_pred CCCCEEEEECCCHHHHHHHHH-----HHCEEEECCCHHHHHHHHHCCCCCCCEEEEEECCHHHHHCHHHHHHHHHHHHHH T ss_conf 576058996685435556665-----402378438358899987067771102688843177663202478889999974 Q ss_pred -CCCCCCEEECHHHHHHHHHHHHHHCCCHH---HHCCCCCCCCCCEEEEEECCCHHHHHHHHHHHHCCCCEEEEEECCCC Q ss_conf -56776101010132278999975201011---11023557666207999702002689999763103873899971201 Q gi|254780945|r 418 -ATAPHVLLMTATPIPRTLVLTSLGDIDIS---KITEKPAGRKPIKTVIIPINRIDEVIERLKVVLSEGKKAYWICPQIE 493 (700) Q Consensus 418 -g~~ph~L~MtATPIPRTLal~~ygdldvS---~i~e~P~gR~~I~T~~~~~~~~~~~~~~i~~~l~~g~q~y~VcPlIe 493 (700) -.+-.+++.||| -||-|+-.+---|+=- ...+--+-=--|+-+++....-+...+-++..++.=.|+|=--|... T Consensus 196 lP~~rQv~a~SAT-Yp~nLdn~Lsk~mrdp~lVr~n~~d~~L~GikQyv~~~~s~nnsveemrlklq~L~~vf~~ipy~Q 274 (980) T KOG4284 196 LPQIRQVAAFSAT-YPRNLDNLLSKFMRDPALVRFNADDVQLFGIKQYVVAKCSPNNSVEEMRLKLQKLTHVFKSIPYVQ 274 (980) T ss_pred CCHHHEEEEEECC-CCHHHHHHHHHHHCCCCEEECCCCCCEEECHHHEEEECCCCCCHHHHHHHHHHHHHHHHHHCCHHH T ss_conf 5000025677335-735689999987046222432667742530102035226886358999999999999986072677 Q ss_pred CCCCCCCCHHHHHHHHHHHHCC---CCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHH Q ss_conf 2211121014666666686637---1031201469989999999997559869999800341046888765899858525 Q gi|254780945|r 494 EKKESNFRSVVERFNSLHEHFT---SSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEH 570 (700) Q Consensus 494 ese~~~~~~~~~~~~~l~~~~~---~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aer 570 (700) .+-..+...+.+.++.++. -.+.++.|-|+..++--+|+..++-...|||||-.---|||-||+|+.|=.+|-- T Consensus 275 ---AlVF~~~~sra~~~a~~L~ssG~d~~~ISgaM~Q~~Rl~a~~~lr~f~~rILVsTDLtaRGIDa~~vNLVVNiD~p~ 351 (980) T KOG4284 275 ---ALVFCDQISRAEPIATHLKSSGLDVTFISGAMSQKDRLLAVDQLRAFRVRILVSTDLTARGIDADNVNLVVNIDAPA 351 (980) T ss_pred ---HHHHHHHHHHHHHHHHHHHCCCCCEEEECCCCCHHHHHHHHHHHHHCEEEEEEECCHHHCCCCCCCCCEEEECCCCC T ss_conf ---77654134210478877511698717741411235788999874201689998523122267865553698358773 Q ss_pred CCHHHHHHHHHCCCCCCCCEEEEEEECCCCCHHHHHHHHHH Q ss_conf 47468877301166789835999970888998799999999 Q gi|254780945|r 571 FGLAQLHQLRGRVGRGEEISSCILLYHPPLSKNSYTRLSVL 611 (700) Q Consensus 571 fGLsqLHQLRGRVGRg~~~s~c~l~~~~~~~~~~~~Rl~~l 611 (700) =--.-+|-. ||-||=+..|-.+-+...+ ...+|...| T Consensus 352 d~eTY~HRI-GRAgRFG~~G~aVT~~~~~---~e~~~f~~m 388 (980) T KOG4284 352 DEETYFHRI-GRAGRFGAHGAAVTLLEDE---RELKGFTAM 388 (980) T ss_pred CHHHHHHHH-HHCCCCCCCCEEEEEECCC---HHHHHHHHH T ss_conf 067899884-0000145565068886060---443036999 No 59 >KOG0339 consensus Probab=99.58 E-value=5.6e-12 Score=113.54 Aligned_cols=332 Identities=22% Similarity=0.281 Sum_probs=215.6 Q ss_pred CCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEE--ECCCCCHHHHHHHHHHHHH--------HHHCCEEEE Q ss_conf 757899998630246798899999999984100134307886--2144223699999973344--------430545886 Q gi|254780945|r 258 EGKIAQKILRNIPFSPTKSQESAIKDILQDMSQKNRMLRILQ--GDVGSGKTLVALIAMAAAV--------EAGGQAVIM 327 (700) Q Consensus 258 ~~~~~~~f~~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQ--GDVGSGKTiVA~~A~l~~~--------~~G~Q~alM 327 (700) +..+.....+.==-+.|..|..++.-- -|-|=+- .-.|||||.-.+.-|+.-+ .+|-=++++ T Consensus 231 DkqLm~airk~Ey~kptpiq~qalpta--------lsgrdvigIAktgSgktaAfi~pm~~himdq~eL~~g~gPi~vil 302 (731) T KOG0339 231 DKQLMTAIRKSEYEKPTPIQCQALPTA--------LSGRDVIGIAKTGSGKTAAFIWPMIVHIMDQPELKPGEGPIGVIL 302 (731) T ss_pred HHHHHHHHHHHHCCCCCCCCCCCCCCC--------CCCCCCHHEEECCCCCHHHHHHHHHHHHCCHHHHCCCCCCEEEEE T ss_conf 399999986420046775233435522--------466521111211575056777777777414052068999769998 Q ss_pred EHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECH-HHC----CCCCCCCCCCEEEECC Q ss_conf 12799999999862110145786589962464225667687762134754864111-201----3345544441788521 Q gi|254780945|r 328 APIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTH-ALF----QDSIQYYKLILVIVDE 402 (700) Q Consensus 328 aPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTH-AL~----q~~v~F~~LgLvViDE 402 (700) |||.=||.|.|...+++-+.+|+++..+.|+.+.-|. ...|+. .+-|||-|- -|| -+.+.+.+..+.|+|| T Consensus 303 vPTrela~Qi~~eaKkf~K~ygl~~v~~ygGgsk~eQ---~k~Lk~-g~EivVaTPgRlid~VkmKatn~~rvS~LV~DE 378 (731) T KOG0339 303 VPTRELASQIFSEAKKFGKAYGLRVVAVYGGGSKWEQ---SKELKE-GAEIVVATPGRLIDMVKMKATNLSRVSYLVLDE 378 (731) T ss_pred ECCHHHHHHHHHHHHHHHHHCCCEEEEEECCCCHHHH---HHHHHC-CCEEEEECHHHHHHHHHHHCCCCEEEEEEEEEC T ss_conf 0638999999999998631126427886368748887---776502-772899662888999886033310035788711 Q ss_pred CCCC---CHH-HHHHHHHCCCCC--CCEEECHHHHHHH--HHHHHHHCC-CHHHHCCCCCCCCCCEEEEE--EC--CCHH Q ss_conf 0133---568-899874025677--6101010132278--999975201-01111023557666207999--70--2002 Q gi|254780945|r 403 QHRF---GVQ-QRLKLTQKATAP--HVLLMTATPIPRT--LVLTSLGDI-DISKITEKPAGRKPIKTVII--PI--NRID 469 (700) Q Consensus 403 QHRF---GV~-QR~~L~~Kg~~p--h~L~MtATPIPRT--Lal~~ygdl-dvS~i~e~P~gR~~I~T~~~--~~--~~~~ 469 (700) --|. |-+ |=..+.+ ...| ..|+.|||==-+- ||-.+.+|= .+..- +.-.--..|+-.+. +. .+.. T Consensus 379 adrmfdmGfe~qVrSI~~-hirpdrQtllFsaTf~~kIe~lard~L~dpVrvVqg-~vgean~dITQ~V~V~~s~~~Kl~ 456 (731) T KOG0339 379 ADRMFDMGFEPQVRSIKQ-HIRPDRQTLLFSATFKKKIEKLARDILSDPVRVVQG-EVGEANEDITQTVSVCPSEEKKLN 456 (731) T ss_pred HHHHHCCCCHHHHHHHHH-HCCCCCEEEEEECCCHHHHHHHHHHHHCCCEEEEEE-EHHCCCCCHHHEEEECCCCHHHHH T ss_conf 111312654798999986-448864279860310688999999973597267874-010256652424652368178889 Q ss_pred HHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECH Q ss_conf 68999976310387389997120122111210146666666866371031201469989999999997559869999800 Q gi|254780945|r 470 EVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATT 549 (700) Q Consensus 470 ~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTt 549 (700) .+...+-.-...|.-.|+|. .+ .++++..+.|+-. +.+|.++||-|...|+++++.+|+.++.+|||+|- T Consensus 457 wl~~~L~~f~S~gkvlifVT------Kk---~~~e~i~a~Lklk-~~~v~llhgdkdqa~rn~~ls~fKkk~~~VlvatD 526 (731) T KOG0339 457 WLLRHLVEFSSEGKVLIFVT------KK---ADAEEIAANLKLK-GFNVSLLHGDKDQAERNEVLSKFKKKRKPVLVATD 526 (731) T ss_pred HHHHHHHHHCCCCCEEEEEE------CC---CCHHHHHHHHCCC-CCEEEEECCCHHHHHHHHHHHHHHHCCCCEEEEEE T ss_conf 99997550136784799994------22---7899999873205-63256522745667777799987624775488840 Q ss_pred HHHCCCCCCCCCEEEEECHHHCCHHHHH-HHHHCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHC Q ss_conf 3410468887658998585254746887-73011667898359999708889987999999998414 Q gi|254780945|r 550 VIEVGIDVVDASIIIIENAEHFGLAQLH-QLRGRVGRGEEISSCILLYHPPLSKNSYTRLSVLKNTE 615 (700) Q Consensus 550 viEVGvdvpna~~mvI~~aerfGLsqLH-QLRGRVGRg~~~s~c~l~~~~~~~~~~~~Rl~~l~~~~ 615 (700) |---|.|||.-.+ |.|-|-|-=--.| |-=||-||-+..|..|-+..++..+-+-.=.+.|+... T Consensus 527 vaargldI~~ikT--VvnyD~ardIdththrigrtgRag~kGvayTlvTeKDa~fAG~LVnnLe~ag 591 (731) T KOG0339 527 VAARGLDIPSIKT--VVNYDFARDIDTHTHRIGRTGRAGEKGVAYTLVTEKDAEFAGHLVNNLEGAG 591 (731) T ss_pred HHHCCCCCCCCCE--EECCCCCCHHHHHHHHHHHCCCCCCCCEEEEEECHHHHHHHHHHHHHHHHCC T ss_conf 7651787522010--2343222106778877510233555651368733556777668998876236 No 60 >KOG0328 consensus Probab=99.55 E-value=7.1e-13 Score=120.57 Aligned_cols=305 Identities=24% Similarity=0.348 Sum_probs=213.2 Q ss_pred HHHHHHHHHCCCC-CCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHH---CCEEEEEHHHHHHH Q ss_conf 7899998630246-7988999999999841001343078862144223699999973344430---54588612799999 Q gi|254780945|r 260 KIAQKILRNIPFS-PTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAG---GQAVIMAPIGILAQ 335 (700) Q Consensus 260 ~~~~~f~~~LPF~-LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G---~Q~alMaPTEILA~ 335 (700) ++...+++ -.|+ +..=|++||-.|.+- + +-..|.--|.|||+-..+..+.+++-+ -||.++.||-=||. T Consensus 37 dlLrgiY~-yGfekPS~IQqrAi~~IlkG----r--dViaQaqSGTGKTa~~si~vlq~~d~~~r~tQ~lilsPTRELa~ 109 (400) T KOG0328 37 DLLRGIYA-YGFEKPSAIQQRAIPQILKG----R--DVIAQAQSGTGKTATFSISVLQSLDISVRETQALILSPTRELAV 109 (400) T ss_pred HHHHHHHH-HCCCCCHHHHHHHHHHHHCC----C--CEEEEECCCCCCEEEEEEEEEEECCCCCCEEEEEEECCHHHHHH T ss_conf 99999997-22578167776102456336----6--14787047888447898663140343420035789547089999 Q ss_pred HHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHH-C----CCCCCCCCCCEEEECCCCCCCHHH Q ss_conf 99986211014578658996246422566768776213475486411120-1----334554444178852101335688 Q gi|254780945|r 336 QHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHAL-F----QDSIQYYKLILVIVDEQHRFGVQQ 410 (700) Q Consensus 336 QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL-~----q~~v~F~~LgLvViDEQHRFGV~Q 410 (700) |.-+.+..+-++.+|+|.--.|+.+-.|--+.++ -| .++|.||-.- + -..+..++.-+.|.||-. T Consensus 110 Qi~~vi~alg~~mnvq~hacigg~n~gedikkld---~G-~hvVsGtPGrv~dmikr~~L~tr~vkmlVLDEaD------ 179 (400) T KOG0328 110 QIQKVILALGDYMNVQCHACIGGKNLGEDIKKLD---YG-QHVVSGTPGRVLDMIKRRSLRTRAVKMLVLDEAD------ 179 (400) T ss_pred HHHHHHHHHCCCCCCEEEEEECCCCCCHHHHHHC---CC-CEEEECCCCHHHHHHHHCCCCCCCEEEEEECCHH------ T ss_conf 9999999832423644898735775103456532---56-1475079815999998623101142689854589------ Q ss_pred HHHHHHCC-------------CCCCCEEECHHHHHHHHHHHHHHCCCHHHHCCCCCCC--CCCEEEEEECCCHH---HHH Q ss_conf 99874025-------------6776101010132278999975201011110235576--66207999702002---689 Q gi|254780945|r 411 RLKLTQKA-------------TAPHVLLMTATPIPRTLVLTSLGDIDISKITEKPAGR--KPIKTVIIPINRID---EVI 472 (700) Q Consensus 411 R~~L~~Kg-------------~~ph~L~MtATPIPRTLal~~ygdldvS~i~e~P~gR--~~I~T~~~~~~~~~---~~~ 472 (700) .|.+|| ....+.+.|||-=---|-||-.=--|--.|-.++-+- --|+-+.+.-++.+ ... T Consensus 180 --emL~kgfk~Qiydiyr~lp~~~Qvv~~SATlp~eilemt~kfmtdpvrilvkrdeltlEgIKqf~v~ve~EewKfdtL 257 (400) T KOG0328 180 --EMLNKGFKEQIYDIYRYLPPGAQVVLVSATLPHEILEMTEKFMTDPVRILVKRDELTLEGIKQFFVAVEKEEWKFDTL 257 (400) T ss_pred --HHHHHHHHHHHHHHHHHCCCCCEEEEEECCCCHHHHHHHHHHCCCCEEEEEECCCCCHHHHHHHEEEECHHHHHHHHH T ss_conf --998756778899999847998669999645869999999874488526887057776666555424413225537689 Q ss_pred HHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCC---CEECCCCCCCHHHHHHHHHHHHCCCEEEEEECH Q ss_conf 99976310387389997120122111210146666666866371---031201469989999999997559869999800 Q gi|254780945|r 473 ERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTS---SIAIIHGRMSDIDKESVMDSFKNGTCKLLIATT 549 (700) Q Consensus 473 ~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~---~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTt 549 (700) --+.+.|. =.|+.+-|.. ....++|.+..-+ .|..+||-|..+|+|++|++|++|+..||++|- T Consensus 258 cdLYd~Lt-ItQavIFcnT------------k~kVdwLtekm~~~nftVssmHGDm~qkERd~im~dFRsg~SrvLitTD 324 (400) T KOG0328 258 CDLYDTLT-ITQAVIFCNT------------KRKVDWLTEKMREANFTVSSMHGDMEQKERDKIMNDFRSGKSRVLITTD 324 (400) T ss_pred HHHHHHHE-HHEEEEEECC------------CCHHHHHHHHHHHHCCEEEECCCCCCHHHHHHHHHHHHCCCCEEEEEEC T ss_conf 88864306-1147999626------------4043688999886173366305776456799999876547834999710 Q ss_pred HHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEEC Q ss_conf 341046888765899858525474688773011667898359999708 Q gi|254780945|r 550 VIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILLYH 597 (700) Q Consensus 550 viEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~ 597 (700) |---|+|||..|++|=++--..-=--.|- =||-||=+..|..+=... T Consensus 325 VwaRGiDv~qVslviNYDLP~nre~YIHR-IGRSGRFGRkGvainFVk 371 (400) T KOG0328 325 VWARGIDVQQVSLVINYDLPNNRELYIHR-IGRSGRFGRKGVAINFVK 371 (400) T ss_pred HHHCCCCCCEEEEEEECCCCCCHHHHHHH-HCCCCCCCCCCEEEEEEC T ss_conf 44425875005789943788548787665-013565677606998751 No 61 >KOG0330 consensus Probab=99.55 E-value=3.1e-12 Score=115.49 Aligned_cols=323 Identities=20% Similarity=0.258 Sum_probs=205.4 Q ss_pred CCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHH---HCCEEEEEHHH Q ss_conf 787757899998630246798899999999984100134307886214422369999997334443---05458861279 Q gi|254780945|r 255 INVEGKIAQKILRNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEA---GGQAVIMAPIG 331 (700) Q Consensus 255 ~~~~~~~~~~f~~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~---G~Q~alMaPTE 331 (700) +.....+++......==.+|.=|+++|--... +.. -+---..|||||.-.++-++..+-. -+-|.+++||- T Consensus 66 Lgv~~~L~~ac~~l~~~~PT~IQ~~aiP~~L~----g~d--vIglAeTGSGKT~afaLPIl~~LL~~p~~~~~lVLtPtR 139 (476) T KOG0330 66 LGVHPELLEACQELGWKKPTKIQSEAIPVALG----GRD--VIGLAETGSGKTGAFALPILQRLLQEPKLFFALVLTPTR 139 (476) T ss_pred CCCCHHHHHHHHHHCCCCCCHHHHHHCCHHHC----CCC--EEEEECCCCCCHHHHHHHHHHHHHCCCCCCEEEEECCCH T ss_conf 37689999999984767874444520655437----985--799943588840231799999997198774489964828 Q ss_pred HHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHC------CCCCCCCCCCEEEECCCCC Q ss_conf 9999999862110145786589962464225667687762134754864111201------3345544441788521013 Q gi|254780945|r 332 ILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALF------QDSIQYYKLILVIVDEQHR 405 (700) Q Consensus 332 ILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~------q~~v~F~~LgLvViDEQHR 405 (700) =||.|..+.|..+=...|++|+.|.|++..-.-... .+-+++|+|+|---+ ......++|...|.||--| T Consensus 140 ELA~QI~e~fe~Lg~~iglr~~~lvGG~~m~~q~~~----L~kkPhilVaTPGrL~dhl~~Tkgf~le~lk~LVlDEADr 215 (476) T KOG0330 140 ELAQQIAEQFEALGSGIGLRVAVLVGGMDMMLQANQ----LSKKPHILVATPGRLWDHLENTKGFSLEQLKFLVLDEADR 215 (476) T ss_pred HHHHHHHHHHHHHCCCCCEEEEEEECCCHHHHHHHH----HHCCCCEEEECCHHHHHHHHHCCCCCHHHHHHHHHCHHHH T ss_conf 999999999987535667279998658329999887----6248987983707899998743684088757876331776 Q ss_pred C-----CHHHHHHHHHCCCCCCCEEECHHHHHHHHHHHHHHCCCHHHHCCCCCCCCCCE---------------EE-EEE Q ss_conf 3-----56889987402567761010101322789999752010111102355766620---------------79-997 Q gi|254780945|r 406 F-----GVQQRLKLTQKATAPHVLLMTATPIPRTLVLTSLGDIDISKITEKPAGRKPIK---------------TV-IIP 464 (700) Q Consensus 406 F-----GV~QR~~L~~Kg~~ph~L~MtATPIPRTLal~~ygdldvS~i~e~P~gR~~I~---------------T~-~~~ 464 (700) + ++.=-.-|..--...-.+..|||=---+ +-|..+.++. |++ |+ .++ T Consensus 216 lLd~dF~~~ld~ILk~ip~erqt~LfsATMt~kv------~kL~rasl~~------p~~v~~s~ky~tv~~lkQ~ylfv~ 283 (476) T KOG0330 216 LLDMDFEEELDYILKVIPRERQTFLFSATMTKKV------RKLQRASLDN------PVKVAVSSKYQTVDHLKQTYLFVP 283 (476) T ss_pred HHHHHHHHHHHHHHHHCCCCCEEEEEEEECCHHH------HHHHHHCCCC------CEEEECCCHHCCHHHHHHHEEECC T ss_conf 6211568999999874674414899986444136------7787641589------717860430111677664557632 Q ss_pred CCCHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEE Q ss_conf 02002689999763103873899971201221112101466666668663710312014699899999999975598699 Q gi|254780945|r 465 INRIDEVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKL 544 (700) Q Consensus 465 ~~~~~~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~i 544 (700) .+..+--.-.+-++.. |+-+.|-|-. .+-++....+-...+-..--|||+|+...+-.+|++|++|..+| T Consensus 284 ~k~K~~yLV~ll~e~~-g~s~iVF~~t---------~~tt~~la~~L~~lg~~a~~LhGqmsq~~Rlg~l~~Fk~~~r~i 353 (476) T KOG0330 284 GKDKDTYLVYLLNELA-GNSVIVFCNT---------CNTTRFLALLLRNLGFQAIPLHGQMSQSKRLGALNKFKAGARSI 353 (476) T ss_pred CCCCCHHHHHHHHHHC-CCCEEEEEEC---------CCHHHHHHHHHHHCCCCEECCCCHHHHHHHHHHHHHHHCCCCCE T ss_conf 6666523899887635-9847999834---------64089999999862764320566035778877899875147767 Q ss_pred EEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEECCCCCHHHHHHHHHH Q ss_conf 9980034104688876589985852547468877301166789835999970888998799999999 Q gi|254780945|r 545 LIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILLYHPPLSKNSYTRLSVL 611 (700) Q Consensus 545 LvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~~~~~~~~~~Rl~~l 611 (700) ||||-|---|.|+|.+.+.|=+|----+=.-.|- =||+||-+..|..+-+...- .-+-.+|++.. T Consensus 354 Lv~TDVaSRGLDip~Vd~VVNyDiP~~skDYIHR-vGRtaRaGrsG~~ItlVtqy-Dve~~qrIE~~ 418 (476) T KOG0330 354 LVCTDVASRGLDIPHVDVVVNYDIPTHSKDYIHR-VGRTARAGRSGKAITLVTQY-DVELVQRIEHA 418 (476) T ss_pred EEECCHHCCCCCCCCCEEEEECCCCCCHHHHHHH-CCCCCCCCCCCCEEEEEEHH-HHHHHHHHHHH T ss_conf 9861301046898771079953789837888887-04300167775148987445-56999999999 No 62 >KOG0338 consensus Probab=99.55 E-value=7.5e-12 Score=112.54 Aligned_cols=322 Identities=19% Similarity=0.269 Sum_probs=207.0 Q ss_pred HHHHCCC-CCCHHHHHHHH--HHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHH------HHHCCEEEEEHHHHHHH Q ss_conf 9863024-67988999999--999841001343078862144223699999973344------43054588612799999 Q gi|254780945|r 265 ILRNIPF-SPTKSQESAIK--DILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAV------EAGGQAVIMAPIGILAQ 335 (700) Q Consensus 265 f~~~LPF-~LT~~Q~~ai~--eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~------~~G~Q~alMaPTEILA~ 335 (700) -+..|.| .+|.=|...|- -.-.|+... .-.|||||.-.++..+--+ -.--.|.+++||-=||- T Consensus 195 a~~~lGy~~PTpIQ~a~IPvallgkDIca~--------A~TGsGKTAAF~lPiLERLlYrPk~~~~TRVLVL~PTRELai 266 (691) T KOG0338 195 ACSTLGYKKPTPIQVATIPVALLGKDICAC--------AATGSGKTAAFALPILERLLYRPKKVAATRVLVLVPTRELAI 266 (691) T ss_pred HHHHCCCCCCCCHHHHCCCHHHHCCHHHHE--------ECCCCCCHHHHHHHHHHHHHCCCCCCCCEEEEEEECCHHHHH T ss_conf 887438788874033101277522225640--------114687114567889999852735676126999835089999 Q ss_pred HHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHH------HCCCCCCCCCCCEEEECCCCCCCH- Q ss_conf 9998621101457865899624642256676877621347548641112------013345544441788521013356- Q gi|254780945|r 336 QHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHA------LFQDSIQYYKLILVIVDEQHRFGV- 408 (700) Q Consensus 336 QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHA------L~q~~v~F~~LgLvViDEQHRFGV- 408 (700) |-|.-++++..-..|.|+|-.|++.-+..+..|. ..+||||.|-- ==+..+...++...|.||--|.=- T Consensus 267 Qv~sV~~qlaqFt~I~~~L~vGGL~lk~QE~~LR----s~PDIVIATPGRlIDHlrNs~sf~ldsiEVLvlDEADRMLee 342 (691) T KOG0338 267 QVHSVTKQLAQFTDITVGLAVGGLDLKAQEAVLR----SRPDIVIATPGRLIDHLRNSPSFNLDSIEVLVLDEADRMLEE 342 (691) T ss_pred HHHHHHHHHHHHCCCEEEEEECCCCHHHHHHHHH----HCCCEEEECCHHHHHHHCCCCCCCCCCEEEEEECHHHHHHHH T ss_conf 9999999987660402444524745788999983----089879946505888751588765343257773338889999 Q ss_pred ---HHHHHHHH-CCCCCCCEEECHHHHHHHHHHHHHHCC-CHHHHCCCCCCCCCCEEEEEECCCHHHH--HHHHHHH-HC Q ss_conf ---88998740-256776101010132278999975201-0111102355766620799970200268--9999763-10 Q gi|254780945|r 409 ---QQRLKLTQ-KATAPHVLLMTATPIPRTLVLTSLGDI-DISKITEKPAGRKPIKTVIIPINRIDEV--IERLKVV-LS 480 (700) Q Consensus 409 ---~QR~~L~~-Kg~~ph~L~MtATPIPRTLal~~ygdl-dvS~i~e~P~gR~~I~T~~~~~~~~~~~--~~~i~~~-l~ 480 (700) .|=..+.. -..+-..+..|||=---- -|| .+|. .+||.-.+=++.+...- -+||+-. -. T Consensus 343 gFademnEii~lcpk~RQTmLFSATMteeV------kdL~slSL-------~kPvrifvd~~~~~a~~LtQEFiRIR~~r 409 (691) T KOG0338 343 GFADEMNEIIRLCPKNRQTMLFSATMTEEV------KDLASLSL-------NKPVRIFVDPNKDTAPKLTQEFIRIRPKR 409 (691) T ss_pred HHHHHHHHHHHHCCCCCCCEEEHHHHHHHH------HHHHHHHC-------CCCEEEEECCCCCCCHHHHHHHHEECCCC T ss_conf 999999999985510230012112257889------99997551-------79858985786544404447781005564 Q ss_pred CCCEEEEEECCCCCCCCC---CCCHHHHHHHHHHHHC---CCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCC Q ss_conf 387389997120122111---2101466666668663---7103120146998999999999755986999980034104 Q gi|254780945|r 481 EGKKAYWICPQIEEKKES---NFRSVVERFNSLHEHF---TSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVG 554 (700) Q Consensus 481 ~g~q~y~VcPlIeese~~---~~~~~~~~~~~l~~~~---~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVG 554 (700) .|-+-.+|..||-..-.- -.-.-.....+|+=.| +-++|-|||-++.++.=+.+++|+++++|+||||-|---| T Consensus 410 e~dRea~l~~l~~rtf~~~~ivFv~tKk~AHRl~IllGLlgl~agElHGsLtQ~QRlesL~kFk~~eidvLiaTDvAsRG 489 (691) T KOG0338 410 EGDREAMLASLITRTFQDRTIVFVRTKKQAHRLRILLGLLGLKAGELHGSLTQEQRLESLEKFKKEEIDVLIATDVASRG 489 (691) T ss_pred CCCCHHHHHHHHHHHCCCCEEEEEEHHHHHHHHHHHHHHHHCHHHHHCCCCCHHHHHHHHHHHHHCCCCEEEEECHHHCC T ss_conf 44417899999987604336999720877889999998730106655054108889999998774568779872044446 Q ss_pred CCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHCH Q ss_conf 68887658998585254746887730116678983599997088899879999999984142 Q gi|254780945|r 555 IDVVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILLYHPPLSKNSYTRLSVLKNTED 616 (700) Q Consensus 555 vdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~~~~~~~~~~Rl~~l~~~~d 616 (700) +|++..-+.|=++.-+===.-||-. ||-.|-+..|+.+-+.. +..++=|+.+.+++. T Consensus 490 LDI~gV~tVINy~mP~t~e~Y~HRV-GRTARAGRaGrsVtlvg----E~dRkllK~iik~~~ 546 (691) T KOG0338 490 LDIEGVQTVINYAMPKTIEHYLHRV-GRTARAGRAGRSVTLVG----ESDRKLLKEIIKSST 546 (691) T ss_pred CCCCCEEEEEECCCCHHHHHHHHHH-HHHHHCCCCCCEEEEEC----CCCHHHHHHHHHHHH T ss_conf 7765516888426752689999874-00332456764378744----540889999985103 No 63 >COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair] Probab=99.54 E-value=1.6e-12 Score=117.77 Aligned_cols=318 Identities=21% Similarity=0.304 Sum_probs=209.0 Q ss_pred HHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHH Q ss_conf 99998630246798899999999984100134307886214422369999997334443054588612799999999862 Q gi|254780945|r 262 AQKILRNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFI 341 (700) Q Consensus 262 ~~~f~~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~ 341 (700) ...+...+||+|-+-|++|+.-|..|= .+|+.--.|||||+||..|+..+..+|.-+-+-+|+--|..|-|.-| T Consensus 109 ~~~~~~~~~F~LD~fQ~~a~~~Ler~e------sVlV~ApTssGKTvVaeyAi~~al~~~qrviYTsPIKALsNQKyrdl 182 (1041) T COG4581 109 LAPPAREYPFELDPFQQEAIAILERGE------SVLVCAPTSSGKTVVAEYAIALALRDGQRVIYTSPIKALSNQKYRDL 182 (1041) T ss_pred CCCHHHHCCCCCCHHHHHHHHHHHCCC------CEEEECCCCCCCCHHHHHHHHHHHHCCCCEEECCCHHHHHHHHHHHH T ss_conf 683787489896789999999984799------57997337898555999999999871894486163066420679999 Q ss_pred HHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHC-----CCCCCCCCCCEEEECCCCCCCHHHHHHHHH Q ss_conf 110145786589962464225667687762134754864111201-----334554444178852101335688998740 Q gi|254780945|r 342 KKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALF-----QDSIQYYKLILVIVDEQHRFGVQQRLKLTQ 416 (700) Q Consensus 342 ~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~-----q~~v~F~~LgLvViDEQHRFGV~QR~~L~~ 416 (700) ...|.+..-.|.|+||..+- ++.+.++|=|.-++ +..-.-..+.-||-||+|=-|=..|..-++ T Consensus 183 ~~~fgdv~~~vGL~TGDv~I-----------N~~A~clvMTTEILRnMlyrg~~~~~~i~~ViFDEvHyi~D~eRG~VWE 251 (1041) T COG4581 183 LAKFGDVADMVGLMTGDVSI-----------NPDAPCLVMTTEILRNMLYRGSESLRDIEWVVFDEVHYIGDRERGVVWE 251 (1041) T ss_pred HHHHHHHHHHCCCEECCEEE-----------CCCCCEEEEEHHHHHHHHCCCCCCCCCCCEEEEEEEEECCCCCCCHHHH T ss_conf 99860056540401054342-----------7999668860999999862586101353068887666504632212578 Q ss_pred C-----CCCCCCEEECHHHHHHHHHHHHHHCCCHHHHCCCCC------CCC-CCEEEEEECCC--------HH---H--- Q ss_conf 2-----567761010101322789999752010111102355------766-62079997020--------02---6--- Q gi|254780945|r 417 K-----ATAPHVLLMTATPIPRTLVLTSLGDIDISKITEKPA------GRK-PIKTVIIPINR--------ID---E--- 470 (700) Q Consensus 417 K-----g~~ph~L~MtATPIPRTLal~~ygdldvS~i~e~P~------gR~-~I~T~~~~~~~--------~~---~--- 470 (700) - -...++..|||| ||-+.-.+.+ +|.++..|. -|. |-.-++....+ .+ . T Consensus 252 E~Ii~lP~~v~~v~LSAT-v~N~~EF~~W----i~~~~~~~~~vv~t~~RpvPL~~~~~~~~~l~~lvde~~~~~~~~~~ 326 (1041) T COG4581 252 EVIILLPDHVRFVFLSAT-VPNAEEFAEW----IQRVHSQPIHVVSTEHRPVPLEHFVYVGKGLFDLVDEKKKFNAENFP 326 (1041) T ss_pred HHHHHCCCCCCEEEEECC-CCCHHHHHHH----HHHCCCCCEEEEEECCCCCCEEEEEECCCCEEEEECCCCCCHHHCCH T ss_conf 999866777768999678-8987999999----97403787489950688897179886587514535456530111343 Q ss_pred -HHHHHH------HHHCCCCEEEE------------E----------------ECCCCCC-------------CCCCCCH Q ss_conf -899997------63103873899------------9----------------7120122-------------1112101 Q gi|254780945|r 471 -VIERLK------VVLSEGKKAYW------------I----------------CPQIEEK-------------KESNFRS 502 (700) Q Consensus 471 -~~~~i~------~~l~~g~q~y~------------V----------------cPlIees-------------e~~~~~~ 502 (700) +-..+. .+-+.|.+.|. + -|.|.-+ ..+|+.+ T Consensus 327 ~a~~~l~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~iv~~l~~~~~lP~I~F~FSr~~Ce~~a~~~~~ldl~~ 406 (1041) T COG4581 327 SANRSLSCFSEKVRETDDGDVGRYARRTKALRGSAKGPAGRPEIVNKLDKDNLLPAIVFSFSRRGCEEAAQILSTLDLVL 406 (1041) T ss_pred HHHHHHHCCCHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCEEEEEECHHHHHHHHHHHCCCCCCC T ss_conf 34334302200013567654321233334567766565530577766544037852899973651899998750364215 Q ss_pred HHH-------------------------HHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCC Q ss_conf 466-------------------------6666686637103120146998999999999755986999980034104688 Q gi|254780945|r 503 VVE-------------------------RFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDV 557 (700) Q Consensus 503 ~~~-------------------------~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdv 557 (700) .++ .+..+.+.+...+|+=|+.|=+..|+.+=.-|..|-++++.||-+--.|+|+ T Consensus 407 ~~~~e~~i~~ii~~~i~~L~~ed~~lp~~~~~~~~~L~RGiavHH~GlLP~~K~~vE~Lfq~GLvkvvFaTeT~s~GiNm 486 (1041) T COG4581 407 TEEKERAIREIIDHAIGDLAEEDRELPLQILEISALLLRGIAVHHAGLLPAIKELVEELFQEGLVKVVFATETFAIGINM 486 (1041) T ss_pred CCCHHHHHHHHHHHHHHHCCHHHHCCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCEEEEEEHHHHHHHCCC T ss_conf 88278889999999985347202127500999999876034540245036899999999860430577533346401578 Q ss_pred CCCCEEEE----EC--HHHC-CHHHHHHHHHCCCCCCC--CEEEEEEECCCCC Q ss_conf 87658998----58--5254-74688773011667898--3599997088899 Q gi|254780945|r 558 VDASIIII----EN--AEHF-GLAQLHQLRGRVGRGEE--ISSCILLYHPPLS 601 (700) Q Consensus 558 pna~~mvI----~~--aerf-GLsqLHQLRGRVGRg~~--~s~c~l~~~~~~~ 601 (700) |-=|+..= .+ +.|+ -=...||+-||+||-+. .|.-+.+-.+..+ T Consensus 487 Partvv~~~l~K~dG~~~r~L~~gEy~QmsGRAGRRGlD~~G~vI~~~~~~~~ 539 (1041) T COG4581 487 PARTVVFTSLSKFDGNGHRWLSPGEYTQMSGRAGRRGLDVLGTVIVIEPPFES 539 (1041) T ss_pred CCCCEEEEEEEEECCCCEEECCHHHHHHHHHHHCCCCCCCCCEEEEECCCCCC T ss_conf 40013546557754885356581577775444301556546549995578878 No 64 >COG1110 Reverse gyrase [DNA replication, recombination, and repair] Probab=99.54 E-value=6.4e-12 Score=113.07 Aligned_cols=281 Identities=21% Similarity=0.348 Sum_probs=197.8 Q ss_pred HHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHH Q ss_conf 78999986302467988999999999841001343078862144223699999973344430545886127999999998 Q gi|254780945|r 260 KIAQKILRNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYE 339 (700) Q Consensus 260 ~~~~~f~~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~ 339 (700) ...+-|.+...|++..+|+.=.+-+..-- +.. +---.|.|||---++.++..+..|..+.+..||..|++|-++ T Consensus 70 ~~~~fF~k~~G~~~ws~QR~WakR~~rg~--SFa----iiAPTGvGKTTfg~~~sl~~a~kgkr~yii~PT~~Lv~Q~~~ 143 (1187) T COG1110 70 EFEEFFKKATGFRPWSAQRVWAKRLVRGK--SFA----IIAPTGVGKTTFGLLMSLYLAKKGKRVYIIVPTTTLVRQVYE 143 (1187) T ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHCCC--CEE----EECCCCCCHHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHH T ss_conf 99999998638986078899999987378--448----982788765479999999987558749999667899999999 Q ss_pred HHHHHCCCCC-CEEEE-EECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCC------CCCCCCCEEEECCCCCC----- Q ss_conf 6211014578-65899-62464225667687762134754864111201334------55444417885210133----- Q gi|254780945|r 340 FIKKYTQNTQ-IIVEI-ITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDS------IQYYKLILVIVDEQHRF----- 406 (700) Q Consensus 340 ~~~~~~~~~~-i~v~l-Ltg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~------v~F~~LgLvViDEQHRF----- 406 (700) .+.++-+..+ ..+-+ .+|.++.++|++++++|.+|..||+|.|.+-+... ..|+ +|.||.=--| T Consensus 144 kl~~~~e~~~~~~~~~~yh~~l~~~ekee~le~i~~gdfdIlitTs~FL~k~~e~L~~~kFd---fifVDDVDA~Lkask 220 (1187) T COG1110 144 RLKKFAEDAGSLDVLVVYHSALPTKEKEEALERIESGDFDILITTSQFLSKRFEELSKLKFD---FIFVDDVDAILKASK 220 (1187) T ss_pred HHHHHHHHCCCCCEEEEECCCCCHHHHHHHHHHHHCCCCCEEEEEHHHHHHHHHHHCCCCCC---EEEECCHHHHHHCCC T ss_conf 99998865378524665312366577999999986599639997478788669984045777---899804788986344 Q ss_pred ---------CHHH------------HHHHH---------------------HCCCCCCCEEECHHHHHHHHHHHHHHCC- Q ss_conf ---------5688------------99874---------------------0256776101010132278999975201- Q gi|254780945|r 407 ---------GVQQ------------RLKLT---------------------QKATAPHVLLMTATPIPRTLVLTSLGDI- 443 (700) Q Consensus 407 ---------GV~Q------------R~~L~---------------------~Kg~~ph~L~MtATPIPRTLal~~ygdl- 443 (700) |..| |..+. .+....-+.++|||-=||---.-+|-+| T Consensus 221 NvDriL~LlGf~eE~i~~a~~~~~lr~~~~~~~~~~~~~e~~~~~e~~~~~~r~k~g~LvvsSATg~~rg~R~~LfReLl 300 (1187) T COG1110 221 NVDRLLRLLGFSEEVIESAYELIKLRRKLYGEKRAERVREELREVEREREKKRRKLGILVVSSATGKPRGSRLKLFRELL 300 (1187) T ss_pred CHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCHHHHHHHHH T ss_conf 48889998088878888889999999986322367789999998888887750477369996055787774388999983 Q ss_pred --CHHHHCCCCCCCCCCEEEEEECCCHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECC Q ss_conf --011110235576662079997020026899997631038738999712012211121014666666686637103120 Q gi|254780945|r 444 --DISKITEKPAGRKPIKTVIIPINRIDEVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAII 521 (700) Q Consensus 444 --dvS~i~e~P~gR~~I~T~~~~~~~~~~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~l 521 (700) ++.-..+. =|--+.+++.+ ...+++.+.+ +.+..|+-+|+= ......-|++.+++|+.+ +-++++. T Consensus 301 gFevG~~~~~--LRNIvD~y~~~-~~~e~~~elv-k~lG~GgLIfV~-------~d~G~e~aeel~e~Lr~~-Gi~a~~~ 368 (1187) T COG1110 301 GFEVGSGGEG--LRNIVDIYVES-ESLEKVVELV-KKLGDGGLIFVP-------IDYGREKAEELAEYLRSH-GINAELI 368 (1187) T ss_pred CCCCCCCCHH--HHHEEEEECCC-CCHHHHHHHH-HHHCCCEEEEEE-------CHHHHHHHHHHHHHHHHC-CCEEEEE T ss_conf 9856764031--30004420368-6378899999-984897499997-------177389999999999866-9607986 Q ss_pred CCCCCHHHHHHHHHHHHCCCEEEEEEC----HHHHCCCCCCCCCEEEEE Q ss_conf 146998999999999755986999980----034104688876589985 Q gi|254780945|r 522 HGRMSDIDKESVMDSFKNGTCKLLIAT----TVIEVGIDVVDASIIIIE 566 (700) Q Consensus 522 HGkm~~~ek~~~m~~F~~g~~~iLvaT----tviEVGvdvpna~~mvI~ 566 (700) |. ++++.++.|..||+|+||.. -|+=-|+|.|..-=-+|. T Consensus 369 ~a-----~~~~~le~F~~GeidvLVGvAsyYG~lVRGlDLP~rirYaIF 412 (1187) T COG1110 369 HA-----EKEEALEDFEEGEVDVLVGVASYYGVLVRGLDLPHRIRYAVF 412 (1187) T ss_pred EC-----CCHHHHHHHCCCCEEEEEEECCCCCCEEECCCCHHHEEEEEE T ss_conf 23-----202245665067601799850213430224774345457899 No 65 >TIGR00631 uvrb excinuclease ABC, B subunit; InterPro: IPR004807 All proteins in this family for which functions are known are DNA helicases that function in the nucleotide excision repair and are endonucleases that make the 3' incision next to DNA damage. They are part of a pathway requiring UvrA, UvrB, UvrC, and UvrD homologs.; GO: 0009381 excinuclease ABC activity, 0006289 nucleotide-excision repair, 0005737 cytoplasm, 0009380 excinuclease repair complex. Probab=99.53 E-value=6.8e-12 Score=112.85 Aligned_cols=305 Identities=21% Similarity=0.391 Sum_probs=217.5 Q ss_pred CCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHH-HCCEEEEEHHHHHHHHHHHHHHHHCCCC Q ss_conf 246798899999999984100134307886214422369999997334443-0545886127999999998621101457 Q gi|254780945|r 270 PFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEA-GGQAVIMAPIGILAQQHYEFIKKYTQNT 348 (700) Q Consensus 270 PF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~-G~Q~alMaPTEILA~QH~~~~~~~~~~~ 348 (700) ||.+++||=+||+++.+-+..+.+-. -|-|-.|||||-- |++++.. +.=+.+|||-=.||-|-|+.||.|||+. T Consensus 7 ~f~P~GDQP~AI~~L~~~l~~G~~~Q-tLLGvTGsGKTFT----~AnVIa~~~rPTLV~aHNKTLAAQLY~EfKefFPeN 81 (667) T TIGR00631 7 PFQPAGDQPKAIAKLVEGLEAGEKEQ-TLLGVTGSGKTFT----MANVIAQVQRPTLVLAHNKTLAAQLYNEFKEFFPEN 81 (667) T ss_pred CCCCCCCHHHHHHHHHHHHHCCCCCE-EEEEEECCCHHHH----HHHHHHHHCCCEEEECCCHHHHHHHHHHHHHHCCCC T ss_conf 88567881899999999985688714-7853214862788----989999847984998577767999999998638677 Q ss_pred C-----------------------------------------------------------------------CEEEEEEC Q ss_conf 8-----------------------------------------------------------------------65899624 Q gi|254780945|r 349 Q-----------------------------------------------------------------------IIVEIITG 357 (700) Q Consensus 349 ~-----------------------------------------------------------------------i~v~lLtg 357 (700) - ..+.|-.| T Consensus 82 AVEYFvSYYDYYQPEAYvP~~DtyIEKdaSINdeIerlR~SAT~SLl~RrDVIVVASVScIYGLG~P~~Y~~~~~~l~vG 161 (667) T TIGR00631 82 AVEYFVSYYDYYQPEAYVPSKDTYIEKDASINDEIERLRLSATKSLLERRDVIVVASVSCIYGLGSPEEYLKMVLHLEVG 161 (667) T ss_pred CEEEEEECCCCCCCCCCCCCCCCEEECCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEEEEECCCCCCHHHHCCEEEEEEC T ss_conf 24525520323787321479884130455300467677889888642378789998755206888825564227865407 Q ss_pred CCCHHHHHHHHHHH------------------------------------------------------------------ Q ss_conf 64225667687762------------------------------------------------------------------ Q gi|254780945|r 358 NMPQAHRRKALERI------------------------------------------------------------------ 371 (700) Q Consensus 358 ~~~~~er~~i~~~i------------------------------------------------------------------ 371 (700) .. -++++++.+| T Consensus 162 ~~--~~~~~ll~~LV~lqY~RNd~~f~RG~FRvrGDVvEIfP~~~~~~~~~RiEfF~DEie~I~~~dpLtg~~~~~~~~~ 239 (667) T TIGR00631 162 KE--IDRRELLRRLVELQYERNDVDFQRGTFRVRGDVVEIFPAAYEDEFAVRIEFFGDEIERISLVDPLTGEVLRELDSF 239 (667) T ss_pred CC--CCHHHHHHHHHHHCEEECCEECCCCCEEEEEEEEEEECCCCCCCCEEEEEEECCEEEEHHHHCCCCCCHHHHCCCE T ss_conf 85--5889999886340305712340577125763189863477677724899852554320212051105111005615 Q ss_pred ---------------------------------------------------------CCCCC-------EEEE----EC- Q ss_conf ---------------------------------------------------------13475-------4864----11- Q gi|254780945|r 372 ---------------------------------------------------------AHGQA-------HIII----GT- 382 (700) Q Consensus 372 ---------------------------------------------------------~~G~~-------~iiI----GT- 382 (700) +-|-| .-+= |. T Consensus 240 ~ifPA~HyV~p~e~~~~Ai~~I~~EL~eRl~~f~~~~kllEaQRL~qRT~yDLEMl~e~G~C~GIENYSRhl~GR~~GEp 319 (667) T TIGR00631 240 TIFPASHYVTPEERLERAIKEIEKELEERLKYFEEQGKLLEAQRLKQRTEYDLEMLREMGYCSGIENYSRHLSGRKPGEP 319 (667) T ss_pred EEECCCEECCCCHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHCCCCCCCCCCCC T ss_conf 86054000258047999999999999999999987795178888988688778887506733770000002167776315 Q ss_pred -HHHCCCCC-CCCCCCEEEECCCCCCCHHH-----H------HHHHHCC-------------------CCCCCEEECHHH Q ss_conf -12013345-54444178852101335688-----9------9874025-------------------677610101013 Q gi|254780945|r 383 -HALFQDSI-QYYKLILVIVDEQHRFGVQQ-----R------LKLTQKA-------------------TAPHVLLMTATP 430 (700) Q Consensus 383 -HAL~q~~v-~F~~LgLvViDEQHRFGV~Q-----R------~~L~~Kg-------------------~~ph~L~MtATP 430 (700) +.|| |=+ -|..=.|+||||=| --|=| + ..|.+=| ..+-+.+.|||| T Consensus 320 P~tLl-DYF~gfP~DfLlviDESH-VT~PQ~~GMY~GD~SRK~~LVeYGFRLPSAlDNRPLkfeEF~~~~~Q~vyVSATP 397 (667) T TIGR00631 320 PYTLL-DYFIGFPEDFLLVIDESH-VTLPQIGGMYNGDRSRKQTLVEYGFRLPSALDNRPLKFEEFEERINQVVYVSATP 397 (667) T ss_pred CCCHH-HHCCCCCCCEEEEEEECC-CCHHHHHHHHHCCHHHHHHHHHCCCCCCHHCCCCCCCHHHHHHHCCCEEEEECCC T ss_conf 96477-650468865089884025-7502213441304676543320277530013587898799998559889996388 Q ss_pred HHHHHHHHHHHCCCHHHHCC--CCCCCCCCEEEEEE-CCCHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHH Q ss_conf 22789999752010111102--35576662079997-0200268999976310387389997120122111210146666 Q gi|254780945|r 431 IPRTLVLTSLGDIDISKITE--KPAGRKPIKTVIIP-INRIDEVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERF 507 (700) Q Consensus 431 IPRTLal~~ygdldvS~i~e--~P~gR~~I~T~~~~-~~~~~~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~ 507 (700) =|==+..|-- .++.+ .|-|=..-.=.|-+ ..+.+.+++-|++..++|++|.|. .+.-+=| T Consensus 398 G~~E~e~S~~-----~vvEQiiRPTGLlDP~i~VRP~~gQvdDL~~EI~~R~~~~ERvLVT--------TLTKkMA---- 460 (667) T TIGR00631 398 GDYELEQSGG-----NVVEQIIRPTGLLDPEIEVRPTDGQVDDLLSEIRQRVARNERVLVT--------TLTKKMA---- 460 (667) T ss_pred CHHHHHHHCC-----CEEEEEECCCCCCCCEEEEECCCCHHHHHHHHHHHHHHCCCCEEEE--------EHHHHHH---- T ss_conf 5899973269-----1589987377864883688358515888899999999728948998--------2016778---- Q ss_pred HHHHHHCC---CCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCH----HHHHHHH Q ss_conf 66686637---1031201469989999999997559869999800341046888765899858525474----6887730 Q gi|254780945|r 508 NSLHEHFT---SSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGL----AQLHQLR 580 (700) Q Consensus 508 ~~l~~~~~---~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGL----sqLHQLR 580 (700) |.|.++|. -+|-.||.-.+.-|.-+++.+.+.|++||||.=.-.==|+|+|..|+.=|.|||.=|. .-|=|-= T Consensus 461 EdLTdYl~E~Gikv~YLHSeIdt~ER~eiirdLR~G~fDVLVGINLLREGLDlPEVSLVAILDADKEGFLRSerSLIQTI 540 (667) T TIGR00631 461 EDLTDYLKELGIKVRYLHSEIDTLERVEIIRDLRLGEFDVLVGINLLREGLDLPEVSLVAILDADKEGFLRSERSLIQTI 540 (667) T ss_pred HHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHCCCCCEEEEECCHHHCCCCCHHHHHHHHHCCCCCCCCCCCCHHHHHH T ss_conf 89999970588379871455789999999998447884088600020024651148899763278889986630278898 Q ss_pred HCCCCCCCCEEEEEEECCCCCH Q ss_conf 1166789835999970888998 Q gi|254780945|r 581 GRVGRGEEISSCILLYHPPLSK 602 (700) Q Consensus 581 GRVGRg~~~s~c~l~~~~~~~~ 602 (700) ||-.|+. .|..+| |-+++|+ T Consensus 541 GRAARN~-~G~Vil-YAD~iT~ 560 (667) T TIGR00631 541 GRAARNV-NGKVIL-YADKITD 560 (667) T ss_pred HHHHHCC-CCEEEE-ECCCCCH T ss_conf 8875257-965999-7287007 No 66 >KOG0951 consensus Probab=99.51 E-value=1.4e-12 Score=118.29 Aligned_cols=305 Identities=22% Similarity=0.311 Sum_probs=206.5 Q ss_pred HHHHHHHHHHHH---CCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCC-----------EEEEEHHHHHHHHHHHHHH Q ss_conf 999999999841---00134307886214422369999997334443054-----------5886127999999998621 Q gi|254780945|r 277 QESAIKDILQDM---SQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQ-----------AVIMAPIGILAQQHYEFIK 342 (700) Q Consensus 277 Q~~ai~eI~~Dl---~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q-----------~alMaPTEILA~QH~~~~~ 342 (700) |.+.++.|..-+ +-..--|-||.|-.|+|||-||++.|+..+.+++- ....||+--|++---.+|+ T Consensus 306 g~~sLNrIQS~V~daAl~~~EnmLlCAPTGaGKTNVAvLtiLqel~~h~r~dgs~nl~~fKIVYIAPmKaLVqE~VgsfS 385 (1674) T KOG0951 306 GKQSLNRIQSKVYDAALRGDENMLLCAPTGAGKTNVAVLTILQELGNHLREDGSVNLAPFKIVYIAPMKALVQEMVGSFS 385 (1674) T ss_pred CCHHHHHHHHHHHHHHHCCCCCEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCEECCCCEEEEEEEHHHHHHHHHHHHH T ss_conf 40456678877778875576737874267888237999999999853545445410256137998428999999998888 Q ss_pred HHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHH---HCCCC---CCCCC-CCEEEECCCCCCC-----H-- Q ss_conf 101457865899624642256676877621347548641112---01334---55444-4178852101335-----6-- Q gi|254780945|r 343 KYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHA---LFQDS---IQYYK-LILVIVDEQHRFG-----V-- 408 (700) Q Consensus 343 ~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHA---L~q~~---v~F~~-LgLvViDEQHRFG-----V-- 408 (700) +++.++||+|.=+||...-. ++++- +.+++|||-- .+.++ -.+.+ ..|+||||=|=-+ | T Consensus 386 kRla~~GItV~ElTgD~~l~-~~qie------eTQVIVtTPEKwDiITRk~gdraY~qlvRLlIIDEIHLLhDdRGpVLE 458 (1674) T KOG0951 386 KRLAPLGITVLELTGDSQLG-KEQIE------ETQVIVTTPEKWDIITRKSGDRAYEQLVRLLIIDEIHLLHDDRGPVLE 458 (1674) T ss_pred HHCCCCCCEEEEECCCCCCH-HHHHH------CCEEEEECCCHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCCCHHHH T ss_conf 64235671798732654100-44321------220287064222211104674238888888765444321556640788 Q ss_pred --HHHHHHHHC--CCCCCCEEECHHHHHHHHHHHHHHCCCHHHHCCCC--------CCCC-CCEEEEEECCCH------- Q ss_conf --889987402--56776101010132278999975201011110235--------5766-620799970200------- Q gi|254780945|r 409 --QQRLKLTQK--ATAPHVLLMTATPIPRTLVLTSLGDIDISKITEKP--------AGRK-PIKTVIIPINRI------- 468 (700) Q Consensus 409 --~QR~~L~~K--g~~ph~L~MtATPIPRTLal~~ygdldvS~i~e~P--------~gR~-~I~T~~~~~~~~------- 468 (700) -+|..-..+ -+.+.+.-+|||= | -|-|.. +.|.-.| .-|+ |+.-.+++-..+ T Consensus 459 SIVaRt~r~ses~~e~~RlVGLSATL-P------Ny~DV~-~Fl~v~~~glf~fd~syRpvPL~qq~Igitek~~~~~~q 530 (1674) T KOG0951 459 SIVARTFRRSESTEEGSRLVGLSATL-P------NYEDVA-SFLRVDPEGLFYFDSSYRPVPLKQQYIGITEKKPLKRFQ 530 (1674) T ss_pred HHHHHHHHHHHHCCCCCEEEEECCCC-C------CHHHHH-HHHCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCHHHHH T ss_conf 99999999865124574364101557-8------616557-775558532413575557677641476330378067777 Q ss_pred ---HHHHHHHHHHHCCCCEEEE-EECCCCCCCCCC---------------------------CCHHHHHHHHHHHHCCCC Q ss_conf ---2689999763103873899-971201221112---------------------------101466666668663710 Q gi|254780945|r 469 ---DEVIERLKVVLSEGKKAYW-ICPQIEEKKESN---------------------------FRSVVERFNSLHEHFTSS 517 (700) Q Consensus 469 ---~~~~~~i~~~l~~g~q~y~-VcPlIeese~~~---------------------------~~~~~~~~~~l~~~~~~~ 517 (700) +-+|+.|-+...+ +||.| |..+-|.++... ..+....-..|++.+|.. T Consensus 531 amNe~~yeKVme~agk-~qVLVFVHsRKET~ktA~aIRd~~le~dtls~fmre~s~s~eilrtea~~~kn~dLkdLLpyg 609 (1674) T KOG0951 531 AMNEACYEKVLEHAGK-NQVLVFVHSRKETAKTARAIRDKALEEDTLSRFMREDSASREILRTEAGQAKNPDLKDLLPYG 609 (1674) T ss_pred HHHHHHHHHHHHHCCC-CCEEEEEEECHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCHHHHHHHHCC T ss_conf 7789999999973787-858999983357889999999988645379998763441145655444201583078773135 Q ss_pred EECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEE----EECHHHCC---HHHH--HHHHHCCCCCCC Q ss_conf 31201469989999999997559869999800341046888765899----85852547---4688--773011667898 Q gi|254780945|r 518 IAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIII----IENAEHFG---LAQL--HQLRGRVGRGEE 588 (700) Q Consensus 518 v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mv----I~~aerfG---LsqL--HQLRGRVGRg~~ 588 (700) +++-|.-|+..+++.+=+-|++|++++||||--.+-||+.|.-|+|+ ++|+|+=- |+++ -|.=||-||... T Consensus 610 faIHhAGl~R~dR~~~EdLf~~g~iqvlvstatlawgvnlpahtViikgtqvy~pekg~w~elsp~dv~qmlgragrp~~ 689 (1674) T KOG0951 610 FAIHHAGLNRKDRELVEDLFADGHIQVLVSTATLAWGVNLPAHTVIIKGTQVYDPEKGRWTELSPLDVMQMLGRAGRPQY 689 (1674) T ss_pred CEEECCCCCCCHHHHHHHHHHCCCEEEEEEEHHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCC T ss_conf 13311677862377899987448626887502456424777626896076215834576662787999999754489764 Q ss_pred CEEE--EEEEC Q ss_conf 3599--99708 Q gi|254780945|r 589 ISSC--ILLYH 597 (700) Q Consensus 589 ~s~c--~l~~~ 597 (700) ..+- +.+++ T Consensus 690 D~~gegiiit~ 700 (1674) T KOG0951 690 DTCGEGIIITD 700 (1674) T ss_pred CCCCCEEECCC T ss_conf 76786455047 No 67 >KOG0347 consensus Probab=99.51 E-value=1.9e-12 Score=117.20 Aligned_cols=371 Identities=23% Similarity=0.322 Sum_probs=238.3 Q ss_pred HHHHHHCCC-CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHH--------------HHHHHCC--EE Q ss_conf 999863024-679889999999998410013430788621442236999999733--------------4443054--58 Q gi|254780945|r 263 QKILRNIPF-SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAA--------------AVEAGGQ--AV 325 (700) Q Consensus 263 ~~f~~~LPF-~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~--------------~~~~G~Q--~a 325 (700) -+-+..+.| .+|+=|..++-++..|=. .-|=-.+.|||||+-..+-|+. +...+-| +. T Consensus 193 L~aL~~~gFs~Pt~IQsl~lp~ai~gk~-----DIlGaAeTGSGKTLAFGIPiv~~l~~~s~~s~e~~~~~~k~~k~~~L 267 (731) T KOG0347 193 LRALSNLGFSRPTEIQSLVLPAAIRGKV-----DILGAAETGSGKTLAFGIPIVERLLESSDDSQELSNTSAKYVKPIAL 267 (731) T ss_pred HHHHHHCCCCCCCCCHHHCCCHHHCCCH-----HCCCCCCCCCCCEEEECCHHHHHHHHCCCHHHHHHHHHHCCCCCEEE T ss_conf 9999864789986104411667654630-----00033346887424412325454330365376544677605764038 Q ss_pred EEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEEC----HHHCCCCC----CCCCCCE Q ss_conf 861279999999986211014578658996246422566768776213475486411----12013345----5444417 Q gi|254780945|r 326 IMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGT----HALFQDSI----QYYKLIL 397 (700) Q Consensus 326 lMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGT----HAL~q~~v----~F~~LgL 397 (700) +++||-=||-|--+-|....+..+|+++-+||++.......++.. .++|||.| -+|++++= .|+++.- T Consensus 268 V~tPTRELa~QV~~Hl~ai~~~t~i~v~si~GGLavqKQqRlL~~----~p~IVVATPGRlweli~e~n~~l~~~k~vkc 343 (731) T KOG0347 268 VVTPTRELAHQVKQHLKAIAEKTQIRVASITGGLAVQKQQRLLNQ----RPDIVVATPGRLWELIEEDNTHLGNFKKVKC 343 (731) T ss_pred EECCHHHHHHHHHHHHHHHCCCCCEEEEEEECHHHHHHHHHHHHC----CCCEEEECCHHHHHHHHHHHHHHHHHHHCEE T ss_conf 963709999999999998613467278875230579999999852----9987993662899999751066642332407 Q ss_pred EEECCCCCCCHHHH------HHHHH------CCCCCCCEEECHHHHHHHHHHHHHHCCCHHHHC---------------- Q ss_conf 88521013356889------98740------256776101010132278999975201011110---------------- Q gi|254780945|r 398 VIVDEQHRFGVQQR------LKLTQ------KATAPHVLLMTATPIPRTLVLTSLGDIDISKIT---------------- 449 (700) Q Consensus 398 vViDEQHRFGV~QR------~~L~~------Kg~~ph~L~MtATPIPRTLal~~ygdldvS~i~---------------- 449 (700) .|+||--|.= |. .+|.. +...-..|+.|||= .+...- +++.-. T Consensus 344 LVlDEaDRmv--ekghF~Els~lL~~L~e~~~~~qrQTlVFSATl-----t~~~~~--~~~~~~k~~~k~~~~~~kiq~L 414 (731) T KOG0347 344 LVLDEADRMV--EKGHFEELSKLLKHLNEEQKNRQRQTLVFSATL-----TLVLQQ--PLSSSRKKKDKEDELNAKIQHL 414 (731) T ss_pred EEECCHHHHH--HHCCHHHHHHHHHHHHHHHCCCCCCEEEEEEEE-----EHHHCC--HHHHHHHCCCHHHHHHHHHHHH T ss_conf 8873477775--511099999999986031105101258998776-----333217--0577654221145566799999 Q ss_pred --CCCCCCCCCEEEEEECCCHHHHHHHHHHHHCCCCEEEEEECCCCCC------------CCCCCCHHHHHHHHHHHHCC Q ss_conf --2355766620799970200268999976310387389997120122------------11121014666666686637 Q gi|254780945|r 450 --EKPAGRKPIKTVIIPINRIDEVIERLKVVLSEGKKAYWICPQIEEK------------KESNFRSVVERFNSLHEHFT 515 (700) Q Consensus 450 --e~P~gR~~I~T~~~~~~~~~~~~~~i~~~l~~g~q~y~VcPlIees------------e~~~~~~~~~~~~~l~~~~~ 515 (700) +.-..-+| .++..+.-..+-..+.+. -+-||.-|.. ..+-..+..+-.++|.-.+. T Consensus 415 mk~ig~~~kp---kiiD~t~q~~ta~~l~Es-------~I~C~~~eKD~ylyYfl~ryPGrTlVF~NsId~vKRLt~~L~ 484 (731) T KOG0347 415 MKKIGFRGKP---KIIDLTPQSATASTLTES-------LIECPPLEKDLYLYYFLTRYPGRTLVFCNSIDCVKRLTVLLN 484 (731) T ss_pred HHHHCCCCCC---EEEECCCCHHHHHHHHHH-------HHCCCCCCCCEEEEEEEEECCCCEEEEECHHHHHHHHHHHHH T ss_conf 9984756898---267668204478888877-------635885445406899886369835998411889999999974 Q ss_pred C-CE--ECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEE Q ss_conf 1-03--12014699899999999975598699998003410468887658998585254746887730116678983599 Q gi|254780945|r 516 S-SI--AIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSC 592 (700) Q Consensus 516 ~-~v--~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c 592 (700) . +| -.||..|.....=+-+++|++...-+|+||-|---|+|+|+....|-++--|=-=--.|- -||-.|-+..|.- T Consensus 485 ~L~i~p~~LHA~M~QKqRLknLEkF~~~~~~VLiaTDVAARGLDIp~V~HVIHYqVPrtseiYVHR-SGRTARA~~~Gvs 563 (731) T KOG0347 485 NLDIPPLPLHASMIQKQRLKNLEKFKQSPSGVLIATDVAARGLDIPGVQHVIHYQVPRTSEIYVHR-SGRTARANSEGVS 563 (731) T ss_pred HCCCCCCHHHHHHHHHHHHHHHHHHHCCCCEEEEEEHHHHCCCCCCCCCEEEEEECCCCCCEEEEC-CCCCCCCCCCCEE T ss_conf 169997102577889999876998744888179962344425888786367896068753246762-6653225678837 Q ss_pred EEEECCCCCHHHHHHH-HHHHHHCHH--HHHHHHHH------HHCCCCCCCCCHHCCCCCCCCCCHHHHHHHHHHHHHHH Q ss_conf 9970888998799999-999841425--89999998------52063000260006987440003887599999999999 Q gi|254780945|r 593 ILLYHPPLSKNSYTRL-SVLKNTEDG--FLIAEEDL------KQRKEGEILGIKQSGMPKFLIAQPELHDSLLEIARKDA 663 (700) Q Consensus 593 ~l~~~~~~~~~~~~Rl-~~l~~~~dG--f~iAe~Dl------~lRG~G~~~G~~QsG~~~~~~~d~~~d~~ll~~a~~~a 663 (700) +++++++. -....+| +.|...+|= |-| +.|+ +.|=++++- ..+++-..+..+..+++.|..++ T Consensus 564 vml~~P~e-~~~~~KL~ktL~k~~dlpifPv-~~~~m~~lkeRvrLA~ei~------~~e~k~~~v~~~~sWlkkaA~el 635 (731) T KOG0347 564 VMLCGPQE-VGPLKKLCKTLKKKEDLPIFPV-ETDIMDALKERVRLAREID------KLEIKSKRVRKEESWLKKAADEL 635 (731) T ss_pred EEEECHHH-HHHHHHHHHHHHHCCCCCCEEC-CHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHH T ss_conf 99868177-5789999998732367773002-1789999999999999888------76644302321178999999982 Q ss_pred HHHHHHC Q ss_conf 9999848 Q gi|254780945|r 664 KHILTQD 670 (700) Q Consensus 664 ~~~~~~d 670 (700) .-.+.+| T Consensus 636 ~id~d~d 642 (731) T KOG0347 636 GIDVDED 642 (731) T ss_pred CCCCCCC T ss_conf 8765555 No 68 >KOG0326 consensus Probab=99.50 E-value=4.1e-12 Score=114.56 Aligned_cols=293 Identities=24% Similarity=0.343 Sum_probs=199.2 Q ss_pred HHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHH---HHHCCEEEEEHHHHHHHHHHHHHHH Q ss_conf 6302467988999999999841001343078862144223699999973344---4305458861279999999986211 Q gi|254780945|r 267 RNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAV---EAGGQAVIMAPIGILAQQHYEFIKK 343 (700) Q Consensus 267 ~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~---~~G~Q~alMaPTEILA~QH~~~~~~ 343 (700) ++.|-.||.- +|.. -.--|.|||.-..+.++.-+ .+.-|+.+|+||-=||-|--+..+. T Consensus 114 esIPiaLtGr------diLa------------RaKNGTGKT~a~~IP~Lekid~~~~~IQ~~ilVPtrelALQtSqvc~~ 175 (459) T KOG0326 114 ESIPIALTGR------DILA------------RAKNGTGKTAAYCIPVLEKIDPKKNVIQAIILVPTRELALQTSQVCKE 175 (459) T ss_pred CCCCEEECCH------HHHH------------HCCCCCCCCCCEECHHHHHCCCCCCCEEEEEEEECCHHHHHHHHHHHH T ss_conf 2354442351------3555------------501898873304412566528221004479996163266788799999 Q ss_pred HCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECH----HHCCCCC-CCCCCCEEEECCCCC-----CCHHHHHH Q ss_conf 0145786589962464225667687762134754864111----2013345-544441788521013-----35688998 Q gi|254780945|r 344 YTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTH----ALFQDSI-QYYKLILVIVDEQHR-----FGVQQRLK 413 (700) Q Consensus 344 ~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTH----AL~q~~v-~F~~LgLvViDEQHR-----FGV~QR~~ 413 (700) +-+.++++|..-||+|+-+ .+|+. -++.++++|||- -|..++| .+++-.+.|.||-.+ |+-.- +. T Consensus 176 lskh~~i~vmvttGGT~lr--DDI~R--l~~~VH~~vgTPGRIlDL~~KgVa~ls~c~~lV~DEADKlLs~~F~~~~-e~ 250 (459) T KOG0326 176 LSKHLGIKVMVTTGGTSLR--DDIMR--LNQTVHLVVGTPGRILDLAKKGVADLSDCVILVMDEADKLLSVDFQPIV-EK 250 (459) T ss_pred HHCCCCEEEEEECCCCCCC--CCEEE--ECCCEEEEECCCHHHHHHHHCCCCCCHHCEEEEECHHHHHHCHHHHHHH-HH T ss_conf 8604684999943886544--32056--1582699972871788888626522001147874105544141456789-99 Q ss_pred HHHC-CCCCCCEEECHHHHHHHHHHHH----HHCCCHHHHCCCCCCCCCCEEEEEECCCHHH--HHHHHHHHHCCCCEEE Q ss_conf 7402-5677610101013227899997----5201011110235576662079997020026--8999976310387389 Q gi|254780945|r 414 LTQK-ATAPHVLLMTATPIPRTLVLTS----LGDIDISKITEKPAGRKPIKTVIIPINRIDE--VIERLKVVLSEGKKAY 486 (700) Q Consensus 414 L~~K-g~~ph~L~MtATPIPRTLal~~----ygdldvS~i~e~P~gR~~I~T~~~~~~~~~~--~~~~i~~~l~~g~q~y 486 (700) |.+. -.+..+|+.||| -|-|.---. -.-..+-..+|+-. +-|+-+..--+.+.+ ..+-+-..|+- +|+. T Consensus 251 li~~lP~~rQillySAT-FP~tVk~Fm~~~l~kPy~INLM~eLtl--~GvtQyYafV~e~qKvhCLntLfskLqI-NQsI 326 (459) T KOG0326 251 LISFLPKERQILLYSAT-FPLTVKGFMDRHLKKPYEINLMEELTL--KGVTQYYAFVEERQKVHCLNTLFSKLQI-NQSI 326 (459) T ss_pred HHHHCCCCCEEEEEECC-CCHHHHHHHHHHCCCCCEEEHHHHHHH--CCHHHHEEEECHHHHHHHHHHHHHHHCC-CCEE T ss_conf 98757854204676313-640588899986058602204656320--3523210110235555649989887500-4459 Q ss_pred EEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEE Q ss_conf 99712012211121014666666686637103120146998999999999755986999980034104688876589985 Q gi|254780945|r 487 WICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIE 566 (700) Q Consensus 487 ~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~ 566 (700) +-|-.+. -||-..+.+.+ .+...-.+|.||..+.++.+..+|++|....||||-.+--|||+++.|+.|=. T Consensus 327 IFCNS~~--------rVELLAkKITe-lGyscyyiHakM~Q~hRNrVFHdFr~G~crnLVctDL~TRGIDiqavNvVINF 397 (459) T KOG0326 327 IFCNSTN--------RVELLAKKITE-LGYSCYYIHAKMAQEHRNRVFHDFRNGKCRNLVCTDLFTRGIDIQAVNVVINF 397 (459) T ss_pred EEECCCH--------HHHHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEHHHHHCCCCCCEEEEEEEC T ss_conf 9963631--------76798988886-16436677888877654245565432532012420233046554102599963 Q ss_pred CHHHCCHHHHHHHHHCCCCCCCCEEEEEEE Q ss_conf 852547468877301166789835999970 Q gi|254780945|r 567 NAEHFGLAQLHQLRGRVGRGEEISSCILLY 596 (700) Q Consensus 567 ~aerfGLsqLHQLRGRVGRg~~~s~c~l~~ 596 (700) +--+--=+-||-. ||-||=++.|..+=+. T Consensus 398 Dfpk~aEtYLHRI-GRsGRFGhlGlAInLi 426 (459) T KOG0326 398 DFPKNAETYLHRI-GRSGRFGHLGLAINLI 426 (459) T ss_pred CCCCCHHHHHHHC-CCCCCCCCCCEEEEEE T ss_conf 7887778999871-6776578762479987 No 69 >KOG0336 consensus Probab=99.47 E-value=2.5e-11 Score=108.36 Aligned_cols=292 Identities=26% Similarity=0.377 Sum_probs=197.8 Q ss_pred EEEE-------CCCCCHHHHHHHHHHHHHH---------HHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCC Q ss_conf 8862-------1442236999999733444---------30545886127999999998621101457865899624642 Q gi|254780945|r 297 ILQG-------DVGSGKTLVALIAMAAAVE---------AGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMP 360 (700) Q Consensus 297 LLQG-------DVGSGKTiVA~~A~l~~~~---------~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~ 360 (700) |||| -.|+|||+-.++-.+.-++ +|--+.+++||-=||.|.--..+++=-+--..+++..| T Consensus 254 ~LQG~DliGVAQTgtgKtL~~L~pg~ihi~aqp~~~~qr~~p~~lvl~ptreLalqie~e~~kysyng~ksvc~ygg--- 330 (629) T KOG0336 254 LLQGIDLIGVAQTGTGKTLAFLLPGFIHIDAQPKRREQRNGPGVLVLTPTRELALQIEGEVKKYSYNGLKSVCVYGG--- 330 (629) T ss_pred EECCCCEEEEEECCCCCCHHHHCCCEEEEECCCHHHHCCCCCCEEEEECCHHHHHHHHHHHHHHHHCCCCEEEEECC--- T ss_conf 11376447787448984778750540145146111203689854998333888998876776764358432887548--- Q ss_pred HHHHHHHHHHHCCCCCEEEEECHH----HCCC-CCCCCCCCEEEECCCCC-----CCHHHHHHHHHCCCCCCC-EEE-CH Q ss_conf 256676877621347548641112----0133-45544441788521013-----356889987402567761-010-10 Q gi|254780945|r 361 QAHRRKALERIAHGQAHIIIGTHA----LFQD-SIQYYKLILVIVDEQHR-----FGVQQRLKLTQKATAPHV-LLM-TA 428 (700) Q Consensus 361 ~~er~~i~~~i~~G~~~iiIGTHA----L~q~-~v~F~~LgLvViDEQHR-----FGV~QR~~L~~Kg~~ph~-L~M-tA 428 (700) ..|.+..++++.| +.|+|-|-- |+.+ -|..++.-++|+||-.| |-+.-|.-|.+ ..||- -+| || T Consensus 331 -gnR~eqie~lkrg-veiiiatPgrlndL~~~n~i~l~siTYlVlDEADrMLDMgFEpqIrkilld--iRPDRqtvmTSA 406 (629) T KOG0336 331 -GNRNEQIEDLKRG-VEIIIATPGRLNDLQMDNVINLASITYLVLDEADRMLDMGFEPQIRKILLD--IRPDRQTVMTSA 406 (629) T ss_pred -CCCHHHHHHHHCC-CEEEEECCCHHHHHHHCCEEEEEEEEEEEECCHHHHHCCCCCHHHHHHHHH--CCCCCEEEEECC T ss_conf -7854689987457-417760785176555317200112588986126666445662888988652--277622553105 Q ss_pred H--HHHHHHHHHHH--------HCCCHHHHCCCCCCCCCCEEEE-EECCC-HHHHHHHHHHHHCCCCEEEEEECCCCCCC Q ss_conf 1--32278999975--------2010111102355766620799-97020-02689999763103873899971201221 Q gi|254780945|r 429 T--PIPRTLVLTSL--------GDIDISKITEKPAGRKPIKTVI-IPINR-IDEVIERLKVVLSEGKKAYWICPQIEEKK 496 (700) Q Consensus 429 T--PIPRTLal~~y--------gdldvS~i~e~P~gR~~I~T~~-~~~~~-~~~~~~~i~~~l~~g~q~y~VcPlIeese 496 (700) | |=-|-||.++. |.||+.... .|+-.+ ++.+. .-.+..+.-+.....-++.+-|.. T Consensus 407 TWP~~VrrLa~sY~Kep~~v~vGsLdL~a~~-------sVkQ~i~v~~d~~k~~~~~~f~~~ms~ndKvIiFv~~----- 474 (629) T KOG0336 407 TWPEGVRRLAQSYLKEPMIVYVGSLDLVAVK-------SVKQNIIVTTDSEKLEIVQFFVANMSSNDKVIIFVSR----- 474 (629) T ss_pred CCCHHHHHHHHHHHHCCEEEEECCCCEEEEE-------EEEEEEEECCCHHHHHHHHHHHHHCCCCCEEEEEEEC----- T ss_conf 5866899999986408549996143435541-------0102588436189999999999855888618999831----- Q ss_pred CCCCCHHHHHHHHHHHHCC--C-CEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCH Q ss_conf 1121014666666686637--1-031201469989999999997559869999800341046888765899858525474 Q gi|254780945|r 497 ESNFRSVVERFNSLHEHFT--S-SIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGL 573 (700) Q Consensus 497 ~~~~~~~~~~~~~l~~~~~--~-~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGL 573 (700) + .....|...|- . ....|||--...+.|.+++.|++|+++|||||.+.--|+|||+.|...=++--|=== T Consensus 475 K-------~~AD~LSSd~~l~gi~~q~lHG~r~Q~DrE~al~~~ksG~vrILvaTDlaSRGlDv~DiTHV~NyDFP~nIe 547 (629) T KOG0336 475 K-------VMADHLSSDFCLKGISSQSLHGNREQSDREMALEDFKSGEVRILVATDLASRGLDVPDITHVYNYDFPRNIE 547 (629) T ss_pred H-------HHHHHCCCHHHHCCCCHHHCCCCHHHHHHHHHHHHHHCCCEEEEEEECHHHCCCCCHHCCEEECCCCCCCHH T ss_conf 0-------322102310211461011025872243599999764158169999722343378820020354057875599 Q ss_pred HHHHHHHHCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHC Q ss_conf 688773011667898359999708889987999999998414 Q gi|254780945|r 574 AQLHQLRGRVGRGEEISSCILLYHPPLSKNSYTRLSVLKNTE 615 (700) Q Consensus 574 sqLHQLRGRVGRg~~~s~c~l~~~~~~~~~~~~Rl~~l~~~~ 615 (700) --.|- =||.||-+.+|..+-..--.....+.+=+++|...+ T Consensus 548 eYVHR-vGrtGRaGr~G~sis~lt~~D~~~a~eLI~ILe~ae 588 (629) T KOG0336 548 EYVHR-VGRTGRAGRTGTSISFLTRNDWSMAEELIQILERAE 588 (629) T ss_pred HHHHH-HCCCCCCCCCCCEEEEEEHHHHHHHHHHHHHHHHHH T ss_conf 99987-123565777763278886304777999999999865 No 70 >KOG0332 consensus Probab=99.46 E-value=4.3e-11 Score=106.55 Aligned_cols=313 Identities=22% Similarity=0.328 Sum_probs=186.5 Q ss_pred CHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHH---HCCEEEEEHHHHHHHHHHHHHHHHCCCCCC Q ss_conf 98899999999984100134307886214422369999997334443---054588612799999999862110145786 Q gi|254780945|r 274 TKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEA---GGQAVIMAPIGILAQQHYEFIKKYTQNTQI 350 (700) Q Consensus 274 T~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~---G~Q~alMaPTEILA~QH~~~~~~~~~~~~i 350 (700) +.=|..|+--+.. +-|-|-.-|---|+|||.-..++|+.-++. -=|+.-+|||-=||.|--+-+.++=+-.++ T Consensus 114 skIQe~aLPlll~----~Pp~nlIaQsqsGtGKTaaFvL~MLsRvd~~~~~PQ~iCLaPtrELA~Q~~eVv~eMGKf~~i 189 (477) T KOG0332 114 SKIQETALPLLLA----EPPQNLIAQSQSGTGKTAAFVLTMLSRVDPDVVVPQCICLAPTRELAPQTGEVVEEMGKFTEL 189 (477) T ss_pred CHHHHHHCCHHHC----CCCHHHHHHHCCCCCHHHHHHHHHHHHCCCCCCCCCCEEECCHHHHHHHHHHHHHHHCCCEEE T ss_conf 2577752125305----982656655017886058999999873483335877405476177799898999984670114 Q ss_pred EEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCC------CCCCCCCCEEEECCC------CCCCHHHHHHHH-HC Q ss_conf 58996246422566768776213475486411120133------455444417885210------133568899874-02 Q gi|254780945|r 351 IVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQD------SIQYYKLILVIVDEQ------HRFGVQQRLKLT-QK 417 (700) Q Consensus 351 ~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~------~v~F~~LgLvViDEQ------HRFGV~QR~~L~-~K 417 (700) ++.+..-.-+.+.-..+- ..|+|||---+-| -..-...-.-|-||- +-|+ .|-..+. .- T Consensus 190 ta~yair~sk~~rG~~l~-------eqIviGTPGtv~Dl~~klk~id~~kikvfVlDEAD~Mi~tqG~~-D~S~rI~~~l 261 (477) T KOG0332 190 TASYAIRGSKAKRGNKLT-------EQIVIGTPGTVLDLMLKLKCIDLEKIKVFVLDEADVMIDTQGFQ-DQSIRIMRSL 261 (477) T ss_pred EEEEEECCCCCCCCCCCH-------HHEEECCCCCHHHHHHHHHHHCHHHCEEEEECCHHHHHHCCCCC-CCCHHHHHHC T ss_conf 689985376444677332-------22131799428999999874276664388853225554313665-5431044316 Q ss_pred CCCCCCEEECHHHHHHHHHHHH--HHCCCHHHHCCCCCCCCCCEEEEEECCCHHHHHHHHHH---HHCCCCEEEEEECCC Q ss_conf 5677610101013227899997--52010111102355766620799970200268999976---310387389997120 Q gi|254780945|r 418 ATAPHVLLMTATPIPRTLVLTS--LGDIDISKITEKPAGRKPIKTVIIPINRIDEVIERLKV---VLSEGKKAYWICPQI 492 (700) Q Consensus 418 g~~ph~L~MtATPIPRTLal~~--ygdldvS~i~e~P~gR~~I~T~~~~~~~~~~~~~~i~~---~l~~g~q~y~VcPlI 492 (700) ..+..+|..|||---+--+.+. --|-.+-.|+.---.=-+|+-+.+--..++.-|+.+.+ -+.-| |..+-|-. T Consensus 262 P~~~QllLFSATf~e~V~~Fa~kivpn~n~i~Lk~eel~L~~IkQlyv~C~~~~~K~~~l~~lyg~~tig-qsiIFc~t- 339 (477) T KOG0332 262 PRNQQLLLFSATFVEKVAAFALKIVPNANVIILKREELALDNIKQLYVLCACRDDKYQALVNLYGLLTIG-QSIIFCHT- 339 (477) T ss_pred CCCCEEEEEECHHHHHHHHHHHHHCCCCCEEEEEHHHCCCCCHHHHEEECCCHHHHHHHHHHHHHHHHHH-HEEEEEEE- T ss_conf 8762377640103779999999854898403656343064213431366555166799999987011110-05899962- Q ss_pred CCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECH---- Q ss_conf 1221112101466666668663710312014699899999999975598699998003410468887658998585---- Q gi|254780945|r 493 EEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENA---- 568 (700) Q Consensus 493 eese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~a---- 568 (700) -.+|...|+.+.+. ++.|.+|||-|.-++++.+|++|+.|..++||+|.|+--||||+..|+.|=+|- T Consensus 340 -------k~ta~~l~~~m~~~-Gh~V~~l~G~l~~~~R~~ii~~Fr~g~~kVLitTnV~ARGiDv~qVs~VvNydlP~~~ 411 (477) T KOG0332 340 -------KATAMWLYEEMRAE-GHQVSLLHGDLTVEQRAAIIDRFREGKEKVLITTNVCARGIDVAQVSVVVNYDLPVKY 411 (477) T ss_pred -------HHHHHHHHHHHHHC-CCEEEEEECCCHHHHHHHHHHHHHCCCCEEEEEECHHHCCCCCCEEEEEEECCCCCCC T ss_conf -------02699999999843-7536785065306788999999865760699870111235653137999944776455 Q ss_pred -HHCC-HHHHHHHHHCCCCCCCCEEEEEEECCCCCHHHHHHHHHHH Q ss_conf -2547-4688773011667898359999708889987999999998 Q gi|254780945|r 569 -EHFG-LAQLHQLRGRVGRGEEISSCILLYHPPLSKNSYTRLSVLK 612 (700) Q Consensus 569 -erfG-LsqLHQLRGRVGRg~~~s~c~l~~~~~~~~~~~~Rl~~l~ 612 (700) ++=- =.-||-. ||-||=++.|..|=+.+++.+ ++-|+.+. T Consensus 412 ~~~pD~etYlHRi-GRtGRFGkkG~a~n~v~~~~s---~~~mn~iq 453 (477) T KOG0332 412 TGEPDYETYLHRI-GRTGRFGKKGLAINLVDDKDS---MNIMNKIQ 453 (477) T ss_pred CCCCCHHHHHHHH-CCCCCCCCCCEEEEEECCCCC---HHHHHHHH T ss_conf 7898778898870-234656655248986416575---89999999 No 71 >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=99.46 E-value=7.7e-12 Score=112.42 Aligned_cols=167 Identities=28% Similarity=0.356 Sum_probs=123.6 Q ss_pred CCCCHHHHHHHHHCCCC-CCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHH-----HHHCCEEEEEH Q ss_conf 87757899998630246-7988999999999841001343078862144223699999973344-----43054588612 Q gi|254780945|r 256 NVEGKIAQKILRNIPFS-PTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAV-----EAGGQAVIMAP 329 (700) Q Consensus 256 ~~~~~~~~~f~~~LPF~-LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~-----~~G~Q~alMaP 329 (700) ..+..+.+.+ ++..|+ +|.=|++|+..|.+. -+-++|.-.|||||..+++.++..+ .++-|+.+++| T Consensus 5 ~L~~~ll~~l-~~~g~~~pt~IQ~~~ip~il~g------~dvi~~a~TGSGKTlay~lpil~~l~~~~~~~~~~alil~P 77 (203) T cd00268 5 GLSPELLRGI-YALGFEKPTPIQARAIPPLLSG------RDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAP 77 (203) T ss_pred CCCHHHHHHH-HHCCCCCCCHHHHHHHHHHHCC------CCEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCEEEEEEC T ss_conf 6599999999-9879999999999999999779------98899757997222888869999986166768966999968 Q ss_pred HHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEEC-----HHHCCCCCCCCCCCEEEECCCC Q ss_conf 79999999986211014578658996246422566768776213475486411-----1201334554444178852101 Q gi|254780945|r 330 IGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGT-----HALFQDSIQYYKLILVIVDEQH 404 (700) Q Consensus 330 TEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGT-----HAL~q~~v~F~~LgLvViDEQH 404 (700) |.=||.|-++.+.++....++++.+++|+++.++..+ .++. .++|+||| +-+-+..+.++++.++|+||=+ T Consensus 78 TrELa~Qi~~~~~~l~~~~~i~~~~~~gg~~~~~~~~---~l~~-~~~IlI~TPgrl~~~l~~~~~~l~~l~~lVlDEAD 153 (203) T cd00268 78 TRELALQIAEVARKLGKHTNLKVVVIYGGTSIDKQIR---KLKR-GPHIVVATPGRLLDLLERGKLDLSKVKYLVLDEAD 153 (203) T ss_pred CHHHHHHHHHHHHHHCCCCCEEEEEEECCCCHHHHHH---HHHC-CCEEEEECCHHHHHHHHCCCCCCCCCCEEEEECHH T ss_conf 7999999999999850579838999838988799999---9853-87599968189999998488651322489998588 Q ss_pred CC-----CHHHHHHHHHCCCCCCCEEECHHHHHH Q ss_conf 33-----568899874025677610101013227 Q gi|254780945|r 405 RF-----GVQQRLKLTQKATAPHVLLMTATPIPR 433 (700) Q Consensus 405 RF-----GV~QR~~L~~Kg~~ph~L~MtATPIPR 433 (700) +. +-.-+.-+..-..+...+++|||=-+. T Consensus 154 ~ll~~gf~~~i~~I~~~l~~~~Q~~lfSAT~~~~ 187 (203) T cd00268 154 RMLDMGFEDQIREILKLLPKDRQTLLFSATMPKE 187 (203) T ss_pred HHHHCCCHHHHHHHHHHCCCCCEEEEEEECCCHH T ss_conf 8874776999999998589677799998049988 No 72 >TIGR01587 cas3_core CRISPR-associated helicase Cas3; InterPro: IPR006474 This entry represents a highly conserved core region of the Cas3 sequences. The proteins are found in association with CRISPR repeat elements in a broad range of bacteria and Archaea . Cas3 appears to be a helicase, containing a DEAD/DEAH box region and conserved C-terminal domain. Some but not all members have an N-terminal HD domain region (IPR006674 from INTERPRO), these sequences are not included within this group.. Probab=99.44 E-value=2.6e-12 Score=116.12 Aligned_cols=288 Identities=24% Similarity=0.335 Sum_probs=191.9 Q ss_pred EEEECCCCCHHHHHHHHHHH---HHHHH--CCEEEEEHHHHHHHHHHHHHHH----HCCCCCCEEEEEEC------CCCH Q ss_conf 88621442236999999733---44430--5458861279999999986211----01457865899624------6422 Q gi|254780945|r 297 ILQGDVGSGKTLVALIAMAA---AVEAG--GQAVIMAPIGILAQQHYEFIKK----YTQNTQIIVEIITG------NMPQ 361 (700) Q Consensus 297 LLQGDVGSGKTiVA~~A~l~---~~~~G--~Q~alMaPTEILA~QH~~~~~~----~~~~~~i~v~lLtg------~~~~ 361 (700) +|+-=.|+|||..|++=+.. .++++ -.+.+.-||-..++--|+.+++ +|+.=+ .+.++.| +..- T Consensus 3 v~~APTG~GKTe~aL~~A~~sah~~k~~~~~~~I~alP~r~~~na~~~r~~~sash~Fg~P~-~~~~~~ssrfnh~~~~i 81 (424) T TIGR01587 3 VIEAPTGYGKTEAALLWALKSAHLIKKQKADKVIFALPTRVTINAMYRRLKESASHLFGSPE-LVLLLHSSRFNHLASSI 81 (424) T ss_pred EEECCCCCCHHHHHHHHHHHHHHHHHHHHHCCEEEECCHHHHHHHHHHHHHHHHHHHCCCCC-CCCCCCCCHHHHHHHHH T ss_conf 88617899878999999986366642244401012202688899999999986775417854-32334552267899999 Q ss_pred HHH-----------HHHHHHHCCCCC-----EEEEEC--HHHCCC------CCCCC-------CCCEEEECCCCCCCHHH Q ss_conf 566-----------768776213475-----486411--120133------45544-------44178852101335688 Q gi|254780945|r 362 AHR-----------RKALERIAHGQA-----HIIIGT--HALFQD------SIQYY-------KLILVIVDEQHRFGVQQ 410 (700) Q Consensus 362 ~er-----------~~i~~~i~~G~~-----~iiIGT--HAL~q~------~v~F~-------~LgLvViDEQHRFGV~Q 410 (700) +-| ..++.....+.. .|=|-| |.+..- .+.+. ...++|+||=|=.--.- T Consensus 82 k~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~pi~~~T~d~~~~~~~~~ssGs~~~~~~~~~~~~~S~~i~DE~h~y~~~~ 161 (424) T TIGR01587 82 KLRKIKEKGDSEELEKLVKLYIHSNKKLFLKPITVCTIDQVLKSVFGESSGSFGHYEITLASIANSLIIFDEVHAYEEYT 161 (424) T ss_pred HHHHHHCCCCHHHHHHHHHHHCCCCHHEEECCCCCCCHHHHHEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 98776304782799999985224212101317885341220000005534452056888877776765625367776425 Q ss_pred HHH-HH-----HC-CCCCCCEEECHHHHHHH---HHHHHHHCCCHHHHCCCCCCCCCCE--------------------- Q ss_conf 998-74-----02-56776101010132278---9999752010111102355766620--------------------- Q gi|254780945|r 411 RLK-LT-----QK-ATAPHVLLMTATPIPRT---LVLTSLGDIDISKITEKPAGRKPIK--------------------- 459 (700) Q Consensus 411 R~~-L~-----~K-g~~ph~L~MtATPIPRT---Lal~~ygdldvS~i~e~P~gR~~I~--------------------- 459 (700) +.. +. -| -...-+|+|||| +||- +=...+-+++.-.=.+.|+ ++++. T Consensus 162 ~~~~~l~~L~~~~~~~~~~~~lMsAT-lP~~~~~~l~~~~~~~~~~~~~~~~~-~~~~~GvnGaqrfdllahPe~~~~r~ 239 (424) T TIGR01587 162 LALTILAALEVLKIDNDVKILLMSAT-LPRELKKFLKEYLEKIEYVEENELLD-LKEVEGVNGAQRFDLLAHPEFKEKRF 239 (424) T ss_pred HHHHHHHHHHHHHHHCCCCEEEEECC-CCHHHHHHHHHHHHCCCCCCCCCCCC-CCCCCCCCCHHHHHHHCCCHHHHHHH T ss_conf 55569999999998738988998405-67578999998731047633335578-66435464202333321720210022 Q ss_pred ---EEEEECC---CHHHHHHHH-HHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCC--CEECCCCCCCHH-- Q ss_conf ---7999702---002689999-76310387389997120122111210146666666866371--031201469989-- Q gi|254780945|r 460 ---TVIIPIN---RIDEVIERL-KVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTS--SIAIIHGRMSDI-- 528 (700) Q Consensus 460 ---T~~~~~~---~~~~~~~~i-~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~--~v~~lHGkm~~~-- 528 (700) -.++..+ .--..++.+ -+.+.++.++.|||-.| ..|.+.|+.+++.-|. .|-|+|||++.. T Consensus 240 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~NtV--------~~A~~~Y~~~kE~~p~~~~~~L~HsRF~~~DR 311 (424) T TIGR01587 240 ENHRISLIEKDKVGEISSLERLLLEELKKGGKVLIIVNTV--------DRAQEFYQKLKEKAPELEEVILLHSRFTEKDR 311 (424) T ss_pred HCCCCCHHHHHCCCCHHHHHHHHHHHCCCCCCEEEEEECH--------HHHHHHHHHHHHCCCCCCCEEEEECCCCHHHH T ss_conf 1576421343203313466667787415778669998543--------89999999985126520021244044770036 Q ss_pred -HHH---HHHHHHHC-----CCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCC-CCCCE-----EEE Q ss_conf -999---99999755-----9869999800341046888765899858525474688773011667-89835-----999 Q gi|254780945|r 529 -DKE---SVMDSFKN-----GTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGR-GEEIS-----SCI 593 (700) Q Consensus 529 -ek~---~~m~~F~~-----g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGR-g~~~s-----~c~ 593 (700) +|| +.|++|.+ ++--|+|+|.|||||||+ .+.+||=|.| -+.-|-|==|||-| |.+-+ --| T Consensus 312 ~~KEde~~~l~e~~~S~~~~~~~~v~V~TQv~E~SlD~-s~D~~iTe~a---P~d~LiQR~GR~~R~~~~~~d~~~~~~y 387 (424) T TIGR01587 312 AKKEDEAELLKELKKSAWKDNEKFVIVATQVIEVSLDI-SVDVMITELA---PIDSLIQRLGRLNRYGRKIGDIENREVY 387 (424) T ss_pred HHHHHHHHHHHHHHCCCCCCCCCEEEEEEEEEEEEEEC-CCCHHHHHCC---CHHHHHHHHHHHCCCCCCCCCCCCCCEE T ss_conf 67767999999851013544577069987878886420-4441343115---0123355421110113565788987203 Q ss_pred EEECCC Q ss_conf 970888 Q gi|254780945|r 594 LLYHPP 599 (700) Q Consensus 594 l~~~~~ 599 (700) .++..+ T Consensus 388 ~~~~~~ 393 (424) T TIGR01587 388 ILTILL 393 (424) T ss_pred EEEECC T ss_conf 785257 No 73 >KOG0340 consensus Probab=99.43 E-value=4.1e-10 Score=98.94 Aligned_cols=319 Identities=19% Similarity=0.277 Sum_probs=200.6 Q ss_pred HHHHHHHHHCC-CCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHH---HHHCCEEEEEHHHHHHH Q ss_conf 78999986302-467988999999999841001343078862144223699999973344---43054588612799999 Q gi|254780945|r 260 KIAQKILRNIP-FSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAV---EAGGQAVIMAPIGILAQ 335 (700) Q Consensus 260 ~~~~~f~~~LP-F~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~---~~G~Q~alMaPTEILA~ 335 (700) .|.-+-++.|. .+.|.=|+.+|-.|++--. -|=..-.|||||.-.++-++.-. -+|.=+.++.||-=||- T Consensus 16 ~Wlve~l~~l~i~~pTpiQ~~cIpkILeGrd------cig~AkTGsGKT~AFaLPil~rLsedP~giFalvlTPTrELA~ 89 (442) T KOG0340 16 PWLVEQLKALGIKKPTPIQQACIPKILEGRD------CIGCAKTGSGKTAAFALPILNRLSEDPYGIFALVLTPTRELAL 89 (442) T ss_pred HHHHHHHHHHCCCCCCCHHHHHHHHHHCCCC------CCCCCCCCCCCCHHHHHHHHHHHCCCCCCCEEEEECCHHHHHH T ss_conf 8999999983588998267652487854663------1031346887411222787776133887606999545288888 Q ss_pred HHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHH----CCC-----CCCCCCCCEEEECCCCCC Q ss_conf 99986211014578658996246422566768776213475486411120----133-----455444417885210133 Q gi|254780945|r 336 QHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHAL----FQD-----SIQYYKLILVIVDEQHRF 406 (700) Q Consensus 336 QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL----~q~-----~v~F~~LgLvViDEQHRF 406 (700) |..+.|.-+=..++++++...|.+..-.-.. .-+-.+++||-|--= +.. .-.|+++-..|+||--|- T Consensus 90 QiaEQF~alGk~l~lK~~vivGG~d~i~qa~----~L~~rPHvVvatPGRlad~l~sn~~~~~~~~~rlkflVlDEADrv 165 (442) T KOG0340 90 QIAEQFIALGKLLNLKVSVIVGGTDMIMQAA----ILSDRPHVVVATPGRLADHLSSNLGVCSWIFQRLKFLVLDEADRV 165 (442) T ss_pred HHHHHHHHHCCCCCCEEEEEECCHHHHHHHH----HCCCCCCEEECCCCCCCCCCCCCCCCCHHHHHCEEEEEECCHHHH T ss_conf 8889999845645632799975688764544----426698757517633354112687655255530046774130265 Q ss_pred CHHHHHHHHHC----CCCC-CCEEECHHHHHHHHHHHHHHCCCHHHHCCCCCCCCCCEEEEEECCCHHHHHHHHHHHHCC Q ss_conf 56889987402----5677-610101013227899997520101111023557666207999702002689999763103 Q gi|254780945|r 407 GVQQRLKLTQK----ATAP-HVLLMTATPIPRTLVLTSLGDIDISKITEKPAGRKPIKTVIIPINRIDEVIERLKVVLSE 481 (700) Q Consensus 407 GV~QR~~L~~K----g~~p-h~L~MtATPIPRTLal~~ygdldvS~i~e~P~gR~~I~T~~~~~~~~~~~~~~i~~~l~~ 481 (700) =-.+=..-.+- -+.| ..|..||| |--|+ +.+...|. ++++ -+..+...-.. +-+.|. T Consensus 166 L~~~f~d~L~~i~e~lP~~RQtLlfSAT-itd~i----------~ql~~~~i-~k~~-a~~~e~~~~vs----tvetL~- 227 (442) T KOG0340 166 LAGCFPDILEGIEECLPKPRQTLLFSAT-ITDTI----------KQLFGCPI-TKSI-AFELEVIDGVS----TVETLY- 227 (442) T ss_pred HCCCHHHHHHHHHCCCCCCCCEEEEEEE-HHHHH----------HHHHCCCC-CCCC-CEEEECCCCCC----CHHHHH- T ss_conf 4156056776665048876433799866-36579----------98636874-5550-26885269987----254552- Q ss_pred CCEEEEEECCC-----------CCCC--CCC---CCHHHHHHHHHHHHCCC---CEECCCCCCCHHHHHHHHHHHHCCCE Q ss_conf 87389997120-----------1221--112---10146666666866371---03120146998999999999755986 Q gi|254780945|r 482 GKKAYWICPQI-----------EEKK--ESN---FRSVVERFNSLHEHFTS---SIAIIHGRMSDIDKESVMDSFKNGTC 542 (700) Q Consensus 482 g~q~y~VcPlI-----------eese--~~~---~~~~~~~~~~l~~~~~~---~v~~lHGkm~~~ek~~~m~~F~~g~~ 542 (700) |-|+.||-= ..++ +.. ..+-+..++.|.-.+.. +|+-+|+.|...|.-..+.+|+++.+ T Consensus 228 --q~yI~~~~~vkdaYLv~~Lr~~~~~~~~simIFvnttr~cQ~l~~~l~~le~r~~~lHs~m~Q~eR~~aLsrFrs~~~ 305 (442) T KOG0340 228 --QGYILVSIDVKDAYLVHLLRDFENKENGSIMIFVNTTRECQLLSMTLKNLEVRVVSLHSQMPQKERLAALSRFRSNAA 305 (442) T ss_pred --HHEEECCHHHHHHHHHHHHHHHHHCCCCEEEEEEEHHHHHHHHHHHHHHHCEEEEEHHHCCHHHHHHHHHHHHHHCCC T ss_conf --022205444567889987752221357608999604689999999996303445431100508889989987762674 Q ss_pred EEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHH Q ss_conf 99998003410468887658998585254746887730116678983599997088899879999999984 Q gi|254780945|r 543 KLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILLYHPPLSKNSYTRLSVLKN 613 (700) Q Consensus 543 ~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~~~~~~~~~~Rl~~l~~ 613 (700) +||+||-|---|.|+|...+.|=++--|=-=--.|- -||-.|-+..|..+=+. ++..-+++.++++ T Consensus 306 ~iliaTDVAsRGLDIP~V~LVvN~diPr~P~~yiHR-vGRtARAGR~G~aiSiv----t~rDv~l~~aiE~ 371 (442) T KOG0340 306 RILIATDVASRGLDIPTVELVVNHDIPRDPKDYIHR-VGRTARAGRKGMAISIV----TQRDVELLQAIEE 371 (442) T ss_pred CEEEEECHHHCCCCCCCEEEEEECCCCCCHHHHHHH-HCCHHCCCCCCCEEEEE----CHHHHHHHHHHHH T ss_conf 089973134327898844678706889987888876-03012056776428986----2422799999999 No 74 >cd04488 RecG_wedge_OBF RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a four-stranded (Holliday) junction in vivo and in vitro. This interconversion provides a route to repair stalled forks. The RecG monomer contains three domains. The N-terminal domain is named for its wedge structure, and may provide the specificity of RecG for binding branched-DNA structures. During the reversal of fork to Holliday junction, the wedge domain is fixed at the junction of the fork where the leading and lagging strand duplex arms meet, and is thought to promote the unwinding of the nascent leading and lagging strands. In order to form the Holliday junction, these nascent strands would be annealed, and the parental strands reannealed. The wedge domain may also be a processivity factor of RecG on these branched cha Probab=99.42 E-value=3.5e-12 Score=115.13 Aligned_cols=74 Identities=34% Similarity=0.623 Sum_probs=68.6 Q ss_pred EEEEEEEEEEEECCCCCCEEEEEEECCCCEEEEEEECCCHHHHHHHCCCCCEEEEEEEEEECCCEEEEECCEEEE Q ss_conf 999999897542158983389999818936999995188789987328988899998997318779997786896 Q gi|254780945|r 71 TITGYISQHSSFQLQKRRPYKILLNDGTGEITLLFFYRKTEMLKNVFFEGRKITVTGKIKKLKNRIIMVHPHYIF 145 (700) Q Consensus 71 ti~g~V~~~~~~~~~~r~~~~v~v~D~tg~i~lvfFn~~~~yl~k~lk~G~~v~vsGKv~~~~~~~qi~hPe~~~ 145 (700) |+.|+|.++...+.++++++++.+.|++|.++++|||. .+|+++.|++|++++++||++.+++.+||+||+|+. T Consensus 1 ti~g~I~~~~~~~~~~r~~l~~~v~D~tg~i~l~~Fn~-~~~~~~~~~~G~~v~v~Gkv~~~~~~~q~~hP~~~~ 74 (75) T cd04488 1 TVEGTVVSVEVVPRRGRRRLKVTLSDGTGTLTLVFFNF-QPYLKKQLPPGTRVRVSGKVKRFRGGLQIVHPEYEL 74 (75) T ss_pred CEEEEEEEEEEECCCCCEEEEEEEEECCCEEEEEEECC-CHHHHHHCCCCCEEEEEEEEEECCCEEEEECCCEEE T ss_conf 99999999885458997089999996998899999899-779995388999999999997139999997997996 No 75 >KOG0327 consensus Probab=99.42 E-value=7.4e-11 Score=104.71 Aligned_cols=293 Identities=23% Similarity=0.359 Sum_probs=198.1 Q ss_pred CCCC-CCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHH---HHHCCEEEEEHHHHHHHHHHHHHHHH Q ss_conf 0246-7988999999999841001343078862144223699999973344---43054588612799999999862110 Q gi|254780945|r 269 IPFS-PTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAV---EAGGQAVIMAPIGILAQQHYEFIKKY 344 (700) Q Consensus 269 LPF~-LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~---~~G~Q~alMaPTEILA~QH~~~~~~~ 344 (700) ..|+ ++.=|++||--|..- -+-..|-+-|+|||.....+++.-+ ..--||.++|||-.||.|-++....+ T Consensus 44 ~GFekPSaIQqrAI~p~i~G------~dv~~qaqsgTgKt~af~i~ilq~iD~~~ke~qalilaPtreLa~q~~~v~~~l 117 (397) T KOG0327 44 YGFEKPSAIQQRAILPCIKG------HDVIAQAQSGTGKTAAFLISILQQIDMSVKETQALILAPTRELAQQIQKVVRAL 117 (397) T ss_pred HCCCCCHHHHHCCCCCCCCC------CCEEEEEECCCCCHHHHHHHHHHHCCCCHHHHHHHHHCCHHHHHHHHHHHHHHH T ss_conf 03688227776343553468------744676302544114667888751374167777988613278889899998864 Q ss_pred CCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECH----HHCCCC-CCCCCCCEEEECCC---CCCCH-HHHHHHH Q ss_conf 145786589962464225667687762134754864111----201334-55444417885210---13356-8899874 Q gi|254780945|r 345 TQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTH----ALFQDS-IQYYKLILVIVDEQ---HRFGV-QQRLKLT 415 (700) Q Consensus 345 ~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTH----AL~q~~-v~F~~LgLvViDEQ---HRFGV-~QR~~L~ 415 (700) ....+++|..++|.+.-.... ..++.-.+.|++||- -.++.. +.-++.-+.|.||- --+|. +|=..+. T Consensus 118 g~~~~~~v~~~igg~~~~~~~---~~i~~~~~hivvGTpgrV~dml~~~~l~~~~iKmfvlDEaDEmLs~gfkdqI~~if 194 (397) T KOG0327 118 GDHMDVSVHACIGGTNVRRED---QALLKDKPHIVVGTPGRVFDMLNRGSLSTDGIKMFVLDEADEMLSRGFKDQIYDIF 194 (397) T ss_pred HCCCCEEEEEECCCCCCHHHH---HHHHCCCCEEECCCCHHHHHHHCCCCCCCCCEEEEEECCHHHHHCCCHHHHHHHHH T ss_conf 112461466531764100345---55520476354378505777641364566654677524367663056489999999 Q ss_pred -HCCCCCCCEEECHHHHHHHHHHHHHHCCCHHHHCCCCCCCCCCEEEEEEC-----------------CCHHHHHHHHHH Q ss_conf -02567761010101322789999752010111102355766620799970-----------------200268999976 Q gi|254780945|r 416 -QKATAPHVLLMTATPIPRTLVLTSLGDIDISKITEKPAGRKPIKTVIIPI-----------------NRIDEVIERLKV 477 (700) Q Consensus 416 -~Kg~~ph~L~MtATPIPRTLal~~ygdldvS~i~e~P~gR~~I~T~~~~~-----------------~~~~~~~~~i~~ 477 (700) .-+.+.-+++.|||=-+--|-.+- -..|-||.+.+-.. ++.+-+.++.+ T Consensus 195 ~~lp~~vQv~l~SAT~p~~vl~vt~------------~f~~~pv~i~vkk~~ltl~gikq~~i~v~k~~k~~~l~dl~~- 261 (397) T KOG0327 195 QELPSDVQVVLLSATMPSDVLEVTK------------KFMREPVRILVKKDELTLEGIKQFYINVEKEEKLDTLCDLYR- 261 (397) T ss_pred HHCCCCHHHEEECCCCCHHHHHHHH------------HHCCCCEEEEECCHHHHHHHEEEEEEECCCCCCCCHHHHHHH- T ss_conf 8759432201001368588999988------------740475689952002012220022201054311227999998- Q ss_pred HHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCC Q ss_conf 31038738999712012211121014666666686637103120146998999999999755986999980034104688 Q gi|254780945|r 478 VLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDV 557 (700) Q Consensus 478 ~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdv 557 (700) +-.|+-+.|--. .-+.+....| ..++-++..+||-|...+.+.+|..|++|+..+|+.|..---|+|| T Consensus 262 ---~~~q~~if~nt~--------r~v~~l~~~L-~~~~~~~s~i~~d~~q~~R~~~~~~f~~g~srvlIttdl~argidv 329 (397) T KOG0327 262 ---RVTQAVIFCNTR--------RKVDNLTDKL-RAHGFTVSAIHGDMEQNERDTLMREFRSGSSRVLITTDLLARGIDV 329 (397) T ss_pred ---HHHCCEEEECCH--------HHHHHHHHHH-HHCCCEEEEEECCCCHHHHHHHHHHHHCCCCEEEEECCCCCCCCCH T ss_conf ---643105785104--------5677789998-6277337876346430034689998645872377412212465411 Q ss_pred CCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEE Q ss_conf 876589985852547468877301166789835999970 Q gi|254780945|r 558 VDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILLY 596 (700) Q Consensus 558 pna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~ 596 (700) -+.+..|-+++-.=--+=.|- -||-||=+.+|..+=+. T Consensus 330 ~~~slvinydlP~r~~~yihR-~gr~gr~grkg~~in~v 367 (397) T KOG0327 330 QQVSLVVNYDLPARKENYIHR-IGRAGRFGRKGVAINFV 367 (397) T ss_pred HHCCEEEEECCCCCHHHHHHH-CCCCCCCCCCCEEEEEE T ss_conf 101225650165206666652-55456567771355520 No 76 >KOG0351 consensus Probab=99.40 E-value=6.3e-10 Score=97.42 Aligned_cols=319 Identities=24% Similarity=0.322 Sum_probs=211.7 Q ss_pred CCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEE Q ss_conf 79889999999998410013430788621442236999999733444305458861279999999986211014578658 Q gi|254780945|r 273 PTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIV 352 (700) Q Consensus 273 LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v 352 (700) .-..|.+||.-+.. ....+ +-==.|.||-+-+-+- |+-.+.=..+..|=+=|-+-. ...+ .+.+|+. T Consensus 265 FR~~Q~eaI~~~l~---Gkd~f---vlmpTG~GKSLCYQlP---A~l~~gitvVISPL~SLm~DQ---v~~L-~~~~I~a 331 (941) T KOG0351 265 FRPNQLEAINATLS---GKDCF---VLMPTGGGKSLCYQLP---ALLLGGVTVVISPLISLMQDQ---VTHL-SKKGIPA 331 (941) T ss_pred CCHHHHHHHHHHHC---CCCEE---EEEECCCCEEEEEECC---CCCCCCCEEEECCHHHHHHHH---HHHH-HHCCCCE T ss_conf 88439999999974---88469---9953488625676666---101389369963389999999---9743-2148541 Q ss_pred EEEECCCCHHHHHHHHHHHCCC--CCEEEEECH-------HHCCCCCCCCC---CCEEEECCCCC---CCHHHH-----H Q ss_conf 9962464225667687762134--754864111-------20133455444---41788521013---356889-----9 Q gi|254780945|r 353 EIITGNMPQAHRRKALERIAHG--QAHIIIGTH-------ALFQDSIQYYK---LILVIVDEQHR---FGVQQR-----L 412 (700) Q Consensus 353 ~lLtg~~~~~er~~i~~~i~~G--~~~iiIGTH-------AL~q~~v~F~~---LgLvViDEQHR---FGV~QR-----~ 412 (700) ..|+|.++..++..+++.|++| .++|+-=|- .+.+..-.-.. |++.||||-|= +|=.=| . T Consensus 332 ~~L~s~q~~~~~~~i~q~l~~~~~~ikilYvtPE~v~~~~~l~~~~~~L~~~~~lal~vIDEAHCVSqWgHdFRp~Yk~l 411 (941) T KOG0351 332 CFLSSIQTAAERLAILQKLANGNPIIKILYVTPEKVVASEGLLESLADLYARGLLALFVIDEAHCVSQWGHDFRPSYKRL 411 (941) T ss_pred EECCCCCCHHHHHHHHHHHHCCCCEEEEEEECHHHHHCCCCHHHHHHHCCCCCEEEEEEECHHHHHHHHCCCCCHHHHHH T ss_conf 32356566888999999985788767899967788633321566787506787048887227887664223334778999 Q ss_pred -HHHHCCCCCCCEEECHHHHHHHH--HHHHHHCCCHHHHCCCCCCCCCCEEEEEECCCHHHHHHHHHH-HHCCCCEEEEE Q ss_conf -87402567761010101322789--999752010111102355766620799970200268999976-31038738999 Q gi|254780945|r 413 -KLTQKATAPHVLLMTATPIPRTL--VLTSLGDIDISKITEKPAGRKPIKTVIIPINRIDEVIERLKV-VLSEGKKAYWI 488 (700) Q Consensus 413 -~L~~Kg~~ph~L~MtATPIPRTL--al~~ygdldvS~i~e~P~gR~~I~T~~~~~~~~~~~~~~i~~-~l~~g~q~y~V 488 (700) .|..+-...-++.+|||-=||+- .+...|--..-++... ++|....=.|......+.++..... ......|.-|| T Consensus 412 ~~l~~~~~~vP~iALTATAT~~v~~DIi~~L~l~~~~~~~~s-fnR~NL~yeV~~k~~~~~~~~~~~~~~~~~~~~s~II 490 (941) T KOG0351 412 GLLRIRFPGVPFIALTATATERVREDVIRSLGLRNPELFKSS-FNRPNLKYEVSPKTDKDALLDILEESKLRHPDQSGII 490 (941) T ss_pred HHHHHHCCCCCEEEEEHHCCHHHHHHHHHHHCCCCCCEECCC-CCCCCCEEEEEECCCCCCHHHHHHHHHHCCCCCCEEE T ss_conf 999852789976875300208899999998278886322256-7998855999856675316889887651289998379 Q ss_pred ECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECH Q ss_conf 71201221112101466666668663710312014699899999999975598699998003410468887658998585 Q gi|254780945|r 489 CPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENA 568 (700) Q Consensus 489 cPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~a 568 (700) |=+ | -.+.+.....|++. +-+-+-.|.-|.+.+++.|-.+|..++++|.|||----.|||.|+....+= T Consensus 491 YC~---s----r~~ce~vs~~L~~~-~~~a~~YHAGl~~~~R~~Vq~~w~~~~~~VivATVAFGMGIdK~DVR~ViH--- 559 (941) T KOG0351 491 YCL---S----RKECEQVSAVLRSL-GKSAAFYHAGLPPKERETVQKAWMSDKIRVIVATVAFGMGIDKPDVRFVIH--- 559 (941) T ss_pred EEC---C----CCHHHHHHHHHHHH-CHHHHHHHCCCCHHHHHHHHHHHHCCCCEEEEEEEECCCCCCCCCEEEEEE--- T ss_conf 968---8----23199999999873-520575526788788899999985688708999852247877786359997--- Q ss_pred HHCCHHH----HHHHHHCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHC-HHHHHHH Q ss_conf 2547468----8773011667898359999708889987999999998414-2589999 Q gi|254780945|r 569 EHFGLAQ----LHQLRGRVGRGEEISSCILLYHPPLSKNSYTRLSVLKNTE-DGFLIAE 622 (700) Q Consensus 569 erfGLsq----LHQLRGRVGRg~~~s~c~l~~~~~~~~~~~~Rl~~l~~~~-dGf~iAe 622 (700) |+|-. -+|==||-||-+.+|+|.|+|+.. ...|++-|..+. +++..-+ T Consensus 560 --~~lPks~E~YYQE~GRAGRDG~~s~C~l~y~~~----D~~~l~~ll~s~~~~~~~~~ 612 (941) T KOG0351 560 --YSLPKSFEGYYQEAGRAGRDGLPSSCVLLYGYA----DISELRRLLTSGNRLSGVKK 612 (941) T ss_pred --CCCCHHHHHHHHHCCCCCCCCCCCEEEEECCHH----HHHHHHHHHHCCCCCCCHHH T ss_conf --778614788887403367678800267742613----78999999872653101121 No 77 >TIGR01054 rgy reverse gyrase; InterPro: IPR005736 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis , . DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA . Type I topoisomerases are ATP-independent enzymes (except for reverse gyrase), and can be subdivided according to their structure and reaction mechanisms: type IA (bacterial and archaeal topoisomerase I, topoisomerase III and reverse gyrase) and type IB (eukaryotic topoisomerase I and topoisomerase V). These enzymes are primarily responsible for relaxing positively and/or negatively supercoiled DNA, except for reverse gyrase, which can introduce positive supercoils into DNA. Reverse gyrase is a type IA topoisomerase that is unique among these enzymes in its requirement for ATP. Reverse gyrase is a hyperthermophile-specific enzyme that acts as a renaturase by positively supercoiling DNA, and by annealing complementary single-strand circles . Hyperthermophilic organisms must protect themselves against heat-induced degradation, and reverse gyrase acts to reduce the rate of double-strand DNA breakage, a function that does not require ATP hydrolysis and which is independent of its positive supercoiling abilities. Reverse gyrase achieves this by recognising nicked DNA and recruiting a protein coat to the site of damage . More information about this protein can be found at Protein of the Month: DNA Topoisomerase .; GO: 0003677 DNA binding, 0003916 DNA topoisomerase activity, 0006265 DNA topological change, 0006268 DNA unwinding during replication, 0005694 chromosome. Probab=99.34 E-value=6.3e-10 Score=97.42 Aligned_cols=281 Identities=19% Similarity=0.264 Sum_probs=201.1 Q ss_pred HHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHH-HCCEEEEEHHHHHHHHHH Q ss_conf 7899998630246798899999999984100134307886214422369999997334443-054588612799999999 Q gi|254780945|r 260 KIAQKILRNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEA-GGQAVIMAPIGILAQQHY 338 (700) Q Consensus 260 ~~~~~f~~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~-G~Q~alMaPTEILA~QH~ 338 (700) ++.+=|.+.+.++|=..|+.=.+-|...-+ .. +--=.|=|||---+..++-.+.. |..|-+..||+.||+|-| T Consensus 72 ~f~~FF~~~~G~~pws~Qk~WAKRv~~~~S--Fa----i~APTGVGKttFG~~mslflA~kKGkR~y~ilPT~lLv~Qv~ 145 (1843) T TIGR01054 72 EFEEFFKKAVGSEPWSIQKSWAKRVLKGDS--FA----IVAPTGVGKTTFGLVMSLFLAKKKGKRSYIILPTTLLVKQVA 145 (1843) T ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHCCCC--EE----EECCCCCCHHHHHHHHHHHHHHHCCCEEEEEECHHHHHHHHH T ss_conf 999999997188843567999999641796--48----980588767799999999986542987899947078899999 Q ss_pred HHHHHHCCCCCCEEE----EEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCC-------CCCCCCCEEEECCCC--- Q ss_conf 862110145786589----962464225667687762134754864111201334-------554444178852101--- Q gi|254780945|r 339 EFIKKYTQNTQIIVE----IITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDS-------IQYYKLILVIVDEQH--- 404 (700) Q Consensus 339 ~~~~~~~~~~~i~v~----lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~-------v~F~~LgLvViDEQH--- 404 (700) +.++++-+..|+.+. ..+|.++.++|+++.++|.+|..+|+|+|.+=+++. ..|+ ||.||-== T Consensus 146 ~kl~~~~~k~g~~~~~l~~~yhS~L~~~~kke~~Eri~~GDfdilitT~~FL~K~~~~L~~~y~F~---liFVDDVDa~L 222 (1843) T TIGR01054 146 EKLSSLAEKEGVGIVRLLGAYHSKLSTKEKKEVKERIENGDFDILITTSMFLSKNFDKLKNQYKFD---LIFVDDVDALL 222 (1843) T ss_pred HHHHHHCCCCCCCCEEEEEEEECCCCHHHHHHHHHHHHCCCEEEEHHHHHHHHHHHHHCCCCCEEE---EEEEECHHHHH T ss_conf 998752002575000022210112654567889998731891786122468887665178985144---89971536763 Q ss_pred -----------------------------------------C----CCHHHHHHHHHC---------------CCCCCCE Q ss_conf -----------------------------------------3----356889987402---------------5677610 Q gi|254780945|r 405 -----------------------------------------R----FGVQQRLKLTQK---------------ATAPHVL 424 (700) Q Consensus 405 -----------------------------------------R----FGV~QR~~L~~K---------------g~~ph~L 424 (700) | -=-+||.++.+. |...-+. T Consensus 223 k~skNVD~~L~LlGF~eE~i~~a~~~i~L~~k~~k~~~~~~~~~~~~R~E~~~~~LE~~~r~~~~~a~~~~krGr~g~Li 302 (1843) T TIGR01054 223 KASKNVDKILKLLGFSEELIEKAYELIKLKLKENKLEEDLAREKIVVRLEARKKLLEAKRRLEKLEAEIKKKRGRKGVLI 302 (1843) T ss_pred HCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEE T ss_conf 16555667775517889999999999999887643577888888864678889999999998987764743248864699 Q ss_pred EECHHHHHHHHHHHHHHCC-CHHHHCCCCC-CCCCCEEEEEECCCHHHHHHH---HHHHHCCCCEEEEEECCCCCCCCCC Q ss_conf 1010132278999975201-0111102355-766620799970200268999---9763103873899971201221112 Q gi|254780945|r 425 LMTATPIPRTLVLTSLGDI-DISKITEKPA-GRKPIKTVIIPINRIDEVIER---LKVVLSEGKKAYWICPQIEEKKESN 499 (700) Q Consensus 425 ~MtATPIPRTLal~~ygdl-dvS~i~e~P~-gR~~I~T~~~~~~~~~~~~~~---i~~~l~~g~q~y~VcPlIeese~~~ 499 (700) +-|||==||.-=.-+|=.| +.-+=...-. =|-=|-++.-..+-..+-... +-+.+-.|+=||+ |-... T Consensus 303 vsSATG~prG~r~~LFR~LL~FevG~~~~~GLRnvvD~y~~~~d~v~E~~~~sve~v~~LG~GGlVyv-------s~~yG 375 (1843) T TIGR01054 303 VSSATGKPRGKRVKLFRELLGFEVGKGSDTGLRNVVDVYEEDEDGVKEKLLESVELVKKLGKGGLVYV-------SIDYG 375 (1843) T ss_pred EEECCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHCCCEEEEE-------ECCCC T ss_conf 98514888761336536552710057642233213885114888446889999999998479439997-------12225 Q ss_pred CCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECH----HHHCCCCCCCCC Q ss_conf 10146666666866371031201469989999999997559869999800----341046888765 Q gi|254780945|r 500 FRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATT----VIEVGIDVVDAS 561 (700) Q Consensus 500 ~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTt----viEVGvdvpna~ 561 (700) ...|++.++.|+++ +=+...+|-+- +.+-.++|..||+|+||.+. ++==|+|.|.-. T Consensus 376 ~e~a~ei~~~L~~~-Gv~A~~~~~~k----~~~~~~~F~~GE~dVliG~a~yyg~LVRGLDLP~rv 436 (1843) T TIGR01054 376 KEKAEEIKEFLREH-GVKAVAYHAKK----PKEDLEKFAEGEIDVLIGVASYYGVLVRGLDLPERV 436 (1843) T ss_pred HHHHHHHHHHHHHC-CCEEEEEEECC----CCCCHHHHHCCCEEEEEEEECCCCCEEECCCCCCHH T ss_conf 58999999999857-94799984037----732034663485136877101547635326661010 No 78 >KOG0346 consensus Probab=99.32 E-value=8.1e-10 Score=96.58 Aligned_cols=322 Identities=23% Similarity=0.318 Sum_probs=211.3 Q ss_pred HHHHHCCCC-CCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHH---------HHHCCEEEEEHHHHH Q ss_conf 998630246-7988999999999841001343078862144223699999973344---------430545886127999 Q gi|254780945|r 264 KILRNIPFS-PTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAV---------EAGGQAVIMAPIGIL 333 (700) Q Consensus 264 ~f~~~LPF~-LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~---------~~G~Q~alMaPTEIL 333 (700) +-+..|.|+ .|-=|..||-=+.+. . +-+-+.-.|||||.-+++.++.-+ +.|--+.++|||-=| T Consensus 32 kAi~~lG~ekpTlIQs~aIplaLEg---K---DvvarArTGSGKT~AYliPllqkll~~k~t~~~e~~~sa~iLvPTkEL 105 (569) T KOG0346 32 KAITKLGWEKPTLIQSSAIPLALEG---K---DVVARARTGSGKTAAYLIPLLQKLLAEKKTNDGEQGPSAVILVPTKEL 105 (569) T ss_pred HHHHHHCCCCCCHHHHCCCCHHHCC---C---CEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEECHHHH T ss_conf 9999717677623443221243248---6---314652268871378899999999976403643246306999250999 Q ss_pred HHHHHHHHHHHCCCC--CCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHH----HCCCCC--CCCCCCEEEECCCC- Q ss_conf 999998621101457--865899624642256676877621347548641112----013345--54444178852101- Q gi|254780945|r 334 AQQHYEFIKKYTQNT--QIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHA----LFQDSI--QYYKLILVIVDEQH- 404 (700) Q Consensus 334 A~QH~~~~~~~~~~~--~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHA----L~q~~v--~F~~LgLvViDEQH- 404 (700) |+|-|.-+.++-.-. .+++.-++++++...-.. .-.+.++|||||-| .++.++ .-..|.+.|+||-- T Consensus 106 ~qQvy~viekL~~~c~k~lr~~nl~s~~sdsv~~~----~L~d~pdIvV~TP~~ll~~~~~~~~~~~~~l~~LVvDEADL 181 (569) T KOG0346 106 AQQVYKVIEKLVEYCSKDLRAINLASSMSDSVNSV----ALMDLPDIVVATPAKLLRHLAAGVLEYLDSLSFLVVDEADL 181 (569) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHH----HHCCCCCEEEECHHHHHHHHHHCCCHHHHHEEEEEECHHHH T ss_conf 99999999999998787655542103311677788----87059975871718899998606302120102578503566 Q ss_pred --CCCHHHHHHH-HHCC-CCCCCEEECHHHHHHHHHHH---HHHCCCHHHH--CCCCCCCCCCEEEEEECCC---HHHHH Q ss_conf --3356889987-4025-67761010101322789999---7520101111--0235576662079997020---02689 Q gi|254780945|r 405 --RFGVQQRLKL-TQKA-TAPHVLLMTATPIPRTLVLT---SLGDIDISKI--TEKPAGRKPIKTVIIPINR---IDEVI 472 (700) Q Consensus 405 --RFGV~QR~~L-~~Kg-~~ph~L~MtATPIPRTLal~---~ygdldvS~i--~e~P~gR~~I~T~~~~~~~---~~~~~ 472 (700) -||-+--.+= .+.= .....++||||-=----+|- +.+-.- -.+ .|+| +--...-+++.-+. .--+| T Consensus 182 llsfGYeedlk~l~~~LPr~~Q~~LmSATl~dDv~~LKkL~l~nPvi-Lkl~e~el~-~~dqL~Qy~v~cse~DKfllly 259 (569) T KOG0346 182 LLSFGYEEDLKKLRSHLPRIYQCFLMSATLSDDVQALKKLFLHNPVI-LKLTEGELP-NPDQLTQYQVKCSEEDKFLLLY 259 (569) T ss_pred HHHCCCHHHHHHHHHHCCCHHHHEEEHHHHHHHHHHHHHHHCCCCEE-EEECCCCCC-CCCCCEEEEEEECCCHHHHHHH T ss_conf 64236088899998748825650200313556799999975169768-983266689-8452258999703530688999 Q ss_pred HHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHH--HHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHH Q ss_conf 99976310387389997120122111210146666--6668663710312014699899999999975598699998003 Q gi|254780945|r 473 ERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERF--NSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTV 550 (700) Q Consensus 473 ~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~--~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtv 550 (700) ...+=++-+|.-..+| .++...| ..+-+.|+-+--+|.|.|...-.--|+++|..|-.||++||-+ T Consensus 260 allKL~LI~gKsliFV------------NtIdr~YrLkLfLeqFGiksciLNseLP~NSR~Hii~QFNkG~YdivIAtD~ 327 (569) T KOG0346 260 ALLKLRLIRGKSLIFV------------NTIDRCYRLKLFLEQFGIKSCILNSELPANSRCHIIEQFNKGLYDIVIATDD 327 (569) T ss_pred HHHHHHHHCCCEEEEE------------ECHHHHHHHHHHHHHHCCHHHHHCCCCCCCCHHHHHHHHHCCCEEEEEECCC T ss_conf 9999988627549998------------5002468899999980737665256466432122898860761159997067 Q ss_pred -----------------------------------HHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEE Q ss_conf -----------------------------------410468887658998585254746887730116678983599997 Q gi|254780945|r 551 -----------------------------------IEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILL 595 (700) Q Consensus 551 -----------------------------------iEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~ 595 (700) +--|||..+.++.+=.|--+=--|-.|- =||-+||+.+|..+=. T Consensus 328 s~~~~~~eee~kgk~~e~~~kndkkskkK~D~E~GVsRGIDF~~V~~VlNFD~P~t~~sYIHR-vGRTaRg~n~GtalSf 406 (569) T KOG0346 328 SADGDKLEEEVKGKSDEKNPKNDKKSKKKLDKESGVSRGIDFHHVSNVLNFDFPETVTSYIHR-VGRTARGNNKGTALSF 406 (569) T ss_pred CCCHHHHHCCCCCCCCCCCCCCCCCCCCCCCCHHCHHCCCCCHHEEEEEECCCCCCHHHHHHH-CCCCCCCCCCCCEEEE T ss_conf 641355521112544456887742124445701121216540121145613789854788886-1222347898725999 Q ss_pred ECCCCCHHHHHHHHHH Q ss_conf 0888998799999999 Q gi|254780945|r 596 YHPPLSKNSYTRLSVL 611 (700) Q Consensus 596 ~~~~~~~~~~~Rl~~l 611 (700) ..+. .+.+.+-|+-+ T Consensus 407 v~P~-e~~g~~~le~~ 421 (569) T KOG0346 407 VSPK-EEFGKESLESI 421 (569) T ss_pred ECCH-HHHHHHHHHHH T ss_conf 6646-77606679999 No 79 >PRK11131 ATP-dependent RNA helicase HrpA; Provisional Probab=99.30 E-value=5.6e-09 Score=89.98 Aligned_cols=288 Identities=19% Similarity=0.290 Sum_probs=176.3 Q ss_pred HHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEE--EEHHHHHHHHHHHHHHHHCC-CCCCEEEEEECC Q ss_conf 999984100134307886214422369999997334443054588--61279999999986211014-578658996246 Q gi|254780945|r 282 KDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVI--MAPIGILAQQHYEFIKKYTQ-NTQIIVEIITGN 358 (700) Q Consensus 282 ~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~al--MaPTEILA~QH~~~~~~~~~-~~~i~v~lLtg~ 358 (700) +||.+-+..+.-. .+.|+.|||||-=-=--++. ...|..+.+ -=|--|-|.--.+-+..-++ .+|-.|..-.. T Consensus 80 ~~i~~~i~~nqVv--ii~GeTGsGKTTQiPq~~le-~g~g~~~~I~~TQPRRiAA~svA~RVA~E~~~~lG~~VGY~VR- 155 (1295) T PRK11131 80 QDILEAIRDHQVV--IVAGETGSGKTTQLPKICLE-LGRGIKGLIGHTQPRRLAARTVANRIAEELETELGGCVGYKVR- 155 (1295) T ss_pred HHHHHHHHHCCEE--EEECCCCCCHHHHHHHHHHH-CCCCCCCEEEECCCHHHHHHHHHHHHHHHHCCCCCCEEEEEEC- T ss_conf 9999999979969--99768999878899999996-2799999899779659999999999999819998998888945- Q ss_pred CCHHHHHHHHHHHCCCCCEEEEECHHH----CCCCCCCCCCCEEEECCCCCCCHHHHH------HHHHCCCCCCCEEECH Q ss_conf 422566768776213475486411120----133455444417885210133568899------8740256776101010 Q gi|254780945|r 359 MPQAHRRKALERIAHGQAHIIIGTHAL----FQDSIQYYKLILVIVDEQHRFGVQQRL------KLTQKATAPHVLLMTA 428 (700) Q Consensus 359 ~~~~er~~i~~~i~~G~~~iiIGTHAL----~q~~v~F~~LgLvViDEQHRFGV~QR~------~L~~Kg~~ph~L~MtA 428 (700) +++-.+....|.+=|.-+ ++.+-..++-.-|||||=|-=.++-=. .+..+-..-.+++||| T Consensus 156 ---------f~~~~s~~t~i~~~TdGiLL~e~~~d~~L~~y~~iIiDEaHERsl~~D~LLg~Lk~ll~~R~dLKvIimSA 226 (1295) T PRK11131 156 ---------FNDQVSDNTMVKLMTDGILLAEIQQDRLLMQYDTIIIDEAHERSLNIDFILGYLKELLPRRPDLKVIITSA 226 (1295) T ss_pred ---------CCCCCCCCCEEEEECCHHHHHHHHHCCCCCCCCEEEEECCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECC T ss_conf ---------69887999779997656999986209987887779986855688019999999999983399988999558 Q ss_pred HHHHHHHHHHHHHCCCHHHHCCCCCCCC-CCEEEEEEC---------CCHHHHHHHHHHHHCCC-CEEEEEECCCCCCCC Q ss_conf 1322789999752010111102355766-620799970---------20026899997631038-738999712012211 Q gi|254780945|r 429 TPIPRTLVLTSLGDIDISKITEKPAGRK-PIKTVIIPI---------NRIDEVIERLKVVLSEG-KKAYWICPQIEEKKE 497 (700) Q Consensus 429 TPIPRTLal~~ygdldvS~i~e~P~gR~-~I~T~~~~~---------~~~~~~~~~i~~~l~~g-~q~y~VcPlIeese~ 497 (700) |-=+-..+- +||+-.+-. .| ||. ||.++..+. +....+++.+.+....| +-+-|-.|-.+ T Consensus 227 Tid~e~fs~-yF~~apvi~---v~-Gr~~PVev~y~p~~~~~~~~~~d~~~~i~~~v~~~~~~~~GdILVFLpG~~---- 297 (1295) T PRK11131 227 TIDPERFSR-HFNNAPIIE---VS-GRTYPVEVRYRPIVEEADDTERDQLQAIFDAVDELGRESPGDILIFMSGER---- 297 (1295) T ss_pred CCCHHHHHH-HCCCCCEEE---EC-CCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCEEEECCCHH---- T ss_conf 689799996-579999898---78-917886757636866544215899999999999985489987798669799---- Q ss_pred CCCCHHHHHHHHHHHH-CCC-CEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEEC-------- Q ss_conf 1210146666666866-371-031201469989999999997559869999800341046888765899858-------- Q gi|254780945|r 498 SNFRSVVERFNSLHEH-FTS-SIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIEN-------- 567 (700) Q Consensus 498 ~~~~~~~~~~~~l~~~-~~~-~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~-------- 567 (700) .+.+..+.|.+. +++ .|--|||+++++|...|++ -.|.-+|.+||.|-|..|.||+....|=-+ T Consensus 298 ----EI~~~~~~L~~~~~~~~~ilPL~s~ls~~eQ~~vF~--p~~~RkIVlaTNIAETSlTIp~I~yVIDsG~~k~~~y~ 371 (1295) T PRK11131 298 ----EIRDTADALNKLNLRHTEILPLYARLSNSEQNRVFQ--SHSGRRIVLATNVAETSLTVPGIKYVIDPGTARISRYS 371 (1295) T ss_pred ----HHHHHHHHHHHCCCCCCEEEECCCCCCHHHHHHHHC--CCCCCEEEEECCCCCCCCEECCEEEEEECCCEEEEEEC T ss_conf ----999999998614898876986557899999999848--89973389840520001000564899937840100475 Q ss_pred H---------HHCCHHHHHHHHHCCCCCCCCEEEEEEECC Q ss_conf 5---------254746887730116678983599997088 Q gi|254780945|r 568 A---------EHFGLAQLHQLRGRVGRGEEISSCILLYHP 598 (700) Q Consensus 568 a---------erfGLsqLHQLRGRVGRg~~~s~c~l~~~~ 598 (700) + +.---|+-.|=+||-||- .+|.||=+|+. T Consensus 372 ~~~~~~~L~~~~iSqAsA~QR~GRaGR~-~~G~C~RLyse 410 (1295) T PRK11131 372 YRTKVQRLPIEPISQASANQRKGRCGRV-SEGICIRLYSE 410 (1295) T ss_pred CCCCCCEEEEEEECHHHHHHHHHHHCCC-CCCEEEEEECH T ss_conf 7778664667870165698750540788-99539998359 No 80 >PRK04914 ATP-dependent helicase HepA; Validated Probab=99.29 E-value=2.1e-10 Score=101.13 Aligned_cols=318 Identities=21% Similarity=0.288 Sum_probs=176.8 Q ss_pred CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHH--CCEEEEEHHHHHHHHHHHHHHHHCCCCC Q ss_conf 67988999999999841001343078862144223699999973344430--5458861279999999986211014578 Q gi|254780945|r 272 SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAG--GQAVIMAPIGILAQQHYEFIKKYTQNTQ 349 (700) Q Consensus 272 ~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G--~Q~alMaPTEILA~QH~~~~~~~~~~~~ 349 (700) .|-.-|.-+..|+.+... =.-||--|||=||||=|.+-+-.-...| ..+.+++| +-|..|-...+...| + T Consensus 151 ~l~pHQ~~ia~~v~~r~~----PRvLLADEVGLGKTIEAGLIl~ell~rgra~RvLIvvP-~~L~~QW~~EL~~KF---~ 222 (955) T PRK04914 151 GLIPHQLYIAHEVGRRHA----PRVLLADEVGLGKTIEAGLIIHQQLLTGRAERVLIIVP-ETLQHQWLVEMLRRF---N 222 (955) T ss_pred CCCCHHHHHHHHHHHCCC----CCEEEECCCCCCHHHHHHHHHHHHHHCCCCCEEEEECC-HHHHHHHHHHHHHHC---C T ss_conf 656379999999971458----84897058888689999999999997487777999927-799899999999983---9 Q ss_pred CEEEEEECCCCHHHHHHHHHHHCCC------CCEEEEECHHHC-CCCCCCC-----CCCEEEECCCCCC-----CHHHHH Q ss_conf 6589962464225667687762134------754864111201-3345544-----4417885210133-----568899 Q gi|254780945|r 350 IIVEIITGNMPQAHRRKALERIAHG------QAHIIIGTHALF-QDSIQYY-----KLILVIVDEQHRF-----GVQQRL 412 (700) Q Consensus 350 i~v~lLtg~~~~~er~~i~~~i~~G------~~~iiIGTHAL~-q~~v~F~-----~LgLvViDEQHRF-----GV~QR~ 412 (700) +...++..+ | +.....+ .-+++|-..-.+ .++..+. .--||||||=|+- +..++- T Consensus 223 L~f~i~D~~-----r---~~~~~~~~~NpF~~~~~vI~Sld~l~~~~~~~e~l~~a~WDLVIVDEAHhL~~~~~~~s~~y 294 (955) T PRK04914 223 LRFSLFDEE-----R---CAEAQADADNPFETEQLVICSLDFLRKNKKRLEQALDAEWDLLVVDEAHHLVWSEEAPSREY 294 (955) T ss_pred CCCEEECCH-----H---HHHHHCCCCCCCCCCCEEEEEHHHHCCCHHHHHHHHCCCCCEEEEHHHHHHCCCCCCCCHHH T ss_conf 980995518-----8---88753357997545897998789960396789987338988899713445305887888799 Q ss_pred HHHHC--CCCCCCEEECHHHHH---HH----HHH---HHHHCCCHHH------------HCCCCCCCC------------ Q ss_conf 87402--567761010101322---78----999---9752010111------------102355766------------ Q gi|254780945|r 413 KLTQK--ATAPHVLLMTATPIP---RT----LVL---TSLGDIDISK------------ITEKPAGRK------------ 456 (700) Q Consensus 413 ~L~~K--g~~ph~L~MtATPIP---RT----Lal---~~ygdldvS~------------i~e~P~gR~------------ 456 (700) .+.+. ...+|+|.+||||.= .+ |.| ..|.|++.-. ++.++.+++ T Consensus 295 ~lve~La~~~~~lLLLTATP~QlG~e~~Fa~L~LLDPdrF~d~~~F~~e~~~y~~va~~v~~L~~~~~l~~~~~~~l~~~ 374 (955) T PRK04914 295 QVVEQLAEVIPGVLLLTATPEQLGQESHFARLRLLDPDRFHDYEAFVEEEQQYRPVADAVQALLDGEKLSDDALNALGEL 374 (955) T ss_pred HHHHHHHHHCCCEEEEECCCCCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHH T ss_conf 99999985159769984799889866689885277942115888899888755789999998631566888999999998 Q ss_pred -----------------------------------------------CCE--------EEEEE----------------- Q ss_conf -----------------------------------------------620--------79997----------------- Q gi|254780945|r 457 -----------------------------------------------PIK--------TVIIP----------------- 464 (700) Q Consensus 457 -----------------------------------------------~I~--------T~~~~----------------- 464 (700) .|. +.-++ T Consensus 375 l~e~~~~~l~~~~~~~~~~~~~~r~~li~~Lldr~gtgrvlfRntRa~v~gfp~R~l~~~~l~~~~~~~~~~~~~~~~~~ 454 (955) T PRK04914 375 LGEQDIEPLLQAINSDSEDAQAARQELISELLDRHGTGRVLFRNTRAAVKGFPKRELHPYPLPLPEQYQTAIRKSLEARA 454 (955) T ss_pred HHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHCCCHHHHHHCCCCCCCHHHHHHHHHHHHHHH T ss_conf 64411447898752144456999999999998623215777765677743165545310567871567876543232467 Q ss_pred -----------------------CCCHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECC Q ss_conf -----------------------020026899997631038738999712012211121014666666686637103120 Q gi|254780945|r 465 -----------------------INRIDEVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAII 521 (700) Q Consensus 465 -----------------------~~~~~~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~l 521 (700) ..+.+.+.+.++.. .+.++-|+|--. ..+....+.|+...+-++.+. T Consensus 455 ~~~l~~E~~~~~~~~~~~~~~~~D~rv~~Li~~Lk~~--~~eKvLVFte~~--------~Ta~~L~~~Lr~~~Gi~~avf 524 (955) T PRK04914 455 RDMLYPEQIYQEFEGDNATWWNFDPRVEWLIDFLKSH--RSEKVLVICAKA--------ETALQLEQALREREGIRAAVF 524 (955) T ss_pred HHHHCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHC--CCCCEEEEECCH--------HHHHHHHHHHHHHCCCCEEEE T ss_conf 8751735666545655655421388999999999857--798589996838--------999999999987559956997 Q ss_pred CCCCCHHHHHHHHHHHHCCC--EEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEE-EEEEECC Q ss_conf 14699899999999975598--69999800341046888765899858525474688773011667898359-9997088 Q gi|254780945|r 522 HGRMSDIDKESVMDSFKNGT--CKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISS-CILLYHP 598 (700) Q Consensus 522 HGkm~~~ek~~~m~~F~~g~--~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~-c~l~~~~ 598 (700) ||.|+..|++++...|.+.+ .+|||||-+-.-|+|.--|+.||-+|= =+--..|.|==|||-|=+...- .|-+ + T Consensus 525 h~gms~~ERdraaa~Fa~~e~gaqVLI~TEagsEG~NLQF~~~LVnyDL-PWNP~rLEQRIGRlDRiGQ~~dV~Ihv--p 601 (955) T PRK04914 525 HEGMSIIERDRAAAYFADEEDGAQVLLCSEIGSEGRNFQFASHLVLFDL-PFNPDLLEQRIGRLDRIGQKHDIQIHV--P 601 (955) T ss_pred ECCCCHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCHHHHHHHEECCC-CCCHHHHHHHHHHHHHCCCCCCEEEEE--E T ss_conf 0999989999999986176778519997252124503777435235258-987658899852065427867507986--2 Q ss_pred CCCHHHHHH--------HHHHHHHCHHH Q ss_conf 899879999--------99998414258 Q gi|254780945|r 599 PLSKNSYTR--------LSVLKNTEDGF 618 (700) Q Consensus 599 ~~~~~~~~R--------l~~l~~~~dGf 618 (700) -....+.+| |+++++++-+. T Consensus 602 y~~~s~q~~l~~wy~~gl~af~~~~~~g 629 (955) T PRK04914 602 YLEGTAQERLFRWYHEGLNAFEHTCPTG 629 (955) T ss_pred ECCCCHHHHHHHHHHHHHHHHHCCCCHH T ss_conf 0289889999999998888975569118 No 81 >KOG0337 consensus Probab=99.29 E-value=5e-10 Score=98.25 Aligned_cols=315 Identities=22% Similarity=0.244 Sum_probs=206.3 Q ss_pred CCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHC----CEEEEEHHH Q ss_conf 8775789999863024679889999999998410013430788621442236999999733444305----458861279 Q gi|254780945|r 256 NVEGKIAQKILRNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGG----QAVIMAPIG 331 (700) Q Consensus 256 ~~~~~~~~~f~~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~----Q~alMaPTE 331 (700) ..+-.....+.+.-==..|.=|.+.+.-|. ++..-.-|.| ||||||.-.++-|+..+.++- .+.++.||- T Consensus 27 gL~~~v~raI~kkg~~~ptpiqRKTipliL-e~~dvv~mar-----tgsgktaaf~ipm~e~Lk~~s~~g~Ralilsptr 100 (529) T KOG0337 27 GLDYKVLRAIHKKGFNTPTPIQRKTIPLIL-EGRDVVGMAR-----TGSGKTAAFLIPMIEKLKSHSQTGLRALILSPTR 100 (529) T ss_pred CCCHHHHHHHHHHHCCCCCCHHCCCCCCEE-ECCCCCEEEE-----CCCCCHHHHHHHHHHHHHHCCCCCCCEEECCCCH T ss_conf 878899999998623899841103442003-1452100552-----2786104678899999861364462024326708 Q ss_pred HHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEEC-----HHHCCCCCCCCCCCEEEECCCCC- Q ss_conf 999999986211014578658996246422566768776213475486411-----12013345544441788521013- Q gi|254780945|r 332 ILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGT-----HALFQDSIQYYKLILVIVDEQHR- 405 (700) Q Consensus 332 ILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGT-----HAL~q~~v~F~~LgLvViDEQHR- 405 (700) =||.|-+.-++.+-...+.++.|++|..+..|. +..|. +..||||.| |..-.-++..+..-+||.||--| T Consensus 101 eLa~qtlkvvkdlgrgt~lr~s~~~ggD~~eeq---f~~l~-~npDii~ATpgr~~h~~vem~l~l~sveyVVfdEadrl 176 (529) T KOG0337 101 ELALQTLKVVKDLGRGTKLRQSLLVGGDSIEEQ---FILLN-ENPDIIIATPGRLLHLGVEMTLTLSSVEYVVFDEADRL 176 (529) T ss_pred HHHHHHHHHHHHHCCCCCHHHHHHCCCCHHHHH---HHHHC-CCCCEEEECCCEEEEEEHHEECCCCCEEEEEEHHHHHH T ss_conf 899999999998515421121011263248899---99841-59987982485134200210012132256641013478 Q ss_pred CCH---HHHHHH-HHCCCCCCCEEECHHHHHHHHHHHHHHCCCHHHHCCCCCCCCCCEEEEEE----------CCCHHHH Q ss_conf 356---889987-40256776101010132278999975201011110235576662079997----------0200268 Q gi|254780945|r 406 FGV---QQRLKL-TQKATAPHVLLMTATPIPRTLVLTSLGDIDISKITEKPAGRKPIKTVIIP----------INRIDEV 471 (700) Q Consensus 406 FGV---~QR~~L-~~Kg~~ph~L~MtATPIPRTLal~~ygdldvS~i~e~P~gR~~I~T~~~~----------~~~~~~~ 471 (700) |.- +|=... ..-..+...|.|||| -||+|+=-.-..+.- .-.-|..|.|.+-. .++...+ T Consensus 177 femgfqeql~e~l~rl~~~~QTllfSat-lp~~lv~fakaGl~~-----p~lVRldvetkise~lk~~f~~~~~a~K~aa 250 (529) T KOG0337 177 FEMGFQEQLHEILSRLPESRQTLLFSAT-LPRDLVDFAKAGLVP-----PVLVRLDVETKISELLKVRFFRVRKAEKEAA 250 (529) T ss_pred HHHHHHHHHHHHHHHCCCCCEEEEEECC-CCHHHHHHHHCCCCC-----CCEEEEEHHHHCCHHHHHHEEEECCHHHHHH T ss_conf 7653689999998757776307998523-764467788706888-----7168740142105454514223061788999 Q ss_pred HHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHH Q ss_conf 99997631038738999712012211121014666666686637103120146998999999999755986999980034 Q gi|254780945|r 472 IERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVI 551 (700) Q Consensus 472 ~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtvi 551 (700) .-.+....-+..|.-+-||. .-..+....+-..++..+.-+-|.|+.+..-.-..+|..++..+||.|-|- T Consensus 251 Ll~il~~~~~~~~t~vf~~t---------k~hve~~~~ll~~~g~~~s~iysslD~~aRk~~~~~F~~~k~~~lvvTdva 321 (529) T KOG0337 251 LLSILGGRIKDKQTIVFVAT---------KHHVEYVRGLLRDFGGEGSDIYSSLDQEARKINGRDFRGRKTSILVVTDVA 321 (529) T ss_pred HHHHHHCCCCCCCEEEEECC---------CCHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHCCCCCCCCCCCEEEEEHHH T ss_conf 99998512566650698315---------304789887898639874411144586766504203467755259984233 Q ss_pred HCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEE Q ss_conf 104688876589985852547468877301166789835999970 Q gi|254780945|r 552 EVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILLY 596 (700) Q Consensus 552 EVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~ 596 (700) --|+|+|-....|=++---=+=-=+| ==|||.|-+..++.|=+. T Consensus 322 aRG~diplldnvinyd~p~~~klFvh-RVgr~aragrtg~aYs~V 365 (529) T KOG0337 322 ARGLDIPLLDNVINYDFPPDDKLFVH-RVGRVARAGRTGRAYSLV 365 (529) T ss_pred HCCCCCCCCCCCCCCCCCCCCCEEEE-EECCHHHCCCCCEEEEEE T ss_conf 33588765446564567998755888-712222145662379997 No 82 >KOG0950 consensus Probab=99.26 E-value=4.2e-10 Score=98.83 Aligned_cols=314 Identities=22% Similarity=0.339 Sum_probs=206.7 Q ss_pred HHHHHHHHHHHHHHCCCCCCEEEEEE-------CCCCCHHHHHHHHHHH-HHHHHCCEEEEEHHHHHHHHHHHHHHHHCC Q ss_conf 88999999999841001343078862-------1442236999999733-444305458861279999999986211014 Q gi|254780945|r 275 KSQESAIKDILQDMSQKNRMLRILQG-------DVGSGKTLVALIAMAA-AVEAGGQAVIMAPIGILAQQHYEFIKKYTQ 346 (700) Q Consensus 275 ~~Q~~ai~eI~~Dl~~~~pM~RLLQG-------DVGSGKTiVA~~A~l~-~~~~G~Q~alMaPTEILA~QH~~~~~~~~~ 346 (700) .++.+-+.....-..-..--.|+++| -.+.|||+||-+-|+. ++.-+.-+++..|-+--++-|-..+..++. T Consensus 215 ~~~~kgi~~~fewq~ecls~~~~~e~~nliys~Pts~gktlvaeilml~~~l~~rr~~llilp~vsiv~Ek~~~l~~~~~ 294 (1008) T KOG0950 215 YAKDKGILKLFEWQAECLSLPRLLERKNLIYSLPTSAGKTLVAEILMLREVLCRRRNVLLILPYVSIVQEKISALSPFSI 294 (1008) T ss_pred HHHHHHHHHHHHHHHHHHCCHHHHCCCCEEEECCCCCCHHHHHHHHHHHHHHHHHHCEEEECCEEEHHHHHHHHHHHHCC T ss_conf 98764489899999987146534235655885787640679999999999988742116742421025877764002203 Q ss_pred CCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEEC----HHHCC---CCCCCCCCCEEEECCCCCCCHHHHHHHHH--- Q ss_conf 578658996246422566768776213475486411----12013---34554444178852101335688998740--- Q gi|254780945|r 347 NTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGT----HALFQ---DSIQYYKLILVIVDEQHRFGVQQRLKLTQ--- 416 (700) Q Consensus 347 ~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGT----HAL~q---~~v~F~~LgLvViDEQHRFGV~QR~~L~~--- 416 (700) ++|++|+--.|+.+...+.+-. .+.|-| +.|+. +.=.-.-+|+|||||-|=||=.-|..+.+ T Consensus 295 ~~G~~ve~y~g~~~p~~~~k~~--------sv~i~tiEkanslin~lie~g~~~~~g~vvVdElhmi~d~~rg~~lE~~l 366 (1008) T KOG0950 295 DLGFPVEEYAGRFPPEKRRKRE--------SVAIATIEKANSLINSLIEQGRLDFLGMVVVDELHMIGDKGRGAILELLL 366 (1008) T ss_pred CCCCCCHHHCCCCCCCCCCCCE--------EEEEEEHHHHHHHHHHHHHCCCCCCCCCEEEEEEEEEECCCCCHHHHHHH T ss_conf 3588622112668998864410--------45542037667688888761783304728975224640356355899999 Q ss_pred -C----C--CCCCCEEECHHHHHHHHHHHHHHCCCHHHHCCCCC--------C-------CCCCEEE-------EEECCC Q ss_conf -2----5--67761010101322789999752010111102355--------7-------6662079-------997020 Q gi|254780945|r 417 -K----A--TAPHVLLMTATPIPRTLVLTSLGDIDISKITEKPA--------G-------RKPIKTV-------IIPINR 467 (700) Q Consensus 417 -K----g--~~ph~L~MtATPIPRTLal~~ygdldvS~i~e~P~--------g-------R~~I~T~-------~~~~~~ 467 (700) | + ...-+.-|||| ||--=.+.-+=|-++-.=+..|. | |..+.+- ....++ T Consensus 367 ~k~~y~~~~~~~~iIGMSAT-i~N~~lL~~~L~A~~y~t~fRPv~L~E~ik~G~~i~~~~r~~~lr~ia~l~~~~~g~~d 445 (1008) T KOG0950 367 AKILYENLETSVQIIGMSAT-IPNNSLLQDWLDAFVYTTRFRPVPLKEYIKPGSLIYESSRNKVLREIANLYSSNLGDED 445 (1008) T ss_pred HHHHHHCCCCCEEEEEEECC-CCCHHHHHHHHHHHHEECCCCCCCCHHCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCC T ss_conf 99999632563467655241-47748899886432320466764301036777630123056777775432222025679 Q ss_pred HHHHHHHHHHHHCCCCEEEEEECCCCCCCCC---------------------CCCHHHHHHHH--------HHHHCCCCE Q ss_conf 0268999976310387389997120122111---------------------21014666666--------686637103 Q gi|254780945|r 468 IDEVIERLKVVLSEGKKAYWICPQIEEKKES---------------------NFRSVVERFNS--------LHEHFTSSI 518 (700) Q Consensus 468 ~~~~~~~i~~~l~~g~q~y~VcPlIeese~~---------------------~~~~~~~~~~~--------l~~~~~~~v 518 (700) -|.+.....+.+.+|.++.++||--...|+. ++.++.+.... |++..|..| T Consensus 446 pD~~v~L~tet~~e~~~~lvfc~sk~~ce~~a~~~~~~vpk~~~~e~~~~~~~~~s~s~~lr~~~~~ld~Vl~~ti~~Gv 525 (1008) T KOG0950 446 PDHLVGLCTETAPEGSSVLVFCPSKKNCENVASLIAKKVPKHIKSEKRLGLWELLSISNLLRRIPGILDPVLAKTIPYGV 525 (1008) T ss_pred CCCEEEEHHHHHHCCCEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHEECCCCC T ss_conf 75544212546525871799757643347788889887267665566545777888875764077544538760200353 Q ss_pred ECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHH-----HHHHHHCCCCC--CCCEE Q ss_conf 120146998999999999755986999980034104688876589985852547468-----87730116678--98359 Q gi|254780945|r 519 AIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQ-----LHQLRGRVGRG--EEISS 591 (700) Q Consensus 519 ~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsq-----LHQLRGRVGRg--~~~s~ 591 (700) ..-|--+..+|.+.+=..|++|-+.+++||+-+--||+.|--.++ ..|--||-.| --|.=||-||- +-.|- T Consensus 526 AyHhaGLT~eER~~iE~afr~g~i~vl~aTSTlaaGVNLPArRVI--iraP~~g~~~l~~~~YkQM~GRAGR~gidT~Gd 603 (1008) T KOG0950 526 AYHHAGLTSEEREIIEAAFREGNIFVLVATSTLAAGVNLPARRVI--IRAPYVGREFLTRLEYKQMVGRAGRTGIDTLGD 603 (1008) T ss_pred EECCCCCCCCHHHHHHHHHHHCCEEEEEECCHHHCCCCCCCCEEE--EECCCCCCCHHHHHHHHHHHHHHHHCCCCCCCC T ss_conf 303444650068889999974676999943446406868751158--747754623000246776530200033465765 Q ss_pred EEEEECCC Q ss_conf 99970888 Q gi|254780945|r 592 CILLYHPP 599 (700) Q Consensus 592 c~l~~~~~ 599 (700) |+|+.... T Consensus 604 siLI~k~~ 611 (1008) T KOG0950 604 SILIIKSS 611 (1008) T ss_pred EEEEEECC T ss_conf 58985033 No 83 >PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional Probab=99.24 E-value=2.9e-09 Score=92.26 Aligned_cols=299 Identities=20% Similarity=0.244 Sum_probs=180.6 Q ss_pred CCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHH--CCEEEEEHHHHHHHHHHHHHHHHCCC Q ss_conf 2467988999999999841001343078862144223699999973344430--54588612799999999862110145 Q gi|254780945|r 270 PFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAG--GQAVIMAPIGILAQQHYEFIKKYTQN 347 (700) Q Consensus 270 PF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G--~Q~alMaPTEILA~QH~~~~~~~~~~ 347 (700) .+.|-.-|++||..+...+..+++ .-||+==.|+|||-+|+..+..-+.+| ..+.|+|=..-|+.|-++.|+..-.. T Consensus 414 ~i~lR~YQ~~AI~~v~~a~~~~~r-raLl~MATGTGKTrtaial~~rLlk~~~~kRILFLvDR~~L~~QA~~~F~~~~~~ 492 (1126) T PRK11448 414 ELGLRYYQEDAIQAVEKALANGQR-EILLAMATGTGKTRTAIALMYRLLKAKRFKRILFLVDRRALGEQALDAFKDTKIE 492 (1126) T ss_pred CCCCCHHHHHHHHHHHHHHHCCCC-CEEEEECCCCCHHHHHHHHHHHHHHCCCCCEEEEECCHHHHHHHHHHHHHHCCCC T ss_conf 777868899999999999980985-4688724888589899999999996587672579856589999999987543454 Q ss_pred CCC------EEEEEECCCCHHHHHHHHHHHCCCCCEEEEEC-HHHC----CCC----CCCCCCCEEEECCCCC-CCH--- Q ss_conf 786------58996246422566768776213475486411-1201----334----5544441788521013-356--- Q gi|254780945|r 348 TQI------IVEIITGNMPQAHRRKALERIAHGQAHIIIGT-HALF----QDS----IQYYKLILVIVDEQHR-FGV--- 408 (700) Q Consensus 348 ~~i------~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGT-HAL~----q~~----v~F~~LgLvViDEQHR-FGV--- 408 (700) -+. .|..|+.+ -..++..|.|.| .++. +.+ ..-..--||||||=|| +.. T Consensus 493 ~~~~~~~~~~v~~l~~~------------~~~~~~rv~isT~q~m~~~i~~~~~~~~~~~~~FDlIIiDEaHRgy~ld~e 560 (1126) T PRK11448 493 GNQTFASIYDIKGLTDK------------FPEDETKVHVATVQSMVKRILQSDDSEPPPVGQYDCIVVDEAHRGYTLDKE 560 (1126) T ss_pred CCCCCCHHHHHHHCCCC------------CCCCCCEEEEECHHHHHHHHHCCCCCCCCCCCCCCEEEEECCCCCCCCCCC T ss_conf 56664002200102567------------878777199973078998752357677999985137989778788743323 Q ss_pred ---------H-------HHHHHHHCCCCCCCEEECHHHHHHHHHHHHHHCCCH--H----H-----HCCCCCCCCCCEEE Q ss_conf ---------8-------899874025677610101013227899997520101--1----1-----10235576662079 Q gi|254780945|r 409 ---------Q-------QRLKLTQKATAPHVLLMTATPIPRTLVLTSLGDIDI--S----K-----ITEKPAGRKPIKTV 461 (700) Q Consensus 409 ---------~-------QR~~L~~Kg~~ph~L~MtATPIPRTLal~~ygdldv--S----~-----i~e~P~gR~~I~T~ 461 (700) . =|.-|- -..+..+-|||||-..|.. +||.--. | + ++..||- .|.|. T Consensus 561 m~e~e~~~rd~~s~~skyr~Ild--YFDA~~iGLTATP~~~T~~--~Fg~P~~~Ys~~eAV~DG~LVd~~~P~--~i~T~ 634 (1126) T PRK11448 561 MTEGELQFRDQLDYVSKYRRVLD--YFDAVKIGLTATPALHTTE--IFGEPVYTYSYREAVIDGYLIDHEPPI--RIETK 634 (1126) T ss_pred CCCCHHCCCCHHHHHHHHHHHHH--HHHHHHHCCCCCCCCCHHH--HHCCCCEEECHHHHHCCCCCCCCCCCE--EEEEE T ss_conf 11000102320247778999987--6215540476799955567--709973000588873047556886887--99756 Q ss_pred EEECC----C---------------------------------------HHHHHHHHHHHHCCCC--EEEEEECCCCCCC Q ss_conf 99702----0---------------------------------------0268999976310387--3899971201221 Q gi|254780945|r 462 IIPIN----R---------------------------------------IDEVIERLKVVLSEGK--KAYWICPQIEEKK 496 (700) Q Consensus 462 ~~~~~----~---------------------------------------~~~~~~~i~~~l~~g~--q~y~VcPlIeese 496 (700) +...- . ...+.+.+.+.+..+. +..|-|- T Consensus 635 l~~~Gi~~~~~e~~~~~~~~~~~~~~~~~~de~~~~~~~fnr~v~~~~~nr~v~~~l~~~~~~~~~gKTiIFA~------ 708 (1126) T PRK11448 635 LAKEGIHFEKGEQVEVINTQTGEIDNDTLEDELDFEVEDFNRRVITESFNRVVCEELAKYLDPTGEGKTLIFCV------ 708 (1126) T ss_pred EECCCCCCCCCCHHHHCCCHHHHHHCCCCCCCCCCCHHHHCCHHCCHHHHHHHHHHHHHHCCCCCCCCEEEEEC------ T ss_conf 51046035876434420300000202558731337888827320383479999999998458899987699927------ Q ss_pred CCCCCHHHHHHHHHHHHC----CC----CEECCCCCCCHHHHHHHHHHHHCCCE-EEEEECHHHHCCCCCCCCCEEEEEC Q ss_conf 112101466666668663----71----03120146998999999999755986-9999800341046888765899858 Q gi|254780945|r 497 ESNFRSVVERFNSLHEHF----TS----SIAIIHGRMSDIDKESVMDSFKNGTC-KLLIATTVIEVGIDVVDASIIIIEN 567 (700) Q Consensus 497 ~~~~~~~~~~~~~l~~~~----~~----~v~~lHGkm~~~ek~~~m~~F~~g~~-~iLvaTtviEVGvdvpna~~mvI~~ 567 (700) +-.-|+...+.|++.| |. -+..++|+.+. -+..+++|++.+. .|-|+--++-.|||||....+|-.- T Consensus 709 --~~~HAd~Iv~~l~e~F~~~y~~~~~~~~~~It~~~~~--~~~lI~~Fkn~~~P~IAVTVDmL~TGiDVPei~nLVF~R 784 (1126) T PRK11448 709 --TDAHADMVVRLLKEAFKKKYGQVEDDAIIKITGDADK--VQQLIRRFKNERLPNIVVTVDLLTTGIDVPSICNLVFLR 784 (1126) T ss_pred --CHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEECCCCC--HHHHHHHHCCCCCCEEEEEECCCCCCCCCCCCEEEEEEE T ss_conf --8699999999999998864787678448997088844--789999725789983899856210476664201688766 Q ss_pred HHHCCHHHHHHHHHCCCCCCC--CEEEEEEECC Q ss_conf 525474688773011667898--3599997088 Q gi|254780945|r 568 AEHFGLAQLHQLRGRVGRGEE--ISSCILLYHP 598 (700) Q Consensus 568 aerfGLsqLHQLRGRVGRg~~--~s~c~l~~~~ 598 (700) .=+ --.--.|..||=-|=-. .-.+|.+++. T Consensus 785 ~V~-S~i~F~QMiGRGTRlc~~i~K~~F~I~Da 816 (1126) T PRK11448 785 RVK-SRILYEQMKGRATRLCPDIGKTVFRIFDA 816 (1126) T ss_pred ECC-CHHHHHHHHCCCCCCCCCCCCCEEEEEEC T ss_conf 756-67786654167554376668766999601 No 84 >KOG0341 consensus Probab=99.22 E-value=1.7e-10 Score=101.83 Aligned_cols=284 Identities=23% Similarity=0.321 Sum_probs=179.5 Q ss_pred CCCCCHHHHHHHHHHHHH-----------HHHCCEEEEEHHHHHHHHHHHHHHHHCCCCC------CEEEEEECCCCHHH Q ss_conf 144223699999973344-----------4305458861279999999986211014578------65899624642256 Q gi|254780945|r 301 DVGSGKTLVALIAMAAAV-----------EAGGQAVIMAPIGILAQQHYEFIKKYTQNTQ------IIVEIITGNMPQAH 363 (700) Q Consensus 301 DVGSGKTiVA~~A~l~~~-----------~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~------i~v~lLtg~~~~~e 363 (700) =.|||||+|..+.+...+ ..|--+.+.+|.-=||+|.|.-+..++..+. ++..|-.|+++-++ T Consensus 215 fTGSGKTlvFvLP~imf~LeqE~~lPf~~~EGP~gLiicPSRELArQt~~iie~~~~~L~e~g~P~lRs~LciGG~~v~e 294 (610) T KOG0341 215 FTGSGKTLVFVLPVIMFALEQEMMLPFARGEGPYGLIICPSRELARQTHDIIEQYVAALQEAGYPELRSLLCIGGVPVRE 294 (610) T ss_pred EECCCCEEEEEHHHHHHHHHHHHCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHCCCCHHH T ss_conf 60688468870999999998885186003789735897370899999999999999998764884665665216853898 Q ss_pred HHHHHHHHCCCCCEEEEECHHHC----CC-CCCCCCCCEEEECCCCC-----CCHHHHHHHHH-CCCCCCCEEECHHHHH Q ss_conf 67687762134754864111201----33-45544441788521013-----35688998740-2567761010101322 Q gi|254780945|r 364 RRKALERIAHGQAHIIIGTHALF----QD-SIQYYKLILVIVDEQHR-----FGVQQRLKLTQ-KATAPHVLLMTATPIP 432 (700) Q Consensus 364 r~~i~~~i~~G~~~iiIGTHAL~----q~-~v~F~~LgLvViDEQHR-----FGV~QR~~L~~-Kg~~ph~L~MtATPIP 432 (700) .++.+..| ++|+|.|-.-+ ++ .+...--.+...||-.| |--.-|.-+.- ||. -..|..||| .| T Consensus 295 ---ql~~v~~G-vHivVATPGRL~DmL~KK~~sLd~CRyL~lDEADRmiDmGFEddir~iF~~FK~Q-RQTLLFSAT-MP 368 (610) T KOG0341 295 ---QLDVVRRG-VHIVVATPGRLMDMLAKKIMSLDACRYLTLDEADRMIDMGFEDDIRTIFSFFKGQ-RQTLLFSAT-MP 368 (610) T ss_pred ---HHHHHHCC-EEEEECCCCHHHHHHHHHHCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH-HHEEEEECC-CC T ss_conf ---99998637-0699817626899998764048887776531477776056326689999997420-223553124-64 Q ss_pred HHHHHHHHHCCCHHHHCCCCCCCCCCEEEEE--ECCCHH--HHHHHHHHH---------HCCCC-EEEEEECCCCCCCCC Q ss_conf 7899997520101111023557666207999--702002--689999763---------10387-389997120122111 Q gi|254780945|r 433 RTLVLTSLGDIDISKITEKPAGRKPIKTVII--PINRID--EVIERLKVV---------LSEGK-KAYWICPQIEEKKES 498 (700) Q Consensus 433 RTLal~~ygdldvS~i~e~P~gR~~I~T~~~--~~~~~~--~~~~~i~~~---------l~~g~-q~y~VcPlIeese~~ 498 (700) +-.-.-- -|-+ -|||+--+= ...+.+ .-.++++.+ |++-. -|.+-| ..+ T Consensus 369 ~KIQ~FA-----kSAL------VKPvtvNVGRAGAAsldViQevEyVkqEaKiVylLeCLQKT~PpVLIFa-----EkK- 431 (610) T KOG0341 369 KKIQNFA-----KSAL------VKPVTVNVGRAGAASLDVIQEVEYVKQEAKIVYLLECLQKTSPPVLIFA-----EKK- 431 (610) T ss_pred HHHHHHH-----HHHC------CCCEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEE-----CCC- T ss_conf 8899888-----7640------5645884255542202088999999863012069987612799669984-----145- Q ss_pred CCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHH Q ss_conf 21014666666686637103120146998999999999755986999980034104688876589985852547468877 Q gi|254780945|r 499 NFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQ 578 (700) Q Consensus 499 ~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQ 578 (700) .++.+.|++|--. +-...-+||--+.+++...+++|+.|+.|+||||.|---|.|.|+.-..|=++---===.-.|- T Consensus 432 --~DVD~IhEYLLlK-GVEavaIHGGKDQedR~~ai~afr~gkKDVLVATDVASKGLDFp~iqHVINyDMP~eIENYVHR 508 (610) T KOG0341 432 --ADVDDIHEYLLLK-GVEAVAIHGGKDQEDRHYAIEAFRAGKKDVLVATDVASKGLDFPDIQHVINYDMPEEIENYVHR 508 (610) T ss_pred --CCHHHHHHHHHHC-CCEEEEEECCCCHHHHHHHHHHHHCCCCCEEEEECCHHCCCCCCCCHHHCCCCCHHHHHHHHHH T ss_conf --6747899999872-5136874168656678889999865787458873100036897450444047880889999997 Q ss_pred HHHCCCCCCCCEEEEEEECCCCCHHHHHHHHHH Q ss_conf 301166789835999970888998799999999 Q gi|254780945|r 579 LRGRVGRGEEISSCILLYHPPLSKNSYTRLSVL 611 (700) Q Consensus 579 LRGRVGRg~~~s~c~l~~~~~~~~~~~~Rl~~l 611 (700) =||-||++..|..--..+.+.++...--|+.| T Consensus 509 -IGRTGRsg~~GiATTfINK~~~esvLlDLK~L 540 (610) T KOG0341 509 -IGRTGRSGKTGIATTFINKNQEESVLLDLKHL 540 (610) T ss_pred -HCCCCCCCCCCEEEEEECCCCHHHHHHHHHHH T ss_conf -12467788864022211456318889879999 No 85 >KOG0352 consensus Probab=99.19 E-value=1.8e-08 Score=85.99 Aligned_cols=313 Identities=21% Similarity=0.287 Sum_probs=197.8 Q ss_pred CHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEE Q ss_conf 98899999999984100134307886214422369999997334443054588612799999999862110145786589 Q gi|254780945|r 274 TKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVE 353 (700) Q Consensus 274 T~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~ 353 (700) |.=|++|+.-|..--..- -+.=-.|+||.+-.-+.++. ++.=..+..|---|-+-.-.-+.+ +.+++. T Consensus 22 s~LQE~A~~c~VK~k~DV-----yVsMPTGaGKSLCyQLPaL~---~~gITIV~SPLiALIkDQiDHL~~----LKVp~~ 89 (641) T KOG0352 22 SRLQEQAINCIVKRKCDV-----YVSMPTGAGKSLCYQLPALV---HGGITIVISPLIALIKDQIDHLKR----LKVPCE 89 (641) T ss_pred CHHHHHHHHHHHHCCCCE-----EEECCCCCCHHHHHHCHHHH---HCCEEEEECHHHHHHHHHHHHHHH----HCCCHH T ss_conf 757899899988346737-----99646887601454265877---288189930789999999877874----056166 Q ss_pred EEECCCCHHHHHHHHHHHCCCCCE--EEEEC---------HHHCCCCCCCCCCCEEEECCCCCCCHHHH----------- Q ss_conf 962464225667687762134754--86411---------12013345544441788521013356889----------- Q gi|254780945|r 354 IITGNMPQAHRRKALERIAHGQAH--IIIGT---------HALFQDSIQYYKLILVIVDEQHRFGVQQR----------- 411 (700) Q Consensus 354 lLtg~~~~~er~~i~~~i~~G~~~--iiIGT---------HAL~q~~v~F~~LgLvViDEQHRFGV~QR----------- 411 (700) -|.++++++||++++.+++.-+++ ++-=| +-|+|.=+.-+.|.+.|+||-|= |.|- T Consensus 90 SLNSKlSt~ER~ri~~DL~~ekp~~K~LYITPE~AAt~~FQ~lLn~L~~r~~L~Y~vVDEAHC--VSQWGHDFRPDYL~L 167 (641) T KOG0352 90 SLNSKLSTVERSRIMGDLAKEKPTIKMLYITPEGAATDGFQKLLNGLANRDVLRYIVVDEAHC--VSQWGHDFRPDYLTL 167 (641) T ss_pred HHHCHHHHHHHHHHHHHHHHCCCCEEEEEECHHHHHHHHHHHHHHHHHHHCEEEEEEECHHHH--HHHHCCCCCCCHHHH T ss_conf 640121078899998888743775148997631555666899999887414022477334666--776266668204446 Q ss_pred HHHHHCCCCCCCEEECHHHHHHHHHHHHHHCCCHHHHCCCCCCCCCCEEEEEE----------------CCCHHHHHHHH Q ss_conf 98740256776101010132278999975201011110235576662079997----------------02002689999 Q gi|254780945|r 412 LKLTQKATAPHVLLMTATPIPRTLVLTSLGDIDISKITEKPAGRKPIKTVIIP----------------INRIDEVIERL 475 (700) Q Consensus 412 ~~L~~Kg~~ph~L~MtATPIPRTLal~~ygdldvS~i~e~P~gR~~I~T~~~~----------------~~~~~~~~~~i 475 (700) -.|+++-..+-.+.+|||.-|.---= +|.-|-+ |+||.-.--+ .+....+-+|- T Consensus 168 G~LRS~~~~vpwvALTATA~~~VqED-i~~qL~L---------~~PVAiFkTP~FR~NLFYD~~~K~~I~D~~~~LaDF~ 237 (641) T KOG0352 168 GSLRSVCPGVPWVALTATANAKVQED-IAFQLKL---------RNPVAIFKTPTFRDNLFYDNHMKSFITDCLTVLADFS 237 (641) T ss_pred HHHHHHCCCCCEEEEECCCCHHHHHH-HHHHHHC---------CCCHHHHCCCCHHHHHHHHHHHHHHHCCHHHHHHHHH T ss_conf 66774469996698543467767799-9999760---------5854440574145444578888876413777899999 Q ss_pred HHHHCC---------CC-EEEEE-ECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEE Q ss_conf 763103---------87-38999-71201221112101466666668663710312014699899999999975598699 Q gi|254780945|r 476 KVVLSE---------GK-KAYWI-CPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKL 544 (700) Q Consensus 476 ~~~l~~---------g~-q~y~V-cPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~i 544 (700) ...|-+ +. -|=+| |-.=|+-| ...-.|. .-+-.-.--|.-++..|..++-++..+|++.| T Consensus 238 ~~~LG~~~~~~~~~K~~~GCGIVYCRTR~~cE--------q~AI~l~-~~Gi~A~AYHAGLK~~ERTeVQe~WM~~~~Pv 308 (641) T KOG0352 238 SSNLGKHEKASQNKKTFTGCGIVYCRTRNECE--------QVAIMLE-IAGIPAMAYHAGLKKKERTEVQEKWMNNEIPV 308 (641) T ss_pred HHHCCCCHHHHCCCCCCCCCEEEEECCHHHHH--------HHHHHHH-HCCCCHHHHHHHCCCCHHHHHHHHHHCCCCCE T ss_conf 98628904441178777773279960288999--------8988753-24762677650014112688999986278877 Q ss_pred EEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHCHHHHHHHHH Q ss_conf 99800341046888765899858525474688773011667898359999708889987999999998414258999999 Q gi|254780945|r 545 LIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILLYHPPLSKNSYTRLSVLKNTEDGFLIAEED 624 (700) Q Consensus 545 LvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~~~~~~~~~~Rl~~l~~~~dGf~iAe~D 624 (700) .+||.---.|||-||....+--| --=-+|--.|=-||-||.+++|||-|.|+.+ ...+ + -|.|..+- T Consensus 309 I~AT~SFGMGVDKp~VRFViHW~-~~qn~AgYYQESGRAGRDGk~SyCRLYYsR~-D~~~---i--------~FLi~~e~ 375 (641) T KOG0352 309 IAATVSFGMGVDKPDVRFVIHWS-PSQNLAGYYQESGRAGRDGKRSYCRLYYSRQ-DKNA---L--------NFLVSGEL 375 (641) T ss_pred EEEEECCCCCCCCCCEEEEEECC-HHHHHHHHHHHCCCCCCCCCCCCEEEEECCC-CHHH---H--------HHHHHHHH T ss_conf 99960244466877615999517-0565789988615356677725201333214-0577---7--------79977678 Q ss_pred HHHCCCCC Q ss_conf 85206300 Q gi|254780945|r 625 LKQRKEGE 632 (700) Q Consensus 625 l~lRG~G~ 632 (700) -++||-|+ T Consensus 376 aklrek~~ 383 (641) T KOG0352 376 AKLREKAK 383 (641) T ss_pred HHHHHHCC T ss_conf 99876313 No 86 >pfam04851 ResIII Type III restriction enzyme, res subunit. Probab=99.18 E-value=1.2e-10 Score=102.96 Aligned_cols=100 Identities=26% Similarity=0.338 Sum_probs=85.9 Q ss_pred CCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCC Q ss_conf 46798899999999984100134307886214422369999997334443054588612799999999862110145786 Q gi|254780945|r 271 FSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQI 350 (700) Q Consensus 271 F~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i 350 (700) |+|-+-|++|++.+.+. =+-++..-.|||||++++..+......+..+.++|||..|..|..+.| T Consensus 2 ~~LR~yQ~~a~~~~~~~------~~~~i~~pTGsGKT~~~~~~i~~~~~~~~~~lvlvp~~~L~~Q~~~~~--------- 66 (103) T pfam04851 2 LELRPYQIEAIRNLLEK------KRGLIVMATGSGKTLTAAKLIARLLKGKKKVLFLVPRKDLLEQALEEF--------- 66 (103) T ss_pred CCCCHHHHHHHHHHHHC------CCEEEEECCCCCHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHH--------- T ss_conf 98729999999999963------986999589998799999999999846992999908299999999965--------- Q ss_pred EEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEEECCCCCCCHHHH-HHHHHCCCCCCCEEECHH Q ss_conf 5899624642256676877621347548641112013345544441788521013356889-987402567761010101 Q gi|254780945|r 351 IVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKLILVIVDEQHRFGVQQR-LKLTQKATAPHVLLMTAT 429 (700) Q Consensus 351 ~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFGV~QR-~~L~~Kg~~ph~L~MtAT 429 (700) |||+||-|+.+-.+. ..+.+.-..+-+|-|||| T Consensus 67 ----------------------------------------------lii~DE~H~~~a~~~~~~l~~~~~~~~~lGlTAT 100 (103) T pfam04851 67 ----------------------------------------------VIIIDEAHHSSAKTKYRKILEYFKPAFLLGLTAT 100 (103) T ss_pred ----------------------------------------------HHHHHHHHHCCCHHHHHHHHHHCCCCEEEEEEEC T ss_conf ----------------------------------------------6460163523537899999995772608998008 Q ss_pred HH Q ss_conf 32 Q gi|254780945|r 430 PI 431 (700) Q Consensus 430 PI 431 (700) |. T Consensus 101 P~ 102 (103) T pfam04851 101 PE 102 (103) T ss_pred CC T ss_conf 88 No 87 >PRK12903 secA preprotein translocase subunit SecA; Reviewed Probab=99.18 E-value=4.8e-09 Score=90.55 Aligned_cols=279 Identities=20% Similarity=0.264 Sum_probs=189.8 Q ss_pred CCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEE Q ss_conf 14422369999997334443054588612799999999862110145786589962464225667687762134754864 Q gi|254780945|r 301 DVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIII 380 (700) Q Consensus 301 DVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiI 380 (700) -.|-|||+||.++++..+-+|..|-+....+-||+--++...+++.-+|++|.+.++.++..+|++.|. +||+- T Consensus 99 ~TGEGKTL~atlp~ylnal~g~gvhvvTvNdYLA~RDae~m~~~y~~lGltvg~~~~~~~~~~r~~aY~------~ditY 172 (885) T PRK12903 99 KTGEGKTITSIAPVYLNALEGKGVIVSTVNEYLAERDAEEMGKVFKFLGLSVGINKANMDPNLKREAYN------CDITY 172 (885) T ss_pred CCCCCHHHHHHHHHHHHHHCCCCCEEEECCHHHHHHHHHHHHHHHHHHCCEEEECCCCCCHHHHHHHHC------CCCEE T ss_conf 068857999999999987469980898064565585599999999982965601189999799999856------99679 Q ss_pred ECHHHCC-----CCC-------CCCCCCEEEECCCC-------------------CCCHHHHH----------------- Q ss_conf 1112013-----345-------54444178852101-------------------33568899----------------- Q gi|254780945|r 381 GTHALFQ-----DSI-------QYYKLILVIVDEQH-------------------RFGVQQRL----------------- 412 (700) Q Consensus 381 GTHAL~q-----~~v-------~F~~LgLvViDEQH-------------------RFGV~QR~----------------- 412 (700) ||+.=|- |+. .-..+-.+||||=- .-..-+.. T Consensus 173 ~tn~e~gFDyLrDnm~~~~~~~vqr~~~~aIvDEvDSiLIDeArtPLiisg~~~~~~~~y~~~~~~~~~l~~~dy~id~~ 252 (885) T PRK12903 173 STHSELGFDYLRDNMVSSYEEKVQRGLNFCLIDEVDSILIDEARTPLIISGGKSNESNLYKAADQFVRTLEEDDYKIDEE 252 (885) T ss_pred ECCCCEEECCCCCCCCCCHHHHCCCCCCEEEEECCHHHHHCCCCCCCEEECCCCCCCHHHHHHHHHHHHCCCCCEEEECC T ss_conf 77865030114001135837725889980366541144330467752576789886469999999865336566886314 Q ss_pred ----HHHHCC---------------------------------------------------------------------- Q ss_conf ----874025---------------------------------------------------------------------- Q gi|254780945|r 413 ----KLTQKA---------------------------------------------------------------------- 418 (700) Q Consensus 413 ----~L~~Kg---------------------------------------------------------------------- 418 (700) .|.++| T Consensus 253 ~~~v~lte~G~~~~e~~~~~~~l~~~~~~~~~~~i~~al~A~~l~~~d~dYiV~d~~v~ivDe~TGR~m~grr~s~GLhQ 332 (885) T PRK12903 253 SKAIYLTEKGIKKANKFFKLDNLYAIENSELFHRIQNALRAHKVFKEGVEYIVRDGKIELVDQFTGRIMEGRSYSEGLQQ 332 (885) T ss_pred CCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCEEEECCEEEEEECCCCCCCCCCCHHHHHHH T ss_conf 47764251158999984266444661157999999999999999856970799779289987898862788803036899 Q ss_pred ---------------------------CCCCCEEECHHHHHHHHH---HHHHHCCCHHHHC-CCCCCCCCCEEEEEEC-- Q ss_conf ---------------------------677610101013227899---9975201011110-2355766620799970-- Q gi|254780945|r 419 ---------------------------TAPHVLLMTATPIPRTLV---LTSLGDIDISKIT-EKPAGRKPIKTVIIPI-- 465 (700) Q Consensus 419 ---------------------------~~ph~L~MtATPIPRTLa---l~~ygdldvS~i~-e~P~gR~~I~T~~~~~-- 465 (700) ..+.+=-||-|- .|-+ ..+|+ |+|..|. .+|.-|+.-...++.. T Consensus 333 aiEaKE~v~i~~e~~t~a~iT~Qn~Fr~y~kl~GmTGTa--~te~~Ef~~iY~-l~v~~iPtn~p~~R~d~~d~vy~t~~ 409 (885) T PRK12903 333 AIQAKEMVEIEPETKTLATITYQNFFRLFKKLSGMTGTA--KTEEQEFIDIYN-MRVNVVPTNKPVIRKDEPDSIFGTKH 409 (885) T ss_pred HHHHHCCCCCCCCCCEEEEEEHHHHHHHCCHHCCCCCCC--HHHHHHHHHHHC-CEEEECCCCCCCEEECCCCHHHCCHH T ss_conf 999872887798873136630998986460422676777--889999999869-73698189998521428323107899 Q ss_pred CCHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEE Q ss_conf 20026899997631038738999712012211121014666666686637103120146998999999999755986999 Q gi|254780945|r 466 NRIDEVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLL 545 (700) Q Consensus 466 ~~~~~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iL 545 (700) .+...+.+.|++.-++|+-|-|-+..||.||.+ | +.|++. +-...+|..|-...|-+-|-++ -..-.|- T Consensus 410 ~k~~av~~ei~~~~~~gqPvLvgt~sve~Se~l---s-----~~L~~~-~i~h~vLNAk~~~~EA~Iia~A--G~~g~VT 478 (885) T PRK12903 410 AKWKAVVKEVKRVHEKGQPILIGTAQVEDSEQL---H-----EYLLEA-NIPHTVLNAKQHAREAEIIAKA--GQKGAIT 478 (885) T ss_pred HHHHHHHHHHHHHHHCCCCEEEECCCHHHHHHH---H-----HHHHHC-CCCCEEEECCCHHHHHHHHHHC--CCCCCEE T ss_conf 999999999999985799889956847999999---9-----999856-8770355468658899999954--8999189 Q ss_pred EECHHHHCCCCC------CCCCEEEEECHHHCCHHHH-HHHHHCCCCCCCCEEEEEEECCC Q ss_conf 980034104688------8765899858525474688-77301166789835999970888 Q gi|254780945|r 546 IATTVIEVGIDV------VDASIIIIENAEHFGLAQL-HQLRGRVGRGEEISSCILLYHPP 599 (700) Q Consensus 546 vaTtviEVGvdv------pna~~mvI~~aerfGLsqL-HQLRGRVGRg~~~s~c~l~~~~~ 599 (700) |||..---|.|+ ..+--.-|...||.--.-. -|||||-||-+.+|..-+..+-+ T Consensus 479 iATNMAGRGTDI~Lg~~v~~~GGL~VigterhesrRiD~QLrGR~gRQGDpG~s~f~~Sle 539 (885) T PRK12903 479 IATNMAGRGTDIKLSKGVLELGGLYVLGTEKAESRRIDNQLRGRSGRQGDVGESRFFISLD 539 (885) T ss_pred EECCCCCCCCCCCCCHHHHHCCCEEEEECCCCCCHHHHHHHCCCCCCCCCCCCEEEEEECC T ss_conf 8376678996857416589729858984265620458888607434689997359999726 No 88 >smart00490 HELICc helicase superfamily c-terminal domain. Probab=99.18 E-value=1e-10 Score=103.57 Aligned_cols=79 Identities=33% Similarity=0.530 Sum_probs=71.5 Q ss_pred HHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCC Q ss_conf 66668663710312014699899999999975598699998003410468887658998585254746887730116678 Q gi|254780945|r 507 FNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRG 586 (700) Q Consensus 507 ~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg 586 (700) .+.|++. +-++..+||+|+.+++++++++|++|+++|||||.+.+.|||+|+++++|+.+. ....+++.|-.||+||- T Consensus 4 ~~~l~~~-g~~~~~i~g~~~~~~R~~~~~~f~~~~~~ilv~t~~~~~Gidl~~~~~vI~~~~-~~~~~~~~Q~~GR~~R~ 81 (82) T smart00490 4 AELLKEL-GIKVARLHGGLSQEEREEILEKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDL-PWSPASYIQRIGRAGRA 81 (82) T ss_pred HHHHHHC-CCCEEEEECCCCHHHHHHHHHHHHCCCCEEEEEEEEEEEECCCCCCCEEEEECC-CCCHHHHHHHHCCCCCC T ss_conf 9999888-991999989699999999999998799719999502421148988999999789-96989999997258789 Q ss_pred C Q ss_conf 9 Q gi|254780945|r 587 E 587 (700) Q Consensus 587 ~ 587 (700) + T Consensus 82 g 82 (82) T smart00490 82 G 82 (82) T ss_pred C T ss_conf 9 No 89 >pfam00271 Helicase_C Helicase conserved C-terminal domain. The Prosite family is restricted to DEAD/H helicases, whereas this domain family 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. Probab=99.14 E-value=1.6e-10 Score=102.07 Aligned_cols=73 Identities=33% Similarity=0.541 Sum_probs=68.4 Q ss_pred CCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCC Q ss_conf 37103120146998999999999755986999980034104688876589985852547468877301166789 Q gi|254780945|r 514 FTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGE 587 (700) Q Consensus 514 ~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~ 587 (700) .+-++..+||+|+.+|+++++++|++|+.+|||||.+.+.|+|+|+++++|+.++. +-.+++.|-.||+||.+ T Consensus 6 ~g~~~~~i~g~~~~~~R~~~~~~f~~~~~~ilv~t~~~~~Gid~~~~~~vi~~~~~-~s~~~~~Q~~GR~~R~g 78 (78) T pfam00271 6 PGIKVARLHGGLSQEEREEILEDFRNGKSKVLVATDVAGRGIDLPDVNVVINYDLP-WNPASYIQRIGRAGRAG 78 (78) T ss_pred CCCCEEEEECCCCHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCCEEEEECCC-CCHHHHHHHHCCCCCCC T ss_conf 89859998697999999999999987997399992565256778789999997899-69899999972687799 No 90 >KOG0947 consensus Probab=99.14 E-value=4.7e-08 Score=82.75 Aligned_cols=357 Identities=22% Similarity=0.293 Sum_probs=222.4 Q ss_pred HHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHH Q ss_conf 78999986302467988999999999841001343078862144223699999973344430545886127999999998 Q gi|254780945|r 260 KIAQKILRNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYE 339 (700) Q Consensus 260 ~~~~~f~~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~ 339 (700) .++.+.....||+|-+=|+.||.-...- . .-.+-.-.-||||+||-.|++.+...+..+.+-+|---|..|-|. T Consensus 285 ~lVpe~a~~~pFelD~FQk~Ai~~lerg----~--SVFVAAHTSAGKTvVAEYAialaq~h~TR~iYTSPIKALSNQKfR 358 (1248) T KOG0947 285 QLVPEMALIYPFELDTFQKEAIYHLERG----D--SVFVAAHTSAGKTVVAEYAIALAQKHMTRTIYTSPIKALSNQKFR 358 (1248) T ss_pred HHCHHHHHHCCCCCCHHHHHHHHHHHCC----C--EEEEEECCCCCCCHHHHHHHHHHHHHCCCEEECCHHHHHCCCHHH T ss_conf 8440688618877667899999999727----8--179971377884369999999988635515752634654001578 Q ss_pred HHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHC-----CCCCCCCCCCEEEECCCCCCCHHHHHHH Q ss_conf 62110145786589962464225667687762134754864111201-----3345544441788521013356889987 Q gi|254780945|r 340 FIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALF-----QDSIQYYKLILVIVDEQHRFGVQQRLKL 414 (700) Q Consensus 340 ~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~-----q~~v~F~~LgLvViDEQHRFGV~QR~~L 414 (700) -|+.-|+.-| ||||...- +-++.++|=|.-++ +..=.-.++-.||.||=|=--=.-|-.. T Consensus 359 DFk~tF~Dvg----LlTGDvqi-----------nPeAsCLIMTTEILRsMLYrgadliRDvE~VIFDEVHYiND~eRGvV 423 (1248) T KOG0947 359 DFKETFGDVG----LLTGDVQI-----------NPEASCLIMTTEILRSMLYRGADLIRDVEFVIFDEVHYINDVERGVV 423 (1248) T ss_pred HHHHHCCCCC----EEECCEEE-----------CCCCCEEEEHHHHHHHHHHCCCCHHHCCCEEEEEEEEECCCCCCCCC T ss_conf 8877426665----45144332-----------77754676569999998751554321133698740354144135622 Q ss_pred HHC-----CCCCCCEEECHHHHHHHHHHHHH-HCC---CHHHHCCCCCCCCCCEEEEEECC------------------- Q ss_conf 402-----56776101010132278999975-201---01111023557666207999702------------------- Q gi|254780945|r 415 TQK-----ATAPHVLLMTATPIPRTLVLTSL-GDI---DISKITEKPAGRKPIKTVIIPIN------------------- 466 (700) Q Consensus 415 ~~K-----g~~ph~L~MtATPIPRTLal~~y-gdl---dvS~i~e~P~gR~~I~T~~~~~~------------------- 466 (700) ++. -.+..+..+||| +|-|+-.+-+ |-. .+-+|.+ +.--.|..-++.... T Consensus 424 WEEViIMlP~HV~~IlLSAT-VPN~~EFA~WIGRtK~K~IyViST-~kRPVPLEh~l~t~~~l~kiidq~g~fl~~~~~~ 501 (1248) T KOG0947 424 WEEVIIMLPRHVNFILLSAT-VPNTLEFADWIGRTKQKTIYVIST-SKRPVPLEHYLYTKKSLFKIIDQNGIFLLKGIKD 501 (1248) T ss_pred CEEEEEECCCCCEEEEEECC-CCCHHHHHHHHHHCCCCEEEEEEC-CCCCCCEEEEEEECCCEEHHHCCCCHHHHHCCHH T ss_conf 10122532554159998465-798188888750404853899714-7886430789986663100015441435530101 Q ss_pred -----------------------------------------------CHH-HHHHHHHHHHCCCCEE---EEEE------ Q ss_conf -----------------------------------------------002-6899997631038738---9997------ Q gi|254780945|r 467 -----------------------------------------------RID-EVIERLKVVLSEGKKA---YWIC------ 489 (700) Q Consensus 467 -----------------------------------------------~~~-~~~~~i~~~l~~g~q~---y~Vc------ 489 (700) +++ ..|-.+-..+.+..|- .+|. T Consensus 502 a~~~~~~~ak~~~~~~~~~~~~rgs~~~ggk~~~~~g~~r~~~~~~nrr~~~~~l~lin~L~k~~lLP~VvFvFSkkrCd 581 (1248) T KOG0947 502 AKDSLKKEAKFVDVEKSDARGGRGSQKRGGKTNYHNGGSRGSGIGKNRRKQPTWLDLINHLRKKNLLPVVVFVFSKKRCD 581 (1248) T ss_pred HHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHCCCCCEEEEEECCCCHH T ss_conf 11122244443313254454666554667767888887666665432344440999999985224676699997356578 Q ss_pred ---------CCCCCCCCCCCCHHHH-HHHHHH-------------HHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEE Q ss_conf ---------1201221112101466-666668-------------66371031201469989999999997559869999 Q gi|254780945|r 490 ---------PQIEEKKESNFRSVVE-RFNSLH-------------EHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLI 546 (700) Q Consensus 490 ---------PlIeese~~~~~~~~~-~~~~l~-------------~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLv 546 (700) -|-+++|+.+.+=.-+ ...+|+ +..-..++.-||-+=+--|+-|=.=|..|=++||. T Consensus 582 e~a~~L~~~nL~~~~EKseV~lfl~k~~~rLk~~DR~LPQvl~m~~ll~RGiaVHH~GlLPivKE~VE~LFqrGlVKVLF 661 (1248) T KOG0947 582 EYADYLTNLNLTDSKEKSEVHLFLSKAVARLKGEDRNLPQVLSMRSLLLRGIAVHHGGLLPIVKEVVELLFQRGLVKVLF 661 (1248) T ss_pred HHHHHHHCCCCCCCHHHHHHHHHHHHHHHHCCHHHCCCHHHHHHHHHHHHCCHHHCCCCHHHHHHHHHHHHHCCCEEEEE T ss_conf 99999755576652127899999999998668543143377889999861403303663078999999997558547886 Q ss_pred ECHHHHCCCCCCCCCEEEE-----ECHHH--CCHHHHHHHHHCCCCCC--CCEEEEEEECCC-CCHHH------------ Q ss_conf 8003410468887658998-----58525--47468877301166789--835999970888-99879------------ Q gi|254780945|r 547 ATTVIEVGIDVVDASIIII-----ENAEH--FGLAQLHQLRGRVGRGE--EISSCILLYHPP-LSKNS------------ 604 (700) Q Consensus 547 aTtviEVGvdvpna~~mvI-----~~aer--fGLsqLHQLRGRVGRg~--~~s~c~l~~~~~-~~~~~------------ 604 (700) ||----.|||.|--|+..= .+-++ .+=--+-|.-||-||-+ ..|+.++++.+. .+... T Consensus 662 ATETFAMGVNMPARtvVF~Sl~KhDG~efR~L~PGEytQMAGRAGRRGlD~tGTVii~~~~~vp~~a~l~~li~G~~~~L 741 (1248) T KOG0947 662 ATETFAMGVNMPARTVVFSSLRKHDGNEFRELLPGEYTQMAGRAGRRGLDETGTVIIMCKDSVPSAATLKRLIMGGPTRL 741 (1248) T ss_pred EHHHHHHHCCCCCEEEEEEEHHHCCCCCEEECCCHHHHHHHCCCCCCCCCCCCEEEEEECCCCCCHHHHHHHHCCCCCHH T ss_conf 41056511688740677330001368642543870577641102445668676089996688999899865750787200 Q ss_pred --HHHHH--HHHHHCHHHHHHHHHHHHCCCCCCCCCHHC Q ss_conf --99999--998414258999999852063000260006 Q gi|254780945|r 605 --YTRLS--VLKNTEDGFLIAEEDLKQRKEGEILGIKQS 639 (700) Q Consensus 605 --~~Rl~--~l~~~~dGf~iAe~Dl~lRG~G~~~G~~Qs 639 (700) +-||. .+-+.--+=.+--+||--|.+|+.-..+-+ T Consensus 742 ~SQFRlTY~MILnLLRve~lrvEdm~krSf~E~~s~~~~ 780 (1248) T KOG0947 742 ESQFRLTYGMILNLLRVEALRVEDMMKRSFSEFVSQRLS 780 (1248) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC T ss_conf 445445799999998777889999999876310231017 No 91 >PRK12906 secA preprotein translocase subunit SecA; Reviewed Probab=99.08 E-value=7.4e-09 Score=89.04 Aligned_cols=280 Identities=20% Similarity=0.248 Sum_probs=183.6 Q ss_pred CCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEE Q ss_conf 14422369999997334443054588612799999999862110145786589962464225667687762134754864 Q gi|254780945|r 301 DVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIII 380 (700) Q Consensus 301 DVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiI 380 (700) ..|-|||+||.++++..+-+|..|-+....+-||+--++...+.+.-+|++|.+.++.++..+|++.+. +||+- T Consensus 101 ~TGEGKTL~atlp~ylnaL~GkgvhvvTvNdYLA~RDae~m~~vy~~lGltvg~i~~~~~~~err~aY~------~DItY 174 (823) T PRK12906 101 RTGEGKTLTATLPVYLNALEGKGVHVVTVNEYLAKRDATEMGELYRWLGLTVGLNLNDMSPDEKREAYN------CDITY 174 (823) T ss_pred CCCCCHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHHHHCCCEEEEECCCCCHHHHHHHHC------CCCEE T ss_conf 068858999999999986469980898054465586799999999980966712089999899999850------78446 Q ss_pred ECHHHCC-----C-------CCCCCCCCEEEECCCCC------------------------------------------- Q ss_conf 1112013-----3-------45544441788521013------------------------------------------- Q gi|254780945|r 381 GTHALFQ-----D-------SIQYYKLILVIVDEQHR------------------------------------------- 405 (700) Q Consensus 381 GTHAL~q-----~-------~v~F~~LgLvViDEQHR------------------------------------------- 405 (700) ||..=|- | +..-..+-.+||||=-- T Consensus 175 ~Tn~e~gFDYLRDnm~~~~~~~vqr~~~~aIvDEvDSiLIDEArtPLIISg~~~~~~~~y~~~~~~v~~l~~~~~~~~~~ 254 (823) T PRK12906 175 STNSELGFDYLRDNMVVYKEQMVQRPLNYAIVDEVDSILIDEARTPLIISGPAEGASDLYIRADRFVKTLTKDEDDDADD 254 (823) T ss_pred ECCCCEECCCCCCCCCCCHHHHCCCCCCEEEEECHHHHHHHCCCCCEEEECCCCCCCHHHHHHHHHHHHHHHHHHHCCCC T ss_conf 25655021113544126888834788855898541465432356762662577555358999999999998634311233 Q ss_pred ------CCHHHHHH---HHHCC---------------------------------------------------------- Q ss_conf ------35688998---74025---------------------------------------------------------- Q gi|254780945|r 406 ------FGVQQRLK---LTQKA---------------------------------------------------------- 418 (700) Q Consensus 406 ------FGV~QR~~---L~~Kg---------------------------------------------------------- 418 (700) |-|..+.+ |.++| T Consensus 255 ~~~~~dy~id~~~~~v~lt~~G~~~~e~~~~~~~ly~~~~~~~~~~i~~aL~A~~lf~~d~dYiV~d~~V~ivDe~TGR~ 334 (823) T PRK12906 255 DEDHGDYKIDEPSKTVSLTEEGIEKAEKLLGLDNLYDPENQALVHHIDQALRANYLMLKDKDYIVQNGEVLIVDEFTGRV 334 (823) T ss_pred CCCCCCEEEECCCCEEEEEHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCEEEECCCEEEEECCCCCC T ss_conf 47777758742546677517799998860488877883110599999999999999857985899889189987888886 Q ss_pred ---------------------------------------CCCCCEEECHHHHHHHHHHHHHHCCCHHHHC-CCCCCCCCC Q ss_conf ---------------------------------------6776101010132278999975201011110-235576662 Q gi|254780945|r 419 ---------------------------------------TAPHVLLMTATPIPRTLVLTSLGDIDISKIT-EKPAGRKPI 458 (700) Q Consensus 419 ---------------------------------------~~ph~L~MtATPIPRTLal~~ygdldvS~i~-e~P~gR~~I 458 (700) ..+.+==||.|--.-.--+.--=+|+|..|. .+|.-|+.- T Consensus 335 m~gRr~s~GLHQAiEaKE~v~i~~e~~tlA~IT~QnfFr~Y~kLsGMTGTA~te~~Ef~~iY~l~Vv~IPTn~P~~R~d~ 414 (823) T PRK12906 335 MEGRRYSDGLHQAIEAKEGVEIQNENQTLATITYQNYFRLYKKLSGMTGTAKTEEEEFREIYNMDVITIPTNRPVIRVDL 414 (823) T ss_pred CCCCCCCHHHHHHHHHHCCCCCCCCCCEEEEEEHHHHHHHCHHHCCCCCCCHHHHHHHHHHHCCCEEECCCCCCCEEEEC T ss_conf 89992664679999987288778887303676699998646253167677687899999986886187179998511507 Q ss_pred EEEEEEC--CCHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHH Q ss_conf 0799970--20026899997631038738999712012211121014666666686637103120146998999999999 Q gi|254780945|r 459 KTVIIPI--NRIDEVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDS 536 (700) Q Consensus 459 ~T~~~~~--~~~~~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~ 536 (700) ...+... ++...+.+.|++.-++|+-|-|-+.-||.||.+ .+.|++. +-...+|+.|-. ++|+.+=+ T Consensus 415 ~d~iy~t~~~K~~Ai~~ei~~~~~~gqPvLvGT~SVe~SE~l--------s~~L~~~-gi~h~vLNAk~~--~~EA~IIa 483 (823) T PRK12906 415 PDLLYPTLDSKFNAVVDDIKERHAKGQPVLVGTVSIESSERL--------SQLLDKA-GIPHAVLNAKNH--AKEAEIIA 483 (823) T ss_pred CCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHH--------HHHHHHC-CCCHHHHCCCCH--HHHHHHHH T ss_conf 434647999999999999999986799889971758999999--------9999976-870353068775--78999998 Q ss_pred HHCCCEEEEEECHHHHCCCCCCC-----------------------------------CCEEEEECHHHCCHHHH-HHHH Q ss_conf 75598699998003410468887-----------------------------------65899858525474688-7730 Q gi|254780945|r 537 FKNGTCKLLIATTVIEVGIDVVD-----------------------------------ASIIIIENAEHFGLAQL-HQLR 580 (700) Q Consensus 537 F~~g~~~iLvaTtviEVGvdvpn-----------------------------------a~~mvI~~aerfGLsqL-HQLR 580 (700) =.-..-.|-|||.+---|.|+.= +--.-|...||.--+-. -||| T Consensus 484 ~AG~~GaVTIATNMAGRGTDI~LGg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~~GGL~VIgTErheSrRIDnQLr 563 (823) T PRK12906 484 QAGQRGAVTIATNMAGRGTDIKLGGNPFEDIEAYQEAWIRELPKMKQRCEERRDKVRELGGLAVIGTERHESRRIDNQLR 563 (823) T ss_pred HCCCCCEEEEECCCCCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHH T ss_conf 34899938970655689879630897302134332224667888888776556899973893798504440256787872 Q ss_pred HCCCCCCCCEEEEEEEC Q ss_conf 11667898359999708 Q gi|254780945|r 581 GRVGRGEEISSCILLYH 597 (700) Q Consensus 581 GRVGRg~~~s~c~l~~~ 597 (700) ||-||-+.+|..-+..+ T Consensus 564 GRaGRQGDPGss~F~lS 580 (823) T PRK12906 564 GRSGRQGDPGSTRFYLS 580 (823) T ss_pred CCCCCCCCCCCCEEEEE T ss_conf 32134799985237653 No 92 >KOG0948 consensus Probab=99.07 E-value=1.8e-09 Score=93.84 Aligned_cols=328 Identities=22% Similarity=0.345 Sum_probs=214.6 Q ss_pred HHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHC Q ss_conf 86302467988999999999841001343078862144223699999973344430545886127999999998621101 Q gi|254780945|r 266 LRNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYT 345 (700) Q Consensus 266 ~~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~ 345 (700) -+..||+|-.=|..||.-|.++- .-|+-.-.-+|||+||-.|++.++.+...|.+-.|---|..|-|+.+..-| T Consensus 123 Ak~YPF~LDpFQ~~aI~Cidr~e------SVLVSAHTSAGKTVVAeYAIA~sLr~kQRVIYTSPIKALSNQKYREl~~EF 196 (1041) T KOG0948 123 AKTYPFTLDPFQSTAIKCIDRGE------SVLVSAHTSAGKTVVAEYAIAMSLREKQRVIYTSPIKALSNQKYRELLEEF 196 (1041) T ss_pred CCCCCCCCCCHHHHHHHHHCCCC------EEEEEEECCCCCCHHHHHHHHHHHHHCCEEEEECHHHHHCCHHHHHHHHHH T ss_conf 35788434806765453112796------389984057885237999999998764858960731554115489999884 Q ss_pred CCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHH----C-CCCCCCCCCCEEEECCCCCCCHHHHHHHHHC--- Q ss_conf 4578658996246422566768776213475486411120----1-3345544441788521013356889987402--- Q gi|254780945|r 346 QNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHAL----F-QDSIQYYKLILVIVDEQHRFGVQQRLKLTQK--- 417 (700) Q Consensus 346 ~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL----~-q~~v~F~~LgLvViDEQHRFGV~QR~~L~~K--- 417 (700) . -|.|.||..+-. -.+..+|=|.-+ + -..=..+-.+-||.||=|=--=..|-..++. T Consensus 197 ~----DVGLMTGDVTIn-----------P~ASCLVMTTEILRsMLYRGSEvmrEVaWVIFDEIHYMRDkERGVVWEETII 261 (1041) T KOG0948 197 K----DVGLMTGDVTIN-----------PDASCLVMTTEILRSMLYRGSEVMREVAWVIFDEIHYMRDKERGVVWEETII 261 (1041) T ss_pred C----CCCEEECCEEEC-----------CCCCEEEEHHHHHHHHHHCCCHHHHEEEEEEEEEEHHCCCCCCCEEEEEEEE T ss_conf 6----365230544668-----------9875453379999998743316755231488620010013445602356678 Q ss_pred --CCCCCCEEECHHHHHHHHHHHHHHCCCHHHHCCCCCC------C-CCCEEEEEE-----------CC------CHHHH Q ss_conf --5677610101013227899997520101111023557------6-662079997-----------02------00268 Q gi|254780945|r 418 --ATAPHVLLMTATPIPRTLVLTSLGDIDISKITEKPAG------R-KPIKTVIIP-----------IN------RIDEV 471 (700) Q Consensus 418 --g~~ph~L~MtATPIPRTLal~~ygdldvS~i~e~P~g------R-~~I~T~~~~-----------~~------~~~~~ 471 (700) ..+.++..+||| ||--+-.+-+ |+-|..-|.. | .|..-++.+ .+ +..++ T Consensus 262 llP~~vr~VFLSAT-iPNA~qFAeW----I~~ihkQPcHVVYTdyRPTPLQHyifP~ggdGlylvVDek~~FrednF~~a 336 (1041) T KOG0948 262 LLPDNVRFVFLSAT-IPNARQFAEW----ICHIHKQPCHVVYTDYRPTPLQHYIFPAGGDGLYLVVDEKGKFREDNFQKA 336 (1041) T ss_pred ECCCCCEEEEEECC-CCCHHHHHHH----HHHHHCCCCEEEEECCCCCCCEEEEECCCCCEEEEEEECCCCCCHHHHHHH T ss_conf 53666038999565-8777999999----999755874289505878864144530799806999705664226779999 Q ss_pred HHHH-----------------------------------HHHHCCCCEEEEEECCC-CCC-------CCCCCC------H Q ss_conf 9999-----------------------------------76310387389997120-122-------111210------1 Q gi|254780945|r 472 IERL-----------------------------------KVVLSEGKKAYWICPQI-EEK-------KESNFR------S 502 (700) Q Consensus 472 ~~~i-----------------------------------~~~l~~g~q~y~VcPlI-ees-------e~~~~~------~ 502 (700) .+.+ +-.+.+.-.--+|...= -|- .++|+. . T Consensus 337 m~~l~~~~~~~~~~~~~~k~~kG~~~~~~~~~s~i~kiVkmi~~~~~~PVIvFSFSkkeCE~~Alqm~kldfN~deEk~~ 416 (1041) T KOG0948 337 MSVLRKAGESDGKKKANKKGRKGGTGGKGPGDSDIYKIVKMIMERNYLPVIVFSFSKKECEAYALQMSKLDFNTDEEKEL 416 (1041) T ss_pred HHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHCCCCEEEEEECHHHHHHHHHHHCCCCCCCHHHHHH T ss_conf 99763257786444555445657767889874319999999996268966999814767999997651576788568889 Q ss_pred HHHHHHHH--------------HHHCCC---CEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEE Q ss_conf 46666666--------------866371---0312014699899999999975598699998003410468887658998 Q gi|254780945|r 503 VVERFNSL--------------HEHFTS---SIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIII 565 (700) Q Consensus 503 ~~~~~~~l--------------~~~~~~---~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI 565 (700) |++.|+.- ...+|- .||+-|+-+=+--||-|=--|.+|=+++|-||----.|+|.|.-|+ |- T Consensus 417 V~~iF~nAi~~LseeDr~LPqie~iLPLL~RGIGIHHsGLLPIlKE~IEILFqEGLvKvLFATETFsiGLNMPAkTV-vF 495 (1041) T KOG0948 417 VETIFNNAIDQLSEEDRELPQIENILPLLRRGIGIHHSGLLPILKEVIEILFQEGLVKVLFATETFSIGLNMPAKTV-VF 495 (1041) T ss_pred HHHHHHHHHHHCCHHHCCCHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCEEE-EE T ss_conf 99999999985485331551788889998735543445504789999999985027988775412310058864058-87 Q ss_pred ECHHHCCHHH--------HHHHHHCCCCC--CCCEEEEEEECCCCCHHHHHHHHHHHHHC----HHHHHHH Q ss_conf 5852547468--------87730116678--98359999708889987999999998414----2589999 Q gi|254780945|r 566 ENAEHFGLAQ--------LHQLRGRVGRG--EEISSCILLYHPPLSKNSYTRLSVLKNTE----DGFLIAE 622 (700) Q Consensus 566 ~~aerfGLsq--------LHQLRGRVGRg--~~~s~c~l~~~~~~~~~~~~Rl~~l~~~~----dGf~iAe 622 (700) -++-.|-=.+ --|.-||-||- +..|-|+|+.+.+.++..-++| +.-+. .-|.+.- T Consensus 496 T~~rKfDG~~fRwissGEYIQMSGRAGRRG~DdrGivIlmiDekm~~~~ak~m--~kG~aD~LnSaFhLtY 564 (1041) T KOG0948 496 TAVRKFDGKKFRWISSGEYIQMSGRAGRRGIDDRGIVILMIDEKMEPQVAKDM--LKGSADPLNSAFHLTY 564 (1041) T ss_pred EECCCCCCCCEEEECCCCEEEECCCCCCCCCCCCCEEEEEECCCCCHHHHHHH--HCCCCCCHHHHHHHHH T ss_conf 40111478640453366357741534556778775299995676797899998--6388741053664579 No 93 >PRK12326 preprotein translocase subunit SecA; Reviewed Probab=99.07 E-value=1.6e-08 Score=86.40 Aligned_cols=287 Identities=21% Similarity=0.282 Sum_probs=178.7 Q ss_pred EEEEEC-----CCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHH Q ss_conf 788621-----442236999999733444305458861279999999986211014578658996246422566768776 Q gi|254780945|r 296 RILQGD-----VGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALER 370 (700) Q Consensus 296 RLLQGD-----VGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~ 370 (700) .|++|+ .|-|||+||.++++..+-+|..|-+....+-||+--.+...+++.-+|++|.++++.++..+|++.|. T Consensus 100 ~L~~G~IaEM~TGEGKTL~atlpaylnAL~GkgVHvVTvNDYLA~RDaewm~piy~fLGLtvg~i~~~~~~~err~aY~- 178 (775) T PRK12326 100 RLLAGDVVEMATGEGKTLAGAIAAAGYALGGRRVHVITVNDYLARRDAEWMGPLLEAFGLTVGWITEESTAEERRAAYA- 178 (775) T ss_pred HHHCCCEEEEECCCCHHHHHHHHHHHHHHCCCCCEEEECCHHHHHHHHHHHHHHHHHHCCEECCCCCCCCHHHHHHHCC- T ss_conf 9845953676068858999999999996369980898225687887699999999982977653789999799998446- Q ss_pred HCCCCCEEEEECHHHCC------------CCCCCCCCCEEEECCCC---------------------------------- Q ss_conf 21347548641112013------------34554444178852101---------------------------------- Q gi|254780945|r 371 IAHGQAHIIIGTHALFQ------------DSIQYYKLILVIVDEQH---------------------------------- 404 (700) Q Consensus 371 i~~G~~~iiIGTHAL~q------------~~v~F~~LgLvViDEQH---------------------------------- 404 (700) +||+-||..=|- ++..-..+-.+||||=- T Consensus 179 -----~DItY~Tn~E~GFDYLRDnm~~~~~~~vqr~~~faIVDEvDSILIDEArTPLIISG~~~~~~~~~~~~~~v~~L~ 253 (775) T PRK12326 179 -----CDVTYASVNEIGFDVLRDQLVTDVADLVSPNPDVAIIDEADSVLVDEALVPLVLAGTTHRETPRGEIIRLVRELK 253 (775) T ss_pred -----CCCCCCCCCCCCCCCCHHHHCCCHHHHCCCCCCEEEEECCCHHHHHCCCCCEEECCCCCCCCHHHHHHHHHHHCC T ss_conf -----877311555532445513212698884367787599864200012135777065089877664999999998567 Q ss_pred -------------------------------------------------------------------------------- Q ss_conf -------------------------------------------------------------------------------- Q gi|254780945|r 405 -------------------------------------------------------------------------------- 404 (700) Q Consensus 405 -------------------------------------------------------------------------------- 404 (700) T Consensus 254 ~~~dy~iDe~~k~v~LTe~G~~~vE~~l~~~~ly~~~~~~~~l~~v~~AL~A~~l~~rDvdYIV~dg~V~IVDe~TGR~m 333 (775) T PRK12326 254 EGKDYTTDEDRRNVHLTDKGARKVEKALGGIDLYSEEHVGTTLTEVNVALHAHVLLQRDVHYIVRDGAVHLINASRGRIA 333 (775) T ss_pred CCCCEEEECCCCEEEECCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEECCEEEEEECCCCCCC T ss_conf 88887985476644225138999999708876467321789999999999899988579747998786899516778767 Q ss_pred ---CC--CHHHHHHHHHC------C-------------CCCCCEEECHHHHHHHHHHHHHHCCCHHHHC-CCCCCCCCCE Q ss_conf ---33--56889987402------5-------------6776101010132278999975201011110-2355766620 Q gi|254780945|r 405 ---RF--GVQQRLKLTQK------A-------------TAPHVLLMTATPIPRTLVLTSLGDIDISKIT-EKPAGRKPIK 459 (700) Q Consensus 405 ---RF--GV~QR~~L~~K------g-------------~~ph~L~MtATPIPRTLal~~ygdldvS~i~-e~P~gR~~I~ 459 (700) |+ |.+|=..-.+. + ..|.+==||-|--.-.--+.-.=+|+|..|. .+|.-|+.-. T Consensus 334 ~gRrwsdGLHQAiEAKEgv~i~~e~~tlAsIT~Qn~Fr~Y~kLsGMTGTA~t~~~Ef~~iY~L~V~~IPtn~P~~R~D~~ 413 (775) T PRK12326 334 QLQRWPDGLQAAVEAKEGLETTETGEVLDTITVQALINRYPTVCGMTGTALAAGEQLRQFYKLGVSVIPPNKPNIREDEA 413 (775) T ss_pred CCCCCCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCEEEECCCCCCEEEECC T ss_conf 89846730679999964987688873145427999997522753777761669999999748865991799984104588 Q ss_pred EEEEEC--CCHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHH Q ss_conf 799970--200268999976310387389997120122111210146666666866371031201469989999999997 Q gi|254780945|r 460 TVIIPI--NRIDEVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSF 537 (700) Q Consensus 460 T~~~~~--~~~~~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F 537 (700) ..++.. ++...+.+.|++.-+.|+-|-|-+.-|++||.+ .+.|++. +-...+|.-|-...|-+-|-++= T Consensus 414 D~vy~t~~~K~~Avv~ei~~~h~~GqPVLVGT~SVe~SE~l--------s~~L~~~-gi~h~VLNAk~~~~EA~IIA~AG 484 (775) T PRK12326 414 DRVYATAAEKNDAIVEHIAEVHETGQPVLVGTRDVAESEEL--------AERLVRR-GVPAVVLNAKNDAEEAAVIAEAG 484 (775) T ss_pred CEEECCHHHHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHH--------HHHHHHC-CCCCEECCCCCHHHHHHHHHHCC T ss_conf 81646999999999999999997599889970718989999--------9999876-99830236897276999999459 Q ss_pred HCCCEEEEEECHHHHCCCCCCC-------------CCEEEEECHHHCCHHHH-HHHHHCCCCCCCCEEEEEEECCC Q ss_conf 5598699998003410468887-------------65899858525474688-77301166789835999970888 Q gi|254780945|r 538 KNGTCKLLIATTVIEVGIDVVD-------------ASIIIIENAEHFGLAQL-HQLRGRVGRGEEISSCILLYHPP 599 (700) Q Consensus 538 ~~g~~~iLvaTtviEVGvdvpn-------------a~~mvI~~aerfGLsqL-HQLRGRVGRg~~~s~c~l~~~~~ 599 (700) +.| .|-|||.+---|.|+.= +--.-|...||.--+-+ -|||||-||-+.+|..-+..+-+ T Consensus 485 ~~G--aVTIATNMAGRGTDIkLGg~~e~~~~~V~elGGL~VIgterheSrRIDnQLrGRaGRQGDPGsS~FflSLE 558 (775) T PRK12326 485 KYG--AVTVSTQMAGRGTDIRLGGSDEADHDRVVELGGLHVVGTGRHRSQRLDNQLRGRAGRQGDPGSSVFFVSWE 558 (775) T ss_pred CCC--CEEEECCCCCCCCCEECCCCCHHHHHHHHHCCCEEEEECCCCHHHHHHHHHHCCCCCCCCCCCCEEEEEEC T ss_conf 999--87982336789868414897223247898659907852143334677867622312379998615899703 No 94 >PRK09200 preprotein translocase subunit SecA; Reviewed Probab=99.06 E-value=5e-08 Score=82.52 Aligned_cols=278 Identities=20% Similarity=0.247 Sum_probs=181.5 Q ss_pred CCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCC-----CHHHHHHHHHHHCCCC Q ss_conf 14422369999997334443054588612799999999862110145786589962464-----2256676877621347 Q gi|254780945|r 301 DVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNM-----PQAHRRKALERIAHGQ 375 (700) Q Consensus 301 DVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~-----~~~er~~i~~~i~~G~ 375 (700) -.|-|||+||.++++..+-+|.-|-+....+-||+--++...+++.-+|++|.+..+.+ +..+|++.+. T Consensus 99 ~TGEGKTL~a~l~~~l~al~g~~vhvvTvNdYLA~RDa~~m~~iy~~lGl~vg~~~~~~~~~~~~~~~r~~~Y~------ 172 (799) T PRK09200 99 QTGEGKTLTATMPLYLNALEGKGVHLITTNDYLAKRDFEEMGQVYEFLGLTVGLNFSDIDDYEYQAGEKKAIYE------ 172 (799) T ss_pred CCCCCHHHHHHHHHHHHHHCCCCCEEEECCHHHHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCCHHHHHHHHH------ T ss_conf 17885899999999999746998189800557778879999999998296583336888644379799998874------ Q ss_pred CEEEEECHHHCC------------CCCCCCCCCEEEECCCC----------------------CCCHHHHH--------- Q ss_conf 548641112013------------34554444178852101----------------------33568899--------- Q gi|254780945|r 376 AHIIIGTHALFQ------------DSIQYYKLILVIVDEQH----------------------RFGVQQRL--------- 412 (700) Q Consensus 376 ~~iiIGTHAL~q------------~~v~F~~LgLvViDEQH----------------------RFGV~QR~--------- 412 (700) +||+-||.+=|. ++..-..+-.+||||=- -|....+. T Consensus 173 ~di~Y~tn~e~gfDyLrDn~~~~~~~~v~r~~~~aivDEvDsiLiDeArtPliisg~~~~~~~~~~~~~~~~~~l~~~~d 252 (799) T PRK09200 173 ADIIYTTNSELGFDYLRDNLADSKEDKVLRPLNYAIIDEVDSILLDEAQTPLVISGAPRVQSNLYHIAAEFVKTLEEDVD 252 (799) T ss_pred CCCEECCCCCCHHHHHCCCCCCCHHHCCCCCCCEEEEECHHHHHHHCCCCCCEECCCCCCCHHHHHHHHHHHHCCCCCCC T ss_conf 77222356540034530120156765257789668985326677741356412148987652799999999852677443 Q ss_pred ----------HHHHCC---------------------------------------------------------------- Q ss_conf ----------874025---------------------------------------------------------------- Q gi|254780945|r 413 ----------KLTQKA---------------------------------------------------------------- 418 (700) Q Consensus 413 ----------~L~~Kg---------------------------------------------------------------- 418 (700) .|.++| T Consensus 253 y~~d~~~~~v~lt~~G~~~~e~~~~~~~l~~~~~~~~~~~i~~al~A~~~~~~d~~YiV~~~~v~ivDe~TGR~~~gr~~ 332 (799) T PRK09200 253 YEFDKEKKEVWLTDQGIEKAESYFGIDNLYSEEHQVLVRHIILALRAHYLFERDVDYIVYDGEIVLIDRFTGRVLPGRKL 332 (799) T ss_pred EEEEHHCCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCEEEECCCEEEEECCCCCCCCCCCC T ss_conf 78511006776244579999997099754765577899999999999999845862798668189987898874899826 Q ss_pred ---------------------------------CCCCCEEECHHHHHHHHHH---HHHHCCCHHHH-CCCCCCCCCCEEE Q ss_conf ---------------------------------6776101010132278999---97520101111-0235576662079 Q gi|254780945|r 419 ---------------------------------TAPHVLLMTATPIPRTLVL---TSLGDIDISKI-TEKPAGRKPIKTV 461 (700) Q Consensus 419 ---------------------------------~~ph~L~MtATPIPRTLal---~~ygdldvS~i-~e~P~gR~~I~T~ 461 (700) ..+++=-||.|- .|-+- .+| +|+|..| ..+|.-|+.-... T Consensus 333 s~GlhQaiEaKE~v~i~~e~~t~a~it~Qn~Fr~y~kl~GmTGTa--~~~~~Ef~~iY-~l~v~~iPtn~p~~r~d~~d~ 409 (799) T PRK09200 333 QDGLHQAIEAKEGVEVTEENRTMASITIQNLFRMFPKLSGMTGTA--KTEEKEFFEVY-NMEVVQIPTNRPIIRIDYPDK 409 (799) T ss_pred CHHHHHHHHHHCCCCCCCCCCCEEEEEHHHHHHHCCHHCCCCCCC--HHHHHHHHHHH-CCCEEECCCCCCCEEEECCCC T ss_conf 657799999870898788873126644898986472312576760--98999999986-877698899998544547430 Q ss_pred EEEC--CCHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHC Q ss_conf 9970--20026899997631038738999712012211121014666666686637103120146998999999999755 Q gi|254780945|r 462 IIPI--NRIDEVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKN 539 (700) Q Consensus 462 ~~~~--~~~~~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~ 539 (700) +... ++...+.+.+++.-++|+-|-|.|..||.||.+ | +.|++. +-...+|+.|- .++|+.+=+=.- T Consensus 410 v~~t~~~k~~av~~~v~~~~~~g~pvLvgt~sv~~Se~~---s-----~~L~~~-~i~h~vLnAk~--~~~Ea~Iia~AG 478 (799) T PRK09200 410 VFATVDEKYKAVIEEVKERHETGRPVLIGTGSIEQSEYF---S-----KLLFEA-GIPHNLLNAKN--AAQEAQIIAEAG 478 (799) T ss_pred CCCCHHHHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHH---H-----HHHHHC-CCCHHHCCCCC--HHHHHHHHHHCC T ss_conf 108999999999999999985799889983857999999---9-----999865-76433205321--778999998278 Q ss_pred CCEEEEEECHHHHCCCCCC------CCCEEEEECHHHCCHHH-HHHHHHCCCCCCCCEEEEEEECC Q ss_conf 9869999800341046888------76589985852547468-87730116678983599997088 Q gi|254780945|r 540 GTCKLLIATTVIEVGIDVV------DASIIIIENAEHFGLAQ-LHQLRGRVGRGEEISSCILLYHP 598 (700) Q Consensus 540 g~~~iLvaTtviEVGvdvp------na~~mvI~~aerfGLsq-LHQLRGRVGRg~~~s~c~l~~~~ 598 (700) ..-.|-|||..---|.|+. .+--.-|...||.--+- --|||||-||-+.+|..-+..+- T Consensus 479 ~~g~vTiaTnMAGRGtDI~l~~~v~~~GGL~Vigterhes~Rid~QlrGR~gRQGdpG~s~f~~sl 544 (799) T PRK09200 479 QKGAVTVATNMAGRGTDIKLGEGVHELGGLAVIGTERMESRRVDLQLRGRSGRQGDPGSSQFFISL 544 (799) T ss_pred CCCEEEEECCCCCCCCCCCCCCCHHHCCCEEEEECCCCCHHHHHHHHCCCCCCCCCCCCEEEEEEC T ss_conf 999489845455898695338453543881774034451466776751653457999854899851 No 95 >PRK12904 preprotein translocase subunit SecA; Reviewed Probab=99.06 E-value=2.9e-08 Score=84.33 Aligned_cols=281 Identities=22% Similarity=0.252 Sum_probs=176.7 Q ss_pred CCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEE Q ss_conf 14422369999997334443054588612799999999862110145786589962464225667687762134754864 Q gi|254780945|r 301 DVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIII 380 (700) Q Consensus 301 DVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiI 380 (700) -.|-|||+||.++++..+-+|.-|-+....+-||+--++...+++.-+|++|.++++.++..+|++.|. +||+- T Consensus 102 ~TGEGKTL~atlp~ylnal~g~gvhvvTvNdYLA~RDa~~m~~~~~~lGltvg~i~~~~~~~~r~~aY~------~ditY 175 (833) T PRK12904 102 KTGEGKTLVATLPAYLNALTGKGVHVVTVNDYLAKRDAEWMGPLYNFLGLSVGVILSGMSPEERREAYA------ADITY 175 (833) T ss_pred ECCCCHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHHHHHCCEEEEECCCCCHHHHHHHHH------CCEEE T ss_conf 068858999999999997369981998155577787799999999981978804389998399999863------77134 Q ss_pred ECHHHCCCC------------CCCCCCCEEEECCCC----------------------CCCHHHHH-------------- Q ss_conf 111201334------------554444178852101----------------------33568899-------------- Q gi|254780945|r 381 GTHALFQDS------------IQYYKLILVIVDEQH----------------------RFGVQQRL-------------- 412 (700) Q Consensus 381 GTHAL~q~~------------v~F~~LgLvViDEQH----------------------RFGV~QR~-------------- 412 (700) ||..=|-=| ..-..+-.+||||=- .|...-+. T Consensus 176 ~tn~e~gFDyLrDnm~~~~~~~v~r~~~~aivDE~DSiLiDeArtPLiisg~~~~~~~~y~~~~~~~~~l~~~~dy~~d~ 255 (833) T PRK12904 176 GTNNEFGFDYLRDNMVFSLEDRVQRGLNYAIVDEVDSILIDEARTPLIISGPAEDSSELYKRANKFVPTLKKEGDYTVDE 255 (833) T ss_pred ECCCCCCCCCCCCCCCCCHHHHHHHCCCEEEEECCHHHEEECCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCCEEEEC T ss_conf 12543245412555437889875012572688641132013267773886788777799999999999747878679951 Q ss_pred -----HHHHCC--------------------------------------------------------------------- Q ss_conf -----874025--------------------------------------------------------------------- Q gi|254780945|r 413 -----KLTQKA--------------------------------------------------------------------- 418 (700) Q Consensus 413 -----~L~~Kg--------------------------------------------------------------------- 418 (700) .|.++| T Consensus 256 ~~~~v~lt~~G~~~~e~~~~~~~ly~~~~~~~~~~i~~al~A~~l~~~d~dYiV~d~~v~ivDe~TGR~m~grr~~~Glh 335 (833) T PRK12904 256 KSRTVGLTEEGIEKAEKLLGIENLYDPENIALVHHVNQALRAHYLFKRDVDYIVKDGEVVIVDEFTGRLMPGRRYSDGLH 335 (833) T ss_pred CCCCCCCCHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEECCEEEEEECCCCCCCCCCCCCHHHH T ss_conf 55775314526999998506566578432369998899999999985687079887907998667776267870654779 Q ss_pred ----------------------------CCCCCEEECHHHHHHHHHHHHHHCCCHHHHC-CCCCCCCCCEEEEEEC--CC Q ss_conf ----------------------------6776101010132278999975201011110-2355766620799970--20 Q gi|254780945|r 419 ----------------------------TAPHVLLMTATPIPRTLVLTSLGDIDISKIT-EKPAGRKPIKTVIIPI--NR 467 (700) Q Consensus 419 ----------------------------~~ph~L~MtATPIPRTLal~~ygdldvS~i~-e~P~gR~~I~T~~~~~--~~ 467 (700) ..+.+==||.|--.-.--+.-.=+|+|..|. .+|.-|+.-...++.. .+ T Consensus 336 QaiEaKE~v~i~~e~~t~a~iT~Qn~Fr~y~klsGMTGTa~te~~Ef~~iY~l~V~~IPtn~p~~R~d~~d~iy~t~~~K 415 (833) T PRK12904 336 QAIEAKEGVKIQNENQTLASITFQNYFRMYEKLAGMTGTADTEAEEFREIYNLDVVVIPTNRPMIRIDHPDLIYKTEKEK 415 (833) T ss_pred HHHHHHHCCCCCCCCCEEEEEEHHHHHHHCCHHCCCCCCCHHHHHHHHHHHCCCEEECCCCCCCEEEECCCCEECCHHHH T ss_conf 99999848877888700123029889832755135677867789999998688769858999854360887020799999 Q ss_pred HHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEE Q ss_conf 02689999763103873899971201221112101466666668663710312014699899999999975598699998 Q gi|254780945|r 468 IDEVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIA 547 (700) Q Consensus 468 ~~~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLva 547 (700) ...+.+.|.+.-.+|+-|-|-...||.||.+ | +.|++. +-...+|..|-. ++|+.+=+=.-..-.|-|| T Consensus 416 ~~ai~~ei~~~~~~gqPvLvGT~sve~SE~l---s-----~~L~~~-~i~h~vLNAk~~--~~EA~Iia~AG~~gaVTiA 484 (833) T PRK12904 416 FDAVVEDIKERHKKGQPVLVGTTSIEKSELL---S-----KLLKKA-GIPHNVLNAKNH--EREAEIIAQAGRPGAVTIA 484 (833) T ss_pred HHHHHHHHHHHHHCCCCEEEECCCHHHHHHH---H-----HHHHHC-CCCHHHCCCCHH--HHHHHHHHHCCCCCCEEEE T ss_conf 9999999999997699789942747989999---9-----999873-782776177366--6688999955999976874 Q ss_pred CHHHHCCCCCCC-----------------------------------CCEEEEECHHHCCHHHH-HHHHHCCCCCCCCEE Q ss_conf 003410468887-----------------------------------65899858525474688-773011667898359 Q gi|254780945|r 548 TTVIEVGIDVVD-----------------------------------ASIIIIENAEHFGLAQL-HQLRGRVGRGEEISS 591 (700) Q Consensus 548 TtviEVGvdvpn-----------------------------------a~~mvI~~aerfGLsqL-HQLRGRVGRg~~~s~ 591 (700) |.+---|.|+.= +--.-|...||.--.-. -|||||-||-+.+|. T Consensus 485 TNMAGRGTDI~LGGn~e~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~GGL~VigterhesrRiD~QLrGR~GRQGDpG~ 564 (833) T PRK12904 485 TNMAGRGTDIKLGGNPEMLAAGLEDETEEQIAKIKAEWQKEHEEVLEAGGLHVIGTERHESRRIDNQLRGRSGRQGDPGS 564 (833) T ss_pred ECCCCCCCCEECCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHCCCCCCCCCCC T ss_conf 02567886821688633444432001466788888887653377886389279851433346678786122145689985 Q ss_pred EEEEECC Q ss_conf 9997088 Q gi|254780945|r 592 CILLYHP 598 (700) Q Consensus 592 c~l~~~~ 598 (700) .-+..+- T Consensus 565 s~f~lSl 571 (833) T PRK12904 565 SRFYLSL 571 (833) T ss_pred CEEEEEC T ss_conf 3265412 No 96 >COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair] Probab=99.05 E-value=2.1e-07 Score=77.68 Aligned_cols=306 Identities=21% Similarity=0.288 Sum_probs=195.9 Q ss_pred HHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHH-HHHCCEEEEEHHHHHHHHHHH Q ss_conf 8999986302467988999999999841001343078862144223699999973344-430545886127999999998 Q gi|254780945|r 261 IAQKILRNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAV-EAGGQAVIMAPIGILAQQHYE 339 (700) Q Consensus 261 ~~~~f~~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~-~~G~Q~alMaPTEILA~QH~~ 339 (700) ....+.+.||-. ....+|.+-+...... +|.|..|||||-=--..++.+- ..+...++.=|-.|=|+=-.+ T Consensus 41 ~~~~~~~~LPv~------~~~~~i~~ai~~~~vv--ii~getGsGKTTqlP~~lle~g~~~~g~I~~tQPRRlAArsvA~ 112 (845) T COG1643 41 DILEYRSGLPVT------AVRDEILKAIEQNQVV--IIVGETGSGKTTQLPQFLLEEGLGIAGKIGCTQPRRLAARSVAE 112 (845) T ss_pred HHHHCCCCCCCH------HHHHHHHHHHHHCCEE--EEECCCCCCHHHHHHHHHHHHHCCCCCEEEECCCHHHHHHHHHH T ss_conf 043222139818------8899999999869789--98679988758788999996001668759965843899999999 Q ss_pred HHHHHCCC-CCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECH----HHCCCCCCCCCCCEEEECCCCCCCHHHHHHH Q ss_conf 62110145-786589962464225667687762134754864111----2013345544441788521013356889987 Q gi|254780945|r 340 FIKKYTQN-TQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTH----ALFQDSIQYYKLILVIVDEQHRFGVQQRLKL 414 (700) Q Consensus 340 ~~~~~~~~-~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTH----AL~q~~v~F~~LgLvViDEQHRFGV~QR~~L 414 (700) .+.+-+.. .|-.|....- ++.-.+.+-.|-+=|- .-+|.+-..+..+.|||||=|-=.++-=..| T Consensus 113 RvAeel~~~~G~~VGY~iR----------fe~~~s~~Trik~mTdGiLlrei~~D~~Ls~ys~vIiDEaHERSl~tDilL 182 (845) T COG1643 113 RVAEELGEKLGETVGYSIR----------FESKVSPRTRIKVMTDGILLREIQNDPLLSGYSVVIIDEAHERSLNTDILL 182 (845) T ss_pred HHHHHHCCCCCCEEEEEEE----------EECCCCCCCEEEEECCHHHHHHHHHCCCCCCCCEEEEECHHHHHHHHHHHH T ss_conf 9999838986765437999----------622678771468951479999984380204587799701335568889999 Q ss_pred --HH---CCCC--CCCEEECHHHHHHHHHHHHHHCCCHHHHCCCCCCCC-CCEEEEEECCCHHH-H----HHHHHHHHCC Q ss_conf --40---2567--761010101322789999752010111102355766-62079997020026-8----9999763103 Q gi|254780945|r 415 --TQ---KATA--PHVLLMTATPIPRTLVLTSLGDIDISKITEKPAGRK-PIKTVIIPINRIDE-V----IERLKVVLSE 481 (700) Q Consensus 415 --~~---Kg~~--ph~L~MtATPIPRTLal~~ygdldvS~i~e~P~gR~-~I~T~~~~~~~~~~-~----~~~i~~~l~~ 481 (700) .. +... --+++||||==+--++- +|++-.+-.|. ||. ||.++.......+. + ...+...+.. T Consensus 183 gllk~~~~~rr~DLKiIimSATld~~rfs~-~f~~apvi~i~----GR~fPVei~Y~~~~~~d~~l~~ai~~~v~~~~~~ 257 (845) T COG1643 183 GLLKDLLARRRDDLKLIIMSATLDAERFSA-YFGNAPVIEIE----GRTYPVEIRYLPEAEADYILLDAIVAAVDIHLRE 257 (845) T ss_pred HHHHHHHHHCCCCCEEEEEECCCCHHHHHH-HCCCCCEEEEC----CCCCCEEEEECCCCCCCHHHHHHHHHHHHHHCCC T ss_conf 999999864688705999725358899997-62899878755----8866447886577775136999999999996368 Q ss_pred CC-EEEEEECCCCCCCCCCCCHHHHHHHHHHH-HCC-C-CEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCC Q ss_conf 87-38999712012211121014666666686-637-1-03120146998999999999755986999980034104688 Q gi|254780945|r 482 GK-KAYWICPQIEEKKESNFRSVVERFNSLHE-HFT-S-SIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDV 557 (700) Q Consensus 482 g~-q~y~VcPlIeese~~~~~~~~~~~~~l~~-~~~-~-~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdv 557 (700) +. -+.+--|=. ..+...++.|.+ .++ + .|--|||.|+.+|.+++.+--..|.-+|.+||.|-|-++.| T Consensus 258 ~~GdILvFLpG~--------~EI~~~~~~L~~~~l~~~~~i~PLy~~L~~~eQ~rvF~p~~~~~RKVVlATNIAETSLTI 329 (845) T COG1643 258 GSGSILVFLPGQ--------REIERTAEWLEKAELGDDLEILPLYGALSAEEQVRVFEPAPGGKRKVVLATNIAETSLTI 329 (845) T ss_pred CCCCEEEECCCH--------HHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHCCCCCCCCCEEEEECCEEECCEEE T ss_conf 999889977868--------999999999973244788389404035998999866287888860499975140013115 Q ss_pred CCCCEEEEEC-------HHHCCHHHH----------HHHHHCCCCCCCCEEEEEEECC Q ss_conf 8765899858-------525474688----------7730116678983599997088 Q gi|254780945|r 558 VDASIIIIEN-------AEHFGLAQL----------HQLRGRVGRGEEISSCILLYHP 598 (700) Q Consensus 558 pna~~mvI~~-------aerfGLsqL----------HQLRGRVGRg~~~s~c~l~~~~ 598 (700) |+....|=-+ -.+.|++.| -|=.||-|| ..+|.||=+|+. T Consensus 330 ~gIr~VIDsG~ak~~~y~~~~g~~~L~~~~ISqAsA~QRaGRAGR-~~pGicyRLyse 386 (845) T COG1643 330 PGIRYVIDSGLAKEKRYDPRTGLTRLETEPISKASADQRAGRAGR-TGPGICYRLYSE 386 (845) T ss_pred CCEEEEEECCCCCCCCCCCCCCCEEEEEEEECHHHHHHHCCCCCC-CCCCEEEEECCH T ss_conf 785899848825210035134852666787505323343455457-778528994479 No 97 >CHL00122 secA preprotein translocase subunit SecA; Validated Probab=99.04 E-value=7e-08 Score=81.38 Aligned_cols=242 Identities=19% Similarity=0.257 Sum_probs=161.3 Q ss_pred CCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEE Q ss_conf 14422369999997334443054588612799999999862110145786589962464225667687762134754864 Q gi|254780945|r 301 DVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIII 380 (700) Q Consensus 301 DVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiI 380 (700) -.|-|||+||.++++..+-+|.-|-+....+-||+--++...+.+.-+|++|.++++.++..+|++.|. +||+- T Consensus 97 ~TGEGKTL~atlp~ylnal~GkgvhvvTvNdYLA~RDae~m~~vy~~lGlsvg~i~~~~~~~er~~aY~------~DItY 170 (891) T CHL00122 97 KTGEGKTLVATLPAYLNALTGKGVHIVTVNDYLARRDSEWMGQIYRFLGLSVGLIQEDMSIEERKQNYK------ADITY 170 (891) T ss_pred CCCCCHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHHHHHCCEEEEECCCCCHHHHHHHHC------CCCEE T ss_conf 068857999999999997559972998064565686699999999982966702089999799999835------89279 Q ss_pred ECHHHCC------------CCCCCCCCCEEEECCCC----------------------C----------------CCHHH Q ss_conf 1112013------------34554444178852101----------------------3----------------35688 Q gi|254780945|r 381 GTHALFQ------------DSIQYYKLILVIVDEQH----------------------R----------------FGVQQ 410 (700) Q Consensus 381 GTHAL~q------------~~v~F~~LgLvViDEQH----------------------R----------------FGV~Q 410 (700) ||..=|- ++..-..+-++||||=- . |-|.. T Consensus 171 ~Tn~e~gFDyLRDnm~~~~~~~vqr~~~~aIvDEvDSiLIDEArtPLiIsg~~~~~~~~y~~~~~~~~~l~~~~dy~~d~ 250 (891) T CHL00122 171 VTNSELGFDYLRDNMALSLSEVVQRPFNYCIIDEVDSILIDEARTPLIISGPVETPIDKYIVAAEIANYLEKDVHYEVDE 250 (891) T ss_pred ECCCCEECCCCCCCCCCCHHHHHCCCCCEEEEECHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCCEEECH T ss_conf 78876222566633236878840889973788640455432256885862798774478999999986437766678622 Q ss_pred HH---HHHHCC--------------------------------------------------------------------- Q ss_conf 99---874025--------------------------------------------------------------------- Q gi|254780945|r 411 RL---KLTQKA--------------------------------------------------------------------- 418 (700) Q Consensus 411 R~---~L~~Kg--------------------------------------------------------------------- 418 (700) +. .|.++| T Consensus 251 ~~~~v~lte~G~~~~e~~l~~~~ly~~~~~~~~~i~~al~A~~lf~~d~dYiV~d~~v~ivDe~TGR~m~grr~s~GLHQ 330 (891) T CHL00122 251 KNRNIILTDQGILQCEKILKIKDLYDPEDPWIPYILNAIKAKELFIKNVHYIVRNNEIIIVDEFTGRIMPGRRWSDGLHQ 330 (891) T ss_pred HHCCCCCCHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEECCEEEEEECCCCCCCCCCCCCHHHHH T ss_conf 31578506326999986137534478543399999999999987606974899889899986788887899935647799 Q ss_pred ---------------------------CCCCCEEECHHHHHHHHHHHHHHCCCHHHHC-CCCCCCCCCEEEEEEC--CCH Q ss_conf ---------------------------6776101010132278999975201011110-2355766620799970--200 Q gi|254780945|r 419 ---------------------------TAPHVLLMTATPIPRTLVLTSLGDIDISKIT-EKPAGRKPIKTVIIPI--NRI 468 (700) Q Consensus 419 ---------------------------~~ph~L~MtATPIPRTLal~~ygdldvS~i~-e~P~gR~~I~T~~~~~--~~~ 468 (700) ..+.+==||.|-..-.--+.--=+|+|..|. .+|.-|+.-...++.. .+. T Consensus 331 aiEaKE~v~i~~e~~t~A~IT~Qn~Fr~y~klsGMTGTA~te~~Ef~~iY~l~Vv~IPtn~p~~R~D~~d~vy~t~~~K~ 410 (891) T CHL00122 331 AIEAKENVPIQQETQTLASITYQNFFLLYPKLSGMTGTAKTEEVELEKIYNLEVICIPTHRPMQRKDLPDLVYKTEYSKW 410 (891) T ss_pred HHHHHCCCCCCCCCCEEEEEEHHHHHHHCCHHCCCCCCCHHHHHHHHHHHCCCEEECCCCCCCEEEECCCEEECCHHHHH T ss_conf 99987188778887213666599998545042267567687899999985884798899998500308895778899999 Q ss_pred HHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEEC Q ss_conf 26899997631038738999712012211121014666666686637103120146998999999999755986999980 Q gi|254780945|r 469 DEVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIAT 548 (700) Q Consensus 469 ~~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaT 548 (700) ..+.+.|++.-++|+-|-|-...||.||.+ | +.|++. +-...+|..|-...++|+.+=+=.--.-.|-||| T Consensus 411 ~Av~~ei~~~h~~GqPVLvGT~SVe~SE~l---s-----~~L~~~-gi~h~vLNAk~~n~~~EA~IiA~AG~~gaVTIAT 481 (891) T CHL00122 411 KAIADECFDMHKIGRPILVGTTSVEKSELL---S-----QLLEEY-QLPHNLLNAKPENVKRESEIIAQAGRKGAITIAT 481 (891) T ss_pred HHHHHHHHHHHHCCCCEEEECCCHHHHHHH---H-----HHHHHC-CCCCHHHCCCCCCHHHHHHHHHHCCCCCCEEEEC T ss_conf 999999999996799989834655889999---9-----999974-7862202388430789999999569999389715 Q ss_pred HHHHCCCCC Q ss_conf 034104688 Q gi|254780945|r 549 TVIEVGIDV 557 (700) Q Consensus 549 tviEVGvdv 557 (700) .+---|.|+ T Consensus 482 NMAGRGTDI 490 (891) T CHL00122 482 NMAGRGTDI 490 (891) T ss_pred CCCCCCCCE T ss_conf 556898784 No 98 >PRK13103 secA preprotein translocase subunit SecA; Reviewed Probab=98.98 E-value=6.2e-08 Score=81.81 Aligned_cols=96 Identities=26% Similarity=0.349 Sum_probs=80.0 Q ss_pred CCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEE Q ss_conf 14422369999997334443054588612799999999862110145786589962464225667687762134754864 Q gi|254780945|r 301 DVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIII 380 (700) Q Consensus 301 DVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiI 380 (700) -.|-|||+||.++++..+-+|.-|-+....+-||+--.+...+++.-+|+.|.+++..++..+|++.|. +||.- T Consensus 103 ~TGEGKTL~atlp~ylnal~g~gvhvvTvNdYLA~RDae~m~~~y~~lGltvg~i~~~~~~~~r~~aY~------~DitY 176 (913) T PRK13103 103 RTGEGKTLVGTLAVYLNALSGKGVHVVTVNDYLARRDANWMRPLYEFLGLSVGIVTPFQPPEEKRAAYA------ADITY 176 (913) T ss_pred CCCCCHHHHHHHHHHHHHHCCCCEEEECCCHHHHHHHHHHHHHHHHHHCCEEEECCCCCCHHHHHHHCC------CCCEE T ss_conf 178855999999999987559970997265365586699999999981976855189999799997466------88644 Q ss_pred ECHHHCC------------CCCCCCCCCEEEECC Q ss_conf 1112013------------345544441788521 Q gi|254780945|r 381 GTHALFQ------------DSIQYYKLILVIVDE 402 (700) Q Consensus 381 GTHAL~q------------~~v~F~~LgLvViDE 402 (700) ||..=|- ++..-..+.++|||| T Consensus 177 ~tn~e~gFDyLRDnm~~~~~~~vqr~~~~aivDE 210 (913) T PRK13103 177 GTNNEFGFDYLRDNMAFSLDDKFQRELNFAVIDE 210 (913) T ss_pred ECCCCCCCCCCCCCHHCCHHHHCCCCCCEEEEEC T ss_conf 3576433534573310487884366776478742 No 99 >PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated Probab=98.97 E-value=4.6e-06 Score=67.16 Aligned_cols=134 Identities=23% Similarity=0.324 Sum_probs=101.4 Q ss_pred CCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHH-HHHHHHCCEEEEEHHHHHHHHHHHH----HHHH Q ss_conf 2467988999999999841001343078862144223699999973-3444305458861279999999986----2110 Q gi|254780945|r 270 PFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMA-AAVEAGGQAVIMAPIGILAQQHYEF----IKKY 344 (700) Q Consensus 270 PF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l-~~~~~G~Q~alMaPTEILA~QH~~~----~~~~ 344 (700) .|+.=.+|.+-.+.|.+-+..+.++ +++--+|+|||+=+++.++ .+..+|.++++-.+|-.|-+|.++. +.+. T Consensus 256 ~ye~R~~Q~~ma~~V~~al~~~~~l--~iEApTGtGKTlaYLlPai~~A~~~~~~vvIST~T~~LQ~QL~~kdlp~L~~~ 333 (932) T PRK08074 256 GYEKREGQQEMMKEVYTALRDSRHA--LIEAGTGTGKTLAYLLPAAYFAKKKEEPVIISTYTVQLQQQLLEKDIPLLQKI 333 (932) T ss_pred CCCCCHHHHHHHHHHHHHHHCCCCE--EEECCCCCCCHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHHHHH T ss_conf 8875878999999999998538847--99868888713687999999999759909999162889999998689999997 Q ss_pred CCCCCCEEEEEECCCC-----------------------------------HHHH---------HHHHHHHCC------- Q ss_conf 1457865899624642-----------------------------------2566---------768776213------- Q gi|254780945|r 345 TQNTQIIVEIITGNMP-----------------------------------QAHR---------RKALERIAH------- 373 (700) Q Consensus 345 ~~~~~i~v~lLtg~~~-----------------------------------~~er---------~~i~~~i~~------- 373 (700) + +++++++++.|+.. ..++ ..+|+.+.+ T Consensus 334 l-~~~~~~~llKGr~nYlCl~k~~~~l~~~~~~~~~~~~~~~il~Wl~~T~tGD~del~~~~~~~~~w~~i~~~~~~~~~ 412 (932) T PRK08074 334 F-PFPVKAALLKGRSHYLCLRKFEQALQEEDDNYDVALTKAQLLVWLTETETGDLDELNLPSGGKLLWNRIASDGHSPGG 412 (932) T ss_pred H-CCCCCEEEEECCHHCCCHHHHHHHHCCCCCCHHHHHHHHHHHHHHHCCCCCCHHHCCCCCCHHHHHHHHCCCCCCCCC T ss_conf 1-998608999661412776889998535454155788899999987268886887636996348899884557532023 Q ss_pred ------------------CCCEEEEECHHHCCCC-----CCCCCCCEEEECCCCCC Q ss_conf ------------------4754864111201334-----55444417885210133 Q gi|254780945|r 374 ------------------GQAHIIIGTHALFQDS-----IQYYKLILVIVDEQHRF 406 (700) Q Consensus 374 ------------------G~~~iiIGTHAL~q~~-----v~F~~LgLvViDEQHRF 406 (700) -.++|||.-||++-.+ -.+..-..+||||=|.| T Consensus 413 ~~c~~~~~Cf~~~ar~~a~~AdvvI~NHalL~~d~~~~~~ilp~~~~lViDEAH~L 468 (932) T PRK08074 413 KQSPWFSRCFYQRAKNKAKFADIVITNHALLLTDFTSEEPLLPSYEHIIIDEAHHF 468 (932) T ss_pred CCCCCCCCCHHHHHHHHHHHCCEEEECHHHHHHHHHCCCCCCCCCCEEEEECHHHH T ss_conf 55887577989999997642999998889985656414776887676997313231 No 100 >PRK12898 secA preprotein translocase subunit SecA; Reviewed Probab=98.97 E-value=8.8e-08 Score=80.60 Aligned_cols=280 Identities=21% Similarity=0.256 Sum_probs=183.0 Q ss_pred CCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEE Q ss_conf 14422369999997334443054588612799999999862110145786589962464225667687762134754864 Q gi|254780945|r 301 DVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIII 380 (700) Q Consensus 301 DVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiI 380 (700) -.|-|||+||.++++..+-+|.-|-+....+-||+--.+...+++.-+|++|.++++.++..+|++.|. +||+- T Consensus 139 ~TGEGKTL~atlpaylnAL~G~gVHvvTvNDYLA~RDae~mg~iy~fLGLsvg~i~~~~~~~eRr~aY~------~DItY 212 (673) T PRK12898 139 QTGEGKTLTATLPAGTAALAGRPVHVITVNDYLAERDAEQMRPLYEALGVTVGCVIEDQDPEERRAAYG------ADVTY 212 (673) T ss_pred ECCCCHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHHHHHCCEEEEECCCCCHHHHHHHHC------CCCEE T ss_conf 078858999999999997369970898045577787699999999982977845179999799999726------99579 Q ss_pred ECHHHCC-----CCC--------------------------CCCCCCEEEECCCC-------------------CCC--- Q ss_conf 1112013-----345--------------------------54444178852101-------------------335--- Q gi|254780945|r 381 GTHALFQ-----DSI--------------------------QYYKLILVIVDEQH-------------------RFG--- 407 (700) Q Consensus 381 GTHAL~q-----~~v--------------------------~F~~LgLvViDEQH-------------------RFG--- 407 (700) ||..=|- |+. .-..|-++||||=- .-. T Consensus 213 gTn~E~GFDYLRDnm~~~~~~~~~~~~~~~l~~~~~~~~~~vqR~l~fAIVDEvDSILIDEARTPLIISgp~~~~~~~~~ 292 (673) T PRK12898 213 CTNKELVFDYLRDRIALGQRAGDARLALESLRGGSERSGQLLLRGLHFAIVDEADSVLIDEARTPLIISAPAKEEDGAAV 292 (673) T ss_pred ECCHHHHHHHHHHHHHCCCCCCCCCCCCHHHCCCCCCHHHHHCCCCCEEEEECHHHEEECCCCCCCCCCCCCCCCCHHHH T ss_conf 56523324577641302334321111101101334667775135675378733033121024676101477777640899 Q ss_pred HHHHHHHHHC---------------------C------------------------------------------------ Q ss_conf 6889987402---------------------5------------------------------------------------ Q gi|254780945|r 408 VQQRLKLTQK---------------------A------------------------------------------------ 418 (700) Q Consensus 408 V~QR~~L~~K---------------------g------------------------------------------------ 418 (700) ..+-..+..+ | T Consensus 293 y~~a~~~~~~L~~~~dY~iDek~k~v~LTe~G~~~ie~~l~~~~~~~~~~~~~~~~i~~ALrA~~lf~rDvdYIV~dgeV 372 (673) T PRK12898 293 LRRALALAAELQEGEDYRIDAATKQIELTEAGRARIAALAESLPPAWRGAVRREELVRQALSALHLFRRDEHYIVRDGKV 372 (673) T ss_pred HHHHHHHHHHCCCCCCEEEECCCCEEEECHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCEEEECCCE T ss_conf 99999999856788877986688826578679999999724156556531148999999999999985798389978928 Q ss_pred -------------------------------------------------CCCCCEEECHHHHHHHHHH-HHHHCCCHHHH Q ss_conf -------------------------------------------------6776101010132278999-97520101111 Q gi|254780945|r 419 -------------------------------------------------TAPHVLLMTATPIPRTLVL-TSLGDIDISKI 448 (700) Q Consensus 419 -------------------------------------------------~~ph~L~MtATPIPRTLal-~~ygdldvS~i 448 (700) ..+.+==||-|--.=.--+ .+| +|+|..| T Consensus 373 vIVDEfTGR~m~GRrwsdGLHQAIEAKEgV~I~~e~qTlAsIT~QnfFR~Y~kLsGMTGTA~tea~Ef~~iY-~L~Vv~I 451 (673) T PRK12898 373 VIVDEFTGRVMPDRSWSDGLHQAIEAKEGVELTDPRETLARITFQRFFRRYLRLAGMTGTAREVAGELWSVY-GLPVVRI 451 (673) T ss_pred EEEECCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHCCHHCCCCCCCHHHHHHHHHHH-CCCEEEC T ss_conf 998788885068880663789999985399878312356643499999856174057778575799999975-9976986 Q ss_pred -CCCCCCCCCCEEEEEEC--CCHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCC Q ss_conf -02355766620799970--200268999976310387389997120122111210146666666866371031201469 Q gi|254780945|r 449 -TEKPAGRKPIKTVIIPI--NRIDEVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRM 525 (700) Q Consensus 449 -~e~P~gR~~I~T~~~~~--~~~~~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm 525 (700) ..+|.-|+.-...++.. ++.+.+++.|++.-++|+-|-|-+..||.||.+ | +.|++. +-...+|.-|- T Consensus 452 PTnrP~~R~D~~D~vy~t~~~K~~Aii~ei~~~~~~GqPVLVGT~SVe~SE~l---S-----~~L~~~-gi~h~VLNAk~ 522 (673) T PRK12898 452 PTNRPSQRIVLPTEVFLTLAAKWAAVAARVRELHASGRPVLVGTRSVAASERL---S-----ALLREA-GLPHQVLNAKQ 522 (673) T ss_pred CCCCCCCCEECCCEEECCHHHHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHH---H-----HHHHHC-CCCHHHCCCCC T ss_conf 89997301237985856999999999999999986799889983758999999---9-----999986-99756647866 Q ss_pred CHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCC------CCCEEEEECHHHCCHHHH-HHHHHCCCCCCCCEEEEEEECC Q ss_conf 989999999997559869999800341046888------765899858525474688-7730116678983599997088 Q gi|254780945|r 526 SDIDKESVMDSFKNGTCKLLIATTVIEVGIDVV------DASIIIIENAEHFGLAQL-HQLRGRVGRGEEISSCILLYHP 598 (700) Q Consensus 526 ~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvp------na~~mvI~~aerfGLsqL-HQLRGRVGRg~~~s~c~l~~~~ 598 (700) ...|-+-|-++=+.| .|-|||.+---|.|+. .+-=.-|...||--=.-. -|||||-||-+.+|..-+..+- T Consensus 523 ~~~EA~IIA~AG~~G--aVTIATNMAGRGTDI~Lg~~V~~~GGLhVIgTerheSrRIDnQLrGRsGRQGDPGss~f~lSl 600 (673) T PRK12898 523 DAEEAAIVARAGQRG--RITVATNMAGRGTDIKLEPEVAARGGLHVILTERHESARIDRQLAGRCGRQGDPGSSEAILSL 600 (673) T ss_pred HHHHHHHHHHCCCCC--CEEEECCCCCCCCCCCCCHHHHHCCCCEEEECCCCCHHHHHHHHHCCCCCCCCCCCEEEEEEE T ss_conf 687999999439999--879702367898684767678862898898437551124565642354468999851489981 No 101 >TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family; InterPro: IPR004589 The ATP-dependent DNA helicase RecQ (3.6.1 from EC) is involved in genome maintenance . All homologues tested to date unwind paired DNA, translocating in a 3' to 5' direction and several have a preference for forked or 4-way DNA structures (e.g. Holliday junctions) or for G-quartet DNA. The yeast protein, Sgs1, is present in numerous foci that coincide with sites of de novo synthesis DNA, such as the replication fork, and protein levels peak during S-phase. A model has been proposed for Sgs1p action in the S-phase checkpoint response, both as a 'sensor' for damage during replication and a 'resolvase' for structures that arise at paused forks, such as the four-way 'chickenfoot' structure. The action of Sgs1p may serve to maintain the proper amount and integrity of ss DNA that is necessary for the binding of RPA (replication protein A, the eukaryotic ss DNA-binding protein)DNA pol complexes. Sgs1p would thus function by detecting (or resolving) aberrant DNA structures, and would thus contribute to the full activation of the DNA-dependent protein kinase, Mec1p and the effector kinase, Rad53p. Its ability to bind both the large subunit of RPA and the RecA-like protein Rad51p, place it in a unique position to resolve inappropriate fork structures that can occur when either the leading or lagging strand synthesis is stalled. Thus, RecQ helicases integrate checkpoint activation and checkpoint response. ; GO: 0008026 ATP-dependent helicase activity, 0006310 DNA recombination. Probab=98.92 E-value=3.1e-06 Score=68.44 Aligned_cols=317 Identities=19% Similarity=0.306 Sum_probs=219.1 Q ss_pred CHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHH-HHHHHHHHHHHHCCCCCCEE Q ss_conf 98899999999984100134307886214422369999997334443054588612799-99999986211014578658 Q gi|254780945|r 274 TKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGI-LAQQHYEFIKKYTQNTQIIV 352 (700) Q Consensus 274 T~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEI-LA~QH~~~~~~~~~~~~i~v 352 (700) -..|.++|+..+..-... |+-==.|-||.+=+=++++ -.+.=..+..| =| |=+=....+ ...||+. T Consensus 13 rp~Q~e~I~~~L~g~RD~-----~vvMpTG~GKSLCYQ~Pa~---~~~G~t~VIsP-LiSLm~DQV~~L----~~~~i~A 79 (497) T TIGR00614 13 RPVQLEVINAVLEGRRDC-----LVVMPTGGGKSLCYQLPAL---YSDGLTLVISP-LISLMEDQVLQL----KASGIPA 79 (497) T ss_pred CHHHHHHHHHHHCCCCCE-----EEEECCCCCHHHHHHHHHH---HCCCCEEEECC-HHHHHHHHHHHH----HHCCCCE T ss_conf 514899999875489756-----9981589860367640567---50896499736-365689999998----7448630 Q ss_pred EEEECCCCHHHHHHHHHHH--CCCCCEEEEEC-------HHHCCC---CCCCCCCCEEEECCCC---CCCHHHHHHHHH- Q ss_conf 9962464225667687762--13475486411-------120133---4554444178852101---335688998740- Q gi|254780945|r 353 EIITGNMPQAHRRKALERI--AHGQAHIIIGT-------HALFQD---SIQYYKLILVIVDEQH---RFGVQQRLKLTQ- 416 (700) Q Consensus 353 ~lLtg~~~~~er~~i~~~i--~~G~~~iiIGT-------HAL~q~---~v~F~~LgLvViDEQH---RFGV~QR~~L~~- 416 (700) ++|+|+.+..+...++.++ ++|++.+|==| ..|||. -..-.++.+++|||=| -.|=.=|..... T Consensus 80 ~~L~s~~s~~~~~~v~~~~~~k~g~~kllYvtPE~~~~~~~ll~~Le~~Y~~~~~~~iAvDEAHCiSqWGHDFR~~Y~~L 159 (497) T TIGR00614 80 TFLNSSQSKEQQKEVLTDLSKKDGKLKLLYVTPEKISKSKSLLQTLEKLYERKGITLIAVDEAHCISQWGHDFRPDYKAL 159 (497) T ss_pred ECCCCCCCHHHHHHHHHHHHHHCCCEEEEEECHHHHHCCHHHHHHHHHHHHHCCCEEEEEECEEEECCCCCCCCHHHHHH T ss_conf 10443257789999999987307975899716346534647899999988644966999832154358888740799996 Q ss_pred -----CCCCCCCEEECHHHHHHHHHH--HHHHCCCHHHHCCCCCCCCCCEEEEEECC----C-HHHHHHHHH-HHHC--- Q ss_conf -----256776101010132278999--97520101111023557666207999702----0-026899997-6310--- Q gi|254780945|r 417 -----KATAPHVLLMTATPIPRTLVL--TSLGDIDISKITEKPAGRKPIKTVIIPIN----R-IDEVIERLK-VVLS--- 480 (700) Q Consensus 417 -----Kg~~ph~L~MtATPIPRTLal--~~ygdldvS~i~e~P~gR~~I~T~~~~~~----~-~~~~~~~i~-~~l~--- 480 (700) +=++.-+..+|||-=|++..= ...+ |.--.+...-.+|..+.=.+.... + ...+..||. +.-. T Consensus 160 G~Lk~~fP~vP~~ALTATA~~~~~~Di~~~L~-l~~p~~~~~SFdRPNl~y~v~~K~~n~~~~~~dl~~f~~~~~~s~~~ 238 (497) T TIGR00614 160 GSLKQKFPNVPIMALTATASPSVREDILRILN-LKNPQVFITSFDRPNLYYEVRRKTSNTKKILEDLLRFIVKKASSAWE 238 (497) T ss_pred HHHHHHCCCCCEEEEECCCCHHHHHHHHHHHC-CCCCCEEEECCCCCCCEEEEECCCCCHHHHHHHHHHHHHHHCCCCCC T ss_conf 57888548874364340578678999998722-13662464046687630340057897025899999998752035652 Q ss_pred -CCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHH-CCCEEEEEECHHHHCCCCCC Q ss_conf -3873899971201221112101466666668663710312014699899999999975-59869999800341046888 Q gi|254780945|r 481 -EGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFK-NGTCKLLIATTVIEVGIDVV 558 (700) Q Consensus 481 -~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~-~g~~~iLvaTtviEVGvdvp 558 (700) +|.=-.|=||-= +.+++....|++. +-..+-=|--|+.+++++|=.+|. ..+++|.|||--=-.|||=| T Consensus 239 ~~G~sGIIYC~SR--------~~~e~~a~~L~~~-G~~a~aYHAGl~~~~R~~V~~~f~nrD~~QvVvATvAFGMGInKp 309 (497) T TIGR00614 239 FKGKSGIIYCPSR--------KKSEQVAAELQKL-GIAAGAYHAGLEISARKEVQHKFQNRDEIQVVVATVAFGMGINKP 309 (497) T ss_pred CCCCCEEEECCCC--------HHHHHHHHHHHHC-CCEEEHHHCCCCHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCCC T ss_conf 4588302752872--------3489999999755-861002402688647789999875038857999872126888763 Q ss_pred CCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHCHH Q ss_conf 76589985852547468877301166789835999970888998799999999841425 Q gi|254780945|r 559 DASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILLYHPPLSKNSYTRLSVLKNTEDG 617 (700) Q Consensus 559 na~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~~~~~~~~~~Rl~~l~~~~dG 617 (700) |..-.|=.++-| -+=-=.|=-||-||-+.+|.|+|+|.+. +..+-|= .+.+..+| T Consensus 310 dvRfViH~~~Pk-~~EsYYQE~GRAGRDgl~s~c~lfy~~a--D~~~~~~-~l~e~~~~ 364 (497) T TIGR00614 310 DVRFVIHYSLPK-SMESYYQESGRAGRDGLPSECVLFYAPA--DIARLRR-LLVEEPDG 364 (497) T ss_pred CCCEEEEECCCC-CCCCCCCCCCCCCCCCCCCCEEEEECHH--HHHHHHH-HHEECCCC T ss_conf 536788507885-6211013555567897320102330435--6999988-74004577 No 102 >PRK13104 secA preprotein translocase subunit SecA; Reviewed Probab=98.92 E-value=2.8e-07 Score=76.64 Aligned_cols=96 Identities=27% Similarity=0.364 Sum_probs=81.8 Q ss_pred CCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEE Q ss_conf 14422369999997334443054588612799999999862110145786589962464225667687762134754864 Q gi|254780945|r 301 DVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIII 380 (700) Q Consensus 301 DVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiI 380 (700) -.|-|||+||.++++..+-+|.-|-+....+-||+--++...+++.-+|++|.++++.++..+|+..|. +||.- T Consensus 103 ~TGEGKTL~atlp~ylnal~g~gvhvvTvNdYLA~RDae~m~~~y~~lGltvg~i~~~~~~~~r~~aY~------~DitY 176 (896) T PRK13104 103 RTGEGKTLVATLPAYLNAISGRGVHIVTVNDYLAKRDSQWMKPIYEFLGLTVGVIYPDMSHKEKQEAYK------ADIVY 176 (896) T ss_pred CCCCCHHHHHHHHHHHHHHCCCCEEEECCCHHHHHHHHHHHHHHHHHHCCEEEEECCCCCHHHHHHHHC------CCEEE T ss_conf 178855999999999987559971997265354464499999999981976734189999799999714------99379 Q ss_pred ECHHHCC-----C-------CCCCCCCCEEEECC Q ss_conf 1112013-----3-------45544441788521 Q gi|254780945|r 381 GTHALFQ-----D-------SIQYYKLILVIVDE 402 (700) Q Consensus 381 GTHAL~q-----~-------~v~F~~LgLvViDE 402 (700) ||..=|- | +..-..+.++|||| T Consensus 177 ~Tn~e~gFDyLrDnm~~~~~~~vqr~~~~aivDE 210 (896) T PRK13104 177 GTNNEYGFDYLRDNMAFSLTDKVQRELNFAIVDE 210 (896) T ss_pred ECCCCCCCCCCCCCHHCCHHHHCCCCCCEEEEEC T ss_conf 6786541523572111384762566776478742 No 103 >PRK12902 secA preprotein translocase subunit SecA; Reviewed Probab=98.89 E-value=1.2e-07 Score=79.42 Aligned_cols=96 Identities=21% Similarity=0.296 Sum_probs=82.1 Q ss_pred CCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEE Q ss_conf 14422369999997334443054588612799999999862110145786589962464225667687762134754864 Q gi|254780945|r 301 DVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIII 380 (700) Q Consensus 301 DVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiI 380 (700) -.|-|||+||.++++..+-+|.-|-+....+-||+--.+...+.+.-+|++|.++++.++..+|+..|. +||.- T Consensus 106 ~TGEGKTL~atlp~ylnAL~GkgvHvvTvNdYLA~RDae~m~~vy~fLGltvg~i~~~~~~~er~~aY~------~DItY 179 (946) T PRK12902 106 KTGEGKTLVATLPSYLNALTGKGVHVVTVNDYLARRDAEWMGQVHRFLGLSVGLIQQDMSPEERKKNYA------CDITY 179 (946) T ss_pred CCCCCHHHHHHHHHHHHHHCCCCEEEECCCHHHHHHHHHHHHHHHHHHCCEEEEECCCCCHHHHHHHHC------CCCEE T ss_conf 178847999999999986559970997265265686799999999981977835489989899999858------98279 Q ss_pred ECHHHCC------------CCCCCCCCCEEEECC Q ss_conf 1112013------------345544441788521 Q gi|254780945|r 381 GTHALFQ------------DSIQYYKLILVIVDE 402 (700) Q Consensus 381 GTHAL~q------------~~v~F~~LgLvViDE 402 (700) ||..=|- ++..-..+-++|||| T Consensus 180 ~Tn~E~gFDYLRDnm~~~~~~~vqr~~~~aIvDE 213 (946) T PRK12902 180 ATNSELGFDYLRDNMATDISEVVQRPFNYCVIDE 213 (946) T ss_pred ECCCCCCCCCCCCCCCCCHHHHHCCCCCEEEEEC T ss_conf 7888757723530447886884387996589854 No 104 >PRK12900 secA preprotein translocase subunit SecA; Reviewed Probab=98.87 E-value=6.1e-07 Score=74.01 Aligned_cols=163 Identities=18% Similarity=0.293 Sum_probs=93.7 Q ss_pred CCCEEECHHHHHHHHH---HHHHHCCCHHHHC-CCCCCCCCCEEEEEEC--CCHHHHHHHHHHHHCCCCEEEEEECCCCC Q ss_conf 7610101013227899---9975201011110-2355766620799970--20026899997631038738999712012 Q gi|254780945|r 421 PHVLLMTATPIPRTLV---LTSLGDIDISKIT-EKPAGRKPIKTVIIPI--NRIDEVIERLKVVLSEGKKAYWICPQIEE 494 (700) Q Consensus 421 ph~L~MtATPIPRTLa---l~~ygdldvS~i~-e~P~gR~~I~T~~~~~--~~~~~~~~~i~~~l~~g~q~y~VcPlIee 494 (700) +.+==||-|- .|-| ..+|+ |+|..|. .+|.-|+.-...++.. ++...+.+.|++.-++|+-|-|-+..||. T Consensus 490 ~kLsGMTGTA--~te~~Ef~~iY~-l~Vv~IPTn~P~~R~D~~D~vy~t~~~K~~Aii~ei~~~~~~gqPVLVGT~SVe~ 566 (983) T PRK12900 490 KKLAGMTGTA--ETEASEFFEIYK-LDVVVIPTNRPIVRKDMDDLVYKTRREKYNAIVLKVEELQKKGQPVLVGTASVEV 566 (983) T ss_pred CHHCCCCCCC--HHHHHHHHHHHC-CCEEECCCCCCCEEEECCCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEECCHHH T ss_conf 4620475674--889999999868-8669848999840012655041899999999999999997479988998387899 Q ss_pred CCCCCCCHHHHHHHHHHHH-CCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCC------CCCCCEEEEEC Q ss_conf 2111210146666666866-3710312014699899999999975598699998003410468------88765899858 Q gi|254780945|r 495 KKESNFRSVVERFNSLHEH-FTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGID------VVDASIIIIEN 567 (700) Q Consensus 495 se~~~~~~~~~~~~~l~~~-~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvd------vpna~~mvI~~ 567 (700) ||.+ | +.|++. .+. .+|.-|-...|-+-|-++=+. -.|-|||..---|.| |..+-=.-|.. T Consensus 567 SE~l---S-----~~L~~~gI~h--~VLNAk~h~~EA~IIa~AG~~--GaVTIATNMAGRGTDIkLg~~V~elGGL~VIg 634 (983) T PRK12900 567 SETL---S-----RMLRAKRIEH--NVLNAKQNEREAEIVAEAGQK--GAVTIATNMAGRGTDIKLGEGVRELGGLFILG 634 (983) T ss_pred HHHH---H-----HHHHHCCCCH--HHHCCCCHHHHHHHHHHCCCC--CCEEEECCCCCCCCCCCCCCCHHHCCCEEEEE T ss_conf 9999---9-----9999859955--651678478899999936999--97798243678985825483446538807751 Q ss_pred HHHCCHHHH-HHHHHCCCCCCCCEEEEEEECC Q ss_conf 525474688-7730116678983599997088 Q gi|254780945|r 568 AEHFGLAQL-HQLRGRVGRGEEISSCILLYHP 598 (700) Q Consensus 568 aerfGLsqL-HQLRGRVGRg~~~s~c~l~~~~ 598 (700) .||.--.-. -|||||-||-+.+|..-+..+- T Consensus 635 TErheSrRIDnQLrGRaGRQGDPG~S~F~lSL 666 (983) T PRK12900 635 SERHESRRIDRQLRGRAGRQGDPGESVFYVSL 666 (983) T ss_pred CCCCHHHHHHHHHHCCCCCCCCCCCEEEEEEC T ss_conf 14230256787860432457999853999964 No 105 >PRK12899 secA preprotein translocase subunit SecA; Reviewed Probab=98.79 E-value=8.6e-07 Score=72.86 Aligned_cols=79 Identities=19% Similarity=0.332 Sum_probs=60.1 Q ss_pred CCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEE Q ss_conf 14422369999997334443054588612799999999862110145786589962464225667687762134754864 Q gi|254780945|r 301 DVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIII 380 (700) Q Consensus 301 DVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiI 380 (700) -.|-|||+||.++++..+-+|.-|-+....+-||+--.+...+.+.-+|++|.++.+.++..+|++.|. +||.- T Consensus 115 ~TGEGKTLvAtlpayLnAL~GkgVHVVTVNDYLA~RDaewMg~iy~fLGLtVg~i~~~~~~~eRr~aY~------~DItY 188 (969) T PRK12899 115 QTGEGKTLTAVMPLYLNALTGKPVHLVTVNDYLAQRDCEWVGSVLRWLGLTTGVLVSGSPLEKRKAIYQ------CDVVY 188 (969) T ss_pred CCCCCHHHHHHHHHHHHHHCCCCCEEECCCHHHHHHHHHHHHHHHHHHCCEEEEECCCCCHHHHHHHHC------CCCEE T ss_conf 178848999999999986459970997264365686699999999980977856389989899999866------99678 Q ss_pred ECHHH Q ss_conf 11120 Q gi|254780945|r 381 GTHAL 385 (700) Q Consensus 381 GTHAL 385 (700) ||..= T Consensus 189 gTn~E 193 (969) T PRK12899 189 GTASE 193 (969) T ss_pred ECCCC T ss_conf 78866 No 106 >TIGR01389 recQ ATP-dependent DNA helicase RecQ; InterPro: IPR006293 The ATP-dependent DNA helicase RecQ (3.6.1 from EC) is involved in genome maintenance . All homologues tested to date unwind paired DNA, translocating in a 3' to 5' direction and several have a preference for forked or 4-way DNA structures (e.g. Holliday junctions) or for G-quartet DNA. The yeast protein, Sgs1, is present in numerous foci that coincide with sites of de novo synthesis DNA, such as the replication fork, and protein levels peak during S-phase. A model has been proposed for Sgs1p action in the S-phase checkpoint response, both as a 'sensor' for damage during replication and a 'resolvase' for structures that arise at paused forks, such as the four-way 'chickenfoot' structure. The action of Sgs1p may serve to maintain the proper amount and integrity of ss DNA that is necessary for the binding of RPA (replication protein A, the eukaryotic ss DNA-binding protein)DNA pol complexes. Sgs1p would thus function by detecting (or resolving) aberrant DNA structures, and would thus contribute to the full activation of the DNA-dependent protein kinase, Mec1p and the effector kinase, Rad53p. Its ability to bind both the large subunit of RPA and the RecA-like protein Rad51p, place it in a unique position to resolve inappropriate fork structures that can occur when either the leading or lagging strand synthesis is stalled. Thus, RecQ helicases integrate checkpoint activation and checkpoint response. ; GO: 0004003 ATP-dependent DNA helicase activity, 0006310 DNA recombination, 0009432 SOS response. Probab=98.79 E-value=3e-07 Score=76.45 Aligned_cols=300 Identities=20% Similarity=0.289 Sum_probs=214.5 Q ss_pred CHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHH-HHHHHHHHHHHHCCCCCCEE Q ss_conf 98899999999984100134307886214422369999997334443054588612799-99999986211014578658 Q gi|254780945|r 274 TKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGI-LAQQHYEFIKKYTQNTQIIV 352 (700) Q Consensus 274 T~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEI-LA~QH~~~~~~~~~~~~i~v 352 (700) =..|+..|+++...=+--.-| =.|=||.+=+=+-+|.- +.=+.+..| =| |=+=--++++.. ||.. T Consensus 15 R~gQe~II~~vL~g~~~l~vm------PTGGGKSlCYQ~PALll---~Glt~VISP-LIsLMkDQVd~L~~~----Gv~A 80 (607) T TIGR01389 15 RGGQEEIIEHVLDGRDVLVVM------PTGGGKSLCYQVPALLL---KGLTVVISP-LISLMKDQVDQLRAA----GVAA 80 (607) T ss_pred CCHHHHHHHHHHCCCCEEEEC------CCCCCHHHHHHHHHHHH---CCCEEEECC-HHHHHHHHHHHHHHC----CCEE T ss_conf 731589999984779858973------89985127772178872---898799842-363147799999860----7014 Q ss_pred EEEECCCCHHHHHHHHHHHCCCCCEEE-EEC----HHHCCCCCCCCCCCEEEECCCCC-------CCHHHHH--HHHHC- Q ss_conf 996246422566768776213475486-411----12013345544441788521013-------3568899--87402- Q gi|254780945|r 353 EIITGNMPQAHRRKALERIAHGQAHII-IGT----HALFQDSIQYYKLILVIVDEQHR-------FGVQQRL--KLTQK- 417 (700) Q Consensus 353 ~lLtg~~~~~er~~i~~~i~~G~~~ii-IGT----HAL~q~~v~F~~LgLvViDEQHR-------FGV~QR~--~L~~K- 417 (700) +.|.|+++.+|..+|+..+.+|+++++ |-. ..=|.+-+.=-++.|+=|||=|= |=++=|. .|.+. T Consensus 81 a~lNSt~s~~E~~~i~~~~~~G~~~LLYvAPERL~~~~Fl~~L~~~~i~L~AvDEAHCvSQWGHDFRPeY~~L~~l~~~f 160 (607) T TIGR01389 81 AYLNSTLSAKEQQEIEKALVNGELKLLYVAPERLEQDYFLNMLKRLTIALLAVDEAHCVSQWGHDFRPEYRRLGELAERF 160 (607) T ss_pred EEECCCCCHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHC T ss_conf 52037788889999999984198157751671321189998873199308998325021668888756589999999867 Q ss_pred CCCCCCEEECHHHHHHHHHHHHHHCCCHHHHCCC--CCCCCCCEEEEEECC-CHHHHHHHHHHHHCCCCEEEEEECCCCC Q ss_conf 5677610101013227899997520101111023--557666207999702-0026899997631038738999712012 Q gi|254780945|r 418 ATAPHVLLMTATPIPRTLVLTSLGDIDISKITEK--PAGRKPIKTVIIPIN-RIDEVIERLKVVLSEGKKAYWICPQIEE 494 (700) Q Consensus 418 g~~ph~L~MtATPIPRTLal~~ygdldvS~i~e~--P~gR~~I~T~~~~~~-~~~~~~~~i~~~l~~g~q~y~VcPlIee 494 (700) -..|=++.+|||-=|+|=.=.. --|+++-=.+- =..|..|.=.++..+ +.+.+.++|+++-. +|.=|||-. T Consensus 161 p~~P~~iALTATAd~~t~~DI~-~~L~L~~~~~f~~SFdRpNl~~~v~~k~n~~~~l~~yl~~~~~--G~SGIIYa~--- 234 (607) T TIGR01389 161 PQVPTRIALTATADAETRQDIV-ELLRLKDANEFISSFDRPNLRFSVVKKNNKKKFLLEYLKKHRE--GQSGIIYAS--- 234 (607) T ss_pred CCCCEEEEEECCCCHHHHHHHH-HHCCCCCCCCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCC--CCCEEEECC--- T ss_conf 8986699872489987899999-9708898654125677511433431203781368999750799--953478767--- Q ss_pred CCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHH Q ss_conf 21112101466666668663710312014699899999999975598699998003410468887658998585254746 Q gi|254780945|r 495 KKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLA 574 (700) Q Consensus 495 se~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLs 574 (700) --+-||+.++.|... +-+.+.=|+-|+.++.++.-++|..-+..|.|||.-==.|||=||..-.|=.|-=+ -|= T Consensus 235 ----sR~~VE~~~~~L~s~-G~~A~~YHAGL~~~~R~e~Q~~Fl~d~~~vmVAT~AFGMGIdKpnVRFViH~d~P~-~~E 308 (607) T TIGR01389 235 ----SRKKVEELAERLESQ-GISALAYHAGLSNKVRAENQEDFLYDDVKVMVATNAFGMGIDKPNVRFVIHADMPK-NIE 308 (607) T ss_pred ----CHHHHHHHHHHHHHC-CCCEEECCCCCCHHHHHHHHHHHHHHCCEEEEEEECCCCCCCCCCCCEEEEECCCC-CHH T ss_conf ----704589999999747-96204036798776899997544462554888871235874787654888636874-211 Q ss_pred HHHHHHHCCCCCCCCEEEEEEECCC Q ss_conf 8877301166789835999970888 Q gi|254780945|r 575 QLHQLRGRVGRGEEISSCILLYHPP 599 (700) Q Consensus 575 qLHQLRGRVGRg~~~s~c~l~~~~~ 599 (700) --.|==||-||-+.+|-|+|+|++. T Consensus 309 sYYQE~GRAGRDGlpae~~lly~~~ 333 (607) T TIGR01389 309 SYYQEAGRAGRDGLPAEAILLYSLA 333 (607) T ss_pred HHHCCCCCCCCCCCHHHHHHHCCHH T ss_conf 1310355468875267786724777 No 107 >PRK13107 preprotein translocase subunit SecA; Reviewed Probab=98.75 E-value=1.8e-06 Score=70.24 Aligned_cols=96 Identities=24% Similarity=0.268 Sum_probs=81.0 Q ss_pred CCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEE Q ss_conf 14422369999997334443054588612799999999862110145786589962464225667687762134754864 Q gi|254780945|r 301 DVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIII 380 (700) Q Consensus 301 DVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiI 380 (700) -.|-|||+||.++++..+-+|.-|-+....+-||+--.+...+.+.-+|++|.+.++.++..+|++.|. +||+- T Consensus 103 ~TGEGKTL~atlp~ylnal~g~gvhvvTvNdYLA~RDae~m~~vy~~lGlsvg~i~~~~~~~er~~aY~------~DitY 176 (908) T PRK13107 103 RTGEGKTLTATLPAYLNALTGKGVHVITVNDYLARRDAENNRPLFEFLGLTVGINVAGLGQQEKKAAYN------ADITY 176 (908) T ss_pred CCCCCHHHHHHHHHHHHHHCCCCEEEECCCHHHHHHHHHHHHHHHHHHCCEEEECCCCCCHHHHHHHCC------CCCEE T ss_conf 178855999999999987559970997265355475499999999981975733179999699998456------88645 Q ss_pred ECHHHCC-----C-------CCCCCCCCEEEECC Q ss_conf 1112013-----3-------45544441788521 Q gi|254780945|r 381 GTHALFQ-----D-------SIQYYKLILVIVDE 402 (700) Q Consensus 381 GTHAL~q-----~-------~v~F~~LgLvViDE 402 (700) ||..=|- | +..-..|-++|||| T Consensus 177 ~Tn~e~gFDYLRDnm~~~~~~~vqr~~~~aivDE 210 (908) T PRK13107 177 GTNNEFGFDYLRDNMAFSPQERVQRPLHYALIDE 210 (908) T ss_pred ECCCCCCCCCCCCCCCCCHHHHCCCCCCEEEEEC T ss_conf 3576423423574301575875356776488742 No 108 >PRK12901 secA preprotein translocase subunit SecA; Reviewed Probab=98.71 E-value=3e-06 Score=68.54 Aligned_cols=96 Identities=29% Similarity=0.337 Sum_probs=73.0 Q ss_pred CCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCC-CHHHHHHHHHHHCCCCCEEE Q ss_conf 14422369999997334443054588612799999999862110145786589962464-22566768776213475486 Q gi|254780945|r 301 DVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNM-PQAHRRKALERIAHGQAHII 379 (700) Q Consensus 301 DVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~-~~~er~~i~~~i~~G~~~ii 379 (700) -.|-|||+||.++++..+-+|.-|-+....+-||+--++...+++.-+|+.|.++.... ...+|++.|. +||. T Consensus 192 ~TGEGKTLvatlp~yLnAL~GkgVHvVTvNDYLA~RDaewmg~iy~fLGltvg~i~~~~~~~~~rr~aY~------~DIt 265 (1111) T PRK12901 192 ATGEGKTLVATLPVFLNALTGNGVHVVTVNDYLAKRDSEWMGPLYMFHGLSVDCIDKHQPNSDARRKAYE------ADIT 265 (1111) T ss_pred ECCCCHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHHHHHCCEEEEECCCCCCHHHHHHHHH------CCCE T ss_conf 0688579999999999973699808983156778875998899999949865232699999799999873------7863 Q ss_pred EECHHHCC------------CCCCCCCCCEEEECC Q ss_conf 41112013------------345544441788521 Q gi|254780945|r 380 IGTHALFQ------------DSIQYYKLILVIVDE 402 (700) Q Consensus 380 IGTHAL~q------------~~v~F~~LgLvViDE 402 (700) -||..=|- ++..-..+.++|||| T Consensus 266 YgTn~EfGFDYLRDnm~~~~~~~vqr~~~~aIVDE 300 (1111) T PRK12901 266 YGTNNEFGFDYLRDNMAVSPKDLVQRKHNYAIVDE 300 (1111) T ss_pred ECCCCCCCHHHHHHHCCCCHHHHCCCCCCEEEEEC T ss_conf 41565410243564015787872567776588842 No 109 >KOG0920 consensus Probab=98.67 E-value=3.1e-07 Score=76.30 Aligned_cols=309 Identities=23% Similarity=0.334 Sum_probs=172.3 Q ss_pred HHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHH-HHHHCCEEEEE--HHHHHHHH Q ss_conf 7899998630246798899999999984100134307886214422369999997334-44305458861--27999999 Q gi|254780945|r 260 KIAQKILRNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAA-VEAGGQAVIMA--PIGILAQQ 336 (700) Q Consensus 260 ~~~~~f~~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~-~~~G~Q~alMa--PTEILA~Q 336 (700) .....+.++||+-- -+++.++.|. .+. ..++-|+.|||||.=.---++.. +++|.-+-+++ |--|=|-= T Consensus 163 ~~~~~~R~~LPa~~--~r~~Il~~i~----~~q--VvvIsGeTGcGKtTQvpQfiLd~~~~~~~~~~IicTQPRRIsAIs 234 (924) T KOG0920 163 KEMLRFRESLPAYK--MRDTILDAIE----ENQ--VVVISGETGCGKTTQVPQFILDEAIESGAACNIICTQPRRISAIS 234 (924) T ss_pred HHHHHHHHHCCCHH--HHHHHHHHHH----HCC--EEEEECCCCCCCHHHHHHHHHHHHHHCCCCCEEEECCCCHHHHHH T ss_conf 88887787496277--8999999997----496--699957889871224669999999862899738866775177899 Q ss_pred HHHHHHH-HCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHC----CCCCCCCCCCEEEECCCCCCCHHHH Q ss_conf 9986211-0145786589962464225667687762134754864111201----3345544441788521013356889 Q gi|254780945|r 337 HYEFIKK-YTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALF----QDSIQYYKLILVIVDEQHRFGVQQR 411 (700) Q Consensus 337 H~~~~~~-~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~----q~~v~F~~LgLvViDEQHRFGV~QR 411 (700) -++.+.. ..+..|-.|.--.+ ++.-.+-+..+..-|..++ |.+-...+..-+|+||=|-=+++-- T Consensus 235 vAeRVa~ER~~~~g~~VGYqvr----------l~~~~s~~t~L~fcTtGvLLr~L~~~~~l~~~thiivDEVHER~i~~D 304 (924) T KOG0920 235 VAERVAKERGESLGEEVGYQVR----------LESKRSRETRLLFCTTGVLLRRLQSDPTLSGVTHIIVDEVHERSINTD 304 (924) T ss_pred HHHHHHHHHCCCCCCEEEEEEE----------EECCCCCCEEEEEECHHHHHHHHCCCCCCCCCCEEEEEEEEECCCCCC T ss_conf 9999988754666871368986----------201367751689840689998754686214586654422797167752 Q ss_pred HHHHH-C---CCCCC--CEEECHHHHHHHHHHHHHHCCCHHHHCCCCCCC-CCCEEEEEECCCHHHHHHHHHHHHCCCCE Q ss_conf 98740-2---56776--101010132278999975201011110235576-66207999702002689999763103873 Q gi|254780945|r 412 LKLTQ-K---ATAPH--VLLMTATPIPRTLVLTSLGDIDISKITEKPAGR-KPIKTVIIPINRIDEVIERLKVVLSEGKK 484 (700) Q Consensus 412 ~~L~~-K---g~~ph--~L~MtATPIPRTLal~~ygdldvS~i~e~P~gR-~~I~T~~~~~~~~~~~~~~i~~~l~~g~q 484 (700) .-|.- | ..+|| +..||||== =.+=-.+||...+-.| | || -||+++. .+++++.+........+ T Consensus 305 flLi~lk~lL~~~p~LkvILMSAT~d-ae~fs~YF~~~pvi~i---~-grtfpV~~~f-----LEDil~~~~~~~~~~~~ 374 (924) T KOG0920 305 FLLILLKDLLPRNPDLKVILMSATLD-AELFSDYFGGCPVITI---P-GRTFPVKEYF-----LEDILSKTGYVSEDDSA 374 (924) T ss_pred CHHHHHHHHHHHCCCCEEEEEEEECC-HHHHHHHHCCCCEEEE---C-CCCCCHHHHH-----HHHHHHHHCCCCCCCCC T ss_conf 17999998862288856998621126-2888987189935864---6-8786458878-----99999875144445565 Q ss_pred E-----------------------------EEEECCCCCCCC-----CCCCHHHHHHHHHHHH--CCC----CEECCCCC Q ss_conf 8-----------------------------999712012211-----1210146666666866--371----03120146 Q gi|254780945|r 485 A-----------------------------YWICPQIEEKKE-----SNFRSVVERFNSLHEH--FTS----SIAIIHGR 524 (700) Q Consensus 485 ~-----------------------------y~VcPlIeese~-----~~~~~~~~~~~~l~~~--~~~----~v~~lHGk 524 (700) - .|||+. ++... -........++.|... |.+ -|-.+|+. T Consensus 375 ~~~~~~~~~~~~~~~~~~~~id~~Li~~li~~I~~~-~~~GaILVFLPG~~eI~~~~~~L~~~~~f~~~~~~~ilplHs~ 453 (924) T KOG0920 375 RSGPERSQLRLARLKLWEPEIDYDLIEDLIEYIDER-EFEGAILVFLPGWEEILQLKELLEVNLPFADSLKFAILPLHSS 453 (924) T ss_pred CCCCCCCCCCCCCCHHCCCCCCHHHHHHHHHHCCCC-CCCCEEEEECCCHHHHHHHHHHHHHCCCCCCCCCEEEEECCCC T ss_conf 555566744322200115421477999998740557-8874289974888999999997541566566662588705100 Q ss_pred CCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEE--------ECHHHCCH---------HHHHHHHHCCCCCC Q ss_conf 99899999999975598699998003410468887658998--------58525474---------68877301166789 Q gi|254780945|r 525 MSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIII--------ENAEHFGL---------AQLHQLRGRVGRGE 587 (700) Q Consensus 525 m~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI--------~~aerfGL---------sqLHQLRGRVGRg~ 587 (700) |.+.|+..|.+.--.|.-+|++||.+-|-.|.||+....|- +|+++=.. |.-.|=|||.|| - T Consensus 454 ~~~~eQ~~VF~~pp~g~RKIIlaTNIAETSITIdDVvyVIDsG~~Ke~~yD~~~~~s~l~~~wvSkAna~QR~GRAGR-v 532 (924) T KOG0920 454 IPSEEQQAVFKRPPKGTRKIILATNIAETSITIDDVVYVIDSGLVKEKSYDPERKVSCLLLSWVSKANAKQRRGRAGR-V 532 (924) T ss_pred CCHHHHHHHCCCCCCCCCHHHHHHHHHHHCCCCCCEEEEEECCEEEEEEECCCCCCCCCEEEECCCCCHHHHCCCCCC-C T ss_conf 886889986178999951232220137534523674799864715444405667854000242010036775455556-4 Q ss_pred CCEEEEEEECC Q ss_conf 83599997088 Q gi|254780945|r 588 EISSCILLYHP 598 (700) Q Consensus 588 ~~s~c~l~~~~ 598 (700) ..|.||=+|.. T Consensus 533 ~~G~cy~Ly~~ 543 (924) T KOG0920 533 RPGICYHLYTR 543 (924) T ss_pred CCCEEEEECCC T ss_conf 57626884053 No 110 >COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms] Probab=98.65 E-value=4.8e-06 Score=66.97 Aligned_cols=295 Identities=19% Similarity=0.232 Sum_probs=167.6 Q ss_pred CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHH--CCEEEEEHHHHHHHHHHHHHHHHCCCCC Q ss_conf 67988999999999841001343078862144223699999973344430--5458861279999999986211014578 Q gi|254780945|r 272 SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAG--GQAVIMAPIGILAQQHYEFIKKYTQNTQ 349 (700) Q Consensus 272 ~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G--~Q~alMaPTEILA~QH~~~~~~~~~~~~ 349 (700) .+-.-|+.||+-+.+-.+.+++- -||+=-.|+|||=+|+.-+..-..+| +.|.|+|-+-+|-.|-++.|..+++.. T Consensus 165 ~~RyyQ~~AI~rv~Eaf~~g~~r-aLlvMATGTGKTrTAiaii~rL~r~~~~KRVLFLaDR~~Lv~QA~~af~~~~P~~- 242 (875) T COG4096 165 GPRYYQIIAIRRVIEAFSKGQNR-ALLVMATGTGKTRTAIAIIDRLIKSGWVKRVLFLADRNALVDQAYGAFEDFLPFG- 242 (875) T ss_pred CCHHHHHHHHHHHHHHHHCCCCE-EEEEEECCCCCCEEHHHHHHHHHHCCHHHEEEEEECHHHHHHHHHHHHHHHCCCC- T ss_conf 62278899999999998668744-8999705888523199999999961414305676126789999999999639886- Q ss_pred CEEEEEECCCCHHHHHHHHHHHCCCCCEEEEEC-HHH----CCCCCCCCCC-----CEEEECCCCCCCHHHHHHHHHCCC Q ss_conf 658996246422566768776213475486411-120----1334554444-----178852101335688998740256 Q gi|254780945|r 350 IIVEIITGNMPQAHRRKALERIAHGQAHIIIGT-HAL----FQDSIQYYKL-----ILVIVDEQHRFGVQQRLKLTQKAT 419 (700) Q Consensus 350 i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGT-HAL----~q~~v~F~~L-----gLvViDEQHRFGV~QR~~L~~Kg~ 419 (700) -.+-++++..- ++...|.++| .++ -++.+.+... -||||||-|| |+.++.+=.-.-. T Consensus 243 ~~~n~i~~~~~------------~~s~~i~lsTyqt~~~~~~~~~~~~~~f~~g~FDlIvIDEaHR-gi~~~~~~I~dYF 309 (875) T COG4096 243 TKMNKIEDKKG------------DTSSEIYLSTYQTMTGRIEQKEDEYRRFGPGFFDLIVIDEAHR-GIYSEWSSILDYF 309 (875) T ss_pred CCEEEECCCCC------------CCCEEEEEEEHHHHHHHHHCCCCCCCCCCCCCEEEEEECHHHH-HHHHHHHHHHHHH T ss_conf 40123201467------------8630588760377875640654565567888312899606666-6787667898899 Q ss_pred CCCCEEECHHHHHHHHHHHHHHCC----------CHHHHCCCCCCCCCCEEEEEE------CCCHHHHHHHHHHHHCCCC Q ss_conf 776101010132278999975201----------011110235576662079997------0200268999976310387 Q gi|254780945|r 420 APHVLLMTATPIPRTLVLTSLGDI----------DISKITEKPAGRKPIKTVIIP------INRIDEVIERLKVVLSEGK 483 (700) Q Consensus 420 ~ph~L~MtATPIPRTLal~~ygdl----------dvS~i~e~P~gR~~I~T~~~~------~~~~~~~~~~i~~~l~~g~ 483 (700) ..-..-.||||=- |....-||-- +--+.|.-=..-++|...+-- .+...+--+...+.+.... T Consensus 310 dA~~~gLTATP~~-~~d~~T~~~F~g~Pt~~YsleeAV~DG~Lvpy~vi~i~~~~~~~G~~~~~~serek~~g~~i~~dd 388 (875) T COG4096 310 DAATQGLTATPKE-TIDRSTYGFFNGEPTYAYSLEEAVEDGFLVPYKVIRIDTDFDLDGWKPDAGSEREKLQGEAIDEDD 388 (875) T ss_pred HHHHHHHCCCCCC-CCCCCCCCCCCCCCCEEECHHHHHHCCCCCCCCCEEEEEECCCCCCCCCCCCHHHHHHCCCCCCCC T ss_conf 9988761257621-113231013379702241288885215457886337664315667476755232333134368654 Q ss_pred EEE--------EEECCCCC------CCC-----------------CCCCHHHHHHHHHHHHCCC---C-EECCCCCCCHH Q ss_conf 389--------99712012------211-----------------1210146666666866371---0-31201469989 Q gi|254780945|r 484 KAY--------WICPQIEE------KKE-----------------SNFRSVVERFNSLHEHFTS---S-IAIIHGRMSDI 528 (700) Q Consensus 484 q~y--------~VcPlIee------se~-----------------~~~~~~~~~~~~l~~~~~~---~-v~~lHGkm~~~ 528 (700) |+| .|||-=.+ +|. .+..-|+...+.+.+.||+ + +-.+.| +.+ T Consensus 389 ~~~~~~d~dr~~v~~~~~~~V~r~~~e~l~~~~~g~~~~KTIvFa~n~dHAe~i~~~~~~~ype~~~~~a~~IT~--d~~ 466 (875) T COG4096 389 QNFEARDFDRTLVIPFRTETVARELTEYLKRGATGDEIGKTIVFAKNHDHAERIREALVNEYPEYNGRYAMKITG--DAE 466 (875) T ss_pred CCCCCCCCCHHEECCCHHHHHHHHHHHHHCCCCCCCCCCCEEEEEECCHHHHHHHHHHHHHCCCCCCCEEEEEEC--CCH T ss_conf 463335532000031247899999999842566888668458996270789999999987480106745999844--406 Q ss_pred HHHHHHHHHHCCCEEEEEECH--HHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCC Q ss_conf 999999997559869999800--341046888765899858525474688773011667 Q gi|254780945|r 529 DKESVMDSFKNGTCKLLIATT--VIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGR 585 (700) Q Consensus 529 ek~~~m~~F~~g~~~iLvaTt--viEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGR 585 (700) +-.+-+.+|...+-.==+||| .+-.|||||..-.+|-. -.=+--.---|.-||=-| T Consensus 467 ~~q~~Id~f~~ke~~P~IaitvdlL~TGiDvpev~nlVF~-r~V~SktkF~QMvGRGTR 524 (875) T COG4096 467 QAQALIDNFIDKEKYPRIAITVDLLTTGVDVPEVVNLVFD-RKVRSKTKFKQMVGRGTR 524 (875) T ss_pred HHHHHHHHHHHCCCCCCEEEEHHHHHCCCCCHHEEEEEEH-HHHHHHHHHHHHHCCCCC T ss_conf 5689999887437898358761245427876220456431-444668999998667654 No 111 >KOG0922 consensus Probab=98.63 E-value=1e-05 Score=64.33 Aligned_cols=300 Identities=20% Similarity=0.284 Sum_probs=181.2 Q ss_pred HHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHH--HHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHH Q ss_conf 63024679889999999998410013430788621442236--9999997334443054588612799999999862110 Q gi|254780945|r 267 RNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKT--LVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKY 344 (700) Q Consensus 267 ~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKT--iVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~ 344 (700) ++||-. +.-++|..-+.++.-+ .+.|+.||||| |.-.++-.-....|. .|.--|--|=|.--+.....- T Consensus 48 ~~LPI~------~~r~~il~~ve~nqvl--IviGeTGsGKSTQipQyL~eaG~~~~g~-I~~TQPRRVAavslA~RVAeE 118 (674) T KOG0922 48 ESLPIY------KYRDQILYAVEDNQVL--IVIGETGSGKSTQIPQYLAEAGFASSGK-IACTQPRRVAAVSLAKRVAEE 118 (674) T ss_pred CCCCHH------HHHHHHHHHHHHCCEE--EEECCCCCCCCCCHHHHHHHCCCCCCCC-EEEECCCHHHHHHHHHHHHHH T ss_conf 159989------9999999999878779--9984898985332769998626566882-775067167788899999998 Q ss_pred CC-CCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCC----CCCCCCEEEECCCCCCCHHHHH------H Q ss_conf 14-57865899624642256676877621347548641112013345----5444417885210133568899------8 Q gi|254780945|r 345 TQ-NTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSI----QYYKLILVIVDEQHRFGVQQRL------K 413 (700) Q Consensus 345 ~~-~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v----~F~~LgLvViDEQHRFGV~QR~------~ 413 (700) +. .+|-.|.--.. .++-.+.+-.|..=|--++.... ..+.-..||+||-|-=-++--. + T Consensus 119 ~~~~lG~~VGY~IR----------Fed~ts~~TrikymTDG~LLRE~l~Dp~LskYsvIIlDEAHERsl~TDiLlGlLKk 188 (674) T KOG0922 119 MGCQLGEEVGYTIR----------FEDSTSKDTRIKYMTDGMLLREILKDPLLSKYSVIILDEAHERSLHTDILLGLLKK 188 (674) T ss_pred HCCCCCCEEEEEEE----------ECCCCCCCEEEEEECCHHHHHHHHCCCCCCCCCEEEEECHHHHHHHHHHHHHHHHH T ss_conf 58976762226998----------45667873369996135999988508764544489983223101578899999999 Q ss_pred HHHCCCCCCCEEECHHHHHHHHHHHHHHCCCHHHHCCCCCCCC-CCEEEEEECCCHHHHHHHHHHHH------CCCCEEE Q ss_conf 7402567761010101322789999752010111102355766-62079997020026899997631------0387389 Q gi|254780945|r 414 LTQKATAPHVLLMTATPIPRTLVLTSLGDIDISKITEKPAGRK-PIKTVIIPINRIDEVIERLKVVL------SEGKKAY 486 (700) Q Consensus 414 L~~Kg~~ph~L~MtATPIPRTLal~~ygdldvS~i~e~P~gR~-~I~T~~~~~~~~~~~~~~i~~~l------~~g~q~y 486 (700) +..|-..--+++||||==-..++- +|+.-.+ =.- +||. ||...+.....-+.+-+.+...+ ..| -+. T Consensus 189 i~~~R~~LklIimSATlda~kfS~-yF~~a~i---~~i-~GR~fPVei~y~~~p~~dYv~a~~~tv~~Ih~~E~~G-DIL 262 (674) T KOG0922 189 ILKKRPDLKLIIMSATLDAEKFSE-YFNNAPI---LTI-PGRTFPVEILYLKEPTADYVDAALITVIQIHLTEPPG-DIL 262 (674) T ss_pred HHHCCCCCEEEEEEEEECHHHHHH-HHCCCCE---EEE-CCCCCCEEEEECCCCCHHHHHHHHHHHHHHHCCCCCC-CEE T ss_conf 873277836999923524899999-8647956---766-6887755688636885046789999999987048998-789 Q ss_pred EEECCCCCCCCCCCCHHHHHHHHHHHHCCCC----EECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCE Q ss_conf 9971201221112101466666668663710----312014699899999999975598699998003410468887658 Q gi|254780945|r 487 WICPQIEEKKESNFRSVVERFNSLHEHFTSS----IAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASI 562 (700) Q Consensus 487 ~VcPlIeese~~~~~~~~~~~~~l~~~~~~~----v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~ 562 (700) |--+=-| +..++.+...+..+..++. +--+||.|+++|..+|...--.|.-++.+||.+-|.-|.+|.-.- T Consensus 263 vFLtGqe-----EIe~~~~~l~e~~~~~~~~~~~~~lply~aL~~e~Q~rvF~p~p~g~RKvIlsTNIAETSlTI~GI~Y 337 (674) T KOG0922 263 VFLTGQE-----EIEAACELLRERAKSLPEDCPELILPLYGALPSEEQSRVFDPAPPGKRKVILSTNIAETSLTIDGIRY 337 (674) T ss_pred EEECCHH-----HHHHHHHHHHHHHHHCCCCCCCEEEEEECCCCHHHHHHHCCCCCCCCCEEEEECCEEEEEEEECCEEE T ss_conf 9937888-----99999999998765312457742222104588787620026799986248997231210177356289 Q ss_pred EE--------EECHHHCCHH----------HHHHHHHCCCCCCCCEEEEEEECC Q ss_conf 99--------8585254746----------887730116678983599997088 Q gi|254780945|r 563 II--------IENAEHFGLA----------QLHQLRGRVGRGEEISSCILLYHP 598 (700) Q Consensus 563 mv--------I~~aerfGLs----------qLHQLRGRVGRg~~~s~c~l~~~~ 598 (700) .| ++|+ +.|+. |--|=-||-|| ..+|.||=+|.. T Consensus 338 VVDsG~vK~~~y~p-~~g~~~L~v~~ISkasA~QRaGRAGR-t~pGkcyRLYte 389 (674) T KOG0922 338 VVDSGFVKQKKYNP-RTGLDSLIVVPISKASANQRAGRAGR-TGPGKCYRLYTE 389 (674) T ss_pred EECCCCEEEEEECC-CCCCCCEEEEECHHHHHHHHCCCCCC-CCCCEEEEEEEH T ss_conf 97387367776356-46744126772129877533245789-889448885008 No 112 >KOG0349 consensus Probab=98.60 E-value=1.5e-06 Score=70.88 Aligned_cols=302 Identities=22% Similarity=0.286 Sum_probs=162.6 Q ss_pred HHHHHHHHCCEEEEEHHHHHHHHHHHH---HHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCC-- Q ss_conf 733444305458861279999999986---211014578658996246422566768776213475486411120133-- Q gi|254780945|r 314 MAAAVEAGGQAVIMAPIGILAQQHYEF---IKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQD-- 388 (700) Q Consensus 314 ~l~~~~~G~Q~alMaPTEILA~QH~~~---~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~-- 388 (700) ....+.|..|+.+|-|.--||+|-|++ |+...++-.++--|+.|+.- ++..+..+++| .+|||||---+.+ T Consensus 279 ~~k~~pNap~avivepsrelaEqt~N~i~~Fk~h~~np~~r~lLmiggv~---~r~Q~~ql~~g-~~ivvGtpgRl~~~i 354 (725) T KOG0349 279 SAKPAPNAPEAVIVEPSRELAEQTHNQIEEFKMHTSNPEVRSLLMIGGVL---KRTQCKQLKDG-THIVVGTPGRLLQPI 354 (725) T ss_pred CCCCCCCCCCEEEECCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---HHHHHHHHHCC-CEEEECCCHHHHHHH T ss_conf 55669998400685476889999876699887643876564441235577---68888876248-605515841565554 Q ss_pred ---CCCCCCCCEEEECCCCCCCH-----------HHHHHHHHCCCCCCCEEECHHHHHHHHHHHHHHCCCHHHHCCCCCC Q ss_conf ---45544441788521013356-----------8899874025677610101013227899997520101111023557 Q gi|254780945|r 389 ---SIQYYKLILVIVDEQHRFGV-----------QQRLKLTQKATAPHVLLMTATPIPRTLVLTSLGDIDISKITEKPAG 454 (700) Q Consensus 389 ---~v~F~~LgLvViDEQHRFGV-----------~QR~~L~~Kg~~ph~L~MtATPIPRTLal~~ygdldvS~i~e~P~g 454 (700) .|....-...|.||-.-|=- .|=-.+.+.|..+...+-|||- ++.+-+|-+ T Consensus 355 s~g~~~lt~crFlvlDead~lL~qgy~d~I~r~h~qip~~tsdg~rlq~~vCsatl---------------h~feVkk~~ 419 (725) T KOG0349 355 SKGLVTLTHCRFLVLDEADLLLGQGYDDKIYRFHGQIPHMTSDGFRLQSPVCSATL---------------HIFEVKKVG 419 (725) T ss_pred HCCCEEEEEEEEEEECCHHHHHHCCCHHHHHHHHCCCHHHHCCCCCCCCCEEEEEE---------------EEEEEEEHH T ss_conf 20651332347898323366550541789999863341331477612331143377---------------677766633 Q ss_pred CCC-CEEEEEECCCHHHH------------------HHHHHHHH------------------------------------ Q ss_conf 666-20799970200268------------------99997631------------------------------------ Q gi|254780945|r 455 RKP-IKTVIIPINRIDEV------------------IERLKVVL------------------------------------ 479 (700) Q Consensus 455 R~~-I~T~~~~~~~~~~~------------------~~~i~~~l------------------------------------ 479 (700) -+- --..|+..+..+.+ |..++..| T Consensus 420 ervmhfptwVdLkgeD~vpetvHhvv~lv~p~~d~sw~~lr~~i~td~vh~kdn~~pg~~Spe~~s~a~kilkgEy~v~a 499 (725) T KOG0349 420 ERVMHFPTWVDLKGEDLVPETVHHVVKLVCPSVDGSWCDLRQFIETDKVHTKDNLLPGQVSPENPSSATKILKGEYGVVA 499 (725) T ss_pred HHHCCCCEEEECCCCCCCCHHHCCCEEECCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHHHHHCCCHHHHH T ss_conf 34314741575035545643221534422776686088876452147766323324565799984566577547332010 Q ss_pred ---CCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCC--CEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCC Q ss_conf ---0387389997120122111210146666666866371--03120146998999999999755986999980034104 Q gi|254780945|r 480 ---SEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTS--SIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVG 554 (700) Q Consensus 480 ---~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~--~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVG 554 (700) -+-.||.+.|-. +.|-.+.+. .+.+.=+. ....|||-.+++|..+-++.|+.+..+.|+||.|---| T Consensus 500 i~~h~mdkaiifcrt-----k~dcDnLer---~~~qkgg~~~scvclhgDrkP~Erk~nle~Fkk~dvkflictdvaarg 571 (725) T KOG0349 500 IRRHAMDKAIIFCRT-----KQDCDNLER---MMNQKGGKHYSCVCLHGDRKPDERKANLESFKKFDVKFLICTDVAARG 571 (725) T ss_pred HHHHCCCCEEEEEEC-----CCCCHHHHH---HHHHCCCCCCEEEEEECCCCHHHHHHHHHHHHHCCEEEEEEEHHHHCC T ss_conf 555346745999703-----566167999---998727864036888247882677887876652572799971044356 Q ss_pred CCCCCCCEEEE-----------------ECHHHCCHHH-----------HH--HHHHCCCCC----CCCEEEEEEECCCC Q ss_conf 68887658998-----------------5852547468-----------87--730116678----98359999708889 Q gi|254780945|r 555 IDVVDASIIII-----------------ENAEHFGLAQ-----------LH--QLRGRVGRG----EEISSCILLYHPPL 600 (700) Q Consensus 555 vdvpna~~mvI-----------------~~aerfGLsq-----------LH--QLRGRVGRg----~~~s~c~l~~~~~~ 600 (700) +|+...-.||- -.|||.|||- -| --|||---. ...|-|+- |+.+ T Consensus 572 ldi~g~p~~invtlpd~k~nyvhrigrvgraermglaislvat~~ekvwyh~c~srgr~c~nt~l~e~~gc~iw-yne~- 649 (725) T KOG0349 572 LDITGLPFMINVTLPDDKTNYVHRIGRVGRAERMGLAISLVATVPEKVWYHWCKSRGRSCNNTNLTEVRGCCIW-YNEP- 649 (725) T ss_pred CCCCCCCEEEEEECCCCCCHHHHHHHCCCHHHHCCEEEEEEECCCHHEEEHHHHCCCCCCCCCCCCCCCCEEEE-ECCH- T ss_conf 65427725999855865411545640201454405047776416502131003036876667765234635897-4766- Q ss_pred CHHHHHHHHHHHHHCH--HHHHHHHHHHHCCCCC-CCCCHHCCCCCCCCCCHHHH Q ss_conf 9879999999984142--5899999985206300-02600069874400038875 Q gi|254780945|r 601 SKNSYTRLSVLKNTED--GFLIAEEDLKQRKEGE-ILGIKQSGMPKFLIAQPELH 652 (700) Q Consensus 601 ~~~~~~Rl~~l~~~~d--Gf~iAe~Dl~lRG~G~-~~G~~QsG~~~~~~~d~~~d 652 (700) +.+.+..| --.|.+.|-.+.-|=+ +-|.---|..+++-..-++| T Consensus 650 --------~llaeve~hln~ti~qv~~~~~vpv~~fdgkv~ygqk~~~~g~~y~~ 696 (725) T KOG0349 650 --------NLLAEVEDHLNITIQQVDKTMDVPVNDFDGKVVYGQKNLRTGSGYED 696 (725) T ss_pred --------HHHHHHHHHHCCEEEEECCCCCCCCCCCCCEEEECCCCCCCCCCCCC T ss_conf --------68898887515550210777777643567707753212566887200 No 113 >pfam00176 SNF2_N SNF2 family N-terminal domain. 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). Probab=98.58 E-value=1.8e-06 Score=70.34 Aligned_cols=145 Identities=22% Similarity=0.314 Sum_probs=92.8 Q ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHH---CCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHH-HHH Q ss_conf 078862144223699999973344430---5458861279999999986211014578658996246422566768-776 Q gi|254780945|r 295 LRILQGDVGSGKTLVALIAMAAAVEAG---GQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKA-LER 370 (700) Q Consensus 295 ~RLLQGDVGSGKTiVA~~A~l~~~~~G---~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i-~~~ 370 (700) .-+|-=|.|-|||+-++..+......+ .-+.+.||..++. |=.+.+.+|+++.. +....|.. +.|.+. ... T Consensus 18 ggiLaDeMGLGKTiq~ia~l~~~~~~~~~~~~~LIV~P~sl~~-~W~~Ei~~~~~~~~--~~~~~~~~--~~r~~~~~~~ 92 (295) T pfam00176 18 GGILADEMGLGKTLQTISLLAYLKELKPLAGPHLVVCPLSTLD-NWLNEFEKWAPDLN--IVVYYGDG--DSRSELLRNV 92 (295) T ss_pred CEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCEEEEECHHHHH-HHHHHHHHHCCCCC--EEEEEECH--HHHHHHHHHH T ss_conf 9897227875799999999999998388999889997578887-67889998679970--79998470--7689998867 Q ss_pred HCCCCCEEEEEC-HHHCCCCCCCCC--CCEEEECCCCCCC--HHHHHHHHHCCCCCCCEEECHHHHHHHHHHHHHHCCCH Q ss_conf 213475486411-120133455444--4178852101335--68899874025677610101013227899997520101 Q gi|254780945|r 371 IAHGQAHIIIGT-HALFQDSIQYYK--LILVIVDEQHRFG--VQQRLKLTQKATAPHVLLMTATPIPRTLVLTSLGDIDI 445 (700) Q Consensus 371 i~~G~~~iiIGT-HAL~q~~v~F~~--LgLvViDEQHRFG--V~QR~~L~~Kg~~ph~L~MtATPIPRTLal~~ygdldv 445 (700) ...+..+|+|-| +.+-.+.-.+.+ -..||+||=|++- -.++.+-...=...+.+.+|+|||.-.+.= +|+=+++ T Consensus 93 ~~~~~~~ivitsY~~~~~~~~~l~~~~w~~vI~DEaH~iKN~~s~~~~a~~~l~~~~r~~LTGTPiqN~l~e-l~~ll~f 171 (295) T pfam00176 93 LRTGKFDVLITSYEYIRRDKDELHKANWRYVILDEGHRIKNAKSKLSLALKSLKTNNRLLLTGTPIQNNLAE-LWSLLNF 171 (295) T ss_pred HHCCCCCEEEECHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHCCCCCEEEEECCCCCCCHHH-HHHHHHH T ss_conf 741688599930999997599984087658998762012587889999999523581899868745588899-9999999 No 114 >PRK10917 ATP-dependent DNA helicase RecG; Provisional Probab=98.58 E-value=7.8e-07 Score=73.19 Aligned_cols=120 Identities=18% Similarity=0.387 Sum_probs=97.3 Q ss_pred HHHHHHHHHHHHHCCEEEEEHH----HH----HHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEE Q ss_conf 9999973344430545886127----99----999999862110145786589962464225667687762134754864 Q gi|254780945|r 309 VALIAMAAAVEAGGQAVIMAPI----GI----LAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIII 380 (700) Q Consensus 309 VA~~A~l~~~~~G~Q~alMaPT----EI----LA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiI 380 (700) -+.-.+...+..|.||-+.+|- |- =|++-|+.+++.|++ .+|++++|+++..||+++.++..+|+++|+| T Consensus 455 ~~~~~i~~~~~~g~q~y~v~p~ieese~~~~~~~~~~~~~l~~~~~~--~~v~~~hG~m~~~ek~~~m~~F~~g~~~iLv 532 (677) T PRK10917 455 EVYERIREEIAKGRQAYVVCPLIEESEKLDLQSAEETYEELQKALPE--LRVGLLHGRMKPAEKDAVMAAFKAGEIDILV 532 (677) T ss_pred HHHHHHHHHHHCCCEEEEEECCCCCCCCCHHHHHHHHHHHHHHHCCC--CEEEEECCCCCHHHHHHHHHHHHCCCCCEEE T ss_conf 99999999997599289994131123320177799999999844899--7599830789878999999999839999999 Q ss_pred ECHHHCCCCCCCCCCCEEEECCCCCCCHHHHHHHHHC---C-CCCCCEEECHHHH Q ss_conf 1112013345544441788521013356889987402---5-6776101010132 Q gi|254780945|r 381 GTHALFQDSIQYYKLILVIVDEQHRFGVQQRLKLTQK---A-TAPHVLLMTATPI 431 (700) Q Consensus 381 GTHAL~q~~v~F~~LgLvViDEQHRFGV~QR~~L~~K---g-~~ph~L~MtATPI 431 (700) .|. ++.-+|.-.|....||..-+|||..|=..|+.. | ....++.|+..|+ T Consensus 533 sTt-viEvGvdvpna~~mvi~~aerfGlsqLhQLRGRVgRg~~~~~c~l~~~~~~ 586 (677) T PRK10917 533 ATT-VIEVGVDVPNATVMVIENAERFGLAQLHQLRGRVGRGAAQSYCVLLYKDPL 586 (677) T ss_pred ECC-EEECCCCCCCCCEEEEECCCCCCHHHHHHHCCCCCCCCCCEEEEEEECCCC T ss_conf 898-975586788885899977010536788774274367888458999838999 No 115 >COG4889 Predicted helicase [General function prediction only] Probab=98.54 E-value=2.2e-05 Score=61.83 Aligned_cols=352 Identities=22% Similarity=0.360 Sum_probs=196.9 Q ss_pred CCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCC- Q ss_conf 0246798899999999984100134307886214422369999997334443054588612799999999862110145- Q gi|254780945|r 269 IPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQN- 347 (700) Q Consensus 269 LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~- 347 (700) =|.+|-+-|+.|++.-.+-++.+-+= .|+. --|.|||--|+--+-+... ....++||.--|-.| +|+.|-.. T Consensus 158 ~~kk~R~hQq~Aid~a~~~F~~n~RG-kLIM-AcGTGKTfTsLkisEala~--~~iL~LvPSIsLLsQ---Tlrew~~~~ 230 (1518) T COG4889 158 KPKKPRPHQQTAIDAAKEGFSDNDRG-KLIM-ACGTGKTFTSLKISEALAA--ARILFLVPSISLLSQ---TLREWTAQK 230 (1518) T ss_pred CCCCCCHHHHHHHHHHHHHCCCCCCC-CEEE-ECCCCCCCHHHHHHHHHHH--HHEEEECCHHHHHHH---HHHHHHHCC T ss_conf 87899836789999998625516677-5898-3378862137889999864--023654351899999---999885346 Q ss_pred -CCCEEEEEECCCCHHH-----------------HHHHHHHH----CCCCCEEEEEC-HHHCC----CCCCCCCCCEEEE Q ss_conf -7865899624642256-----------------67687762----13475486411-12013----3455444417885 Q gi|254780945|r 348 -TQIIVEIITGNMPQAH-----------------RRKALERI----AHGQAHIIIGT-HALFQ----DSIQYYKLILVIV 400 (700) Q Consensus 348 -~~i~v~lLtg~~~~~e-----------------r~~i~~~i----~~G~~~iiIGT-HAL~q----~~v~F~~LgLvVi 400 (700) ++++..-.++..+.+. -+.|++.. +....-+|.-| ++|.- ...-|.-.-|||. T Consensus 231 ~l~~~a~aVcSD~kvsrs~eDik~sdl~~p~sT~~~~il~~~~~~~k~~~~~vvFsTYQSl~~i~eAQe~G~~~fDliic 310 (1518) T COG4889 231 ELDFRASAVCSDDKVSRSAEDIKASDLPIPVSTDLEDILSEMEHRQKANGLTVVFSTYQSLPRIKEAQEAGLDEFDLIIC 310 (1518) T ss_pred CCCCEEEEEECCCCCCCCCCCCCHHCCCCCCCCCHHHHHHHHHHHHCCCCCEEEEECCCCHHHHHHHHHCCCCCCCEEEE T ss_conf 65512578863652344412321204788875749999999987533378389997021148789999749997537974 Q ss_pred CCCCCC-CHHHHHHHHHCCC-------------CCCCEEECHHHHHHHHHHH---HHHCCCHHHHC-CCCCCC------- Q ss_conf 210133-5688998740256-------------7761010101322789999---75201011110-235576------- Q gi|254780945|r 401 DEQHRF-GVQQRLKLTQKAT-------------APHVLLMTATPIPRTLVLT---SLGDIDISKIT-EKPAGR------- 455 (700) Q Consensus 401 DEQHRF-GV~QR~~L~~Kg~-------------~ph~L~MtATPIPRTLal~---~ygdldvS~i~-e~P~gR------- 455 (700) ||-||= |+ .+..+.. ..--|+|||||=-=+=+.- --.+..+|..| |.-.|- T Consensus 311 DEAHRTtGa----~~a~dd~saFt~vHs~~niKa~kRlYmTATPkiy~eS~K~kAkd~s~~l~SMDDe~~fGeef~rl~F 386 (1518) T COG4889 311 DEAHRTTGA----TLAGDDKSAFTRVHSDQNIKAAKRLYMTATPKIYSESSKAKAKDHSAELSSMDDELTFGEEFHRLGF 386 (1518) T ss_pred CCHHCCCCC----EECCCCCCCCEEECCCCCHHHHHHHHCCCCCHHHCHHHHHHHHHCCCEEECCCHHHHHCHHHHCCCH T ss_conf 400014462----3225772010453376415888766600686021225453032114301125526554546621226 Q ss_pred -----CCC----EEEEEECCC--H-----------------H------HHHHHHHHHHC-----CC--------CEEEEE Q ss_conf -----662----079997020--0-----------------2------68999976310-----38--------738999 Q gi|254780945|r 456 -----KPI----KTVIIPINR--I-----------------D------EVIERLKVVLS-----EG--------KKAYWI 488 (700) Q Consensus 456 -----~~I----~T~~~~~~~--~-----------------~------~~~~~i~~~l~-----~g--------~q~y~V 488 (700) ..+ +-.++..++ + + -+|..+.++-. .| +++.-- T Consensus 387 geAv~rdlLTDYKVmvlaVd~~~i~~~~~~~~~~~~~~L~~dd~~kIvG~wnGlakr~g~~n~~~~~~~d~ap~~RAIaF 466 (1518) T COG4889 387 GEAVERDLLTDYKVMVLAVDKEVIAGVLQSVLSGPSKGLALDDVSKIVGCWNGLAKRNGEDNDLKNIKADTAPMQRAIAF 466 (1518) T ss_pred HHHHHHHHHCCCEEEEEEECHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHH T ss_conf 77876401005258999831766524565630686434243445677777665665325536543676775078899999 Q ss_pred ECCCCCCCCC--CCCHHHHHHH-HHHHHCCC-CEE--CCCCCCCHHHHHHHHH---HHHCCCEEEEEECHHHHCCCCCCC Q ss_conf 7120122111--2101466666-66866371-031--2014699899999999---975598699998003410468887 Q gi|254780945|r 489 CPQIEEKKES--NFRSVVERFN-SLHEHFTS-SIA--IIHGRMSDIDKESVMD---SFKNGTCKLLIATTVIEVGIDVVD 559 (700) Q Consensus 489 cPlIeese~~--~~~~~~~~~~-~l~~~~~~-~v~--~lHGkm~~~ek~~~m~---~F~~g~~~iLvaTtviEVGvdvpn 559 (700) |--|++|.+. ...-+.+.|. ++++.|++ .+. -+.|.|...|+..-.. .|...+++||-----.--|||||- T Consensus 467 ~k~I~tSK~i~~sFe~Vve~Y~~Elk~d~~nL~iSi~HvDGtmNal~R~~l~~l~~~~~~neckIlSNaRcLSEGVDVPa 546 (1518) T COG4889 467 AKDIKTSKQIAESFETVVEAYDEELKKDFKNLKISIDHVDGTMNALERLDLLELKNTFEPNECKILSNARCLSEGVDVPA 546 (1518) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHCCCCCCCCHHEEECCCHHHHCCCCCCC T ss_conf 87667788788888999999999997326683688751467300888877886158899421011013315423788534 Q ss_pred CCEEEEECHHHCCHHHHHHHHHCCCC---CCCCEEEEEEECCCCC-------------HHHHHHHHHHHHHCHHHHHHHH Q ss_conf 65899858525474688773011667---8983599997088899-------------8799999999841425899999 Q gi|254780945|r 560 ASIIIIENAEHFGLAQLHQLRGRVGR---GEEISSCILLYHPPLS-------------KNSYTRLSVLKNTEDGFLIAEE 623 (700) Q Consensus 560 a~~mvI~~aerfGLsqLHQLRGRVGR---g~~~s~c~l~~~~~~~-------------~~~~~Rl~~l~~~~dGf~iAe~ 623 (700) ..-.|-.|+ |=..-..-|--|||=| |..-||-+|-.--+.+ +...+=|++|+.+.+ |+. T Consensus 547 LDsViFf~p-r~smVDIVQaVGRVMRKa~gK~yGYIILPIalpegi~p~~~l~~n~nFk~VWqVlnALRShD~----amv 621 (1518) T COG4889 547 LDSVIFFDP-RSSMVDIVQAVGRVMRKAKGKKYGYIILPIALPEGIKPLDELVNNTNFKNVWQVLKALRSHDE----AMV 621 (1518) T ss_pred CCEEEEECC-CHHHHHHHHHHHHHHHHCCCCCCCEEEEEECCCCCCCCHHHHHCCCCHHHHHHHHHHHHHCCH----HHH T ss_conf 123798668-512889999999998727687665699873158777846777347318999999998873377----764 Q ss_pred HH--HHCCCCCCCCC Q ss_conf 98--52063000260 Q gi|254780945|r 624 DL--KQRKEGEILGI 636 (700) Q Consensus 624 Dl--~lRG~G~~~G~ 636 (700) |+ ++-++|--.+. T Consensus 622 ~~k~k~Ki~g~d~a~ 636 (1518) T COG4889 622 DFKEKIKIFGSDDAS 636 (1518) T ss_pred HHHHHHHCCCCCCCC T ss_conf 149875023667788 No 116 >COG0653 SecA Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking and secretion] Probab=98.47 E-value=2e-05 Score=62.13 Aligned_cols=110 Identities=25% Similarity=0.303 Sum_probs=89.8 Q ss_pred HHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCC Q ss_conf 99999841001343078862144223699999973344430545886127999999998621101457865899624642 Q gi|254780945|r 281 IKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMP 360 (700) Q Consensus 281 i~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~ 360 (700) +.-|.-....-.+|. ||=|||+||.++++...-+|.-|-+.-.-|=||+--.+...+++.-+|..|.+...+++ T Consensus 87 iG~i~lh~g~iaEM~------TGEGKTL~atlp~ylnaL~gkgVhvVTvNdYLA~RDae~m~~l~~~LGLsvG~~~~~m~ 160 (822) T COG0653 87 LGGIVLHLGDIAEMR------TGEGKTLVATLPAYLNALAGKGVHVVTVNDYLARRDAEWMGPLYEFLGLSVGVILAGMS 160 (822) T ss_pred HHCHHHCCCCEEEEE------CCCCHHHHHHHHHHHHHCCCCCCEEEEEHHHHHHHCHHHHHHHHHHCCCCEEECCCCCC T ss_conf 612352378144554------37735999889999972389974895004877442899989999876882322358898 Q ss_pred HHHHHHHHHHHCCCCCEEEEECHHHCC------------CCCCCCCCCEEEECC Q ss_conf 256676877621347548641112013------------345544441788521 Q gi|254780945|r 361 QAHRRKALERIAHGQAHIIIGTHALFQ------------DSIQYYKLILVIVDE 402 (700) Q Consensus 361 ~~er~~i~~~i~~G~~~iiIGTHAL~q------------~~v~F~~LgLvViDE 402 (700) ..+|++++. +||.-||..=|- ++..-.++..+|||| T Consensus 161 ~~ek~~aY~------~DItY~TnnElGFDYLRDNm~~~~ee~vqr~~~faIvDE 208 (822) T COG0653 161 PEEKRAAYA------CDITYGTNNELGFDYLRDNMVTSQEEKVQRGLNFAIVDE 208 (822) T ss_pred HHHHHHHHH------CCCEECCCCCCCCCHHHHHHHCCHHHHHHCCCCEEEECC T ss_conf 678688873------375430550017552221432058775503688388755 No 117 >KOG0953 consensus Probab=98.42 E-value=5.4e-05 Score=58.76 Aligned_cols=276 Identities=21% Similarity=0.356 Sum_probs=174.0 Q ss_pred HHHCCCCCC--HHHHHHHHHHHHHHCCC-------CCCEE---EEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHH Q ss_conf 863024679--88999999999841001-------34307---8862144223699999973344430545886127999 Q gi|254780945|r 266 LRNIPFSPT--KSQESAIKDILQDMSQK-------NRMLR---ILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGIL 333 (700) Q Consensus 266 ~~~LPF~LT--~~Q~~ai~eI~~Dl~~~-------~pM~R---LLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEIL 333 (700) ...+| ++| ++|+ ...||..| ..|.| +=-|-.-||||-=|+ .-..+-..+.+--|--.| T Consensus 158 k~~fp-~l~~~Ddl~-----~isDLt~P~~WyP~AR~~~RkIi~H~GPTNSGKTy~AL----qrl~~aksGvycGPLrLL 227 (700) T KOG0953 158 KQEFP-ELTRMDDLK-----KISDLTNPANWYPEARKIRRKIIMHVGPTNSGKTYRAL----QRLKSAKSGVYCGPLRLL 227 (700) T ss_pred HHHHC-CCCCCHHHH-----HHHCCCCCCCCCCHHHHHHHEEEEEECCCCCCHHHHHH----HHHHHHCCCEECCHHHHH T ss_conf 77712-033602555-----54304798544825675431589875788884257999----987540266002608989 Q ss_pred HHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEEECCCCCCCHHHH-- Q ss_conf 999998621101457865899624642256676877621347548641112013345544441788521013356889-- Q gi|254780945|r 334 AQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKLILVIVDEQHRFGVQQR-- 411 (700) Q Consensus 334 A~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFGV~QR-- 411 (700) |.--|+.+.. .||+|.|+||- ||+-.+.+ ...++.+-+|--...-+-.|. .+||||=+---=.|| T Consensus 228 A~EV~~r~na----~gipCdL~TGe----E~~~~~~~--~~~a~hvScTVEM~sv~~~ye---VAViDEIQmm~Dp~RGw 294 (700) T KOG0953 228 AHEVYDRLNA----LGIPCDLLTGE----ERRFVLDN--GNPAQHVSCTVEMVSVNTPYE---VAVIDEIQMMRDPSRGW 294 (700) T ss_pred HHHHHHHHHH----CCCCCCCCCCC----EEEECCCC--CCCCCCEEEEEEEEECCCCEE---EEEEHHHHHHCCCCCCH T ss_conf 9999987643----28873344461----25405788--886651478999840687057---88766677622765235 Q ss_pred ----HHHHHCCCCCCCE-EECHHHHHHHHHHHHHHCCCHHHHCCCCCCCC-CCEEEEEECCCHHHHHHHHHHHHCCCCEE Q ss_conf ----9874025677610-10101322789999752010111102355766-62079997020026899997631038738 Q gi|254780945|r 412 ----LKLTQKATAPHVL-LMTATPIPRTLVLTSLGDIDISKITEKPAGRK-PIKTVIIPINRIDEVIERLKVVLSEGKKA 485 (700) Q Consensus 412 ----~~L~~Kg~~ph~L-~MtATPIPRTLal~~ygdldvS~i~e~P~gR~-~I~T~~~~~~~~~~~~~~i~~~l~~g~q~ 485 (700) +-|.-.....|+- -=+|-||-|.++-..=-|+.|-.-. |. |. ++. +.+...+ ..+..| -| T Consensus 295 AWTrALLGl~AdEiHLCGepsvldlV~~i~k~TGd~vev~~Ye-----Rl~pL---~v~----~~~~~sl-~nlk~G-DC 360 (700) T KOG0953 295 AWTRALLGLAADEIHLCGEPSVLDLVRKILKMTGDDVEVREYE-----RLSPL---VVE----ETALGSL-SNLKPG-DC 360 (700) T ss_pred HHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCEEEEEEEC-----CCCCC---EEH----HHHHHHH-CCCCCC-CE T ss_conf 9999987440556100588048999999986317814897600-----05765---000----4232023-068888-76 Q ss_pred EEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHC--CCEEEEEECHHHHCCCCCCCCCEE Q ss_conf 999712012211121014666666686637103120146998999999999755--986999980034104688876589 Q gi|254780945|r 486 YWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKN--GTCKLLIATTVIEVGIDVVDASII 563 (700) Q Consensus 486 y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~--g~~~iLvaTtviEVGvdvpna~~m 563 (700) +||= |. +++-+.-..+.+.-..++.++-|-+.++-|-+.-..|.+ ++.||||||--|-.|.|.---.++ T Consensus 361 -vV~F----Sk----k~I~~~k~kIE~~g~~k~aVIYGsLPPeTr~aQA~~FNd~~~e~dvlVAsDAIGMGLNL~IrRii 431 (700) T KOG0953 361 -VVAF----SK----KDIFTVKKKIEKAGNHKCAVIYGSLPPETRLAQAALFNDPSNECDVLVASDAIGMGLNLNIRRII 431 (700) T ss_pred -EEEE----EH----HHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHHHCCCCCCCCEEEEECCCCCCCCCCEEEEE T ss_conf -9994----11----14888899999855855489955899730688898737988762568862321455444311798 Q ss_pred EE-------ECHHHCCHHHHHHHHHCCCCCC Q ss_conf 98-------5852547468877301166789 Q gi|254780945|r 564 II-------ENAEHFGLAQLHQLRGRVGRGE 587 (700) Q Consensus 564 vI-------~~aerfGLsqLHQLRGRVGRg~ 587 (700) -- ..-+-.-.||.-|.-||-||=+ T Consensus 432 F~sl~Kysg~e~~~it~sqikQIAGRAGRf~ 462 (700) T KOG0953 432 FYSLIKYSGRETEDITVSQIKQIAGRAGRFG 462 (700) T ss_pred EEECCCCCCCCCEECCHHHHHHHHHCCCCCC T ss_conf 7503567766210256899998851015445 No 118 >PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated Probab=98.42 E-value=0.00044 Score=51.60 Aligned_cols=137 Identities=17% Similarity=0.268 Sum_probs=95.0 Q ss_pred HCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHH-HHHHCC Q ss_conf 3024679889999999998410013430788621442236999999733444305458861279999999986-211014 Q gi|254780945|r 268 NIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEF-IKKYTQ 346 (700) Q Consensus 268 ~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~-~~~~~~ 346 (700) -+.|+.=.+|.+-.+.|.+.++.+... ++.--+|.|||+-+++.++ +..++..+.+=..|-.|-+|-++. +..+-. T Consensus 241 ~~g~E~R~~Q~~Ma~~V~~al~~~~~l--~IEAgTGtGKTlaYLlPai-a~~~~~~vVIST~T~~LQeQL~~kDlp~L~~ 317 (820) T PRK07246 241 LLGLEERPKQEQFAQLVDEDYHDGVAS--FIEAQTGIGKTYGYLLPLL-AQSDQNQIIVSVPTKLLQDQIMAGEVKAIQE 317 (820) T ss_pred CCCCCCCHHHHHHHHHHHHHHCCCCCE--EEECCCCCCHHHHHHHHHH-HHCCCCEEEEEECCHHHHHHHHHHHHHHHHH T ss_conf 679861889999999999998058838--9988999647999999999-8437983999908699999999978999999 Q ss_pred CCCCEEEEEECCCC-----------------------------------HHHHH---------HHHHHH----------- Q ss_conf 57865899624642-----------------------------------25667---------687762----------- Q gi|254780945|r 347 NTQIIVEIITGNMP-----------------------------------QAHRR---------KALERI----------- 371 (700) Q Consensus 347 ~~~i~v~lLtg~~~-----------------------------------~~er~---------~i~~~i----------- 371 (700) .+++++.+|-|.-. ..++. ..+..+ T Consensus 318 ~l~~~~~~lKGr~nYLcL~~~~~~l~~~d~~~~~~~~~~~ll~Wl~~T~tGD~dEL~~~~~~~~~~~~i~~~~~l~~~~~ 397 (820) T PRK07246 318 QFHIACHSLKGPQNYLKLDSFYDSLQQNDQNRLVNRYKMQLLVWLLETETGDLDEIKQKQRYAAYFDQLKHDGDLKQSSL 397 (820) T ss_pred HHCCCCCEEECHHHCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHCCCCCCHHHCCCCHHHHHHHHHCCCCCCCCCCCC T ss_conf 84875033656786164888999860453023545899999999726898897772354103578775065577887898 Q ss_pred ------------CCCCCEEEEECHHHCCCCC----CCCCCCEEEECCCCCCC Q ss_conf ------------1347548641112013345----54444178852101335 Q gi|254780945|r 372 ------------AHGQAHIIIGTHALFQDSI----QYYKLILVIVDEQHRFG 407 (700) Q Consensus 372 ------------~~G~~~iiIGTHAL~q~~v----~F~~LgLvViDEQHRFG 407 (700) +.-.++|||--||++-.++ .|..-..+||||=|++= T Consensus 398 ~~~~cf~~~ar~~a~~AdivI~NHalLl~~~~~~~~~~~~~~lIiDEAH~L~ 449 (820) T PRK07246 398 FYDYDFWKRSYEKAKTARLLITNHAYFLTRVQDDKDFVRNKVLVFDEAQKLM 449 (820) T ss_pred CCCCHHHHHHHHHHHHCCEEEECHHHHHHHHHHCCCCCCCCEEEEECCCHHH T ss_conf 7640599999999861658984679999987414457768879998814279 No 119 >COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription] Probab=98.38 E-value=3.4e-06 Score=68.21 Aligned_cols=116 Identities=20% Similarity=0.418 Sum_probs=99.1 Q ss_pred HHHHHHHHHCCEEEEEH----HH----HHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHH Q ss_conf 97334443054588612----79----99999998621101457865899624642256676877621347548641112 Q gi|254780945|r 313 AMAAAVEAGGQAVIMAP----IG----ILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHA 384 (700) Q Consensus 313 A~l~~~~~G~Q~alMaP----TE----ILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHA 384 (700) -+...+..|.||-+.+| .| --|..-|+.++++|+.+ +|.|++|+++.+||.++.++.++|+++|+|-|. T Consensus 465 ~i~~ei~~GrQaY~VcPLIeeSE~l~l~~a~~~~~~L~~~~~~~--~vgL~HGrm~~~eKd~vM~~Fk~~e~~ILVaTT- 541 (677) T COG1200 465 RIREEIAKGRQAYVVCPLIEESEKLELQAAEELYEELKSFLPEL--KVGLVHGRMKPAEKDAVMEAFKEGEIDILVATT- 541 (677) T ss_pred HHHHHHHCCCEEEEEECCCCCCCCCHHHHHHHHHHHHHHHCCCC--EEEEEECCCCHHHHHHHHHHHHCCCCCEEEEEE- T ss_conf 99999974997999952535433113654999999999870546--367775689867799999999808876899813- Q ss_pred HCCCCCCCCCCCEEEECCCCCCCHHHHHHHHHC---CC-CCCCEEECHHHH Q ss_conf 013345544441788521013356889987402---56-776101010132 Q gi|254780945|r 385 LFQDSIQYYKLILVIVDEQHRFGVQQRLKLTQK---AT-APHVLLMTATPI 431 (700) Q Consensus 385 L~q~~v~F~~LgLvViDEQHRFGV~QR~~L~~K---g~-~ph~L~MtATPI 431 (700) ++.=+|.-.|..+.||..-.|||..|=..|+.. |. ...++.|+-.|- T Consensus 542 VIEVGVdVPnATvMVIe~AERFGLaQLHQLRGRVGRG~~qSyC~Ll~~~~~ 592 (677) T COG1200 542 VIEVGVDVPNATVMVIENAERFGLAQLHQLRGRVGRGDLQSYCVLLYKPPL 592 (677) T ss_pred EEEECCCCCCCEEEEEECHHHHHHHHHHHHCCCCCCCCCCEEEEEEECCCC T ss_conf 899523578870799965433037888875265578875448999967987 No 120 >KOG0385 consensus Probab=98.38 E-value=0.00033 Score=52.54 Aligned_cols=361 Identities=17% Similarity=0.258 Sum_probs=207.6 Q ss_pred CCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHH--HHHHHHHHHHHH-HCCEEEEEHHHHHHHHHHHHHHHHCCCCC Q ss_conf 798899999999984100134307886214422369--999997334443-05458861279999999986211014578 Q gi|254780945|r 273 PTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTL--VALIAMAAAVEA-GGQAVIMAPIGILAQQHYEFIKKYTQNTQ 349 (700) Q Consensus 273 LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTi--VA~~A~l~~~~~-G~Q~alMaPTEILA~QH~~~~~~~~~~~~ 349 (700) |..-|.+-++=...=- ....|-+|--..|=|||+ +|+++-+.-..+ -.--.+.||-..|.. -.+.|++|.+.+ T Consensus 168 lr~YQveGlnWLi~l~--engingILaDEMGLGKTlQtIs~l~yl~~~~~~~GPfLVi~P~StL~N-W~~Ef~rf~P~l- 243 (971) T KOG0385 168 LRDYQLEGLNWLISLY--ENGINGILADEMGLGKTLQTISLLGYLKGRKGIPGPFLVIAPKSTLDN-WMNEFKRFTPSL- 243 (971) T ss_pred CCHHHHCCHHHHHHHH--HCCCCCEEEHHCCCCHHHHHHHHHHHHHHHCCCCCCEEEEEEHHHHHH-HHHHHHHHCCCC- T ss_conf 5433203379999998--657665842310453389999999999985179998499812766789-999999768986- Q ss_pred CEEEEEECCCCHHHHHHHHHHHC-CCCCEEEEECH-HHCCCCCCCC--CCCEEEECCCCCCCHHHHHHHHH---CCCCCC Q ss_conf 65899624642256676877621-34754864111-2013345544--44178852101335688998740---256776 Q gi|254780945|r 350 IIVEIITGNMPQAHRRKALERIA-HGQAHIIIGTH-ALFQDSIQYY--KLILVIVDEQHRFGVQQRLKLTQ---KATAPH 422 (700) Q Consensus 350 i~v~lLtg~~~~~er~~i~~~i~-~G~~~iiIGTH-AL~q~~v~F~--~LgLvViDEQHRFGV~QR~~L~~---Kg~~ph 422 (700) ++..+.|.- .+|.....++. .|..+|+|-|- -.+-++-.++ +-.++||||-||--- +.-.|.. .=..++ T Consensus 244 -~~~~~~Gdk--~eR~~~~r~~~~~~~fdV~iTsYEi~i~dk~~lk~~~W~ylvIDEaHRiKN-~~s~L~~~lr~f~~~n 319 (971) T KOG0385 244 -NVVVYHGDK--EERAALRRDIMLPGRFDVCITSYEIAIKDKSFLKKFNWRYLVIDEAHRIKN-EKSKLSKILREFKTDN 319 (971) T ss_pred -CEEEEECCH--HHHHHHHHHHHCCCCCCEEEEHHHHHHHHHHHHHCCCCEEEEECHHHHHCC-HHHHHHHHHHHHCCCC T ss_conf -349884799--999999998531578766864078898668898619934999523654146-2448999999856655 Q ss_pred CEEECHHHHHHHHHH----------HHHHCCC-------H---------------------------HHHCCCCCCCCCC Q ss_conf 101010132278999----------9752010-------1---------------------------1110235576662 Q gi|254780945|r 423 VLLMTATPIPRTLVL----------TSLGDID-------I---------------------------SKITEKPAGRKPI 458 (700) Q Consensus 423 ~L~MtATPIPRTLal----------~~ygdld-------v---------------------------S~i~e~P~gR~~I 458 (700) -|..|-||+--.|+= -+|+|.| . -+...+|| |.. T Consensus 320 rLLlTGTPLQNNL~ELWaLLnFllPdiF~~~e~F~swF~~~~~~~~~e~v~~Lh~vL~pFlLRR~K~dVe~sLpp--KkE 397 (971) T KOG0385 320 RLLLTGTPLQNNLHELWALLNFLLPDIFNSAEDFDSWFDFTNCEGDQELVSRLHKVLRPFLLRRIKSDVEKSLPP--KKE 397 (971) T ss_pred EEEEECCCCCCCHHHHHHHHHHHCHHHCCCHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCC--CCE T ss_conf 267527854364999999997622142057889999971134335589999999866389999988878741897--532 Q ss_pred EEEEEECCCHH-HHHHHH-HHHHCCCC----------------------EEEE---EEC---------CCCCCCCCC--- Q ss_conf 07999702002-689999-76310387----------------------3899---971---------201221112--- Q gi|254780945|r 459 KTVIIPINRID-EVIERL-KVVLSEGK----------------------KAYW---ICP---------QIEEKKESN--- 499 (700) Q Consensus 459 ~T~~~~~~~~~-~~~~~i-~~~l~~g~----------------------q~y~---VcP---------lIeese~~~--- 499 (700) .+..++..++. +.|..+ .+.|..=+ .-|. +-| +|+.|.++- T Consensus 398 ~~iyvgms~mQkk~Y~~iL~kdl~~~n~~~~~~k~kL~NI~mQLRKccnHPYLF~g~ePg~pyttdehLv~nSGKm~vLD 477 (971) T KOG0385 398 LIIYVGMSSMQKKWYKAILMKDLDALNGEGKGEKTKLQNIMMQLRKCCNHPYLFDGAEPGPPYTTDEHLVTNSGKMLVLD 477 (971) T ss_pred EEEEECCHHHHHHHHHHHHHHCCHHHCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHCCCCEEHHH T ss_conf 67860650889999999996113754266632037899999999974699641488888999886217875476111699 Q ss_pred ---------------CCHHHHHHHHHHHHC---CCCEECCCCCCCHHHHHHHHHHHHCCC---EEEEEECHHHHCCCCCC Q ss_conf ---------------101466666668663---710312014699899999999975598---69999800341046888 Q gi|254780945|r 500 ---------------FRSVVERFNSLHEHF---TSSIAIIHGRMSDIDKESVMDSFKNGT---CKLLIATTVIEVGIDVV 558 (700) Q Consensus 500 ---------------~~~~~~~~~~l~~~~---~~~v~~lHGkm~~~ek~~~m~~F~~g~---~~iLvaTtviEVGvdvp 558 (700) ..-.+.....|..+. +...--+-|.++.+|....|++|.+-. .=-|+||--=-+|||.. T Consensus 478 kLL~~Lk~~GhRVLIFSQmt~mLDILeDyc~~R~y~ycRiDGSt~~eeR~~aI~~fn~~~s~~FiFlLSTRAGGLGINL~ 557 (971) T KOG0385 478 KLLPKLKEQGHRVLIFSQMTRMLDILEDYCMLRGYEYCRLDGSTSHEEREDAIEAFNAPPSEKFIFLLSTRAGGLGINLT 557 (971) T ss_pred HHHHHHHHCCCEEEEEHHHHHHHHHHHHHHHHCCCEEEEECCCCCCHHHHHHHHHCCCCCCCEEEEEEECCCCCCCCCCC T ss_conf 88899984897699826988899999999875175268723888707899999863899762589998504666630222 Q ss_pred CCCEEEEECHHHCCHHHHH--HHHHCCCCCCCCEEEEEEECCCCCHH------HHHHHHHHHHHC--------HH-HHHH Q ss_conf 7658998585254746887--73011667898359999708889987------999999998414--------25-8999 Q gi|254780945|r 559 DASIIIIENAEHFGLAQLH--QLRGRVGRGEEISSCILLYHPPLSKN------SYTRLSVLKNTE--------DG-FLIA 621 (700) Q Consensus 559 na~~mvI~~aerfGLsqLH--QLRGRVGRg~~~s~c~l~~~~~~~~~------~~~Rl~~l~~~~--------dG-f~iA 621 (700) .|.+.|++++|-=-=+-|. +=--|+|--..--..=|++.+.+.+. ++-||.-|+=-. +| -.-. T Consensus 558 aADtVIlyDSDWNPQ~DLQAmDRaHRIGQ~K~V~V~RLitentVEe~IveRA~~KL~Ld~~VIq~g~l~~~~~~~~~k~~ 637 (971) T KOG0385 558 AADTVILYDSDWNPQVDLQAMDRAHRIGQKKPVVVYRLITENTVEEKIVERAAAKLRLDKLVIQQGRLEEQKSNGLGKDE 637 (971) T ss_pred CCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCEEEEEEECCCHHHHHHHHHHHHHHCHHHHHHCCCCHHHHHCCCCCHHH T ss_conf 36479996689982143788998886078771599997535518999999999874415530137705532035431777 Q ss_pred HHHHHHCCCCCCCCCHHCCCCC Q ss_conf 9998520630002600069874 Q gi|254780945|r 622 EEDLKQRKEGEILGIKQSGMPK 643 (700) Q Consensus 622 e~Dl~lRG~G~~~G~~QsG~~~ 643 (700) -.+|---|++.++-..||+..+ T Consensus 638 ~l~~~r~g~~~~f~~~es~~~d 659 (971) T KOG0385 638 LLNLLRFGADPVFESKESTISD 659 (971) T ss_pred HHHHHHCCCHHHHHCCCCCCCH T ss_conf 9999873826553103455503 No 121 >pfam07517 SecA_DEAD SecA DEAD-like domain. 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 pfam00270. Probab=98.31 E-value=3e-06 Score=68.54 Aligned_cols=102 Identities=25% Similarity=0.307 Sum_probs=88.1 Q ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCC Q ss_conf 07886214422369999997334443054588612799999999862110145786589962464225667687762134 Q gi|254780945|r 295 LRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHG 374 (700) Q Consensus 295 ~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G 374 (700) -++.|=-.|=|||+||.++++..+-+|..|-+....+-||+--.+.+.++|.-+|++|.+.++.++..+|++.+. T Consensus 92 G~IaEM~TGEGKTL~atl~a~l~AL~Gk~VhvvTvNdYLA~RDae~m~~vy~~LGLsvg~i~~~~~~~err~aY~----- 166 (381) T pfam07517 92 GKIAEMKTGEGKTLTATLPAYLNALSGKGVHVVTVNDYLAKRDAEWMGPLYEFLGLSVGVITSDMSPEERREAYN----- 166 (381) T ss_pred CCEEEEECCCCCHHHHHHHHHHHHCCCCCCEEEECCHHHHHHHHHHHHHHHHHHCCEEEECCCCCCHHHHHHHHH----- T ss_conf 872588769981199999999997379974899758888688999979999984860542278898488898751----- Q ss_pred CCEEEEECHHHCCC-----CC-------CCCCCCEEEECC Q ss_conf 75486411120133-----45-------544441788521 Q gi|254780945|r 375 QAHIIIGTHALFQD-----SI-------QYYKLILVIVDE 402 (700) Q Consensus 375 ~~~iiIGTHAL~q~-----~v-------~F~~LgLvViDE 402 (700) +||+-||.+=|.= .. .-..+..+|||| T Consensus 167 -~DItYgTn~e~gFDYLRDnm~~~~~~~vqR~~~~aIVDE 205 (381) T pfam07517 167 -CDITYGTNSELGFDYLRDNMALSKEDKVQRGLNFAIVDE 205 (381) T ss_pred -CCCEECCHHHHHHHHHHHHHHCCHHHHCCCCCCEEEEEC T ss_conf -660550322321445323441582543457777699974 No 122 >PRK13480 3'-5' exoribonuclease YhaM; Provisional Probab=98.25 E-value=3.8e-05 Score=59.98 Aligned_cols=88 Identities=14% Similarity=0.177 Sum_probs=71.6 Q ss_pred CCHHHCCCCCEEEEEEEEEEEEEECCCCCCE-EEEEEECCCCEEEEEEECCCHHHHHHHCCCCCEEEEEEEEEECCCEEE Q ss_conf 6478889987899999998975421589833-899998189369999951887899873289888999989973187799 Q gi|254780945|r 59 PKISEISEERIVTITGYISQHSSFQLQKRRP-YKILLNDGTGEITLLFFYRKTEMLKNVFFEGRKITVTGKIKKLKNRII 137 (700) Q Consensus 59 ~~I~~l~~g~~vti~g~V~~~~~~~~~~r~~-~~v~v~D~tg~i~lvfFn~~~~yl~k~lk~G~~v~vsGKv~~~~~~~q 137 (700) +.|+++++|+.+.-..-|.+......+.+++ +.+++.|.||.|+.+.|+.. +.....|.+|+-|.|.|++..|++++| T Consensus 3 ~~i~~l~~G~~v~~~~lv~~~~~~~tknG~~Yl~l~L~D~tG~I~ak~W~~~-~~~~~~~~~g~~V~v~G~v~~y~g~~Q 81 (314) T PRK13480 3 KGIENLEVGESVDHFLLIKSATKGVASNGKPFLTLILQDKSGDIEAKLWDVS-KEDEATYVPETIVHVKGDIINYRGRKQ 81 (314) T ss_pred CCHHHCCCCCEEEEEEEEEECHHHCCCCCCCEEEEEEECCCCEEEEEECCCC-HHHHHHCCCCCEEEEEEEEEEECCCCC T ss_conf 5141089998888999998714331899981479999837876889967898-666863789988999999987689862 Q ss_pred EECCEEEECC Q ss_conf 9778689626 Q gi|254780945|r 138 MVHPHYIFHN 147 (700) Q Consensus 138 i~hPe~~~~~ 147 (700) +.--.+...+ T Consensus 82 l~i~~i~~~~ 91 (314) T PRK13480 82 LKVNQIRLAT 91 (314) T ss_pred EEEEEEEECC T ss_conf 5888857678 No 123 >KOG0387 consensus Probab=98.22 E-value=1.6e-05 Score=62.88 Aligned_cols=318 Identities=19% Similarity=0.276 Sum_probs=183.0 Q ss_pred HHHHHHH---HHHHHHHCCCCCCEEEEEECCCCCHHH--HHHHHHHHHH-HHHCCEEEEEHHHHHHHHHHHHHHHHCCCC Q ss_conf 8899999---999984100134307886214422369--9999973344-430545886127999999998621101457 Q gi|254780945|r 275 KSQESAI---KDILQDMSQKNRMLRILQGDVGSGKTL--VALIAMAAAV-EAGGQAVIMAPIGILAQQHYEFIKKYTQNT 348 (700) Q Consensus 275 ~~Q~~ai---~eI~~Dl~~~~pM~RLLQGDVGSGKTi--VA~~A~l~~~-~~G~Q~alMaPTEILA~QH~~~~~~~~~~~ 348 (700) +-|+..+ .+...+-+.+ .|--|-|=|||| ||++|++.-- .--.-|.+.+|+.|++ |--..|..|++++ T Consensus 208 ~yQreGV~WL~~L~~q~~GG-----ILgDeMGLGKTIQiisFLaaL~~S~k~~~paLIVCP~Tii~-qW~~E~~~w~p~~ 281 (923) T KOG0387 208 PYQREGVQWLWELYCQRAGG-----ILGDEMGLGKTIQIISFLAALHHSGKLTKPALIVCPATIIH-QWMKEFQTWWPPF 281 (923) T ss_pred HHHHHHHHHHHHHHHCCCCC-----EECCCCCCCCCHHHHHHHHHHHHCCCCCCCEEEECCHHHHH-HHHHHHHHHCCCE T ss_conf 88898899999997325787-----62012357640158999998750243258659982488999-9999998747653 Q ss_pred CCEEEEEECCCCH---------HHHHHHHHHHCCCCCEEEEECHHHC---CCCCCCCCCCEEEECCCCCCCH--HHHHHH Q ss_conf 8658996246422---------5667687762134754864111201---3345544441788521013356--889987 Q gi|254780945|r 349 QIIVEIITGNMPQ---------AHRRKALERIAHGQAHIIIGTHALF---QDSIQYYKLILVIVDEQHRFGV--QQRLKL 414 (700) Q Consensus 349 ~i~v~lLtg~~~~---------~er~~i~~~i~~G~~~iiIGTHAL~---q~~v~F~~LgLvViDEQHRFGV--~QR~~L 414 (700) +|.+|.|+-+. ..+..++.....-.-.|+|-|-+.| ++++.=.+-++||.||-||--= .|+..- T Consensus 282 --rv~ilh~t~s~~r~~~~~~~~~~~~~L~r~~~~~~~ilitty~~~r~~~d~l~~~~W~y~ILDEGH~IrNpns~isla 359 (923) T KOG0387 282 --RVFILHGTGSGARYDASHSSHKKDKLLIRKVATDGGILITTYDGFRIQGDDLLGILWDYVILDEGHRIRNPNSKISLA 359 (923) T ss_pred --EEEEEECCCCCCCCCCCHHHHHHHHHHEEEECCCCCEEEEEHHHHCCCCCCCCCCCCCEEEECCCCCCCCCCCHHHHH T ss_conf --799971477654444310134431222035304684799742242004752346503479823765046985089999 Q ss_pred HHCCCCCCCEEECHHHHHHHHHHHHHHCCCHHH---HC------------------------------------------ Q ss_conf 402567761010101322789999752010111---10------------------------------------------ Q gi|254780945|r 415 TQKATAPHVLLMTATPIPRTLVLTSLGDIDISK---IT------------------------------------------ 449 (700) Q Consensus 415 ~~Kg~~ph~L~MtATPIPRTLal~~ygdldvS~---i~------------------------------------------ 449 (700) ..|-..+|-..||-|||---|.=-. .-.|.-. +- T Consensus 360 ckki~T~~RiILSGTPiQNnL~ELw-sLfDFv~PG~Lgt~~~F~~~f~~pI~~GgyaNAs~~qv~~aykca~~Lr~lI~P 438 (923) T KOG0387 360 CKKIRTVHRIILSGTPIQNNLTELW-SLFDFVFPGKLGTLPVFQQNFEHPINRGGYANASPRQVQTAYKCAVALRDLISP 438 (923) T ss_pred HHHCCCCCEEEEECCCCCCHHHHHH-HHHHHCCCCCCCCHHHHHHHHHHHEECCCCCCCCHHHHHHHHHHHHHHHHHHHH T ss_conf 9861566648861862101089998-776640677445517787630111003565789879999999999999987679 Q ss_pred -------------CCCCCCCCCEEEEEECCCHHHHHHH------HHHHHCCCCEEEE-------EE--CCCCCCC----- Q ss_conf -------------2355766620799970200268999------9763103873899-------97--1201221----- Q gi|254780945|r 450 -------------EKPAGRKPIKTVIIPINRIDEVIER------LKVVLSEGKKAYW-------IC--PQIEEKK----- 496 (700) Q Consensus 450 -------------e~P~gR~~I~T~~~~~~~~~~~~~~------i~~~l~~g~q~y~-------Vc--PlIeese----- 496 (700) .||. ...+.-.+--...-.++|.. |.+.++...+++. || |.+-+.+ T Consensus 439 ylLRR~K~dv~~~~Lp~-K~E~VlfC~LT~~QR~~Y~~fl~s~~v~~i~ng~~~~l~Gi~iLrkICnHPdll~~~~~~~~ 517 (923) T KOG0387 439 YLLRRMKSDVKGLKLPK-KEEIVLFCRLTKLQRRLYQRFLNSSEVNKILNGKRNCLSGIDILRKICNHPDLLDRRDEDEK 517 (923) T ss_pred HHHHHHHHHHHHCCCCC-CCCEEEEEECCHHHHHHHHHHHHHHHHHHHHCCCCCCEECHHHHHHHCCCCCCCCCCCCCCC T ss_conf 99999998864421788-65258998566999999999860598999974984412151888864589410267642123 Q ss_pred -CCCC----------CHHHHHHHHHH-------------------HHC-----CCCEECCCCCCCHHHHHHHHHHHHCCC Q ss_conf -1121----------01466666668-------------------663-----710312014699899999999975598 Q gi|254780945|r 497 -ESNF----------RSVVERFNSLH-------------------EHF-----TSSIAIIHGRMSDIDKESVMDSFKNGT 541 (700) Q Consensus 497 -~~~~----------~~~~~~~~~l~-------------------~~~-----~~~v~~lHGkm~~~ek~~~m~~F~~g~ 541 (700) ..|. .-+......|. +.| +....-+-|.-+.......+++|.+++ T Consensus 518 ~~~D~~g~~k~sGKm~vl~~ll~~W~kqg~rvllFsqs~~mLdilE~fL~~~~~ysylRmDGtT~~~~R~~lVd~Fne~~ 597 (923) T KOG0387 518 QGPDYEGDPKRSGKMKVLAKLLKDWKKQGDRVLLFSQSRQMLDILESFLRRAKGYSYLRMDGTTPAALRQKLVDRFNEDE 597 (923) T ss_pred CCCCCCCCHHHCCHHHHHHHHHHHHHHCCCEEEEEHHHHHHHHHHHHHHHHCCCCEEEEECCCCCCCHHHHHHHHHCCCC T ss_conf 58876789565216999999999986179779984137799999999987347853897158886201057898636787 Q ss_pred -EEE-EEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCC---CCCEEEEEEECCCCCHH Q ss_conf -699-998003410468887658998585254746887730116678---98359999708889987 Q gi|254780945|r 542 -CKL-LIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRG---EEISSCILLYHPPLSKN 603 (700) Q Consensus 542 -~~i-LvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg---~~~s~c~l~~~~~~~~~ 603 (700) ++| |+.|-|=-.|++.-.|+=+||.++|- -=|.=-|-|-|.=|= ..-...=||+...+-|. T Consensus 598 s~~VFLLTTrvGGLGlNLTgAnRVIIfDPdW-NPStD~QAreRawRiGQkkdV~VYRL~t~gTIEEk 663 (923) T KOG0387 598 SIFVFLLTTRVGGLGLNLTGANRVIIFDPDW-NPSTDNQARERAWRIGQKKDVVVYRLMTAGTIEEK 663 (923) T ss_pred CEEEEEEEECCCCCCCCCCCCCEEEEECCCC-CCCCCHHHHHHHHHHCCCCCEEEEEEECCCCHHHH T ss_conf 4579999730355411245675589979999-97642578888886357465599997327718999 No 124 >TIGR00643 recG ATP-dependent DNA helicase RecG; InterPro: IPR004609 The ATP-dependent DNA helicase RecG 3.6.1 from EC plays a critical role in recombination and DNA repair. It helps to process Holliday junction intermediates to mature products by catalysing branch migration. RecG has DNA unwinding activity characteristic of a DNA helicase with 3' to 5' polarity.; GO: 0004003 ATP-dependent DNA helicase activity, 0006281 DNA repair, 0006310 DNA recombination. Probab=98.21 E-value=1.1e-05 Score=64.07 Aligned_cols=122 Identities=16% Similarity=0.398 Sum_probs=91.8 Q ss_pred HHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCC---CEECCCCCCCHHHHHHHHHHHHCCCEEEEEE Q ss_conf 8999976310387389997120122111210146666666866371---0312014699899999999975598699998 Q gi|254780945|r 471 VIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTS---SIAIIHGRMSDIDKESVMDSFKNGTCKLLIA 547 (700) Q Consensus 471 ~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~---~v~~lHGkm~~~ek~~~m~~F~~g~~~iLva 547 (700) +.-.+-..+.+|-||-.-.|. |-+ |++-|+.+.+.|+. +|++|-|.++.++|.++.++-++|+++++|. T Consensus 345 A~la~l~~i~~GYQ~ALMAPT----EiL----A~QHy~~~~~~l~p~~~~vaLLTGs~k~~~r~~~~e~i~~G~~~~~vG 416 (721) T TIGR00643 345 AALAMLAAIESGYQVALMAPT----EIL----AEQHYDSLRNLLAPLGIEVALLTGSLKGKQRKELLETIASGEIHLVVG 416 (721) T ss_pred HHHHHHHHHHCCCEEEEECCH----HHH----HHHHHHHHHHHHCCCCCEEEEEECCCCHHHHHHHHHHHHCCCCEEEEH T ss_conf 999999998469809991776----899----999999999962354857888615667878999999986395205733 Q ss_pred CH-HHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCC---CCCEEEEEEECCCC Q ss_conf 00-3410468887658998585254746887730116678---98359999708889 Q gi|254780945|r 548 TT-VIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRG---EEISSCILLYHPPL 600 (700) Q Consensus 548 Tt-viEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg---~~~s~c~l~~~~~~ 600 (700) |- .|-=.||-.+-.+.||.-=+|||.-|=-|||--=--+ +..=.|+.|+-.|+ T Consensus 417 THALiqe~vef~~L~lVIiDEQHRFGV~QR~~L~~KG~~~~~~G~~PH~L~MtATPI 473 (721) T TIGR00643 417 THALIQEKVEFKRLGLVIIDEQHRFGVEQRKKLREKGQEGSMIGFAPHVLVMTATPI 473 (721) T ss_pred HHHHHHHHHHHHCCCEEEEECCCCCHHHHHHHHHHHHHCCCCCCCCCCEEEEECCCC T ss_conf 135545214431477489932335607899999986220688677777646637881 No 125 >KOG0353 consensus Probab=98.20 E-value=0.00044 Score=51.57 Aligned_cols=366 Identities=20% Similarity=0.249 Sum_probs=209.7 Q ss_pred HHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEE Q ss_conf 88999999999841001343078862144223699999973344430545886127999999998621101457865899 Q gi|254780945|r 275 KSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEI 354 (700) Q Consensus 275 ~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~l 354 (700) .-|..+ |..-|+..... |-=-.|-||.+-+-+.++.+ ..-+.+..|---|-+-..-.++. +||.... T Consensus 97 plq~~a---in~~ma~ed~~---lil~tgggkslcyqlpal~a---dg~alvi~plislmedqil~lkq----lgi~as~ 163 (695) T KOG0353 97 PLQLAA---INATMAGEDAF---LILPTGGGKSLCYQLPALCA---DGFALVICPLISLMEDQILQLKQ----LGIDASM 163 (695) T ss_pred HHHHHH---HHHHHCCCCEE---EEEECCCCCCHHHHHHHHHC---CCCEEEECHHHHHHHHHHHHHHH----HCCCHHH T ss_conf 037877---55522267469---99837996124522358762---87457610268888999999998----0864443 Q ss_pred EECCCCHHHHHHHHHHHC--CCCCEEEEECHHHC----------CCCCCCCCCCEEEECCCCC---CCHHHHH------H Q ss_conf 624642256676877621--34754864111201----------3345544441788521013---3568899------8 Q gi|254780945|r 355 ITGNMPQAHRRKALERIA--HGQAHIIIGTHALF----------QDSIQYYKLILVIVDEQHR---FGVQQRL------K 413 (700) Q Consensus 355 Ltg~~~~~er~~i~~~i~--~G~~~iiIGTHAL~----------q~~v~F~~LgLvViDEQHR---FGV~QR~------~ 413 (700) |..++++.+-+.+...+. +.+..++--|---+ .+...-..+-++-|||-|- +|-.=|- - T Consensus 164 lnansske~~k~v~~~i~nkdse~kliyvtpekiaksk~~mnkleka~~~~~~~~iaidevhccsqwghdfr~dy~~l~i 243 (695) T KOG0353 164 LNANSSKEEAKRVEAAITNKDSEFKLIYVTPEKIAKSKKFMNKLEKALEAGFFKLIAIDEVHCCSQWGHDFRPDYKALGI 243 (695) T ss_pred CCCCCCHHHHHHHHHHHCCCCCEEEEEEECHHHHHHHHHHHHHHHHHHHCCEEEEEEECCEEEHHHHCCCCCCCHHHHHH T ss_conf 05755488898999987077761589996489987779999999987642604898531023265437665741688889 Q ss_pred HHHCCCCCCCEEECHHHHHHHHHHHHHHCCCHHHHC-----CCCCCCCCCEEEEEEC-CCHHHHHHHHHHHHC---CCCE Q ss_conf 740256776101010132278999975201011110-----2355766620799970-200268999976310---3873 Q gi|254780945|r 414 LTQKATAPHVLLMTATPIPRTLVLTSLGDIDISKIT-----EKPAGRKPIKTVIIPI-NRIDEVIERLKVVLS---EGKK 484 (700) Q Consensus 414 L~~Kg~~ph~L~MtATPIPRTLal~~ygdldvS~i~-----e~P~gR~~I~T~~~~~-~~~~~~~~~i~~~l~---~g~q 484 (700) |...=.++-++-+|||.----|.=. -|+--|. .--.+|....-.+... .+.++.++-|.+.++ +|.- T Consensus 244 lkrqf~~~~iigltatatn~vl~d~----k~il~ie~~~tf~a~fnr~nl~yev~qkp~n~dd~~edi~k~i~~~f~gqs 319 (695) T KOG0353 244 LKRQFKGAPIIGLTATATNHVLDDA----KDILCIEAAFTFRAGFNRPNLKYEVRQKPGNEDDCIEDIAKLIKGDFAGQS 319 (695) T ss_pred HHHHCCCCCEEEEEHHHHCCHHHHH----HHHHHHHHHHEEECCCCCCCCEEEEEECCCCHHHHHHHHHHHHCCCCCCCC T ss_conf 9975799965632311000035678----887747865112023688873267451899757789999998544437876 Q ss_pred EEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEE Q ss_conf 89997120122111210146666666866371031201469989999999997559869999800341046888765899 Q gi|254780945|r 485 AYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIII 564 (700) Q Consensus 485 ~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mv 564 (700) -.+-|-.-. +.+.....|+.+ +-.-|--|.-|.+++|..+-..+.+|+|++.|||..--.|||-||.... T Consensus 320 giiyc~sq~--------d~ekva~alkn~-gi~a~~yha~lep~dks~~hq~w~a~eiqvivatvafgmgidkpdvrfv- 389 (695) T KOG0353 320 GIIYCFSQK--------DCEKVAKALKNH-GIHAGAYHANLEPEDKSGAHQGWIAGEIQVIVATVAFGMGIDKPDVRFV- 389 (695) T ss_pred CEEEEECCC--------CHHHHHHHHHHC-CCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEEEEECCCCCCCCEEEE- T ss_conf 569995346--------589999999855-8352214055685344540003304606899998640256788871699- Q ss_pred EECHHHCCHHHHHH-------------------------------------------HHHCCCCCCCCEEEEEEECCC-- Q ss_conf 85852547468877-------------------------------------------301166789835999970888-- Q gi|254780945|r 565 IENAEHFGLAQLHQ-------------------------------------------LRGRVGRGEEISSCILLYHPP-- 599 (700) Q Consensus 565 I~~aerfGLsqLHQ-------------------------------------------LRGRVGRg~~~s~c~l~~~~~-- 599 (700) |.|+--=.+---.| --||.||.+.+.-|+|.|.-. T Consensus 390 ihhsl~ksienyyqasarillrmtkqknksdtggstqinilevctnfkiffavfsekesgragrd~~~a~cilyy~~~di 469 (695) T KOG0353 390 IHHSLPKSIENYYQASARILLRMTKQKNKSDTGGSTQINILEVCTNFKIFFAVFSEKESGRAGRDDMKADCILYYGFADI 469 (695) T ss_pred EECCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCEEEHHHHHCCCEEEEEEECCHHCCCCCCCCCCCCEEEEECHHHH T ss_conf 95366166899998878999987652255567875300043340131012222031102555668886647998424778 Q ss_pred --CC------HHHHHHHHHHHHH------CHHHHHHHHHHHHCCCCCCCCCHHCC----CCCCCCCCHHH-HHHHHHHHH Q ss_conf --99------8799999999841------42589999998520630002600069----87440003887-599999999 Q gi|254780945|r 600 --LS------KNSYTRLSVLKNT------EDGFLIAEEDLKQRKEGEILGIKQSG----MPKFLIAQPEL-HDSLLEIAR 660 (700) Q Consensus 600 --~~------~~~~~Rl~~l~~~------~dGf~iAe~Dl~lRG~G~~~G~~QsG----~~~~~~~d~~~-d~~ll~~a~ 660 (700) +| ..+.+.|--|+.. .--..+||.==+---|-- -.+|-. ...|.=-++.. -.++++.|+ T Consensus 470 fk~ssmv~~e~~g~q~ly~mv~y~~d~s~crrv~laehfde~w~~~~--c~k~cd~c~~~n~f~~~n~~ey~~dl~e~~k 547 (695) T KOG0353 470 FKISSMVQMENTGIQKLYEMVRYAADISKCRRVKLAEHFDEAWEPEA--CNKMCDNCCKDNAFEGKNIKEYCRDLIEAAK 547 (695) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHH--HHHHHHHHCCCCCCCCCCHHHHHHHHHHHHH T ss_conf 76777887886658999999999742687779999988886418898--9887640325764236665888899999999 Q ss_pred HHHHHHHHH Q ss_conf 999999984 Q gi|254780945|r 661 KDAKHILTQ 669 (700) Q Consensus 661 ~~a~~~~~~ 669 (700) ..|++|-+. T Consensus 548 t~~~~i~e~ 556 (695) T KOG0353 548 TQAEEIEEH 556 (695) T ss_pred HHHHHHHHH T ss_conf 899999973 No 126 >KOG0329 consensus Probab=98.20 E-value=1.7e-05 Score=62.75 Aligned_cols=282 Identities=23% Similarity=0.355 Sum_probs=165.1 Q ss_pred CCC-CCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHH---HHCCEEEEEHHHHHHHHH---HHHHH Q ss_conf 246-79889999999998410013430788621442236999999733444---305458861279999999---98621 Q gi|254780945|r 270 PFS-PTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVE---AGGQAVIMAPIGILAQQH---YEFIK 342 (700) Q Consensus 270 PF~-LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~---~G~Q~alMaPTEILA~QH---~~~~~ 342 (700) .|+ ..+-|..+|-. +-.-|.-|-|.--|-|||.|..+|.++-++ .---+.+|+-|--||-|. |+.|+ T Consensus 61 gfehpsevqhecipq------ailgmdvlcqaksgmgktavfvl~tlqqiepv~g~vsvlvmchtrelafqi~~ey~rfs 134 (387) T KOG0329 61 GFEHPSEVQHECIPQ------AILGMDVLCQAKSGMGKTAVFVLATLQQIEPVDGQVSVLVMCHTRELAFQISKEYERFS 134 (387) T ss_pred CCCCCHHHHHHHHHH------HHHCCHHHEECCCCCCCEEEEEHHHHHHCCCCCCEEEEEEEECCHHHHHHHHHHHHHHH T ss_conf 578916764420047------76341120100257884365522235523788980799999621899999889999997 Q ss_pred HHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEEC----HHHCC-CCCCCCCCCEEEECCCCCCCHHHHHHHHHC Q ss_conf 1014578658996246422566768776213475486411----12013-345544441788521013356889987402 Q gi|254780945|r 343 KYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGT----HALFQ-DSIQYYKLILVIVDEQHRFGVQQRLKLTQK 417 (700) Q Consensus 343 ~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGT----HAL~q-~~v~F~~LgLvViDEQHRFGV~QR~~L~~K 417 (700) ++++. ++++..-|+++.|.-++.+.. -++|+||| -||.. ..+..+|.---|+||-.+.= +| ..++.. T Consensus 135 kymP~--vkvaVFfGG~~Ikkdee~lk~----~PhivVgTPGrilALvr~k~l~lk~vkhFvlDEcdkml-e~-lDMrRD 206 (387) T KOG0329 135 KYMPS--VKVSVFFGGLFIKKDEELLKN----CPHIVVGTPGRILALVRNRSLNLKNVKHFVLDECDKML-EQ-LDMRRD 206 (387) T ss_pred HHCCC--CEEEEEECCEECCCCHHHHHC----CCEEEECCCHHHHHHHHHCCCCHHHCCEEEHHHHHHHH-HH-HHHHHH T ss_conf 54888--458999755310346998827----99089768288999987245753203211233377899-98-788887 Q ss_pred -----CCCCC---CEEECHHHHHHHHHHHHHHCCCHHHHCCCCCCCCCCEEEEEECCCHHHHHHHHHHHHCCCCEEEEEE Q ss_conf -----56776---1010101322789999752010111102355766620799970200268999976310387389997 Q gi|254780945|r 418 -----ATAPH---VLLMTATPIPRTLVLTSLGDIDISKITEKPAGRKPIKTVIIPINRIDEVIERLKVVLSEGKKAYWIC 489 (700) Q Consensus 418 -----g~~ph---~L~MtATPIPRTLal~~ygdldvS~i~e~P~gR~~I~T~~~~~~~~~~~~~~i~~~l~~g~q~y~Vc 489 (700) -..|| +.++|||- .+.|... .-.|+.+- --+|+ T Consensus 207 vQEifr~tp~~KQvmmfsatl------------------------skeiRpv---------C~kFmQdP----mEi~v-- 247 (387) T KOG0329 207 VQEIFRMTPHEKQVMMFSATL------------------------SKEIRPV---------CHKFMQDP----MEIFV-- 247 (387) T ss_pred HHHHHHCCCCCCEEEEEEEEC------------------------CHHHHHH---------HHHHHCCC----HHHHC-- T ss_conf 999863286532034542013------------------------1566788---------77552181----66502-- Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHC-------------CCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCC Q ss_conf 1201221112101466666668663-------------710312014699899999999975598699998003410468 Q gi|254780945|r 490 PQIEEKKESNFRSVVERFNSLHEHF-------------TSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGID 556 (700) Q Consensus 490 PlIeese~~~~~~~~~~~~~l~~~~-------------~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvd 556 (700) ++.-++.++.....|-.|++.- .+.|-+. .++-.+ + .|. .. ||||.+.--|+| T Consensus 248 ---DdE~KLtLHGLqQ~YvkLke~eKNrkl~dLLd~LeFNQVvIF---vKsv~R---l-~f~---kr-~vat~lfgrgmd 313 (387) T KOG0329 248 ---DDEAKLTLHGLQQYYVKLKENEKNRKLNDLLDVLEFNQVVIF---VKSVQR---L-SFQ---KR-LVATDLFGRGMD 313 (387) T ss_pred ---CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCEEEE---EEHHHH---H-HHH---HH-HHHHHHHCCCCC T ss_conf ---415655333477877766555543566656545441204676---203445---5-566---66-677664046667 Q ss_pred CCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHCHHHHHHHHHH Q ss_conf 887658998585254746887730116678983599997088899879999999984142589999998 Q gi|254780945|r 557 VVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILLYHPPLSKNSYTRLSVLKNTEDGFLIAEEDL 625 (700) Q Consensus 557 vpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~~~~~~~~~~Rl~~l~~~~dGf~iAe~Dl 625 (700) +-..|+.+=++--.=.=+-||-. ||-||-+..|..+-..+.+ +--+++...+|-|++.-.+| T Consensus 314 iervNi~~NYdmp~~~DtYlHrv-~rAgrfGtkglaitfvs~e------~da~iLn~vqdRf~v~i~eL 375 (387) T KOG0329 314 IERVNIVFNYDMPEDSDTYLHRV-ARAGRFGTKGLAITFVSDE------NDAKILNPVQDRFEVNIKEL 375 (387) T ss_pred CCCCEEEECCCCCCCCHHHHHHH-HHHHCCCCCCCEEEHHCCH------HHHHHHCHHHHHHHCCHHHC T ss_conf 33220232268988712788876-2430356555201000111------26777431667655008656 No 127 >pfam01336 tRNA_anti OB-fold nucleic acid binding domain. This family contains OB-fold domains that bind to nucleic acids. The family includes the anti-codon binding domain of lysyl, aspartyl, and asparaginyl -tRNA synthetases (See pfam00152). Aminoacyl-tRNA synthetases catalyse the addition of an amino acid to the appropriate tRNA molecule EC:6.1.1.-. This family also includes part of RecG helicase involved in DNA repair. Replication factor A is a heterotrimeric complex, that contains a subunit in this family. This domain is also found at the C-terminus of bacterial DNA polymerase III alpha chain. Probab=98.15 E-value=3.6e-05 Score=60.12 Aligned_cols=73 Identities=29% Similarity=0.402 Sum_probs=62.0 Q ss_pred EEEEEEEEEEEEECCCCCCEEEEEEECCCCEEEEEEECCCHHHHHHHCCCCCEEEEEEEEEECCCE-EEEECCEEEE Q ss_conf 999999989754215898338999981893699999518878998732898889999899731877-9997786896 Q gi|254780945|r 70 VTITGYISQHSSFQLQKRRPYKILLNDGTGEITLLFFYRKTEMLKNVFFEGRKITVTGKIKKLKNR-IIMVHPHYIF 145 (700) Q Consensus 70 vti~g~V~~~~~~~~~~r~~~~v~v~D~tg~i~lvfFn~~~~yl~k~lk~G~~v~vsGKv~~~~~~-~qi~hPe~~~ 145 (700) +++.|+|.+.. ..+++++.+.+.|++|.++++||+....+..+.+++|+.+.++|+++.+++. +++.++++.. T Consensus 1 v~v~G~V~~~~---~~~~~~~~~~l~D~tg~i~~~~~~~~~~~~~~~l~~g~~v~v~G~v~~~~~~~~~i~~~~i~~ 74 (75) T pfam01336 1 VTVAGRVTSVR---RSGGKVAFLTLRDGTGSIQVVLFKEEAEKLAKKLKEGDVVLVTGKVKKRPGGELELVVEEIEV 74 (75) T ss_pred CEEEEEEEEEE---ECCCCEEEEEEEECCEEEEEEEEHHHHHHHHHCCCCCCEEEEEEEEEECCCCCEEEEEEEEEE T ss_conf 99999999518---879998999999799399999952386888632898989999999999749989999989997 No 128 >PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional Probab=98.13 E-value=9.5e-05 Score=56.81 Aligned_cols=84 Identities=13% Similarity=0.249 Sum_probs=56.1 Q ss_pred HHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHH----HHHCCCEE Q ss_conf 02689999763103873899971201221112101466666668663710312014699899999999----97559869 Q gi|254780945|r 468 IDEVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMD----SFKNGTCK 543 (700) Q Consensus 468 ~~~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~----~F~~g~~~ 543 (700) .+.+.+.+.+-+...+.++|.++-. ...+..|+.|.+..+..+ ++.|..+ +.+.++ +|.+|+-. T Consensus 520 ~~~~~~~i~~~~~~~~g~LVLFtS~--------~~l~~v~~~l~~~~~~~l-l~Qg~~~---r~~ll~~f~~~~~~~~~s 587 (697) T PRK11747 520 TAEMAAYLPELLEGHKGSLVLFSSR--------RQMQKVADLLPGDLRLLL-LVQGEQP---RQELLEKHKKRVDEGEGS 587 (697) T ss_pred HHHHHHHHHHHHHHCCCEEEEECHH--------HHHHHHHHHHHHHCCCCE-EEECCCC---HHHHHHHHHHHHHCCCCE T ss_conf 9999999999998569849995019--------999999998766348838-9956865---999999999986168982 Q ss_pred EEEECHHHHCCCCCCCCCEE Q ss_conf 99980034104688876589 Q gi|254780945|r 544 LLIATTVIEVGIDVVDASII 563 (700) Q Consensus 544 iLvaTtviEVGvdvpna~~m 563 (700) ||++|---==|||+|.-++. T Consensus 588 vLlGt~SFwEGVD~pG~~L~ 607 (697) T PRK11747 588 VLFGLQSFAEGLDLPGDYLT 607 (697) T ss_pred EEEECCCCCCCEECCCCCEE T ss_conf 99967531266136987878 No 129 >KOG0951 consensus Probab=98.09 E-value=0.0013 Score=48.04 Aligned_cols=280 Identities=21% Similarity=0.296 Sum_probs=175.1 Q ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCC-CCCEEEEEECCCCHHHHHHHHHHHCC Q ss_conf 07886214422369999997334443054588612799999999862110145-78658996246422566768776213 Q gi|254780945|r 295 LRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQN-TQIIVEIITGNMPQAHRRKALERIAH 373 (700) Q Consensus 295 ~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~-~~i~v~lLtg~~~~~er~~i~~~i~~ 373 (700) +-++----|||||++|-+|.+. -.+-..++..+|-|-.|.-.|.-..+-|.+ .|.++..|||-++-.- .-++ T Consensus 1161 ~v~vga~~gsgkt~~ae~a~l~-~~~~~~~vyi~p~~~i~~~~~~~w~~~f~~~~G~~~~~l~ge~s~dl-----kl~~- 1233 (1674) T KOG0951 1161 NVLVGAPNGSGKTACAELALLR-PDTIGRAVYIAPLEEIADEQYRDWEKKFSKLLGLRIVKLTGETSLDL-----KLLQ- 1233 (1674) T ss_pred EEEEECCCCCCHHHHHHHHHCC-CCCCEEEEEECCHHHHHHHHHHHHHHHHCCCCCCEEEECCCCCCCCH-----HHHH- T ss_conf 1899457887344889998628-86632799843668999999999987531045806885178655256-----7764- Q ss_pred CCCEEEEECHH---HCCCCCCCCCCCEEEECCCCCCCHHHHHHHH-------------HCCCCCCCEEECHHHHHHHHHH Q ss_conf 47548641112---0133455444417885210133568899874-------------0256776101010132278999 Q gi|254780945|r 374 GQAHIIIGTHA---LFQDSIQYYKLILVIVDEQHRFGVQQRLKLT-------------QKATAPHVLLMTATPIPRTLVL 437 (700) Q Consensus 374 G~~~iiIGTHA---L~q~~v~F~~LgLvViDEQHRFGV~QR~~L~-------------~Kg~~ph~L~MtATPIPRTLal 437 (700) .-+++|-||. ++| .-.++.|-|.||=|--| .|-.+.. .|....--|.-|-|-+ |.| T Consensus 1234 -~~~vii~tpe~~d~lq---~iQ~v~l~i~d~lh~ig-g~~g~v~evi~S~r~ia~q~~k~ir~v~ls~~lana-~d~-- 1305 (1674) T KOG0951 1234 -KGQVIISTPEQWDLLQ---SIQQVDLFIVDELHLIG-GVYGAVYEVICSMRYIASQLEKKIRVVALSSSLANA-RDL-- 1305 (1674) T ss_pred -HCCEEEECHHHHHHHH---HHHHCCEEEEEHHHHHC-CCCCCEEEEEEEHHHHHHHHHHHEEEEEEEHHHCCC-HHH-- T ss_conf -2455886635777775---54321168610234414-657734898744799999998650588732223041-222-- Q ss_pred HHHHCCCHHHHCCCCCCCCCC--EEE--EEECCC--------HHHHHHHHHHHHCCCCEEEEEECCCCC----------- Q ss_conf 975201011110235576662--079--997020--------026899997631038738999712012----------- Q gi|254780945|r 438 TSLGDIDISKITEKPAGRKPI--KTV--IIPINR--------IDEVIERLKVVLSEGKKAYWICPQIEE----------- 494 (700) Q Consensus 438 ~~ygdldvS~i~e~P~gR~~I--~T~--~~~~~~--------~~~~~~~i~~~l~~g~q~y~VcPlIee----------- 494 (700) -.+.-|.+=..||++.|+ ... .++... .+-.|..+.+...++.-+++-.|-=.. T Consensus 1306 ---ig~s~~~v~Nf~p~~R~~Pl~i~i~~~~~~~~~s~~~am~~~~~~ai~~~a~~~k~~~vf~p~rk~~~~~a~~~~~~ 1382 (1674) T KOG0951 1306 ---IGASSSGVFNFSPSVRPVPLEIHIQSVDISHFESRMLAMTKPTYTAIVRHAGNRKPAIVFLPTRKHARLVAVDLVTF 1382 (1674) T ss_pred ---CCCCCCCEEECCCCCCCCCEEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEECCCHHHHHHHHCCCHH T ss_conf ---05354553605866688760688887324015788877431279999998548997279803401432222120012 Q ss_pred ----CCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECH-- Q ss_conf ----21112101466666668663710312014699899999999975598699998003410468887658998585-- Q gi|254780945|r 495 ----KKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENA-- 568 (700) Q Consensus 495 ----se~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~a-- 568 (700) ++..-+..-++.-+.|++.++..|| |--|++.+.+-+-.-|..|.|+++|...= --|.-. -|+..||.+- T Consensus 1383 s~~~~~~~l~~~~e~~~~~l~e~l~hgvg--~eg~s~~d~~iv~~l~e~g~i~v~v~s~~-c~~~~~-~~~lVvvmgt~~ 1458 (1674) T KOG0951 1383 SHADEPDYLLSELEECDETLRESLKHGVG--HEGLSSNDQEIVQQLFEAGAIQVCVMSRD-CYGTKL-KAHLVVVMGTQY 1458 (1674) T ss_pred HCCCCHHHHHHHHHCCHHHHHHCCCCCCC--CCCCCCCHHHHHHHHHHCCCEEEEEEECC-CCCCCC-CCEEEEEECCEE T ss_conf 21573888778774345766310134445--44457351899999974695799999721-025532-132899844146 Q ss_pred --------HHCCHHHHHHHHHCCCCCCCCEEEEEEECCC Q ss_conf --------2547468877301166789835999970888 Q gi|254780945|r 569 --------EHFGLAQLHQLRGRVGRGEEISSCILLYHPP 599 (700) Q Consensus 569 --------erfGLsqLHQLRGRVGRg~~~s~c~l~~~~~ 599 (700) +-+-.|-|-|.+|+-.| .|.|++++..+ T Consensus 1459 ydg~e~~~~~y~i~~ll~m~G~a~~---~~k~vi~~~~~ 1494 (1674) T KOG0951 1459 YDGKEHSYEDYPIAELLQMVGLASG---AGKCVIMCHTP 1494 (1674) T ss_pred ECCCCCCCCCCCHHHHHHHHHHHCC---CCCEEEEECCC T ss_conf 4265443346866679988414227---86489994486 No 130 >TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB; InterPro: IPR010225 This entry represents HrpB, one of two related predicted DEAH-box ATP-dependent helicases of unknown function found in many proteobacteria, but also in a few species of other lineages. The member from Rhizobium meliloti, designated HelO, has been studied but is not essential for growth and mutants have no obvious phenotype . HrpB is typically about 800 residues in length, while its paralog HrpA (IPR010222 from INTERPRO), also uncharacterised, is about 1300 amino acids long. Related characterised eukaryotic proteins are RNA helicases associated with pre-mRNA processing .. Probab=98.08 E-value=0.00031 Score=52.80 Aligned_cols=322 Identities=21% Similarity=0.347 Sum_probs=219.5 Q ss_pred HHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHH-HHHCCEEEEEHHHHHHHHHHHHHHHHCCCC-----CCEEEE Q ss_conf 99999841001343078862144223699999973344-430545886127999999998621101457-----865899 Q gi|254780945|r 281 IKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAV-EAGGQAVIMAPIGILAQQHYEFIKKYTQNT-----QIIVEI 354 (700) Q Consensus 281 i~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~-~~G~Q~alMaPTEILA~QH~~~~~~~~~~~-----~i~v~l 354 (700) +=++..-|...-.. +|.-=-|.|||=--=+|+|.+- ..|..-.++=|==+=|+--.+.+-+-+..- |.+|-+ T Consensus 7 LP~Lr~al~~~~~v--vL~APpGAGKsT~~PLaLL~~pW~~~~kIimLEPRRlAAR~~A~rlA~~LgE~VG~tVGyRvR~ 84 (858) T TIGR01970 7 LPALRDALAAHPQV--VLEAPPGAGKSTAVPLALLDAPWLIGGKIIMLEPRRLAARSAAQRLASQLGEEVGDTVGYRVRL 84 (858) T ss_pred HHHHHHHHHCCCCE--EEECCCCCCHHHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHHHHHHHCCCCCCCCCEEEEC T ss_conf 69999986117650--6416722471105889976626434880787474478999999999997088988620405771 Q ss_pred EECCCCHHHHHHHHHHHCCCCCEEEEEC----HHHCCCCCCCCCCCEEEECCCCCCCHHHH--HHHHHCC-----CC--C Q ss_conf 6246422566768776213475486411----12013345544441788521013356889--9874025-----67--7 Q gi|254780945|r 355 ITGNMPQAHRRKALERIAHGQAHIIIGT----HALFQDSIQYYKLILVIVDEQHRFGVQQR--LKLTQKA-----TA--P 421 (700) Q Consensus 355 Ltg~~~~~er~~i~~~i~~G~~~iiIGT----HAL~q~~v~F~~LgLvViDEQHRFGV~QR--~~L~~Kg-----~~--p 421 (700) = ++++.+-| |=|=| .=-||+|=.-.-.|+||.||=|==...== .+|.-.. +. = T Consensus 85 e-nkVs~~TR-------------lEvVTEGiLTRMlQ~DP~L~GVg~liFDEFHERsL~aDLaLALaLdVQs~LRdDPPL 150 (858) T TIGR01970 85 E-NKVSARTR-------------LEVVTEGILTRMLQDDPELEGVGLLIFDEFHERSLDADLALALALDVQSALRDDPPL 150 (858) T ss_pred C-CCCCCCCC-------------EEEEECCHHHHHCCCCCCCCCCCEEEECHHHHHHHHHHHHHHHHHHHHHHHCCCCCC T ss_conf 1-32587754-------------578723268774016888453523231102243467889999988533431068640 Q ss_pred CCEEECHHHHHHHHHHHHHHCCCHHHHCCCC----CCCC-CCEEEEEE-CCCHHHHHHHH----HHHHCC--CC--E-EE Q ss_conf 6101010132278999975201011110235----5766-62079997-02002689999----763103--87--3-89 Q gi|254780945|r 422 HVLLMTATPIPRTLVLTSLGDIDISKITEKP----AGRK-PIKTVIIP-INRIDEVIERL----KVVLSE--GK--K-AY 486 (700) Q Consensus 422 h~L~MtATPIPRTLal~~ygdldvS~i~e~P----~gR~-~I~T~~~~-~~~~~~~~~~i----~~~l~~--g~--q-~y 486 (700) -+|+|||| +=|+-=-+.+++=| .||. ||.+++.+ ....+.+-+.+ .+.++. |. | +- T Consensus 151 kil~MSAT---------Ldg~rLs~LL~~Ap~v~S~GR~fPVe~rY~~P~~~~e~l~~~~~r~v~~~La~~~GSGPqd~L 221 (858) T TIGR01970 151 KILIMSAT---------LDGERLSSLLPDAPVVESEGRSFPVEIRYLPPLREDERLEDRVSRAVEHALAEESGSGPQDVL 221 (858) T ss_pred EEHHCCCC---------CHHHHHHHHCCCCCEEEECCCCCCEECCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCHH T ss_conf 00000026---------327999974330264200787876110227678755533478999999999616788633010 Q ss_pred EEECCCCCCCCCCCCHHHHHHHHHHHHCC--CCEEC--CCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCE Q ss_conf 99712012211121014666666686637--10312--014699899999999975598699998003410468887658 Q gi|254780945|r 487 WICPQIEEKKESNFRSVVERFNSLHEHFT--SSIAI--IHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASI 562 (700) Q Consensus 487 ~VcPlIeese~~~~~~~~~~~~~l~~~~~--~~v~~--lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~ 562 (700) |=-| .-..+....+.|.+.+. .+|.| |||.|+.++.+++|+-=-.|.=+|-.||+|=|-=+.++...+ T Consensus 222 vFLP--------G~aEI~Rv~~~L~e~L~~rs~v~lcPLYG~L~~~aQ~~AI~P~a~GrRKVVLATNiAEtSLTIeGvRv 293 (858) T TIGR01970 222 VFLP--------GQAEIRRVQEQLAERLDARSEVLLCPLYGELELAAQDRAIKPAAAGRRKVVLATNIAETSLTIEGVRV 293 (858) T ss_pred EECC--------CHHHHHHHHHHHHHHHCCCCCCHHCCCCCCCCHHHHHHHCCCCCCCCCEEEEEHHHHHHHEEECCEEE T ss_conf 0168--------77789999999999751787100057678889789998708774667343420001222100176358 Q ss_pred EEEECHHH---C----CHHHH----------HHHHHCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHCHHHHHHHHHH Q ss_conf 99858525---4----74688----------7730116678983599997088899879999999984142589999998 Q gi|254780945|r 563 IIIENAEH---F----GLAQL----------HQLRGRVGRGEEISSCILLYHPPLSKNSYTRLSVLKNTEDGFLIAEEDL 625 (700) Q Consensus 563 mvI~~aer---f----GLsqL----------HQLRGRVGRg~~~s~c~l~~~~~~~~~~~~Rl~~l~~~~dGf~iAe~Dl 625 (700) .|=-.=+| | |++=| -|=+||=|| -.+|.||=+++. .-.+||....+ =||.+.|| T Consensus 294 ViDsGl~R~arFDP~sG~TRL~~~RisqASA~QRAGRAGR-lepGvc~RLw~~----~q~~~l~~~~~----pEIlqaDL 364 (858) T TIGR01970 294 VIDSGLARVARFDPKSGITRLETQRISQASATQRAGRAGR-LEPGVCYRLWSE----EQHKRLAAQSE----PEILQADL 364 (858) T ss_pred EEECCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCC-CCCCHHEECCCH----HHHHHHHCCCC----CCCCHHHH T ss_conf 8715655676347888740244578897337651263322-111411122786----89886320478----76327668 Q ss_pred HHCCCCCCCCCHHCCCC---CCCCCC Q ss_conf 52063000260006987---440003 Q gi|254780945|r 626 KQRKEGEILGIKQSGMP---KFLIAQ 648 (700) Q Consensus 626 ~lRG~G~~~G~~QsG~~---~~~~~d 648 (700) - |=.+-..|.|-. ++.+.| T Consensus 365 ~----~LAleLA~WG~~dPsdL~wLd 386 (858) T TIGR01970 365 A----GLALELARWGAKDPSDLRWLD 386 (858) T ss_pred H----HHHHHHHHCCCCCHHHHHHCC T ss_conf 8----999999742478868874237 No 131 >pfam07652 Flavi_DEAD Flavivirus DEAD domain. Probab=97.98 E-value=5.9e-05 Score=58.47 Aligned_cols=119 Identities=21% Similarity=0.265 Sum_probs=77.8 Q ss_pred EEEECCCCCHH-HHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCC Q ss_conf 88621442236-99999973344430545886127999999998621101457865899624642256676877621347 Q gi|254780945|r 297 ILQGDVGSGKT-LVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQ 375 (700) Q Consensus 297 LLQGDVGSGKT-iVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~ 375 (700) .|.=-=||||| -|---..-.+++.+.++.++|||-|.|.--++ .+.+.+++.. |.. ...-.+|. T Consensus 6 ~ld~HPGaGKTr~vLP~~v~~~i~~~lRtlVLaPTRVV~~Em~e----AL~g~~vr~~--t~a---------~~~~~~~~ 70 (146) T pfam07652 6 VLDLHPGAGKTRKVLPELVRECIDRRLRTLVLAPTRVVLAEMEE----ALRGLPIRYH--TPA---------VSSEHTGR 70 (146) T ss_pred EEECCCCCCCCCHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHH----HHCCCCCEEE--CHH---------HHCCCCCC T ss_conf 98538999970224899999999728618997727999999999----9758994675--234---------31366888 Q ss_pred CEEEEECHHHC----CCCCCCCCCCEEEECCCCCCCH---HHHHHHHHCCC--CCCCEEECHHH Q ss_conf 54864111201----3345544441788521013356---88998740256--77610101013 Q gi|254780945|r 376 AHIIIGTHALF----QDSIQYYKLILVIVDEQHRFGV---QQRLKLTQKAT--APHVLLMTATP 430 (700) Q Consensus 376 ~~iiIGTHAL~----q~~v~F~~LgLvViDEQHRFGV---~QR~~L~~Kg~--~ph~L~MtATP 430 (700) --|-+=+||-| .....-.|-.++|.||-|=--- .-|-.+..+.. ..-++.||||| T Consensus 71 ~ivdvmCHAT~t~r~l~~~~~~ny~viIMDE~H~~DP~SIAarG~~~~~~~~g~~a~i~mTATP 134 (146) T pfam07652 71 EIVDVMCHATFTQRLLSPVRVPNYEVIIMDEAHFTDPASIAARGYISTLVELGEAAAIFMTATP 134 (146) T ss_pred CEEEEECHHHHHHHHHCCCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCEEEEEEECCC T ss_conf 4188971598888973688856447999851223898999988999988543865799995689 No 132 >PRK10689 transcription-repair coupling factor; Provisional Probab=97.95 E-value=0.00012 Score=56.12 Aligned_cols=107 Identities=12% Similarity=0.342 Sum_probs=90.0 Q ss_pred CHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHC---CCCEECCCCCCCHHHHHHHHHHHHCCCEE Q ss_conf 002689999763103873899971201221112101466666668663---71031201469989999999997559869 Q gi|254780945|r 467 RIDEVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHF---TSSIAIIHGRMSDIDKESVMDSFKNGTCK 543 (700) Q Consensus 467 ~~~~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~---~~~v~~lHGkm~~~ek~~~m~~F~~g~~~ 543 (700) +-+-++.+.=+.+..|.||-++||.- -=|.+-|+.+++.| |-+|++|..=.++.|+.++++.+++|++| T Consensus 634 KTEVA~RAAFkav~~gkQVavlvPTT--------iLA~QH~~tF~~Rf~~~pv~i~~LsRf~s~ke~~~i~~~l~~G~id 705 (1148) T PRK10689 634 KTEVAMRAAFLAVENHKQVAVLVPTT--------LLAQQHYDNFRDRFANWPVRIEMLSRFRSAKEQTQILAEAAEGKID 705 (1148) T ss_pred HHHHHHHHHHHHHHCCCEEEEEECCC--------CCHHHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHHCCCCC T ss_conf 79999999999996398089983662--------2379999999987641573377503888899999999998669987 Q ss_pred EEEECH-HHHCCCCCCCCCEEEEECHHHCCHHHHHHHHH Q ss_conf 999800-34104688876589985852547468877301 Q gi|254780945|r 544 LLIATT-VIEVGIDVVDASIIIIENAEHFGLAQLHQLRG 581 (700) Q Consensus 544 iLvaTt-viEVGvdvpna~~mvI~~aerfGLsqLHQLRG 581 (700) |+|.|- .+--.|...|..++||.--.|||..|=..|+- T Consensus 706 IvIGTH~ll~~dv~f~~LGLlIiDEEqrFGV~~KE~lk~ 744 (1148) T PRK10689 706 ILIGTHKLLQSDVKWKDLGLLIVDEEHRFGVRHKERIKA 744 (1148) T ss_pred EEEHHHHHHCCCCCCCCCCEEEECCCHHCCHHHHHHHHH T ss_conf 762048886698654666437860102137999999972 No 133 >KOG0924 consensus Probab=97.94 E-value=0.0021 Score=46.25 Aligned_cols=271 Identities=19% Similarity=0.251 Sum_probs=162.7 Q ss_pred EEEEECCCCCHHHHHHH-HHHH-HHHHHCCEEEEEHHHHHHHHHHHHHHHHCC-CCC------CEEEEEECCCCHHHHHH Q ss_conf 78862144223699999-9733-444305458861279999999986211014-578------65899624642256676 Q gi|254780945|r 296 RILQGDVGSGKTLVALI-AMAA-AVEAGGQAVIMAPIGILAQQHYEFIKKYTQ-NTQ------IIVEIITGNMPQAHRRK 366 (700) Q Consensus 296 RLLQGDVGSGKTiVA~~-A~l~-~~~~G~Q~alMaPTEILA~QH~~~~~~~~~-~~~------i~v~lLtg~~~~~er~~ 366 (700) -++-|..|||||---.- -... ..++| -.-.--|--+-|.--+..+..-+. .+| |+-+=.||- T Consensus 374 vvivgETGSGKTTQl~QyL~edGY~~~G-mIGcTQPRRvAAiSVAkrVa~EM~~~lG~~VGYsIRFEdvT~~-------- 444 (1042) T KOG0924 374 VVIVGETGSGKTTQLAQYLYEDGYADNG-MIGCTQPRRVAAISVAKRVAEEMGVTLGDTVGYSIRFEDVTSE-------- 444 (1042) T ss_pred EEEEECCCCCCHHHHHHHHHHCCCCCCC-EEEECCCHHHHHHHHHHHHHHHHCCCCCCCCCEEEEEEECCCC-------- T ss_conf 9999358898501667999862245587-1543572278999999999998587645311248885204787-------- Q ss_pred HHHHHCCCCCEEEEEC-HHHCCCCCCCC---CCCEEEECCCCCCCHHHH-------HHHHHCCCCCCCEEECHHHHHHHH Q ss_conf 8776213475486411-12013345544---441788521013356889-------987402567761010101322789 Q gi|254780945|r 367 ALERIAHGQAHIIIGT-HALFQDSIQYY---KLILVIVDEQHRFGVQQR-------LKLTQKATAPHVLLMTATPIPRTL 435 (700) Q Consensus 367 i~~~i~~G~~~iiIGT-HAL~q~~v~F~---~LgLvViDEQHRFGV~QR-------~~L~~Kg~~ph~L~MtATPIPRTL 435 (700) .-.|=.=| --|++|.+.=. +-..||.||-|-=.++-- ..+.. -.+--+++||||==---+ T Consensus 445 --------~T~IkymTDGiLLrEsL~d~~L~kYSviImDEAHERslNtDilfGllk~~lar-RrdlKliVtSATm~a~kf 515 (1042) T KOG0924 445 --------DTKIKYMTDGILLRESLKDRDLDKYSVIIMDEAHERSLNTDILFGLLKKVLAR-RRDLKLIVTSATMDAQKF 515 (1042) T ss_pred --------CEEEEEECCCHHHHHHHHHHHHHHEEEEEECHHHHCCCCHHHHHHHHHHHHHH-HCCCEEEEEECCCCHHHH T ss_conf --------60578742305779776330044401788511433030058999999999874-226359976220248999 Q ss_pred HHHHHHCCCHHHHCCCCCCCC-CCEEEEEECCCHHHHHHHHHHHHC----CCCEEEEEECCCCCCCCCCCCHHHHHHHHH Q ss_conf 999752010111102355766-620799970200268999976310----387389997120122111210146666666 Q gi|254780945|r 436 VLTSLGDIDISKITEKPAGRK-PIKTVIIPINRIDEVIERLKVVLS----EGKKAYWICPQIEEKKESNFRSVVERFNSL 510 (700) Q Consensus 436 al~~ygdldvS~i~e~P~gR~-~I~T~~~~~~~~~~~~~~i~~~l~----~g~q~y~VcPlIeese~~~~~~~~~~~~~l 510 (700) +- +||.--.=.| +||. ||.|......-.+.|-..+++.+. .+.--..|.+.= . ..++.++..+ T Consensus 516 ~n-fFgn~p~f~I----pGRTyPV~~~~~k~p~eDYVeaavkq~v~Ihl~~~~GdilIfmtG----q---ediE~t~~~i 583 (1042) T KOG0924 516 SN-FFGNCPQFTI----PGRTYPVEIMYTKTPVEDYVEAAVKQAVQIHLSGPPGDILIFMTG----Q---EDIECTCDII 583 (1042) T ss_pred HH-HHCCCCEEEE----CCCCCCEEEEECCCCHHHHHHHHHHHHEEEECCCCCCCEEEECCC----C---CCHHHHHHHH T ss_conf 88-7278860101----587642377752685588999987654585446898877995278----7---6326789999 Q ss_pred HHHC------C--C-CEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEE--------EECHHHCCH Q ss_conf 8663------7--1-031201469989999999997559869999800341046888765899--------858525474 Q gi|254780945|r 511 HEHF------T--S-SIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIII--------IENAEHFGL 573 (700) Q Consensus 511 ~~~~------~--~-~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mv--------I~~aerfGL 573 (700) ++.+ + + .|--+-.+|+++-..++...--.|.-++.|||.|-|.-+.||+-...| ++|. |-|+ T Consensus 584 ~~~l~ql~~~~~~~L~vlpiYSQLp~dlQ~kiFq~a~~~vRK~IvATNIAETSLTi~gI~yVID~Gy~K~kvyn~-~~G~ 662 (1042) T KOG0924 584 KEKLEQLDSAPTTDLAVLPIYSQLPADLQAKIFQKAEGGVRKCIVATNIAETSLTIPGIRYVIDTGYCKLKVYNP-RIGM 662 (1042) T ss_pred HHHHHHHHCCCCCCEEEEEEHHHCCHHHHHHHCCCCCCCCEEEEEECCCHHHCEEECCEEEEEECCCEEEEECCC-CCCC T ss_conf 999975523888862788405528666664330568888126998622112113326648997257245641056-6564 Q ss_pred ----------HHHHHHHHCCCCCCCCEEEEEEECC Q ss_conf ----------6887730116678983599997088 Q gi|254780945|r 574 ----------AQLHQLRGRVGRGEEISSCILLYHP 598 (700) Q Consensus 574 ----------sqLHQLRGRVGRg~~~s~c~l~~~~ 598 (700) |+-.|=-||-|| ..+|.||=+|.. T Consensus 663 D~L~~~pIS~AnA~QRaGRAGR-t~pG~cYRlYTe 696 (1042) T KOG0924 663 DALQIVPISQANADQRAGRAGR-TGPGTCYRLYTE 696 (1042) T ss_pred CEEEEEECHHCCCHHHCCCCCC-CCCCCEEEEHHH T ss_conf 2257875122131011244578-899626530236 No 134 >TIGR00963 secA preprotein translocase, SecA subunit; InterPro: IPR000185 Secretion across the inner membrane in some Gram-negative bacteria occurs via the preprotein translocase pathway. Proteins are produced in the cytoplasm as precursors, and require a chaperone subunit to direct them to the translocase component. . From there, the mature proteins are either targeted to the outer membrane, or remain as periplasmic proteins. The translocase protein subunits are encoded on the bacterial chromosome. The translocase itself comprises 7 proteins, including a chaperone protein (SecB), an ATPase (SecA), an integral membrane complex (SecCY, SecE and SecG), and two additional membrane proteins that promote the release of the mature peptide into the periplasm (SecD and SecF) . The chaperone protein SecB is a highly acidic homotetrameric protein that exists as a "dimer of dimers" in the bacterial cytoplasm. SecB maintains preproteins in an unfolded state after translation, and targets these to the peripheral membrane protein ATPase SecA for secretion . SecA is a cytoplasmic protein of 800 to 960 amino acid residues. Homologs of secA are also encoded in the chloroplast genome of some algae as well as in the nuclear genome of plants . It could be involved in the intraorganellar protein transport into thylakoids.; GO: 0005524 ATP binding, 0006605 protein targeting, 0006886 intracellular protein transport. Probab=97.92 E-value=5e-05 Score=58.99 Aligned_cols=138 Identities=24% Similarity=0.324 Sum_probs=106.4 Q ss_pred EEEEC-----CCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHH Q ss_conf 88621-----4422369999997334443054588612799999999862110145786589962464225667687762 Q gi|254780945|r 297 ILQGD-----VGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERI 371 (700) Q Consensus 297 LLQGD-----VGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i 371 (700) |-+|+ .|=|||+||.++++.-+-+|.=|=+.-=-|=||+==.++..+.|.=+|++|.|.-.+++..+|++.|. T Consensus 72 LH~G~IAEMkTGEGKTL~AtLpaYLNAL~GkGVHvVTVNdYLA~RD~e~m~~v~~FLGL~VGl~~~~m~~~eRr~aY~-- 149 (904) T TIGR00963 72 LHKGKIAEMKTGEGKTLVATLPAYLNALTGKGVHVVTVNDYLARRDAEWMGQVYRFLGLSVGLILSSMSPEERREAYA-- 149 (904) T ss_pred HCCCCEEEECCCCCHHHHHHHHHHHHHHCCCCCEEEEECCHHHHHHHHHHHHHHHHCCCEEEEECCCCCHHHHHHHHC-- T ss_conf 808966783148862899999999876517962799635044488899878999684936888617998589999854-- Q ss_pred CCCCCEEEEECHHH------------CCCCCCCCCCCEEEECCCCCCCHHHHHHHHHC----------CCCCCCEEE--- Q ss_conf 13475486411120------------13345544441788521013356889987402----------567761010--- Q gi|254780945|r 372 AHGQAHIIIGTHAL------------FQDSIQYYKLILVIVDEQHRFGVQQRLKLTQK----------ATAPHVLLM--- 426 (700) Q Consensus 372 ~~G~~~iiIGTHAL------------~q~~v~F~~LgLvViDEQHRFGV~QR~~L~~K----------g~~ph~L~M--- 426 (700) +||.=||=.= --+++.-+.+-.+|||| |. --|.+- .+++--+++ T Consensus 150 ----cDITY~TNnELGFDYLRDNM~~~~ee~vqR~f~FAIIDE-----VD--SILIDEARTPLIISGpae~~~~~Y~ev~ 218 (904) T TIGR00963 150 ----CDITYGTNNELGFDYLRDNMALSKEEKVQRPFNFAIIDE-----VD--SILIDEARTPLIISGPAEKSTEKYLEVN 218 (904) T ss_pred ----CCEEEECCCCCCHHHHHHHHHCCHHHHHCCCCCCEEEEE-----EC--CEEECCCCCCCCCCCCCCCCCCCHHHHH T ss_conf ----981653265420246667641150121016722268864-----24--4642333686523576678630100178 Q ss_pred -------------CHHHHHHHHHHHHHH-CCCHHHHCCC Q ss_conf -------------101322789999752-0101111023 Q gi|254780945|r 427 -------------TATPIPRTLVLTSLG-DIDISKITEK 451 (700) Q Consensus 427 -------------tATPIPRTLal~~yg-dldvS~i~e~ 451 (700) .|--+|.+|. -. |-|. .+||+ T Consensus 219 ~~~~~l~e~~~~p~a~~~~~~l~---e~W~~dY-~vDeK 253 (904) T TIGR00963 219 KLVDPLKETDKLPQANEVAKALK---EKWDVDY-EVDEK 253 (904) T ss_pred HHHHHHHCCCCCCCHHHHHHHHH---HHCCCCC-EEECC T ss_conf 78866416655750445689986---3116770-35104 No 135 >KOG0923 consensus Probab=97.90 E-value=0.00087 Score=49.27 Aligned_cols=346 Identities=18% Similarity=0.209 Sum_probs=177.6 Q ss_pred EEEEECCCCCHHHH--HHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHC-CCCCCEEEEEECCCCHHHHHHHHHHHC Q ss_conf 78862144223699--999973344430545886127999999998621101-457865899624642256676877621 Q gi|254780945|r 296 RILQGDVGSGKTLV--ALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYT-QNTQIIVEIITGNMPQAHRRKALERIA 372 (700) Q Consensus 296 RLLQGDVGSGKTiV--A~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~-~~~~i~v~lLtg~~~~~er~~i~~~i~ 372 (700) =++-|+.|||||-- -.+--.-....|.-.+.--|--|-|.--...+.+-+ ..+|-.|..--. +++-- T Consensus 283 LiI~GeTGSGKTTQiPQyL~EaGytk~gk~IgcTQPRRVAAmSVAaRVA~EMgvkLG~eVGYsIR----------FEdcT 352 (902) T KOG0923 283 LIIVGETGSGKTTQIPQYLYEAGYTKGGKKIGCTQPRRVAAMSVAARVAEEMGVKLGHEVGYSIR----------FEDCT 352 (902) T ss_pred EEEECCCCCCCCCCCCHHHHHCCCCCCCCEEEECCCCHHHHHHHHHHHHHHHCCCCCCCCCEEEE----------ECCCC T ss_conf 99975788986445628988542135894674068506887779999999857401431444888----------50356 Q ss_pred CCCCEEEEEC----HHHCCCCCCCCCCCEEEECCCCC--------CCHHHHHHHHHCCCCCCCEEECHHHHHHHHHHHHH Q ss_conf 3475486411----12013345544441788521013--------35688998740256776101010132278999975 Q gi|254780945|r 373 HGQAHIIIGT----HALFQDSIQYYKLILVIVDEQHR--------FGVQQRLKLTQKATAPHVLLMTATPIPRTLVLTSL 440 (700) Q Consensus 373 ~G~~~iiIGT----HAL~q~~v~F~~LgLvViDEQHR--------FGV~QR~~L~~Kg~~ph~L~MtATPIPRTLal~~y 440 (700) +.+--|=.=| +-=|+.+-...+-..+||||-|- ||.--+.+=.. ..--+|+||||==---.+ +.| T Consensus 353 SekTvlKYMTDGmLlREfL~epdLasYSViiiDEAHERTL~TDILfgLvKDIar~R--pdLKllIsSAT~DAekFS-~fF 429 (902) T KOG0923 353 SEKTVLKYMTDGMLLREFLSEPDLASYSVIIVDEAHERTLHTDILFGLVKDIARFR--PDLKLLISSATMDAEKFS-AFF 429 (902) T ss_pred CCCEEEEEECCHHHHHHHHCCCCCCCEEEEEEEHHHHHHHHHHHHHHHHHHHHHHC--CCCEEEEECCCCCHHHHH-HHC T ss_conf 74122432243067998714634223359996024320034567999878887508--760477322226789998-761 Q ss_pred HCCCHHHHCCCCCCCCCCEEEEEECC---CHHHHHHHHHHH--HCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCC Q ss_conf 20101111023557666207999702---002689999763--1038738999712012211121014666666686637 Q gi|254780945|r 441 GDIDISKITEKPAGRKPIKTVIIPIN---RIDEVIERLKVV--LSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFT 515 (700) Q Consensus 441 gdldvS~i~e~P~gR~~I~T~~~~~~---~~~~~~~~i~~~--l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~ 515 (700) +| -.|=-.|.-|=||.++.-... .++-++..|.+. -+.++-+.|--+.=|| ...+.+....++..++ T Consensus 430 Dd---apIF~iPGRRyPVdi~Yt~~PEAdYldAai~tVlqIH~tqp~GDILVFltGQeE-----IEt~~e~l~~~~~~LG 501 (902) T KOG0923 430 DD---APIFRIPGRRYPVDIFYTKAPEADYLDAAIVTVLQIHLTQPLGDILVFLTGQEE-----IETVKENLKERCRRLG 501 (902) T ss_pred CC---CCEEECCCCCCCEEEECCCCCCHHHHHHHHHHHEEEEECCCCCCEEEEECCHHH-----HHHHHHHHHHHHHHHC T ss_conf 68---857723686565134304588530799988654046751577657999446789-----9999999999999853 Q ss_pred CC-----EECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEE-----C--HHHCCHHHHH------ Q ss_conf 10-----3120146998999999999755986999980034104688876589985-----8--5254746887------ Q gi|254780945|r 516 SS-----IAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIE-----N--AEHFGLAQLH------ 577 (700) Q Consensus 516 ~~-----v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~-----~--aerfGLsqLH------ 577 (700) .+ |-=+|.-++++....|.+---.|.-++.+||.+-|.-+.+++..-.|=- | -.|=|.-+|+ T Consensus 502 ski~eliv~PiYaNLPselQakIFePtP~gaRKVVLATNIAETSlTIdgI~yViDpGf~K~nsynprtGmesL~v~piSK 581 (902) T KOG0923 502 SKIRELIVLPIYANLPSELQAKIFEPTPPGARKVVLATNIAETSLTIDGIKYVIDPGFVKQNSYNPRTGMESLLVTPISK 581 (902) T ss_pred CCCCEEEEEECCCCCCHHHHHHHCCCCCCCCEEEEEEECCHHHCEEECCEEEEECCCCCCCCCCCCCCCCEEEEEEEECH T ss_conf 36550798400046986888763588998850489861101210544675899667621124768776850677763110 Q ss_pred ----HHHHCCCCCCCCEEEEEEECCCCCHHHHH---HHHHHHHHCHHHHHHHHHHHHCCCCCCCCCHHCCCCCCCCCCHH Q ss_conf ----73011667898359999708889987999---99999841425899999985206300026000698744000388 Q gi|254780945|r 578 ----QLRGRVGRGEEISSCILLYHPPLSKNSYT---RLSVLKNTEDGFLIAEEDLKQRKEGEILGIKQSGMPKFLIAQPE 650 (700) Q Consensus 578 ----QLRGRVGRg~~~s~c~l~~~~~~~~~~~~---Rl~~l~~~~dGf~iAe~Dl~lRG~G~~~G~~QsG~~~~~~~d~~ 650 (700) |=-||-||- .+|.||=+|..-.=..-.+ -=+|...+-++-.+.-+-|-+ +-+..|-|.|+- T Consensus 582 AsA~QRaGRAGRt-gPGKCfRLYt~~aY~~eLE~~t~PEIqRtnL~nvVL~LkSLGI-----------~Dl~~FdFmDpP 649 (902) T KOG0923 582 ASANQRAGRAGRT-GPGKCFRLYTAWAYEHELEEMTVPEIQRTNLGNVVLLLKSLGI-----------HDLIHFDFLDPP 649 (902) T ss_pred HHHHHHCCCCCCC-CCCCEEEEECHHHHHHHHCCCCCCCEEECCCHHHHHHHHHCCC-----------CHHCCCCCCCCC T ss_conf 0044442345788-9972578500666653420278740342252238898885273-----------030046667999 Q ss_pred HHHHH-HHHHHHHHHHHHHHCCCCC Q ss_conf 75999-9999999999998484636 Q gi|254780945|r 651 LHDSL-LEIARKDAKHILTQDPDLT 674 (700) Q Consensus 651 ~d~~l-l~~a~~~a~~~~~~d~~l~ 674 (700) -...| ....+-.|..-++++-+|. T Consensus 650 p~etL~~aLE~LyaLGALn~~GeLT 674 (902) T KOG0923 650 PTETLLKALEQLYALGALNHLGELT 674 (902) T ss_pred CHHHHHHHHHHHHHHHCCCCCCCHH T ss_conf 7489999999998744233356211 No 136 >TIGR01054 rgy reverse gyrase; InterPro: IPR005736 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis , . DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA . Type I topoisomerases are ATP-independent enzymes (except for reverse gyrase), and can be subdivided according to their structure and reaction mechanisms: type IA (bacterial and archaeal topoisomerase I, topoisomerase III and reverse gyrase) and type IB (eukaryotic topoisomerase I and topoisomerase V). These enzymes are primarily responsible for relaxing positively and/or negatively supercoiled DNA, except for reverse gyrase, which can introduce positive supercoils into DNA. Reverse gyrase is a type IA topoisomerase that is unique among these enzymes in its requirement for ATP. Reverse gyrase is a hyperthermophile-specific enzyme that acts as a renaturase by positively supercoiling DNA, and by annealing complementary single-strand circles . Hyperthermophilic organisms must protect themselves against heat-induced degradation, and reverse gyrase acts to reduce the rate of double-strand DNA breakage, a function that does not require ATP hydrolysis and which is independent of its positive supercoiling abilities. Reverse gyrase achieves this by recognising nicked DNA and recruiting a protein coat to the site of damage . More information about this protein can be found at Protein of the Month: DNA Topoisomerase .; GO: 0003677 DNA binding, 0003916 DNA topoisomerase activity, 0006265 DNA topological change, 0006268 DNA unwinding during replication, 0005694 chromosome. Probab=97.89 E-value=2.7e-05 Score=61.08 Aligned_cols=308 Identities=16% Similarity=0.320 Sum_probs=135.7 Q ss_pred CCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHH Q ss_conf 87757899998630246798899999999984100134307886214422369999997334443054588612799999 Q gi|254780945|r 256 NVEGKIAQKILRNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQ 335 (700) Q Consensus 256 ~~~~~~~~~f~~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~ 335 (700) ..-+.-..-|.+-|.|+-=.+-..-+..|.+-=..+. | |=+-|++--.-..... |.=+.+-+|+.. =. T Consensus 309 ~prG~r~~LFR~LL~FevG~~~~~GLRnvvD~y~~~~--------d-~v~E~~~~sve~v~~L--G~GGlVyvs~~y-G~ 376 (1843) T TIGR01054 309 KPRGKRVKLFRELLGFEVGKGSDTGLRNVVDVYEEDE--------D-GVKEKLLESVELVKKL--GKGGLVYVSIDY-GK 376 (1843) T ss_pred CCCCCHHHHHHHHCCCCCCCCCCCCCCCEEEEEECCC--------C-CHHHHHHHHHHHHHHH--CCCEEEEEECCC-CH T ss_conf 8876133653655271005764223321388511488--------8-4468899999999984--794399971222-55 Q ss_pred HHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHC---CCCCCCCC-CCEEEEC--CCCCCCHH Q ss_conf 999862110145786589962464225667687762134754864111201---33455444-4178852--10133568 Q gi|254780945|r 336 QHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALF---QDSIQYYK-LILVIVD--EQHRFGVQ 409 (700) Q Consensus 336 QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~---q~~v~F~~-LgLvViD--EQHRFGV~ 409 (700) -..+.+.+.|...||++..++... .++-++..+.|++|++||+-.-- =.++.... .-++|-= =.|||+.. T Consensus 377 e~a~ei~~~L~~~Gv~A~~~~~~k----~~~~~~~F~~GE~dVliG~a~yyg~LVRGLDLP~rvRYAvF~G~Pk~k~~~~ 452 (1843) T TIGR01054 377 EKAEEIKEFLREHGVKAVAYHAKK----PKEDLEKFAEGEIDVLIGVASYYGVLVRGLDLPERVRYAVFLGVPKFKVPLK 452 (1843) T ss_pred HHHHHHHHHHHHCCCEEEEEEECC----CCCCHHHHHCCCEEEEEEEECCCCCEEECCCCCCHHEEEEECCCCCEEEEEE T ss_conf 899999999985794799984037----7320346634851368771015476353266610100023438995066412 Q ss_pred ------HHH-HHHHCCC--CCCCEEECHHHHHHHHHHHHHHCCCHHHHCCCCCC-------CCCCEE----EEEECCC-- Q ss_conf ------899-8740256--77610101013227899997520101111023557-------666207----9997020-- Q gi|254780945|r 410 ------QRL-KLTQKAT--APHVLLMTATPIPRTLVLTSLGDIDISKITEKPAG-------RKPIKT----VIIPINR-- 467 (700) Q Consensus 410 ------QR~-~L~~Kg~--~ph~L~MtATPIPRTLal~~ygdldvS~i~e~P~g-------R~~I~T----~~~~~~~-- 467 (700) .|. +|++=-. .-+==+=|+.+==|++.+-++=++++|++...=.+ +..|.- .+-...+ T Consensus 453 ~~~~~p~~~~~LLSl~~~~~~e~~i~~~~~~~~~~~~~L~r~~~ls~~e~~~~~~~~~~~~~~e~~~Gydr~i~e~~~~~ 532 (1843) T TIGR01054 453 VALSSPRRLLALLSLLALILKEERIESLAEKARKLLGRLKRYIDLSVIERALEEKLEARRARGEVKEGYDRIIEEVLKFL 532 (1843) T ss_pred ECCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHH T ss_conf 03787578999999999851432035789999999999988654443328889999852376502201568999888778 Q ss_pred -----HHHHHHH-HHH-----HHCCCCEEEEEECCCC----CCCCC--------------CCCHHHHHHHHHHHHCC--- Q ss_conf -----0268999-976-----3103873899971201----22111--------------21014666666686637--- Q gi|254780945|r 468 -----IDEVIER-LKV-----VLSEGKKAYWICPQIE----EKKES--------------NFRSVVERFNSLHEHFT--- 515 (700) Q Consensus 468 -----~~~~~~~-i~~-----~l~~g~q~y~VcPlIe----ese~~--------------~~~~~~~~~~~l~~~~~--- 515 (700) .+.+++. +.+ -..+|+..|+|.|=+. .|... =+.+..+.++.|.+... T Consensus 533 ~~~L~~e~~~~~G~~~~~~~~~~~~e~~~ylvvpD~~tYiQASGRTSRl~aGGlTkGlS~Vl~dd~~~~~aL~kr~~lyy 612 (1843) T TIGR01054 533 REALKREDVLEKGIKESEDLSLVAKEGKLYLVVPDVKTYIQASGRTSRLYAGGLTKGLSVVLVDDPEAFEALKKRLKLYY 612 (1843) T ss_pred HHHHHHHHHHHCCCCCCCCEEEECCCCEEEEEECCCCCCCCCCCHHHHHHHHHHHHCCEEEEECCHHHHHHHHHHHHHHH T ss_conf 88775202553265410344786179725999668774424674156655423230534899654789999998886666 Q ss_pred CCEECCCCCCCHHHHHHHHHHHHCC--CEEEEEECHHHHCCCCCCCCCEEEEECHH-------HCCHHHHHHH Q ss_conf 1031201469989999999997559--86999980034104688876589985852-------5474688773 Q gi|254780945|r 516 SSIAIIHGRMSDIDKESVMDSFKNG--TCKLLIATTVIEVGIDVVDASIIIIENAE-------HFGLAQLHQL 579 (700) Q Consensus 516 ~~v~~lHGkm~~~ek~~~m~~F~~g--~~~iLvaTtviEVGvdvpna~~mvI~~ae-------rfGLsqLHQL 579 (700) -.-.+=-=+++.-+-++++..--+- ++.--+.--++--+.|.=-.++||||.+. =||==+--.+ T Consensus 613 ~~~ei~fk~i~EVDL~~l~rEIDEdR~k~r~~~~g~~~A~~~dLvKt~L~vVESPnKARTIA~FFGkP~~R~i 685 (1843) T TIGR01054 613 FTQEIEFKRIDEVDLEKLLREIDEDREKVRRIVEGKVKAKVKDLVKTALLVVESPNKARTIARFFGKPSVRKI 685 (1843) T ss_pred HHHCCCCCCCCCCCHHHHHHHHHHCCCCCCEEEECCEEEEEECCCCCEEEEEECCCCHHHHHHHCCCCCCEEC T ss_conf 5201355445600178887764101012401220762664202424137998278604455343069963551 No 137 >KOG0390 consensus Probab=97.88 E-value=0.0046 Score=43.62 Aligned_cols=330 Identities=17% Similarity=0.176 Sum_probs=200.3 Q ss_pred CCCCCHHHHHHHHHHHHHHCCCC----CCEEEEEECCCCCHHHHHHHHHHHHHHHHCC-------EEEEEHHHHHHHHHH Q ss_conf 24679889999999998410013----4307886214422369999997334443054-------588612799999999 Q gi|254780945|r 270 PFSPTKSQESAIKDILQDMSQKN----RMLRILQGDVGSGKTLVALIAMAAAVEAGGQ-------AVIMAPIGILAQQHY 338 (700) Q Consensus 270 PF~LT~~Q~~ai~eI~~Dl~~~~----pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q-------~alMaPTEILA~QH~ 338 (700) --.|-.-|+..++=+.+.+.... +=-=.+--.-|+|||.-.+.-+...+..+.| +.+.||-.++ .--+ T Consensus 236 ~~~LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~IsflwtlLrq~P~~~~~~~k~lVV~P~sLv-~nWk 314 (776) T KOG0390 236 KKILRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQCISFIWTLLRQFPQAKPLINKPLVVAPSSLV-NNWK 314 (776) T ss_pred HHHCCCHHHHHHHHHHHHHHCCCCCCCCCCEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCEEECCHHHH-HHHH T ss_conf 641281578778997864113111588875472078876407888999999998686755444660798458888-7899 Q ss_pred HHHHHHCCCCCCEEEEEECCCCH--HHHHHHHHH--HCCCCCEEEEECHHHC--CCCCCCCCCCEEEECCCCCCCHHHHH Q ss_conf 86211014578658996246422--566768776--2134754864111201--33455444417885210133568899 Q gi|254780945|r 339 EFIKKYTQNTQIIVEIITGNMPQ--AHRRKALER--IAHGQAHIIIGTHALF--QDSIQYYKLILVIVDEQHRFGVQQRL 412 (700) Q Consensus 339 ~~~~~~~~~~~i~v~lLtg~~~~--~er~~i~~~--i~~G~~~iiIGTHAL~--q~~v~F~~LgLvViDEQHRFGV~QR~ 412 (700) +.|.+|+.+..+.+.-+.|..+. -..+.++.. -.-..+-.++++-++- -+.+.-...||+|-||=||-= ++.. T Consensus 315 kEF~KWl~~~~i~~l~~~~~~~~~w~~~~sil~~~~~~~~~~vli~sye~~~~~~~~il~~~~glLVcDEGHrlk-N~~s 393 (776) T KOG0390 315 KEFGKWLGNHRINPLDFYSTKKSSWIKLKSILFLGYKQFTTPVLIISYETASDYCRKILLIRPGLLVCDEGHRLK-NSDS 393 (776) T ss_pred HHHHHHCCCCCCCEEEEECCCCHHHHHHHHHHHHHHHHEEEEEEECCHHHHHHHHHHHHCCCCCEEEECCCCCCC-CHHH T ss_conf 999874253555404542345256666678988622112578786369999999999854789869977988856-2245 Q ss_pred HHH---HCCCCCCCEEECHHHHHHHHHHHHHHCCCHH------------------------------------------- Q ss_conf 874---0256776101010132278999975201011------------------------------------------- Q gi|254780945|r 413 KLT---QKATAPHVLLMTATPIPRTLVLTSLGDIDIS------------------------------------------- 446 (700) Q Consensus 413 ~L~---~Kg~~ph~L~MtATPIPRTLal~~ygdldvS------------------------------------------- 446 (700) .+. .+=..|+-++.|-|||---+.= +|.-||+. T Consensus 394 ~~~kaL~~l~t~rRVLLSGTp~QNdl~E-yFnlL~fvrP~~Lgs~~sf~k~~~~~i~~~~~~~~s~e~~~~~~rl~eL~~ 472 (776) T KOG0390 394 LTLKALSSLKTPRRVLLTGTPIQNDLKE-YFNLLDFVRPGFLGSISSFKKKFEIPILRGRDADASEEDREREERLQELRE 472 (776) T ss_pred HHHHHHHHCCCCCEEEEECCCCCCCHHH-HHHHHHHCCHHHCCCHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHH T ss_conf 8999997468773699607753346999-978885157011255378887751344235677855354525799999999 Q ss_pred ------------H-HCCCCCCCCCCEEEEEEC-CCHHHHHHHHHHHHCCCCEEEEEECCCC------------------- Q ss_conf ------------1-102355766620799970-2002689999763103873899971201------------------- Q gi|254780945|r 447 ------------K-ITEKPAGRKPIKTVIIPI-NRIDEVIERLKVVLSEGKKAYWICPQIE------------------- 493 (700) Q Consensus 447 ------------~-i~e~P~gR~~I~T~~~~~-~~~~~~~~~i~~~l~~g~q~y~VcPlIe------------------- 493 (700) + .+.+|+ +-..|.+++. ..-.++|..+.+.- -...|-.|+++- T Consensus 473 ~t~~fi~rrt~~il~k~LP~--k~e~vv~~n~t~~Q~~~~~~l~~~~--~~~~~~~~~l~~~~~L~k~cnhP~L~~~~~~ 548 (776) T KOG0390 473 LTNKFILRRTGDILLKYLPG--KYEYVVFCNPTPIQKELYKKLLDSM--KMRTLKGYALELITKLKKLCNHPSLLLLCEK 548 (776) T ss_pred HHHHHEEECCCCHHHHHCCC--CEEEEEEECCCHHHHHHHHHHHHHH--HHHHHHCCHHHHHHHHHHHHCCHHHHCCCCC T ss_conf 99765221112034553888--5469999578089999999998777--7654313225588998987368776313322 Q ss_pred -CCCCCC------------------------------------------------CCHHHHHHHHHHHHCCCCEECCCCC Q ss_conf -221112------------------------------------------------1014666666686637103120146 Q gi|254780945|r 494 -EKKESN------------------------------------------------FRSVVERFNSLHEHFTSSIAIIHGR 524 (700) Q Consensus 494 -ese~~~------------------------------------------------~~~~~~~~~~l~~~~~~~v~~lHGk 524 (700) ++|+.. +.-..+.++.+++.-+..+-.|||+ T Consensus 549 ~~~e~~~~~~~~~~~~~~~~~~~~~~~ks~kl~~L~~ll~~~~ek~~~~~v~Isny~~tldl~e~~~~~~g~~~~rLdG~ 628 (776) T KOG0390 549 TEKEKAFKNPALLLDPGKLKLDAGDGSKSGKLLVLVFLLEVIREKLLVKSVLISNYTQTLDLFEQLCRWRGYEVLRLDGK 628 (776) T ss_pred CCCCCCCCCHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCEEEEEECCHHHHHHHHHHHHHHCCCEEEEECCC T ss_conf 34441226857650321246665551156689999999999865223179996228999999999976538448997387 Q ss_pred CCHHHHHHHHHHHHCCCEE---EEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEEEE---EECC Q ss_conf 9989999999997559869---999800341046888765899858525474688773011667898359999---7088 Q gi|254780945|r 525 MSDIDKESVMDSFKNGTCK---LLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCIL---LYHP 598 (700) Q Consensus 525 m~~~ek~~~m~~F~~g~~~---iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l---~~~~ 598 (700) |+..+++.+|+.|.+-+-+ .|.||+-=-+|++.-.||=.|+.|.| .-=|.=-|==.||=|-+.+=-||. ++.. T Consensus 629 ~~~~qRq~~vd~FN~p~~~~~vfLlSsKAgg~GinLiGAsRlil~D~d-WNPa~d~QAmaR~~RdGQKk~v~iYrLlatG 707 (776) T KOG0390 629 TSIKQRQKLVDTFNDPESPSFVFLLSSKAGGEGLNLIGASRLILFDPD-WNPAVDQQAMARAWRDGQKKPVYIYRLLATG 707 (776) T ss_pred CCHHHHHHHHHHCCCCCCCCEEEEEECCCCCCCEEECCCCEEEEECCC-CCCHHHHHHHHHHCCCCCCCEEEEEEEECCC T ss_conf 766888899873359988741899854455576320134038995799-9823678999976457874268999963279 Q ss_pred CCCHHHHHH Q ss_conf 899879999 Q gi|254780945|r 599 PLSKNSYTR 607 (700) Q Consensus 599 ~~~~~~~~R 607 (700) .+-|.-.+| T Consensus 708 tiEEk~~qr 716 (776) T KOG0390 708 TIEEKIYQR 716 (776) T ss_pred CCHHHHHHH T ss_conf 813888999 No 138 >TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative; InterPro: IPR006310 These are 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 Escherichia coli. . Probab=97.80 E-value=0.00058 Score=50.65 Aligned_cols=155 Identities=18% Similarity=0.214 Sum_probs=113.7 Q ss_pred CCCCCCCHHHHHHHHHCCCC------------CCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHH- Q ss_conf 76787757899998630246------------79889999999998410013430788621442236999999733444- Q gi|254780945|r 253 IPINVEGKIAQKILRNIPFS------------PTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVE- 319 (700) Q Consensus 253 ~~~~~~~~~~~~f~~~LPF~------------LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~- 319 (700) ..+........+.++.|.|+ -=..|.+-.+.|...|..+.--.-|++-=.|+|||.=++++|+.... T Consensus 229 ~~~~~l~~~fsk~~~~l~l~GGslskaf~~y~~R~~Q~~la~~v~~~l~~Gt~~~~lIEA~tG~GKtlgYLLPal~~~~~ 308 (944) T TIGR01407 229 TEYQTLTSTFSKNIDRLGLEGGSLSKAFLRYEYREEQLKLAELVEDELTHGTEEKSLIEAPTGTGKTLGYLLPALYLAKE 308 (944) T ss_pred CCCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHEECCCCCCHHHHHHHHHHHHCCC T ss_conf 32200014677788763167623788877653138899999999998415766113302376643258999999973137 Q ss_pred HHCCEEEEEHHHHHHHHHHHHHHHHCCC---CCCEEEEEECC-------------------------------------C Q ss_conf 3054588612799999999862110145---78658996246-------------------------------------4 Q gi|254780945|r 320 AGGQAVIMAPIGILAQQHYEFIKKYTQN---TQIIVEIITGN-------------------------------------M 359 (700) Q Consensus 320 ~G~Q~alMaPTEILA~QH~~~~~~~~~~---~~i~v~lLtg~-------------------------------------~ 359 (700) .+.++++=.+|-||=.|-.+.=-+.+.. +.+++.+|-|. | T Consensus 309 ~~~~vviST~Tk~LQ~QL~E~d~P~l~~~~~fk~~~~~iKg~~~YlsL~~F~~~L~~~Cet~~~~~~~~KM~~LvWLTET 388 (944) T TIGR01407 309 EEKPVVISTATKVLQSQLLEKDIPLLNKILNFKLNVALIKGKKNYLSLQKFSQLLKENCETDNKEFELFKMQVLVWLTET 388 (944) T ss_pred CCCCEEEEECCHHHHHHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCHHHHHHHHCCCCCCCHHHHHHHHHHHHEEEECC T ss_conf 88856998363665656568888988865189712788507655436789999960478882489999987543210037 Q ss_pred CHHHH--------------------------------HHHHHHH--CCCCCEEEEECHHHC-CCCCC----CCCCCEEEE Q ss_conf 22566--------------------------------7687762--134754864111201-33455----444417885 Q gi|254780945|r 360 PQAHR--------------------------------RKALERI--AHGQAHIIIGTHALF-QDSIQ----YYKLILVIV 400 (700) Q Consensus 360 ~~~er--------------------------------~~i~~~i--~~G~~~iiIGTHAL~-q~~v~----F~~LgLvVi 400 (700) ...+. ..-|..+ +.-+++|+|-=||.+ ++.+. |..=-..|| T Consensus 389 etGDldEl~l~~~~~~f~~~~~~dG~~~l~~~~~~~~~dF~~~~~~~A~~~~~~itNHA~L~~~~~~~~~~~~~~~~lii 468 (944) T TIGR01407 389 ETGDLDELNLLTGNKSFFAEVRHDGLGFLSKKDLFYEVDFYKRAQKKAEQAEILITNHAYLITRLVDKPELLPEFRLLII 468 (944) T ss_pred CCCCHHHHCCCCCCCHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHCCEEEECHHHHHHHHHHCCCCCCCCCCEEE T ss_conf 98756752024675035778856056445665521128899999988833634565017887777644777766773252 Q ss_pred CCCCCCC Q ss_conf 2101335 Q gi|254780945|r 401 DEQHRFG 407 (700) Q Consensus 401 DEQHRFG 407 (700) ||=|||- T Consensus 469 DEAh~l~ 475 (944) T TIGR01407 469 DEAHHLP 475 (944) T ss_pred HHHHHHH T ss_conf 2265379 No 139 >COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms] Probab=97.74 E-value=0.0072 Score=42.06 Aligned_cols=330 Identities=19% Similarity=0.218 Sum_probs=179.2 Q ss_pred HHHHHHH----HHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHH--HCCEEEEEHHHHHHHHHHHHHHHHCCCCC Q ss_conf 8999999----99984100134307886214422369999997334443--05458861279999999986211014578 Q gi|254780945|r 276 SQESAIK----DILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEA--GGQAVIMAPIGILAQQHYEFIKKYTQNTQ 349 (700) Q Consensus 276 ~Q~~ai~----eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~--G~Q~alMaPTEILA~QH~~~~~~~~~~~~ 349 (700) .|.++++ .+......+..-.-+++---|||||+--+.++-..++. .-.+.|++=.--|-.|.+++|.++-.... T Consensus 252 ~q~~a~~~~i~~~~~~~~~~~~~~G~IWHtqGSGKTltm~~~A~~l~~~~~~~~v~fvvDR~dLd~Q~~~~f~~~~~~~~ 331 (962) T COG0610 252 AQYRAVQKAIKRILKASNPGDGKGGYIWHTQGSGKTLTMFKLARLLLELPKNPKVLFVVDRKDLDDQTSDEFQSFGKVAF 331 (962) T ss_pred HHHHHHHHHHHHHHHHCCCCCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCCEEEEEECHHHHHHHHHHHHHHHHHHHH T ss_conf 99999999999999712678777238984069837899999999998365999699996728899999999999887632 Q ss_pred CEEEEEECCCCHHHHHHHHHHHCCCCCEEEEEC-H---HHCCCC---CCCCCCCEEEECCCCCCCHHHHHHHHHCCC-CC Q ss_conf 658996246422566768776213475486411-1---201334---554444178852101335688998740256-77 Q gi|254780945|r 350 IIVEIITGNMPQAHRRKALERIAHGQAHIIIGT-H---ALFQDS---IQYYKLILVIVDEQHRFGVQQRLKLTQKAT-AP 421 (700) Q Consensus 350 i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGT-H---AL~q~~---v~F~~LgLvViDEQHRFGV~QR~~L~~Kg~-~p 421 (700) ... .+.+..+-++.++ ++.-.|||-| | ....+. ....+==.||+||=||.=-.-..+...++. +. T Consensus 332 ~~~----~~~s~~~Lk~~l~---~~~~~ii~TTIQKf~~~~~~~~~~~~~~~~ivvI~DEaHRSQ~G~~~~~~~~~~~~a 404 (962) T COG0610 332 NDP----KAESTSELKELLE---DGKGKIIVTTIQKFNKAVKEDELELLKRKNVVVIIDEAHRSQYGELAKLLKKALKKA 404 (962) T ss_pred CCC----CCCCHHHHHHHHH---CCCCCEEEEEECCCCHHHHCCCCCCCCCCCEEEEEECCCCCCCHHHHHHHHHHHCCC T ss_conf 044----4457999999986---589848999710264333333200047876799986401035607899999870367 Q ss_pred CCEEECHHHHHHHHHHH---HHHC-CCHHHHCCCCCCCCCCEEE--------E--------------------------- Q ss_conf 61010101322789999---7520-1011110235576662079--------9--------------------------- Q gi|254780945|r 422 HVLLMTATPIPRTLVLT---SLGD-IDISKITEKPAGRKPIKTV--------I--------------------------- 462 (700) Q Consensus 422 h~L~MtATPIPRTLal~---~ygd-ldvS~i~e~P~gR~~I~T~--------~--------------------------- 462 (700) ...-.|.|||=-.-+-| .||+ ++.-+|++-=....-+.+. + T Consensus 405 ~~~gFTGTPi~~~d~~tt~~~fg~ylh~Y~i~~aI~Dg~vl~i~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 484 (962) T COG0610 405 IFIGFTGTPIFKEDKDTTKDVFGDYLHTYTITDAIRDGAVLPVYYENRVELELIEESIKEEAEELDERIEEITEDILEKI 484 (962) T ss_pred EEEEEECCCCCCCCCCCHHHHHCCEEEEEECCHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 08975178564022420355517447998652232357633258403123453200124566666999842279999999 Q ss_pred -----------EECCCH----HHHHHHHHHHHCCCCEEEEEECCCC---CC------CCCCCCHHHH---HHHHHHHHCC Q ss_conf -----------970200----2689999763103873899971201---22------1112101466---6666686637 Q gi|254780945|r 463 -----------IPINRI----DEVIERLKVVLSEGKKAYWICPQIE---EK------KESNFRSVVE---RFNSLHEHFT 515 (700) Q Consensus 463 -----------~~~~~~----~~~~~~i~~~l~~g~q~y~VcPlIe---es------e~~~~~~~~~---~~~~l~~~~~ 515 (700) ....+. ..+++..++....+..+-+||+.-. ++ ...+..+-+. ..+.....|. T Consensus 485 ~k~~~~~~~~~~~~~r~~~~a~~~~~~f~~~~~~~~kam~V~~sr~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~ 564 (962) T COG0610 485 KKKTKNLEFLAMLAVRLIRAAKDIYDHFKKEEVFDLKAMVVASSRKVAVELYEAEIAARLDWHSKESLEGAIKDYNTEFE 564 (962) T ss_pred HHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHCCCCCEEEEEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC T ss_conf 99875556875144889999999999998611558359999841687877678887751556665300528999861322 Q ss_pred CCEECC--CCCCCHHHHHHHHHH-HHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCC---CC Q ss_conf 103120--146998999999999-755986999980034104688876589985852547468877301166789---83 Q gi|254780945|r 516 SSIAII--HGRMSDIDKESVMDS-FKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGE---EI 589 (700) Q Consensus 516 ~~v~~l--HGkm~~~ek~~~m~~-F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~---~~ 589 (700) ..-..- |.+.+...++..-.. +.+-..+||+-+-.-=.|-|.|..++|=|.-.=+-. .|-|==-||-|-- +. T Consensus 565 ~~~~~~~~~~~~~~~~~~~~~r~~~~~d~~kllIV~dMlLTGFDaP~L~TmYvDK~Lk~H--~L~QAisRtNR~~~~~K~ 642 (962) T COG0610 565 TDFDKKQSHAKLKDEKKDLIKRFKLKDDPLDLLIVVDMLLTGFDAPCLNTLYVDKPLKYH--NLIQAISRTNRVFPGKKK 642 (962) T ss_pred CCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEECCCCCCCCCCCCCEEEECCCCCCC--HHHHHHHHHCCCCCCCCC T ss_conf 320234455777777653323212757787689997762046775420126744554433--189999886458878888 Q ss_pred EEEEEEECCCCCHHHHHHHHHHHHHC Q ss_conf 59999708889987999999998414 Q gi|254780945|r 590 SSCILLYHPPLSKNSYTRLSVLKNTE 615 (700) Q Consensus 590 s~c~l~~~~~~~~~~~~Rl~~l~~~~ 615 (700) .=|+.-|-. +-+.-.+=|+...++. T Consensus 643 ~G~IVDf~g-~~e~~~~Al~~y~~~~ 667 (962) T COG0610 643 FGLIVDFRG-LKEALKKALKLYSNEG 667 (962) T ss_pred CCEEEECCC-HHHHHHHHHHHHHHCC T ss_conf 957997814-6999999999975135 No 140 >PRK12366 replication factor A; Reviewed Probab=97.67 E-value=0.00068 Score=50.13 Aligned_cols=99 Identities=23% Similarity=0.296 Sum_probs=76.6 Q ss_pred HHHHHCCCCCCCCCCCCCHHHCCCCC-EEEEEEEEEEEEEECC-CCC-----CEEEEEEECCCCEEEEEEECCCHHHHHH Q ss_conf 87870897401344446478889987-8999999989754215-898-----3389999818936999995188789987 Q gi|254780945|r 43 DLLFYHPSSFIDRHYRPKISEISEER-IVTITGYISQHSSFQL-QKR-----RPYKILLNDGTGEITLLFFYRKTEMLKN 115 (700) Q Consensus 43 DLL~~~PrrYeDr~~~~~I~~l~~g~-~vti~g~V~~~~~~~~-~~r-----~~~~v~v~D~tg~i~lvfFn~~~~yl~k 115 (700) +|-...|....+-....+|+++.+|+ .|.|.|+|++....+. .++ +-..+.+.|+||.+++++|+.....+ + T Consensus 48 elG~~~~~~~~~e~e~~~I~DIe~g~~~V~~~gkV~~Isd~rtF~r~dGs~GrV~nl~VaDeTG~iRltLWdd~a~li-~ 126 (649) T PRK12366 48 EIGIEITYGQDEEEYIFLISDIEEGQKNVEITGKIIEISNIKEFNRKDGSTGKVASITIGDNTGIIRLTLWNDKTKLI-E 126 (649) T ss_pred HHCCCCCCCCCCCCCCCCHHCCCCCCCCEEEEEEEEEEECCCEEECCCCCCCEEEEEEEECCCCCEEEEEECCHHHHH-H T ss_conf 854455555565322201300665765238999998850561044268985248999997378968999860334576-3 Q ss_pred HCCCCCEEEEEEE-EEECCCEEEEE-CCE Q ss_conf 3289888999989-97318779997-786 Q gi|254780945|r 116 VFFEGRKITVTGK-IKKLKNRIIMV-HPH 142 (700) Q Consensus 116 ~lk~G~~v~vsGK-v~~~~~~~qi~-hPe 142 (700) .+++|+.+.+.|. .+.|++..++. +|+ T Consensus 127 ~le~GdvikI~g~~~r~~~g~~El~~g~~ 155 (649) T PRK12366 127 GLKEGDVIKIENAFSRKWNGDVELNSGSE 155 (649) T ss_pred CCCCCCEEEECCCCCCCCCCCEEEEECCC T ss_conf 56777589984631213588337871688 No 141 >PRK07373 DNA polymerase III subunit alpha; Reviewed Probab=97.65 E-value=0.001 Score=48.78 Aligned_cols=93 Identities=15% Similarity=0.266 Sum_probs=44.4 Q ss_pred EEECHHHHHHHH-HHHHHHCCCHHHHCCCCCCCCCCEEEEEECCCHHHHHHHHHHHH-CCCCEEEEEECCCCCCCCCCCC Q ss_conf 010101322789-99975201011110235576662079997020026899997631-0387389997120122111210 Q gi|254780945|r 424 LLMTATPIPRTL-VLTSLGDIDISKITEKPAGRKPIKTVIIPINRIDEVIERLKVVL-SEGKKAYWICPQIEEKKESNFR 501 (700) Q Consensus 424 L~MtATPIPRTL-al~~ygdldvS~i~e~P~gR~~I~T~~~~~~~~~~~~~~i~~~l-~~g~q~y~VcPlIeese~~~~~ 501 (700) ++.|.-|+=.=- .+..++..+++.+.+.+.+ +.|....+-.+ ++... ++| +-+-..-+-+++...++. T Consensus 247 fYlSgHPL~~y~~~~~~~~~~~~~~l~~~~~~-~~V~~~g~I~~--------vr~~~TKkG-~~MAfvtLeD~tG~iEvv 316 (447) T PRK07373 247 FYVSEHPLKSLQRPAPLLSPINLSQLEEQKER-TKVSAVVMLNG--------VKKIVTKKG-DPMAFLQLEDLSGQSEAV 316 (447) T ss_pred EEECCCHHHHHHHHHHHHCCCCHHHHHHCCCC-CEEEEEEEEEE--------EEEEECCCC-CEEEEEEEEECCCCEEEE T ss_conf 68620737899999888387138996402489-78999999999--------999870489-659999999789748999 Q ss_pred HHHHHHHHHHHHCC-CCEECCCCCCC Q ss_conf 14666666686637-10312014699 Q gi|254780945|r 502 SVVERFNSLHEHFT-SSIAIIHGRMS 526 (700) Q Consensus 502 ~~~~~~~~l~~~~~-~~v~~lHGkm~ 526 (700) -=.+.|+..+..+- +.+-++.|+.. T Consensus 317 vFpe~ye~~~~~L~~d~ivlv~Gkv~ 342 (447) T PRK07373 317 VFPKSYERIQELLQEDSRLIIWGKVD 342 (447) T ss_pred EEHHHHHHHHHHHCCCCEEEEEEEEE T ss_conf 80899999988733799899999999 No 142 >KOG0389 consensus Probab=97.65 E-value=0.00042 Score=51.79 Aligned_cols=330 Identities=21% Similarity=0.294 Sum_probs=192.8 Q ss_pred CCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHH--HHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCC Q ss_conf 246798899999999984100134307886214422369--999997334443054588612799999999862110145 Q gi|254780945|r 270 PFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTL--VALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQN 347 (700) Q Consensus 270 PF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTi--VA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~ 347 (700) .++|-.-|.--++=.. |--.+-|+-.|--+-|=|||+ ||++|.+.-..+..--.+.||...|-.= ...|.+|+|. T Consensus 397 ~i~LkdYQlvGvNWL~--Llyk~~l~gILADEMGLGKTiQvIaFlayLkq~g~~gpHLVVvPsSTleNW-lrEf~kwCPs 473 (941) T KOG0389 397 GIQLKDYQLVGVNWLL--LLYKKKLNGILADEMGLGKTIQVIAFLAYLKQIGNPGPHLVVVPSSTLENW-LREFAKWCPS 473 (941) T ss_pred CCCCCCHHHHHHHHHH--HHHHCCCCCEEHHHCCCCCHHHHHHHHHHHHHCCCCCCCEEEECCHHHHHH-HHHHHHHCCC T ss_conf 8733422202289999--999742330532220576334899999999972999983799203168889-9999975975 Q ss_pred CCCEEEEEECCCCHHHHHHHHHHHCCC--CCEEEEECHHHCC---CCCCC---CCCCEEEECCCCCC--CHHHHHHHHHC Q ss_conf 786589962464225667687762134--7548641112013---34554---44417885210133--56889987402 Q gi|254780945|r 348 TQIIVEIITGNMPQAHRRKALERIAHG--QAHIIIGTHALFQ---DSIQY---YKLILVIVDEQHRF--GVQQRLKLTQK 417 (700) Q Consensus 348 ~~i~v~lLtg~~~~~er~~i~~~i~~G--~~~iiIGTHAL~q---~~v~F---~~LgLvViDEQHRF--GV~QR~~L~~K 417 (700) + +|+...||. .||+++...++++ ..++++-|--|.. ++..| .++-.||.||-|=. --.+|-+=.=+ T Consensus 474 l--~Ve~YyGSq--~ER~~lR~~i~~~~~~ydVllTTY~la~~~kdDRsflk~~~~n~viyDEgHmLKN~~SeRy~~LM~ 549 (941) T KOG0389 474 L--KVEPYYGSQ--DERRELRERIKKNKDDYDVLLTTYNLAASSKDDRSFLKNQKFNYVIYDEGHMLKNRTSERYKHLMS 549 (941) T ss_pred E--EEEECCCCH--HHHHHHHHHHHCCCCCCCEEEEEEECCCCCHHHHHHHHHCCCCEEEECCHHHHHCCCHHHHHHHCC T ss_conf 2--877415768--999999999861688852899872110388677899986666679961326542133498887506 Q ss_pred CCCCCCEEECHHHHHHHHH----H---HH---H----HCCC----------------------H---------------- Q ss_conf 5677610101013227899----9---97---5----2010----------------------1---------------- Q gi|254780945|r 418 ATAPHVLLMTATPIPRTLV----L---TS---L----GDID----------------------I---------------- 445 (700) Q Consensus 418 g~~ph~L~MtATPIPRTLa----l---~~---y----gdld----------------------v---------------- 445 (700) =..---|.+|-||.---|- | .+ | -|+| | T Consensus 550 I~An~RlLLTGTPLQNNL~ELiSLL~FvlP~vF~~~~~dl~~if~~k~~~d~d~e~~~l~qerIsrAK~im~PFILRR~K 629 (941) T KOG0389 550 INANFRLLLTGTPLQNNLKELISLLAFVLPKVFDSSMEDLDVIFKAKKTSDGDIENALLSQERISRAKTIMKPFILRRLK 629 (941) T ss_pred CCCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 46553588518742012999999999974575532224799998246776430467788999999999754278899989 Q ss_pred -HHHCCCCCCCCCCEEEEEECCCHHHHHHHHHHHHC-------CC--CEE-EE--------EECCCCC------------ Q ss_conf -11102355766620799970200268999976310-------38--738-99--------9712012------------ Q gi|254780945|r 446 -SKITEKPAGRKPIKTVIIPINRIDEVIERLKVVLS-------EG--KKA-YW--------ICPQIEE------------ 494 (700) Q Consensus 446 -S~i~e~P~gR~~I~T~~~~~~~~~~~~~~i~~~l~-------~g--~q~-y~--------VcPlIee------------ 494 (700) -+++.+||-- .++-++-..+.-.++|..+-+... .. .+- .+ -.||.-- T Consensus 630 ~qVL~~LPpK~-~~Ie~c~mse~Q~~~Y~~~~~~~~~~~~~~~~ns~~~~~~vlmqlRK~AnHPLL~R~~Y~de~L~~ma 708 (941) T KOG0389 630 SQVLKQLPPKI-QRIEYCEMSEKQKQLYDELIELYDVKLNEVSKNSELKSGNVLMQLRKAANHPLLFRSIYTDEKLRKMA 708 (941) T ss_pred HHHHHHCCCCC-CEEEEEECCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHCCHHHHHHHCCHHHHHHHH T ss_conf 98987469743-25676424638999999999998511043223310256139999998735725778760388999999 Q ss_pred -----------------CCCCCCCHHHHHH-------------------------HHHH--------------------- Q ss_conf -----------------2111210146666-------------------------6668--------------------- Q gi|254780945|r 495 -----------------KKESNFRSVVERF-------------------------NSLH--------------------- 511 (700) Q Consensus 495 -----------------se~~~~~~~~~~~-------------------------~~l~--------------------- 511 (700) .|.+...|--+.+ ..|+ T Consensus 709 k~il~e~ay~~~n~qyIfEDm~~msDfelHqLc~~f~~~~~f~L~d~~~mdSgK~r~L~~LLp~~k~~G~RVLiFSQFTq 788 (941) T KOG0389 709 KRILNEPAYKKANEQYIFEDMEVMSDFELHQLCCQFRHLSKFQLKDDLWMDSGKCRKLKELLPKIKKKGDRVLIFSQFTQ 788 (941) T ss_pred HHHHCCHHHHHCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEEEEHHHH T ss_conf 99727553320278888998876518999999986578765323884443003276999987887616877999608889 Q ss_pred ---------HHCCCCEECCCCCCCHHHHHHHHHHHHCCC--EEEEEECHHHHCCCCCCCCCEEEEECHHH--CCHHHHHH Q ss_conf ---------663710312014699899999999975598--69999800341046888765899858525--47468877 Q gi|254780945|r 512 ---------EHFTSSIAIIHGRMSDIDKESVMDSFKNGT--CKLLIATTVIEVGIDVVDASIIIIENAEH--FGLAQLHQ 578 (700) Q Consensus 512 ---------~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~--~~iLvaTtviEVGvdvpna~~mvI~~aer--fGLsqLHQ 578 (700) +..+.+.--|-|.-.-.+++..+.+|...+ .=-|+||--=-+|||..-|++.||.+-+- |-=-|--- T Consensus 789 mLDILE~~L~~l~~~ylRLDGsTqV~~RQ~lId~Fn~d~difVFLLSTKAGG~GINLt~An~VIihD~dFNP~dD~QAED 868 (941) T KOG0389 789 MLDILEVVLDTLGYKYLRLDGSTQVNDRQDLIDEFNTDKDIFVFLLSTKAGGFGINLTCANTVIIHDIDFNPYDDKQAED 868 (941) T ss_pred HHHHHHHHHHHCCCEEEEECCCCCCHHHHHHHHHHCCCCCEEEEEEEECCCCCEECCCCCCEEEEEECCCCCCCCCHHHH T ss_conf 99999999986273378614886413899999862667755799986146765021123645899605779755204688 Q ss_pred HHHCCCCCCCCEEEEEEECCCCCHHHHHHH Q ss_conf 301166789835999970888998799999 Q gi|254780945|r 579 LRGRVGRGEEISSCILLYHPPLSKNSYTRL 608 (700) Q Consensus 579 LRGRVGRg~~~s~c~l~~~~~~~~~~~~Rl 608 (700) =--|||--.---..=|++...+ |+.+.|| T Consensus 869 RcHRvGQtkpVtV~rLItk~TI-EE~I~~l 897 (941) T KOG0389 869 RCHRVGQTKPVTVYRLITKSTI-EEGILRL 897 (941) T ss_pred HHHHHCCCCEEEEEEEEECCCH-HHHHHHH T ss_conf 8876178540699998745718-9999999 No 143 >COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription] Probab=97.61 E-value=0.00069 Score=50.07 Aligned_cols=120 Identities=17% Similarity=0.396 Sum_probs=99.4 Q ss_pred CCHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCC---CCEECCCCCCCHHHHHHHHHHHHCCCE Q ss_conf 20026899997631038738999712012211121014666666686637---103120146998999999999755986 Q gi|254780945|r 466 NRIDEVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFT---SSIAIIHGRMSDIDKESVMDSFKNGTC 542 (700) Q Consensus 466 ~~~~~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~---~~v~~lHGkm~~~ek~~~m~~F~~g~~ 542 (700) -+-+-++.+.=..+..|-||.|++|. .-=|++-|+.+++.|. -+|++|.-=-++.|+.++++..++|++ T Consensus 627 GKTEVAmRAAFkAV~~GKQVAvLVPT--------TlLA~QHy~tFkeRF~~fPV~I~~LSRF~s~kE~~~il~~la~G~v 698 (1139) T COG1197 627 GKTEVAMRAAFKAVMDGKQVAVLVPT--------TLLAQQHYETFKERFAGFPVRIEVLSRFRSAKEQKEILKGLAEGKV 698 (1139) T ss_pred CHHHHHHHHHHHHHCCCCEEEEECCC--------HHHHHHHHHHHHHHHCCCCEEEEEECCCCCHHHHHHHHHHHHCCCC T ss_conf 59999999999986379749999260--------7868998999998733898258886055788999999999856984 Q ss_pred EEEEECH-HHHCCCCCCCCCEEEEECHHHCCHHH---HHHHHHCCCCCCCCEEEEEEECCCC Q ss_conf 9999800-34104688876589985852547468---8773011667898359999708889 Q gi|254780945|r 543 KLLIATT-VIEVGIDVVDASIIIIENAEHFGLAQ---LHQLRGRVGRGEEISSCILLYHPPL 600 (700) Q Consensus 543 ~iLvaTt-viEVGvdvpna~~mvI~~aerfGLsq---LHQLRGRVGRg~~~s~c~l~~~~~~ 600 (700) ||+|.|- ++--+|-..|.-+|||..-.|||..| |-|||. .--|.-++..|+ T Consensus 699 DIvIGTHrLL~kdv~FkdLGLlIIDEEqRFGVk~KEkLK~Lr~-------~VDvLTLSATPI 753 (1139) T COG1197 699 DIVIGTHRLLSKDVKFKDLGLLIIDEEQRFGVKHKEKLKELRA-------NVDVLTLSATPI 753 (1139) T ss_pred CEEEECHHHHCCCCEEECCCEEEEECHHHCCCCHHHHHHHHHC-------CCCEEEEECCCC T ss_conf 5899631764789677047648974435327117899987750-------572897417887 No 144 >smart00489 DEXDc3 DEAD-like helicases superfamily. Probab=97.61 E-value=0.002 Score=46.38 Aligned_cols=76 Identities=17% Similarity=0.242 Sum_probs=55.3 Q ss_pred HCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHH------HCCEEEEEHHHHHHHHHHHHH Q ss_conf 30246798899999999984100134307886214422369999997334443------054588612799999999862 Q gi|254780945|r 268 NIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEA------GGQAVIMAPIGILAQQHYEFI 341 (700) Q Consensus 268 ~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~------G~Q~alMaPTEILA~QH~~~~ 341 (700) .+||+.=+.|...++.|..-+..... =|++.=.|+|||+-.+.+++..+.+ +..+++..-|.-.-+|..+.+ T Consensus 4 ~FPy~py~~Q~e~m~~v~~~l~~~~~--~llEaPTGtGKTlalL~~al~~~~~~~~~~~~~ki~~~t~t~~~~~~~~~el 81 (289) T smart00489 4 YFPYEPYPIQYEFMEELKRVLDRGKI--GILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEEL 81 (289) T ss_pred CCCCCCCHHHHHHHHHHHHHHHCCCE--EEEECCCCHHHHHHHHHHHHHHHHHCHHCCCCCEEEEEECCHHHHHHHHHHH T ss_conf 78999998999999999999974997--9998999651899999999999996701024561687615378899999999 Q ss_pred HHHC Q ss_conf 1101 Q gi|254780945|r 342 KKYT 345 (700) Q Consensus 342 ~~~~ 345 (700) ++.. T Consensus 82 r~~~ 85 (289) T smart00489 82 RKLM 85 (289) T ss_pred HHHC T ss_conf 8632 No 145 >smart00488 DEXDc2 DEAD-like helicases superfamily. Probab=97.61 E-value=0.002 Score=46.38 Aligned_cols=76 Identities=17% Similarity=0.242 Sum_probs=55.3 Q ss_pred HCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHH------HCCEEEEEHHHHHHHHHHHHH Q ss_conf 30246798899999999984100134307886214422369999997334443------054588612799999999862 Q gi|254780945|r 268 NIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEA------GGQAVIMAPIGILAQQHYEFI 341 (700) Q Consensus 268 ~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~------G~Q~alMaPTEILA~QH~~~~ 341 (700) .+||+.=+.|...++.|..-+..... =|++.=.|+|||+-.+.+++..+.+ +..+++..-|.-.-+|..+.+ T Consensus 4 ~FPy~py~~Q~e~m~~v~~~l~~~~~--~llEaPTGtGKTlalL~~al~~~~~~~~~~~~~ki~~~t~t~~~~~~~~~el 81 (289) T smart00488 4 YFPYEPYPIQYEFMEELKRVLDRGKI--GILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEEL 81 (289) T ss_pred CCCCCCCHHHHHHHHHHHHHHHCCCE--EEEECCCCHHHHHHHHHHHHHHHHHCHHCCCCCEEEEEECCHHHHHHHHHHH T ss_conf 78999998999999999999974997--9998999651899999999999996701024561687615378899999999 Q ss_pred HHHC Q ss_conf 1101 Q gi|254780945|r 342 KKYT 345 (700) Q Consensus 342 ~~~~ 345 (700) ++.. T Consensus 82 r~~~ 85 (289) T smart00488 82 RKLM 85 (289) T ss_pred HHHC T ss_conf 8632 No 146 >PRK07279 dnaE DNA polymerase III DnaE; Reviewed Probab=97.60 E-value=0.0016 Score=47.29 Aligned_cols=61 Identities=10% Similarity=0.128 Sum_probs=30.9 Q ss_pred HHHHHHCCCC--EECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHH Q ss_conf 6668663710--31201469989999999997559869999800341046888765899858525474688773 Q gi|254780945|r 508 NSLHEHFTSS--IAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQL 579 (700) Q Consensus 508 ~~l~~~~~~~--v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQL 579 (700) .+||.+||.. .++|..++ ..-+.+-++-.+.|| -.-||-.....-+-.++=||||+..--+ T Consensus 696 AyLKahYP~eF~aalL~~~~-----~~yi~ea~~~gi~vl------pPdIN~S~~~f~~~~~~Ir~GL~aIkgv 758 (1033) T PRK07279 696 AYFKAHYPAVFYDIMLNYSS-----SDYITDALEFGFEVA------QLSINTIPYHDKIENKKIYLGLKNIKGL 758 (1033) T ss_pred HHHHHCCHHHHHHHHHCCCH-----HHHHHHHHHCCCCCC------CCCCCCCCCCCEECCCEEEEHHHHHCCC T ss_conf 99984488999999845777-----899999998499745------8865336776511388188737866587 No 147 >PRK07012 consensus Probab=97.58 E-value=0.0014 Score=47.59 Aligned_cols=67 Identities=18% Similarity=0.205 Sum_probs=46.1 Q ss_pred HHHHHHCCCC--EECCCCCCCHHHH-HHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEEC-------HHHCCHHHHH Q ss_conf 6668663710--3120146998999-9999997559869999800341046888765899858-------5254746887 Q gi|254780945|r 508 NSLHEHFTSS--IAIIHGRMSDIDK-ESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIEN-------AEHFGLAQLH 577 (700) Q Consensus 508 ~~l~~~~~~~--v~~lHGkm~~~ek-~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~-------aerfGLsqLH 577 (700) .+||.+||.. .++|...|...+| ...+.+-++-.+.|| -.-||-.....-++.+ +=||||+... T Consensus 767 AyLK~hyP~eF~aAlLs~~~~~~~k~~~~i~ear~~gi~Vl------pPdIN~S~~~f~~~~~~~~~~~~~Ir~GL~aIk 840 (1173) T PRK07012 767 AWLKAHHPAEFMAANMSLAMDDTDKVKILFDDCLVNGLAVL------PPDINASHYRFEPVAEADGKRSRTIRYGLGAVK 840 (1173) T ss_pred HHHHHCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHCCCEEC------CCCCCCCCCEEEECCCCCCCCCCEEEEEHHHHC T ss_conf 99987389999999837687997589999999998789164------884225577025525766676763898435415 Q ss_pred HHH Q ss_conf 730 Q gi|254780945|r 578 QLR 580 (700) Q Consensus 578 QLR 580 (700) -+. T Consensus 841 gvg 843 (1173) T PRK07012 841 GSG 843 (1173) T ss_pred CCC T ss_conf 898 No 148 >PRK05580 primosome assembly protein PriA; Validated Probab=97.58 E-value=0.0004 Score=51.92 Aligned_cols=72 Identities=21% Similarity=0.318 Sum_probs=54.4 Q ss_pred EEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCC--HHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEEEC Q ss_conf 6127999999998621101457865899624642--25667687762134754864111201334554444178852 Q gi|254780945|r 327 MAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMP--QAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKLILVIVD 401 (700) Q Consensus 327 MaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~--~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvViD 401 (700) +.+.-+=+++..+.+++.|++. +|.-+.+.+. ...-+.+++++.+|+++|+|||. .+.++..|.+++||+|= T Consensus 455 l~~~g~Gteri~eel~~~FP~~--~i~r~d~d~~~~~~~~~~~~~~~~~~~~dIlvGTq-miakG~df~~v~lv~vl 528 (699) T PRK05580 455 LRAVGVGTERTEEELARLFPGA--RVLRIDRDTTRRKGALEQLLEDFARGEADILVGTQ-MLAKGHDFPNVTLVGVL 528 (699) T ss_pred CCCCCHHHHHHHHHHHHHCCCC--CEEEECCCCCCCCCCHHHHHHHHHCCCCCEEECCC-CCCCCCCCCCEEEEEEE T ss_conf 2411168599999999778999--88998475567863168899997468987897773-34556777762699873 No 149 >KOG0925 consensus Probab=97.58 E-value=0.0081 Score=41.67 Aligned_cols=278 Identities=17% Similarity=0.285 Sum_probs=157.5 Q ss_pred HCCCCCCEEEEEECCCCCHHH-HHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCC-C---HH Q ss_conf 100134307886214422369-999997334443054588612799999999862110145786589962464-2---25 Q gi|254780945|r 288 MSQKNRMLRILQGDVGSGKTL-VALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNM-P---QA 362 (700) Q Consensus 288 l~~~~pM~RLLQGDVGSGKTi-VA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~-~---~~ 362 (700) +..+.-+ .+-||.|||||- |--.++..+.....|+|---|--+-|-|-......-++ +.+.-=.|.. + -. T Consensus 59 l~~nQ~~--v~vGetgsGKttQiPq~~~~~~~~~~~~v~CTQprrvaamsva~RVadEMD---v~lG~EVGysIrfEdC~ 133 (699) T KOG0925 59 LLNNQII--VLVGETGSGKTTQIPQFVLEYELSHLTGVACTQPRRVAAMSVAQRVADEMD---VTLGEEVGYSIRFEDCT 133 (699) T ss_pred HHCCCEE--EEEECCCCCCCCCCCHHHHHHHHHHCCCEEECCCHHHHHHHHHHHHHHHHC---CCCCHHCCCCCCCCCCC T ss_conf 8648269--999348888645474999999876336613247157889999998888744---31020115321212368 Q ss_pred HHHHHHHHHCCCCCEEEEECHHHCCCCC---CCCCCCEEEECCCCC--------CCHHHHHHHHHCCCCCCCEEECHHHH Q ss_conf 6676877621347548641112013345---544441788521013--------35688998740256776101010132 Q gi|254780945|r 363 HRRKALERIAHGQAHIIIGTHALFQDSI---QYYKLILVIVDEQHR--------FGVQQRLKLTQKATAPHVLLMTATPI 431 (700) Q Consensus 363 er~~i~~~i~~G~~~iiIGTHAL~q~~v---~F~~LgLvViDEQHR--------FGV~QR~~L~~Kg~~ph~L~MtATPI 431 (700) .-+.++.-.-+| -|++|-. -..+-|.+|.||-|- +|+-+...+.. ..--+.+||||-- T Consensus 134 ~~~T~Lky~tDg---------mLlrEams~p~l~~y~viiLDeahERtlATDiLmGllk~v~~~r--pdLk~vvmSatl~ 202 (699) T KOG0925 134 SPNTLLKYCTDG---------MLLREAMSDPLLGRYGVIILDEAHERTLATDILMGLLKEVVRNR--PDLKLVVMSATLD 202 (699) T ss_pred CHHHHHHHHCCH---------HHHHHHHCCCCCCCCCEEEECHHHHHHHHHHHHHHHHHHHHHHC--CCCEEEEEECCCC T ss_conf 715899995332---------89998750855453007995316666678999999999998619--8816999406012 Q ss_pred HHHHHHHHHHCCCHHHHCCCCCCCCCCEEEEEECCCHHHHHHHHHHHHCC-----CCEEEEEECCCCCCCCCCCCHHHHH Q ss_conf 27899997520101111023557666207999702002689999763103-----8738999712012211121014666 Q gi|254780945|r 432 PRTLVLTSLGDIDISKITEKPAGRKPIKTVIIPINRIDEVIERLKVVLSE-----GKKAYWICPQIEEKKESNFRSVVER 506 (700) Q Consensus 432 PRTLal~~ygdldvS~i~e~P~gR~~I~T~~~~~~~~~~~~~~i~~~l~~-----g~q~y~VcPlIeese~~~~~~~~~~ 506 (700) ---+- .+|||--+-.+ | |+-|+.-..-++..++.+-..++..++- -+-+.+--|--| .+++. T Consensus 203 a~Kfq-~yf~n~Pll~V---p-g~~PvEi~Yt~e~erDylEaairtV~qih~~ee~GDilvFLtgee--------eIe~a 269 (699) T KOG0925 203 AEKFQ-RYFGNAPLLAV---P-GTHPVEIFYTPEPERDYLEAAIRTVLQIHMCEEPGDILVFLTGEE--------EIEDA 269 (699) T ss_pred HHHHH-HHCCCCCEEEC---C-CCCCEEEEECCCCCHHHHHHHHHHHHHHHHCCCCCCEEEEECCHH--------HHHHH T ss_conf 59999-87079975645---8-988457883588873689999999999984168887899946778--------99999 Q ss_pred HHHHHHH-------CCC-CEECCCCCCCHHHHHHHHHHHHC---C--CEEEEEECHHHHCCCCCCCCCEEE--------E Q ss_conf 6666866-------371-03120146998999999999755---9--869999800341046888765899--------8 Q gi|254780945|r 507 FNSLHEH-------FTS-SIAIIHGRMSDIDKESVMDSFKN---G--TCKLLIATTVIEVGIDVVDASIII--------I 565 (700) Q Consensus 507 ~~~l~~~-------~~~-~v~~lHGkm~~~ek~~~m~~F~~---g--~~~iLvaTtviEVGvdvpna~~mv--------I 565 (700) ++.+... .+. +|-=|| +.++..+.+.--. | .-++.|||.+-|--+.++..-..| | T Consensus 270 C~~i~re~~~L~~~~g~l~v~PLy----P~~qq~iFep~p~~~~~~~~RKvVvstniaetsltidgiv~VIDpGf~kqkV 345 (699) T KOG0925 270 CRKISREVDNLGPQVGPLKVVPLY----PAQQQRIFEPAPEKRNGAYGRKVVVSTNIAETSLTIDGIVFVIDPGFSKQKV 345 (699) T ss_pred HHHHHHHHHHHCCCCCCCEEEECC----CHHHCCCCCCCCCCCCCCCCCEEEEEECCHHEEEEECCEEEEECCCHHHHCC T ss_conf 999999887525156883688458----1564365678984547876654999814034057506479996676013003 Q ss_pred ECH----HH-----CCHHHHHHHHHCCCCCCCCEEEEEEECCC Q ss_conf 585----25-----47468877301166789835999970888 Q gi|254780945|r 566 ENA----EH-----FGLAQLHQLRGRVGRGEEISSCILLYHPP 599 (700) Q Consensus 566 ~~a----er-----fGLsqLHQLRGRVGRg~~~s~c~l~~~~~ 599 (700) +|+ |- ..=||-+|=+||-|| ..+|.||-+|..+ T Consensus 346 YNPRIRvesllv~PISkasA~qR~gragr-t~pGkcfrLYte~ 387 (699) T KOG0925 346 YNPRIRVESLLVSPISKASAQQRAGRAGR-TRPGKCFRLYTEE 387 (699) T ss_pred CCCCEEEEEEEECCCHHHHHHHHHHHCCC-CCCCCEEEEECHH T ss_conf 47520331013061167679987543078-9998368850077 No 150 >PRK07374 dnaE DNA polymerase III subunit alpha; Validated Probab=97.57 E-value=0.0014 Score=47.56 Aligned_cols=81 Identities=19% Similarity=0.220 Sum_probs=57.2 Q ss_pred HHHHHHCCCC--EECCCCCCCHHHH-HHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHH---- Q ss_conf 6668663710--3120146998999-99999975598699998003410468887658998585254746887730---- Q gi|254780945|r 508 NSLHEHFTSS--IAIIHGRMSDIDK-ESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLR---- 580 (700) Q Consensus 508 ~~l~~~~~~~--v~~lHGkm~~~ek-~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLR---- 580 (700) .+||.+||.. .+++...|...+| ...+.+-++-.+.| .-+-||-.++...+-.++=||||+...-+. T Consensus 775 AyLK~hyP~eF~aalL~~~~~~~~k~~~~i~ea~~~gi~v------lpPdIN~S~~~f~~~~~~I~~gl~~Ikgvg~~~~ 848 (1171) T PRK07374 775 AYLKAHYPVAYMAALLTVNAGSSDKVQRYISNCNSMGIEV------MPPDINASGIDFTPKGNRILFGLSAVKNLGDGAI 848 (1171) T ss_pred HHHHHCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHCCCCE------ECCCEEEECCCEEECCCCEEHHHHHHCCCCHHHH T ss_conf 9999778999999985058899747999999999879916------2883322178216759822146567437339999 Q ss_pred -----HCCCCCCCCEEEEE Q ss_conf -----11667898359999 Q gi|254780945|r 581 -----GRVGRGEEISSCIL 594 (700) Q Consensus 581 -----GRVGRg~~~s~c~l 594 (700) .|--.|.-.|..-| T Consensus 849 ~~Iv~~R~~~Gpf~sl~Df 867 (1171) T PRK07374 849 RNLIASRDSDGPFKSLADL 867 (1171) T ss_pred HHHHHHHHHCCCCCCHHHH T ss_conf 9999999858597989999 No 151 >TIGR00580 mfd transcription-repair coupling factor; InterPro: IPR004576 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 transcribed 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. A lesion in the template strand blocks the RNA polymerase complex (RNAP). The RNAP-DNA-RNA complex is specifically recognised by TcrF, which releases RNAP and the truncated transcript. The TcrF may replace RNAP at the lesion site and then recruit the UvrA/B/C repair system.; GO: 0003684 damaged DNA binding, 0005524 ATP binding, 0006281 DNA repair. Probab=97.56 E-value=0.00051 Score=51.09 Aligned_cols=117 Identities=21% Similarity=0.437 Sum_probs=98.9 Q ss_pred HHHHHHHHHHHCCC----CEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCC---CEECCCCCCCHHHHHHHHHHHHCCC Q ss_conf 26899997631038----7389997120122111210146666666866371---0312014699899999999975598 Q gi|254780945|r 469 DEVIERLKVVLSEG----KKAYWICPQIEEKKESNFRSVVERFNSLHEHFTS---SIAIIHGRMSDIDKESVMDSFKNGT 541 (700) Q Consensus 469 ~~~~~~i~~~l~~g----~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~---~v~~lHGkm~~~ek~~~m~~F~~g~ 541 (700) +-++.++=+.+..| -||-|+.|. .-=|.+=|+.+++.|.+ +|++|-+=-++.|+.+++++-++|+ T Consensus 544 EVAmRAaFkAv~~gneylKQVavLVPT--------T~LA~QHf~tf~~RF~~fPv~I~~LSRF~~~~E~~~iL~~la~G~ 615 (997) T TIGR00580 544 EVAMRAAFKAVLDGNEYLKQVAVLVPT--------TILAQQHFETFKERFANFPVTIELLSRFRSAKEKKEILKELASGK 615 (997) T ss_pred HHHHHHHHHHHCCCCCEECEEEEECCH--------HHHHHHHHHHHHHHHCCCCEEEEECCCCCCCHHHHHHHHHHHCCC T ss_conf 888878887633878220116896270--------442777889999973789816875277567378999999975594 Q ss_pred EEEEEECH-HHHCCCCCCCCCEEEEECHHHCCHHH---HHHHHHCCCCCCCCEEEEEEECCCC Q ss_conf 69999800-34104688876589985852547468---8773011667898359999708889 Q gi|254780945|r 542 CKLLIATT-VIEVGIDVVDASIIIIENAEHFGLAQ---LHQLRGRVGRGEEISSCILLYHPPL 600 (700) Q Consensus 542 ~~iLvaTt-viEVGvdvpna~~mvI~~aerfGLsq---LHQLRGRVGRg~~~s~c~l~~~~~~ 600 (700) +||||.|- ++--.|-..|--+|||.-=.|||..| |=|||--| -|.=|+-.|+ T Consensus 616 iDI~IGTH~lL~k~v~FKdLGLlIiDEEQRFGV~~KE~lK~~~~~V-------DvLtlsATPI 671 (997) T TIGR00580 616 IDILIGTHKLLQKDVKFKDLGLLIIDEEQRFGVKQKEKLKELKTSV-------DVLTLSATPI 671 (997) T ss_pred EEEEECCHHHHCCCEEEECCCCEEEECCCCCCCCHHHHHCCCCCCC-------CEEEEECCCC T ss_conf 2266301041278546863864698314348831155530015676-------5676337896 No 152 >PRK07892 consensus Probab=97.50 E-value=0.003 Score=45.03 Aligned_cols=83 Identities=14% Similarity=0.234 Sum_probs=55.2 Q ss_pred HHHHHHCCCC--EECCCCCCCHHHHHH-HHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHH---- Q ss_conf 6668663710--312014699899999-999975598699998003410468887658998585254746887730---- Q gi|254780945|r 508 NSLHEHFTSS--IAIIHGRMSDIDKES-VMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLR---- 580 (700) Q Consensus 508 ~~l~~~~~~~--v~~lHGkm~~~ek~~-~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLR---- 580 (700) .+||.+||.. .++|...+.+.+|-. .+.+-+.-.+.|| -.-||-..+...+..++=||||+...-+. T Consensus 794 AyLK~hyP~ef~aa~l~~~~~~~~k~~~~~~e~~~~gi~vl------pPdIN~S~~~f~~~~~~Ir~gL~~Ikgvg~~~~ 867 (1180) T PRK07892 794 AYLKANYPAEYMAALLTSVGDDKDKSAVYLAECRRMGITVL------PPDVNESSLNFTAVGDDIRFGLGAVRNVGANVV 867 (1180) T ss_pred HHHHHCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCEE------CCCCCCCCCCCEECCCEEEECCCCCCCCCHHHH T ss_conf 99865789999999985486731689999999998799073------687544677655269804706620378888899 Q ss_pred -----HCCCCCCCCEEEEEEE Q ss_conf -----1166789835999970 Q gi|254780945|r 581 -----GRVGRGEEISSCILLY 596 (700) Q Consensus 581 -----GRVGRg~~~s~c~l~~ 596 (700) .|--.|.-.|.--|+. T Consensus 868 ~~Ii~~R~~~G~f~s~~Df~~ 888 (1180) T PRK07892 868 DSIIAAREEKGKFTDFSDFLD 888 (1180) T ss_pred HHHHHHHHHCCCCCCHHHHHH T ss_conf 999999985799998899998 No 153 >PRK06826 dnaE DNA polymerase III DnaE; Reviewed Probab=97.50 E-value=0.0072 Score=42.09 Aligned_cols=82 Identities=18% Similarity=0.229 Sum_probs=57.2 Q ss_pred HHHHHHCCCC--EECCCCCCCHHHH-HHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCC- Q ss_conf 6668663710--3120146998999-99999975598699998003410468887658998585254746887730116- Q gi|254780945|r 508 NSLHEHFTSS--IAIIHGRMSDIDK-ESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRV- 583 (700) Q Consensus 508 ~~l~~~~~~~--v~~lHGkm~~~ek-~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRGRV- 583 (700) .+||.+||.. .++|..-+.+.+| ...+.+-+.-.+.|| -.-|+-.++..-+-.++=||||+....+...+ T Consensus 769 AylK~hyP~ef~aa~l~~~~~~~~k~~~~~~e~~~~gi~vl------pPdIn~S~~~f~~~~~~Ir~gl~~Ikgvg~~~~ 842 (1157) T PRK06826 769 AYLKRYYPVEFMAALLNSVMGNSDKVAFYIEECKRLGIEVL------PPDINESYSKFTVKGNKIRFGLAAVKNVGENAI 842 (1157) T ss_pred HHHHHCCHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCEEE------CCEECCCCCCEEEECCEEEEHHHHHCCCCHHHH T ss_conf 99986287999999865436895068999999998799597------973311388138879978875566268888899 Q ss_pred --------CCCCCCEEEEEE Q ss_conf --------678983599997 Q gi|254780945|r 584 --------GRGEEISSCILL 595 (700) Q Consensus 584 --------GRg~~~s~c~l~ 595 (700) -+|.-.|.-=|+ T Consensus 843 ~~I~~~R~~~G~f~s~~Df~ 862 (1157) T PRK06826 843 DNIVKAREKKGKFTSLVDFC 862 (1157) T ss_pred HHHHHHHHHCCCCCCHHHHH T ss_conf 99999998779999989999 No 154 >PRK05673 dnaE DNA polymerase III subunit alpha; Validated Probab=97.44 E-value=0.0072 Score=42.09 Aligned_cols=67 Identities=16% Similarity=0.320 Sum_probs=48.2 Q ss_pred HHHHHHCCCC--EECCCCCCCHHHH-HHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHH Q ss_conf 6668663710--3120146998999-99999975598699998003410468887658998585254746887730 Q gi|254780945|r 508 NSLHEHFTSS--IAIIHGRMSDIDK-ESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLR 580 (700) Q Consensus 508 ~~l~~~~~~~--v~~lHGkm~~~ek-~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLR 580 (700) .+||.+||.. .++|...+...+| ...+.+-+.-.+.|| -+-|+-..+..-+-.++=||||+..--+. T Consensus 763 AyLKahyP~eF~aalL~~~~~~~~k~~~~i~ea~~~gi~vl------ppdin~S~~~f~~~~~~Ir~gL~~Ikgvg 832 (1143) T PRK05673 763 AYLKAHYPAEFMAALLTSDMDNTDKVAVYLDECRRMGIKVL------PPDVNESLYRFTVVGGDIRYGLGAIKGVG 832 (1143) T ss_pred HHHHHCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCEE------CCEECCCCCCCEECCCEEEEHHHHHCCCC T ss_conf 99856586999999974077884679999999998799175------87431356873653998987167506787 No 155 >PRK05672 dnaE2 error-prone DNA polymerase; Validated Probab=97.40 E-value=0.0036 Score=44.48 Aligned_cols=106 Identities=15% Similarity=0.128 Sum_probs=55.0 Q ss_pred HHHHHHCCCC--EECC-CCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEE-----ECHHHCCHHHHHHH Q ss_conf 6668663710--3120-14699899999999975598699998003410468887658998-----58525474688773 Q gi|254780945|r 508 NSLHEHFTSS--IAII-HGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIII-----ENAEHFGLAQLHQL 579 (700) Q Consensus 508 ~~l~~~~~~~--v~~l-HGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI-----~~aerfGLsqLHQL 579 (700) .+||.+||.. .++| +..|.....+..+++-+.-.+.||- +-|+-..+..-+- .++=||||+...-+ T Consensus 751 AylK~hyP~ef~aalL~~~~~~~~~~~~~~~e~~~~gi~vlp------pdin~S~~~~~~~~~~~~~~~ir~gl~~ikg~ 824 (1050) T PRK05672 751 SWLKCHHPAAFCAALLNSQPMGFYSPQQLVQDARRHGVEVLP------VDVNASGWDATLEPRPGGGPAVRLGLRLVRGL 824 (1050) T ss_pred HHHHHCCHHHHHHHHHCCCCCCCCCHHHHHHHHHHCCCCEEC------CEEECCCCCCEEEECCCCCCEEEEHHHHHCCC T ss_conf 999873999999998567876776689999999985992618------74202577535631478886487457875557 Q ss_pred HHCC--------CCCCCCEEEEEEECCCCCHHHHHHHHHHHHHCHHHHH Q ss_conf 0116--------6789835999970888998799999999841425899 Q gi|254780945|r 580 RGRV--------GRGEEISSCILLYHPPLSKNSYTRLSVLKNTEDGFLI 620 (700) Q Consensus 580 RGRV--------GRg~~~s~c~l~~~~~~~~~~~~Rl~~l~~~~dGf~i 620 (700) +..+ ..|.-.|.-=++....++....+.|- .+-.-|+|.. T Consensus 825 g~~~~~~I~~~R~~g~f~s~~Df~~R~~~~~~~~e~Li-~aGafD~~g~ 872 (1050) T PRK05672 825 GEEAAERIVAARARGPFTSVEDLARRAGLDRRALEALA-DAGALRSLGG 872 (1050) T ss_pred HHHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHH-HCCCCCCCCC T ss_conf 09999999999716999999999988589999999998-6798400160 No 156 >PRK06658 consensus Probab=97.31 E-value=0.0061 Score=42.66 Aligned_cols=127 Identities=13% Similarity=0.126 Sum_probs=75.1 Q ss_pred HHHHHHCCC--CEECCCCCCCHHHH-HHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHH--- Q ss_conf 666866371--03120146998999-999999755986999980034104688876589985852547468877301--- Q gi|254780945|r 508 NSLHEHFTS--SIAIIHGRMSDIDK-ESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRG--- 581 (700) Q Consensus 508 ~~l~~~~~~--~v~~lHGkm~~~ek-~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRG--- 581 (700) .+||.+||. -.++|...+...+| ...+.+-+.-.+.| .-.-|+-.+...-|-.++=||||+...-+.. T Consensus 762 AyLK~hyP~ef~aa~l~~~~~~~~k~~~~~~e~~~~gi~v------lppdIn~S~~~f~~~~~~Ir~gl~~Ikgvg~~~~ 835 (1145) T PRK06658 762 AYLKANFPAEFMAANLTNEINSNDKLPYYIAEAEKMGLNI------LKPDVNRSFPYFSVTDGGISYGLLGIKGLGEQVA 835 (1145) T ss_pred HHHHHCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHCCCCC------CCCEEECCCCCCEECCCCCEEHHHHCCCCCHHHH T ss_conf 9970567999999985058898657999999999859946------3872221688636628954233344578778999 Q ss_pred ------CCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHC--HHHHH---------------HHHHH--HHCCCCCCCCC Q ss_conf ------1667898359999708889987999999998414--25899---------------99998--52063000260 Q gi|254780945|r 582 ------RVGRGEEISSCILLYHPPLSKNSYTRLSVLKNTE--DGFLI---------------AEEDL--KQRKEGEILGI 636 (700) Q Consensus 582 ------RVGRg~~~s~c~l~~~~~~~~~~~~Rl~~l~~~~--dGf~i---------------Ae~Dl--~lRG~G~~~G~ 636 (700) |--.|.-.|+-=++..-......++-++.|...- |+|.. |+..- +..|.+++|+. T Consensus 836 ~~Iv~~R~~~G~f~s~~Df~~Rv~~~~~nk~~le~Li~aGAfD~~g~~R~~ll~~~~~~~~~~~~~~~~~~~gq~~Lf~~ 915 (1145) T PRK06658 836 DLIIDEREKNGKYSSFEDFLRRVDDKVINKKNLESMIKSGCFDSLGQNRKTLFENLDRAIEYVSEKKNNKSLGQNSLFDV 915 (1145) T ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCC T ss_conf 99999999818999889999872110379999999997797233303599999819999999999736654578777677 Q ss_pred HHCC Q ss_conf 0069 Q gi|254780945|r 637 KQSG 640 (700) Q Consensus 637 ~QsG 640 (700) ..++ T Consensus 916 ~~~~ 919 (1145) T PRK06658 916 LESQ 919 (1145) T ss_pred CCCC T ss_conf 6655 No 157 >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=97.28 E-value=0.0046 Score=43.58 Aligned_cols=165 Identities=18% Similarity=0.205 Sum_probs=98.6 Q ss_pred HHHHHHHHHHHC-CCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCC-HHHHHHHHHHHHCCCEEEEE Q ss_conf 268999976310-3873899971201221112101466666668663710312014699-89999999997559869999 Q gi|254780945|r 469 DEVIERLKVVLS-EGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMS-DIDKESVMDSFKNGTCKLLI 546 (700) Q Consensus 469 ~~~~~~i~~~l~-~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~-~~ek~~~m~~F~~g~~~iLv 546 (700) +++.+.+.+-+. .++.+++.|.- .+.+.+.++.++...+..+-+-++... +.-+++-++.|.+++-.||. T Consensus 456 ~~l~~~l~~li~~~~Gr~LvLFTS--------~r~~~~~ae~l~~~l~~~~l~Qge~~~~~~l~~~~~~~f~~~~~svLf 527 (636) T TIGR03117 456 ENVSLSTAAILRKAQGGTLVLTTA--------FSHISAIGQLVELGIPAEIVIQSEKNRLASAEQQFLALYANGIQPVLI 527 (636) T ss_pred HHHHHHHHHHHHHCCCCEEEEECC--------HHHHHHHHHHHHHCCCCCEEEECCCCCHHHHHHHHHHHHHCCCCCEEE T ss_conf 999999999998707988997040--------999999999997227886587457640356899999987278996898 Q ss_pred ECHHHHCCCCCCCCCE---------EEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHCHH Q ss_conf 8003410468887658---------9985852547468877301166789835999970888998799999999841425 Q gi|254780945|r 547 ATTVIEVGIDVVDASI---------IIIENAEHFGLAQLHQLRGRVGRGEEISSCILLYHPPLSKNSYTRLSVLKNTEDG 617 (700) Q Consensus 547 aTtviEVGvdvpna~~---------mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~~~~~~~~~~Rl~~l~~~~dG 617 (700) +|.=-==|||||..++ .||..-==|++- .+..-..|.+ ...-+. T Consensus 528 GT~SfWEGVDvpG~~~~~~~Gd~Ls~VII~rLPF~~p-------------------------~~p~~~~r~~--~~~g~~ 580 (636) T TIGR03117 528 AAGGAWTGIDLTHKPVSPDKDNLLTDLIITCAPFGLN-------------------------RSLSMLKRIR--KTSVRP 580 (636) T ss_pred ECCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCC-------------------------CCHHHHHHHH--HCCCCH T ss_conf 6776406625788666788777420665756998999-------------------------8789999997--149987 Q ss_pred HH-HHHHHHHHC-CCCCCCCCH-HCCCCCCCCCCHHHHHHHHHHHHHHHHHHHH Q ss_conf 89-999998520-630002600-0698744000388759999999999999998 Q gi|254780945|r 618 FL-IAEEDLKQR-KEGEILGIK-QSGMPKFLIAQPELHDSLLEIARKDAKHILT 668 (700) Q Consensus 618 f~-iAe~Dl~lR-G~G~~~G~~-QsG~~~~~~~d~~~d~~ll~~a~~~a~~~~~ 668 (700) |. +.|.=+++| |.|=++-+. ++..-..-+.|..-+..-++--.+-.+.|+. T Consensus 581 ~~~vp~A~i~lkQG~GRLIRs~d~~D~G~vaiLD~RI~~~~~~~~~~~~~~~~~ 634 (636) T TIGR03117 581 WEIINESLMMLRQGLGRLVRHPDMPQNRRIHMLDGRIHWPYMESWQESVKTILD 634 (636) T ss_pred HHHHHHHHHHHHHHCCCEECCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHCC T ss_conf 777999999997745730314778896589996475532443146677998604 No 158 >PRK09401 reverse gyrase; Reviewed Probab=97.28 E-value=0.00075 Score=49.79 Aligned_cols=106 Identities=20% Similarity=0.377 Sum_probs=66.3 Q ss_pred CCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHH Q ss_conf 75789999863024679889999999998410013430788621442236999999733444305458861279999999 Q gi|254780945|r 258 EGKIAQKILRNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQH 337 (700) Q Consensus 258 ~~~~~~~f~~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH 337 (700) .+.....|..-|.|+.-..+. ++.-|. |+--. ..|+- .+++-++-- =|--+.+.+|++- -..- T Consensus 280 rg~r~~lfreLlgFevg~~~~-~lRni~-D~y~~-------~~~~~--~~~~e~v~~-----lG~GgLifv~~~~-g~e~ 342 (1176) T PRK09401 280 RGIRIKLFRELLGFEVGRPRF-YLRNIV-DVYIE-------PEDLV--EKLVELVKR-----LGDGGLVFVPTDY-GKEY 342 (1176) T ss_pred CCCHHHHHHHHHCCCCCCCCC-CEEEEE-EEECC-------CCCHH--HHHHHHHHH-----HCCCEEEEEECCC-CHHH T ss_conf 885389999982986788642-302125-77605-------76688--999999998-----4895499976765-8899 Q ss_pred HHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHH Q ss_conf 986211014578658996246422566768776213475486411120 Q gi|254780945|r 338 YEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHAL 385 (700) Q Consensus 338 ~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL 385 (700) .+.+.+++...|+++++.++. +++.+++.+.|+++++||..+- T Consensus 343 ~~~~~~~l~~~g~~a~~~~~~-----~~~~le~f~~Ge~dvLvG~asy 385 (1176) T PRK09401 343 AEELKEYLESHGIKAEAYSGR-----KKEFLEKFEEGEIDVLIGVASY 385 (1176) T ss_pred HHHHHHHHHHCCCEEEEEECC-----CHHHHHHHHCCCCCEEEEECCC T ss_conf 999999999769669996058-----8668889757886489997012 No 159 >KOG1803 consensus Probab=97.24 E-value=0.022 Score=38.30 Aligned_cols=68 Identities=21% Similarity=0.300 Sum_probs=54.7 Q ss_pred HHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHH Q ss_conf 9999863024679889999999998410013430788621442236999999733444305458861279999 Q gi|254780945|r 262 AQKILRNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILA 334 (700) Q Consensus 262 ~~~f~~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA 334 (700) ...-+.-+|+.|-.+|++|+.- -++...+| ++||-=|.|||-.-..-+.+++..|.|+.+.|||-+=- T Consensus 175 ~~~~~~~~~~~ln~SQk~Av~~---~~~~k~l~--~I~GPPGTGKT~TlvEiI~qlvk~~k~VLVcaPSn~AV 242 (649) T KOG1803 175 EIKKITFFNKNLNSSQKAAVSF---AINNKDLL--IIHGPPGTGKTRTLVEIISQLVKQKKRVLVCAPSNVAV 242 (649) T ss_pred HHCCCCCCCCCCCHHHHHHHHH---HHCCCCCE--EEECCCCCCCEEEHHHHHHHHHHCCCEEEEECCCHHHH T ss_conf 4400136774323779999999---73568835--75579988840439999999997288599976736789 No 160 >COG1110 Reverse gyrase [DNA replication, recombination, and repair] Probab=97.20 E-value=0.0012 Score=48.12 Aligned_cols=370 Identities=20% Similarity=0.301 Sum_probs=171.5 Q ss_pred CCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHH Q ss_conf 75789999863024679889999999998410013430788621442236999999733444305458861279999999 Q gi|254780945|r 258 EGKIAQKILRNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQH 337 (700) Q Consensus 258 ~~~~~~~f~~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH 337 (700) -+.....|..-|.|+.-.++.-.= .|.. ..-.. .|=-+++.++-. -|.-+.+.+|++- ..+- T Consensus 289 rg~R~~LfReLlgFevG~~~~~LR-NIvD-~y~~~----------~~~e~~~elvk~-----lG~GgLIfV~~d~-G~e~ 350 (1187) T COG1110 289 RGSRLKLFRELLGFEVGSGGEGLR-NIVD-IYVES----------ESLEKVVELVKK-----LGDGGLIFVPIDY-GREK 350 (1187) T ss_pred CCCHHHHHHHHHCCCCCCCCHHHH-HEEE-EECCC----------CCHHHHHHHHHH-----HCCCEEEEEECHH-HHHH T ss_conf 774388999983985676403130-0044-20368----------637889999998-----4897499997177-3899 Q ss_pred HHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEEECCCCC------CCHH-H Q ss_conf 98621101457865899624642256676877621347548641112013345544441788521013------3568-8 Q gi|254780945|r 338 YEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKLILVIVDEQHR------FGVQ-Q 410 (700) Q Consensus 338 ~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvViDEQHR------FGV~-Q 410 (700) .+.+.+++...|+++++.++ ++++.++..+.|+++++||..+-..-=| ==+|.-|| .||- + T Consensus 351 aeel~e~Lr~~Gi~a~~~~a-----~~~~~le~F~~GeidvLVGvAsyYG~lV-------RGlDLP~rirYaIF~GvPk~ 418 (1187) T COG1110 351 AEELAEYLRSHGINAELIHA-----EKEEALEDFEEGEVDVLVGVASYYGVLV-------RGLDLPHRIRYAVFYGVPKF 418 (1187) T ss_pred HHHHHHHHHHCCCEEEEEEC-----CCHHHHHHHCCCCEEEEEEECCCCCCEE-------ECCCCHHHEEEEEEECCCCE T ss_conf 99999999866960798623-----2022456650676017998502134302-------24774345457899558740 Q ss_pred HHHHHHCCCC--CCCEEECHHHHHHHHHHHHHHCC----------------CHHHHCCCCCCCCCCEEEEEECCCHHHHH Q ss_conf 9987402567--76101010132278999975201----------------01111023557666207999702002689 Q gi|254780945|r 411 RLKLTQKATA--PHVLLMTATPIPRTLVLTSLGDI----------------DISKITEKPAGRKPIKTVIIPINRIDEVI 472 (700) Q Consensus 411 R~~L~~Kg~~--ph~L~MtATPIPRTLal~~ygdl----------------dvS~i~e~P~gR~~I~T~~~~~~~~~~~~ 472 (700) |..|..--.+ -++.+||+-+ |+-.+.-..+.+ ....+..-| .|.-+.+ +.....+ T Consensus 419 rf~l~~~~~~~~~~l~~ls~~~-~~~~~~~~~~~~~rl~~~ir~~~~~~l~~~~~l~~~~----~~~~~~~--e~v~~~~ 491 (1187) T COG1110 419 RFRLTLEESDPKRLLYLLSALS-DREARSRLEGLAGRLRRIIRRLSPYSLLKLMKLKKRP----DVDRHLA--EEVRTLA 491 (1187) T ss_pred EEECCCCCCCHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHCC----CCCHHHH--HHHHHHH T ss_conf 5640412366277898987510-4654246677789999998631598877489886445----7313679--9999999 Q ss_pred HHHHHHHC-------------------CCCEEEEEECCC----CCCCCC--------------CCCHHHHHHHHHHHHCC Q ss_conf 99976310-------------------387389997120----122111--------------21014666666686637 Q gi|254780945|r 473 ERLKVVLS-------------------EGKKAYWICPQI----EEKKES--------------NFRSVVERFNSLHEHFT 515 (700) Q Consensus 473 ~~i~~~l~-------------------~g~q~y~VcPlI----eese~~--------------~~~~~~~~~~~l~~~~~ 515 (700) +++++.+. .|.- |++.|=. ..|... =+-+..+.++.|.+..- T Consensus 492 ~~~~e~L~~e~~~k~i~e~~~~vl~~~eg~~-yi~vPD~~TYIQaSGRtSRLyaGglTkGlSvvlvdd~~~f~~L~krm~ 570 (1187) T COG1110 492 EFVRELLKDEERVKKIAESADLVLVYEEGEL-YLEVPDVRTYIQASGRTSRLYAGGLTKGLSVVLVDDPEVFEGLIKRMS 570 (1187) T ss_pred HHHHHHHHHHHHHHHHHHCCCEEEEECCCCE-EEEECCHHHHEECCCHHHHHHCCCCCCCEEEEEECCHHHHHHHHHHHH T ss_conf 9999998778899865404736999427835-999557466310266176654266346228999568899999999998 Q ss_pred ---CCEECCCCCCCHHHHHH----------HHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHH-------HCCHHH Q ss_conf ---10312014699899999----------9999755986999980034104688876589985852-------547468 Q gi|254780945|r 516 ---SSIAIIHGRMSDIDKES----------VMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAE-------HFGLAQ 575 (700) Q Consensus 516 ---~~v~~lHGkm~~~ek~~----------~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~ae-------rfGLsq 575 (700) ..+..- +++..+-++ -..+-..|+. +|-+.|.-.-++||||.+. -||=.+ T Consensus 571 ~~~~e~e~k--~l~evdL~el~reIdEdR~~~r~~~~g~~--------~~~~~dlvkt~L~IVESPnKARTIA~FFgrPS 640 (1187) T COG1110 571 WKFIEIEFK--EISEVDLEELLREIDEDRERVRRVLEGKL--------KEETKDLVKTALMIVESPNKARTIASFFGRPS 640 (1187) T ss_pred HHHCCCCEE--ECCCCCHHHHHHHHHHHHHHHHHHHHCCC--------HHHHHHHHHCEEEEEECCHHHHHHHHHHCCCC T ss_conf 751234230--52114799999997766899988872431--------12333211015899967718889999848962 Q ss_pred HHHHHHCCCCCCCCEEEEEEECCCCC-------HHHHHHHHHHHHHCHHHHHHHHHHH--HCCCCCCCCCHHCCCCCCCC Q ss_conf 87730116678983599997088899-------8799999999841425899999985--20630002600069874400 Q gi|254780945|r 576 LHQLRGRVGRGEEISSCILLYHPPLS-------KNSYTRLSVLKNTEDGFLIAEEDLK--QRKEGEILGIKQSGMPKFLI 646 (700) Q Consensus 576 LHQLRGRVGRg~~~s~c~l~~~~~~~-------~~~~~Rl~~l~~~~dGf~iAe~Dl~--lRG~G~~~G~~QsG~~~~~~ 646 (700) .--+.|.|-=-.--|--+|+.-+..+ +...-- +--.||=++.-.|.- -|.-|..+-..|-=.|.-.= T Consensus 641 ~R~~~~~~vYEv~~gD~vL~ItAS~GHv~DLvt~~g~hG----vl~~~~~~vPvY~tIKrC~dcg~q~~~~~~~cP~Cgs 716 (1187) T COG1110 641 VRRLGGGVVYEVAIGDLVLTITASGGHVFDLVTEPGVHG----VLVKDGKYVPVYDTIKRCRDCGEQFVDSEDKCPRCGS 716 (1187) T ss_pred EEEECCEEEEEEECCCEEEEEEECCCEEEEEECCCCCCE----EECCCCCEEEHHHHHHHHHHCCCEECCCCCCCCCCCC T ss_conf 355479068999618758999953871688631465210----5605870686278888885158440443235988788 Q ss_pred CCHHHHHHHHHHHHHHHHH----HHHHCCCCCCCCCH Q ss_conf 0388759999999999999----99848463665564 Q gi|254780945|r 647 AQPELHDSLLEIARKDAKH----ILTQDPDLTSVRGQ 679 (700) Q Consensus 647 ~d~~~d~~ll~~a~~~a~~----~~~~d~~l~~~~~~ 679 (700) .+...-.+.++.-|+.|.+ ++..||+-+.++-. T Consensus 717 ~~v~d~~~~ve~lRelA~EvDeVlIgTDPDtEGEKIa 753 (1187) T COG1110 717 RNVEDKTETVEALRELALEVDEILIGTDPDTEGEKIA 753 (1187) T ss_pred CCCCCCHHHHHHHHHHHHHCCEEEECCCCCCCCCHHH T ss_conf 3202407799999998865277998179987644257 No 161 >pfam09848 DUF2075 Uncharacterized conserved protein (DUF2075). This domain, found in various prokaryotic proteins (including putative ATP/GTP binding proteins), has no known function. Probab=97.20 E-value=0.0013 Score=47.83 Aligned_cols=85 Identities=26% Similarity=0.305 Sum_probs=50.7 Q ss_pred EEEEECCCCCHHHHHHHHHHHHH--HHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCC Q ss_conf 78862144223699999973344--4305458861279999999986211014578658996246422566768776213 Q gi|254780945|r 296 RILQGDVGSGKTLVALIAMAAAV--EAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAH 373 (700) Q Consensus 296 RLLQGDVGSGKTiVA~~A~l~~~--~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~ 373 (700) -+++|+=|||||+||+-.+.... ..++.+.++.+.-=|..--++.+..-.+.. T Consensus 4 ~~V~G~pGtGKTvv~l~l~~~l~~~~~~~~~~~l~~N~~~~~~l~~~l~~~~~~~------------------------- 58 (348) T pfam09848 4 FLVTGGPGTGKTVVALNLFAELSDSDLGRTAVFLSGNHPLVLVLYEALAGDLKVR------------------------- 58 (348) T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCCCCEEEEECCHHHHHHHHHHHHHHCCHH------------------------- T ss_conf 9997779938999999999998644026820899578669999999986041200------------------------- Q ss_pred CCCEEEEECHHHCCC-CCCCCCCCEEEECCCCCC Q ss_conf 475486411120133-455444417885210133 Q gi|254780945|r 374 GQAHIIIGTHALFQD-SIQYYKLILVIVDEQHRF 406 (700) Q Consensus 374 G~~~iiIGTHAL~q~-~v~F~~LgLvViDEQHRF 406 (700) ...++.+..+.+|. +-...+.-++|+||=||- T Consensus 59 -~~~~~~~~~~fi~~~~~~~~~~dvvivDEAhRl 91 (348) T pfam09848 59 -KKKLFRKPTSFINNLHKAPPHEDVVIVDEAHRL 91 (348) T ss_pred -HCCCCCCCHHHHCCCCCCCCCCCEEEEEHHHHH T ss_conf -102000725231652357986778998317866 No 162 >COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair] Probab=97.19 E-value=0.0021 Score=46.24 Aligned_cols=111 Identities=21% Similarity=0.272 Sum_probs=65.5 Q ss_pred HHHHHHHHHHHHHCCCCCCEEEEEECCCCHHH--HHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEEE---CCC--- Q ss_conf 99999998621101457865899624642256--6768776213475486411120133455444417885---210--- Q gi|254780945|r 332 ILAQQHYEFIKKYTQNTQIIVEIITGNMPQAH--RRKALERIAHGQAHIIIGTHALFQDSIQYYKLILVIV---DEQ--- 403 (700) Q Consensus 332 ILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~e--r~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvVi---DEQ--- 403 (700) +=+++-.+.++++|++. ++.-+.+.++... -+.++..+..|+++|+|||.-+ .++..|.|++||.| |.= T Consensus 491 ~GterieeeL~~~FP~~--rv~r~d~Dtt~~k~~~~~~l~~~~~ge~dILiGTQmi-aKG~~fp~vtLVgvl~aD~~L~~ 567 (730) T COG1198 491 PGTERIEEELKRLFPGA--RIIRIDSDTTRRKGALEDLLDQFANGEADILIGTQMI-AKGHDFPNVTLVGVLDADTGLGS 567 (730) T ss_pred CCHHHHHHHHHHHCCCC--CEEEECCCCCCCHHHHHHHHHHHHCCCCCEEECCHHH-HCCCCCCCCEEEEEEECHHHHCC T ss_conf 61999999999878999--4799846666643568999999757998866341666-42788666318999963143158 Q ss_pred CCCCHHHH--------HHHHHCC-CCCCCEEECHHHHHHHHHHHHHHCCCH Q ss_conf 13356889--------9874025-677610101013227899997520101 Q gi|254780945|r 404 HRFGVQQR--------LKLTQKA-TAPHVLLMTATPIPRTLVLTSLGDIDI 445 (700) Q Consensus 404 HRFGV~QR--------~~L~~Kg-~~ph~L~MtATPIPRTLal~~ygdldv 445 (700) .-|=-.-| .....-+ ....+++=|+.|===++.....+|.+- T Consensus 568 ~DfRAsEr~fqll~QvaGRAgR~~~~G~VvIQT~~P~hp~i~~~~~~dy~~ 618 (730) T COG1198 568 PDFRASERTFQLLMQVAGRAGRAGKPGEVVIQTYNPDHPAIQALKRGDYEA 618 (730) T ss_pred CCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEECCCCCHHHHHHHHCCHHH T ss_conf 884357899999999975532678898699996799857999998669999 No 163 >PRK09074 consensus Probab=97.19 E-value=0.0076 Score=41.88 Aligned_cols=134 Identities=13% Similarity=0.158 Sum_probs=75.3 Q ss_pred HHHHHHCCCC--EECCCCCCCHHHH-HHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHH----- Q ss_conf 6668663710--3120146998999-9999997559869999800341046888765899858525474688773----- Q gi|254780945|r 508 NSLHEHFTSS--IAIIHGRMSDIDK-ESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQL----- 579 (700) Q Consensus 508 ~~l~~~~~~~--v~~lHGkm~~~ek-~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQL----- 579 (700) .+||.+||.. .++|...+...+| ...+++-+.-.+.|| -+-|+-.++..-+-.++=||||+..--+ T Consensus 771 AylK~hyP~ef~aall~~~~~~~~k~~~~~~e~~~~gi~vl------ppdin~S~~~f~~~~~~Ir~gl~~ikgvg~~~~ 844 (1149) T PRK09074 771 AYMKANYPVEFLAASMTLDMSNTDKLADFRQEARRLGIEVV------PPSVNRSGATFEVGDGAIYYALAALKGVGEAAM 844 (1149) T ss_pred HHHHHCCHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCCCEE------CCEEECCCCCEEEECCEEEECCHHHCCCCHHHH T ss_conf 99986284999986433376755589999999998798164------864403478337728878874333266888999 Q ss_pred ----HHCCCCCCCCEEEEEEE---CCCCCHHHHH--------------HHHHHHHHCHHHHHHHHHHHH--CCCCCCCCC Q ss_conf ----01166789835999970---8889987999--------------999998414258999999852--063000260 Q gi|254780945|r 580 ----RGRVGRGEEISSCILLY---HPPLSKNSYT--------------RLSVLKNTEDGFLIAEEDLKQ--RKEGEILGI 636 (700) Q Consensus 580 ----RGRVGRg~~~s~c~l~~---~~~~~~~~~~--------------Rl~~l~~~~dGf~iAe~Dl~l--RG~G~~~G~ 636 (700) ..| ..|.-.|.-=|+. ....+....+ |-..+..-.+-+.-|+..-+- .|-.++||. T Consensus 845 ~~Iv~~R-~~g~f~s~~Df~~Rv~~~~~nk~~le~Li~aGAfD~~~~~R~~l~~~~~~~~~~~~~~~~~~~~gq~~LF~~ 923 (1149) T PRK09074 845 DHIVAAR-GDKPFADLADFAARVDPKIVNKRVLESLARAGAFDCLDPNRARVFAGADALLAYAQRAHENAASGQSDLFGG 923 (1149) T ss_pred HHHHHHH-CCCCCCCHHHHHHHHCCCCCCHHHHHHHHHCCCHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCC T ss_conf 9999754-469999999999871503489999999997487322072799999959999999999879875688665577 Q ss_pred HHCCCCCCCCCC Q ss_conf 006987440003 Q gi|254780945|r 637 KQSGMPKFLIAQ 648 (700) Q Consensus 637 ~QsG~~~~~~~d 648 (700) .-...+...+.+ T Consensus 924 ~~~~~~~~~~~~ 935 (1149) T PRK09074 924 AGADAEPLRLPQ 935 (1149) T ss_pred CCCCCCCCCCCC T ss_conf 766656788889 No 164 >PRK06637 consensus Probab=97.17 E-value=0.011 Score=40.60 Aligned_cols=39 Identities=15% Similarity=0.328 Sum_probs=30.2 Q ss_pred HHHHHHCCCC--EECCCCCCCHHHH-HHHHHHHHCCCEEEEE Q ss_conf 6668663710--3120146998999-9999997559869999 Q gi|254780945|r 508 NSLHEHFTSS--IAIIHGRMSDIDK-ESVMDSFKNGTCKLLI 546 (700) Q Consensus 508 ~~l~~~~~~~--v~~lHGkm~~~ek-~~~m~~F~~g~~~iLv 546 (700) .+||.+||.. .++|...|...+| ...+.+-+...+.||- T Consensus 771 AyLKahYP~eF~aAlL~s~~~~~~k~~~~i~ear~~Gi~Vlp 812 (1182) T PRK06637 771 AYLKANYPAEFLVACLNLELNNHDKINLFLQEAKDNGIKIIA 812 (1182) T ss_pred HHHHHHCHHHHHHHHHCCCCCCCHHHHHHHHHHHHCCCEECC T ss_conf 999972899999998516878865799999999987895818 No 165 >PRK06920 dnaE DNA polymerase III DnaE; Reviewed Probab=97.16 E-value=0.0069 Score=42.21 Aligned_cols=68 Identities=15% Similarity=0.194 Sum_probs=52.6 Q ss_pred HHHHHHCCC--CEECCCCCCCHHHH-HHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHH Q ss_conf 666866371--03120146998999-999999755986999980034104688876589985852547468877301 Q gi|254780945|r 508 NSLHEHFTS--SIAIIHGRMSDIDK-ESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRG 581 (700) Q Consensus 508 ~~l~~~~~~--~v~~lHGkm~~~ek-~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRG 581 (700) .+||.+||. -.++|...+...+| ...+.+.+.-.+.|| -.-|+-.+....+-.++=||||+..-.++- T Consensus 742 AyLK~hyP~eF~aalL~~~~~~~~k~~~~i~e~~~~gi~vl------ppdin~S~~~f~~~~~~Ir~gl~~ikgvg~ 812 (1107) T PRK06920 742 AYLKANYPLEFMTALLSSAIGNEDKIVQYIRETKRKGFHVL------PPSLQRSGYNFQIEGNAIRYSLLSIRNIGM 812 (1107) T ss_pred HHHHHCCHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCCC------CCEEEECCCCEEEECCEEEEHHHHHCCCCH T ss_conf 99987575999999976446885679999999998699514------973442388508878906636556456669 No 166 >PRK07211 replication factor A; Reviewed Probab=97.15 E-value=0.0042 Score=43.95 Aligned_cols=91 Identities=11% Similarity=0.190 Sum_probs=70.2 Q ss_pred CCCCCCCHHHCCCCC-EEEEEEEEEEEEEEC-CCC-------CCEEEEEEECCCCEEEEEEECCCHHHHHHHCCCCCEEE Q ss_conf 344446478889987-899999998975421-589-------83389999818936999995188789987328988899 Q gi|254780945|r 54 DRHYRPKISEISEER-IVTITGYISQHSSFQ-LQK-------RRPYKILLNDGTGEITLLFFYRKTEMLKNVFFEGRKIT 124 (700) Q Consensus 54 Dr~~~~~I~~l~~g~-~vti~g~V~~~~~~~-~~~-------r~~~~v~v~D~tg~i~lvfFn~~~~yl~k~lk~G~~v~ 124 (700) ++.....|.++.+|. .|.|.|+|+++...+ |.| .+-..+.+.|+||.|++++|.-...-+...+++|+.+. T Consensus 49 ~~~ev~~I~dI~~~~~~V~F~akV~~v~d~RtF~R~~~dg~~GrV~ni~VaDeTG~IRvtLWDe~A~a~~~~ievGdVLk 128 (473) T PRK07211 49 DDGEVNGVADIEPGMDEVKFLAKVTRVGDLRTFERDDEDDDDGRVINVEVADESGDVRVALWDDQAVAADDDLEPGDVLR 128 (473) T ss_pred CHHHHCHHHCCCCCCCEEEEEEEEEEECCCEEEECCCCCCCCCEEEEEEEECCCCCEEEEEECCHHHHHHHCCCCCCEEE T ss_conf 61020202105777634799999815148644441688877633899998647895899985334677762445674899 Q ss_pred EEEEEEECCCEEEEECCEEE Q ss_conf 99899731877999778689 Q gi|254780945|r 125 VTGKIKKLKNRIIMVHPHYI 144 (700) Q Consensus 125 vsGKv~~~~~~~qi~hPe~~ 144 (700) |.|+++..++..++.--.++ T Consensus 129 I~Gr~k~G~~G~Evs~~kie 148 (473) T PRK07211 129 IKGRPKDGYNGLEVSADEVE 148 (473) T ss_pred EEECCCCCCCCCEECHHHCC T ss_conf 94034678666353021133 No 167 >cd04492 YhaM_OBF_like YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is inactive in the presence of Mg2+. YhaM also has a Mn2+ dependent 3'-to-5'single-stranded DNA exonuclease activity. SaCBF is also a double-stranded DNA binding protein, binding specifically to cmp, the replication enhancer found in S. aureus plasmid pT181. Proteins in this group combine an N-terminal OB fold with a C-terminal HD domain. The HD domain is found in metal-dependent phosphohydrolases. Probab=97.08 E-value=0.0069 Score=42.21 Aligned_cols=70 Identities=17% Similarity=0.252 Sum_probs=54.0 Q ss_pred EEEEECCCCCC-EEEEEEECCCCEEEEEEECCCHHHHHHHCCCCCEEEEEEEEEECCCEEEEECCEEEECCC Q ss_conf 97542158983-389999818936999995188789987328988899998997318779997786896264 Q gi|254780945|r 78 QHSSFQLQKRR-PYKILLNDGTGEITLLFFYRKTEMLKNVFFEGRKITVTGKIKKLKNRIIMVHPHYIFHNS 148 (700) Q Consensus 78 ~~~~~~~~~r~-~~~v~v~D~tg~i~lvfFn~~~~yl~k~lk~G~~v~vsGKv~~~~~~~qi~hPe~~~~~~ 148 (700) +......+.++ .+.+++.|.||.|..+.|+.. +.....|..|.-|.|.|++..|++.+|+.--.+...++ T Consensus 8 ~~~~~~tk~G~~Yl~l~L~D~tG~I~ak~W~~~-~~~~~~~~~g~~V~v~G~v~~y~g~~Ql~I~~i~~~~~ 78 (83) T cd04492 8 SKELRTAKNGKPYLALTLQDKTGEIEAKLWDAS-EEDEEKFKPGDIVHVKGRVEEYRGRLQLKIQRIRLVTE 78 (83) T ss_pred EHHHHCCCCCCCEEEEEEECCCCEEEEEECCCC-HHHHHCCCCCCEEEEEEEEEEECCCEEEEEEEEEECCC T ss_conf 801000579991789999878876888885788-67883078999999999998889951089989689983 No 168 >PRK08957 consensus Probab=97.06 E-value=0.0078 Score=41.83 Aligned_cols=68 Identities=16% Similarity=0.240 Sum_probs=46.2 Q ss_pred HHHHHHCCCC--EECCCCCCCHHHH-HHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEEC-HHHCCHHHHHHHHH Q ss_conf 6668663710--3120146998999-9999997559869999800341046888765899858-52547468877301 Q gi|254780945|r 508 NSLHEHFTSS--IAIIHGRMSDIDK-ESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIEN-AEHFGLAQLHQLRG 581 (700) Q Consensus 508 ~~l~~~~~~~--v~~lHGkm~~~ek-~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~-aerfGLsqLHQLRG 581 (700) .+||.+||.. .++|...+...+| ...+.+-+.-.+.|| -.-|+-.++..-|-++ +=||||+-...+.- T Consensus 772 AyLK~hyP~ef~aa~L~~~~~~~~k~~~~~~e~~~~gi~vl------pPdIN~S~~~f~~~~~~~I~~gL~~Ikgvg~ 843 (1159) T PRK08957 772 LWLKTHYPAEFMAAVMTADMDNTDKIVGLVDECWRMGLKIL------PPDINSGLYHFHVNDDGEIVYGIGAIKGVGE 843 (1159) T ss_pred HHHHHHCHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCCC------CCCCCCCCCCCEECCCCCEEECHHHHCCCCH T ss_conf 99997184999999753157982679999999998599524------8850677886467689965247276457878 No 169 >PRK06461 single-stranded DNA-binding protein; Reviewed Probab=97.04 E-value=0.0081 Score=41.68 Aligned_cols=103 Identities=16% Similarity=0.199 Sum_probs=70.9 Q ss_pred CCCCHHHCCCC-CEEEEEEEEEEEEE---ECCCCC--CEEEEEEECCCCEEEEEEECCCHHHHHHHCCCCCEEEE-EEEE Q ss_conf 44647888998-78999999989754---215898--33899998189369999951887899873289888999-9899 Q gi|254780945|r 57 YRPKISEISEE-RIVTITGYISQHSS---FQLQKR--RPYKILLNDGTGEITLLFFYRKTEMLKNVFFEGRKITV-TGKI 129 (700) Q Consensus 57 ~~~~I~~l~~g-~~vti~g~V~~~~~---~~~~~r--~~~~v~v~D~tg~i~lvfFn~~~~yl~k~lk~G~~v~v-sGKv 129 (700) .+++|++|.+| ..+++.++|++... +..++. +...+.+.|+||.|.++.|+-. . ..+++|+.+.+ -|.+ T Consensus 3 ~~~KI~dL~pg~~~V~v~~rVl~~~~~r~~~~~~g~~~V~~~~V~DeTG~I~~tlWde~---~-~~i~~GD~V~I~nayv 78 (130) T PRK06461 3 DITKIKDLKPGMRRVNVTGRVLEVGEPKVIQTKGGPRTISEAVVGDETGRVKLTLWGDQ---A-GTLKEGEVVKIENAWT 78 (130) T ss_pred CEEEHHHCCCCCCCEEEEEEEEECCCCCEEECCCCCEEEEEEEEECCCCEEEEEEECCC---C-CCCCCCCEEEEECCEE T ss_conf 30589888899898269999997689727862899668999999879986999994564---5-6468999999944798 Q ss_pred EECCCEEEEECCE---EEECCCC----CCCCCCCCCCCCCC Q ss_conf 7318779997786---8962643----34444411000000 Q gi|254780945|r 130 KKLKNRIIMVHPH---YIFHNSQ----DVNFPLIEAVYSLP 163 (700) Q Consensus 130 ~~~~~~~qi~hPe---~~~~~~~----~~~~~~I~PIYplt 163 (700) +.|++.+++.-=. ++...++ ...++-.+|.++-. T Consensus 79 ~~~~g~l~L~vGk~g~I~~~~d~~~p~~e~i~~~ep~~~~~ 119 (130) T PRK06461 79 TLYRGKVQLNVGRYGSISESDDEEVPEAEEIPEDEPEASYQ 119 (130) T ss_pred EEECCEEEEEECCCEEEEECCCCCCCCCCCCCCCCCCCCCC T ss_conf 88888699986896268976874454245378667575456 No 170 >cd04485 DnaE_OBF DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains two copies of this replicative polymerase, each of which copies a different DNA strand. This group also contains Bacillus subtilis DnaE. Replication in B. subtilis and Staphylococcus aureus requires two different type C polymerases, polC and DnaE, both of which are thought to be included in the DNA polymerase holoenzyme. At the B. subtilis replication fork, polC appears to be involved in leading strand synthesis and DnaE in lagging strand synthesis. Probab=97.00 E-value=0.01 Score=40.89 Aligned_cols=72 Identities=21% Similarity=0.337 Sum_probs=55.7 Q ss_pred EEEEEEEEEEEECCCCC-CEEEEEEECCCCEEEEEEECCCHHHHHHHCCCCCEEEEEEEEEECCCEEEEECCE Q ss_conf 99999989754215898-3389999818936999995188789987328988899998997318779997786 Q gi|254780945|r 71 TITGYISQHSSFQLQKR-RPYKILLNDGTGEITLLFFYRKTEMLKNVFFEGRKITVTGKIKKLKNRIIMVHPH 142 (700) Q Consensus 71 ti~g~V~~~~~~~~~~r-~~~~v~v~D~tg~i~lvfFn~~~~yl~k~lk~G~~v~vsGKv~~~~~~~qi~hPe 142 (700) ++.|.|.+......+++ ++..++++|.+|.+++++|.....-.+..+..|.-+.+.|+++...+.++++--+ T Consensus 1 ~iaG~I~~~k~~~tk~G~~~a~~tleD~~g~~e~~~F~~~~~~~~~~l~~~~~v~i~g~v~~~~~~~~l~~~~ 73 (84) T cd04485 1 TVAGLVTSVRRRRTKKGKRMAFVTLEDLTGSIEVVVFPETYEKYRDLLKEDALLLVEGKVERRDGGLRLIAER 73 (84) T ss_pred CEEEEEEEEEEEECCCCCEEEEEEEECCCCCEEEEECHHHHHHHHHHHCCCCEEEEEEEEEEECCEEEEEEEE T ss_conf 9899999989985579998999999437874999996999999888744698899999999969989999999 No 171 >PRK06326 consensus Probab=96.98 E-value=0.025 Score=37.86 Aligned_cols=81 Identities=14% Similarity=0.202 Sum_probs=56.8 Q ss_pred HHHHHHCCC--CEECCCCCCCHHHH-HHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHH--- Q ss_conf 666866371--03120146998999-999999755986999980034104688876589985852547468877301--- Q gi|254780945|r 508 NSLHEHFTS--SIAIIHGRMSDIDK-ESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRG--- 581 (700) Q Consensus 508 ~~l~~~~~~--~v~~lHGkm~~~ek-~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRG--- 581 (700) .+||.+||. -.++|...+...+| ...+.+-++-.+.|| -.-||-......+..++=||||++.--++. T Consensus 810 AyLK~~yP~ef~aAlL~s~~~~~~k~~~~i~ear~~Gi~Vl------pPdIN~S~~~f~~~~~~Ir~GL~aIKgvg~~~~ 883 (1240) T PRK06326 810 AYLKANYPKEWLAALLTCDSDDIEKVGKLIREAHSMNIPIL------PPDINESGQDFVATDEGIRFAMGAIKGVGRGLV 883 (1240) T ss_pred HHHHHCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHCCCEEE------CCCCCCCCCCCEECCCCEEECHHHHCCCCHHHH T ss_conf 99986687999999843787996589999999998799684------885366778637708937876365478869999 Q ss_pred ------CCCCCCCCEEEEE Q ss_conf ------1667898359999 Q gi|254780945|r 582 ------RVGRGEEISSCIL 594 (700) Q Consensus 582 ------RVGRg~~~s~c~l 594 (700) |-.+|.-.|.-=| T Consensus 884 ~~Iv~~R~~~Gpf~s~~Df 902 (1240) T PRK06326 884 ESIVEEREKHGPYKSIQDF 902 (1240) T ss_pred HHHHHHHHHCCCCCCHHHH T ss_conf 9999999868698999999 No 172 >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=96.96 E-value=0.0059 Score=42.75 Aligned_cols=85 Identities=18% Similarity=0.347 Sum_probs=70.0 Q ss_pred HHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCC Q ss_conf 33444305458861279999999986211014578658996246422566768776213475486411120133455444 Q gi|254780945|r 315 AAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYK 394 (700) Q Consensus 315 l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~ 394 (700) -..+++|.++.+.+++.-.++. +.++|...++++..++|+++..+|+.+.+..++|+.+|++.|.+ +..++.+.+ T Consensus 22 ~~~~~~~~kviIF~~~~~~~~~----l~~~L~~~~~~~~~~~~~~~~~~R~~~~~~F~~~~~~ilv~t~~-~~~Gldl~~ 96 (131) T cd00079 22 KEHLKKGGKVLIFCPSKKMLDE----LAELLRKPGIKVAALHGDGSQEEREEVLKDFREGEIVVLVATDV-IARGIDLPN 96 (131) T ss_pred HHHHHCCCEEEEEECCHHHHHH----HHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHHHCEEEEEEEEC-CEECCCCCC T ss_conf 9999789909999788999999----99999558998999989999999999999977540104887511-200366102 Q ss_pred CCEEEECCCC Q ss_conf 4178852101 Q gi|254780945|r 395 LILVIVDEQH 404 (700) Q Consensus 395 LgLvViDEQH 404 (700) .-.||+-+.. T Consensus 97 ~~~vI~~~~~ 106 (131) T cd00079 97 VSVVINYDLP 106 (131) T ss_pred CCEEEEECCC T ss_conf 8799997899 No 173 >TIGR00348 hsdR type I site-specific deoxyribonuclease, HsdR family; InterPro: IPR004473 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements , , as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type I restriction endonucleases are components of prokaryotic DNA restriction-modification mechanisms that protects the organism against invading foreign DNA. Type I enzymes have three different subunits subunits - M (modification), S (specificity) and R (restriction) - that form multifunctional enzymes with restriction (3.1.21.3 from EC), methylase (2.1.1.72 from EC) and ATPase activities , . The S subunit is required for both restriction and modification and is responsible for recognition of the DNA sequence specific for the system. The M subunit is necessary for modification, and the R subunit is required for restriction. These enzymes use S-Adenosyl-L-methionine (AdoMet) as the methyl group donor in the methylation reaction, and have a requirement for ATP. They recognize asymmetric DNA sequences split into two domains of specific sequence, one 3-4 bp long and another 4-5 bp long, separated by a nonspecific spacer 6-8 bp in length. Cleavage occurs a considerable distance from the recognition sites, rarely less than 400 bp away and up to 7000 bp away. Adenosyl residues are methylated, one on each strand of the recognition sequence. These enzymes are widespread in eubacteria and archaea. In enteric bacteria they have been subdivide into four families: types IA, IB, IC and ID. This entry represents the R subunit (HsdR) of type I restriction endonucleases such as EcoRI (3.1.21.3 from EC), which recognises the DNA sequence 5'-GAATTC; the R protein (HsdR) is required for both nuclease and ATPase activity , , , .; GO: 0003677 DNA binding, 0005524 ATP binding, 0009035 Type I site-specific deoxyribonuclease activity, 0009307 DNA restriction-modification system. Probab=96.94 E-value=0.0036 Score=44.49 Aligned_cols=194 Identities=22% Similarity=0.215 Sum_probs=117.6 Q ss_pred HHHHHHHHHHCCCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCC---CCCCE-E-EEEECCCCCHHHHHHHHH Q ss_conf 776555543203576787757899998630246798899999999984100---13430-7-886214422369999997 Q gi|254780945|r 240 LLLMRKQFKKEIGIPINVEGKIAQKILRNIPFSPTKSQESAIKDILQDMSQ---KNRML-R-ILQGDVGSGKTLVALIAM 314 (700) Q Consensus 240 l~~~r~~~~~~~~~~~~~~~~~~~~f~~~LPF~LT~~Q~~ai~eI~~Dl~~---~~pM~-R-LLQGDVGSGKTiVA~~A~ 314 (700) ++....-..-..-+.+--..+.+....+.+|+- .|.+|++.|..-... +++-. | |+===-|||||+--+.++ T Consensus 268 llkkE~lLd~i~~f~~f~~~~~~g~~~k~~~~y---~qy~av~ki~~~~~~~~~~k~~~n~G~iWHtQGSGKtlTm~f~A 344 (813) T TIGR00348 268 LLKKERLLDFIRNFIIFDKEESVGLVTKVIARY---MQYRAVKKIVESILRKEKGKDKRNKGLIWHTQGSGKTLTMLFLA 344 (813) T ss_pred CCCCHHHHHHHCCEEEEECCCCCCHHHCCCHHH---HHHHHHHHHHHHHHHHHCCCCCCCCCEEEEEECCCHHHHHHHHH T ss_conf 677036876331213661451100110100388---99999999999998531378863674489850763788999999 Q ss_pred HHHH--HHHCC--EEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHC-------CCCCEEEEEC- Q ss_conf 3344--43054--5886127999999998621101457865899624642256676877621-------3475486411- Q gi|254780945|r 315 AAAV--EAGGQ--AVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIA-------HGQAHIIIGT- 382 (700) Q Consensus 315 l~~~--~~G~Q--~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~-------~G~~~iiIGT- 382 (700) ..+. ..-.+ +.||+==-=|=.|-+..|.++.+.+. ...-+..+.++=++.|+... .|+-.|+|-| T Consensus 345 ~k~~~~~~~~~p~v~fvvDR~eLd~Ql~~~~~~~~~~~~---~~~~~~eS~~~Lk~~L~~~~~sennPn~~k~g~~~t~I 421 (813) T TIGR00348 345 RKLRKQKELKNPKVFFVVDRRELDEQLYKEFSSLKDLIK---DCAERIESIAELKELLEKNDESENNPNISKRGIIITTI 421 (813) T ss_pred HHHHHHHHHCCCEEEEEEECHHHHHHHHHHHHHHHHHCH---HHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCEEEEEE T ss_conf 999874652698499997272778899999987642010---10420678889999875177645675535676799960 Q ss_pred HHHC-------CC-----C---CCCCCCCEEEECCCCC--CCHHHH-----------HHHHHCCCCCCCEEECHHHHHHH Q ss_conf 1201-------33-----4---5544441788521013--356889-----------98740256776101010132278 Q gi|254780945|r 383 HALF-------QD-----S---IQYYKLILVIVDEQHR--FGVQQR-----------LKLTQKATAPHVLLMTATPIPRT 434 (700) Q Consensus 383 HAL~-------q~-----~---v~F~~LgLvViDEQHR--FGV~QR-----------~~L~~Kg~~ph~L~MtATPIPRT 434 (700) |=+= .| . +.+++==+||+||=|| ||-.|+ ..|.+.=.+++.+--|+||| T Consensus 422 qKF~~~~~~k~~e~~~~~~~~i~~~r~~vv~i~DEaHRsqyG~tqklhnGkfqtGla~~~~~~lknA~f~gFTGTPI--- 498 (813) T TIGR00348 422 QKFDDELLDKLKEEEEKFPESIIIDRKEVVVIIDEAHRSQYGKTQKLHNGKFQTGLAKALKKALKNASFFGFTGTPI--- 498 (813) T ss_pred ECCCHHHHHHHHHHHHCCCCEEEEEECCEEEEEECCCCCCCCCCCCCCCCHHHHHHHHHHHHHCHHHHHHCCCCCCC--- T ss_conf 01040344536888743873689871608999706755535341100044135899999987431120101224776--- Q ss_pred HHHHHHHCCCHH Q ss_conf 999975201011 Q gi|254780945|r 435 LVLTSLGDIDIS 446 (700) Q Consensus 435 Lal~~ygdldvS 446 (700) .+-|+|.+ T Consensus 499 ----~~~d~~T~ 506 (813) T TIGR00348 499 ----SKKDRDTF 506 (813) T ss_pred ----CHHCCCCC T ss_conf ----53247766 No 174 >KOG0384 consensus Probab=96.89 E-value=0.042 Score=36.05 Aligned_cols=324 Identities=19% Similarity=0.304 Sum_probs=189.6 Q ss_pred CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHH--HHHHHHHHHHH-HHCCEEEEEHHHHHHHHHHHHHHHHCCCC Q ss_conf 6798899999999984100134307886214422369--99999733444-30545886127999999998621101457 Q gi|254780945|r 272 SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTL--VALIAMAAAVE-AGGQAVIMAPIGILAQQHYEFIKKYTQNT 348 (700) Q Consensus 272 ~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTi--VA~~A~l~~~~-~G~Q~alMaPTEILA~QH~~~~~~~~~~~ 348 (700) +|-+-|..-++=...--... -|-.|--.-|=|||| |++++-+.-.. -..-..+.||-..++.= -+.|..|. T Consensus 370 ~LRDYQLeGlNWLl~~W~k~--~n~ILADEMGLGKTvQtI~FLs~l~~~~~~~GPfLvVvPLSTi~~W-~ref~~Wt--- 443 (1373) T KOG0384 370 ELRDYQLEGLNWLLYSWYKR--NNCILADEMGLGKTVQTITFLSYLFHSLQIHGPFLVVVPLSTITAW-EREFETWT--- 443 (1373) T ss_pred CHHHHHHCCHHHHHHHHHCC--CCEEEECCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHH-HHHHHHHH--- T ss_conf 14465631328999988646--8647540025774013459999999845447886999864000789-99999875--- Q ss_pred CCEEEEEECCCCHHHHHHHHHHHCCC-----CCEEEEECH-HHCCCCCCCCC--CCEEEECCCCCCCHHHHHHHHHCCC- Q ss_conf 86589962464225667687762134-----754864111-20133455444--4178852101335688998740256- Q gi|254780945|r 349 QIIVEIITGNMPQAHRRKALERIAHG-----QAHIIIGTH-ALFQDSIQYYK--LILVIVDEQHRFGVQQRLKLTQKAT- 419 (700) Q Consensus 349 ~i~v~lLtg~~~~~er~~i~~~i~~G-----~~~iiIGTH-AL~q~~v~F~~--LgLvViDEQHRFGV~QR~~L~~Kg~- 419 (700) +++|...+|++...+--..++-.-++ +.+++|-|- -++.+.-..++ -..++|||-||. .-+..++-++- T Consensus 444 dmN~ivY~G~~~SR~~I~qYE~~~~~~~~~~KFn~LlTTyE~vLkDk~~L~~i~W~~~~vDEAHRL--KN~~s~Ly~~L~ 521 (1373) T KOG0384 444 DMNVIVYHGNLESRQLIRQYEFYHSSNTKKLKFNALLTTYEIVLKDKAELSKIPWRYLLVDEAHRL--KNDESKLYESLN 521 (1373) T ss_pred HCCEEEEECCHHHHHHHHHHHEEECCCCCEEEEEEEEHHHHHHHCCHHHHCCCCEEEEEECHHHHH--CCCHHHHHHHHH T ss_conf 146588826656789998765045477751788764001898972688864575278974166550--650448999999 Q ss_pred ---CCCCEEECHHHHHHHHH----HHHH-------------HCC------CHHHH-----------------CCCCCCCC Q ss_conf ---77610101013227899----9975-------------201------01111-----------------02355766 Q gi|254780945|r 420 ---APHVLLMTATPIPRTLV----LTSL-------------GDI------DISKI-----------------TEKPAGRK 456 (700) Q Consensus 420 ---~ph~L~MtATPIPRTLa----l~~y-------------gdl------dvS~i-----------------~e~P~gR~ 456 (700) .-|-|..|-||.--++- |--| .+- +|..+ +-+|+ T Consensus 522 ~f~~~hrlLiTGTPLQNsi~EL~sLL~Fl~P~kF~~~~ef~~e~~~~~e~~v~~Lq~~L~P~~LRRlKkDVEKSLp~--- 598 (1373) T KOG0384 522 QFKMNHRLLITGTPLQNSLKELWSLLHFLMPGKFDSWDEFLEEFDEETEEQVRKLQQILKPFLLRRLKKDVEKSLPP--- 598 (1373) T ss_pred HHHHCCEEEEECCCCCCCHHHHHHHHHHHCCCCCCCHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC--- T ss_conf 86430757754785403199999998773755578678998873302388999999987689999988877522786--- Q ss_pred CCEEEE-EECCCH-HHHHHHHH----HHHCCCCE---------------EEEEECCCCCCCC---CCCC---------H- Q ss_conf 620799-970200-26899997----63103873---------------8999712012211---1210---------1- Q gi|254780945|r 457 PIKTVI-IPINRI-DEVIERLK----VVLSEGKK---------------AYWICPQIEEKKE---SNFR---------S- 502 (700) Q Consensus 457 ~I~T~~-~~~~~~-~~~~~~i~----~~l~~g~q---------------~y~VcPlIeese~---~~~~---------~- 502 (700) ++.|.+ +....+ .+-|.+|- ..|.+|.. |---|-||...|. .+.. . T Consensus 599 K~E~IlrVels~lQk~yYk~ILtkN~~~LtkG~~g~~~~llNimmELkKccNHpyLi~gaee~~~~~~~~~~~d~~l~~l 678 (1373) T KOG0384 599 KEETILRVELSDLQKQYYKAILTKNFSALTKGAKGSTPSLLNIMMELKKCCNHPYLIKGAEEKILGDFRDKMRDEALQAL 678 (1373) T ss_pred CCCEEEEEHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHCCHHHHHHHH T ss_conf 31225654056789999999998539998366788980299999999986478000485888888765301467999999 Q ss_pred -----------------------------HHHHHHHHHHHCC---CCEECCCCCCCHHHHHHHHHHHHCCCE---EEEEE Q ss_conf -----------------------------4666666686637---103120146998999999999755986---99998 Q gi|254780945|r 503 -----------------------------VVERFNSLHEHFT---SSIAIIHGRMSDIDKESVMDSFKNGTC---KLLIA 547 (700) Q Consensus 503 -----------------------------~~~~~~~l~~~~~---~~v~~lHGkm~~~ek~~~m~~F~~g~~---~iLva 547 (700) .......|.+++- ....-|-|.++.+-..++|..|.+-.. =-|+| T Consensus 679 I~sSGKlVLLDKLL~rLk~~GHrVLIFSQMVRmLDIL~eYL~~r~ypfQRLDGsvrgelRq~AiDhFnap~SddFvFLLS 758 (1373) T KOG0384 679 IQSSGKLVLLDKLLPRLKEGGHRVLIFSQMVRMLDILAEYLSLRGYPFQRLDGSVRGELRQQAIDHFNAPDSDDFVFLLS 758 (1373) T ss_pred HHHCCCEEEHHHHHHHHHCCCCEEEEEHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCEEEEEE T ss_conf 97168588698778998618945997199999999999999973886111468761688998887436999886499983 Q ss_pred CHHHHCCCCCCCCCEEEEECHHHCCHHHHH-HHH-HCCCCCCCCEEEEEEECCCCCHHHHH Q ss_conf 003410468887658998585254746887-730-11667898359999708889987999 Q gi|254780945|r 548 TTVIEVGIDVVDASIIIIENAEHFGLAQLH-QLR-GRVGRGEEISSCILLYHPPLSKNSYT 606 (700) Q Consensus 548 TtviEVGvdvpna~~mvI~~aerfGLsqLH-QLR-GRVGRg~~~s~c~l~~~~~~~~~~~~ 606 (700) |--=-+|||..-|.+.||.++|-=-=+-|- |-| -|+|-...--.-=||+.+..-++-.+ T Consensus 759 TRAGGLGINLatADTVIIFDSDWNPQNDLQAqARaHRIGQkk~VnVYRLVTk~TvEeEilE 819 (1373) T KOG0384 759 TRAGGLGINLATADTVIIFDSDWNPQNDLQAQARAHRIGQKKHVNVYRLVTKNTVEEEILE 819 (1373) T ss_pred CCCCCCCCCCCCCCEEEEECCCCCCCHHHHHHHHHHHHCCCCEEEEEEEECCCCHHHHHHH T ss_conf 1567664022446669996899995057899998866066454789997457844899999 No 175 >PRK11192 ATP-dependent RNA helicase SrmB; Provisional Probab=96.88 E-value=0.0052 Score=43.20 Aligned_cols=87 Identities=17% Similarity=0.297 Sum_probs=69.2 Q ss_pred HHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCC Q ss_conf 99999733444305458861279999999986211014578658996246422566768776213475486411120133 Q gi|254780945|r 309 VALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQD 388 (700) Q Consensus 309 VA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~ 388 (700) .+++.-+..-.+..|+.+-+.|---|.. +.++|...|+++..++|+++..+|.+++++..+|+++|+|.|. ++.. T Consensus 235 ~~~L~~ll~~~~~~k~iIF~~t~~~~~~----l~~~L~~~g~~~~~lhg~l~q~~R~~~l~~F~~g~~~vLVaTD-vaaR 309 (417) T PRK11192 235 TALLCHLLKQEEVTRSIVFVRTRERVHE----LAGWLRKAGINCCYLEGEMVQKKRNEAIKRLTDGRVNVLVATD-VAAR 309 (417) T ss_pred HHHHHHHHHCCCCCCCEEEECCHHHHHH----HHHHHHCCCCCEEEECCCCCHHHHHHHHHHHHCCCCCEEEECC-HHHC T ss_conf 9999999853476652153112466768----9886531488357540017999999999999769998999812-4346 Q ss_pred CCCCCCCCEEEE Q ss_conf 455444417885 Q gi|254780945|r 389 SIQYYKLILVIV 400 (700) Q Consensus 389 ~v~F~~LgLvVi 400 (700) ++.|.++.+||- T Consensus 310 GiDi~~V~~VIn 321 (417) T PRK11192 310 GIDIDDISHVIN 321 (417) T ss_pred CCCCCCCCEEEE T ss_conf 777046988999 No 176 >PRK09183 transposase/IS protein; Provisional Probab=96.87 E-value=0.0041 Score=44.02 Aligned_cols=129 Identities=16% Similarity=0.107 Sum_probs=75.0 Q ss_pred HHHCCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HH--HHHHHCCCCCCCCCCHHHHHHHHH Q ss_conf 86205699988999862045896565667999999987666666677776--55--554320357678775789999863 Q gi|254780945|r 193 LLQKKSFPSIAEAFNIIHNPRKAKDFEWTSPARERLAYDELLAGQIALLL--MR--KQFKKEIGIPINVEGKIAQKILRN 268 (700) Q Consensus 193 ll~k~~L~s~~eAL~~IH~P~~~~dle~~~~ArkRLafeELl~~QL~l~~--~r--~~~~~~~~~~~~~~~~~~~~f~~~ 268 (700) .+++.+|+...+++..+ + ..+....+.|+|+|..-+.-.. ++ +.....+.-.++... -++.|.-. T Consensus 11 ~l~~LkL~~m~~~~~~~--------~--~~a~~~~~s~~e~L~~Ll~~E~~~R~~rr~~r~lk~A~fp~~k-tle~fDf~ 79 (258) T PRK09183 11 LCGQLQLESLISAAPAL--------A--QQAVDQEWSYMDFLEHLLHEEKLARHQRKQAMYTRMAAFPAVK-TFEEYDFT 79 (258) T ss_pred HHHHCCCHHHHHHHHHH--------H--HHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCC-CHHHCCCC T ss_conf 99987831899999999--------9--9887639999999999999999999999999999977999987-77555654 Q ss_pred CCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHH Q ss_conf 0246798899999999984100134307886214422369999997334443054588612799999 Q gi|254780945|r 269 IPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQ 335 (700) Q Consensus 269 LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~ 335 (700) .+=.+...|...+... .- -...-|-++.|-+|+|||-.|..-...|+.+||.|.|.-=++++.+ T Consensus 80 ~~~~l~~~~i~~La~~-~f--i~~~~Nvil~G~~GtGKThLA~Alg~~A~~~G~~v~f~~~~~L~~~ 143 (258) T PRK09183 80 FATGAPQKQLQSLRSL-SF--IERNENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTTAADLLLQ 143 (258) T ss_pred CCCCCCHHHHHHHHCC-CH--HHCCCCEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEHHHHHHH T ss_conf 6886238999988258-16--6558867998999986899999999999987993999789999999 No 177 >PRK08181 transposase; Validated Probab=96.85 E-value=0.014 Score=39.94 Aligned_cols=131 Identities=17% Similarity=0.101 Sum_probs=74.1 Q ss_pred HHHHCCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH--HH--HHHHHHCCCCCCCCCCHHHHHHHH Q ss_conf 78620569998899986204589656566799999998766666667777--65--555432035767877578999986 Q gi|254780945|r 192 DLLQKKSFPSIAEAFNIIHNPRKAKDFEWTSPARERLAYDELLAGQIALL--LM--RKQFKKEIGIPINVEGKIAQKILR 267 (700) Q Consensus 192 ~ll~k~~L~s~~eAL~~IH~P~~~~dle~~~~ArkRLafeELl~~QL~l~--~~--r~~~~~~~~~~~~~~~~~~~~f~~ 267 (700) .++++.+|+...+++..+= + ......+-|+|+|..-+.-. .+ |+..+..+.-.++.. .-++.|.= T Consensus 14 ~lLk~LkL~~~~~~~~~~~--------~--~a~~~~~s~~e~L~~Lle~E~~~R~~rr~~rrlk~A~fp~~-ktLe~fDf 82 (269) T PRK08181 14 LLLNELRLPTIKTLWPQFA--------E--QADKEGWPAARFLAAIAEHEIAERARRRIERHLAEAHLPPG-KTLDSFDF 82 (269) T ss_pred HHHHHCCCHHHHHHHHHHH--------H--HHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC-CCHHHCCC T ss_conf 9999868528999999999--------9--99875999999999999999999999999999986897998-88654785 Q ss_pred HCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHH Q ss_conf 30246798899999999984100134307886214422369999997334443054588612799999 Q gi|254780945|r 268 NIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQ 335 (700) Q Consensus 268 ~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~ 335 (700) ..+=.+...|...+..-..-+ ...-|-++.|-.|+|||-+|..-...|+.+||.|.|.-=++.+.+ T Consensus 83 ~~~p~i~~~~i~~L~~~~~fi--~~~~Nvil~Gp~GtGKThLA~Alg~~A~~~G~~V~f~~~~~L~~~ 148 (269) T PRK08181 83 EAVPMISKAQVMALAAGDSWL--AKGANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRTTDLVQK 148 (269) T ss_pred CCCCCCCHHHHHHHHCCCHHH--HCCCEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEHHHHHHH T ss_conf 568998999999996567588--648708998999987889999999999987993999789999999 No 178 >KOG0386 consensus Probab=96.85 E-value=0.0039 Score=44.14 Aligned_cols=291 Identities=19% Similarity=0.300 Sum_probs=156.5 Q ss_pred EEEEEECCCCCHHHHH--HHHHHHHHHHHC-CEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHH Q ss_conf 0788621442236999--999733444305-4588612799999999862110145786589962464225667687762 Q gi|254780945|r 295 LRILQGDVGSGKTLVA--LIAMAAAVEAGG-QAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERI 371 (700) Q Consensus 295 ~RLLQGDVGSGKTiVA--~~A~l~~~~~G~-Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i 371 (700) |-.|--..|=||||=. +++-+.-...-. --.+.+|+-.|..=- ..|-+|-+ +|....+.-++.+|+.+...+ T Consensus 415 NGILADEMGLGKTIQtIsLitYLmE~K~~~GP~LvivPlstL~NW~-~Ef~kWaP----Sv~~i~YkGtp~~R~~l~~qi 489 (1157) T KOG0386 415 NGILADEMGLGKTIQTISLITYLMEHKQMQGPFLIIVPLSTLVNWS-SEFPKWAP----SVQKIQYKGTPQQRSGLTKQQ 489 (1157) T ss_pred CCCCCHHCCCCHHHHHHHHHHHHHHHCCCCCCEEEECCCCCCCCCH-HHCCCCCC----CEEEEEEECCHHHHHHHHHHH T ss_conf 4332001044148899999999999705679838954354567712-20243466----513565417888886678988 Q ss_pred CCCCCEEEEEC-------HHHCCCCCCCCCCCEEEECCCCCCCHHHHH---HHHHCCCCCCCEEECHHHHHHHH----HH Q ss_conf 13475486411-------120133455444417885210133568899---87402567761010101322789----99 Q gi|254780945|r 372 AHGQAHIIIGT-------HALFQDSIQYYKLILVIVDEQHRFGVQQRL---KLTQKATAPHVLLMTATPIPRTL----VL 437 (700) Q Consensus 372 ~~G~~~iiIGT-------HAL~q~~v~F~~LgLvViDEQHRFGV~QR~---~L~~Kg~~ph~L~MtATPIPRTL----al 437 (700) ..|+.+|++-| -||++ ++.++ +.||||+||--=++-. .|..-+..++-|..|-||+--.| || T Consensus 490 r~gKFnVLlTtyEyiikdk~lLs-KI~W~---yMIIDEGHRmKNa~~KLt~~L~t~y~~q~RLLLTGTPLQN~LpELWaL 565 (1157) T KOG0386 490 RHGKFNVLLTTYEYIIKDKALLS-KISWK---YMIIDEGHRMKNAICKLTDTLNTHYRAQRRLLLTGTPLQNNLPELWAL 565 (1157) T ss_pred HCCCCEEEEEEHHHHCCCHHHHH-CCCCC---CEEECCCCCCCCHHHHHHHHHHCCCCCHHHHHHCCCHHHHCCHHHHHH T ss_conf 60011034200877537999984-46986---356322222451255788775025521215653288322211778999 Q ss_pred H--------------------HH---HC-CCHH------HH--------------------CCCCCCCCCCEEEEEECCC Q ss_conf 9--------------------75---20-1011------11--------------------0235576662079997020 Q gi|254780945|r 438 T--------------------SL---GD-IDIS------KI--------------------TEKPAGRKPIKTVIIPINR 467 (700) Q Consensus 438 ~--------------------~y---gd-ldvS------~i--------------------~e~P~gR~~I~T~~~~~~~ 467 (700) - -| |+ .+++ +| .++| +....+-++..+.- T Consensus 566 LNFlLP~IFnS~~~FeqWFN~PFantGek~eLteEEtlLIIrRLHkVLRPFlLRRlKkeVE~~LP-dKve~viKC~mSal 644 (1157) T KOG0386 566 LNFLLPNIFNSCKAFEQWFNQPFANTGEKVELTEEETLLIIRRLHKVLRPFLLRRLKKEVEQELP-DKVEDVIKCDMSAL 644 (1157) T ss_pred HHHHCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHEEHHHH T ss_conf 98763521104757989861266643873125522789999998876647888765677766473-45547630202056 Q ss_pred HHHHHHHHHHHHCCCCEEE---------------------------EEECCCCCCCCC-----CCCHHHHHHHHHH---- Q ss_conf 0268999976310387389---------------------------997120122111-----2101466666668---- Q gi|254780945|r 468 IDEVIERLKVVLSEGKKAY---------------------------WICPQIEEKKES-----NFRSVVERFNSLH---- 511 (700) Q Consensus 468 ~~~~~~~i~~~l~~g~q~y---------------------------~VcPlIeese~~-----~~~~~~~~~~~l~---- 511 (700) -..+|..+. +.++.+ ++.+-||++=.. |+--+.-.++.|. T Consensus 645 Qq~lY~~m~----~~g~l~~d~~~g~~g~k~L~N~imqLRKiCNHP~lf~~ve~~~~~~~~~~dL~R~sGKfELLDRiLP 720 (1157) T KOG0386 645 QQSLYKQMQ----NKGQLLKDTAKGKKGYKPLFNTIMQLRKLCNHPYLFANVENSYTLHYDIKDLVRVSGKFELLDRILP 720 (1157) T ss_pred HHHHHHHHH----HCCCCCCCCHHCCCCCHHHHHHHHHHHHHCCCCHHHHHHCCCCCCCCCHHHHHHHCCHHHHHHHHHH T ss_conf 676318888----4798876721003464115457699998547721544430342200270578773147999976608 Q ss_pred -----------------------HHCC--C-CEECCCCCCCHHHHHHHHHHHHCCCEE---EEEECHHHHCCCCCCCCCE Q ss_conf -----------------------6637--1-031201469989999999997559869---9998003410468887658 Q gi|254780945|r 512 -----------------------EHFT--S-SIAIIHGRMSDIDKESVMDSFKNGTCK---LLIATTVIEVGIDVVDASI 562 (700) Q Consensus 512 -----------------------~~~~--~-~v~~lHGkm~~~ek~~~m~~F~~g~~~---iLvaTtviEVGvdvpna~~ 562 (700) .++. . +.-.+-|.-+.+|.-..++.|..-..+ .|.||--=-.|+|.--|.+ T Consensus 721 KLkatgHRVLlF~qMTrlmdimEdyL~~~~~kYlRLDG~TK~~eRg~ll~~FN~Pds~yf~FllstragglglNlQtadt 800 (1157) T KOG0386 721 KLKATGHRVLLFSQMTRLMDILEDYLQIREYKYLRLDGQTKVEERGDLLEIFNAPDSPYFIFLLSTRAGGLGLNLQTADT 800 (1157) T ss_pred HHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHEEEECCCCCHHHHHHHHHHHCCCCCCEEEEEEEECCCCCCCCHHHCCE T ss_conf 87732760115777888899999998662421244158766146899999715999862564332102555403211352 Q ss_pred EEEECHHHCCHH--HHHHHHHCCCCCCCCEEEEEEECCC Q ss_conf 998585254746--8877301166789835999970888 Q gi|254780945|r 563 IIIENAEHFGLA--QLHQLRGRVGRGEEISSCILLYHPP 599 (700) Q Consensus 563 mvI~~aerfGLs--qLHQLRGRVGRg~~~s~c~l~~~~~ 599 (700) .||.+.|----- |---+--|+|--...-...|++-.+ T Consensus 801 viifdsdwnp~~d~qaqdrahrigq~~evRv~rl~tv~s 839 (1157) T KOG0386 801 VIIFDSDWNPHQDLQAQDRAHRIGQKKEVRVLRLITVNS 839 (1157) T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCHHHEEEEEEEHHHH T ss_conf 788658888316799999999750212301123100407 No 179 >PRK04537 ATP-dependent RNA helicase RhlB; Provisional Probab=96.80 E-value=0.011 Score=40.51 Aligned_cols=78 Identities=17% Similarity=0.327 Sum_probs=67.0 Q ss_pred HHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCE Q ss_conf 44305458861279999999986211014578658996246422566768776213475486411120133455444417 Q gi|254780945|r 318 VEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKLIL 397 (700) Q Consensus 318 ~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgL 397 (700) -..+.|+.+-+.|--.++..++.++ ..++++..|+|.++.++|..++++.++|+++|+|.|- +...++.|.++.+ T Consensus 254 ~~~~~k~IIF~nT~~~ve~l~~~L~----~~g~~v~~LHG~lsQ~eR~~~L~~Fk~G~~~VLVaTD-VAARGIDIp~V~~ 328 (574) T PRK04537 254 RSEGARTMVFVNTKAFVERVARTLE----RHGYRVGVLSGDVPQKKRESLLNRFQKGQLEILVATD-VAARGLHIDGVKY 328 (574) T ss_pred HCCCCCCEEECCHHHHHHHHHHHHH----HCCCCEEEEECCCCHHHHHHHHHHHHCCCCCEEEECC-CCCCCCCCCCCCE T ss_conf 2677651153341899999999999----7799689970999999999999999769997997735-0023357146997 Q ss_pred EEE Q ss_conf 885 Q gi|254780945|r 398 VIV 400 (700) Q Consensus 398 vVi 400 (700) ||- T Consensus 329 VIN 331 (574) T PRK04537 329 VYN 331 (574) T ss_pred EEE T ss_conf 999 No 180 >PRK04837 ATP-dependent RNA helicase RhlB; Provisional Probab=96.78 E-value=0.0089 Score=41.36 Aligned_cols=77 Identities=22% Similarity=0.277 Sum_probs=64.1 Q ss_pred HHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEE Q ss_conf 43054588612799999999862110145786589962464225667687762134754864111201334554444178 Q gi|254780945|r 319 EAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKLILV 398 (700) Q Consensus 319 ~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLv 398 (700) ....|+.+-+.|---|+ .+.++|...|+++..|+|.++.++|.+++++.++|+++|+|.|- +...++.|.++.+| T Consensus 254 ~~~~k~iIF~nt~~~~~----~l~~~L~~~g~~~~~lhg~~~q~~R~~~l~~F~~g~~~vLVaTD-vaaRGLDi~~V~~V 328 (423) T PRK04837 254 EWPDRAIIFANTKHRCE----EIWGHLAADGHRVGLLTGDVPQKKRLRILEQFTRGDLDILVATD-VAARGLHIPDVTHV 328 (423) T ss_pred HCCCCEEEECCHHHHHH----HHHHHHHHCCCCEEEECCCCCHHHHHHHHHHHHCCCCCEEEEHH-HHHCCCCCCCCCEE T ss_conf 08874688616288899----99999976598178722545799999999999769998998700-43277772679889 Q ss_pred EE Q ss_conf 85 Q gi|254780945|r 399 IV 400 (700) Q Consensus 399 Vi 400 (700) |- T Consensus 329 In 330 (423) T PRK04837 329 FN 330 (423) T ss_pred EE T ss_conf 99 No 181 >smart00490 HELICc helicase superfamily c-terminal domain. Probab=96.75 E-value=0.0028 Score=45.32 Aligned_cols=63 Identities=19% Similarity=0.355 Sum_probs=54.5 Q ss_pred HHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEEECCC Q ss_conf 6211014578658996246422566768776213475486411120133455444417885210 Q gi|254780945|r 340 FIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKLILVIVDEQ 403 (700) Q Consensus 340 ~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvViDEQ 403 (700) .+.++|...|+++..++|.++.++|+++++...+|+++|+|+|- ++.+++.+.+...||+-+- T Consensus 2 ~l~~~l~~~g~~~~~i~g~~~~~~R~~~~~~f~~~~~~ilv~t~-~~~~Gidl~~~~~vI~~~~ 64 (82) T smart00490 2 ELAELLKELGIKVARLHGGLSQEEREEILEKFNNGKIKVLVATD-VAERGLDLPGVDLVIIYDL 64 (82) T ss_pred HHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHCCCCEEEEEEE-EEEEECCCCCCCEEEEECC T ss_conf 78999988899199998969999999999999879971999950-2421148988999999789 No 182 >PRK10590 ATP-dependent RNA helicase RhlE; Provisional Probab=96.68 E-value=0.015 Score=39.66 Aligned_cols=84 Identities=17% Similarity=0.193 Sum_probs=67.5 Q ss_pred HHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCC Q ss_conf 99733444305458861279999999986211014578658996246422566768776213475486411120133455 Q gi|254780945|r 312 IAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQ 391 (700) Q Consensus 312 ~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~ 391 (700) +..+..-.+..|+.+-+.|---|+.-+ ++|...|+++..++|.++..+|..++++.++|+++|+|.|. +...++. T Consensus 236 L~~ll~~~~~~~~iIF~~tk~~a~~l~----~~L~~~g~~~~~lHg~~sq~~R~~~l~~F~~g~~~vLVaTD-vaaRGiD 310 (457) T PRK10590 236 LSQMIGKGNWQQVLVFTRTKHGANHLA----EQLNKDGIRSAAIHGNKSQGARTRALADFKSGDIRVLVATD-IAARGLD 310 (457) T ss_pred HHHHHHHCCCCCEEEEECHHHHHHHHH----HHHHHCCCCCEEEECCCCHHHHHHHHHHHHCCCCCEEEECC-CCCCCCC T ss_conf 999986158663358841199999999----99855699823232478999999999999869982999577-0115566 Q ss_pred CCCCCEEEE Q ss_conf 444417885 Q gi|254780945|r 392 YYKLILVIV 400 (700) Q Consensus 392 F~~LgLvVi 400 (700) |.++.+||- T Consensus 311 i~~V~~VIn 319 (457) T PRK10590 311 IEELPHVVN 319 (457) T ss_pred CCCCCEEEE T ss_conf 356887999 No 183 >pfam00271 Helicase_C Helicase conserved C-terminal domain. The Prosite family is restricted to DEAD/H helicases, whereas this domain family 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. Probab=96.62 E-value=0.0046 Score=43.58 Aligned_cols=59 Identities=20% Similarity=0.344 Sum_probs=52.5 Q ss_pred HCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEEECCC Q ss_conf 014578658996246422566768776213475486411120133455444417885210 Q gi|254780945|r 344 YTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKLILVIVDEQ 403 (700) Q Consensus 344 ~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvViDEQ 403 (700) ++...|+++..++|+++.++|++++++.++|+.+++|.|- .+.+++.+.+.-.||+-.- T Consensus 2 ~l~~~g~~~~~i~g~~~~~~R~~~~~~f~~~~~~ilv~t~-~~~~Gid~~~~~~vi~~~~ 60 (78) T pfam00271 2 LLRKPGIKVARLHGGLSQEEREEILEDFRNGKSKVLVATD-VAGRGIDLPDVNVVINYDL 60 (78) T ss_pred CHHHCCCCEEEEECCCCHHHHHHHHHHHHCCCCEEEEEEC-CCCCCCCCCCCCEEEEECC T ss_conf 4556898599986979999999999999879973999925-6525677878999999789 No 184 >PRK06526 transposase; Provisional Probab=96.61 E-value=0.031 Score=37.07 Aligned_cols=130 Identities=15% Similarity=0.101 Sum_probs=77.5 Q ss_pred HHHHCCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHCCCCCCCCCCHHHHHHHH Q ss_conf 78620569998899986204589656566799999998766666667777655----55432035767877578999986 Q gi|254780945|r 192 DLLQKKSFPSIAEAFNIIHNPRKAKDFEWTSPARERLAYDELLAGQIALLLMR----KQFKKEIGIPINVEGKIAQKILR 267 (700) Q Consensus 192 ~ll~k~~L~s~~eAL~~IH~P~~~~dle~~~~ArkRLafeELl~~QL~l~~~r----~~~~~~~~~~~~~~~~~~~~f~~ 267 (700) .++++.+|+.+.+++..+=. .+....+-|+|++..-+.-.... +..+..+.-.++.... ++.|.- T Consensus 7 ~llr~LrL~~ma~~~~~~~~----------~a~~~~~s~~e~L~~Lle~E~~~R~~rr~~rrlk~A~fp~~kt-Le~fd~ 75 (254) T PRK06526 7 YLTRALKAPSLAGAVERLAE----------RARAESWSHEEFLAACLQREVAARESHGGEGRIRAARFPSRKS-LEEFDF 75 (254) T ss_pred HHHHHCCHHHHHHHHHHHHH----------HHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCC-HHHCCC T ss_conf 99998383789999999998----------8876599999999999999999999989999999779799889-876786 Q ss_pred HCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHH Q ss_conf 30246798899999999984100134307886214422369999997334443054588612799999 Q gi|254780945|r 268 NIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQ 335 (700) Q Consensus 268 ~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~ 335 (700) .-.=.+...|..-+.... - -...-|-++-|..|+|||-+|..-...|+.+||.|.++-=++++.+ T Consensus 76 ~~~~~l~~~~i~~La~~~-f--i~~~~Nvil~G~~GtGKThLA~Alg~~A~~~G~~v~f~~~~~L~~~ 140 (254) T PRK06526 76 DHQRSLKRDTIAHLGTLD-F--VTGKENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFATAAQWVAR 140 (254) T ss_pred CCCCCCCHHHHHHHHCCC-H--HHCCCCEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEEHHHHHHH T ss_conf 567898999999986371-7--7658878998999986899999999999986996799877999999 No 185 >PRK08116 hypothetical protein; Validated Probab=96.61 E-value=0.0067 Score=42.33 Aligned_cols=65 Identities=23% Similarity=0.287 Sum_probs=47.0 Q ss_pred CCCCHHHHHHHHHH---HHHHCCCCCCE--EEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHH Q ss_conf 46798899999999---98410013430--7886214422369999997334443054588612799999 Q gi|254780945|r 271 FSPTKSQESAIKDI---LQDMSQKNRML--RILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQ 335 (700) Q Consensus 271 F~LT~~Q~~ai~eI---~~Dl~~~~pM~--RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~ 335 (700) |..+++|++|.+-- .++.......+ =+|.|++|+|||-.|...+-.+++.|+.|.++-=.++|.+ T Consensus 81 ~~~~~~~~~a~~~a~~Y~~~f~~~~~~~~GLll~G~~GtGKThLa~aIa~~l~~~g~~V~~~~~~~ll~~ 150 (262) T PRK08116 81 WLFRKGSEKAYKVAVKYVKKFEEMKKESVGLLLWGSPGNGKTYLAAAIANELIEKGVPVVFVNVPELLNR 150 (262) T ss_pred CCCCCCHHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEHHHHHHH T ss_conf 5689525999999999999898736468618998989998999999999999987993999889999999 No 186 >PRK11634 ATP-dependent RNA helicase DeaD; Provisional Probab=96.60 E-value=0.011 Score=40.51 Aligned_cols=98 Identities=23% Similarity=0.323 Sum_probs=73.1 Q ss_pred HHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCC Q ss_conf 99999973344430545886127999999998621101457865899624642256676877621347548641112013 Q gi|254780945|r 308 LVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQ 387 (700) Q Consensus 308 iVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q 387 (700) .-|++-.+ ......++.+-+.|---+.. +...|...|++++.|+|.++..+|..++++.++|+++|+|.|- +.. T Consensus 233 ~~aL~~~L-~~~~~~~~IIF~~Tk~~~~~----l~~~L~~~g~~~~~LHgdm~q~~R~~~l~~Fr~g~~~ILVaTD-vaA 306 (629) T PRK11634 233 NEALVRFL-EAEDFDAAIIFVRTKNATLE----VAEALERNGYNSAALNGDMNQALREQTLERLKDGRLDILIATD-VAA 306 (629) T ss_pred HHHHHHHH-HHCCCCEEEEEEECHHHHHH----HHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHCCCCCEEEECC-CCC T ss_conf 99999998-61588848999822788999----9999997699657656899999999999999759998898786-210 Q ss_pred CCCCCCCCCEEEE--------CCCCCCCHHHH Q ss_conf 3455444417885--------21013356889 Q gi|254780945|r 388 DSIQYYKLILVIV--------DEQHRFGVQQR 411 (700) Q Consensus 388 ~~v~F~~LgLvVi--------DEQHRFGV~QR 411 (700) .++.+.++.+||- +=-||=|=.=| T Consensus 307 RGLDi~~V~~VINyDlP~d~e~YVHRiGRTGR 338 (629) T PRK11634 307 RGLDVERISLVVNYDIPMDSESYVHRIGRTGR 338 (629) T ss_pred CCCCCCCCCEEEEECCCCCHHHCCCCCCCCCC T ss_conf 55772568889996898974340102583316 No 187 >cd04478 RPA2_DBD_D RPA2_DBD_D: A subfamily of OB folds corresponding to the OB fold of the central ssDNA-binding domain (DBD)-D of human RPA2 (also called RPA32). RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B; RPA2 DBD-D is a weak ssDNA-binding domain. RPA2 DBD-D is also involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. N-terminal to human RPA2 DBD-D is a domain containing all the known phosphorylation sites of RPA. Human RPA2 is phosphorylated in a cell cycle dependent manner in response to DNA dam Probab=96.54 E-value=0.027 Score=37.56 Aligned_cols=69 Identities=19% Similarity=0.271 Sum_probs=51.5 Q ss_pred EEEEEEEEEEEEECCCCCCEEEEEEECCCCEEEEEEE-CCCH--HHHHHHCCCCCEEEEEEEEEECCCEEEEECCE Q ss_conf 9999999897542158983389999818936999995-1887--89987328988899998997318779997786 Q gi|254780945|r 70 VTITGYISQHSSFQLQKRRPYKILLNDGTGEITLLFF-YRKT--EMLKNVFFEGRKITVTGKIKKLKNRIIMVHPH 142 (700) Q Consensus 70 vti~g~V~~~~~~~~~~r~~~~v~v~D~tg~i~lvfF-n~~~--~yl~k~lk~G~~v~vsGKv~~~~~~~qi~hPe 142 (700) +++.|.|.++.... ......+.|+||.|.+++| +... ..-...+++|..+.|+|+++.|++..++.--. T Consensus 2 V~~VG~V~~v~~~~----t~~~y~idDgTG~i~~~~w~~~~~~~~~~~~~i~~g~YVrV~G~lk~f~~~~~I~~~~ 73 (95) T cd04478 2 VTLVGVVRNVEEQS----TNITYTIDDGTGTIEVRQWLDDDNDDSSEVEPIEEGTYVRVFGNLKSFQGKKSIMAFS 73 (95) T ss_pred EEEEEEEEEEEECC----CEEEEEEECCCCCEEEEEECCCCCCCCCCCCCCCCCCEEEEEEEEEEECCEEEEEEEE T ss_conf 89999999877725----5799999879873999996377876422244332698999999980028913799999 No 188 >COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair] Probab=96.50 E-value=0.012 Score=40.48 Aligned_cols=170 Identities=18% Similarity=0.255 Sum_probs=99.1 Q ss_pred CCCCEEECHHHHHHHHHHHHHHCCCHHHHC-----CCCCCCC-----CCEEEEEEC---CCHHHHHHHHHHHHCC-CCEE Q ss_conf 776101010132278999975201011110-----2355766-----620799970---2002689999763103-8738 Q gi|254780945|r 420 APHVLLMTATPIPRTLVLTSLGDIDISKIT-----EKPAGRK-----PIKTVIIPI---NRIDEVIERLKVVLSE-GKKA 485 (700) Q Consensus 420 ~ph~L~MtATPIPRTLal~~ygdldvS~i~-----e~P~gR~-----~I~T~~~~~---~~~~~~~~~i~~~l~~-g~q~ 485 (700) ...++.||||==|......+-|-....... .-|.... -|.|..-.. +...++...+.+.+.. ++.+ T Consensus 403 ~~~~vl~SaTL~~~~~f~~~~~~~~~~~~~~~~~~~spf~~~~~~~~~v~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~ 482 (654) T COG1199 403 VASVVLTSATLSPLDSFSSLLGLLGLEEKLRFLSLPSPFNYEEQGQLYVPTDLPEPREPELLAKLAAYLREILKASPGGV 482 (654) T ss_pred CCEEEEECCCCCCHHHHHHHHHHCCCCCCCEEECCCCCCCHHHCCEEECCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCE T ss_conf 57599982776843559998602565312302147998676553114134445788874799999999999997479988 Q ss_pred EEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCE-EEEEECHHHHCCCCCCCCCE-- Q ss_conf 999712012211121014666666686637103120146998999999999755986-99998003410468887658-- Q gi|254780945|r 486 YWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTC-KLLIATTVIEVGIDVVDASI-- 562 (700) Q Consensus 486 y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~-~iLvaTtviEVGvdvpna~~-- 562 (700) .|.||--+ -....++.++..... +.+--++..++++.+++|+++.- -+||+|.-.-=|||+|...+ T Consensus 483 lvlF~Sy~--------~l~~~~~~~~~~~~~---~~v~~q~~~~~~~~l~~f~~~~~~~~lv~~gsf~EGVD~~g~~l~~ 551 (654) T COG1199 483 LVLFPSYE--------YLKRVAERLKDERST---LPVLTQGEDEREELLEKFKASGEGLILVGGGSFWEGVDFPGDALRL 551 (654) T ss_pred EEEECCHH--------HHHHHHHHHHHCCCC---CEEECCCCCCHHHHHHHHHHCCCCEEEEEECCEECCEECCCCCEEE T ss_conf 99917899--------999999986511645---3344568784699999997147864999723310315168876579 Q ss_pred EEE-----------------ECHHHCC------------HHHHHHHHHCCCCC-CCCEEEEEEECCCCC Q ss_conf 998-----------------5852547------------46887730116678-983599997088899 Q gi|254780945|r 563 III-----------------ENAEHFG------------LAQLHQLRGRVGRG-EEISSCILLYHPPLS 601 (700) Q Consensus 563 mvI-----------------~~aerfG------------LsqLHQLRGRVGRg-~~~s~c~l~~~~~~~ 601 (700) .|| +..+++| +--+-|==|||=|+ +..|+++|+ +.-.. T Consensus 552 vvI~~lPfp~p~dp~~~~r~~~~~~~g~~~f~~~~l~~A~~~l~QavGRlIR~~~D~G~ivll-D~R~~ 619 (654) T COG1199 552 VVIVGLPFPNPDDPLLKARLEFLKRLGGDPFEEFYLPPAVIKLRQAVGRLIRSEDDRGVIVLL-DKRYA 619 (654) T ss_pred EEEEECCCCCCCCHHHHHHHHHHHHHCCCCCCEEEHHHHHHHHHHHHCCCCCCCCCCEEEEEE-CCCCC T ss_conf 999826899899899999999998726997103458999999998743010478871699997-15332 No 189 >PRK05298 excinuclease ABC subunit B; Provisional Probab=96.49 E-value=0.016 Score=39.39 Aligned_cols=89 Identities=16% Similarity=0.338 Sum_probs=73.8 Q ss_pred HHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCC Q ss_conf 73344430545886127999999998621101457865899624642256676877621347548641112013345544 Q gi|254780945|r 314 MAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYY 393 (700) Q Consensus 314 ~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~ 393 (700) +-..++.|..+.+..=|-=.| +.+..+|...|++|..|++...+-||-+|+.++..|+.|++||-. |+-|++... T Consensus 439 i~~~~~~~er~LvttlTkkma----EdLt~yl~~~~ik~~YlHs~i~t~eR~eIl~~LR~G~~DVlVGIN-LLREGLDlP 513 (657) T PRK05298 439 IRKRVAKGERVLVTTLTKRMA----EDLTDYLKELGIKVRYLHSDIDTLERVEIIRDLRLGEFDVLVGIN-LLREGLDIP 513 (657) T ss_pred HHHHHHCCCEEEEEECHHHHH----HHHHHHHHHCCCEEEEEECCCCHHHHHHHHHHHHCCCCCEEEEEC-HHHCCCCCC T ss_conf 999963697699995459899----999999996798079962666188999999998588875897500-220457876 Q ss_pred CCCEEEECCCCCCC Q ss_conf 44178852101335 Q gi|254780945|r 394 KLILVIVDEQHRFG 407 (700) Q Consensus 394 ~LgLvViDEQHRFG 407 (700) -.+||-|=.-.+=| T Consensus 514 EVSLVaILDADKeG 527 (657) T PRK05298 514 EVSLVAILDADKEG 527 (657) T ss_pred CEEEEEEEECCCCC T ss_conf 13579887068522 No 190 >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=96.48 E-value=0.014 Score=39.89 Aligned_cols=54 Identities=22% Similarity=0.276 Sum_probs=38.0 Q ss_pred HHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEH Q ss_conf 899999999984100134307886214422369999997334443054588612 Q gi|254780945|r 276 SQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAP 329 (700) Q Consensus 276 ~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaP 329 (700) +|.+.+.++...+..+.+-+=||.|-.|+|||.+|-..+-.....++-+...-. T Consensus 2 ~~~~~~~~l~~~~~~~~~~~ill~GppGtGKT~la~~ia~~~~~~~~~~~~~~~ 55 (151) T cd00009 2 GQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNA 55 (151) T ss_pred CCHHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCEEEEEH T ss_conf 857999999999818799808998999988659999999971213798278547 No 191 >PRK08512 consensus Probab=96.44 E-value=0.047 Score=35.73 Aligned_cols=81 Identities=23% Similarity=0.273 Sum_probs=50.6 Q ss_pred HHHHHHCCCC--EECCCCCCCHHHH-HHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEE----CHHHCCHHHHHHHH Q ss_conf 6668663710--3120146998999-999999755986999980034104688876589985----85254746887730 Q gi|254780945|r 508 NSLHEHFTSS--IAIIHGRMSDIDK-ESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIE----NAEHFGLAQLHQLR 580 (700) Q Consensus 508 ~~l~~~~~~~--v~~lHGkm~~~ek-~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~----~aerfGLsqLHQLR 580 (700) .+||.+||.. .++|...+.+.+| ...+.+-+.-.+.||- .-||-.++..-|.. ++=||||+..--+. T Consensus 788 AyLKahYP~eF~aAlL~s~~~~~~k~~~~i~ear~~GI~Vlp------PdIN~S~~~ftv~~~~~~~~IrfGL~aIkgvg 861 (1185) T PRK08512 788 AYLKTYYPAEFMAALLTSEENNIDKVAKYIDEVKRLGIKLLP------PSINKSIREFSVAEFDGKDAIIFGLGAIKGVG 861 (1185) T ss_pred HHHHHCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHCCCEEEC------CCCCCCCCCCEEECCCCCCEEEECHHHHCCCC T ss_conf 998767899999998526889962699999999987996848------82046667643543798753773047647898 Q ss_pred HCC--------CCCCCCEEEEE Q ss_conf 116--------67898359999 Q gi|254780945|r 581 GRV--------GRGEEISSCIL 594 (700) Q Consensus 581 GRV--------GRg~~~s~c~l 594 (700) ..+ ..|.-.|.-=| T Consensus 862 ~~~i~~Iv~~R~~Gpf~sl~Df 883 (1185) T PRK08512 862 GAAIENIIEAREDGEFKDLEDF 883 (1185) T ss_pred HHHHHHHHHHHCCCCCCCHHHH T ss_conf 9999999985358999999999 No 192 >KOG1123 consensus Probab=96.44 E-value=0.014 Score=39.83 Aligned_cols=339 Identities=18% Similarity=0.217 Sum_probs=182.4 Q ss_pred CCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEE Q ss_conf 79889999999998410013430788621442236999999733444305458861279999999986211014578658 Q gi|254780945|r 273 PTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIV 352 (700) Q Consensus 273 LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v 352 (700) +-.-|++++......= ..-.-.+-=--|+|||+|-+-|+..+ .+.|.+++-.-|=.+|--..|+.|-.--+-.| T Consensus 303 iRpYQEksL~KMFGNg---RARSGiIVLPCGAGKtLVGvTAa~ti---kK~clvLcts~VSVeQWkqQfk~wsti~d~~i 376 (776) T KOG1123 303 IRPYQEKSLSKMFGNG---RARSGIIVLPCGAGKTLVGVTAACTI---KKSCLVLCTSAVSVEQWKQQFKQWSTIQDDQI 376 (776) T ss_pred CCCHHHHHHHHHHCCC---CCCCCEEEEECCCCCCEEEEEEEEEE---CCCEEEEECCCCCHHHHHHHHHHHHCCCCCCE T ss_conf 5753787899973788---54476189856998742545555455---14279995575669999999874501685545 Q ss_pred EEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCC-------------CCCCCCCCCEEEECCCCCCCHHH-HHHHHHCC Q ss_conf 99624642256676877621347548641112013-------------34554444178852101335688-99874025 Q gi|254780945|r 353 EIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQ-------------DSIQYYKLILVIVDEQHRFGVQQ-RLKLTQKA 418 (700) Q Consensus 353 ~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q-------------~~v~F~~LgLvViDEQHRFGV~Q-R~~L~~Kg 418 (700) +-.|+.- ||+ ..+.+.++|-|-+.+. +-+.=.--||.+.||-|---..- |..|.- T Consensus 377 ~rFTsd~--Ke~-------~~~~~gvvvsTYsMva~t~kRS~eaek~m~~l~~~EWGllllDEVHvvPA~MFRRVlsi-- 445 (776) T KOG1123 377 CRFTSDA--KER-------FPSGAGVVVTTYSMVAYTGKRSHEAEKIMDFLRGREWGLLLLDEVHVVPAKMFRRVLSI-- 445 (776) T ss_pred EEEECCC--CCC-------CCCCCCEEEEEEEHHHHCCCCCHHHHHHHHHHHCCEEEEEEEEHHCCCHHHHHHHHHHH-- T ss_conf 7720244--545-------78988579987313110566427799999998437101688421111269999999999-- Q ss_pred CCCCC-EEECHHHHHHHHHHHHHHCCCHHHHCCCCCCCCCCEEEEEECCCHHHHHHHHHHHHCCCC-----EE-EEEECC Q ss_conf 67761-010101322789999752010111102355766620799970200268999976310387-----38-999712 Q gi|254780945|r 419 TAPHV-LLMTATPIPRTLVLTSLGDIDISKITEKPAGRKPIKTVIIPINRIDEVIERLKVVLSEGK-----KA-YWICPQ 491 (700) Q Consensus 419 ~~ph~-L~MtATPIPRTLal~~ygdldvS~i~e~P~gR~~I~T~~~~~~~~~~~~~~i~~~l~~g~-----q~-y~VcPl 491 (700) ...|. |-+|||-.- -| + +..=-..+++ +++|++=.-+|++++ || =|-||+ T Consensus 446 v~aHcKLGLTATLvR--------ED-------d----KI~DLNFLIG----PKlYEAnWmdL~~kGhIA~VqCaEVWCpM 502 (776) T KOG1123 446 VQAHCKLGLTATLVR--------ED-------D----KITDLNFLIG----PKLYEANWMDLQKKGHIAKVQCAEVWCPM 502 (776) T ss_pred HHHHHHCCCEEEEEE--------CC-------C----CCCCCCEEEC----CHHHHCCHHHHHHCCCEEEEEEEEEECCC T ss_conf 998761265147851--------26-------6----3333300005----43211248989747804677653145577 Q ss_pred CCCC---------CCCCCCHH-----HHHHHHHHHH----------CCC------------CEECCCCCCCHHHHHHHHH Q ss_conf 0122---------11121014-----6666666866----------371------------0312014699899999999 Q gi|254780945|r 492 IEEK---------KESNFRSV-----VERFNSLHEH----------FTS------------SIAIIHGRMSDIDKESVMD 535 (700) Q Consensus 492 Iees---------e~~~~~~~-----~~~~~~l~~~----------~~~------------~v~~lHGkm~~~ek~~~m~ 535 (700) --|- .+--+-.+ -..++.|-++ |.+ +--.+-|--+..|+-+|++ T Consensus 503 t~eFy~eYL~~~t~kr~lLyvMNP~KFraCqfLI~~HE~RgDKiIVFsDnvfALk~YAikl~KpfIYG~Tsq~ERm~ILq 582 (776) T KOG1123 503 TPEFYREYLRENTRKRMLLYVMNPNKFRACQFLIKFHERRGDKIIVFSDNVFALKEYAIKLGKPFIYGPTSQNERMKILQ 582 (776) T ss_pred CHHHHHHHHHHHHHHHHEEEECCCCHHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHHCCCCEEECCCCHHHHHHHHH T ss_conf 88999999853145441224417403378899999998649838998250889999999708963778885558999998 Q ss_pred HHHCCC-EEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCC---CCCEEEEEEECC--CCC-H--HHHH Q ss_conf 975598-699998003410468887658998585254746887730116678---983599997088--899-8--7999 Q gi|254780945|r 536 SFKNGT-CKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRG---EEISSCILLYHP--PLS-K--NSYT 606 (700) Q Consensus 536 ~F~~g~-~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg---~~~s~c~l~~~~--~~~-~--~~~~ 606 (700) .|..+. +.-..-.-|=..-+|.|.|||+|-..++-=.=-|=-|==||+=|. +...|--+.|+- +.+ | -|.+ T Consensus 583 nFq~n~~vNTIFlSKVgDtSiDLPEAnvLIQISSH~GSRRQEAQRLGRILRAKk~~de~fnafFYSLVS~DTqEM~YStK 662 (776) T KOG1123 583 NFQTNPKVNTIFLSKVGDTSIDLPEANVLIQISSHGGSRRQEAQRLGRILRAKKRNDEEFNAFFYSLVSKDTQEMYYSTK 662 (776) T ss_pred HCCCCCCCCEEEEEECCCCCCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEECCHHHHHHHHH T ss_conf 53448733348875035765567766089997245662278999988998776337602000244431064188776666 Q ss_pred HHHHHHHHCHHHHHHHHHHHHCCCCCCCCCHHCCCCCCCCCCHHHHHHHHHHHHHH Q ss_conf 99999841425899999985206300026000698744000388759999999999 Q gi|254780945|r 607 RLSVLKNTEDGFLIAEEDLKQRKEGEILGIKQSGMPKFLIAQPELHDSLLEIARKD 662 (700) Q Consensus 607 Rl~~l~~~~dGf~iAe~Dl~lRG~G~~~G~~QsG~~~~~~~d~~~d~~ll~~a~~~ 662 (700) |-..|.+--=-|++- -++-|. .-.+++.++.-....+||..+-.. T Consensus 663 RQ~FLidQGYsfkVi---------t~L~gm--e~~~~l~y~skeeq~~LLq~Vl~a 707 (776) T KOG1123 663 RQQFLIDQGYSFKVI---------TNLPGM--ENLEDLAYASKEEQLELLQKVLLA 707 (776) T ss_pred HHHHHHHCCCEEEEE---------ECCCCC--CCCCCCCCCCHHHHHHHHHHHHHC T ss_conf 566554067068986---------058886--767320127889999999999843 No 193 >PTZ00110 helicase; Provisional Probab=96.43 E-value=0.031 Score=37.10 Aligned_cols=68 Identities=10% Similarity=0.200 Sum_probs=36.4 Q ss_pred HHHHHHHHCCCCCCCEEECHHHHHHHHHHHHHHCCCHHHHCCCCCCCCCCEEEEEECCCH------HHHHHHHHHHHCCC Q ss_conf 889987402567761010101322789999752010111102355766620799970200------26899997631038 Q gi|254780945|r 409 QQRLKLTQKATAPHVLLMTATPIPRTLVLTSLGDIDISKITEKPAGRKPIKTVIIPINRI------DEVIERLKVVLSEG 482 (700) Q Consensus 409 ~QR~~L~~Kg~~ph~L~MtATPIPRTLal~~ygdldvS~i~e~P~gR~~I~T~~~~~~~~------~~~~~~i~~~l~~g 482 (700) .|...|. +| ||+++ ||| -|-+-|.--+.+++ ..|+..|+.+.++ ..-+..|-..+... T Consensus 297 ~Q~~~L~-~G--~dIvV--ATP-GRLiDlL~~~~~~L----------~~v~yLVLDEADRMLDmGFe~qI~~Il~~i~pd 360 (602) T PTZ00110 297 FQTYALR-RG--VEILI--ACP-GRLIDFLESNVTNL----------RRVTYLVLDEADRMLDMGFEPQIRKIVSQIRPD 360 (602) T ss_pred HHHHHHC-CC--CCEEE--ECC-HHHHHHHHCCCCCC----------CCEEEEEEECHHHHHCCCCHHHHHHHHHHCCCC T ss_conf 9999871-69--99999--792-38999996499874----------310289987577663546299999999858978 Q ss_pred CEEEEEECCC Q ss_conf 7389997120 Q gi|254780945|r 483 KKAYWICPQI 492 (700) Q Consensus 483 ~q~y~VcPlI 492 (700) +|........ T Consensus 361 RQTlLFSAT~ 370 (602) T PTZ00110 361 RQTLMWSATW 370 (602) T ss_pred CEEEEEECCC T ss_conf 7799995589 No 194 >cd03524 RPA2_OBF_family RPA2_OBF_family: A family of oligonucleotide binding (OB) folds with similarity to the OB fold of the single strand (ss) DNA-binding domain (DBD)-D of human RPA2 (also called RPA32). RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). RPA contains six OB folds, which are involved in ssDNA binding and in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. This family also includes OB folds similar to those found in Escherichia coli SSB, the wedge domain of E. coli RecG (a branched-DNA-specific helicase), E. coli ssDNA specific exodeoxyribonuclease VII large subunit, Pyroco Probab=96.41 E-value=0.052 Score=35.36 Aligned_cols=68 Identities=28% Similarity=0.503 Sum_probs=54.0 Q ss_pred EEEEEEEEEEECCCCCCEEEEEEECCC-CEEEEEEECCCHHHHHHHCCCCCEEEEEEEEEECCCEEEEEC Q ss_conf 999998975421589833899998189-369999951887899873289888999989973187799977 Q gi|254780945|r 72 ITGYISQHSSFQLQKRRPYKILLNDGT-GEITLLFFYRKTEMLKNVFFEGRKITVTGKIKKLKNRIIMVH 140 (700) Q Consensus 72 i~g~V~~~~~~~~~~r~~~~v~v~D~t-g~i~lvfFn~~~~yl~k~lk~G~~v~vsGKv~~~~~~~qi~h 140 (700) +.|.|........ .+....+.+.|++ +.+.+.+|..........+++|..+.+.|+++.+++..++.. T Consensus 2 i~g~V~~~~~~~~-~~~~~~~~l~D~t~~~i~v~~~~~~~~~~~~~~~~g~~v~i~g~v~~~~~~~~l~~ 70 (75) T cd03524 2 IVGIVVAVEEIRT-EGKVLIFTLTDGTGGTIRVTLFGELAEELENLLKEGQVVYIKGKVKKFRGRLQLIV 70 (75) T ss_pred EEEEEEEEEEEEC-CCEEEEEEEECCCCCEEEEEEEEEHHHHHHHHHHCCCEEEEEEEEEECCCEEEEEE T ss_conf 7899999842003-86499999976999799999998825768778747829999803652366489999 No 195 >PRK08533 flagellar accessory protein FlaH; Reviewed Probab=96.40 E-value=0.0082 Score=41.65 Aligned_cols=48 Identities=10% Similarity=0.215 Sum_probs=38.8 Q ss_pred HHHHHHHCCCCCCE--EEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEH Q ss_conf 99998410013430--7886214422369999997334443054588612 Q gi|254780945|r 282 KDILQDMSQKNRML--RILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAP 329 (700) Q Consensus 282 ~eI~~Dl~~~~pM~--RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaP 329 (700) +|+.+-|..+.|-. -|+.||.|||||+.+..-++..+.+|..|.++.. T Consensus 11 d~ld~~lggGip~gs~~li~G~~GtGKsi~~~~~~~~~l~~g~~~~yis~ 60 (230) T PRK08533 11 DELHKRLGGGIPFGSIILIEGDESTGKSILSQRLAYGFLQNGYSVSYVSS 60 (230) T ss_pred HHHHHHHCCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEE T ss_conf 35788717898898489998689987899999999999878986999994 No 196 >cd04489 ExoVII_LU_OBF ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a single-strand-specific exonuclease which degrades ssDNA from both 3-prime and 5-prime ends. ExoVII plays a role in methyl-directed mismatch repair in vivo. ExoVII may also guard the genome from mutagenesis by removing excess ssDNA, since the build up of ssDNA would lead to SOS induction and PolIV-dependent mutagenesis. Probab=96.37 E-value=0.031 Score=37.14 Aligned_cols=70 Identities=19% Similarity=0.228 Sum_probs=51.9 Q ss_pred EEEEEEEEEEEEECCCCCCEEEEEEECCCCEEEEEEECCCHHHHHHHCCCCCEEEEEEEEEEC--CCEEEEECCE Q ss_conf 999999989754215898338999981893699999518878998732898889999899731--8779997786 Q gi|254780945|r 70 VTITGYISQHSSFQLQKRRPYKILLNDGTGEITLLFFYRKTEMLKNVFFEGRKITVTGKIKKL--KNRIIMVHPH 142 (700) Q Consensus 70 vti~g~V~~~~~~~~~~r~~~~v~v~D~tg~i~lvfFn~~~~yl~k~lk~G~~v~vsGKv~~~--~~~~qi~hPe 142 (700) +-|+|+|..... .+..-+-..+.|+...+.+++|......+...++.|++|.+.|+++.| +|++|+.--+ T Consensus 2 vwV~GEIs~~~~---~~sGh~Yf~LkD~~a~i~~v~~~~~~~~~~~~~~~G~~V~v~g~~~~y~~~G~~ql~v~~ 73 (78) T cd04489 2 VWVEGEISNLKR---PSSGHLYFTLKDEDASIRCVMWRSNARRLGFPLEEGMEVLVRGKVSFYEPRGGYQLIVEE 73 (78) T ss_pred EEEEEEECCCEE---CCCCEEEEEEECCCEEEEEEEEHHHHHHCCCCCCCCCEEEEEEEEEEECCCCEEEEEEEE T ss_conf 899999885582---899639999947881999999667883279998899899999999999898409999999 No 197 >pfam02562 PhoH PhoH-like protein. PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation. Probab=96.35 E-value=0.12 Score=32.45 Aligned_cols=139 Identities=19% Similarity=0.219 Sum_probs=77.6 Q ss_pred CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHC--CEEEEEHHHHHHHH-------HHHHHH Q ss_conf 679889999999998410013430788621442236999999733444305--45886127999999-------998621 Q gi|254780945|r 272 SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGG--QAVIMAPIGILAQQ-------HYEFIK 342 (700) Q Consensus 272 ~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~--Q~alMaPTEILA~Q-------H~~~~~ 342 (700) ..|..|+.+++.|.+ .+ .-.+.|--|||||.+|+.+++..+.+|. +..+.=|+--..+. .-+.+. T Consensus 4 P~~~~Q~~~~~~l~~-----~~-iv~~~GpAGtGKT~la~~~al~~l~~~~~~kiii~Rp~v~~g~~iGfLPG~~~eK~~ 77 (205) T pfam02562 4 PKTLGQKRYVEAIRK-----ND-IVFGIGPAGTGKTYLAVAAAVDALKDGKVKRIILTRPAVEAGEKLGFLPGDLEEKVD 77 (205) T ss_pred CCCHHHHHHHHHHHC-----CC-EEEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCCCCHHHHHH T ss_conf 898889999999717-----98-079989998609999999999999718943799975771257754558897899999 Q ss_pred HHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEEECCCCCCCHHHHHHHH-HCCCCC Q ss_conf 1014578658996246422566768776213475486411120133455444417885210133568899874-025677 Q gi|254780945|r 343 KYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKLILVIVDEQHRFGVQQRLKLT-QKATAP 421 (700) Q Consensus 343 ~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFGV~QR~~L~-~Kg~~p 421 (700) .|+.++--...-+.| +..+-.-+.+|.+.++ .-+.+ .+..|.| .+||+||=+-+-.+|=..+. .=|.+. T Consensus 78 p~~~p~~d~l~~~~~------~~~~~~l~~~~~Ie~~--pl~~i-RGrTf~n-~~iIvDEaQN~t~~~lk~ilTRiG~~S 147 (205) T pfam02562 78 PYLRPLYDALYDMLG------AEKVEKLIERGVIEIA--PLAYM-RGRTLND-AFIILDEAQNTTPEQMKMFLTRIGFNS 147 (205) T ss_pred HHHHHHHHHHHHHHC------HHHHHHHHHCCCEEEC--CHHHH-CCCCCCC-CEEEEECHHCCCHHHHHHHHHHCCCCC T ss_conf 999999999998728------9999999975975661--46765-5476256-889997221399999999984217996 Q ss_pred CCEEE Q ss_conf 61010 Q gi|254780945|r 422 HVLLM 426 (700) Q Consensus 422 h~L~M 426 (700) -+.++ T Consensus 148 K~vi~ 152 (205) T pfam02562 148 KMVVT 152 (205) T ss_pred EEEEE T ss_conf 89994 No 198 >PRK11776 ATP-dependent RNA helicase DbpA; Provisional Probab=96.35 E-value=0.036 Score=36.59 Aligned_cols=95 Identities=17% Similarity=0.206 Sum_probs=72.3 Q ss_pred HHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCC Q ss_conf 99733444305458861279999999986211014578658996246422566768776213475486411120133455 Q gi|254780945|r 312 IAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQ 391 (700) Q Consensus 312 ~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~ 391 (700) +.-+....+..++.+-+.|---++. +.++|...|+++..++|.++..+|..++.+.++|+.+|+|.|- +...++. T Consensus 233 L~~ll~~~~~~~~IIFcntk~~v~~----l~~~L~~~g~~~~~lHg~m~q~~R~~~l~~F~~g~~~iLVaTD-vaaRGID 307 (459) T PRK11776 233 LQRLLLHYRPESCVVFCNTKKECQE----VADALNAQGFSALALHGDLEQRDRDQVLVRFANRSCSVLVATD-VAARGLD 307 (459) T ss_pred HHHHHHHCCCCCEEEEECCHHHHHH----HHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHCCCCCEEEEHH-HHHCCCC T ss_conf 9999973687660376174899999----9999986799689987999999999999999779997998810-4347677 Q ss_pred CCCCCEEEEC--------CCCCCCHHHH Q ss_conf 4444178852--------1013356889 Q gi|254780945|r 392 YYKLILVIVD--------EQHRFGVQQR 411 (700) Q Consensus 392 F~~LgLvViD--------EQHRFGV~QR 411 (700) |.++.+||-= ==||=|=.=| T Consensus 308 i~~V~~VInyDlP~~~e~YvHRiGRTGR 335 (459) T PRK11776 308 IKSLEAVINYELARDPEVHVHRIGRTGR 335 (459) T ss_pred CCCCCEEEEECCCCCHHHHHHCCCHHHC T ss_conf 1359889997898974552020525137 No 199 >COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair] Probab=96.33 E-value=0.084 Score=33.70 Aligned_cols=103 Identities=24% Similarity=0.234 Sum_probs=74.1 Q ss_pred CCCCCHHHCCCCCEEEEEEEEEEEEEECCCCCCEEEEEEECCCCEEEEEEECCC--HHHHHHHCCCCCEEEEEEEEEECC Q ss_conf 444647888998789999999897542158983389999818936999995188--789987328988899998997318 Q gi|254780945|r 56 HYRPKISEISEERIVTITGYISQHSSFQLQKRRPYKILLNDGTGEITLLFFYRK--TEMLKNVFFEGRKITVTGKIKKLK 133 (700) Q Consensus 56 ~~~~~I~~l~~g~~vti~g~V~~~~~~~~~~r~~~~v~v~D~tg~i~lvfFn~~--~~yl~k~lk~G~~v~vsGKv~~~~ 133 (700) +.+..|.+ ..|+.|.|.|+|+.+.. +. -|...++.|+||.+.+.=|-.. ..| --..+|+.|.+.|+|+.-. T Consensus 203 ~~i~did~-~ig~tV~I~GeV~qikq--T~--GPTVFtltDetg~i~aAAFe~aGvRAy--P~ievGdiV~ViG~V~~r~ 275 (715) T COG1107 203 TLIDDLDE-MIGKTVRIEGEVTQIKQ--TS--GPTVFTLTDETGAIWAAAFEEAGVRAY--PEIEVGDIVEVIGEVTRRD 275 (715) T ss_pred CCHHHHHH-HCCCEEEEEEEEEEEEE--CC--CCEEEEEECCCCCEEHHHHCCCCCCCC--CCCCCCCEEEEEEEEEECC T ss_conf 10777775-34866999778999997--58--987999806888442666435774348--9987785699987775047 Q ss_pred CEEEEECCEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHH Q ss_conf 7799977868962643344444110000000000454300134578740 Q gi|254780945|r 134 NRIIMVHPHYIFHNSQDVNFPLIEAVYSLPTGLSVDLFKKIIVEALSRL 182 (700) Q Consensus 134 ~~~qi~hPe~~~~~~~~~~~~~I~PIYplt~GLsqk~irk~I~~aL~~~ 182 (700) |++|+---+++. + .|=...-+|+.|..+|+.- T Consensus 276 g~lQiE~~~me~----------------L-~G~ea~eVr~rid~ald~~ 307 (715) T COG1107 276 GRLQIEIEAMEK----------------L-TGDEAAEVRKRIDEALDRR 307 (715) T ss_pred CCEEEEEHHHHH----------------H-HCCHHHHHHHHHHHHHHHC T ss_conf 827876243577----------------5-1851899999999998620 No 200 >KOG0392 consensus Probab=96.32 E-value=0.13 Score=32.33 Aligned_cols=311 Identities=20% Similarity=0.333 Sum_probs=175.2 Q ss_pred CCCCCEEEEEECCCCCHHHHHHHHH--HHHHH-------HHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCC Q ss_conf 0134307886214422369999997--33444-------30545886127999999998621101457865899624642 Q gi|254780945|r 290 QKNRMLRILQGDVGSGKTLVALIAM--AAAVE-------AGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMP 360 (700) Q Consensus 290 ~~~pM~RLLQGDVGSGKTiVA~~A~--l~~~~-------~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~ 360 (700) ..+..+-.|.-|-|=|||+=++.-. =.+-. +-.-+.+.+| --|+----..+.++|+-+ +|.--+|. T Consensus 991 nky~LHGILcDDMGLGKTLQticilAsd~y~r~s~~~e~~~~PSLIVCP-sTLtGHW~~E~~kf~pfL--~v~~yvg~-- 1065 (1549) T KOG0392 991 NKYKLHGILCDDMGLGKTLQTICILASDHYKRRSESSEFNRLPSLIVCP-STLTGHWKSEVKKFFPFL--KVLQYVGP-- 1065 (1549) T ss_pred HHHCCCCEEECCCCCCHHHHHHHHHHHHHHHHCCCCHHHCCCCEEEECC-CHHHHHHHHHHHHHCCHH--HHHHHCCC-- T ss_conf 8733354542134632789999999788875024660113587589887-001148999998756301--23431377-- Q ss_pred HHHHHHHHHHHCCCCCEEEEECHHHCCCCCCC---CCCCEEEECCCCCCCHHHHHHHHH--CC-CCCCCEEECHHHHHHH Q ss_conf 25667687762134754864111201334554---444178852101335688998740--25-6776101010132278 Q gi|254780945|r 361 QAHRRKALERIAHGQAHIIIGTHALFQDSIQY---YKLILVIVDEQHRFGVQQRLKLTQ--KA-TAPHVLLMTATPIPRT 434 (700) Q Consensus 361 ~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F---~~LgLvViDEQHRFGV~QR~~L~~--Kg-~~ph~L~MtATPIPRT 434 (700) ..+|..+....++. +|+|-.--.+-.++.| ..--++|.||-|=--= -+.+|.. |. ..-|-|+.|-|||--. T Consensus 1066 p~~r~~lR~q~~~~--~iiVtSYDv~RnD~d~l~~~~wNYcVLDEGHVikN-~ktkl~kavkqL~a~hRLILSGTPIQNn 1142 (1549) T KOG0392 1066 PAERRELRDQYKNA--NIIVTSYDVVRNDVDYLIKIDWNYCVLDEGHVIKN-SKTKLTKAVKQLRANHRLILSGTPIQNN 1142 (1549) T ss_pred HHHHHHHHHHCCCC--CEEEEEHHHHHHHHHHHHHCCCCEEEECCCCEECC-HHHHHHHHHHHHHHCCEEEEECCCCCCC T ss_conf 58777777543666--56996589988789999855222699407604211-3889999999976402377408876667 Q ss_pred H-----------------------------------------------HHHH---------HHCCCHHHHCCCCCCCCCC Q ss_conf 9-----------------------------------------------9997---------5201011110235576662 Q gi|254780945|r 435 L-----------------------------------------------VLTS---------LGDIDISKITEKPAGRKPI 458 (700) Q Consensus 435 L-----------------------------------------------al~~---------ygdldvS~i~e~P~gR~~I 458 (700) . ||.. .--|..-++.++|| |-| T Consensus 1143 vleLWSLFdFLMPGfLGtEKqFqsrf~kpI~asRd~K~Sske~EaG~lAleaLHKqVLPF~LRRlKedVL~DLPp--KII 1220 (1549) T KOG0392 1143 VLELWSLFDFLMPGFLGTEKQFQSRFGKPILASRDPKSSSKEQEAGVLALEALHKQVLPFLLRRLKEDVLKDLPP--KII 1220 (1549) T ss_pred HHHHHHHHHHHCCCCCCCHHHHHHHHCCHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCH--HHH T ss_conf 999999999846665671888988755504542386556667876488999999988899999988888764885--653 Q ss_pred EEEEEECCC-HHHHHHHHHHH-------------HCCC------------------CEEEEEECC------C-------- Q ss_conf 079997020-02689999763-------------1038------------------738999712------0-------- Q gi|254780945|r 459 KTVIIPINR-IDEVIERLKVV-------------LSEG------------------KKAYWICPQ------I-------- 492 (700) Q Consensus 459 ~T~~~~~~~-~~~~~~~i~~~-------------l~~g------------------~q~y~VcPl------I-------- 492 (700) .-+...... -.++|+.+-+. ...| |-+.|.-|- | T Consensus 1221 QDyyCeLs~lQ~kLY~df~~~~k~~~~~~~d~~~~S~gt~~~HvFqaLqYlrKLcnHpaLvlt~~hp~la~i~~~l~~~~ 1300 (1549) T KOG0392 1221 QDYYCELSPLQKKLYRDFVKKAKQCVSSQIDGGEESLGTDKTHVFQALQYLRKLCNHPALVLTPVHPDLAAIVSHLAHFN 1300 (1549) T ss_pred HHEEECCCHHHHHHHHHHHHHHCCCCCCCCCCCHHCCCCCHHHHHHHHHHHHHHCCCCCEEECCCCCHHHHHHHHHHHHH T ss_conf 31034067899999999988750352003464321057514889999999998548964442777502999987887740 Q ss_pred ------C-------------------CC--CC--C------------CCCHHHHHH--HHHHHHCCC-CEECCCCCCCHH Q ss_conf ------1-------------------22--11--1------------210146666--666866371-031201469989 Q gi|254780945|r 493 ------E-------------------EK--KE--S------------NFRSVVERF--NSLHEHFTS-SIAIIHGRMSDI 528 (700) Q Consensus 493 ------e-------------------es--e~--~------------~~~~~~~~~--~~l~~~~~~-~v~~lHGkm~~~ 528 (700) + +| |+ . .+++.-+.. ..+++++|. ..--|-|-..+. T Consensus 1301 ~~LHdi~hspKl~AL~qLL~eCGig~~~~~~~g~~s~vsqHRiLIFcQlK~mlDlVekDL~k~~mpsVtymRLDGSVpp~ 1380 (1549) T KOG0392 1301 SSLHDIQHSPKLSALKQLLSECGIGNNSDSEVGTPSDVSQHRILIFCQLKSMLDLVEKDLFKKYMPSVTYMRLDGSVPPG 1380 (1549) T ss_pred HHHHHHHHCHHHHHHHHHHHHHCCCCCCCCCCCCCCHHCCCEEEEEEEHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCH T ss_conf 14777653526789999999817898875333671021155168764077799999999865114751699734888907 Q ss_pred HHHHHHHHHHCC-CEEEEEECH-HHHCCCCCCCCCEEEEECHHHCCHHHHHHH---HHCCCCCCCCEEEEEEECCCCCHH Q ss_conf 999999997559-869999800-341046888765899858525474688773---011667898359999708889987 Q gi|254780945|r 529 DKESVMDSFKNG-TCKLLIATT-VIEVGIDVVDASIIIIENAEHFGLAQLHQL---RGRVGRGEEISSCILLYHPPLSKN 603 (700) Q Consensus 529 ek~~~m~~F~~g-~~~iLvaTt-viEVGvdvpna~~mvI~~aerfGLsqLHQL---RGRVGRg~~~s~c~l~~~~~~~~~ 603 (700) .+.++.++|.++ .||+|.=|| |=-+|.|.-.|.+.|-..-|-=-.--| |- --|+|--.---..=|++...+-|. T Consensus 1381 ~R~kiV~~FN~DptIDvLlLTThVGGLGLNLTGADTVVFvEHDWNPMrDL-QAMDRAHRIGQKrvVNVyRlItrGTLEEK 1459 (1549) T KOG0392 1381 DRQKIVERFNEDPTIDVLLLTTHVGGLGLNLTGADTVVFVEHDWNPMRDL-QAMDRAHRIGQKRVVNVYRLITRGTLEEK 1459 (1549) T ss_pred HHHHHHHHHCCCCCEEEEEEEEECCCCCCCCCCCCEEEEEECCCCCHHHH-HHHHHHHHHCCCEEEEEEEEHHCCCHHHH T ss_conf 77999997168985138999620045322467875589972688832457-88778886267315666630230658998 Q ss_pred --HHHHHHHH Q ss_conf --99999999 Q gi|254780945|r 604 --SYTRLSVL 611 (700) Q Consensus 604 --~~~Rl~~l 611 (700) +.++.+.- T Consensus 1460 VMgLQkFKmn 1469 (1549) T KOG0392 1460 VMGLQKFKMN 1469 (1549) T ss_pred HHHHHHHHHH T ss_conf 7657888668 No 201 >PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed Probab=96.31 E-value=0.044 Score=35.94 Aligned_cols=160 Identities=18% Similarity=0.171 Sum_probs=86.3 Q ss_pred CCCCHHHHHHHCCCCCCCCCCCCCHHHCCCCCEEEEEEEEEEEEEECCCCCCEEEEEEECCCCEEEEEEECCCHHHHHHH Q ss_conf 85548987870897401344446478889987899999998975421589833899998189369999951887899873 Q gi|254780945|r 37 NETRFIDLLFYHPSSFIDRHYRPKISEISEERIVTITGYISQHSSFQLQKRRPYKILLNDGTGEITLLFFYRKTEMLKNV 116 (700) Q Consensus 37 GI~ti~DLL~~~PrrYeDr~~~~~I~~l~~g~~vti~g~V~~~~~~~~~~r~~~~v~v~D~tg~i~lvfFn~~~~yl~k~ 116 (700) .+.||-+|..+.=.--+ . ++ ..+.|.|+|..... + ..+. +-..+.|+...|.+++|......+.-. T Consensus 4 ~~lsVsel~~~ik~~le-~-------~~---~~v~V~GEIS~~~~-~-~sGH-~YF~LkD~~a~i~~v~~~~~~~~l~~~ 69 (443) T PRK00286 4 NPLSVSELNGYVKSLLE-R-------DL---GQVWVRGEISNFTR-P-SSGH-WYFTLKDEQAQIRCVMFRGSARRLKFK 69 (443) T ss_pred CCEEHHHHHHHHHHHHH-H-------HC---CCEEEEEEECCCEE-C-CCCE-EEEEEEECCCEEEEEEECCHHHHCCCC T ss_conf 86309999999999998-3-------48---98999999646662-8-9964-999998189289999992847528999 Q ss_pred CCCCCEEEEEEEEEEC--CCEEEEECCEEEECCCC-------------------CCCCCCCCCCCCCCHHH----HHHHH Q ss_conf 2898889999899731--87799977868962643-------------------34444411000000000----04543 Q gi|254780945|r 117 FFEGRKITVTGKIKKL--KNRIIMVHPHYIFHNSQ-------------------DVNFPLIEAVYSLPTGL----SVDLF 171 (700) Q Consensus 117 lk~G~~v~vsGKv~~~--~~~~qi~hPe~~~~~~~-------------------~~~~~~I~PIYplt~GL----sqk~i 171 (700) ++.|++|.+.|++..| +|.+|+.--+++..-.. +..-.+-.|-||..=|+ +..-+ T Consensus 70 ~~~G~~V~v~g~i~~Y~~~g~~ql~v~~i~~~g~G~L~~~~e~lk~kL~~eGlFd~~~Kk~lP~~P~~IgvITS~tgAa~ 149 (443) T PRK00286 70 PEEGMQVLVRGKVSVYEPRGDYQLIVEDIEPAGIGALAQAFEQLKEKLAAEGLFDPERKKPLPFFPKRIGVITSPTGAAI 149 (443) T ss_pred CCCCCEEEEEEEEEEECCCCCEEEEEEEEEECCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCEEEEEECCCHHHH T ss_conf 98999999999998986886189999781277921899999999999977779687778999878557999836843899 Q ss_pred HHHHHHHHHHHCCC-CCCCCHHHHHCCCCCCHHHHHHHHC Q ss_conf 00134578740468-4338977862056999889998620 Q gi|254780945|r 172 KKIIVEALSRLPVL-PEWIEKDLLQKKSFPSIAEAFNIIH 210 (700) Q Consensus 172 rk~I~~aL~~~~~i-~E~LP~~ll~k~~L~s~~eAL~~IH 210 (700) +-+++.+-+..|.. -...|..+--+.--.+..+||+.+. T Consensus 150 ~Di~~~~~~R~p~~~i~l~p~~VQG~~A~~~I~~ai~~~~ 189 (443) T PRK00286 150 RDILTVLSRRFPSVEVIIYPTLVQGEGAAASIVEAIERAN 189 (443) T ss_pred HHHHHHHHCCCCCEEEEEEECCCCHHHHHHHHHHHHHHHH T ss_conf 9999998504996599998145626547999999999985 No 202 >PRK01216 DNA polymerase IV; Validated Probab=96.30 E-value=0.0028 Score=45.36 Aligned_cols=65 Identities=20% Similarity=0.260 Sum_probs=30.2 Q ss_pred HHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEEC Q ss_conf 9999999841001343078862144223699999973344430545886127999999998621101457865899624 Q gi|254780945|r 279 SAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITG 357 (700) Q Consensus 279 ~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg 357 (700) ....+|.++........ .---+|+.|+ +|=+|+-.+=-+|. .++.|.+ +..++.+++++--.=.| T Consensus 123 ~~a~~ir~~I~~~~glt--~SiGia~nk~-lAKiAs~~~KP~G~--~~v~~~~---------~~~fl~~lpv~~i~GIG 187 (351) T PRK01216 123 ELARKIKNEILEKEKIT--VTVGIGPNKV-FAKIIADMAKPNGL--GVISPEE---------VKEFLNNLDIDDVPGIG 187 (351) T ss_pred HHHHHHHHHHHHHHCCC--EEEEECCCHH-HHHHHHHHCCCCCE--EEECHHH---------HHHHHHCCCCCEECCCC T ss_conf 99999999999997995--6885665499-99998872399957--9988368---------99987609943854857 No 203 >PRK00448 polC DNA polymerase III PolC; Validated Probab=96.22 E-value=0.12 Score=32.57 Aligned_cols=86 Identities=24% Similarity=0.320 Sum_probs=62.3 Q ss_pred CCCCCCCHHHCCC-CCEEEEEEEEEEEEEECCC-CCCEEEEEEECCCCEEEEEEECCCHH--HHHHHCCCCCEEEEEEEE Q ss_conf 3444464788899-8789999999897542158-98338999981893699999518878--998732898889999899 Q gi|254780945|r 54 DRHYRPKISEISE-ERIVTITGYISQHSSFQLQ-KRRPYKILLNDGTGEITLLFFYRKTE--MLKNVFFEGRKITVTGKI 129 (700) Q Consensus 54 Dr~~~~~I~~l~~-g~~vti~g~V~~~~~~~~~-~r~~~~v~v~D~tg~i~lvfFn~~~~--yl~k~lk~G~~v~vsGKv 129 (700) ......++.++.+ ...++|.|.|-+......+ +|..+.+.+.|.|+++.+.+|..... -....++.|+++.+.|++ T Consensus 220 ~~~~~~~~~~i~~~~~~v~v~G~vf~~e~~~~k~g~~i~~~~itD~t~si~~k~f~~~~~~~~~~~~i~~g~~v~v~g~~ 299 (1436) T PRK00448 220 IKEEITPMIEINEEERRVVVEGYVFKKEIKELKSGRHILTFKITDYTSSITVKKFLRDKEDLKKFDEIKKGDWVKVRGSV 299 (1436) T ss_pred CCCCEEEHHHHHCCCCEEEEEEEEEEEEEEECCCCCEEEEEEEEECCCCEEEEEECCCCCHHHHHHHCCCCCEEEEEEEE T ss_conf 77773458884242581899999986674431579879999998268868999944763327898516799789999998 Q ss_pred EECC--CEEEEE Q ss_conf 7318--779997 Q gi|254780945|r 130 KKLK--NRIIMV 139 (700) Q Consensus 130 ~~~~--~~~qi~ 139 (700) ..-. +.+.|. T Consensus 300 ~~d~~~~~~~~~ 311 (1436) T PRK00448 300 QNDTFTRDLVMN 311 (1436) T ss_pred EECCCCCCEEEE T ss_conf 512677721787 No 204 >cd04484 polC_OBF polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two different polymerases, polC and DnaE. The holoenzyme is thought to include the two different polymerases. At the B. subtilis replication fork, polC appears to be involved in leading strand synthesis and DnaE in lagging strand synthesis. Probab=96.22 E-value=0.083 Score=33.76 Aligned_cols=66 Identities=24% Similarity=0.248 Sum_probs=49.7 Q ss_pred EEEEEEEEEEEEEECCCC-CCEEEEEEECCCCEEEEEEECCCHH-HHHHHCCCCCEEEEEEEEEECCC Q ss_conf 899999998975421589-8338999981893699999518878-99873289888999989973187 Q gi|254780945|r 69 IVTITGYISQHSSFQLQK-RRPYKILLNDGTGEITLLFFYRKTE-MLKNVFFEGRKITVTGKIKKLKN 134 (700) Q Consensus 69 ~vti~g~V~~~~~~~~~~-r~~~~v~v~D~tg~i~lvfFn~~~~-yl~k~lk~G~~v~vsGKv~~~~~ 134 (700) .|++.|.|-.......+. +..+...+.|.|++|.+.+|..... -.....+.|+++.+.|++.+-.. T Consensus 1 nV~i~G~IF~~E~relk~gk~i~~~~iTD~t~Si~~K~F~~~~~~~~~~~~~~G~~v~v~G~v~~D~f 68 (82) T cd04484 1 NVVVEGEVFDLEIRELKSGRKILTFKVTDYTSSITVKKFLRKDEKDKEELKSKGDWVRVRGKVQYDTF 68 (82) T ss_pred CEEEEEEEEEEEEEECCCCCEEEEEEEEECCCCEEEEEEECCCHHHHHHHHCCCCEEEEEEEEEECCC T ss_conf 98999999978989724898999999980889799999835854445665258979999999963178 No 205 >KOG0949 consensus Probab=96.19 E-value=0.013 Score=40.06 Aligned_cols=81 Identities=19% Similarity=0.368 Sum_probs=69.7 Q ss_pred CEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCC--CCEEEEE Q ss_conf 03120146998999999999755986999980034104688876589985852547468877301166789--8359999 Q gi|254780945|r 517 SIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGE--EISSCIL 594 (700) Q Consensus 517 ~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~--~~s~c~l 594 (700) .+|+-|.-|...++..|=--|+.|...+|.||.-.-.|||.|--|+|---+.=..-----||.-||-||-+ .-|..++ T Consensus 964 GiG~HHaglNr~yR~~VEvLFR~g~L~VlfaT~TLsLGiNMPCrTVvF~gDsLQL~plny~QmaGRAGRRGFD~lGnV~F 1043 (1330) T KOG0949 964 GIGVHHAGLNRKYRSLVEVLFRQGHLQVLFATETLSLGINMPCRTVVFAGDSLQLDPLNYKQMAGRAGRRGFDTLGNVVF 1043 (1330) T ss_pred CCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEEEEHHCCCCCCCEEEEEECCCCCCCCHHHHHHHCCCCCCCCCCCCCEEE T ss_conf 24411244016888799998644856899982110112688741689703522137145776624033445555565588 Q ss_pred EEC Q ss_conf 708 Q gi|254780945|r 595 LYH 597 (700) Q Consensus 595 ~~~ 597 (700) +.= T Consensus 1044 mgi 1046 (1330) T KOG0949 1044 MGI 1046 (1330) T ss_pred EEC T ss_conf 727 No 206 >COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair] Probab=96.18 E-value=0.045 Score=35.82 Aligned_cols=73 Identities=25% Similarity=0.258 Sum_probs=55.7 Q ss_pred CEEEEEEEEEEEEEECCCCCCEEEEEEECCCCEEEEEEECCCHHHHHHHCCCCCEEEEEEEEEEC--CCEEEEECCEE Q ss_conf 78999999989754215898338999981893699999518878998732898889999899731--87799977868 Q gi|254780945|r 68 RIVTITGYISQHSSFQLQKRRPYKILLNDGTGEITLLFFYRKTEMLKNVFFEGRKITVTGKIKKL--KNRIIMVHPHY 143 (700) Q Consensus 68 ~~vti~g~V~~~~~~~~~~r~~~~v~v~D~tg~i~lvfFn~~~~yl~k~lk~G~~v~vsGKv~~~--~~~~qi~hPe~ 143 (700) ..|-+.|+|.. ++..+..-+-+.+.|+...|+++.|.....++.-.++.|+.|.+.|+++.| +|.+|++--+. T Consensus 24 ~~V~v~GEISn---~t~~~sgH~YFtLKD~~A~i~c~mf~~~~~~l~f~p~eG~~V~v~G~is~Y~~rG~YQi~~~~~ 98 (440) T COG1570 24 GQVWVRGEISN---FTRPASGHLYFTLKDERAQIRCVMFKGNNRRLKFRPEEGMQVLVRGKISLYEPRGDYQIVAESM 98 (440) T ss_pred CEEEEEEEECC---CCCCCCCCEEEEECCCCCEEEEEEECCCCCCCCCCCCCCCEEEEEEEEEEECCCCCEEEEEECC T ss_conf 85999999637---7668886079997167716899997470002687866798899997788876988569998327 No 207 >PRK08744 consensus Probab=96.17 E-value=0.09 Score=33.47 Aligned_cols=127 Identities=14% Similarity=0.239 Sum_probs=72.1 Q ss_pred HHHHHHCCCC--EECCCCCCCHHHH-HHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEE-CHHHCCHHHHHHH---- Q ss_conf 6668663710--3120146998999-999999755986999980034104688876589985-8525474688773---- Q gi|254780945|r 508 NSLHEHFTSS--IAIIHGRMSDIDK-ESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIE-NAEHFGLAQLHQL---- 579 (700) Q Consensus 508 ~~l~~~~~~~--v~~lHGkm~~~ek-~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~-~aerfGLsqLHQL---- 579 (700) .+||.+||.. .++|...|...+| ...+.+-++-.+.|| -.-||-.....-++. ++=||||+..--+ T Consensus 787 AyLKahyP~eFmaA~L~~~~~~~~k~~~~i~ear~~gi~vl------pPdIN~S~~~f~~~~~~~Ir~GL~aIkgvg~~~ 860 (1195) T PRK08744 787 AWLKRHYPAEFMAATLSSDMDNTDKVVGFLDEVRNLGLTVL------PPRVNESAYMFEAASPDTIQYGLGAIKGVGQGA 860 (1195) T ss_pred HHHHHCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHCCCEEE------CCCCCCCCCCEEEECCCCEEECCCCCCCCCHHH T ss_conf 99986589999999844688997589999999998799695------884146788217607995564322113775999 Q ss_pred -----HHCCCCCCCCEEEEEEEC---CCCCHHHHHHH--------------HHHHHHCHHHHHHHHHHHHC--CCCCCCC Q ss_conf -----011667898359999708---88998799999--------------99984142589999998520--6300026 Q gi|254780945|r 580 -----RGRVGRGEEISSCILLYH---PPLSKNSYTRL--------------SVLKNTEDGFLIAEEDLKQR--KEGEILG 635 (700) Q Consensus 580 -----RGRVGRg~~~s~c~l~~~---~~~~~~~~~Rl--------------~~l~~~~dGf~iAe~Dl~lR--G~G~~~G 635 (700) .-|--.|.-.|..-++.. ...+....+.| ..|....+-..-|+..-+-+ |-.++|| T Consensus 861 v~~Iv~~R~~~Gpf~sl~Df~~Rv~~~~~nkr~lE~LI~aGAfD~~g~~R~~ll~~~~~~~~~~~~~~~~~~~gq~~LF~ 940 (1195) T PRK08744 861 CEAIVEERLRGGPYTTLLDFCTRVGTAKLNRRTLEAMINAGAMDGLGKNRASLMLQLPEVMKATEQMARERASGQNSLFG 940 (1195) T ss_pred HHHHHHHHHHCCCCCCHHHHHHHCCCCCCCHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCC T ss_conf 99999999848999999999974354569999999998678875768579999998999999999977877558867668 Q ss_pred CHHCC Q ss_conf 00069 Q gi|254780945|r 636 IKQSG 640 (700) Q Consensus 636 ~~QsG 640 (700) ..-.. T Consensus 941 ~~~~~ 945 (1195) T PRK08744 941 GPDPS 945 (1195) T ss_pred CCCCC T ss_conf 88766 No 208 >COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis] Probab=96.17 E-value=0.035 Score=36.68 Aligned_cols=72 Identities=18% Similarity=0.391 Sum_probs=62.4 Q ss_pred CEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEE Q ss_conf 45886127999999998621101457865899624642256676877621347548641112013345544441788 Q gi|254780945|r 323 QAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKLILVI 399 (700) Q Consensus 323 Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvV 399 (700) |+.+-+.|--.|.. +...+...|+++..|+|+++..+|..+++..++|+.+|+|.|-. ...++.+.++.+|| T Consensus 275 ~~IVF~~tk~~~~~----l~~~l~~~g~~~~~lhG~l~q~~R~~~l~~F~~g~~~iLVaTDv-aaRGiDi~~v~~Vi 346 (513) T COG0513 275 RVIVFVRTKRLVEE----LAESLRKRGFKVAALHGDLPQEERDRALEKFKDGELRVLVATDV-AARGLDIPDVSHVI 346 (513) T ss_pred EEEEEECCHHHHHH----HHHHHHHCCCEEEEEECCCCHHHHHHHHHHHHCCCCCEEEEECH-HHCCCCCCCCCEEE T ss_conf 39999576776999----99999978965999738899889999999997599898998065-44689966674799 No 209 >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=96.16 E-value=0.03 Score=37.24 Aligned_cols=117 Identities=20% Similarity=0.153 Sum_probs=62.4 Q ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCC Q ss_conf 07886214422369999997334443054588612799999999862110145786589962464225667687762134 Q gi|254780945|r 295 LRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHG 374 (700) Q Consensus 295 ~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G 374 (700) .-+|.|..|||||..+...+......++.+.+.++......--......... ...........-+.+.+.++.. T Consensus 4 ~ill~G~~GsGKTtl~~~la~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~ 77 (148) T smart00382 4 VILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVG------GKKASGSGELRLRLALALARKL 77 (148) T ss_pred EEEEECCCCHHHHHHHHHHHHHHCCCCCCEEEEEHHHHHHHHHHHHHHHHHC------CCCCCCCHHHHHHHHHHHHHHC T ss_conf 8999999970299999999987266899689987599898889876530001------1221051999999999999844 Q ss_pred CCEEEEECHHHCCCCCCCCCCCEEEECCCCCCCHHHHHHHHH-----------CCCCCCCEEECHH----HHHHHHH Q ss_conf 754864111201334554444178852101335688998740-----------2567761010101----3227899 Q gi|254780945|r 375 QAHIIIGTHALFQDSIQYYKLILVIVDEQHRFGVQQRLKLTQ-----------KATAPHVLLMTAT----PIPRTLV 436 (700) Q Consensus 375 ~~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFGV~QR~~L~~-----------Kg~~ph~L~MtAT----PIPRTLa 436 (700) ...+++|||=+++.-.....+.. +....-.+++++. ++|..+. T Consensus 78 -------------------~~~viiiDei~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~~~n~~~~~~~~~~~ 135 (148) T smart00382 78 -------------------KPDVLILDEITSLLDAEQEALLLLLEELRLLLLLKSEKNLTVILTTNDEKDLGPALLR 135 (148) T ss_pred -------------------CCCEEEEECCHHHCCCCCHHHHHHHHHHHHHCCCCCCCCEEEEEEECCCCCCCHHHHC T ss_conf -------------------9989998275021476207999999999985176578998999956995224987707 No 210 >PRK07211 replication factor A; Reviewed Probab=96.13 E-value=0.059 Score=34.89 Aligned_cols=107 Identities=12% Similarity=0.178 Sum_probs=74.4 Q ss_pred CCCHHHCCCCC-EEEEEEEEEEEEEEC-CCC-----CCEEEEEEECCCCEEEEEEECCCHHHHHHHCCCCCEEEE-EEEE Q ss_conf 46478889987-899999998975421-589-----833899998189369999951887899873289888999-9899 Q gi|254780945|r 58 RPKISEISEER-IVTITGYISQHSSFQ-LQK-----RRPYKILLNDGTGEITLLFFYRKTEMLKNVFFEGRKITV-TGKI 129 (700) Q Consensus 58 ~~~I~~l~~g~-~vti~g~V~~~~~~~-~~~-----r~~~~v~v~D~tg~i~lvfFn~~~~yl~k~lk~G~~v~v-sGKv 129 (700) ..+|.++.+|. .+++.|+|++...++ |.| .+.-.+.+-|+||+|+++.|+.+...+ ..|.+|..|-+ -|-+ T Consensus 162 ~~~I~~l~~g~~dv~l~g~VL~~~~iRtF~R~DGSeGrV~sl~lGDETG~IRvTLWDd~aDl~-~~l~~GdsVeIv~ayv 240 (473) T PRK07211 162 EYDADDLSLGQSDVTLRGEVLDTDAVRTFDRDDGSEGRVSNLTVGDETGRIRVTLWDDQADRA-DDLDAGASVEIVDGYV 240 (473) T ss_pred CCCCCCCCCCCCCCEEEEEEECCCCCCCEECCCCCCCEEEEEEEECCCCEEEEEEECCCCCCC-CCCCCCCEEEEECCEE T ss_conf 641122667887637999994378874114578986348888985587619999855874100-2589998799932586 Q ss_pred EECCCEEEEECCEE---EECCCCCCCCCCCCCCCCCCHH Q ss_conf 73187799977868---9626433444441100000000 Q gi|254780945|r 130 KKLKNRIIMVHPHY---IFHNSQDVNFPLIEAVYSLPTG 165 (700) Q Consensus 130 ~~~~~~~qi~hPe~---~~~~~~~~~~~~I~PIYplt~G 165 (700) +...+.+++.+-+. ...+.+-...+.+.||=.+..+ T Consensus 241 REr~g~lEL~vgd~g~I~k~d~~Vey~peftpI~dI~~~ 279 (473) T PRK07211 241 REREGSLELHVGDRGAVDEVDEDVEFVPDTTPIDSVEID 279 (473) T ss_pred ECCCCCEEEEECCCCEEEECCCCCCCCCCCCCHHHCCCC T ss_conf 224785678974631377556540025576527561358 No 211 >COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair] Probab=96.11 E-value=0.0062 Score=42.60 Aligned_cols=317 Identities=19% Similarity=0.260 Sum_probs=175.2 Q ss_pred CCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHC----CEEEEEHHHHHHHHHHHHHHHHCC Q ss_conf 4679889999999998410013430788621442236999999733444305----458861279999999986211014 Q gi|254780945|r 271 FSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGG----QAVIMAPIGILAQQHYEFIKKYTQ 346 (700) Q Consensus 271 F~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~----Q~alMaPTEILA~QH~~~~~~~~~ 346 (700) -+|-+-|.+.++-... +-....+++.|-.|.|.|||+=++..+......+. .+.+.+|++++..= -+.+.++.+ T Consensus 337 ~~lr~yq~~g~~wl~~-~l~~~~~~~ilad~mglGKTiq~i~~l~~~~~~~~~~~~~~liv~p~s~~~nw-~~e~~k~~~ 414 (866) T COG0553 337 AELRPYQLEGVNWLSE-LLRSNLLGGILADDMGLGKTVQTIALLLSLLESIKVYLGPALIVVPASLLSNW-KREFEKFAP 414 (866) T ss_pred CCCHHHHHHHHHHHHH-HHHHHCCCCEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCEEEECCHHHHHHH-HHHHHHHCC T ss_conf 1104889986699999-87762368775752334219999999877776401357872687147777679-999986141 Q ss_pred CCCCEEEEEECCCC-HHHHHHHHHH-HCCC---CCEEEEECHHHCCC----CCCCC--CCCEEEECCCCCCCHHHHHHHH Q ss_conf 57865899624642-2566768776-2134---75486411120133----45544--4417885210133568899874 Q gi|254780945|r 347 NTQIIVEIITGNMP-QAHRRKALER-IAHG---QAHIIIGTHALFQD----SIQYY--KLILVIVDEQHRFGVQQRLKLT 415 (700) Q Consensus 347 ~~~i~v~lLtg~~~-~~er~~i~~~-i~~G---~~~iiIGTHAL~q~----~v~F~--~LgLvViDEQHRFGV~QR~~L~ 415 (700) .+.. +....|... ...+.+.+.. +..+ ..++++-|-..+.. .-.++ .-+.+|+||-|+ ..=+.... T Consensus 415 ~~~~-~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~v~itty~~l~~~~~~~~~l~~~~~~~~v~DEa~~--ikn~~s~~ 491 (866) T COG0553 415 DLRL-VLVYHGEKSELDKKREALRDLLKLHLVIIFDVVITTYELLRRFLVDHGGLKKIEWDRVVLDEAHR--IKNDQSSE 491 (866) T ss_pred HHHH-HHHHCCCCCCCCHHHHHHHHHHHHCCCEEHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHH--HHCHHHHH T ss_conf 2100-23211531121036999999986213301018999999999750205542236776989978875--40477899 Q ss_pred H----CCCCCCCEEECHHHHHHHHHH-----------HHHH------------------CC------------------- Q ss_conf 0----256776101010132278999-----------9752------------------01------------------- Q gi|254780945|r 416 Q----KATAPHVLLMTATPIPRTLVL-----------TSLG------------------DI------------------- 443 (700) Q Consensus 416 ~----Kg~~ph~L~MtATPIPRTLal-----------~~yg------------------dl------------------- 443 (700) . +-...+.+.+|.|||+-.+.= .++| |. T Consensus 492 ~~~l~~~~~~~~~~LtgTPlen~l~eL~sl~~~f~~p~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~ 571 (866) T COG0553 492 GKALQFLKALNRLDLTGTPLENRLGELWSLLQEFLNPGLLGTSFAIFTRLFEKPIQAEEDIGPLEARELGIELLRKLLSP 571 (866) T ss_pred HHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHCCHHHHHHHHCHHHHHHHHHHHHHHHHHH T ss_conf 99999875543322899964560899999989985743266238999998601666543201024567789999864326 Q ss_pred --------CHHHHCCCCCCCCCCEEEEEECCCHHHHHHHHHH-------HHCC---C-----------CEEEEE------ Q ss_conf --------0111102355766620799970200268999976-------3103---8-----------738999------ Q gi|254780945|r 444 --------DISKITEKPAGRKPIKTVIIPINRIDEVIERLKV-------VLSE---G-----------KKAYWI------ 488 (700) Q Consensus 444 --------dvS~i~e~P~gR~~I~T~~~~~~~~~~~~~~i~~-------~l~~---g-----------~q~y~V------ 488 (700) |+.++.++|+-...+...-... ...++|+.... .+.. . -+.+++ T Consensus 572 f~lrr~k~~~~v~~~lp~k~e~~~~~~l~~-~q~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~lr~ 650 (866) T COG0553 572 FILRRTKEDVEVLKELPPKIEKVLECELSE-EQRELYEALLEGAEKNQQLLEDLEKADSDENRIGDSELNILALLTRLRQ 650 (866) T ss_pred HHHHHHHHHHHHHHHCCHHHHEEEECCCCH-HHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH T ss_conf 765400111678874863222001147637-7999999998640337899998875210155554677778788999998 Q ss_pred -E--C-CCCCC-CC---------------------------CCCCHHHHHH-----------------------HHHHHH Q ss_conf -7--1-20122-11---------------------------1210146666-----------------------666866 Q gi|254780945|r 489 -C--P-QIEEK-KE---------------------------SNFRSVVERF-----------------------NSLHEH 513 (700) Q Consensus 489 -c--P-lIees-e~---------------------------~~~~~~~~~~-----------------------~~l~~~ 513 (700) | | ++++. +. .......+.. ..+... T Consensus 651 ~~~~p~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~k~~~l~~ll~~~~~~~~~~~kvlifsq~t~~l~il~~~ 730 (866) T COG0553 651 ICNHPALVDEGLEATFDRIVLLLREDKDFDYLKKPLIQLSKGKLQALDELLLDKLLEEGHYHKVLIFSQFTPVLDLLEDY 730 (866) T ss_pred HHCCHHHHCCCCCCCCCHHHHHHCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHCCCCCCEEEEECCCHHHHHHHHH T ss_conf 72186443043211121244430001102455557886153056899999888998627772348886660599999999 Q ss_pred CC---CCEECCCCCCCHHHHHHHHHHHHCC--CEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCC Q ss_conf 37---1031201469989999999997559--869999800341046888765899858525474688773011667898 Q gi|254780945|r 514 FT---SSIAIIHGRMSDIDKESVMDSFKNG--TCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGEE 588 (700) Q Consensus 514 ~~---~~v~~lHGkm~~~ek~~~m~~F~~g--~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~ 588 (700) +. ..+.-++|.++..+++..+++|.++ ..-.|++|-.-.+|++.-.|+..++.+.+.-. ++--|--.|+-|-+. T Consensus 731 l~~~~~~~~~ldG~~~~~~r~~~i~~f~~~~~~~vflls~kagg~glnLt~a~~vi~~d~~wNp-~~e~Qa~dRa~RigQ 809 (866) T COG0553 731 LKALGIKYVRLDGSTPAKRRQELIDRFNADEEEKVFLLSLKAGGLGLNLTGADTVILFDPWWNP-AVELQAIDRAHRIGQ 809 (866) T ss_pred HHHCCCCEEEEECCCCCCHHHHHHHHHHCCCCCCEEEEEHHCCCCCCCCCCCCEEEECCCCCCH-HHHHHHHHHHHHCCC T ss_conf 9855875798737875212889999986466775799753005766121456524660776366-799999987876078 Q ss_pred CEEEEE Q ss_conf 359999 Q gi|254780945|r 589 ISSCIL 594 (700) Q Consensus 589 ~s~c~l 594 (700) ..-|.. T Consensus 810 ~~~v~v 815 (866) T COG0553 810 KRPVKV 815 (866) T ss_pred EEEEEE T ss_conf 015999 No 212 >cd04474 RPA1_DBD_A RPA1_DBD_A: A subfamily of OB folds corresponding to the second OB fold, the ssDNA-binding domain (DBD)-A, of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-A, RPA1 contains three other OB folds: DBD-B, DBD-C, and RPA1N. The major DNA binding activity of human RPA (hRPA) and Saccharomyces cerevisiae RPA (ScRPA) is associated with DBD-A and DBD-B of RPA1. RPA1 DBD-C is involved in trimerization. The ssDNA-binding mechanism is believed to be multistep and to involve conformational change. Although ScRPA and the hRPA have similar ssDNA-binding properties, they differ funct Probab=96.07 E-value=0.045 Score=35.84 Aligned_cols=84 Identities=18% Similarity=0.288 Sum_probs=57.0 Q ss_pred CHHHCCCC-CEEEEEEEEEEEEEEC-CCC----CCEEEEEEECC-CCEEEEEEECCCHHHHHHHCCCCCEEEEEE-EEEE Q ss_conf 47888998-7899999998975421-589----83389999818-936999995188789987328988899998-9973 Q gi|254780945|r 60 KISEISEE-RIVTITGYISQHSSFQ-LQK----RRPYKILLNDG-TGEITLLFFYRKTEMLKNVFFEGRKITVTG-KIKK 131 (700) Q Consensus 60 ~I~~l~~g-~~vti~g~V~~~~~~~-~~~----r~~~~v~v~D~-tg~i~lvfFn~~~~yl~k~lk~G~~v~vsG-Kv~~ 131 (700) ||++|.|+ ..-+|.|+|+....++ +.. ++.+.+.+.|+ +|.|.+++|+.--.-....+++|..+.++| +|+. T Consensus 1 pI~~L~p~~~~w~Ik~RV~~Ks~ir~~~n~~g~gk~f~~~L~De~g~eI~at~f~~~~dkf~~~l~~G~vY~is~g~Vk~ 80 (104) T cd04474 1 PISSLNPYQNKWTIKARVTNKSDIRTWSNARGEGKLFSFDLLDEDGGEIRATFFNDAVDKFYDLLEVGKVYYISKGSVKV 80 (104) T ss_pred CCCCCCCCCCCEEEEEEEEECCCCCCEECCCCCCEEEEEEEEECCCCEEEEEEEHHHHHHHHHHCCCCCEEEEECCEEEE T ss_conf 93014688674599999971577503506899735999999989989899999069999877334328799995659984 Q ss_pred CCCEE-EEECCEEE Q ss_conf 18779-99778689 Q gi|254780945|r 132 LKNRI-IMVHPHYI 144 (700) Q Consensus 132 ~~~~~-qi~hPe~~ 144 (700) .+..+ ..-|| |+ T Consensus 81 ank~y~~~~~~-ye 93 (104) T cd04474 81 ANKKFNTLKND-YE 93 (104) T ss_pred CCCCCCCCCCC-EE T ss_conf 34876689987-89 No 213 >cd04491 SoSSB_OBF SoSSB_OBF: A subfamily of OB folds similar to the OB fold of the crenarchaeote Sulfolobus solfataricus single-stranded (ss) DNA-binding protein (SSoSSB). SSoSSB has a single OB fold, and it physically and functionally interacts with RNA polymerase. In vitro, SSoSSB can substitute for the basal transcription factor TBP, stimulating transcription from promoters under conditions in which TBP is limiting, and supporting transcription when TBP is absent. SSoSSB selectively melts the duplex DNA of promoter sequences. It also relieves transcriptional repression by the chromatin Alba. In addition, SSoSSB activates reverse gyrase activity, which involves DNA binding, DNA cleavage, strand passage and ligation. SSoSSB stimulates all these steps in the presence of the chromatin protein, Sul7d. SSoSSB antagonizes the inhibitory effect of Sul7d on reverse gyrase supercoiling activity. It also physically and functionally interacts with Mini-chromosome Maintenance (MCM), stimulating Probab=96.05 E-value=0.059 Score=34.93 Aligned_cols=67 Identities=15% Similarity=0.274 Sum_probs=49.5 Q ss_pred EEEEEEEEEEEEC-C----CCCCEEEEEEECCCCEEEEEEECCCHHHHHHHCCCCCEEEEE-EEEEECCCEEEEEC Q ss_conf 9999998975421-5----898338999981893699999518878998732898889999-89973187799977 Q gi|254780945|r 71 TITGYISQHSSFQ-L----QKRRPYKILLNDGTGEITLLFFYRKTEMLKNVFFEGRKITVT-GKIKKLKNRIIMVH 140 (700) Q Consensus 71 ti~g~V~~~~~~~-~----~~r~~~~v~v~D~tg~i~lvfFn~~~~yl~k~lk~G~~v~vs-GKv~~~~~~~qi~h 140 (700) ++.|+|++....+ + ...+...+.+.|+||.+.+++|+.. . ...+++|+.+.+. |.++.|++.+++.- T Consensus 1 ~v~~~V~~~~~~r~f~~dg~~~~v~~~~i~D~TG~ir~t~W~~~--~-~~~l~~Gd~v~i~~~~v~~~~g~~el~~ 73 (82) T cd04491 1 SVEGKVLSISEPREFTRDGSEGKVQSGLVGDETGTIRFTLWDEK--A-ADDLEPGDVVRIENAYVREFNGRLELSV 73 (82) T ss_pred CEEEEEEECCCCEEEEECCCEEEEEEEEEECCCCEEEEEEECCC--C-CCCCCCCCEEEEEEEEEEEECCEEEEEE T ss_conf 98999998778879973997689999999989987999996874--4-4555899999996899988899799998 No 214 >COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair] Probab=96.01 E-value=0.039 Score=36.30 Aligned_cols=127 Identities=14% Similarity=0.317 Sum_probs=89.0 Q ss_pred CCCCCHHHHHHHHHHHHH--HCCCCCCEEEEEECCCCCHHHHHHH-HHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCC Q ss_conf 246798899999999984--1001343078862144223699999-9733444305458861279999999986211014 Q gi|254780945|r 270 PFSPTKSQESAIKDILQD--MSQKNRMLRILQGDVGSGKTLVALI-AMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQ 346 (700) Q Consensus 270 PF~LT~~Q~~ai~eI~~D--l~~~~pM~RLLQGDVGSGKTiVA~~-A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~ 346 (700) +|++..+...+++.|..- |-.|..--|=..|-|- -++ -+-..+..|..+.+-.=|-=+|+ .+..+|. T Consensus 398 ~~E~e~s~~~vveQiIRPTGLlDP~ievRp~~~Qvd------DL~~EI~~r~~~~eRvLVTtLTKkmAE----dLT~Yl~ 467 (663) T COG0556 398 DYELEQSGGNVVEQIIRPTGLLDPEIEVRPTKGQVD------DLLSEIRKRVAKNERVLVTTLTKKMAE----DLTEYLK 467 (663) T ss_pred HHHHHHCCCCEEEEEECCCCCCCCCEEEECCCCCHH------HHHHHHHHHHHCCCEEEEEEEHHHHHH----HHHHHHH T ss_conf 487774558426887247788898526514877478------999999999964972999843688899----9999998 Q ss_pred CCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEEECCCCCCC Q ss_conf 5786589962464225667687762134754864111201334554444178852101335 Q gi|254780945|r 347 NTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKLILVIVDEQHRFG 407 (700) Q Consensus 347 ~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFG 407 (700) ..||+|..|++...+-||-+|+.++..|+.|++||-. |+-|++...-.+||-|=.--+=| T Consensus 468 e~gikv~YlHSdidTlER~eIirdLR~G~~DvLVGIN-LLREGLDiPEVsLVAIlDADKeG 527 (663) T COG0556 468 ELGIKVRYLHSDIDTLERVEIIRDLRLGEFDVLVGIN-LLREGLDLPEVSLVAILDADKEG 527 (663) T ss_pred HCCCEEEEEECCCHHHHHHHHHHHHHCCCCCEEEEEH-HHHCCCCCCCEEEEEEEECCCCC T ss_conf 6696478642440389999999997577874898501-33134788645579886068544 No 215 >PRK12366 replication factor A; Reviewed Probab=95.97 E-value=0.097 Score=33.24 Aligned_cols=87 Identities=20% Similarity=0.261 Sum_probs=63.9 Q ss_pred CCCCHHHCCCCCEEEEEEEEEEEEEEC-CCC-----CCEEEEEEECCCCEEEEEEECCCHHHHHHHCCCCCEEEEEEEEE Q ss_conf 446478889987899999998975421-589-----83389999818936999995188789987328988899998997 Q gi|254780945|r 57 YRPKISEISEERIVTITGYISQHSSFQ-LQK-----RRPYKILLNDGTGEITLLFFYRKTEMLKNVFFEGRKITVTGKIK 130 (700) Q Consensus 57 ~~~~I~~l~~g~~vti~g~V~~~~~~~-~~~-----r~~~~v~v~D~tg~i~lvfFn~~~~yl~k~lk~G~~v~vsGKv~ 130 (700) ...+|.++.+|...++.|+|.+...++ |.| ++--.+.+.|+||+|+++.|+..... .+..|+.+.|.|=++ T Consensus 174 ~~y~I~el~~~~~~ti~G~V~~~~~irtF~r~DGS~G~v~sl~l~DeTGsIRvTLWdd~ad~---~v~kGD~V~V~Gy~~ 250 (649) T PRK12366 174 DNYKIPELMPNLLKTINGEITKAYPKKEFTKKDGTEGQLKSFIVKDETGSIRVTLWNELTDI---EVKKGDIVEVSGYVK 250 (649) T ss_pred CCCCHHHHCCCCCCEEEEEEEECCCCEEEECCCCCCCEEEEEEEECCCCCEEEEEECCCCCC---CCCCCCEEEEEEEEC T ss_conf 77327782778752699999643686353247898646767899778885899985676654---335798999988872 Q ss_pred E-CCCEEEEECCEEEEC Q ss_conf 3-187799977868962 Q gi|254780945|r 131 K-LKNRIIMVHPHYIFH 146 (700) Q Consensus 131 ~-~~~~~qi~hPe~~~~ 146 (700) . |++.+++.--.+.+. T Consensus 251 egy~g~lel~~~n~~I~ 267 (649) T PRK12366 251 QGYSGNTELSVDNIGIV 267 (649) T ss_pred CCCCCCEEEEECCEEEC T ss_conf 56324048887537850 No 216 >PRK07952 DNA replication protein DnaC; Validated Probab=95.95 E-value=0.038 Score=36.39 Aligned_cols=97 Identities=21% Similarity=0.324 Sum_probs=64.4 Q ss_pred CCCHHHHHHHHHHH---HHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCC Q ss_conf 67988999999999---841001343078862144223699999973344430545886127999999998621101457 Q gi|254780945|r 272 SPTKSQESAIKDIL---QDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNT 348 (700) Q Consensus 272 ~LT~~Q~~ai~eI~---~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~ 348 (700) --.++|++|++.-. +-..++.. .=|..|++|+|||-.|..-+-..++.|+.|.++.=.++|.+ ++.-|..- T Consensus 73 ~~~~~q~~al~~a~~y~enf~~~~~-gLlF~G~~GTGKThLA~aIan~Li~~G~sVlf~t~~dLl~~-----lr~t~~~~ 146 (242) T PRK07952 73 VECEGQMNALSKARQYVEEFDGNIA-SFIFSGKPGTGKNHLAAAICNELLLRGKSVLIITVADIMSA-----MKDTFRNS 146 (242) T ss_pred CCCHHHHHHHHHHHHHHHHHCCCCC-EEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEHHHHHHH-----HHHHHHCC T ss_conf 5877789999999999986543887-17997899997899999999999987994999779999999-----99998068 Q ss_pred CCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEEECCCCCCCHHH Q ss_conf 86589962464225667687762134754864111201334554444178852101335688 Q gi|254780945|r 349 QIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKLILVIVDEQHRFGVQQ 410 (700) Q Consensus 349 ~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFGV~Q 410 (700) .. .| .+++.. +.+-.|.|||| +|++. T Consensus 147 ---------~~--~e-~~~l~~---------------------l~~~dLLIiDd---lG~e~ 172 (242) T PRK07952 147 ---------ET--SE-EQLLND---------------------LSNVDLLVIDE---IGVQT 172 (242) T ss_pred ---------CC--CH-HHHHHH---------------------HHCCCEEEEEC---CCCCC T ss_conf ---------75--69-999998---------------------63189898730---14665 No 217 >cd01700 Pol_V Pol V was discovered in Escherichia coli as Umuc and UmuD proteins induced by UV. This branch of DNA polymerases is mostly found in bacteria. Pol V enables DNA replication to bypass covalently linked cys-sin T-T photo-dimers and 6-4 T-T or T-C photoproducts, which would otherwise stall the DNA replication fork. Probab=95.91 E-value=0.0062 Score=42.57 Aligned_cols=18 Identities=6% Similarity=0.132 Sum_probs=7.8 Q ss_pred HHHHHHHHHHHHHCCCCC Q ss_conf 899999999984100134 Q gi|254780945|r 276 SQESAIKDILQDMSQKNR 293 (700) Q Consensus 276 ~Q~~ai~eI~~Dl~~~~p 293 (700) +-.+.+.-|..|++++.| T Consensus 137 a~nk~lAKiAs~~~Kp~~ 154 (344) T cd01700 137 GPTKTLAKLANHAAKKWP 154 (344) T ss_pred CCCHHHHHHHHHHHCCCC T ss_conf 431789999788737788 No 218 >COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair] Probab=95.90 E-value=0.048 Score=35.60 Aligned_cols=93 Identities=17% Similarity=0.283 Sum_probs=74.0 Q ss_pred HHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCC Q ss_conf 44430545886127999999998621101457865899624642256676877621347548641112013345544441 Q gi|254780945|r 317 AVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKLI 396 (700) Q Consensus 317 ~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~Lg 396 (700) ...+|+-+.+.+|+=.-.+|-++-+++-++.. +++-.++-+ +.|++.-+...+|+++|+|-|. ++..+|.|.++- T Consensus 301 q~~~~~P~liF~p~I~~~eq~a~~lk~~~~~~--~i~~Vhs~d--~~R~EkV~~fR~G~~~lLiTTT-ILERGVTfp~vd 375 (441) T COG4098 301 QRKTGRPVLIFFPEIETMEQVAAALKKKLPKE--TIASVHSED--QHRKEKVEAFRDGKITLLITTT-ILERGVTFPNVD 375 (441) T ss_pred HHHCCCCEEEEECCHHHHHHHHHHHHHHCCCC--CEEEEECCC--CCHHHHHHHHHCCCEEEEEEEE-HHHCCCCCCCCE T ss_conf 87438828999250588999999998618864--215653367--0178999998758638999844-033266435623 Q ss_pred EEEECCCCCCCHHHHHHHHH Q ss_conf 78852101335688998740 Q gi|254780945|r 397 LVIVDEQHRFGVQQRLKLTQ 416 (700) Q Consensus 397 LvViDEQHRFGV~QR~~L~~ 416 (700) .+|++-.||-=. ..+|.+ T Consensus 376 V~Vlgaeh~vfT--esaLVQ 393 (441) T COG4098 376 VFVLGAEHRVFT--ESALVQ 393 (441) T ss_pred EEEECCCCCCCC--HHHHHH T ss_conf 999547764201--889999 No 219 >PRK01297 ATP-dependent RNA helicase RhlB; Provisional Probab=95.90 E-value=0.025 Score=37.88 Aligned_cols=75 Identities=20% Similarity=0.271 Sum_probs=61.6 Q ss_pred HCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEEE Q ss_conf 05458861279999999986211014578658996246422566768776213475486411120133455444417885 Q gi|254780945|r 321 GGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKLILVIV 400 (700) Q Consensus 321 G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvVi 400 (700) ..++.+-+.|---++. +.+.|...++++..|+|.++..+|..++++.++|+..|+|.|- +...++.|.++.+||- T Consensus 332 ~~k~IIF~nt~~~~~~----l~~~L~~~g~~~~~lhg~l~q~~R~~~l~~F~~g~~~iLVaTD-vaaRGLDi~~V~~VIn 406 (472) T PRK01297 332 WERVMVFANRKDEVRR----IEERLVKDGINAAQLSGDVPQHKRIKTLEGFREGKIRVLVATD-VAGRGIHIDGISHVIN 406 (472) T ss_pred CCCEEEECCCHHHHHH----HHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHCCCCCEEEECC-HHHCCCCCCCCCEEEE T ss_conf 8736896174999999----9987654496168643778999999999999769996998866-1336677578888999 No 220 >TIGR01448 recD_rel helicase, RecD/TraA family; InterPro: IPR006345 These sequences represent a family similar to RecD, the exodeoxyribonuclease V alpha chain of IPR006344 from INTERPRO. 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=95.90 E-value=0.059 Score=34.92 Aligned_cols=116 Identities=24% Similarity=0.345 Sum_probs=71.8 Q ss_pred HHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHH-----HHHHHHHH--------HHHHCCEEEE Q ss_conf 8999986302467988999999999841001343078862144223699-----99997334--------4430545886 Q gi|254780945|r 261 IAQKILRNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLV-----ALIAMAAA--------VEAGGQAVIM 327 (700) Q Consensus 261 ~~~~f~~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiV-----A~~A~l~~--------~~~G~Q~alM 327 (700) .+-+.-+.+-|+|.+.|++|+..+.. .+-| +|-|==|.|||=| ++++.+.. +...+.+.|- T Consensus 339 hi~eve~~~~~~l~~~Qk~AL~~~~~----~Kv~--iLTGGPGTGKtT~t~~i~~~~~~~~gl~l~~~~~vndd~~v~La 412 (769) T TIGR01448 339 HILEVEKKLRLKLSEEQKEALKTAIQ----DKVV--ILTGGPGTGKTTITKAIIELYEELKGLDLDKDDYVNDDLPVVLA 412 (769) T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHC----CCEE--EEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEE T ss_conf 99986875067706889999999860----9489--98577888616899999999987168775531245677648873 Q ss_pred EHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHH-HCCCCCCCCCCCEEEECCCCCC Q ss_conf 127999999998621101457865899624642256676877621347548641112-0133455444417885210133 Q gi|254780945|r 328 APIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHA-LFQDSIQYYKLILVIVDEQHRF 406 (700) Q Consensus 328 aPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHA-L~q~~v~F~~LgLvViDEQHRF 406 (700) |||-==|+| +.+.-..--..|.=|-| -|.-.-. |. ..++.+... |+|||| | T Consensus 413 APTGrAAkR----l~E~TG~~a~TIHRLlG---------------~~~~~~~---~~k~~~~~~~~D---L~IvDE---~ 464 (769) T TIGR01448 413 APTGRAAKR----LAEVTGLEALTIHRLLG---------------YGSDTKS---ENKNLEDPIDAD---LLIVDE---S 464 (769) T ss_pred CCCHHHHHH----CCCCCCCHHHHHHHHHC---------------CCCCCCC---CCHHHCCCCCCC---EEEEEC---C T ss_conf 774378885----11002621234778636---------------8988873---211011347877---699814---6 Q ss_pred CHHH Q ss_conf 5688 Q gi|254780945|r 407 GVQQ 410 (700) Q Consensus 407 GV~Q 410 (700) +--- T Consensus 465 SM~D 468 (769) T TIGR01448 465 SMVD 468 (769) T ss_pred CHHH T ss_conf 2188 No 221 >PRK03348 DNA polymerase IV; Provisional Probab=95.87 E-value=0.0057 Score=42.86 Aligned_cols=17 Identities=24% Similarity=0.485 Sum_probs=9.4 Q ss_pred EECCCCCCCHHHHHHHH Q ss_conf 31201469989999999 Q gi|254780945|r 518 IAIIHGRMSDIDKESVM 534 (700) Q Consensus 518 v~~lHGkm~~~ek~~~m 534 (700) +|+--..+++...+.-. T Consensus 336 lGV~~s~l~~~~q~~lf 352 (456) T PRK03348 336 VGVGFSGLSDVRQESLF 352 (456) T ss_pred EEEECCCCCHHHHHHHC T ss_conf 97650675466676525 No 222 >KOG1000 consensus Probab=95.86 E-value=0.054 Score=35.22 Aligned_cols=326 Identities=20% Similarity=0.295 Sum_probs=174.1 Q ss_pred HHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCC Q ss_conf 63024679889999999998410013430788621442236999999733444305458861279999999986211014 Q gi|254780945|r 267 RNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQ 346 (700) Q Consensus 267 ~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~ 346 (700) .-|||++- -..--|.++-.| ||--|.|=||||-|+ |++.+..+-+--.+.+|..+ -.--.+.+..||+ T Consensus 198 ~LlPFQre--------Gv~faL~RgGR~--llADeMGLGKTiQAl-aIA~yyraEwplliVcPAsv-rftWa~al~r~lp 265 (689) T KOG1000 198 RLLPFQRE--------GVIFALERGGRI--LLADEMGLGKTIQAL-AIARYYRAEWPLLIVCPASV-RFTWAKALNRFLP 265 (689) T ss_pred HHCCHHHH--------HHHHHHHCCCEE--EEECCCCCCHHHHHH-HHHHHHHHCCCEEEEECHHH-HHHHHHHHHHHCC T ss_conf 61703565--------478898538739--984124541688999-99999860486799922788-6899999998531 Q ss_pred CCCCEEEEEECCCCHHHHHHHHHHH-CCCCCEEEEECH-HHCCCCCCCCCCCEEEECCCCCCCHHHHHH------HHHCC Q ss_conf 5786589962464225667687762-134754864111-201334554444178852101335688998------74025 Q gi|254780945|r 347 NTQIIVEIITGNMPQAHRRKALERI-AHGQAHIIIGTH-ALFQDSIQYYKLILVIVDEQHRFGVQQRLK------LTQKA 418 (700) Q Consensus 347 ~~~i~v~lLtg~~~~~er~~i~~~i-~~G~~~iiIGTH-AL~q~~v~F~~LgLvViDEQHRFGV~QR~~------L~~Kg 418 (700) ... +|.+.-++.- -+..+ .++++.|+-=-. .+..+-..-..-++||+||-|-.--.|... +.+ T Consensus 266 s~~-pi~vv~~~~D------~~~~~~t~~~v~ivSye~ls~l~~~l~~~~~~vvI~DEsH~Lk~sktkr~Ka~~dllk-- 336 (689) T KOG1000 266 SIH-PIFVVDKSSD------PLPDVCTSNTVAIVSYEQLSLLHDILKKEKYRVVIFDESHMLKDSKTKRTKAATDLLK-- 336 (689) T ss_pred CCC-CEEEEECCCC------CCCCCCCCCEEEEEEHHHHHHHHHHHHCCCCEEEEEECHHHHHCCCHHHHHHHHHHHH-- T ss_conf 026-0478852667------7654566772789878999999998736541189971256541011223666656998-- Q ss_pred CCCCCEEECHHHH-HHHHHH---------HHHHC-----------------------------------------CCHHH Q ss_conf 6776101010132-278999---------97520-----------------------------------------10111 Q gi|254780945|r 419 TAPHVLLMTATPI-PRTLVL---------TSLGD-----------------------------------------IDISK 447 (700) Q Consensus 419 ~~ph~L~MtATPI-PRTLal---------~~ygd-----------------------------------------ldvS~ 447 (700) ..-|++.+|-||- -|-.-| ++|-+ +.--+ T Consensus 337 ~akhvILLSGTPavSRP~elytqi~avd~tlfp~f~efa~rYCd~k~vr~~~Dykg~tnl~EL~~lL~k~lMIRRlK~dv 416 (689) T KOG1000 337 VAKHVILLSGTPAVSRPSELYTQIRAVDHTLFPNFHEFAIRYCDGKQVRFCFDYKGCTNLEELAALLFKRLMIRRLKADV 416 (689) T ss_pred HHHHEEEECCCCCCCCCHHHHHHHHHHCCCCCCCHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHHHHHHHHH T ss_conf 76444772388556781442135554121004228998777537641102450377877899999999999999999988 Q ss_pred HCCCCCCCCCCEEEEEECCCHHHHHHHHHHHHCCCCEE----------------------EEEECCCCC--------CCC Q ss_conf 10235576662079997020026899997631038738----------------------999712012--------211 Q gi|254780945|r 448 ITEKPAGRKPIKTVIIPINRIDEVIERLKVVLSEGKKA----------------------YWICPQIEE--------KKE 497 (700) Q Consensus 448 i~e~P~gR~~I~T~~~~~~~~~~~~~~i~~~l~~g~q~----------------------y~VcPlIee--------se~ 497 (700) +.++|+.|..| +++.........-+.+.+.. ++..+ --||--|-+ +++ T Consensus 417 L~qLPpKrr~V-v~~~~gr~da~~~~lv~~a~-~~t~~~~~e~~~~~l~l~y~~tgiaK~~av~eyi~~~~~l~d~~~~K 494 (689) T KOG1000 417 LKQLPPKRREV-VYVSGGRIDARMDDLVKAAA-DYTKVNSMERKHESLLLFYSLTGIAKAAAVCEYILENYFLPDAPPRK 494 (689) T ss_pred HHHCCCCCEEE-EEECCCCCCHHHHHHHHHHH-HCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHCCCCCCCCCCE T ss_conf 75388010489-99747862267899998753-20012366665677887898751102088999997474445688735 Q ss_pred CC-CCHHHHHHHHHHHHCCC-CEEC--CCCCCCHHHHHHHHHHHHCCC-EE-EEEECHHHHCCCCCCCCCEEEEECHHH- Q ss_conf 12-10146666666866371-0312--014699899999999975598-69-999800341046888765899858525- Q gi|254780945|r 498 SN-FRSVVERFNSLHEHFTS-SIAI--IHGRMSDIDKESVMDSFKNGT-CK-LLIATTVIEVGIDVVDASIIIIENAEH- 570 (700) Q Consensus 498 ~~-~~~~~~~~~~l~~~~~~-~v~~--lHGkm~~~ek~~~m~~F~~g~-~~-iLvaTtviEVGvdvpna~~mvI~~aer- 570 (700) .= ..--....+.++..+-+ +||. +-|.-.+.+++..-+.|...+ +. -++|-|---||++.-.|++.|- ||- T Consensus 495 flVFaHH~~vLd~Iq~~~~~r~vg~IRIDGst~s~~R~ll~qsFQ~seev~VAvlsItA~gvGLt~tAa~~VVF--aEL~ 572 (689) T KOG1000 495 FLVFAHHQIVLDTIQVEVNKRKVGSIRIDGSTPSHRRTLLCQSFQTSEEVRVAVLSITAAGVGLTLTAASVVVF--AELH 572 (689) T ss_pred EEEEEHHHHHHHHHHHHHHHCCCCEEEECCCCCCHHHHHHHHHHCCCCCEEEEEEEEEECCCCEEEECCCEEEE--EEEC T ss_conf 99994148799999999987479758856989843478999873146314799999863144414651325899--9823 Q ss_pred CCHHHHHHHHHCCCCCCCCEE---EEEEECCCCCH----HHHHHHHHHHHHCHH Q ss_conf 474688773011667898359---99970888998----799999999841425 Q gi|254780945|r 571 FGLAQLHQLRGRVGRGEEISS---CILLYHPPLSK----NSYTRLSVLKNTEDG 617 (700) Q Consensus 571 fGLsqLHQLRGRVGRg~~~s~---c~l~~~~~~~~----~~~~Rl~~l~~~~dG 617 (700) |-=+-|-|---|+-|=+..|. -||+......+ .-.+.|+++.++.+| T Consensus 573 wnPgvLlQAEDRaHRiGQkssV~v~ylvAKgT~Ddy~Wp~l~~KL~vl~s~gl~ 626 (689) T KOG1000 573 WNPGVLLQAEDRAHRIGQKSSVFVQYLVAKGTADDYMWPMLQQKLDVLGSVGLS 626 (689) T ss_pred CCCCEEEECHHHHHHCCCCCEEEEEEEEECCCHHHHHHHHHHHHHHHHHHCCCC T ss_conf 787547751465664056651138999954845777789999998788662567 No 223 >PRK02406 DNA polymerase IV; Validated Probab=95.84 E-value=0.0068 Score=42.29 Aligned_cols=40 Identities=23% Similarity=0.229 Sum_probs=18.0 Q ss_pred CCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEE Q ss_conf 1442236999999733444305458861279999999986211014578658 Q gi|254780945|r 301 DVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIV 352 (700) Q Consensus 301 DVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v 352 (700) -+|..|++ |=+|.-.+--+| +. ++.|- .+.+++.+++|+- T Consensus 145 GIa~nk~l-AK~As~~~KP~G-~~-vv~~~---------~~~~~L~~lpv~~ 184 (355) T PRK02406 145 GVAPNKFL-AKIASDWNKPNG-QF-VITPE---------EVPAFVATLPVEK 184 (355) T ss_pred ECCCCHHH-HHHHHHHCCCCC-CE-EECHH---------HHHHHHHHCCCCC T ss_conf 02567999-999886239876-63-65678---------9999996188740 No 224 >KOG1802 consensus Probab=95.83 E-value=0.036 Score=36.64 Aligned_cols=80 Identities=29% Similarity=0.417 Sum_probs=62.2 Q ss_pred HCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHH-HHCCEEEEEHHHHHHHHHHHHHHHHCC Q ss_conf 3024679889999999998410013430788621442236999999733444-305458861279999999986211014 Q gi|254780945|r 268 NIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVE-AGGQAVIMAPIGILAQQHYEFIKKYTQ 346 (700) Q Consensus 268 ~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~-~G~Q~alMaPTEILA~QH~~~~~~~~~ 346 (700) +|| +|..+|..|++..+. .|. -|+||--|.|||++...-.++.+. .+.++.+.||.-|-..|..+.+.+- T Consensus 407 ~lp-kLN~SQ~~AV~~VL~-----rpl-sLIQGPPGTGKTvtsa~IVyhl~~~~~~~VLvcApSNiAVDqLaeKIh~t-- 477 (935) T KOG1802 407 NLP-KLNASQSNAVKHVLQ-----RPL-SLIQGPPGTGKTVTSATIVYHLARQHAGPVLVCAPSNIAVDQLAEKIHKT-- 477 (935) T ss_pred CCH-HHCHHHHHHHHHHHC-----CCC-EEEECCCCCCCEEHHHHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHC-- T ss_conf 961-224678999999975-----985-15546999883311689999999852895699816500289999999861-- Q ss_pred CCCCEEEEEECC Q ss_conf 578658996246 Q gi|254780945|r 347 NTQIIVEIITGN 358 (700) Q Consensus 347 ~~~i~v~lLtg~ 358 (700) |++|.-|+++ T Consensus 478 --gLKVvRl~ak 487 (935) T KOG1802 478 --GLKVVRLCAK 487 (935) T ss_pred --CCEEEEEEHH T ss_conf --8547640021 No 225 >cd04483 hOBFC1_like hOBFC1_like: A subfamily of OB folds similar to that found in human OB fold containing protein 1 (hOBFC1). Members of this group belong to the Replication protein A subunit 2 (RPA2) family of OB folds. RPA is a nuclear ssDNA binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). The OB fold domain of RPA2 has dual roles in ssDNA binding and trimerization. Probab=95.82 E-value=0.11 Score=32.79 Aligned_cols=67 Identities=18% Similarity=0.254 Sum_probs=51.2 Q ss_pred EEEEEEEEEEECCCCCCEEEEEEECCCCEEEEEEECCCH-H-------------------HHHHHCCCCCEEEEEEEEEE Q ss_conf 999998975421589833899998189369999951887-8-------------------99873289888999989973 Q gi|254780945|r 72 ITGYISQHSSFQLQKRRPYKILLNDGTGEITLLFFYRKT-E-------------------MLKNVFFEGRKITVTGKIKK 131 (700) Q Consensus 72 i~g~V~~~~~~~~~~r~~~~v~v~D~tg~i~lvfFn~~~-~-------------------yl~k~lk~G~~v~vsGKv~~ 131 (700) |.|.|++.... ...+...+.|+||-|+++.|-+.. . -.+..+.+|+-+.|.|+++. T Consensus 2 IlG~VVs~~er----e~f~~y~vDDgTGcI~Cv~W~~~~~~~~~s~~~~~~~~~~~~~a~~~~~~l~iG~llRVRG~I~~ 77 (92) T cd04483 2 ILGTVVSRRER----ETFYSFGVDDGTGVVNCVCWKNLSYAEVSSRSDAARILKSALMALKQAKVLEIGDLLRVRGSIRT 77 (92) T ss_pred EEEEEEEEEEE----CCEEEEEEECCCCEEEEEEEECCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCEEEEEEEEEE T ss_conf 37999999760----57169986089866998996045767766667844544445788876115775238999426888 Q ss_pred CCCEEEEECCE Q ss_conf 18779997786 Q gi|254780945|r 132 LKNRIIMVHPH 142 (700) Q Consensus 132 ~~~~~qi~hPe 142 (700) |++..|+.--. T Consensus 78 yRg~rei~as~ 88 (92) T cd04483 78 YRGEREINASV 88 (92) T ss_pred EECEEEEEEEE T ss_conf 70448996899 No 226 >cd01701 Pol_zeta Pol_zeta, a member of the Y-family of DNA polymerases. Y-family polymerases can transverse normal replication-blocking DNA lesions, such as cyclobutane pyrimidine dimers resulting from UV damage, at higher error rate. The Y-family has no 3'-5' exonuclease activity. Pol zeta has also been named Rev1; this subfamily is mainly present in eukaryotes. Probab=95.79 E-value=0.0064 Score=42.48 Aligned_cols=15 Identities=33% Similarity=0.330 Sum_probs=9.1 Q ss_pred CCCCCHHHHHHHHHC Q ss_conf 013356889987402 Q gi|254780945|r 403 QHRFGVQQRLKLTQK 417 (700) Q Consensus 403 QHRFGV~QR~~L~~K 417 (700) +.+||+..=..|... T Consensus 261 ~~~fG~k~G~~l~~~ 275 (405) T cd01701 261 QKVFGKKTGEKLYNY 275 (405) T ss_pred HHHHHHHHHHHHHHH T ss_conf 999778999999999 No 227 >PRK06835 DNA replication protein DnaC; Validated Probab=95.68 E-value=0.042 Score=36.07 Aligned_cols=48 Identities=15% Similarity=0.322 Sum_probs=40.6 Q ss_pred HHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHH Q ss_conf 4100134307886214422369999997334443054588612799999 Q gi|254780945|r 287 DMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQ 335 (700) Q Consensus 287 Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~ 335 (700) ...++. -|=|+.|+||.|||-.|..-+-..++.|+.|.++..++++.. T Consensus 178 ~F~~~~-~nLlf~G~~G~GKTfLa~~IA~ell~~g~sViy~ta~~L~~~ 225 (330) T PRK06835 178 NFDKNN-ENLLFYGNTGTGKTFLSNCIAKELLDRGKTVIYRTSDELIEN 225 (330) T ss_pred HCCCCC-CCEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEHHHHHHH T ss_conf 247888-866988999998899999999999987994999629999999 No 228 >PRK06921 hypothetical protein; Provisional Probab=95.68 E-value=0.061 Score=34.81 Aligned_cols=53 Identities=19% Similarity=0.220 Sum_probs=36.5 Q ss_pred HHHHHHC---CCCCCEEEEEECCCCCHHHHHHHHHHHHHHH-HCCEEEEEHHHHHHH Q ss_conf 9998410---0134307886214422369999997334443-054588612799999 Q gi|254780945|r 283 DILQDMS---QKNRMLRILQGDVGSGKTLVALIAMAAAVEA-GGQAVIMAPIGILAQ 335 (700) Q Consensus 283 eI~~Dl~---~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~-G~Q~alMaPTEILA~ 335 (700) +-..+.. ....-+=++.|+||+|||-.|...+-..++. |.+|.+|.=.|++.. T Consensus 103 eY~~~F~~i~~~~~~~l~f~G~~G~GKThLa~aIa~~Ll~~~~~~Vly~~~~~~~~~ 159 (265) T PRK06921 103 EYVKDFEKIQGCRKNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPFVEGFGD 159 (265) T ss_pred HHHHHHHHHHCCCCCCEEEECCCCCCHHHHHHHHHHHHHHHCCCEEEEEEHHHHHHH T ss_conf 999977876077766279972898988999999999999962971999887999999 No 229 >COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion] Probab=95.65 E-value=0.027 Score=37.56 Aligned_cols=54 Identities=20% Similarity=0.322 Sum_probs=36.9 Q ss_pred CCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEE-EEH Q ss_conf 798899999999984100134307886214422369999997334443054588-612 Q gi|254780945|r 273 PTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVI-MAP 329 (700) Q Consensus 273 LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~al-MaP 329 (700) .+.+-++++..|..+.+.+.-- -.+-|+||||||++.= |++... ++-|++. +.| T Consensus 32 ~~a~h~e~l~~l~~~i~d~qg~-~~vtGevGsGKTv~~R-al~~s~-~~d~~~~v~i~ 86 (269) T COG3267 32 WAADHNEALLMLHAAIADGQGI-LAVTGEVGSGKTVLRR-ALLASL-NEDQVAVVVID 86 (269) T ss_pred HHHHHHHHHHHHHHHHHCCCCE-EEEEECCCCCHHHHHH-HHHHHC-CCCCEEEEEEC T ss_conf 3200159999977777517855-9997447776369999-999855-78851799835 No 230 >KOG4150 consensus Probab=95.64 E-value=0.088 Score=33.56 Aligned_cols=286 Identities=15% Similarity=0.131 Sum_probs=163.4 Q ss_pred CCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHH--HHHHHHHHHHHCCCCC----CEEEEEECCCCHHHHHHHHHHHCCCC Q ss_conf 44223699999973344430545886127999--9999986211014578----65899624642256676877621347 Q gi|254780945|r 302 VGSGKTLVALIAMAAAVEAGGQAVIMAPIGIL--AQQHYEFIKKYTQNTQ----IIVEIITGNMPQAHRRKALERIAHGQ 375 (700) Q Consensus 302 VGSGKTiVA~~A~l~~~~~G~Q~alMaPTEIL--A~QH~~~~~~~~~~~~----i~v~lLtg~~~~~er~~i~~~i~~G~ 375 (700) .-|||..+.-.++.....-..-..+|-|.|.- |+-.-..++-.++..+ --|+.--|-+-.-++. +.+ -. T Consensus 310 ~~~GK~~~~~~~s~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~V~~~~I~~~K~A~V~~~D~~sE~~~~A--~~R---~~ 384 (1034) T KOG4150 310 RQAGKGTCPTSGSRKFQTLCHATNSLLPSEMVEHLRNGSKGQVVHVEVIKARKSAYVEMSDKLSETTKSA--LKR---IG 384 (1034) T ss_pred CCCCCCCCCCHHHHHHHHCCCCCCEECCHHHHHHHHCCCCCEEEEEEEHHHHHCCEEECCCCCCCHHHHH--HHH---CC T ss_conf 1157664645002456532865342214248998634676549998711332112465236777346778--876---27 Q ss_pred CEEEEECH-----HHCCC----CCCCCCCCEEEECCCCC----CCHHHHHHHH-----HCC----CCCCCEEECHHHHHH Q ss_conf 54864111-----20133----45544441788521013----3568899874-----025----677610101013227 Q gi|254780945|r 376 AHIIIGTH-----ALFQD----SIQYYKLILVIVDEQHR----FGVQQRLKLT-----QKA----TAPHVLLMTATPIPR 433 (700) Q Consensus 376 ~~iiIGTH-----AL~q~----~v~F~~LgLvViDEQHR----FGV~QR~~L~-----~Kg----~~ph~L~MtATPIPR 433 (700) .+.+.-.. |.+-. .+..-.+-++++||-|- ||-.--..|+ -|| .+-.+.--+||-=-| T Consensus 385 ~~~~~s~~~~~~s~~L~~~~~~~~~~~~~~~~~~~~~~~Y~~~~~~~~~~~~R~L~~L~~~F~~~~~~~~~~~~~~~K~~ 464 (1034) T KOG4150 385 LNTLYSHQAEAISAALAKSLCYNVPVFEELCKDTNSCALYLFPTKALAQDQLRALSDLIKGFEASINMGVYDGDTPYKDR 464 (1034) T ss_pred CCEEECCHHHHHHHHHCCCCCCCHHHHHHHHHHCCEEEEEECCHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCCH T ss_conf 52352488899988603333433076887774023001230333668999999999998778860584168478876777 Q ss_pred HHHHHH-H--HCCCHHHHCCCCCCCCCCEEEEEE----------CCCHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCC Q ss_conf 899997-5--201011110235576662079997----------020026899997631038738999712012211121 Q gi|254780945|r 434 TLVLTS-L--GDIDISKITEKPAGRKPIKTVIIP----------INRIDEVIERLKVVLSEGKKAYWICPQIEEKKESNF 500 (700) Q Consensus 434 TLal~~-y--gdldvS~i~e~P~gR~~I~T~~~~----------~~~~~~~~~~i~~~l~~g~q~y~VcPlIeese~~~~ 500 (700) |--|.- + .++.+-.+|.-|.|-|-.. .|-+ ++...++-....+-+..|-++.--||.-.--| + T Consensus 465 ~~~~~~~~~~~E~~Li~~DGSPs~~K~~V-~WNP~~~P~~~~~~~~~i~E~s~~~~~~i~~~~R~IAFC~~R~~CE---L 540 (1034) T KOG4150 465 TRLRSELANLSELELVTIDGSPSSEKLFV-LWNPSAPPTSKSEKSSKVVEVSHLFAEMVQHGLRCIAFCPSRKLCE---L 540 (1034) T ss_pred HHHHHHHCCCCCEEEEEECCCCCCCCEEE-EECCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEECCHHHHHH---H T ss_conf 78899855876049997159987741699-9689999830344323899999999999971873899632898999---9 Q ss_pred CHHHHHHHHHHHHCCC---CEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHH Q ss_conf 0146666666866371---0312014699899999999975598699998003410468887658998585254746887 Q gi|254780945|r 501 RSVVERFNSLHEHFTS---SIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLH 577 (700) Q Consensus 501 ~~~~~~~~~l~~~~~~---~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLH 577 (700) - .-..-+.+.+.-++ .|---.|--..+++-++-.+.--|+..-.+||.-.|.|||+-.....+-. .=-..+|-|| T Consensus 541 ~-~~~~R~I~~ET~~~LV~~i~SYRGGY~A~DRRKIE~~~F~G~L~giIaTNALELGIDIG~LDAVl~~-GFP~S~aNl~ 618 (1034) T KOG4150 541 V-LCLTREILAETAPHLVEAITSYRGGYIAEDRRKIESDLFGGKLCGIIATNALELGIDIGHLDAVLHL-GFPGSIANLW 618 (1034) T ss_pred H-HHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCEEEEEEECCHHHHCCCCCCCCEEEEC-CCCCHHHHHH T ss_conf 9-9999999987447899999861477535567777888517826899853607444243564368982-6850677899 Q ss_pred HHHHCCCCCCCCEEEEEEECC Q ss_conf 730116678983599997088 Q gi|254780945|r 578 QLRGRVGRGEEISSCILLYHP 598 (700) Q Consensus 578 QLRGRVGRg~~~s~c~l~~~~ 598 (700) |--||-||-++.|....+... T Consensus 619 QQ~GRAGRRNk~SLavyva~~ 639 (1034) T KOG4150 619 QQAGRAGRRNKPSLAVYVAFL 639 (1034) T ss_pred HHHHHCCCCCCCCEEEEEEEC T ss_conf 872110156898448999742 No 231 >TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype; InterPro: IPR013444 This entry represents a CRISPR-associated putative DEAH-box helicase, or Cas3, subtype found in Actinomyces naeslundii MG1, Geobacter sulfurreducens PCA, Gemmata obscuriglobus UQM 2246, and Desulfotalea psychrophila. The proteins include both DEAH and HD motifs.. Probab=95.62 E-value=0.013 Score=39.98 Aligned_cols=282 Identities=21% Similarity=0.256 Sum_probs=164.7 Q ss_pred CCCCHH-HHHHHHHHHHHHHHCCE-----EEEEHHHHH--------HHHH---HHHHHHHCCCC---------------- Q ss_conf 442236-99999973344430545-----886127999--------9999---98621101457---------------- Q gi|254780945|r 302 VGSGKT-LVALIAMAAAVEAGGQA-----VIMAPIGIL--------AQQH---YEFIKKYTQNT---------------- 348 (700) Q Consensus 302 VGSGKT-iVA~~A~l~~~~~G~Q~-----alMaPTEIL--------A~QH---~~~~~~~~~~~---------------- 348 (700) .|+||| .|-+.=.|++..+..|+ .--+|+=+. -.|- .+++.+-|... T Consensus 41 Tg~GKTlavi~~WlyAl~~~a~~~Grrr~~~~vP~RL~yvVdRR~vVD~~te~a~~i~~aL~~~pe~~Av~~vl~slr~~ 120 (975) T TIGR02621 41 TGLGKTLAVIAVWLYALAIDAEQVGRRRRRRKVPRRLVYVVDRRTVVDQSTEEAEKIREALGEAPELPAVRYVLESLRSA 120 (975) T ss_pred CCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEECCCEEEEEEECCEEECCHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCC T ss_conf 53236899999999998740003673242133683137887142453432789999998546888778999999973236 Q ss_pred --------CCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEEC-----HHHCCC--CCCCC----------CCCEEEECCC Q ss_conf --------8658996246422566768776213475486411-----120133--45544----------4417885210 Q gi|254780945|r 349 --------QIIVEIITGNMPQAHRRKALERIAHGQAHIIIGT-----HALFQD--SIQYY----------KLILVIVDEQ 403 (700) Q Consensus 349 --------~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGT-----HAL~q~--~v~F~----------~LgLvViDEQ 403 (700) .+.|.-|=|......|.-.--...=..+-||||| .=|+-. .+-|+ +=+|+|-||= T Consensus 121 ~~~Pa~a~pl~v~~LRGg~ad~~rDltew~~~P~rPavivgTvDm~gSRLLFrGYg~spk~rpihAal~G~DAl~VlDEA 200 (975) T TIGR02621 121 FAIPAEAEPLAVSTLRGGFADNDRDLTEWTRDPSRPAVIVGTVDMIGSRLLFRGYGCSPKSRPIHAALLGQDALIVLDEA 200 (975) T ss_pred CCCCCCCCCCEEEECCCCCCCHHHHHHHHHHCCCCCEEEEECCCCHHHHHHHHCCCCCCCCCCHHHHHHHCHHHHHHHHH T ss_conf 78776566523311167553022323345317899669983442023435441345676655112221311066543343 Q ss_pred CCCCHHHHH-------HHHHCCC-CCCCEEECHHHHHH---HHHHHHHHCCCHHHHC-----------CCCCCCCCCEEE Q ss_conf 133568899-------8740256-77610101013227---8999975201011110-----------235576662079 Q gi|254780945|r 404 HRFGVQQRL-------KLTQKAT-APHVLLMTATPIPR---TLVLTSLGDIDISKIT-----------EKPAGRKPIKTV 461 (700) Q Consensus 404 HRFGV~QR~-------~L~~Kg~-~ph~L~MtATPIPR---TLal~~ygdldvS~i~-----------e~P~gR~~I~T~ 461 (700) |==---|-. ..+-+.. .-|+..|||||.-= ++.+.--+|-.--+.+ .++..-+.+.+. T Consensus 201 Hl~~~f~e~L~~i~~E~~R~~d~~~~~V~~Ltatp~td~p~~~~~l~~~d~~~~~~~~rL~~kk~~~L~p~~de~~~~~~ 280 (975) T TIGR02621 201 HLSPAFQETLKQIRSEQQRLEDFLPLRVVELTATPRTDTPDTLTLLSAEDYKHPVLKKRLDAKKEVKLDPQSDEKRLSED 280 (975) T ss_pred HCCHHHHHHHHHHHHHCCCHHHCCCCEECCEEEECCCCCCCCCCCCCCCCCCCCHHHCCHHHHCCCCCCCCHHHHHHHHH T ss_conf 05878999999985110470122686203136630147886542235510103133204341202104782689998851 Q ss_pred EEECC----C-------HHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHH Q ss_conf 99702----0-------026899997631038738999712012211121014666666686637103120146998999 Q gi|254780945|r 462 IIPIN----R-------IDEVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDK 530 (700) Q Consensus 462 ~~~~~----~-------~~~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek 530 (700) +..-+ + -+++|++. ++|..|+=+.|+|--+ ..|...+..|++..+. +..+-|++..-|| T Consensus 281 v~~~~~~~~DGkaaaalteqaWsra-kels~g~~~~Vf~~~~--------~~v~~v~a~L~k~~~~-~~~ltG~vr~~~~ 350 (975) T TIGR02621 281 VKELDLKMKDGKAAAALTEQAWSRA-KELSSGEAILVFCNTV--------DEVKKVVAKLPKEARR-LEDLTGTVRGLER 350 (975) T ss_pred HHHHHHHHCCHHHHHHHHHHHHHHH-HHHCCCCEEEEEECCC--------CHHHHHHHHCCCCCCC-HHHHCCCCCCCCC T ss_conf 1355422003056788777776665-5412786699987684--------3068988645774540-7762881043347 Q ss_pred H------HHHHHHHC-----------CCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEEE- Q ss_conf 9------99999755-----------98699998003410468887658998585254746887730116678983599- Q gi|254780945|r 531 E------SVMDSFKN-----------GTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSC- 592 (700) Q Consensus 531 ~------~~m~~F~~-----------g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~c- 592 (700) + +++.+|.. -.+=.||||+-+|||+|+ +|+.+|-+++. |+ -|-|==|||-|=+...-| T Consensus 351 d~lar~~~~~~~~Lpp~~~~s~g~~~~g~~~vVaTst~EVGadl-dfdhLvt~~~~-~~--sl~QRfGRvnR~G~r~~~~ 426 (975) T TIGR02621 351 DMLARRGEIFNRFLPPYRSGSEGRPQQGTVYVVATSTGEVGADL-DFDHLVTDLAP-FE--SLVQRFGRVNRFGERLDGS 426 (975) T ss_pred CCCCCCCCHHHHCCCCCCCCCCCCCCCCCEEEEEECCEEECCCC-CCCHHHHCCCH-HH--HHHHHHHHHCCCCCCCCCE T ss_conf 85200131453148764567736689987799973242550344-31112211442-45--7865430020002231650 Q ss_pred -EEEEC Q ss_conf -99708 Q gi|254780945|r 593 -ILLYH 597 (700) Q Consensus 593 -~l~~~ 597 (700) -.||. T Consensus 427 ~~iVh~ 432 (975) T TIGR02621 427 IAIVHS 432 (975) T ss_pred EEEEEC T ss_conf 589856 No 232 >PRK04036 DNA polymerase II small subunit; Validated Probab=95.61 E-value=0.18 Score=31.18 Aligned_cols=103 Identities=20% Similarity=0.286 Sum_probs=70.9 Q ss_pred CCCHHHHHHHCCCCCCC-------CCCCCCHHHC----CCCCEEEEEEEEEEEEEECCCCCCEEEEEEECCCCEEEEEEE Q ss_conf 55489878708974013-------4444647888----998789999999897542158983389999818936999995 Q gi|254780945|r 38 ETRFIDLLFYHPSSFID-------RHYRPKISEI----SEERIVTITGYISQHSSFQLQKRRPYKILLNDGTGEITLLFF 106 (700) Q Consensus 38 I~ti~DLL~~~PrrYeD-------r~~~~~I~~l----~~g~~vti~g~V~~~~~~~~~~r~~~~v~v~D~tg~i~lvfF 106 (700) .-++.|..-||=-||+- |....++.++ ..++.+++.|-|...+. .++....+.++|.||.+.+.++ T Consensus 106 ~G~v~Dfv~~F~dRy~kL~~ii~~r~~~rpi~~i~~~~~~~~ev~IIGmV~d~r~---tknG~~~~~lED~tG~i~vli~ 182 (497) T PRK04036 106 EGEVEDFVKYFRDRYEKLRRIIRGRVNLRPIESLKKARKGEEEVSIIGMVSDIRS---TKNGHKIVELEDPTGTFSVLIM 182 (497) T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCCCEEEEEEECCCEE---CCCCCEEEEEECCCCEEEEEEE T ss_conf 5768999999999999999999727787875888863168960899999754131---3677479999878983999994 Q ss_pred CCCHHHH--HHHCCCCCEEEEEEEEEECCCEE---EEECCEE Q ss_conf 1887899--87328988899998997318779---9977868 Q gi|254780945|r 107 YRKTEML--KNVFFEGRKITVTGKIKKLKNRI---IMVHPHY 143 (700) Q Consensus 107 n~~~~yl--~k~lk~G~~v~vsGKv~~~~~~~---qi~hPe~ 143 (700) ..+...- ...+-..+-+-|.|++...++.+ .+..|++ T Consensus 183 k~~~~~~~~a~~ll~DeVIgv~G~~s~~g~~~f~~~i~~Pdi 224 (497) T PRK04036 183 KDREDLGELAEDLLPDEVIGVKGTLSGDGPLMFADEIIRPDV 224 (497) T ss_pred CCCHHHHHHHHHCCCCCEEEEEEEECCCCCEEEEEECCCCCC T ss_conf 783787777762457757899999869987799840477999 No 233 >TIGR00631 uvrb excinuclease ABC, B subunit; InterPro: IPR004807 All proteins in this family for which functions are known are DNA helicases that function in the nucleotide excision repair and are endonucleases that make the 3' incision next to DNA damage. They are part of a pathway requiring UvrA, UvrB, UvrC, and UvrD homologs.; GO: 0009381 excinuclease ABC activity, 0006289 nucleotide-excision repair, 0005737 cytoplasm, 0009380 excinuclease repair complex. Probab=95.59 E-value=0.019 Score=38.72 Aligned_cols=81 Identities=14% Similarity=0.306 Sum_probs=63.2 Q ss_pred HHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCC Q ss_conf 73344430545886127999999998621101457865899624642256676877621347548641112013345544 Q gi|254780945|r 314 MAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYY 393 (700) Q Consensus 314 ~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~ 393 (700) +-..+..|=.|.+..=|==+|+ .++.+|...||+|.-|++-..+-||-+|+.+|..|++|++||== |+=|++.-. T Consensus 440 I~~R~~~~ERvLVTTLTKkMAE----dLTdYl~E~Gikv~YLHSeIdt~ER~eiirdLR~G~fDVLVGIN-LLREGLDlP 514 (667) T TIGR00631 440 IRQRVARNERVLVTTLTKKMAE----DLTDYLKELGIKVRYLHSEIDTLERVEIIRDLRLGEFDVLVGIN-LLREGLDLP 514 (667) T ss_pred HHHHHHCCCCEEEEEHHHHHHH----HHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHCCCCCEEEEECC-HHHCCCCCH T ss_conf 9999972894899820167788----99999705883798714557899999999984478840886000-200246511 Q ss_pred CCCEEE Q ss_conf 441788 Q gi|254780945|r 394 KLILVI 399 (700) Q Consensus 394 ~LgLvV 399 (700) =.+||= T Consensus 515 EVSLVA 520 (667) T TIGR00631 515 EVSLVA 520 (667) T ss_pred HHHHHH T ss_conf 488997 No 234 >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=95.59 E-value=0.052 Score=35.37 Aligned_cols=48 Identities=23% Similarity=0.289 Sum_probs=35.8 Q ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHH Q ss_conf 7886214422369999997334443054588612799999999862110 Q gi|254780945|r 296 RILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKY 344 (700) Q Consensus 296 RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~ 344 (700) -|+-|+-|||||+.|+--++..+.+|..|+++.- |--..|..+++..+ T Consensus 2 tLi~G~pGsGKT~~a~qfl~~~a~~ge~~lyis~-eE~~~~l~~~~~~~ 49 (187) T cd01124 2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYVTL-EESPEELIENAESL 49 (187) T ss_pred EEEEECCCCCHHHHHHHHHHHHHHCCCCEEEEEE-CCCHHHHHHHHHHC T ss_conf 1587689999999999999999876997899995-07999999999983 No 235 >KOG1805 consensus Probab=95.53 E-value=0.26 Score=29.87 Aligned_cols=51 Identities=18% Similarity=0.295 Sum_probs=27.1 Q ss_pred EEEECCCCEEEEEEECCCHHHHHHHCCCCCEEEEEEEEEE-------CCCEEEEECCEEE Q ss_conf 9998189369999951887899873289888999989973-------1877999778689 Q gi|254780945|r 92 ILLNDGTGEITLLFFYRKTEMLKNVFFEGRKITVTGKIKK-------LKNRIIMVHPHYI 144 (700) Q Consensus 92 v~v~D~tg~i~lvfFn~~~~yl~k~lk~G~~v~vsGKv~~-------~~~~~qi~hPe~~ 144 (700) ..+.|+.|.....++- .+|-.-.+.+|+.+.+-|.... ..+++-+.||+.- T Consensus 127 le~~d~~g~~~~~~l~--~~W~~~s~e~Gd~I~lig~~~~d~~~vvD~d~g~lIl~PD~L 184 (1100) T KOG1805 127 LECGDDEGTTLDVYLR--DEWEEMSMEVGDTINLIGAKDSDKTFVVDDDNGLLILHPDDL 184 (1100) T ss_pred HHCCCCCCCEEEEEEE--CCCEEECCCCCCEEEEEECCCCCCCEEEECCCCEEEECCCCC T ss_conf 1205777714789981--673052045786577630025788688717877599657752 No 236 >COG5235 RFA2 Single-stranded DNA-binding replication protein A (RPA), medium (30 kD) subunit [DNA replication, recombination, and repair] Probab=95.52 E-value=0.083 Score=33.76 Aligned_cols=72 Identities=18% Similarity=0.270 Sum_probs=51.4 Q ss_pred CEEEEEEEEEEEEEECCCCCCEEEEEEECCCCEEEEEEECCCHHHH---HHHCCCCCEEEEEEEEEECCCEEEEECCEEE Q ss_conf 7899999998975421589833899998189369999951887899---8732898889999899731877999778689 Q gi|254780945|r 68 RIVTITGYISQHSSFQLQKRRPYKILLNDGTGEITLLFFYRKTEML---KNVFFEGRKITVTGKIKKLKNRIIMVHPHYI 144 (700) Q Consensus 68 ~~vti~g~V~~~~~~~~~~r~~~~v~v~D~tg~i~lvfFn~~~~yl---~k~lk~G~~v~vsGKv~~~~~~~qi~hPe~~ 144 (700) ..|++.|.|.....-. -.....++|+||.|.++||-.. .|. .+-+..|..+.|+|-++.|+|+..+....+. T Consensus 67 ~~V~fVGvvrni~~~t----tn~~~~iEDGTG~Ievr~W~~~-~~~~e~~~d~~~~~yvkV~G~lk~F~GK~~I~~~~i~ 141 (258) T COG5235 67 TNVQFVGVVRNIKTST----TNSMFVIEDGTGSIEVRFWPGN-SYEEEQCKDLEEQNYVKVNGSLKTFNGKRSISASHIS 141 (258) T ss_pred EEEEEEEEEEEEEECC----CCEEEEEECCCCEEEEEECCCC-CHHHHHCCCCCCCCEEEEECCEEEECCEEEEEHHHEE T ss_conf 6689999998401034----5418999348742898856887-2377754343326679994211220780577410052 No 237 >PRK03103 DNA polymerase IV; Reviewed Probab=95.49 E-value=0.011 Score=40.61 Aligned_cols=15 Identities=7% Similarity=0.164 Sum_probs=8.8 Q ss_pred HHHHHHHHCCCCCCC Q ss_conf 688773011667898 Q gi|254780945|r 574 AQLHQLRGRVGRGEE 588 (700) Q Consensus 574 sqLHQLRGRVGRg~~ 588 (700) ..+.++|-|-|++.. T Consensus 372 ~aiD~In~RfG~~~I 386 (410) T PRK03103 372 YVMDGIKEKYGDTAI 386 (410) T ss_pred HHHHHHHHHHCHHHH T ss_conf 999999986686389 No 238 >PRK00440 rfc replication factor C small subunit; Reviewed Probab=95.48 E-value=0.19 Score=30.89 Aligned_cols=204 Identities=16% Similarity=0.209 Sum_probs=96.7 Q ss_pred HHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEE Q ss_conf 89999999998410013430788621442236999999733444305458861279999999986211014578658996 Q gi|254780945|r 276 SQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEII 355 (700) Q Consensus 276 ~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lL 355 (700) +|+.+++.+.+-+.++..=+=|+.|--|||||-.|.+-+-.....+++.-+ ++ + T Consensus 20 g~~~~~~~L~~~i~~~~~phlLf~GppG~GKTt~a~~la~~l~~~~~~~~~-------------------------le-l 73 (318) T PRK00440 20 GQEEIVERLKSFVKEKNMPHLLFAGPPGTGKTTAALALARELYGEYWRENF-------------------------LE-L 73 (318) T ss_pred CCHHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCE-------------------------EE-E T ss_conf 969999999999987998669888959988999999999997698643476-------------------------89-5 Q ss_pred ECCCCH-H--HHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEEECCCCCCCHHHHHHHHHC---CCCCCCEEECHH Q ss_conf 246422-5--6676877621347548641112013345544441788521013356889987402---567761010101 Q gi|254780945|r 356 TGNMPQ-A--HRRKALERIAHGQAHIIIGTHALFQDSIQYYKLILVIVDEQHRFGVQQRLKLTQK---ATAPHVLLMTAT 429 (700) Q Consensus 356 tg~~~~-~--er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFGV~QR~~L~~K---g~~ph~L~MtAT 429 (700) ..|... . -|..+.+-.. |..+ .+..|+ ++|+||=|++.-..-.+|+.- -...-...++++ T Consensus 74 nasd~r~id~vr~~i~~~~~---------~~~~--~~~~~k---iiiiDE~d~l~~~aq~aL~~~mE~~~~~~~fil~~n 139 (318) T PRK00440 74 NASDERGIDVIRNKIKEFAR---------TAPV--GGAPFK---IIFLDEADNLTSDAQQALRRTMEMYSQTTRFILSCN 139 (318) T ss_pred CCCCCCCHHHHHHHHHHHHH---------HCCC--CCCCEE---EEEEECCCCCCHHHHHHHHHHHHCCCCCCEEEEECC T ss_conf 16456671789999999997---------2677--899738---999868553225567888764310566625886348 Q ss_pred HHHHHHHHHHHHCCCHHHHCCCCCCCCCCEEEE--EECC--CHHHHHHHHHHHHCCCCEEEE----EECCCCCCCCCCCC Q ss_conf 322789999752010111102355766620799--9702--002689999763103873899----97120122111210 Q gi|254780945|r 430 PIPRTLVLTSLGDIDISKITEKPAGRKPIKTVI--IPIN--RIDEVIERLKVVLSEGKKAYW----ICPQIEEKKESNFR 501 (700) Q Consensus 430 PIPRTLal~~ygdldvS~i~e~P~gR~~I~T~~--~~~~--~~~~~~~~i~~~l~~g~q~y~----VcPlIeese~~~~~ 501 (700) .+.+ | +| ||.+++ +... ..+++.+.++.-+.+-+ +-+ +--+++.| +-|++ T Consensus 140 ~~~k--------------i--i~----~i~SRc~~i~f~~~~~~~i~~~L~~I~~~E~-i~~~~~~l~~i~~~s-~gdlR 197 (318) T PRK00440 140 YSSK--------------I--ID----PIQSRCAVFRFSPLPKEAVIERLRYIAKNEG-LEITDDALEAIYYVS-EGDMR 197 (318) T ss_pred CCCC--------------C--CC----CHHHHHEEEECCCCCHHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHC-CCCHH T ss_conf 8333--------------7--61----5565510111578999999999999999859-998999999999864-99899 Q ss_pred HHHHHHHHHHHHCCC----CEECCCCCCCHHHHHHHHHHHHCCC Q ss_conf 146666666866371----0312014699899999999975598 Q gi|254780945|r 502 SVVERFNSLHEHFTS----SIAIIHGRMSDIDKESVMDSFKNGT 541 (700) Q Consensus 502 ~~~~~~~~l~~~~~~----~v~~lHGkm~~~ek~~~m~~F~~g~ 541 (700) .+.+..+........ .|.-+-|..+.++-+++++...+|+ T Consensus 198 ~ain~Lq~~~~~~~~it~~~v~~~~~~~~~~~i~~ii~~~~~~~ 241 (318) T PRK00440 198 KAINALQAAAATGKEVTEEAVYKITGTARPEEIREMINLALNGD 241 (318) T ss_pred HHHHHHHHHHHCCCCCCHHHHHHHHCCCCHHHHHHHHHHHHCCC T ss_conf 99999999997489878999999976999899999999997089 No 239 >COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair] Probab=95.47 E-value=0.27 Score=29.80 Aligned_cols=94 Identities=20% Similarity=0.230 Sum_probs=69.1 Q ss_pred CCCCCCCCCCCCHHHCCCCCE-EEEEEEEEEEEEECCC-CCCEEEEEEECCCCEEEEEEECCC--HHHHHHHCCCCCEEE Q ss_conf 974013444464788899878-9999999897542158-983389999818936999995188--789987328988899 Q gi|254780945|r 49 PSSFIDRHYRPKISEISEERI-VTITGYISQHSSFQLQ-KRRPYKILLNDGTGEITLLFFYRK--TEMLKNVFFEGRKIT 124 (700) Q Consensus 49 PrrYeDr~~~~~I~~l~~g~~-vti~g~V~~~~~~~~~-~r~~~~v~v~D~tg~i~lvfFn~~--~~yl~k~lk~G~~v~ 124 (700) ++.-.+...++++.++.+.+. ++|+|.|-+......+ +|..+.+.+.|.+.++.+.||... -.-....++.|+++. T Consensus 220 ~~~i~~~~~i~~~~~i~~~~~~v~v~G~IF~~e~~~~ksGr~l~~i~vTD~t~Sl~~k~f~~~~ed~~~~~~ik~g~wvk 299 (1444) T COG2176 220 GRKIKSTEEIKPLIKINEEETRVKVEGYIFKIEIKELKSGRTLLNIKVTDYTSSLILKKFLRDEEDEKKFDGIKKGMWVK 299 (1444) T ss_pred CEECCCCCCEEEHHHCCCCCCCEEEEEEEEEEEEEECCCCCEEEEEEEECCCHHEEEHHHCCCCCCHHHHHHCCCCCEEE T ss_conf 33235766501546403311105899999887643224686799999862710032021226663188886233384799 Q ss_pred EEEEEEEC--CCEEEEECCE Q ss_conf 99899731--8779997786 Q gi|254780945|r 125 VTGKIKKL--KNRIIMVHPH 142 (700) Q Consensus 125 vsGKv~~~--~~~~qi~hPe 142 (700) +.|.+..- .+.++|.--+ T Consensus 300 ~~g~v~~d~f~~~l~m~i~~ 319 (1444) T COG2176 300 ARGNVQLDTFTRDLTMIIND 319 (1444) T ss_pred EEEEEEECCCCCCEEEEHHH T ss_conf 99788733555551787533 No 240 >PRK02794 DNA polymerase IV; Provisional Probab=95.46 E-value=0.011 Score=40.64 Aligned_cols=14 Identities=0% Similarity=-0.111 Sum_probs=6.5 Q ss_pred HHHHCCCCCCEEEE Q ss_conf 21101457865899 Q gi|254780945|r 341 IKKYTQNTQIIVEI 354 (700) Q Consensus 341 ~~~~~~~~~i~v~l 354 (700) ...++.+++|+--+ T Consensus 202 ~~~~L~~lpv~diw 215 (417) T PRK02794 202 AAAFLAPKPVGFIW 215 (417) T ss_pred HHHHHHCCCHHHHC T ss_conf 99998538845516 No 241 >TIGR00150 TIGR00150 conserved hypothetical protein TIGR00150; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop. They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements . . Probab=95.46 E-value=0.031 Score=37.08 Aligned_cols=60 Identities=22% Similarity=0.321 Sum_probs=37.2 Q ss_pred CHHHHHHHHHHHHH---HCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHH Q ss_conf 98899999999984---1001343078862144223699999973344430545886127999999 Q gi|254780945|r 274 TKSQESAIKDILQD---MSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQ 336 (700) Q Consensus 274 T~~Q~~ai~eI~~D---l~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~Q 336 (700) |++=.+.-+.+..+ +..+....-+|+||+|||||=- .-+++.. =|.|.-+-.||=-|-+. T Consensus 6 t~a~~~~~~~~a~~llklh~d~~~v~~L~GDlGaGKTtl-~~G~~~~--LG~~~~~~SPTftlv~~ 68 (147) T TIGR00150 6 TKAMDKLGKAFAKPLLKLHLDLGTVVLLKGDLGAGKTTL-VKGLLQG--LGITGNVTSPTFTLVNE 68 (147) T ss_pred HHHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCHHHH-HHHHHHH--CCCEEEEECCCCCEEEE T ss_conf 789999999999999985199753899732346665899-9999983--79226885793210100 No 242 >PRK13767 ATP-dependent helicase; Provisional Probab=95.44 E-value=0.14 Score=31.97 Aligned_cols=87 Identities=11% Similarity=0.178 Sum_probs=72.9 Q ss_pred HHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCC--CCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCC Q ss_conf 973344430545886127999999998621101457--865899624642256676877621347548641112013345 Q gi|254780945|r 313 AMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNT--QIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSI 390 (700) Q Consensus 313 A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~--~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v 390 (700) .++..++.+..+.+-+=|-=.|+.-+..++++++.. ..+|+.-+||+++.+|.++-+.+++|+++.||-|.+| .=++ T Consensus 276 ~l~~~i~~~~~tLvF~NtR~~aE~~~~~L~~~~~~~~~~~~i~~HHgSls~e~R~~vE~~lk~G~l~~vV~TsSL-ELGI 354 (878) T PRK13767 276 TLDELIQEHRTTLIFTNTRSGAERVVYKLRKRYPEEYDEDNIGAHHSSLSREVRLEVEEKLKRGELKVVVSSTSL-ELGI 354 (878) T ss_pred HHHHHHHHCCCEEEEECCHHHHHHHHHHHHHHHHHCCCCCCEEEECCCCCHHHHHHHHHHHHCCCCCEEEEECHH-HCCC T ss_conf 999999838977999155899999999999853430675432220177899999999999857998689982736-5077 Q ss_pred CCCCCCEEEE Q ss_conf 5444417885 Q gi|254780945|r 391 QYYKLILVIV 400 (700) Q Consensus 391 ~F~~LgLvVi 400 (700) .+.++-+||= T Consensus 355 DiG~Vd~Viq 364 (878) T PRK13767 355 DIGYIDLVVL 364 (878) T ss_pred CCCCCCEEEE T ss_conf 7775258997 No 243 >TIGR00617 rpa1 replication factor-a protein 1 (rpa1); InterPro: IPR004591 All proteins in this family for which functions are known are part of a multiprotein complex made up of homologs of RPA1, RPA2 and RPA3 that bind single-stranded DNA and function in the recognition of DNA damage for nucleotide excision repair. The complex binds to single-stranded DNA sequences participating in DNA replication in addition to those mediating transcriptional repression and activation, and stimulates the activity of cognate strand exchange protein Sep1. It cooperates with T-AG and DNA topoisomerase I to unwind template DNA containing the Simian virus 40 origin of replication. This family is Replication factor-a protein 1 (RPA1); GO: 0003677 DNA binding, 0006260 DNA replication, 0005634 nucleus. Probab=95.42 E-value=0.045 Score=35.85 Aligned_cols=120 Identities=19% Similarity=0.264 Sum_probs=80.6 Q ss_pred CCCCCCCCCCCCHHHCCCC-CEEEEEEEEEEEEEECCC---C--CCEEEEEEEC-CCCEEEEEEECCCHHHHHHHCCCCC Q ss_conf 9740134444647888998-789999999897542158---9--8338999981-8936999995188789987328988 Q gi|254780945|r 49 PSSFIDRHYRPKISEISEE-RIVTITGYISQHSSFQLQ---K--RRPYKILLND-GTGEITLLFFYRKTEMLKNVFFEGR 121 (700) Q Consensus 49 PrrYeDr~~~~~I~~l~~g-~~vti~g~V~~~~~~~~~---~--r~~~~v~v~D-~tg~i~lvfFn~~~~yl~k~lk~G~ 121 (700) |+.--.+.++.||..|.|= ..=+|+++|.+...++.- | ++.|.+-+.| ++|.|+++=||---.-+-..|.+|. T Consensus 205 ~~~~~t~~~v~Pi~~LsPYq~~W~IkARVT~K~~irtw~N~RGEGKlFn~~L~D~~sgeIRaTaFNe~ad~FY~~i~~g~ 284 (671) T TIGR00617 205 PNSGSTRERVVPIESLSPYQNKWTIKARVTNKSEIRTWSNARGEGKLFNVELLDSESGEIRATAFNEQADKFYDLIQVGK 284 (671) T ss_pred HHHCCCCCCEEEECCCCCCCCCEEEEEEEEEHHCCCCCCCCCCCCEEEEEEEECCCCCEEEEECHHHHHHHHCCEEEECC T ss_conf 12168977547712258877732898987200013302378888106555747179784677424788753213243367 Q ss_pred EEEEE-EEEEECCCEEEEECCEEEECCCCCCCCCCCCCCCCCCH-HHHHHHH Q ss_conf 89999-89973187799977868962643344444110000000-0004543 Q gi|254780945|r 122 KITVT-GKIKKLKNRIIMVHPHYIFHNSQDVNFPLIEAVYSLPT-GLSVDLF 171 (700) Q Consensus 122 ~v~vs-GKv~~~~~~~qi~hPe~~~~~~~~~~~~~I~PIYplt~-GLsqk~i 171 (700) -|+|| |+++..+.++.-++=+||+-=+.+ ..|.+-|-.+. .|++-.+ T Consensus 285 vYYiSkg~L~~AnKqF~~~~NdYE~tl~~~---t~i~~ced~~~d~~P~~~f 333 (671) T TIGR00617 285 VYYISKGSLKPANKQFTNVKNDYEMTLDRD---TVIEECEDETADAIPKIQF 333 (671) T ss_pred EEEEECCEECCCCCCCCCCCCCEEEECCCC---CEEEECCCCCCCCCCCEEE T ss_conf 879973784347766677887102505867---4576146888776781464 No 244 >pfam01695 IstB IstB-like ATP binding protein. This protein contains an ATP/GTP binding P-loop motif. It is found associated with IS21 family insertion sequences. The function of this protein is unknown, but it may perform a transposase function. Probab=95.36 E-value=0.034 Score=36.81 Aligned_cols=61 Identities=18% Similarity=0.172 Sum_probs=44.9 Q ss_pred CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHH Q ss_conf 6798899999999984100134307886214422369999997334443054588612799999 Q gi|254780945|r 272 SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQ 335 (700) Q Consensus 272 ~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~ 335 (700) .+...|..-+... .-+ ....|-+++|.+|+|||=.|...+..++.+||.|.++.=++.+.+ T Consensus 29 ~~~~~~i~~L~~~-~~i--~~~~Nlll~G~~GtGKThLA~Ai~~~~~~~g~~v~f~~~~~L~~~ 89 (178) T pfam01695 29 GLDRRLIAELAGL-DWI--EQAENLLLLGPPGVGKTHLACALGHQACRAGYSVLFTRTPDLVEQ 89 (178) T ss_pred CCCHHHHHHHHCC-CCH--HCCCCEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEECHHHHHH T ss_conf 9899999988559-742--158768998999987899999999999986985999961679999 No 245 >PRK08939 primosomal protein DnaI; Reviewed Probab=95.33 E-value=0.17 Score=31.24 Aligned_cols=71 Identities=15% Similarity=0.186 Sum_probs=47.7 Q ss_pred CCCCH-HHHHHHHHHHH---HHCCCCCCEE-EEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHC Q ss_conf 46798-89999999998---4100134307-8862144223699999973344430545886127999999998621101 Q gi|254780945|r 271 FSPTK-SQESAIKDILQ---DMSQKNRMLR-ILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYT 345 (700) Q Consensus 271 F~LT~-~Q~~ai~eI~~---Dl~~~~pM~R-LLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~ 345 (700) |..++ +-..|+.++.. +...+....- +|.|++|+|||-.|...+-..+..|+-++|+-=.+.++ .++.-| T Consensus 130 ~~~~d~~R~~a~~~a~~F~~~y~~~~~~kGlyl~G~~G~GKTyL~~aian~La~~g~~v~~v~~p~~~~-----~lK~s~ 204 (306) T PRK08939 130 IDLDDLDRLDALMAALDFLEAYKPGEKVKGLYLYGDFGVGKTYLLAAIANELAKKGVSSTLVHFPEFIR-----ELKNAI 204 (306) T ss_pred CCCCCHHHHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEHHHHHH-----HHHHHH T ss_conf 488977899999999999997376988877889899999899999999999998699299987599999-----999986 Q ss_pred C Q ss_conf 4 Q gi|254780945|r 346 Q 346 (700) Q Consensus 346 ~ 346 (700) . T Consensus 205 ~ 205 (306) T PRK08939 205 S 205 (306) T ss_pred C T ss_conf 4 No 246 >PRK03352 DNA polymerase IV; Validated Probab=95.32 E-value=0.014 Score=39.90 Aligned_cols=17 Identities=29% Similarity=0.306 Sum_probs=9.0 Q ss_pred CCCCCHHHHHHHHH--CCC Q ss_conf 01335688998740--256 Q gi|254780945|r 403 QHRFGVQQRLKLTQ--KAT 419 (700) Q Consensus 403 QHRFGV~QR~~L~~--Kg~ 419 (700) ..+||+..-..|.. .|. T Consensus 213 ~~~fG~~~g~~l~~~a~G~ 231 (345) T PRK03352 213 TATFGPRTGLWLLLLAKGG 231 (345) T ss_pred HHHHCHHHHHHHHHHHCCC T ss_conf 9997889999999994899 No 247 >cd04490 PolII_SU_OBF PolII_SU_OBF: A subfamily of OB folds corresponding to the OB fold found in Pyrococcus abyssi DNA polymerase II (PolII) small subunit. PolII is a family D DNA polymerase, having a 3-prime to 5-prime exonuclease activity. P. abyssi PolII is heterodimeric. The large subunit appears to be the polymerase, and the small subunit may be the exonuclease. The small subunit contains a calcineurin-like phosphatase superfamily domain C-terminal to this OB-fold domain. Probab=95.31 E-value=0.19 Score=30.99 Aligned_cols=71 Identities=28% Similarity=0.374 Sum_probs=49.9 Q ss_pred EEEEEEEEEEEEEECCCCCCEEEEEEECCCCEEEEEEECCCHHHH--HHHCCCCCEEEEEEEEEECCCEE---EEECCE Q ss_conf 899999998975421589833899998189369999951887899--87328988899998997318779---997786 Q gi|254780945|r 69 IVTITGYISQHSSFQLQKRRPYKILLNDGTGEITLLFFYRKTEML--KNVFFEGRKITVTGKIKKLKNRI---IMVHPH 142 (700) Q Consensus 69 ~vti~g~V~~~~~~~~~~r~~~~v~v~D~tg~i~lvfFn~~~~yl--~k~lk~G~~v~vsGKv~~~~~~~---qi~hPe 142 (700) .+++.|-|...+. .++..+.+.++|.||.+++.+++.+..+. ...+-+.+-+-|+|++...++.+ .+.+|+ T Consensus 1 ev~iIGmV~d~r~---TknG~~~~~lED~TG~i~vl~~kd~~~~~~~~~~ll~DeVIGV~G~~s~~g~~~f~~~i~~Pd 76 (79) T cd04490 1 EVSIIGMVNDVRS---TKNGHRIVELEDTTGRITVLLTKDKEELFEEAEDILPDEVIGVSGTVSKDGGLIFADEIFRPD 76 (79) T ss_pred CEEEEEEECCCEE---CCCCCEEEEEECCCCEEEEEEECCCHHHHHHHHCCCCCCEEEEEEEECCCCCEEEEECCCCCC T ss_conf 9699999933276---168878999987999899999689367756675256887899999987899889997124699 No 248 >KOG0333 consensus Probab=95.25 E-value=0.081 Score=33.84 Aligned_cols=89 Identities=28% Similarity=0.356 Sum_probs=67.1 Q ss_pred CCEEEEEH--------HHHHHHH-------------HHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEE Q ss_conf 54588612--------7999999-------------99862110145786589962464225667687762134754864 Q gi|254780945|r 322 GQAVIMAP--------IGILAQQ-------------HYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIII 380 (700) Q Consensus 322 ~Q~alMaP--------TEILA~Q-------------H~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiI 380 (700) .|.++|++ -|||+.+ -.+.+.+-|++.|++|.-|+|+-+.-+|+.+++.+.+|..+|+| T Consensus 493 eQ~v~m~~ed~k~kkL~eil~~~~~ppiIIFvN~kk~~d~lAk~LeK~g~~~~tlHg~k~qeQRe~aL~~fr~~t~dIlV 572 (673) T KOG0333 493 EQKVEMVSEDEKRKKLIEILESNFDPPIIIFVNTKKGADALAKILEKAGYKVTTLHGGKSQEQRENALADFREGTGDILV 572 (673) T ss_pred HEEEEEECCHHHHHHHHHHHHHCCCCCEEEEEECHHHHHHHHHHHHHCCCEEEEEECCCCHHHHHHHHHHHHHCCCCEEE T ss_conf 11788815568899999999847999879998313248999999864432479961785277899999998715787799 Q ss_pred ECHHHCCCCCCCCCCCEEE--------ECCCCCCCHHHH Q ss_conf 1112013345544441788--------521013356889 Q gi|254780945|r 381 GTHALFQDSIQYYKLILVI--------VDEQHRFGVQQR 411 (700) Q Consensus 381 GTHAL~q~~v~F~~LgLvV--------iDEQHRFGV~QR 411 (700) .|-+.= .++.-.|..||| .|=-||-|=.-| T Consensus 573 aTDvAg-RGIDIpnVSlVinydmaksieDYtHRIGRTgR 610 (673) T KOG0333 573 ATDVAG-RGIDIPNVSLVINYDMAKSIEDYTHRIGRTGR 610 (673) T ss_pred EECCCC-CCCCCCCCCEEEECCHHHHHHHHHHHHCCCCC T ss_conf 832212-57777761214622055658999887423444 No 249 >PRK03858 DNA polymerase IV; Validated Probab=95.24 E-value=0.014 Score=39.82 Aligned_cols=12 Identities=25% Similarity=0.623 Sum_probs=4.9 Q ss_pred HHHHHHCCCCCC Q ss_conf 877301166789 Q gi|254780945|r 576 LHQLRGRVGRGE 587 (700) Q Consensus 576 LHQLRGRVGRg~ 587 (700) +.++|-|-|++. T Consensus 367 ~D~In~rfG~~t 378 (398) T PRK03858 367 IDRVRRRFGNAA 378 (398) T ss_pred HHHHHHHHCHHH T ss_conf 999998758406 No 250 >PRK11773 uvrD DNA-dependent helicase II; Provisional Probab=95.08 E-value=0.099 Score=33.16 Aligned_cols=49 Identities=20% Similarity=0.224 Sum_probs=20.7 Q ss_pred HHHHHHHHHHCHHHHHHHHHHHHCCCC--CCCCCHHCCCCCCCCCCHHHHHHHHHHHH Q ss_conf 999999984142589999998520630--00260006987440003887599999999 Q gi|254780945|r 605 YTRLSVLKNTEDGFLIAEEDLKQRKEG--EILGIKQSGMPKFLIAQPELHDSLLEIAR 660 (700) Q Consensus 605 ~~Rl~~l~~~~dGf~iAe~Dl~lRG~G--~~~G~~QsG~~~~~~~d~~~d~~ll~~a~ 660 (700) ..||=.. |..=|.+-|-|=-+- .+.|..+.-.|.=-+.++ +.++++..+ T Consensus 595 ERRLfYV-----aiTRAk~~L~ls~~~~r~~~g~~~~~~pSRFl~ei--p~~~~~~~~ 645 (722) T PRK11773 595 ERRLAYV-----GITRAMQKLTLTYAESRRLYGKEVYHRPSRFIREI--PEECVEEVR 645 (722) T ss_pred HHHHHHH-----HHHHHHHHEEEEECCHHHHCCCCCCCCCCCCHHHC--CHHHHHHHH T ss_conf 9999999-----89887452488551254546777678898146657--899998763 No 251 >PRK12377 putative replication protein; Provisional Probab=94.98 E-value=0.11 Score=32.67 Aligned_cols=62 Identities=15% Similarity=0.272 Sum_probs=48.9 Q ss_pred CCHHHHHHHH---HHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHH Q ss_conf 7988999999---99984100134307886214422369999997334443054588612799999 Q gi|254780945|r 273 PTKSQESAIK---DILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQ 335 (700) Q Consensus 273 LT~~Q~~ai~---eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~ 335 (700) -+++|+.|+. ++...+.+ ..-|-++-|..|.|||=.|..-...++..|+-|.|.-=++++.+ T Consensus 79 ~~~~~~~a~~~a~~~~~~F~~-~~~NlIf~G~pGtGKTHLA~AIg~~a~~~G~sVlF~t~~dLv~~ 143 (248) T PRK12377 79 QNDGQRYALSQAKSIADELMT-GCTNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVTVPDVMSR 143 (248) T ss_pred CCHHHHHHHHHHHHHHHHHHC-CCCEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEHHHHHHH T ss_conf 787899999999999998731-88608998999987889999999999987996999889999999 No 252 >COG4085 Predicted RNA-binding protein, contains TRAM domain [General function prediction only] Probab=94.95 E-value=0.29 Score=29.44 Aligned_cols=73 Identities=26% Similarity=0.352 Sum_probs=56.7 Q ss_pred CCCCEEEEEEEEEEEEEECCCCCCEEEEEEECCCCEEEEEEECCCHHHHH-----HHCCCCCEEEEEEEEEECCCEEEEE Q ss_conf 99878999999989754215898338999981893699999518878998-----7328988899998997318779997 Q gi|254780945|r 65 SEERIVTITGYISQHSSFQLQKRRPYKILLNDGTGEITLLFFYRKTEMLK-----NVFFEGRKITVTGKIKKLKNRIIMV 139 (700) Q Consensus 65 ~~g~~vti~g~V~~~~~~~~~~r~~~~v~v~D~tg~i~lvfFn~~~~yl~-----k~lk~G~~v~vsGKv~~~~~~~qi~ 139 (700) ...+.++++|.|.+.... -.-....+.+.|++|.++++.|-.....+. -.+.+|+.+-+-|.++.|+|..++. T Consensus 49 ~l~e~v~vkg~V~~~~n~--~~~gi~~l~lndgtGti~vva~~~tee~l~~n~~~p~~~eGe~veVtGrv~~yrG~~eVk 126 (204) T COG4085 49 RLNEEVTVKGEVTADQNA--IGGGIESLVLNDGTGTITVVASRSTEETLELNEGMPVTVEGEIVEVTGRVEEYRGSSEVK 126 (204) T ss_pred EEECCCEEEEEEEEEECC--CCCCEEEEEEECCCCCEEEEEECCHHHHHHHCCCCCCCCCCCEEEEEEEEEEECCCCEEE T ss_conf 120253221489753101--236659999977987489999067367686447887322675899988887717973031 No 253 >COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair] Probab=94.93 E-value=0.096 Score=33.26 Aligned_cols=76 Identities=25% Similarity=0.376 Sum_probs=61.0 Q ss_pred HHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEE Q ss_conf 30545886127999999998621101457865899624642256676877621347548641112013345544441788 Q gi|254780945|r 320 AGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKLILVI 399 (700) Q Consensus 320 ~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvV 399 (700) .+-.+.+.+..- +|...+.+.|..-++ ++.+||+++..||..+++..++|+++++|.+. ++.++|...++..+| T Consensus 282 ~~~~~lif~~~~----~~a~~i~~~~~~~~~-~~~it~~t~~~eR~~il~~fr~g~~~~lv~~~-vl~EGvDiP~~~~~i 355 (442) T COG1061 282 RGDKTLIFASDV----EHAYEIAKLFLAPGI-VEAITGETPKEEREAILERFRTGGIKVLVTVK-VLDEGVDIPDADVLI 355 (442) T ss_pred CCCCEEEEECCH----HHHHHHHHHHCCCCC-EEEEECCCCHHHHHHHHHHHHCCCCEEEEEEE-EECCCCCCCCCCEEE T ss_conf 688669997577----999999998626774-24665789988999999998708952999961-412665788875799 Q ss_pred EC Q ss_conf 52 Q gi|254780945|r 400 VD 401 (700) Q Consensus 400 iD 401 (700) += T Consensus 356 ~~ 357 (442) T COG1061 356 IL 357 (442) T ss_pred EE T ss_conf 97 No 254 >PRK13342 recombination factor protein RarA; Reviewed Probab=94.92 E-value=0.13 Score=32.15 Aligned_cols=108 Identities=23% Similarity=0.282 Sum_probs=59.4 Q ss_pred HHHHHHHH---HHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEE Q ss_conf 89999999---998410013430788621442236999999733444305458861279999999986211014578658 Q gi|254780945|r 276 SQESAIKD---ILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIV 352 (700) Q Consensus 276 ~Q~~ai~e---I~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v 352 (700) +|+..+.+ +.+=+.++..-+-++.|-=|||||-.|-+ +|.+ ...-|-.+ + T Consensus 17 GQ~hllg~~~~L~~~i~~~~~~s~Il~GPPG~GKTTlA~i--------------------iA~~----~~~~f~~l--n- 69 (417) T PRK13342 17 GQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARI--------------------IAGA----TDAEFEAL--S- 69 (417) T ss_pred CCHHHHCCCHHHHHHHHCCCCCEEEEECCCCCCHHHHHHH--------------------HHHH----HCCCEEEE--E- T ss_conf 9877608971999999769997599889699989999999--------------------9998----68988996--1- Q ss_pred EEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEEECCCCCCCHHHHHHHHHCCCCCCCEEECHH Q ss_conf 99624642256676877621347548641112013345544441788521013356889987402567761010101 Q gi|254780945|r 353 EIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKLILVIVDEQHRFGVQQRLKLTQKATAPHVLLMTAT 429 (700) Q Consensus 353 ~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFGV~QR~~L~~Kg~~ph~L~MtAT 429 (700) ......++=+++.+..+.-. -| ++ -+++|||=|||-=.|-..|..-=++-++...-|| T Consensus 70 ---A~~~gv~dir~ii~~a~~~~----~~-----------~~-tilfiDEIHRfnK~QQD~LLp~vE~g~iiLIgAT 127 (417) T PRK13342 70 ---AVTSGVKDLREVIEEAKQSR----LG-----------RR-TILFIDEIHRFNKAQQDALLPHVEDGTITLIGAT 127 (417) T ss_pred ---CCCCCHHHHHHHHHHHHHHH----CC-----------CC-EEEEEECHHHCCHHHHHHHHHHHHCCCEEEEEEC T ss_conf ---41038899999999988631----48-----------96-5999978200588999999875112656999741 No 255 >KOG0391 consensus Probab=94.82 E-value=0.22 Score=30.42 Aligned_cols=120 Identities=18% Similarity=0.257 Sum_probs=83.4 Q ss_pred CCCEECCCCCCCHHHHHHHHHHHHCCC--EEEEEECHHHHCCCCCCCCCEEEEECHHHCC--HHHHHHHHHCCCCCCCCE Q ss_conf 710312014699899999999975598--6999980034104688876589985852547--468877301166789835 Q gi|254780945|r 515 TSSIAIIHGRMSDIDKESVMDSFKNGT--CKLLIATTVIEVGIDVVDASIIIIENAEHFG--LAQLHQLRGRVGRGEEIS 590 (700) Q Consensus 515 ~~~v~~lHGkm~~~ek~~~m~~F~~g~--~~iLvaTtviEVGvdvpna~~mvI~~aerfG--LsqLHQLRGRVGRg~~~s 590 (700) +.-.--|.|--+.++++..|++|.... .-..+||--=-||||.-.|.+.|-+|.|-=- =||-.----|+|+-..-+ T Consensus 1300 gylY~RLDg~t~vEqRQaLmerFNaD~RIfcfILSTrSggvGiNLtgADTVvFYDsDwNPtMDaQaQDrChRIGqtRdVh 1379 (1958) T KOG0391 1300 GYLYVRLDGNTSVEQRQALMERFNADRRIFCFILSTRSGGVGINLTGADTVVFYDSDWNPTMDAQAQDRCHRIGQTRDVH 1379 (1958) T ss_pred CEEEEEECCCCCHHHHHHHHHHHCCCCCEEEEEEECCCCCCCCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHCCCCCEE T ss_conf 56899844875388999999973678716999985267864201346745898458888013268898888745734137 Q ss_pred EEEEEECCCCCHH------HHHHHHHHHHHCHHHHHHHHHHHHCCCCCCCCC Q ss_conf 9999708889987------999999998414258999999852063000260 Q gi|254780945|r 591 SCILLYHPPLSKN------SYTRLSVLKNTEDGFLIAEEDLKQRKEGEILGI 636 (700) Q Consensus 591 ~c~l~~~~~~~~~------~~~Rl~~l~~~~dGf~iAe~Dl~lRG~G~~~G~ 636 (700) -.=|++...+-++ .+.+|.-++--..+|.-|- ++-|---|+|+. T Consensus 1380 IYRliSerTIEenILKkanqKr~L~evaiqggdfTtaf--fkQ~tirdLfd~ 1429 (1958) T KOG0391 1380 IYRLISERTIEENILKKANQKRMLDEVAIQGGDFTTAF--FKQRTIRDLFDV 1429 (1958) T ss_pred EEEEECCCHHHHHHHHHHHHHHHHHHHHHCCCCCCHHH--HHHHHHHHHHCC T ss_conf 88740334078999863227776666642158853888--755359998558 No 256 >cd03586 Pol_IV_kappa Pol_IV_kappa, a member of the Y-family of DNA polymerases. Pol_Y's can transverse replication-blocking DNA lesions, such as cyclobutane pyrimidine dimers resulting from UV damage, at the cost of an elevated error rate. The Y-family has no 3'-5' exonuclease activity. In addition to possessing a topology akin to a right hand, with "thumb", "fingers" and "palm" motifs, like polymerases from the A-, B-, C- and X-families, the Y-family has a unique "little finger" motif. Expression of Y-family polymerases is often induced by DNA damage. These polymerases are phylogenetically unrelated to classical DNA polymerases. Originally called the DinB family, they belong to the recently described Y-family of DNA polymerases. Pol IV is mostly found in bacteria and archaea. Although the structure of Pol IV is similar to that of Pol eta, it shows markedly differenct efficiencies and fidelities in bypassing various DNA lesions. All Pol IV-like polymerases studied to date are able to b Probab=94.82 E-value=0.023 Score=38.09 Aligned_cols=11 Identities=0% Similarity=0.036 Sum_probs=5.4 Q ss_pred HHHHCCCCCCE Q ss_conf 21101457865 Q gi|254780945|r 341 IKKYTQNTQII 351 (700) Q Consensus 341 ~~~~~~~~~i~ 351 (700) +.+++.++++. T Consensus 165 ~~~~L~~lpv~ 175 (337) T cd03586 165 VWAFLAPLPVR 175 (337) T ss_pred HHHHHCCCCCH T ss_conf 99986127630 No 257 >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=94.80 E-value=0.081 Score=33.83 Aligned_cols=177 Identities=18% Similarity=0.237 Sum_probs=95.5 Q ss_pred CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHH-HHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCC Q ss_conf 67988999999999841001343078862144223699999973344-43054588612799999999862110145786 Q gi|254780945|r 272 SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAV-EAGGQAVIMAPIGILAQQHYEFIKKYTQNTQI 350 (700) Q Consensus 272 ~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~-~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i 350 (700) =.+.+.+.|+..+.--+....... +|-|+||||||.+ +.+++..+ .+.+.++++..|.+=...- ++.+...+|+ T Consensus 23 y~s~~h~~al~~L~~~l~~~~g~~-lltGe~GtGKTtl-lr~l~~~l~~~~~~~~~i~~~~l~~~~l---l~~i~~~lg~ 97 (269) T TIGR03015 23 YPSKGHKRAMAYLEYGLSQREGFI-LITGEVGAGKTTL-IRNLLKRLDQERVVAAKLVNTRVDAEDL---LRMVAADFGL 97 (269) T ss_pred CCCHHHHHHHHHHHHHHHCCCCEE-EEECCCCCCHHHH-HHHHHHHCCCCCEEEEEECCCCCCHHHH---HHHHHHHCCC T ss_conf 478669999999999996489659-9972998988999-9999984593454899976999999999---9999998598 Q ss_pred EEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEEECCCCCCCHHHHHHHHHC------CCCCCCE Q ss_conf 5899624642256676877621347548641112013345544441788521013356889987402------5677610 Q gi|254780945|r 351 IVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKLILVIVDEQHRFGVQQRLKLTQK------ATAPHVL 424 (700) Q Consensus 351 ~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFGV~QR~~L~~K------g~~ph~L 424 (700) ... +. .+...+..|..- + ..+...+ .--++||||=|....+-=+.|..- +...=.+ T Consensus 98 ~~~---~~----~~~~~~~~l~~~----L---~~~~~~g----~~~vliIDEAq~L~~~~Le~Lr~L~n~e~~~~~ll~i 159 (269) T TIGR03015 98 ETE---GR----DKAALLRELEDF----L---IEQFAAG----KRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQI 159 (269) T ss_pred CCC---CC----CHHHHHHHHHHH----H---HHHHHCC----CCEEEEEECHHHCCHHHHHHHHHHHCCCCCCCCCEEE T ss_conf 988---98----999999999999----9---9999669----9469997242219999999999997013588870489 Q ss_pred EECHHH-HHHHHHHHHHHCCCHHHHCCCCCCCCCCEEEE-EECCCHHHHHHHHHHHHCCC Q ss_conf 101013-22789999752010111102355766620799-97020026899997631038 Q gi|254780945|r 425 LMTATP-IPRTLVLTSLGDIDISKITEKPAGRKPIKTVI-IPINRIDEVIERLKVVLSEG 482 (700) Q Consensus 425 ~MtATP-IPRTLal~~ygdldvS~i~e~P~gR~~I~T~~-~~~~~~~~~~~~i~~~l~~g 482 (700) ++...| ..++|+... +++=++.|..++ +..=+.++.-+.|+-+++.- T Consensus 160 iL~GqpeL~~~L~~~~-----------~~~l~qRI~~~~~L~pl~~eet~~YI~~RL~~A 208 (269) T TIGR03015 160 FLVGQPEFRETLQSPQ-----------LQQLRQRIIASCHLGPLDREETREYIEHRLERA 208 (269) T ss_pred EEECCHHHHHHHCCCC-----------HHHHHHCEEEEEEECCCCHHHHHHHHHHHHHHC T ss_conf 9957867999872740-----------254555076799847999899999999999866 No 258 >pfam03796 DnaB_C DnaB-like helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. Probab=94.77 E-value=0.096 Score=33.25 Aligned_cols=84 Identities=14% Similarity=0.195 Sum_probs=48.7 Q ss_pred HHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHH-HHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECC Q ss_conf 99999984100134307886214422369999997334-44305458861279999999986211014578658996246 Q gi|254780945|r 280 AIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAA-VEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGN 358 (700) Q Consensus 280 ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~-~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~ 358 (700) .++++..-+..+. .-++-|.-|+|||.++.-.++.+ ..+|+.|++..+ |.=.++....+-......+.. .+.+|. T Consensus 8 ~lD~~~gGl~~G~--l~vi~g~pg~GKS~~~~~~a~~~a~~~g~~Vl~~sl-Em~~~~~~~R~~a~~~~v~~~-~i~~~~ 83 (186) T pfam03796 8 DLDQLTGGLQKGD--LIIIAARPSMGKTAFALNIARNAALKQDKPVLFFSL-EMSAEQLAERLLSSESRISSS-KLRSGQ 83 (186) T ss_pred HHHHHHCCCCCCC--EEEEEECCCCCHHHHHHHHHHHHHHHCCCCEEEECC-CCCHHHHHHHHHHHHHCCCHH-HHHCCC T ss_conf 7886426988881--799996799987999999999999970996687547-552999999999986267655-541251 Q ss_pred CCHHHHHHH Q ss_conf 422566768 Q gi|254780945|r 359 MPQAHRRKA 367 (700) Q Consensus 359 ~~~~er~~i 367 (700) ....+.+++ T Consensus 84 ~~~~~~~~~ 92 (186) T pfam03796 84 LSDEDWERL 92 (186) T ss_pred HHHHHHHHH T ss_conf 216799999 No 259 >COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair] Probab=94.66 E-value=0.17 Score=31.28 Aligned_cols=61 Identities=18% Similarity=0.231 Sum_probs=45.5 Q ss_pred CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHH Q ss_conf 679889999999998410013430788621442236999999733444305458861279999 Q gi|254780945|r 272 SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILA 334 (700) Q Consensus 272 ~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA 334 (700) ....++...+.++...+. .+.+=++-|+.|+|||-+|.+.+..++..|.-|.|.-=+|.+. T Consensus 86 ~~~~~~l~~~~~~~~~~~--~~~nl~l~G~~G~GKthLa~Ai~~~l~~~g~sv~f~~~~el~~ 146 (254) T COG1484 86 GIDKKALEDLASLVEFFE--RGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITAPDLLS 146 (254) T ss_pred HHHHHHHHHHHHHHHHHC--CCCCEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEHHHHHH T ss_conf 566999999999998732--5882899899998799999999999998398499988599999 No 260 >pfam04466 Terminase_3 Phage terminase large subunit. Initiation of packaging of double-stranded viral DNA involves the specific interaction of the prohead with viral DNA in a process mediated by a phage-encoded terminase protein. The terminase enzymes are usually hetero-oligomers composed of a small and a large subunit. This region is found on the large subunit and possess an endonuclease and ATPase activity that require Mg2+ and a neutral or slightly basic reaction. This region is also found in bacterial sequences. Probab=94.63 E-value=0.44 Score=28.04 Aligned_cols=131 Identities=13% Similarity=0.211 Sum_probs=78.1 Q ss_pred EEEEEECCCCCHHH-HHHHHHHHHHHHHCCEEEEEHHHH-HHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHC Q ss_conf 07886214422369-999997334443054588612799-9999998621101457865899624642256676877621 Q gi|254780945|r 295 LRILQGDVGSGKTL-VALIAMAAAVEAGGQAVIMAPIGI-LAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIA 372 (700) Q Consensus 295 ~RLLQGDVGSGKTi-VA~~A~l~~~~~G~Q~alMaPTEI-LA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~ 372 (700) .+.+.|-.|||||. +|....+.+..+...++++.+|-- |-+=-|+.+++.+..+|+....-.+..+-. + .... T Consensus 4 ~~v~~GGrgsgKS~~~a~~~i~~~~~~~~~~l~~r~~~~slr~sv~~~~~~~i~~~~~~~~~~~~~s~~~----i-~~~~ 78 (387) T pfam04466 4 YKVAKGGRGSGKSYHIALKLVLKLLMHPRTNLVIREVKNTIEDSVFTQLQEALSMLGLDHEFKISKSPIE----I-TVKI 78 (387) T ss_pred EEEEEECCCCHHHHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHHHHHHHCCCCCEEEECCCCEE----E-EECC T ss_conf 8999908886799999999999998789869999755688999999999999997699734897376148----9-9878 Q ss_pred CCCCEEEEECHHHCCCCC-CCCCCCEEEECCCCCCCHHHHHHH----HHCCCCCCCEEECHHHHHH Q ss_conf 347548641112013345-544441788521013356889987----4025677610101013227 Q gi|254780945|r 373 HGQAHIIIGTHALFQDSI-QYYKLILVIVDEQHRFGVQQRLKL----TQKATAPHVLLMTATPIPR 433 (700) Q Consensus 373 ~G~~~iiIGTHAL~q~~v-~F~~LgLvViDEQHRFGV~QR~~L----~~Kg~~ph~L~MtATPIPR 433 (700) +|..=+.-|.+-- +++ ...++.++.+||=.=|--+.=..| +..+ ..-.+.||-+|-.. T Consensus 79 ~gs~i~f~G~d~~--~~iks~~~i~~~~~eEa~~~~~~~~~~l~~~~r~~~-~~~~i~~~~NP~~~ 141 (387) T pfam04466 79 NGSKFLFYGMDDP--AKIKSIKDVSDAWIEEAAEFKTEDFDQLIPTIRRPK-PGSEIFMSFNPVNK 141 (387) T ss_pred CCCEEEEEECCCH--HHHHCCCCCEEEEEECHHHCCHHHHHHHHHHHCCCC-CCEEEEEECCCCCC T ss_conf 9969999857896--884163661499994124479989999998853178-87199998289998 No 261 >pfam00580 UvrD-helicase UvrD/REP helicase. The Rep family helicases are composed of four structural domains. The Rep family function as dimers. REP helicases catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. Bacillus subtilis addA and Escherichia coli exodeoxyribonuclease V beta have large insertions near to the carboxy-terminus relative to other members of the family. Probab=94.62 E-value=0.1 Score=33.03 Aligned_cols=21 Identities=24% Similarity=0.167 Sum_probs=14.5 Q ss_pred CCEEEECCCCCCCHHHHHHHH Q ss_conf 417885210133568899874 Q gi|254780945|r 395 LILVIVDEQHRFGVQQRLKLT 415 (700) Q Consensus 395 LgLvViDEQHRFGV~QR~~L~ 415 (700) .-.|+|||=|=-...|-.-|. T Consensus 213 ~~~ilVDEfQDtn~~Q~~il~ 233 (494) T pfam00580 213 FKYILVDEFQDTNPIQYELLK 233 (494) T ss_pred CCEEECHHHCCCHHHHHHHHH T ss_conf 726540343026499999999 No 262 >COG3587 Restriction endonuclease [Defense mechanisms] Probab=94.59 E-value=0.053 Score=35.26 Aligned_cols=15 Identities=33% Similarity=0.454 Sum_probs=9.0 Q ss_pred HHHHHHHHHHHHCCC Q ss_conf 322789999752010 Q gi|254780945|r 430 PIPRTLVLTSLGDID 444 (700) Q Consensus 430 PIPRTLal~~ygdld 444 (700) -+|-+++.-+|+|++ T Consensus 593 v~~e~~~~~~f~dl~ 607 (985) T COG3587 593 VLPETLEKLLFGDLI 607 (985) T ss_pred CCHHHHHHHHHHHHH T ss_conf 257788878765410 No 263 >PRK09361 radB DNA repair and recombination protein RadB; Provisional Probab=94.57 E-value=0.24 Score=30.11 Aligned_cols=48 Identities=17% Similarity=0.186 Sum_probs=37.1 Q ss_pred HHHHHHCCCCCCEE--EEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHH Q ss_conf 99984100134307--88621442236999999733444305458861279 Q gi|254780945|r 283 DILQDMSQKNRMLR--ILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIG 331 (700) Q Consensus 283 eI~~Dl~~~~pM~R--LLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTE 331 (700) ++..=|..+.|.-+ ++-|+=|||||-+|+-.+..+..+|+.|+++. || T Consensus 11 ~lD~~LgGGi~~G~itei~G~pG~GKTtl~lq~a~~~~~~g~~vlYid-tE 60 (224) T PRK09361 11 SLDELLGGGIERGTITQIYGPPGSGKTNICIQLAVEAARQGKKVIYID-TE 60 (224) T ss_pred HHHHHHCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEC-CC T ss_conf 999862699888879999899998599999999999997499099967-87 No 264 >cd01702 Pol_eta Pol eta is member of the DNA polimerase Y-family. Unlike other Y-family members, Pol eta can efficiently and accurately replicate DNA past UV-induced cis-syn cyclobutane thymine-thumine (T-T) lesions. It synthesizes AA opposite a TT dimer. Pol eta is able to replicate through a variety of other distorting DNA lesion as well. Probab=94.54 E-value=0.029 Score=37.32 Aligned_cols=18 Identities=11% Similarity=0.026 Sum_probs=8.8 Q ss_pred HHHHHCCCCCCEEEEEEC Q ss_conf 621101457865899624 Q gi|254780945|r 340 FIKKYTQNTQIIVEIITG 357 (700) Q Consensus 340 ~~~~~~~~~~i~v~lLtg 357 (700) .+.+++.+++|+--.=.| T Consensus 174 ~~~~~l~~lpI~~i~GvG 191 (358) T cd01702 174 AVASFLSSLPITKIRGLG 191 (358) T ss_pred HHHHHHHCCCCCEECCCC T ss_conf 999998559976627867 No 265 >PRK00652 lpxK tetraacyldisaccharide 4'-kinase; Reviewed Probab=94.52 E-value=0.47 Score=27.82 Aligned_cols=205 Identities=18% Similarity=0.159 Sum_probs=102.9 Q ss_pred CCCHHHHHHHHHHHHHHHHCCEEEEEHH---------HHHHHHHH-HHHH--H-HCC-CCCCEEEEEECCCCHHHHHHHH Q ss_conf 4223699999973344430545886127---------99999999-8621--1-014-5786589962464225667687 Q gi|254780945|r 303 GSGKTLVALIAMAAAVEAGGQAVIMAPI---------GILAQQHY-EFIK--K-YTQ-NTQIIVEIITGNMPQAHRRKAL 368 (700) Q Consensus 303 GSGKTiVA~~A~l~~~~~G~Q~alMaPT---------EILA~QH~-~~~~--~-~~~-~~~i~v~lLtg~~~~~er~~i~ 368 (700) |+|||=+...-+-...+.||+++++.=- .+....|- +..- . ++. ..+++|. .| +.|.+.. T Consensus 61 GtGKTP~v~~la~~l~~~g~~~~IlSRGYg~~~~~~~~v~~~~~~~~~vGDEpllla~~~~~~v~--V~----~~R~~~~ 134 (334) T PRK00652 61 GNGKTPVVIWLAEQLQARGVKVGVVSRGYGGKSKGYPLVLPADTTAAEVGDEPVLIAQRTGAPVA--VS----PDRVKAI 134 (334) T ss_pred CCCHHHHHHHHHHHHHHCCCCEEEEECCCCCCCCCCEEEECCCCCHHHCCCHHHHHHHCCCCCEE--EE----CCHHHHH T ss_conf 87779999999999997699367873466765678727617999835518689998517898399--95----6689999 Q ss_pred HHHCCCCCEEEEECHHHCCCCCCCCCCCEEEECCCCCCCHHH-------HHHHHHCCCCCCCEEECHHHHHHHHHHHHHH Q ss_conf 762134754864111201334554444178852101335688-------9987402567761010101322789999752 Q gi|254780945|r 369 ERIAHGQAHIIIGTHALFQDSIQYYKLILVIVDEQHRFGVQQ-------RLKLTQKATAPHVLLMTATPIPRTLVLTSLG 441 (700) Q Consensus 369 ~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFGV~Q-------R~~L~~Kg~~ph~L~MtATPIPRTLal~~yg 441 (700) ..+..-.+++||=--+ ||..-.-++|-+|++|.++-||=.. |+-+.. -..+|+++.+-.+-... T Consensus 135 ~~l~~~~~dviIlDDG-fQh~~l~rdl~Ivlid~~~~fgn~~llP~GpLREp~~~-l~rAD~ii~~~~~~~~~------- 205 (334) T PRK00652 135 KALLALGADIIILDDG-LQHYRLHRDFEIVVVDGQRRFGNGWLLPAGPLREPPSR-LKSADAVIVNGGDAQEG------- 205 (334) T ss_pred HHHHHCCCCEEEECCC-CCCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCHHH-HCCCCEEEEECCCCCCH------- T ss_conf 9999659999997476-65664468879999747767889867758656589647-61468999938854311------- Q ss_pred CCCHHHHCCCCCCCCCCEEEEEECCCHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCC-E-- Q ss_conf 0101111023557666207999702002689999763103873899971201221112101466666668663710-3-- Q gi|254780945|r 442 DIDISKITEKPAGRKPIKTVIIPINRIDEVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSS-I-- 518 (700) Q Consensus 442 dldvS~i~e~P~gR~~I~T~~~~~~~~~~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~-v-- 518 (700) +..... . +..-+++ .........+|.+++.+|-. .+-+.-++.|++. +.+ + T Consensus 206 ~~~~~~--~-~~~~~~~-------------~~~~~~~~~~~k~v~afsGI---------anP~~F~~~L~~~-g~~i~~~ 259 (334) T PRK00652 206 EIPMRL--A-PGAAVNL-------------RTGESRDVLKGKRVVAFAGI---------GHPPRFFATLRNL-GIEVVGT 259 (334) T ss_pred HHHHHH--C-CCCCEEC-------------CCCCCCCCCCCCEEEEEEEC---------CCHHHHHHHHHHC-CCEEEEE T ss_conf 045553--6-5663676-------------66554633579818999944---------8869999999976-9927342 Q ss_pred --ECCCCCCCHHHHHHHHHHHHCCCEEEEEECH Q ss_conf --1201469989999999997559869999800 Q gi|254780945|r 519 --AIIHGRMSDIDKESVMDSFKNGTCKLLIATT 549 (700) Q Consensus 519 --~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTt 549 (700) --=|-.-+.++-+.+.+..+.+. +.+|.|- T Consensus 260 ~~fpDHh~ys~~dl~~i~~~a~~~~-~~iiTTE 291 (334) T PRK00652 260 VAFPDHQSFTKADLEALVSLAQRQG-LSLLMTE 291 (334) T ss_pred EECCCCCCCCHHHHHHHHHHHHHCC-CEEEECC T ss_conf 5779866689999999999998289-9389855 No 266 >COG3973 Superfamily I DNA and RNA helicases [General function prediction only] Probab=94.44 E-value=0.085 Score=33.69 Aligned_cols=368 Identities=16% Similarity=0.152 Sum_probs=180.6 Q ss_pred HHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHH------HHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCE-EEE Q ss_conf 999984100134307886214422369999997334------4430545886127999999998621101457865-899 Q gi|254780945|r 282 KDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAA------VEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQII-VEI 354 (700) Q Consensus 282 ~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~------~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~-v~l 354 (700) +||..+= ++.+| .+||--|||||-||+.-.+.. .-++.|+.+++|.-+++. .++..+|.+|.. |.. T Consensus 218 neIIR~e-k~~il--VVQGaAGSGKTtiALHRvAyLlY~~R~~l~~k~vlvl~PN~vFle----Yis~VLPeLGe~~V~q 290 (747) T COG3973 218 NEIIRFE-KNKIL--VVQGAAGSGKTTIALHRVAYLLYGYRGPLQAKPVLVLGPNRVFLE----YISRVLPELGEEGVVQ 290 (747) T ss_pred HHHHHCC-CCCEE--EEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCCEEEECCCHHHHH----HHHHHCHHHCCCCEEE T ss_conf 7787555-78748--995588887135889999999853566246686599828389999----9987554416686365 Q ss_pred EE---------C-CCCHHHHHHHHHHHCCCCCEEEEECH-----HHCCCCCCCCCCCEEEECCCCCCCH---HHHHHHHH Q ss_conf 62---------4-64225667687762134754864111-----2013345544441788521013356---88998740 Q gi|254780945|r 355 IT---------G-NMPQAHRRKALERIAHGQAHIIIGTH-----ALFQDSIQYYKLILVIVDEQHRFGV---QQRLKLTQ 416 (700) Q Consensus 355 Lt---------g-~~~~~er~~i~~~i~~G~~~iiIGTH-----AL~q~~v~F~~LgLvViDEQHRFGV---~QR~~L~~ 416 (700) =| | .++..+-...+....-+.-+..+-+- -+|++ |-++-++=|-+.-.||- -++..+.. T Consensus 291 ~Tf~e~a~~iLg~~s~d~~lt~~~~e~~~~d~~~~~a~~a~k~~~~~~~---~i~~~v~~is~e~~v~k~i~~~~~~~~s 367 (747) T COG3973 291 ETFEEWALAILGLKSEDLELTRRTLEKLLMDTDLGIAALAWKRSLLFGD---AIDLDVVRISLEKKVGKDITGAGLQLNS 367 (747) T ss_pred CCHHHHHHHHCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 0499988876188971157899987654145077787777630257899---9987765455532267776643477764 Q ss_pred CCCCC--CCEEECHHHHHHHHHHH---HHHCCCHHHHCCCCCCCCCCEEEEEECCCHHHHHHHHHHHHCCCCEEEEEECC Q ss_conf 25677--61010101322789999---75201011110235576662079997020026899997631038738999712 Q gi|254780945|r 417 KATAP--HVLLMTATPIPRTLVLT---SLGDIDISKITEKPAGRKPIKTVIIPINRIDEVIERLKVVLSEGKKAYWICPQ 491 (700) Q Consensus 417 Kg~~p--h~L~MtATPIPRTLal~---~ygdldvS~i~e~P~gR~~I~T~~~~~~~~~~~~~~i~~~l~~g~q~y~VcPl 491 (700) |+.-- -.=.|+--|||+-+--+ ..+++.--.+.. |-.+ +.......+.++|+-.-++++.- .|.|- T Consensus 368 k~eir~lF~e~l~~~~l~~r~~~i~~~~~~~ln~l~~~~----~dk~-~~~~~~~~~q~~~ed~v~rlr~~----~~l~e 438 (747) T COG3973 368 KVEIRGLFTESLSESPLADRLHDIFAQDLLKLNDLSAAI----RDKL-DDLLDIAFRQKVYEDAVKRLRPQ----DVLPE 438 (747) T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCHHHHHHHH----HHHH-HHHHHHHHHHHHHHHHHHHHCCC----CCCCH T ss_conf 788899999876329577788888631542012456666----5434-46777998888899999863210----35767 Q ss_pred CCCCCCCCCCHHHHHH---------HHHHHHCCCC---EECCCCCCCHHHHHHHHHHHHCCCEE-EEEE---------CH Q ss_conf 0122111210146666---------6668663710---31201469989999999997559869-9998---------00 Q gi|254780945|r 492 IEEKKESNFRSVVERF---------NSLHEHFTSS---IAIIHGRMSDIDKESVMDSFKNGTCK-LLIA---------TT 549 (700) Q Consensus 492 Ieese~~~~~~~~~~~---------~~l~~~~~~~---v~~lHGkm~~~ek~~~m~~F~~g~~~-iLva---------Tt 549 (700) -++++..-.-++.... ..|...|+.. ..+.-|+-+.+++..+=+.|....+| +|.+ -- T Consensus 439 e~~n~~~~~vaa~~y~e~~k~~~l~~~L~r~~~s~~~~~el~~g~~~~e~~r~~ge~~~~~~~d~~l~~dD~a~~lyikd 518 (747) T COG3973 439 EEENSVRINVAAANYDEAQKSLKLRVLLDRFFASTTPLTELRRGLADAEALRAIGEAKWREQIDKALLSDDVAPRLYIKD 518 (747) T ss_pred HHHHHHCCHHHHHHHHHHHCCCCHHHHHHHHHCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHCC T ss_conf 66655312255534677740400889988653123167898647878899987303544432100000211435665013 Q ss_pred HHHCCCCCCCCCEEEEECHHH---CCHHHHHHHHHCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHCHHHHHHHHHHH Q ss_conf 341046888765899858525---47468877301166789835999970888998799999999841425899999985 Q gi|254780945|r 550 VIEVGIDVVDASIIIIENAEH---FGLAQLHQLRGRVGRGEEISSCILLYHPPLSKNSYTRLSVLKNTEDGFLIAEEDLK 626 (700) Q Consensus 550 viEVGvdvpna~~mvI~~aer---fGLsqLHQLRGRVGRg~~~s~c~l~~~~~~~~~~~~Rl~~l~~~~dGf~iAe~Dl~ 626 (700) .+|+-=+--+....||..|.- |-.+-+--|--|-+=--.-.|---+|....--..++|+.++-+.++ |+.---+-- T Consensus 519 ~ldG~k~~~~~kh~vIDeaqdys~~q~~~~r~l~~~as~tivgd~gq~i~~~~~e~~~~e~~~~~fed~~-~e~v~l~~s 597 (747) T COG3973 519 PLDGIKTERRLKHTVIDEAQDYSRFQFTDNRTLAERASMTIVGDYGQVIYDEAQELSPMERMDVFFEDPS-FEYVGLIAS 597 (747) T ss_pred CCCCCCCCCCCCCEEECHHHHCCHHHHHHHHHHHHHCCCEEECCCCCEEHHHHCCCCHHHHHHHHHHCCC-CHHHHHHHH T ss_conf 2346655420332255134433402458876443203644762478553220122687999888872897-054324565 Q ss_pred HCCCCCCCCCHHCCCC-CCCCCCHHH------------HHHHHHHHHHHHHHHHHH Q ss_conf 2063000260006987-440003887------------599999999999999984 Q gi|254780945|r 627 QRKEGEILGIKQSGMP-KFLIAQPEL------------HDSLLEIARKDAKHILTQ 669 (700) Q Consensus 627 lRG~G~~~G~~QsG~~-~~~~~d~~~------------d~~ll~~a~~~a~~~~~~ 669 (700) .|.+-++.-..-|=+| .|++--+.+ +..+.+.+-..+..+-.. T Consensus 598 yrSt~eI~efan~~l~d~~~~~p~~rsge~p~~i~~~~ne~l~qr~~~ii~~mkk~ 653 (747) T COG3973 598 YRSTAEIDEFANSLLPDRFRIHPLTRSGEKPAVIMSVANEELVQRNPDIIPRMKKR 653 (747) T ss_pred HCCHHHHHHHHHHHCCCCCCCCHHHCCCCCCEEEECCCHHHHHHHHHHHHHHHHHC T ss_conf 25858899999986327776661211788762211113398987507788888752 No 267 >PRK03609 umuC DNA polymerase V subunit UmuC; Reviewed Probab=94.33 E-value=0.026 Score=37.70 Aligned_cols=10 Identities=10% Similarity=0.222 Sum_probs=3.9 Q ss_pred HHHHHHHCCC Q ss_conf 6666866371 Q gi|254780945|r 507 FNSLHEHFTS 516 (700) Q Consensus 507 ~~~l~~~~~~ 516 (700) .+.+++.||. T Consensus 377 iD~In~rfG~ 386 (422) T PRK03609 377 LDTLNAKEGK 386 (422) T ss_pred HHHHHHHHCC T ss_conf 9999985389 No 268 >PRK12727 flagellar biosynthesis regulator FlhF; Provisional Probab=94.32 E-value=0.52 Score=27.50 Aligned_cols=223 Identities=15% Similarity=0.159 Sum_probs=130.8 Q ss_pred CCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCE----------EEEEECCCCCHH-HHHHHHHHHHHHHHC- Q ss_conf 78775789999863024679889999999998410013430----------788621442236-999999733444305- Q gi|254780945|r 255 INVEGKIAQKILRNIPFSPTKSQESAIKDILQDMSQKNRML----------RILQGDVGSGKT-LVALIAMAAAVEAGG- 322 (700) Q Consensus 255 ~~~~~~~~~~f~~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~----------RLLQGDVGSGKT-iVA~~A~l~~~~~G~- 322 (700) .-++..+...+...+|-..... +++..+..-|....|.. --|-|=.|.||| -+|=+|+..+...|- T Consensus 302 ~GfS~~Lar~L~~~lP~~~~~~--~a~~~ll~~La~~Lpv~~~d~~~~gGv~AlvGpTGvGKTTT~aKlAa~~~~~~g~~ 379 (557) T PRK12727 302 YGFDAGLTRDVAMQIPADTELH--RGRGLMLGLLSKRLPVAPVDPLERGGVIALVGPTGAGKTTTIAKLAQRFAAQHAPR 379 (557) T ss_pred CCCCHHHHHHHHHHCCCCCCHH--HHHHHHHHHHHHHCCCCCCCHHHCCCEEEEECCCCCCCHHHHHHHHHHHHHHCCCC T ss_conf 6699999999997483327888--99999999999628777775154076478743777673117999999999973998 Q ss_pred CEEEEEHH--HHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEEE Q ss_conf 45886127--9999999986211014578658996246422566768776213475486411120133455444417885 Q gi|254780945|r 323 QAVIMAPI--GILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKLILVIV 400 (700) Q Consensus 323 Q~alMaPT--EILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvVi 400 (700) +|||..=- -|=|.....++.++ +||.|...... .+=...+..+.+-. -|+|-|--.=|.+... T Consensus 380 ~valit~DtyRiga~eQL~~y~~i---lgvpv~~~~~~---~~l~~~l~~l~~~~-lvliDTaG~~~rd~~~-------- 444 (557) T PRK12727 380 DVALVTTDTQRVGGREQLHSYGRQ---LGIAVHEADSA---ESLLDLLERLRDYK-LVLIDTAGMGQRDRAL-------- 444 (557) T ss_pred EEEEEECCCCCHHHHHHHHHHHHH---HCCEEEEECCH---HHHHHHHHHHCCCC-EEEEECCCCCCCCHHH-------- T ss_conf 189997266408799999999998---39757982899---99999999836999-8999499988469999-------- Q ss_pred CCCCCCCHHHHHHHHHCCCCCCCEEECHHHHHHHHH--HHHHHCCCHHHHCCCCCCCCCCEEEEEECCCHHHHHHHHHHH Q ss_conf 210133568899874025677610101013227899--997520101111023557666207999702002689999763 Q gi|254780945|r 401 DEQHRFGVQQRLKLTQKATAPHVLLMTATPIPRTLV--LTSLGDIDISKITEKPAGRKPIKTVIIPINRIDEVIERLKVV 478 (700) Q Consensus 401 DEQHRFGV~QR~~L~~Kg~~ph~L~MtATPIPRTLa--l~~ygdldvS~i~e~P~gR~~I~T~~~~~~~~~~~~~~i~~~ 478 (700) .+|-..|..-..--.+|+|+||-=+++|- +.-|+-+.++ .-|.|++=.......+++.+ T Consensus 445 -------~~~~~~l~~~~~~~~~Lvl~a~~~~~~l~~~~~~~~~~~~~---------~~i~TKlDE~~~~G~~l~~~--- 505 (557) T PRK12727 445 -------AAQLNWLRAARQVTSLLVLPANAHFSDLDEVVRRFAHAKPQ---------GVVLTKLDETGRFGSALSVV--- 505 (557) T ss_pred -------HHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCC---------EEEEEECCCCCCCCHHHHHH--- T ss_conf -------99999875147763599996889989999999985379987---------48996143678703999999--- Q ss_pred HCCCCEEEEEECCCCCCCCC---CCCHHHHHHHHHHHH Q ss_conf 10387389997120122111---210146666666866 Q gi|254780945|r 479 LSEGKKAYWICPQIEEKKES---NFRSVVERFNSLHEH 513 (700) Q Consensus 479 l~~g~q~y~VcPlIeese~~---~~~~~~~~~~~l~~~ 513 (700) +..+-.+.||.-==.=-|++ +.+....+.+.|.+. T Consensus 506 ~~~~lp~~y~t~GQ~VPeDi~~a~~~~Lv~Ra~~L~~~ 543 (557) T PRK12727 506 VDHQMPITWVTDGQRVPDDLHRANAASLVLRLEDLRRA 543 (557) T ss_pred HHHCCCEEEECCCCCCCCCHHHCCHHHHHHHHHHHHHH T ss_conf 99689828975898285236438999999999997641 No 269 >PRK07135 dnaE DNA polymerase III DnaE; Validated Probab=94.28 E-value=0.53 Score=27.45 Aligned_cols=66 Identities=12% Similarity=0.164 Sum_probs=47.7 Q ss_pred HHHHHHCCCC--EECCCCCCCHHHH-HHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHH Q ss_conf 6668663710--3120146998999-9999997559869999800341046888765899858525474688773 Q gi|254780945|r 508 NSLHEHFTSS--IAIIHGRMSDIDK-ESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQL 579 (700) Q Consensus 508 ~~l~~~~~~~--v~~lHGkm~~~ek-~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQL 579 (700) .+||.+||.. .++|...+...+| ...+.+-++-.+.|| -.-|+-......+-.++=||||+..--+ T Consensus 695 AyLK~~yP~eF~aa~L~~~~~~~~k~~~~i~e~~~~gi~vl------pPdiN~S~~~~~~~~~~I~~gl~~Ikgv 763 (987) T PRK07135 695 AYYKARYPLYFYSVLISNSNGSQEKIKKYVGEAKNNNFKIY------SPDINFSTENAVFDKGKIFLPLLMIKGL 763 (987) T ss_pred HHHHHCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHCCCEEE------CCCCCCCCCCCEEECCEEEEHHHHHCCC T ss_conf 99985488999999845798986449999999998899897------9984468884465799899804743677 No 270 >KOG3108 consensus Probab=94.27 E-value=0.39 Score=28.46 Aligned_cols=88 Identities=16% Similarity=0.270 Sum_probs=53.6 Q ss_pred EEEEEEEEEEEEEECCCCCCEEEEEEECCCCEEEEEEECCCHHHHH---HHCCCCCEEEEEEEEEECCCEEEEECCEEE- Q ss_conf 8999999989754215898338999981893699999518878998---732898889999899731877999778689- Q gi|254780945|r 69 IVTITGYISQHSSFQLQKRRPYKILLNDGTGEITLLFFYRKTEMLK---NVFFEGRKITVTGKIKKLKNRIIMVHPHYI- 144 (700) Q Consensus 69 ~vti~g~V~~~~~~~~~~r~~~~v~v~D~tg~i~lvfFn~~~~yl~---k~lk~G~~v~vsGKv~~~~~~~qi~hPe~~- 144 (700) .|++.|.|.....- --.....+.|+||.|.++.|+.. .+.. ..+.+|..|.++|.++.|.|...+..-.+- T Consensus 70 ~v~~VGivr~~e~~----~t~i~y~I~D~tg~id~r~W~~~-~~~~~e~~~l~~~~yVkv~G~Lk~f~Gk~sl~~fkI~p 144 (265) T KOG3108 70 AVSIVGIVRNIEKS----ATNITYEIEDGTGQIDVRQWFHD-NAESEEMPALETGTYVKVYGHLKPFQGKKSLQVFKIRP 144 (265) T ss_pred EEEEEEEEEECEEC----CCCEEEEEECCCCEEEEEECCCC-CCHHHHCCCCCCCCEEEEECCCCCCCCCEEEEEEEEEE T ss_conf 88999999702026----76149998268650788870355-30222174124475799640104889952677876555 Q ss_pred ECCCCCCCCCCCCCCCC Q ss_conf 62643344444110000 Q gi|254780945|r 145 FHNSQDVNFPLIEAVYS 161 (700) Q Consensus 145 ~~~~~~~~~~~I~PIYp 161 (700) +.+.++..+-.++++|. T Consensus 145 v~D~Nevt~h~LE~i~~ 161 (265) T KOG3108 145 VEDFNEVTTHFLEVINA 161 (265) T ss_pred EECCCCEEEEEEHHHHH T ss_conf 40377225773145789 No 271 >COG0587 DnaE DNA polymerase III, alpha subunit [DNA replication, recombination, and repair] Probab=94.26 E-value=0.53 Score=27.42 Aligned_cols=129 Identities=17% Similarity=0.222 Sum_probs=76.0 Q ss_pred HHHHHHCCCC--EECCCCCCCHHHH-HHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEE-CHHHCCHHHHHHHHHCC Q ss_conf 6668663710--3120146998999-999999755986999980034104688876589985-85254746887730116 Q gi|254780945|r 508 NSLHEHFTSS--IAIIHGRMSDIDK-ESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIE-NAEHFGLAQLHQLRGRV 583 (700) Q Consensus 508 ~~l~~~~~~~--v~~lHGkm~~~ek-~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~-~aerfGLsqLHQLRGRV 583 (700) .+||.++|.. .+++.-.|.+.+| ...+.+-++..+.|+ .+-||-......+-. ++=||||.+.-=+.-.+ T Consensus 762 AyLKahYP~eF~aall~s~~~n~~k~~~~i~ear~~Gi~Vl------pPdIN~S~~~f~~~~~~~I~~gL~~IKGvg~~~ 835 (1139) T COG0587 762 AYLKAHYPAEFMAALLTSEPMNFDKVAQYIQEARRMGIEVL------PPDINRSGWDFTVEEKKAIRLGLGAIKGVGEDA 835 (1139) T ss_pred HHHHHHCCHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCEEE------CCCCCCCCCCCEECCCCCEEEHHHHHCCCCHHH T ss_conf 99987177999999974477886269999999998597673------785266677646447872787146556876879 Q ss_pred ------CC-----CCCCEEEEEEECCCCCHH--------------HHHHHHHHHHHCHHHHHHHHHHHHCCCCCCCCCHH Q ss_conf ------67-----898359999708889987--------------99999999841425899999985206300026000 Q gi|254780945|r 584 ------GR-----GEEISSCILLYHPPLSKN--------------SYTRLSVLKNTEDGFLIAEEDLKQRKEGEILGIKQ 638 (700) Q Consensus 584 ------GR-----g~~~s~c~l~~~~~~~~~--------------~~~Rl~~l~~~~dGf~iAe~Dl~lRG~G~~~G~~Q 638 (700) -| .+..++|-.+-...++.. ...|-.+|..-.+=+.-++.+.+--|.+++||... T Consensus 836 i~~Iv~~R~~~~~~~~~df~~r~~~~~l~kr~lE~LikaGAfd~~~~~R~~ll~~~~~~~~~~~~~~~~~~q~~lF~~~~ 915 (1139) T COG0587 836 IEEIVEARKEKPFKSLEDFCDRIDRKGLNKRVLESLIKAGAFDSFGKNRAQLLAALDDLLDAASGTAKNSGQLSLFGAAA 915 (1139) T ss_pred HHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHH T ss_conf 99999976315777676699875240587888999997486421115799999999999988766576316666621121 Q ss_pred CCCC Q ss_conf 6987 Q gi|254780945|r 639 SGMP 642 (700) Q Consensus 639 sG~~ 642 (700) ++.. T Consensus 916 ~~~~ 919 (1139) T COG0587 916 AGES 919 (1139) T ss_pred CCCC T ss_conf 2433 No 272 >PRK07217 replication factor A; Reviewed Probab=94.26 E-value=0.53 Score=27.41 Aligned_cols=82 Identities=17% Similarity=0.179 Sum_probs=58.6 Q ss_pred CCCCCCCHHHC-CCCCEEEEEEEEEEEEEECCCCCCEEEEEEECCCCEEEEEEECCCHHHHHHHCCCCCEEEEEEE-EEE Q ss_conf 34444647888-9987899999998975421589833899998189369999951887899873289888999989-973 Q gi|254780945|r 54 DRHYRPKISEI-SEERIVTITGYISQHSSFQLQKRRPYKILLNDGTGEITLLFFYRKTEMLKNVFFEGRKITVTGK-IKK 131 (700) Q Consensus 54 Dr~~~~~I~~l-~~g~~vti~g~V~~~~~~~~~~r~~~~v~v~D~tg~i~lvfFn~~~~yl~k~lk~G~~v~vsGK-v~~ 131 (700) .-....+|.++ .+|+++++.++|+..-. +....-.-.-.+.|+||.|+.+-|-. .-+ ..+..|..|.+.-- +.. T Consensus 67 ~~~~~v~i~DI~~p~qWVtv~aKVVqLwe-p~s~sIaQ~GllgDeTG~IkFt~W~k--sd~-P~leeG~~Y~l~nvvvdE 142 (311) T PRK07217 67 RGNELVNVADIDEPEQWVDVTAKVVQLWE-PSSESIAQVGLIGDETGTIKFTKWAK--SDL-PDLEEGKSYLLKNVVTDE 142 (311) T ss_pred CCCCCEEHHHCCCCCCEEEEEEEEEEECC-CCCCCCEEEEEEECCCCEEEEEEECC--CCC-CCCCCCCEEEEEEEEEEE T ss_conf 87773002220679954899999999507-89964311220004765078887336--898-644378579997888720 Q ss_pred CCCEEEEE Q ss_conf 18779997 Q gi|254780945|r 132 LKNRIIMV 139 (700) Q Consensus 132 ~~~~~qi~ 139 (700) |+|.+++. T Consensus 143 f~G~~sVk 150 (311) T PRK07217 143 YQGRFSVK 150 (311) T ss_pred CCCEEEEE T ss_conf 28867788 No 273 >cd00424 Pol_Y Y-family of DNA polymerases. Pol_Y's can transverse replication-blocking DNA lesions, such as cyclobutane pyrimidine dimers resulting from UV damage, at the cost of an elevated error rate. The Y-family has no 3'-5' exonuclease activity. In addition to possessing a topology akin to a right hand, with "thumb", "fingers" and "palm" motifs, like polymerases from the A-, B-, C- and X-families, the Y-family has a unique "little finger" motif. Expression of Y-family polymerases is often induced by DNA damage. These polymerases are phylogenetically unrelated to classical DNA polymerases. Probab=94.22 E-value=0.037 Score=36.52 Aligned_cols=19 Identities=16% Similarity=-0.020 Sum_probs=8.2 Q ss_pred CCCCCHH-HHHHHHHCCCCC Q ss_conf 0133568-899874025677 Q gi|254780945|r 403 QHRFGVQ-QRLKLTQKATAP 421 (700) Q Consensus 403 QHRFGV~-QR~~L~~Kg~~p 421 (700) +.+||+. ++..-...|... T Consensus 210 ~~~~~~~g~~l~~~~~G~d~ 229 (341) T cd00424 210 ASLGGKLGERLWSALRGYDG 229 (341) T ss_pred HHHCCHHHHHHHHHHCCCCC T ss_conf 99768899999999659999 No 274 >PRK06067 flagellar accessory protein FlaH; Validated Probab=94.10 E-value=0.095 Score=33.31 Aligned_cols=57 Identities=12% Similarity=0.223 Sum_probs=39.8 Q ss_pred HHHHHHCCCCC--CEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHH Q ss_conf 99984100134--30788621442236999999733444305458861279999999986 Q gi|254780945|r 283 DILQDMSQKNR--MLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEF 340 (700) Q Consensus 283 eI~~Dl~~~~p--M~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~ 340 (700) +..+-|..+.| -.-|+.|+-|||||+.|+--++.++.+|..|++.+= |--.+|-.++ T Consensus 20 ~lD~~l~GG~p~g~~~li~G~~G~GKt~~~~~f~~~~~~~g~~~~~~~~-ee~~~~~~~~ 78 (241) T PRK06067 20 EIDRKLGGGIPFGSLILIEGENDTGKSVLSQQFVWGALNQGKRGLAITT-ENTSKSYLKQ 78 (241) T ss_pred HHHHHCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEE-CCCHHHHHHH T ss_conf 5786506997799089998079988799999999999867982999994-2899999999 No 275 >TIGR00595 priA primosomal protein N'; InterPro: IPR005259 All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.; GO: 0003677 DNA binding, 0006260 DNA replication. Probab=93.97 E-value=0.26 Score=29.91 Aligned_cols=126 Identities=18% Similarity=0.216 Sum_probs=84.5 Q ss_pred CEEE-EEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHH--HHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEE Q ss_conf 4588-61279999999986211014578658996246422566--76877621347548641112013345544441788 Q gi|254780945|r 323 QAVI-MAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHR--RKALERIAHGQAHIIIGTHALFQDSIQYYKLILVI 399 (700) Q Consensus 323 Q~al-MaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er--~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvV 399 (700) ++.. +.|-.+=.++--+.+.++|+.. ++.-+-..++..+. ...+.+..+|+++|+|||.-+ .++..|.++-|+. T Consensus 273 ~~~~~~~~~g~G~~~~~~~l~~~~p~~--~~~~~d~d~~~~~~~~~~~~~~f~~g~~d~l~Gtq~~-~kG~~fp~~~l~g 349 (524) T TIGR00595 273 GSEDTLKYKGLGTEKVEEELAKLFPGA--RIARLDSDTTSRKGAHEALLNQFANGKADILIGTQMI-AKGHDFPNVTLVG 349 (524) T ss_pred CCCCCEEECCCCHHHHHHHHHHHCCCC--CEEEEECCCCCCCHHHHHHHHHHHCCCCEEEECHHHH-HCCCCCCCEEEEE T ss_conf 664301203542789999999855887--3676412212351468999999750784067500344-3157744203677 Q ss_pred ECCCC------CCCHHHHH-HHHHC--------CCCCCCEEECHHHHHHHHHHHHHHCCCHHHHCCC Q ss_conf 52101------33568899-87402--------5677610101013227899997520101111023 Q gi|254780945|r 400 VDEQH------RFGVQQRL-KLTQK--------ATAPHVLLMTATPIPRTLVLTSLGDIDISKITEK 451 (700) Q Consensus 400 iDEQH------RFGV~QR~-~L~~K--------g~~ph~L~MtATPIPRTLal~~ygdldvS~i~e~ 451 (700) |=.-- -|--..|. .|... ...-++++-|-+|---++..+.++|-+--.-.|+ T Consensus 350 ~~~~d~~l~~~d~r~~e~~~~l~~q~~Gr~gr~~~~g~v~iqt~~P~~~~~~~~~~~~~~~f~~~~~ 416 (524) T TIGR00595 350 VLDADSGLHSPDFRAAERGFQLLTQVAGRAGRAEDPGEVIIQTYNPGHPAIQAALTGDYEAFYEQEL 416 (524) T ss_pred EEECCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEECCCHHHHHHHHHCCCHHHHHHHH T ss_conf 8731200255421346778888887641002346887479973077516889876068167899988 No 276 >PRK09694 hypothetical protein; Provisional Probab=93.90 E-value=0.53 Score=27.43 Aligned_cols=99 Identities=23% Similarity=0.386 Sum_probs=67.7 Q ss_pred HHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHC-----CCC---CEEEEEC Q ss_conf 99973344430545886127999999998621101457865899624642256676877621-----347---5486411 Q gi|254780945|r 311 LIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIA-----HGQ---AHIIIGT 382 (700) Q Consensus 311 ~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~-----~G~---~~iiIGT 382 (700) +..+..++.+|.+|++++=|===|++-|+.++..+.. +..|.|+++.-...+|.++-+.+. +|+ -.|+||| T Consensus 551 ~~~l~~~~~~G~~v~vI~NTV~rAq~~y~~L~~~~~~-~~~v~L~HsRF~~~DR~~~E~~vl~~~Gk~~~r~~g~IlVaT 629 (878) T PRK09694 551 LERMIAAANAGAQVCVICNLVDDAQVCYQRLKELNNT-QVDIDLFHARFTFNDRREKENRVISNFGKNGKRNVGRILVAT 629 (878) T ss_pred HHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHHHCCC-CCCEEEEECCCCHHHHHHHHHHHHHHHCCCCCCCCCEEEEEC T ss_conf 9999999978995999938899999999999985289-987799868887766999999999986889889998699977 Q ss_pred HHHCCC-CCCCCCCCEEEECC------CCCCCHHHHHH Q ss_conf 120133-45544441788521------01335688998 Q gi|254780945|r 383 HALFQD-SIQYYKLILVIVDE------QHRFGVQQRLK 413 (700) Q Consensus 383 HAL~q~-~v~F~~LgLvViDE------QHRFGV~QR~~ 413 (700) +.+=|. |+.|. +.|.|= =+|+|=-+|.. T Consensus 630 QVvEQSLDiDfD---~liTDLAPiDlLlQR~GRLhRH~ 664 (878) T PRK09694 630 QVVEQSLDLDFD---WLITQHCPADLLFQRMGRLHRHH 664 (878) T ss_pred CEEEEEECCCCC---HHHCCCCCHHHHHHHHHHHHCCC T ss_conf 333243033533---01104686999998742320589 No 277 >PRK08402 replication factor A; Reviewed Probab=93.81 E-value=0.49 Score=27.74 Aligned_cols=108 Identities=19% Similarity=0.195 Sum_probs=68.6 Q ss_pred CCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCHHHCCCCC---EEEEEEEEEEEEEEC-CCC----- Q ss_conf 67858899999887401246885548987870897401344446478889987---899999998975421-589----- Q gi|254780945|r 16 FRGVGKKYSLFLSKIINCGNANETRFIDLLFYHPSSFIDRHYRPKISEISEER---IVTITGYISQHSSFQ-LQK----- 86 (700) Q Consensus 16 LkGVGpk~a~~L~kl~~l~~~GI~ti~DLL~~~PrrYeDr~~~~~I~~l~~g~---~vti~g~V~~~~~~~-~~~----- 86 (700) -.|||...|..|-.- ..||. | ...++ .....|+++.+|. .+.|.|+|++.+..+ |.+ T Consensus 34 e~gISE~gAalllAe----eLGV~----L----~~~ee--e~~~kIkdI~~Gm~~rnVeivgrIi~ky~~REf~kkDGS~ 99 (357) T PRK08402 34 EDGISEHAAALLLAE----RLGVD----L----IKKEE--QSLMKISDLYPGMDPREVNIVGRILKKYPPREYTKKDGST 99 (357) T ss_pred HCCCCHHHHHHHHHH----HHCCC----C----CCCCC--CCCCCHHHHHCCCCCCCCEEEEEEEEECCCHHHHHCCCCC T ss_conf 628776789999999----85886----5----55566--5640577750766756757999873305805530036987 Q ss_pred CCEEEEEEECCCCEEEEEEECCCH-HHHHHHCCCCCEEEE-EEEEEEC-CCEEEE Q ss_conf 833899998189369999951887-899873289888999-9899731-877999 Q gi|254780945|r 87 RRPYKILLNDGTGEITLLFFYRKT-EMLKNVFFEGRKITV-TGKIKKL-KNRIIM 138 (700) Q Consensus 87 r~~~~v~v~D~tg~i~lvfFn~~~-~yl~k~lk~G~~v~v-sGKv~~~-~~~~qi 138 (700) ++...+++.|+||++.++.|-..- .|. +.+.+|+-+.+ -+.|+.. +|..++ T Consensus 100 GkVASL~I~DeTG~aRLvLWD~~v~~yy-~~l~~GDVIKv~~~~Vres~~g~peL 153 (357) T PRK08402 100 GRVASLIIYDDTGRARVVLWDAKVAEYY-NKLEVGDVIKVLDAQVRESLSGLPEL 153 (357) T ss_pred CEEEEEEEECCCCCEEEEEECHHHHHHH-HHCCCCCEEEEECHHHHHHCCCCHHE T ss_conf 5378999973788389998338789889-75376866998331344311797120 No 278 >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=93.72 E-value=0.66 Score=26.68 Aligned_cols=80 Identities=21% Similarity=0.292 Sum_probs=56.9 Q ss_pred HHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHH--HHCCEEEEEHHHHHHHHHHHHHHHHCC---CCCCE Q ss_conf 9999999998410013430788621442236999999733444--305458861279999999986211014---57865 Q gi|254780945|r 277 QESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVE--AGGQAVIMAPIGILAQQHYEFIKKYTQ---NTQII 351 (700) Q Consensus 277 Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~--~G~Q~alMaPTEILA~QH~~~~~~~~~---~~~i~ 351 (700) |.+..=-|..-+...... |+|.-+|.|||.-+++.++..+. +|.++++=.+|--|=+|-++....++. +.+++ T Consensus 2 ~~~~~~~~~~a~~~~~v~--lVEAGTGTGKSLAYLvPAl~~a~~~~g~rVVISTaT~aLQeQL~~kd~pl~~~~l~~~~~ 79 (636) T TIGR03117 2 QALFYLNCLTSLRQKRIG--MLEASTGVGKTLAMIMAALTMLKERPDQKIAIAVPTLALMGQLWSELERLTAEGLAGPVQ 79 (636) T ss_pred CHHHHHHHHHHHHCCCEE--EEECCCCCCHHHHHHHHHHHHHHHCCCCCEEEECCCHHHHHHHHHHHHHHHHHHCCCCCE T ss_conf 005999899986038489--998999710889999999999985799988997987999999976656599997599962 Q ss_pred EEEEECC Q ss_conf 8996246 Q gi|254780945|r 352 VEIITGN 358 (700) Q Consensus 352 v~lLtg~ 358 (700) +++|-|. T Consensus 80 ~allKGR 86 (636) T TIGR03117 80 AGFFPGS 86 (636) T ss_pred EEEEECH T ss_conf 8998772 No 279 >smart00487 DEXDc DEAD-like helicases superfamily. Probab=93.62 E-value=0.69 Score=26.56 Aligned_cols=115 Identities=17% Similarity=0.232 Sum_probs=77.9 Q ss_pred HHHHHHCC--CCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCC----CEECCCCCCCHHHHHHHHHHHHCCCEEEEEE Q ss_conf 99763103--87389997120122111210146666666866371----0312014699899999999975598699998 Q gi|254780945|r 474 RLKVVLSE--GKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTS----SIAIIHGRMSDIDKESVMDSFKNGTCKLLIA 547 (700) Q Consensus 474 ~i~~~l~~--g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~----~v~~lHGkm~~~ek~~~m~~F~~g~~~iLva 547 (700) .+.+.+.+ +.++.++||..+ -+.+.++.+.+.++. .+...+|.-. ....+++.++..+|+|+ T Consensus 44 ~~~~~~~~~~~~~~li~~P~~~--------l~~q~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~i~i~ 111 (201) T smart00487 44 PALEALKRGKGKRVLVLVPTRE--------LAEQWAEELKKLGPSLGLKVVGLYGGDSK----REQLRKLESGKTDILVT 111 (201) T ss_pred HHHHHHHCCCCCEEEEEECCHH--------HHHHHHHHHHHCCCCCEEEEEEEECCCCH----HHHHHHHHCCCCCEEEE T ss_conf 9999863389975999908599--------99999988601021020445565247737----99999997599989995 Q ss_pred C-----HHHHCC-CCCCCCCEEEEECHHHCCH-HHHHHHHHCCCCCCCCEEEEEEECCCC Q ss_conf 0-----034104-6888765899858525474-688773011667898359999708889 Q gi|254780945|r 548 T-----TVIEVG-IDVVDASIIIIENAEHFGL-AQLHQLRGRVGRGEEISSCILLYHPPL 600 (700) Q Consensus 548 T-----tviEVG-vdvpna~~mvI~~aerfGL-sqLHQLRGRVGRg~~~s~c~l~~~~~~ 600 (700) | ..+.-+ .+..+-+++||..|+++.- .....++.-..+-......++++..+. T Consensus 112 t~~~l~~~~~~~~~~~~~~~~vIiDE~H~~~~~~~~~~~~~~~~~~~~~~~~i~lSAT~~ 171 (201) T smart00487 112 TPGRLLDLLENDLLELSNVDLVILDEAHRLLDGGFGDQLEKLLKLLPKNVQLLLLSATPP 171 (201) T ss_pred CHHHHHHHHHHCCCCCCCCEEEEEECHHHHHCCCCHHHHHHHHHHCCCCCCEEEECCCCC T ss_conf 589999999727545254319999896775125709999999996799997899924898 No 280 >PRK06386 replication factor A; Reviewed Probab=93.31 E-value=0.76 Score=26.19 Aligned_cols=77 Identities=17% Similarity=0.177 Sum_probs=57.1 Q ss_pred CCCHHHCCC-CCEEEEEEEEEEEEEE--CCCCC--CEEEEEEECCCCEEEEEEECCCHHHHHHHCCCCCEEEEEEE-EEE Q ss_conf 464788899-8789999999897542--15898--33899998189369999951887899873289888999989-973 Q gi|254780945|r 58 RPKISEISE-ERIVTITGYISQHSSF--QLQKR--RPYKILLNDGTGEITLLFFYRKTEMLKNVFFEGRKITVTGK-IKK 131 (700) Q Consensus 58 ~~~I~~l~~-g~~vti~g~V~~~~~~--~~~~r--~~~~v~v~D~tg~i~lvfFn~~~~yl~k~lk~G~~v~vsGK-v~~ 131 (700) +++|+++.+ ++.+++.++|++.... ++.+. ..+.-.+.|+||.|...+|.+ + -.+++|+.+.+.+- ++. T Consensus 2 ~~ki~di~~~~~~v~~k~kVLs~~kr~I~~~~~~~~i~~G~LaDeTG~I~ftsWe~--~---~~~e~GD~v~I~NA~vr~ 76 (358) T PRK06386 2 LSKISDINAARQNVDLKVKVLSLNKRTIKNDRGETIYYYGIIGDETGTVPFTAWEF--P---DAVKSGDVIEIKYCYSKE 76 (358) T ss_pred CCCHHHCCCCCCCEEEEEEEEEECCEEEECCCCCEEEEEEEEECCCCEEEEEEECC--C---CCCCCCCEEEECCCEEEE T ss_conf 53153217677835899999982335663489955999999826876054787338--7---888987889985418856 Q ss_pred CCCEEEEE Q ss_conf 18779997 Q gi|254780945|r 132 LKNRIIMV 139 (700) Q Consensus 132 ~~~~~qi~ 139 (700) |++.+++. T Consensus 77 ~~g~peln 84 (358) T PRK06386 77 YNGKIRIY 84 (358) T ss_pred ECCCEEEE T ss_conf 48928898 No 281 >PRK00484 lysS lysyl-tRNA synthetase; Reviewed Probab=93.30 E-value=0.77 Score=26.18 Aligned_cols=97 Identities=18% Similarity=0.209 Sum_probs=60.1 Q ss_pred HHCCCCCCCCCCCCCHH---------HCCCCCEEEEEEEEEEEEEECCCCCCEEEEEEECCCCEEEEEEECCC-----HH Q ss_conf 70897401344446478---------88998789999999897542158983389999818936999995188-----78 Q gi|254780945|r 46 FYHPSSFIDRHYRPKIS---------EISEERIVTITGYISQHSSFQLQKRRPYKILLNDGTGEITLLFFYRK-----TE 111 (700) Q Consensus 46 ~~~PrrYeDr~~~~~I~---------~l~~g~~vti~g~V~~~~~~~~~~r~~~~v~v~D~tg~i~lvfFn~~-----~~ 111 (700) .=||.++..-..+..+. +...+..|++.|.|.+.+. .+ +..=+.+.|.+|.|++++-... .. T Consensus 23 ~pyp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~vaGrv~~~R~---~G-k~~F~~lrD~~g~iQ~~~~~~~~~~~~~~ 98 (491) T PRK00484 23 NPYPNDFERTHTSAELQAKYADLEKEELEALIEVSVAGRVMLKRV---MG-KASFATIQDGSGRIQLYVSKDDVGEEAYE 98 (491) T ss_pred CCCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCEEEEEEEEEEEEC---CC-CEEEEEEEECCCCEEEEEECCCCCHHHHH T ss_conf 999997858666999999875138533467988999987840505---69-81999999699458999966758999999 Q ss_pred HHHHHCCCCCEEEEEEEEEEC-CCEEEEECCEEEECC Q ss_conf 998732898889999899731-877999778689626 Q gi|254780945|r 112 MLKNVFFEGRKITVTGKIKKL-KNRIIMVHPHYIFHN 147 (700) Q Consensus 112 yl~k~lk~G~~v~vsGKv~~~-~~~~qi~hPe~~~~~ 147 (700) .+ +.+..|+.+.|.|++... .|.+++.--++.+.+ T Consensus 99 ~~-~~l~~gd~i~v~G~v~~t~~Gel~v~~~~~~iLs 134 (491) T PRK00484 99 AF-KKLDLGDIIGVEGTLFKTKTGELSVKVTELTLLT 134 (491) T ss_pred HH-HCCCCCCEEEEEEEEEECCCCEEEEECCEEEEEC T ss_conf 99-6068666898787998658851664033179931 No 282 >COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only] Probab=93.17 E-value=0.7 Score=26.50 Aligned_cols=37 Identities=30% Similarity=0.460 Sum_probs=30.2 Q ss_pred CCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHH Q ss_conf 467988999999999841001343078862144223699 Q gi|254780945|r 271 FSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLV 309 (700) Q Consensus 271 F~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiV 309 (700) |-+-.+|..+++-+..-...+-|. .|-||.|+|||.. T Consensus 1830 ~~~l~sql~vlEsV~~cIn~nwPl--IlvG~t~~GKt~~ 1866 (4600) T COG5271 1830 FVLLHSQLQVLESVMRCINMNWPL--ILVGDTGVGKTSL 1866 (4600) T ss_pred HHHHHHHHHHHHHHHHHHHCCCCE--EEECCCCCCHHHH T ss_conf 123554148999999998538977--9976888766899 No 283 >PRK04328 hypothetical protein; Provisional Probab=93.16 E-value=0.19 Score=30.88 Aligned_cols=54 Identities=15% Similarity=0.147 Sum_probs=39.6 Q ss_pred CCCCCCEE--EEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHH Q ss_conf 00134307--88621442236999999733444305458861279999999986211 Q gi|254780945|r 289 SQKNRMLR--ILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKK 343 (700) Q Consensus 289 ~~~~pM~R--LLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~ 343 (700) ..+.|... |+.|+-|||||+-|+--++..+.+|..|.+.+= |=-.+|..+++.. T Consensus 18 ~GGlp~gs~~Lv~G~pGtGKT~la~qFl~~g~~~GE~~lyis~-eE~~~~l~~~~~~ 73 (250) T PRK04328 18 YGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVAL-EEHPVQVRRNMAQ 73 (250) T ss_pred CCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHCCCCEEEEEE-ECCHHHHHHHHHH T ss_conf 5998799699998289999899999999999876997799997-2799999999998 No 284 >pfam00270 DEAD DEAD/DEAH box helicase. 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. Probab=93.14 E-value=0.45 Score=27.98 Aligned_cols=80 Identities=16% Similarity=0.250 Sum_probs=56.6 Q ss_pred CCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCC---CCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHH-----H Q ss_conf 38738999712012211121014666666686637---103120146998999999999755986999980034-----1 Q gi|254780945|r 481 EGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFT---SSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVI-----E 552 (700) Q Consensus 481 ~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~---~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtvi-----E 552 (700) .|.++.+++|..+ -+.+.++.+++.+. -+++.++|-.+..+....+. +..+|+|+|.-. . T Consensus 44 ~~~~~v~l~Pt~a--------L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~----~~~~Ilv~Tp~~l~~~l~ 111 (167) T pfam00270 44 DGPQALVLAPTRE--------LAEQIYEELKKLGKYLGLKVALLYGGDSPKEQLRKLK----KGPDILVGTPGRLLDLLE 111 (167) T ss_pred CCCEEEEECCHHH--------HHHHHHHHHHHHHHCCCCCEEEECCCCCHHHHHHHHC----CCCCEEEECHHHHHHHHH T ss_conf 8987999906088--------8889998864321026764046417861788987640----577079947899999998 Q ss_pred -CCCCCCCCCEEEEECHHHCC Q ss_conf -04688876589985852547 Q gi|254780945|r 553 -VGIDVVDASIIIIENAEHFG 572 (700) Q Consensus 553 -VGvdvpna~~mvI~~aerfG 572 (700) -.++..+..++|+..|++++ T Consensus 112 ~~~~~~~~~~~lIvDE~H~~~ 132 (167) T pfam00270 112 RGGLLLKNLKLLVLDEAHRLL 132 (167) T ss_pred HCCCCCCCEEEEEEECHHHHH T ss_conf 033121100389988088673 No 285 >PRK05159 aspC aspartyl-tRNA synthetase; Provisional Probab=93.05 E-value=0.83 Score=25.91 Aligned_cols=86 Identities=21% Similarity=0.272 Sum_probs=57.7 Q ss_pred CCCCHHHCCCCCEEEEEEEEEEEEEECCCCCCEEEEEEECCCCEEEEEEECCC-----HHHHHHHCCCCCEEEEEEEEEE Q ss_conf 44647888998789999999897542158983389999818936999995188-----7899873289888999989973 Q gi|254780945|r 57 YRPKISEISEERIVTITGYISQHSSFQLQKRRPYKILLNDGTGEITLLFFYRK-----TEMLKNVFFEGRKITVTGKIKK 131 (700) Q Consensus 57 ~~~~I~~l~~g~~vti~g~V~~~~~~~~~~r~~~~v~v~D~tg~i~lvfFn~~-----~~yl~k~lk~G~~v~vsGKv~~ 131 (700) .+..|++--.|+.|++.|.|.+.+. .++ ..=+.+.|++|.+++++=... ..++ +.+..|+.+.|.|+|.. T Consensus 6 ~~~dl~~~~~g~~V~v~G~v~~~R~---~Gk-l~Fi~LrD~~g~iQ~~~~~~~~~~~~~~~~-~~l~~g~~v~v~G~v~~ 80 (434) T PRK05159 6 YTSEVTPELDGKEVTLAGWVHEIRD---LGG-IKFLLLRDRTGIIQVVVPKKKVDEELFEGI-KKLSRESVVSVTGVVKE 80 (434) T ss_pred CCCCCCHHHCCCEEEEEEEEEEEEC---CCC-CEEEEEEECCCCEEEEEECCCCCHHHHHHH-HCCCCCEEEEEEEEEEC T ss_conf 3154994779999999898872881---798-599999969802899997998998999998-57999629999999985 Q ss_pred CC---CEEEEECCEEEECC Q ss_conf 18---77999778689626 Q gi|254780945|r 132 LK---NRIIMVHPHYIFHN 147 (700) Q Consensus 132 ~~---~~~qi~hPe~~~~~ 147 (700) .. +.+++.-.++.+.+ T Consensus 81 ~~~~~~~~ev~~~~i~ils 99 (434) T PRK05159 81 SEKAPNGVEVQPEEIEVLN 99 (434) T ss_pred CCCCCCCEEEEEEEEEEEE T ss_conf 8999975899998999983 No 286 >COG1444 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only] Probab=93.02 E-value=0.6 Score=27.01 Aligned_cols=272 Identities=20% Similarity=0.181 Sum_probs=139.6 Q ss_pred CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHC--CEEEEEHHHHHHHHHHHHHHHHCCCCC Q ss_conf 679889999999998410013430788621442236999999733444305--458861279999999986211014578 Q gi|254780945|r 272 SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGG--QAVIMAPIGILAQQHYEFIKKYTQNTQ 349 (700) Q Consensus 272 ~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~--Q~alMaPTEILA~QH~~~~~~~~~~~~ 349 (700) .+|.+|.++++.+..=+..+..| -.|-.|=|=||+.++-+|++.+..-+. .+.+-|||--=.+.-|+...+-|+.+| T Consensus 211 ~~T~dQ~~~l~~~~~l~~~~~~~-~vlTAdRGRGKSA~lGi~~~~~~~~~~~~~iiVTAP~~~nv~~Lf~fa~~~l~~lg 289 (758) T COG1444 211 CLTEDQAEALEILERLLDAPKRA-LVLTADRGRGKSAALGIALAAAARLAGSVRIIVTAPTPANVQTLFEFAGKGLEFLG 289 (758) T ss_pred HCCHHHHHHHHHHHHHHCCCCCE-EEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHHHHC T ss_conf 03751899999999997089835-99986778747688749999999733772089967977889999999987699827 Q ss_pred CEEEEEECCCCHHHHHHHHHHHCCCC--CEEEEECHHHCCCCCCCCCCCEEEECCCCCCCHHHHHHHHHCCCCCCCEEEC Q ss_conf 65899624642256676877621347--5486411120133455444417885210133568899874025677610101 Q gi|254780945|r 350 IIVEIITGNMPQAHRRKALERIAHGQ--AHIIIGTHALFQDSIQYYKLILVIVDEQHRFGVQQRLKLTQKATAPHVLLMT 427 (700) Q Consensus 350 i~v~lLtg~~~~~er~~i~~~i~~G~--~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFGV~QR~~L~~Kg~~ph~L~Mt 427 (700) .+-..-..+.- . ........ |..+.=.-|. +. =-|+||||--=-+|.==.+|... -+-++|| T Consensus 290 ~~~~v~~~~~g-----~-~~~~~~~~~~i~y~~P~~a~--~~-----~DllvVDEAAaIplplL~~l~~~---~~rv~~s 353 (758) T COG1444 290 YKRKVAPDALG-----E-IREVSGDGFRIEYVPPDDAQ--EE-----ADLLVVDEAAAIPLPLLHKLLRR---FPRVLFS 353 (758) T ss_pred CCCCCCCCCCC-----C-EEEECCCCEEEEEECCHHHC--CC-----CCEEEEEHHHCCCHHHHHHHHHH---CCCEEEE T ss_conf 74555634424-----4-00004774257751750012--56-----88899810312886999999864---4816999 Q ss_pred HHH-----HHHHHHHHHHHCCCHHHHCCCCCCCCC-CEEE-------EEECCCHHHHHHHHHHHHCC------------- Q ss_conf 013-----227899997520101111023557666-2079-------99702002689999763103------------- Q gi|254780945|r 428 ATP-----IPRTLVLTSLGDIDISKITEKPAGRKP-IKTV-------IIPINRIDEVIERLKVVLSE------------- 481 (700) Q Consensus 428 ATP-----IPRTLal~~ygdldvS~i~e~P~gR~~-I~T~-------~~~~~~~~~~~~~i~~~l~~------------- 481 (700) .|= ==|.. .+-.++.++.-|.- ++-. +-..+-+++ ++-+.+-= T Consensus 354 TTIhGYEGtGRgF--------~lkf~~~l~~~~~~~~~~~~l~ePIRya~gDPiE~---wl~d~LLLdAEp~~~~~~~~~ 422 (758) T COG1444 354 TTIHGYEGTGRGF--------SLKFLARLRKQRDTTLHELELEEPIRYAPGDPIEK---WLYDALLLDAEPAELEPEDLR 422 (758) T ss_pred EEECCCCCCCHHH--------HHHHHHHHCCCCCCEEEEEECCCCCCCCCCCCHHH---HHHHHHCCCCCCCCCCCCCCC T ss_conf 7402446677179--------99999984315653279985468731689996799---998866117876667754345 Q ss_pred CCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCC Q ss_conf 87389997120122111210146666666866371031201469989999999997559869999800341046888765 Q gi|254780945|r 482 GKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDAS 561 (700) Q Consensus 482 g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~ 561 (700) +.++|.-+. . ...-.--+.|++.|+- ...-|=|-++.+-.. |.+--..++-+|.+-. .+|-|. T Consensus 423 ~~~~~~~~~------~---~~~~~~ee~Lr~~~gl-lV~AHYRnsP~DL~~-L~DaP~h~~~al~~~~------~~~va~ 485 (758) T COG1444 423 GSLEILEVD------Q---RDLLFDEELLRQVYGL-LVSAHYRNSPNDLRR-LLDAPHHHIFALRAPE------GKPVAV 485 (758) T ss_pred CCEEEEECC------H---HHHHHCHHHHHHHHHH-HHHHHCCCCHHHHHH-HHCCCCCEEEEEECCC------CCEEEE T ss_conf 660255236------6---7664298999999877-753334588778998-7218877168887599------956899 Q ss_pred EEEEECHHH-CCHHHHHHHHHCCCCCCCC Q ss_conf 899858525-4746887730116678983 Q gi|254780945|r 562 IIIIENAEH-FGLAQLHQLRGRVGRGEEI 589 (700) Q Consensus 562 ~mvI~~aer-fGLsqLHQLRGRVGRg~~~ 589 (700) +-|.+...- =-+.+ -.+|||.-||+.- T Consensus 486 ~qva~EG~l~~~~i~-~~~~g~r~~GnlI 513 (758) T COG1444 486 WQVAEEGGLSDELID-IWLGGRRPRGNLI 513 (758) T ss_pred EEEECCCCCCHHHHH-HHHCCCCCCCCCC T ss_conf 986003787288999-9956878887626 No 287 >pfam03354 Terminase_1 Phage Terminase. The majority of the members of this family are bacteriophage proteins, several of which are thought to be terminase large subunit proteins. There are also a number of bacterial proteins of unknown function. Probab=92.91 E-value=0.27 Score=29.75 Aligned_cols=140 Identities=13% Similarity=0.144 Sum_probs=70.5 Q ss_pred EEEECCCCCHHHH-HHHHHHHHH---HHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHC Q ss_conf 8862144223699-999973344---430545886127999999998621101457865899624642256676877621 Q gi|254780945|r 297 ILQGDVGSGKTLV-ALIAMAAAV---EAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIA 372 (700) Q Consensus 297 LLQGDVGSGKTiV-A~~A~l~~~---~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~ 372 (700) +|.===|.|||.. |+++.+..+ +.|.|+...|+|+=-|..-|+..+.++...+.--.-.-.......+..+..... T Consensus 26 ~i~v~RkNGKS~l~a~i~ly~~~~~ge~~~ei~~~A~~~~QA~~~f~~~~~mi~~~p~l~~~~~~~~~~~~~~~i~~~~t 105 (473) T pfam03354 26 YVSVGRKNGKSYLMAIRVLYELLLGGKSNQEILVAATTFKQAEKLFKYVKNQVKLSPFLSIANENKLLKSQKDGIEMKIN 105 (473) T ss_pred EEEEECCCCHHHHHHHHHHHHHHHCCCCCCEEEEEECCHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCCCCCEEEEECCC T ss_conf 99982686026999999999997099838749999798999999999999999739877755301101310015898078 Q ss_pred CCCCEEEEECHHHCCCCCCCCCCCEEEECCCCCCCHHHH-HHHHH-CCC--CCCC-EEECHHHHHHHHHHHHH Q ss_conf 347548641112013345544441788521013356889-98740-256--7761-01010132278999975 Q gi|254780945|r 373 HGQAHIIIGTHALFQDSIQYYKLILVIVDEQHRFGVQQR-LKLTQ-KAT--APHV-LLMTATPIPRTLVLTSL 440 (700) Q Consensus 373 ~G~~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFGV~QR-~~L~~-Kg~--~ph~-L~MtATPIPRTLal~~y 440 (700) .+.+..+-.- .+...=.|-.++|+||-|-+.-..= ..|.+ -|. +|=+ ..-||.|.+-+..-..| T Consensus 106 ~s~~~~ls~~----~~~~dG~~~~~~i~DE~h~~~~~~~~~~l~sg~~~r~~~l~~~ITTag~~~~~~~~~~~ 174 (473) T pfam03354 106 NNVFKALSNN----GDQYDGGNPSLAIFDEMHEFKDRELVSTIVTGMRKQDNPQTIQITTAGPNRGGPYDEER 174 (473) T ss_pred CCEEEEEECC----CCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEECCCCCCCCCHHHHHH T ss_conf 9689998578----98766998728998722304882789999876316888719997677889887189999 No 288 >TIGR02928 TIGR02928 orc1/cdc6 family replication initiation protein; InterPro: IPR014277 This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. The proteins in this entry are found exclusively in the archaea. Several members may be found in a genome and interact with each other.. Probab=92.90 E-value=0.2 Score=30.68 Aligned_cols=143 Identities=18% Similarity=0.238 Sum_probs=73.8 Q ss_pred HHHHHHHHHHHHHH-C-CCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCC-----EE--EEEHHHHHHHHHHHHHHHHC Q ss_conf 88999999999841-0-0134307886214422369999997334443054-----58--86127999999998621101 Q gi|254780945|r 275 KSQESAIKDILQDM-S-QKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQ-----AV--IMAPIGILAQQHYEFIKKYT 345 (700) Q Consensus 275 ~~Q~~ai~eI~~Dl-~-~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q-----~a--lMaPTEILA~QH~~~~~~~~ 345 (700) ++|...+..++..+ . ...|-|-+|-|-.|+|||.|+-..|=..-+.... +. ..=+ +.+-. +|..+.++. T Consensus 23 deqI~~l~~~L~~~l~PG~~P~Ni~iYGkTGtGKT~vt~~v~~~l~~~~~~~d~~D~~~~~~NC-~~~~T-~y~~~~~L~ 100 (383) T TIGR02928 23 DEQIEELAKALRPILRPGSRPSNIFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRDVSTVYINC-QILDT-SYQVLVELA 100 (383) T ss_pred HHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCCEEEEEECC-CCCCC-HHHHHHHHH T ss_conf 7899999999887506748987258878889878899999999999986226997158999778-54684-699999999 Q ss_pred CCC---CCEEEEEECCCCHHHH-HHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEEECCCCCCCHHHHHHHHHCCCCC Q ss_conf 457---8658996246422566-768776213475486411120133455444417885210133568899874025677 Q gi|254780945|r 346 QNT---QIIVEIITGNMPQAHR-RKALERIAHGQAHIIIGTHALFQDSIQYYKLILVIVDEQHRFGVQQRLKLTQKATAP 421 (700) Q Consensus 346 ~~~---~i~v~lLtg~~~~~er-~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFGV~QR~~L~~Kg~~p 421 (700) ..+ +.....-+-+.|.++. +.+|+.|.- .+..-=+||.||= ..|. ++..= T Consensus 101 ~~ln~~~~~~~vP~tG~s~~~~~~~l~~~l~~-----------------~~~~~~~ivLDEi--------D~Lv-~~~~d 154 (383) T TIGR02928 101 NQLNRRGSGEEVPTTGLSTSEVFRELYKELNR-----------------ERGDSLIIVLDEI--------DKLV-RKDDD 154 (383) T ss_pred HHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHH-----------------HCCCEEEEEECCC--------CHHH-CCCCC T ss_conf 98515778888988778789999999999832-----------------0188799986231--------0221-58888 Q ss_pred C----CEEECHHHHHHHHHHHHHHCCCHHHH Q ss_conf 6----10101013227899997520101111 Q gi|254780945|r 422 H----VLLMTATPIPRTLVLTSLGDIDISKI 448 (700) Q Consensus 422 h----~L~MtATPIPRTLal~~ygdldvS~i 448 (700) + -+.|+ +||+=+..-..+-.||+| T Consensus 155 ~PAyS~~LY~---L~Ra~~~~~~~~~~vgvI 182 (383) T TIGR02928 155 DPAYSKLLYQ---LSRARENGDLENAKVGVI 182 (383) T ss_pred CHHHHHHHHH---HHHHHHCCCCCCCCEEEE T ss_conf 8078788534---331000357788534899 No 289 >PRK11057 ATP-dependent DNA helicase RecQ; Provisional Probab=92.88 E-value=0.87 Score=25.74 Aligned_cols=76 Identities=14% Similarity=0.198 Sum_probs=63.3 Q ss_pred HHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEE Q ss_conf 43054588612799999999862110145786589962464225667687762134754864111201334554444178 Q gi|254780945|r 319 EAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKLILV 398 (700) Q Consensus 319 ~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLv 398 (700) ..|..+.+-++|-=-+++.++.++ ..|+++...+|+++.++|..+.+...+|+++|+|.|-| |-=++.-.|..+| T Consensus 234 ~~~~sgIIYc~trk~~e~la~~L~----~~G~~~~~YHagl~~~~R~~~q~~f~~~~~~vivAT~A-FGMGIdk~dVR~V 308 (607) T PRK11057 234 QRGKSGIIYCNSRAKVEDTAARLQ----SRGISAAAYHAGLDNDVRADVQEAFQRDDLQIVVATVA-FGMGINKPNVRFV 308 (607) T ss_pred CCCCCEEEEECCHHHHHHHHHHHH----HCCCCEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEHH-HHCCCCCCCCCEE T ss_conf 689977999692899999999998----57975453058999789999999875688758997501-1057677776679 Q ss_pred E Q ss_conf 8 Q gi|254780945|r 399 I 399 (700) Q Consensus 399 V 399 (700) | T Consensus 309 i 309 (607) T PRK11057 309 V 309 (607) T ss_pred E T ss_conf 9 No 290 >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=92.88 E-value=0.55 Score=27.30 Aligned_cols=62 Identities=13% Similarity=0.087 Sum_probs=41.0 Q ss_pred HHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHH-HHCCEEEEEHHHHHHHHHHHHHHHHC Q ss_conf 999998410013430788621442236999999733444-30545886127999999998621101 Q gi|254780945|r 281 IKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVE-AGGQAVIMAPIGILAQQHYEFIKKYT 345 (700) Q Consensus 281 i~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~-~G~Q~alMaPTEILA~QH~~~~~~~~ 345 (700) ++.+..-+..+. .-++-|..|+|||..+.-.++.++. +|+-|++..+ |.=.+|+...+-... T Consensus 20 LD~~~~Gl~~Ge--L~viaarpg~GKT~f~~~~a~~~~~~~g~~vl~~Sl-Em~~~~~~~Rlls~~ 82 (271) T cd01122 20 LNKLTKGLRKGE--LIILTAGTGVGKTTFLREYALDLITQHGVRVGTISL-EEPVVRTARRLLGQY 82 (271) T ss_pred HHHHHCCCCCCC--EEEEEECCCCCHHHHHHHHHHHHHHHCCCEEEEEEC-CCCHHHHHHHHHHHH T ss_conf 888737999980--899996899869999999999999976990899970-499999999999998 No 291 >COG0389 DinP Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair] Probab=92.79 E-value=0.073 Score=34.20 Aligned_cols=69 Identities=14% Similarity=0.053 Sum_probs=38.8 Q ss_pred HHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCC Q ss_conf 63024679889999999998410013430788621442236999999733444305458861279999999986211014 Q gi|254780945|r 267 RNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQ 346 (700) Q Consensus 267 ~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~ 346 (700) .+.|+-.|.-....+.+...+| +.-+ --.|| ..|...+..+- +....+.+= .+-+.|+.+-.... .++. T Consensus 155 ~~kp~gi~~~~~~~~~~~l~~L--pv~~----~~GvG-~~~~~~l~~~G--i~ti~dl~~-~~~~~L~~~~g~~~-~~l~ 223 (354) T COG0389 155 LNKPDGITVIEPEEVPALLWQL--PVLE----FWGVG-KVTAEKLRRLG--ISTIGDLAE-TDLDALKKRFGKLG-ERLY 223 (354) T ss_pred CCCCCCEEEECHHHHHHHHHCC--CHHH----HCCCC-HHHHHHHHHCC--CHHHHHHHH-CCHHHHHHHHHHHH-HHHH T ss_conf 1399885663788899997609--5677----26845-89999999728--488999873-58999999999989-9999 No 292 >KOG0388 consensus Probab=92.72 E-value=0.88 Score=25.71 Aligned_cols=155 Identities=20% Similarity=0.285 Sum_probs=90.0 Q ss_pred CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHH---CCEEEEEHHHHHHHHHHHHHHHHCCCC Q ss_conf 67988999999999841001343078862144223699999973344430---545886127999999998621101457 Q gi|254780945|r 272 SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAG---GQAVIMAPIGILAQQHYEFIKKYTQNT 348 (700) Q Consensus 272 ~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G---~Q~alMaPTEILA~QH~~~~~~~~~~~ 348 (700) +|-+-|.+-++=..+=- ++-.|-.|--+.|-|||+-++..++..++.. .--.+.+|...|-. -.+.+.++++.+ T Consensus 567 tLKEYQlkGLnWLvnlY--dqGiNGILADeMGLGKTVQsisvlAhLaE~~nIwGPFLVVtpaStL~N-WaqEisrFlP~~ 643 (1185) T KOG0388 567 TLKEYQLKGLNWLVNLY--DQGINGILADEMGLGKTVQSISVLAHLAETHNIWGPFLVVTPASTLHN-WAQEISRFLPSF 643 (1185) T ss_pred HHHHHHHCCHHHHHHHH--HCCCCCEEHHHHCCCHHHHHHHHHHHHHHHCCCCCCEEEEEHHHHHHH-HHHHHHHHCCCC T ss_conf 16887650078999998--703441213330453268899999999874458876389602787767-999999858654 Q ss_pred CCEEEEEECCCCHHHHHHHHHHH-------CCCCCEEEEECHHH-CC-----CCCCCCCCCEEEECCCCCCCHHH--HHH Q ss_conf 86589962464225667687762-------13475486411120-13-----34554444178852101335688--998 Q gi|254780945|r 349 QIIVEIITGNMPQAHRRKALERI-------AHGQAHIIIGTHAL-FQ-----DSIQYYKLILVIVDEQHRFGVQQ--RLK 413 (700) Q Consensus 349 ~i~v~lLtg~~~~~er~~i~~~i-------~~G~~~iiIGTHAL-~q-----~~v~F~~LgLvViDEQHRFGV~Q--R~~ 413 (700) +|.-.-|+. ++|+....-. .+...+++|-+--+ .. .+|.+. +.|.||-+----.+ |.+ T Consensus 644 --k~lpywGs~--~eRkiLrKfw~rKnmY~rna~fhVviTSYQlvVtDeky~qkvKWQ---YMILDEAQAIKSSsS~RWK 716 (1185) T KOG0388 644 --KVLPYWGSP--SERKILRKFWNRKNMYRRNAPFHVVITSYQLVVTDEKYLQKVKWQ---YMILDEAQAIKSSSSSRWK 716 (1185) T ss_pred --EEECCCCCH--HHHHHHHHHCCHHHHHCCCCCCEEEEEEEEEEECHHHHHHHHHHH---HEEHHHHHHHHHHHHHHHH T ss_conf --243476880--266899974044444304799528997531111159999863345---2005578776432256788 Q ss_pred -HHHCCCCCCCEEECHHHHHHHHHH Q ss_conf -740256776101010132278999 Q gi|254780945|r 414 -LTQKATAPHVLLMTATPIPRTLVL 437 (700) Q Consensus 414 -L~~Kg~~ph~L~MtATPIPRTLal 437 (700) |.+ =.--+-|.+|-|||--|++= T Consensus 717 tLLs-F~cRNRLLLTGTPIQNsMqE 740 (1185) T KOG0388 717 TLLS-FKCRNRLLLTGTPIQNSMQE 740 (1185) T ss_pred HHHH-HHCCCEEEECCCCCCHHHHH T ss_conf 7740-21034045318853017999 No 293 >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=92.68 E-value=0.68 Score=26.61 Aligned_cols=111 Identities=17% Similarity=0.305 Sum_probs=71.2 Q ss_pred CCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEECH------HHHC Q ss_conf 0387389997120122111210146666666866371031201469989999999997559869999800------3410 Q gi|254780945|r 480 SEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIATT------VIEV 553 (700) Q Consensus 480 ~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTt------viEV 553 (700) ..+-|+-|+||.-|=.. -+.+.++.+.+..+-++..++|..+..+..+.+ +. ..+|+|+|. +-+- T Consensus 67 ~~~~~alil~PTrELa~-----Qi~~~~~~l~~~~~i~~~~~~gg~~~~~~~~~l---~~-~~~IlI~TPgrl~~~l~~~ 137 (203) T cd00268 67 KDGPQALILAPTRELAL-----QIAEVARKLGKHTNLKVVVIYGGTSIDKQIRKL---KR-GPHIVVATPGRLLDLLERG 137 (203) T ss_pred CCCCEEEEEECCHHHHH-----HHHHHHHHHCCCCCEEEEEEECCCCHHHHHHHH---HC-CCEEEEECCHHHHHHHHCC T ss_conf 68966999968799999-----999999985057983899983898879999998---53-8759996818999999848 Q ss_pred CCCCCCCCEEEEECHHHC---C-HHHHHHHHHCCCCCCCCEEEEEEECCCCCHH Q ss_conf 468887658998585254---7-4688773011667898359999708889987 Q gi|254780945|r 554 GIDVVDASIIIIENAEHF---G-LAQLHQLRGRVGRGEEISSCILLYHPPLSKN 603 (700) Q Consensus 554 Gvdvpna~~mvI~~aerf---G-LsqLHQLRGRVGRg~~~s~c~l~~~~~~~~~ 603 (700) .++..+...+|+..||+. | ..|+..+-.+..+. --.+ ++++..++. T Consensus 138 ~~~l~~l~~lVlDEAD~ll~~gf~~~i~~I~~~l~~~---~Q~~-lfSAT~~~~ 187 (203) T cd00268 138 KLDLSKVKYLVLDEADRMLDMGFEDQIREILKLLPKD---RQTL-LFSATMPKE 187 (203) T ss_pred CCCCCCCCEEEEECHHHHHHCCCHHHHHHHHHHCCCC---CEEE-EEEECCCHH T ss_conf 8651322489998588887477699999999858967---7799-998049988 No 294 >pfam05970 DUF889 PIF1 helicase. The PIF1 helicase inhibits telomerase activity and is cell cycle regulated. Probab=92.67 E-value=0.13 Score=32.33 Aligned_cols=19 Identities=11% Similarity=0.029 Sum_probs=11.9 Q ss_pred EEEEEEECCCCEEEEEEEC Q ss_conf 3899998189369999951 Q gi|254780945|r 89 PYKILLNDGTGEITLLFFY 107 (700) Q Consensus 89 ~~~v~v~D~tg~i~lvfFn 107 (700) ...+.+-|+-+-+....|- T Consensus 74 ~~~vLIIDEiSMv~~~lfd 92 (418) T pfam05970 74 KASLIIWDEAPMTHRHCFE 92 (418) T ss_pred HCCEEEEECCCCCCHHHHH T ss_conf 0879998541135789999 No 295 >PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated Probab=92.64 E-value=0.93 Score=25.51 Aligned_cols=185 Identities=12% Similarity=0.086 Sum_probs=93.2 Q ss_pred CCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHH Q ss_conf 13430788621442236999999733444305458861279999999986211014578658996246422566768776 Q gi|254780945|r 291 KNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALER 370 (700) Q Consensus 291 ~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~ 370 (700) ..|-.-++-|=-|||||--++=-++.....|+.+++.+= ..-=.--++.++.|-..+|+++..... +. +-...... T Consensus 73 ~~~~vI~lvG~~G~GKTTT~AKLA~~~~~~~~kV~lia~-DtyR~aA~eQLk~~a~~l~v~~~~~~~--~~-~~~~~~~~ 148 (270) T PRK06731 73 KEVQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITT-DHSRIGTVQQLQDYVKTIGFEVIAVRD--EA-AMTRALTY 148 (270) T ss_pred CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEE-CCCCHHHHHHHHHHHHHHCCCEECCCC--HH-HHHHHHHH T ss_conf 998189998889898899999999999867990899983-888888999999999981995354588--78-99999999 Q ss_pred HCCCCCEEEEECHHHCCCCCCCCCCCEEEECCCCCCCHHHHH--HHH--HCCCCCC--CEEECHHHHHHHHHH--HHHHC Q ss_conf 213475486411120133455444417885210133568899--874--0256776--101010132278999--97520 Q gi|254780945|r 371 IAHGQAHIIIGTHALFQDSIQYYKLILVIVDEQHRFGVQQRL--KLT--QKATAPH--VLLMTATPIPRTLVL--TSLGD 442 (700) Q Consensus 371 i~~G~~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFGV~QR~--~L~--~Kg~~ph--~L~MtATPIPRTLal--~~ygd 442 (700) .+ +. .+.-+|+||---|-..++.. .|. ....+|| +|+|+||=-...+.- ..|.+ T Consensus 149 ~~---------------~~---~~~DvilIDTAGR~~~d~~lm~el~~~~~~~~p~~~~Lvldas~~~~~~~~~~~~f~~ 210 (270) T PRK06731 149 FK---------------EE---ARVDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKSKDMIEIITNFKD 210 (270) T ss_pred HH---------------HH---CCCCEEEEECCCCCCCCHHHHHHHHHHHCCCCCCEEEEEEECCCCHHHHHHHHHHHCC T ss_conf 99---------------97---6999999979998714699999999986063898799998687776999999998077 Q ss_pred CCHHHHCCCCCCCCCCEEEEEECCCHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHH Q ss_conf 1011110235576662079997020026899997631038738999712012211121014666666 Q gi|254780945|r 443 IDISKITEKPAGRKPIKTVIIPINRIDEVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNS 509 (700) Q Consensus 443 ldvS~i~e~P~gR~~I~T~~~~~~~~~~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~ 509 (700) + +.+ .-|.|++=+..+...+++.+. ..|--+.+++-==.=.|+++..+.+...++ T Consensus 211 ~--------~i~-gvIlTKlD~ta~gG~als~~~---~~~~PI~fig~Ge~VpeDi~~~~~~~la~r 265 (270) T PRK06731 211 I--------HID-GIVFTKFDETASSGELLKIPA---VSSAPIVLMTDGQDVKKNIHIATAEHLAKQ 265 (270) T ss_pred C--------CCC-EEEEECCCCCCCCCHHHHHHH---HHCCCEEEEECCCCCHHHHHCCCHHHHHHH T ss_conf 9--------998-899965358997729999999---988597999459997021413799999999 No 296 >COG0017 AsnS Aspartyl/asparaginyl-tRNA synthetases [Translation, ribosomal structure and biogenesis] Probab=92.51 E-value=0.97 Score=25.39 Aligned_cols=84 Identities=17% Similarity=0.177 Sum_probs=56.2 Q ss_pred CHHHCCCCCEEEEEEEEEEEEEECCCCCCEEEEEEECCCCEEEEEEECC--CHH-HHHHHCCCCCEEEEEEEEEECC--- Q ss_conf 4788899878999999989754215898338999981893699999518--878-9987328988899998997318--- Q gi|254780945|r 60 KISEISEERIVTITGYISQHSSFQLQKRRPYKILLNDGTGEITLLFFYR--KTE-MLKNVFFEGRKITVTGKIKKLK--- 133 (700) Q Consensus 60 ~I~~l~~g~~vti~g~V~~~~~~~~~~r~~~~v~v~D~tg~i~lvfFn~--~~~-yl~k~lk~G~~v~vsGKv~~~~--- 133 (700) .+.+...|+.|++.|=|-+.+. .+ +..=+.+.|+||.++++..-. ... +..+.|..++.|.|.|+|.... T Consensus 9 di~~~~~~~~V~v~GWV~~~R~---~g-~i~Fi~lrDgsg~iQ~v~~~~~~~~~~~~~~~L~~es~v~V~G~v~~~~~a~ 84 (435) T COG0017 9 DIKPHVGGQEVTVRGWVHNKRD---LG-KIIFLVLRDGSGFIQAVVPKNKVYEELFKAKKLTLESSVVVTGIVKASPKAP 84 (435) T ss_pred HHHCCCCCCEEEEEEEEEEECC---CC-CEEEEEEECCCCEEEEEEECCCCCHHHHHHHCCCCCCEEEEEEEEECCCCCC T ss_conf 6504479857999988755001---58-7089999758837999997787717676663178765899999997488999 Q ss_pred CEEEEECCEEEECC Q ss_conf 77999778689626 Q gi|254780945|r 134 NRIIMVHPHYIFHN 147 (700) Q Consensus 134 ~~~qi~hPe~~~~~ 147 (700) +++++.--++++.. T Consensus 85 ~g~El~v~~i~Vl~ 98 (435) T COG0017 85 QGFELQVEKIEVLG 98 (435) T ss_pred CCEEEEEEEEEEEE T ss_conf 87799887889940 No 297 >PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated Probab=92.42 E-value=0.99 Score=25.31 Aligned_cols=85 Identities=13% Similarity=0.234 Sum_probs=63.5 Q ss_pred HHHHHHHHHHHC-CCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCC-CEEC-CCCCCCHHHHHHHHHHHHCCCEEEE Q ss_conf 268999976310-387389997120122111210146666666866371-0312-0146998999999999755986999 Q gi|254780945|r 469 DEVIERLKVVLS-EGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTS-SIAI-IHGRMSDIDKESVMDSFKNGTCKLL 545 (700) Q Consensus 469 ~~~~~~i~~~l~-~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~-~v~~-lHGkm~~~ek~~~m~~F~~g~~~iL 545 (700) +.+.+.|.+-+. .++++.|.+|-- ...++.|+.++...+. .+.+ .+| |+...+++.+++|++++-.|| T Consensus 742 ~~la~~i~~l~~~~~G~~LVLFtS~--------~~L~~v~~~l~~~~~~~~~~ll~Qg-~~~~sr~~ll~~F~~~~~svL 812 (932) T PRK08074 742 EEVAAYIAKIAKATKGRMLVLFTSY--------EMLKKTYYNLKNEEELEGYVLLAQG-VTGGSRARLMKKFQQFDKAIL 812 (932) T ss_pred HHHHHHHHHHHHHCCCCEEEECCCH--------HHHHHHHHHHHHHCCCCCCEEEEEC-CCCCCHHHHHHHHHHCCCEEE T ss_conf 9999999999987299999992659--------9999999998643335795599878-987509999999984798499 Q ss_pred EECHHHHCCCCCCCCCE Q ss_conf 98003410468887658 Q gi|254780945|r 546 IATTVIEVGIDVVDASI 562 (700) Q Consensus 546 vaTtviEVGvdvpna~~ 562 (700) ++|..-==|||+|.-.+ T Consensus 813 lGt~SFwEGVDlpGd~L 829 (932) T PRK08074 813 LGTSSFWEGIDIPGDEL 829 (932) T ss_pred EECCCCCCCCCCCCCCE T ss_conf 96566435622799886 No 298 >cd04487 RecJ_OBF2_like RecJ_OBF2_like: A subfamily of OB folds corresponding to the second OB fold (OBF2) of archaeal-specific proteins with similarity to eubacterial RecJ. RecJ is an ssDNA-specific exonuclease. Although the overall sequence similarity of these proteins to eubacterial RecJ proteins is marginal, they appear to carry motifs, which have been shown to be essential for nuclease function in Escherichia coli RecJ. In addition to this OB fold, most proteins in this subfamily contain: i) an N-terminal OB fold belonging to a different domain family (the ribosomal S1-like RNA-binding family); and ii) a domain, C-terminal to OBF2, characteristic of DHH family proteins. DHH family proteins include E. coli RecJ, and are predicted to have a phosphoesterase function. Probab=92.34 E-value=1 Score=25.25 Aligned_cols=67 Identities=21% Similarity=0.231 Sum_probs=50.8 Q ss_pred EEEEEEEEEEEEECCCCCCEEEEEEECCCCEEEEEEECCC--HHHHHHHCCCCCEEEEEEEEEECCCEEEEECCE Q ss_conf 9999999897542158983389999818936999995188--789987328988899998997318779997786 Q gi|254780945|r 70 VTITGYISQHSSFQLQKRRPYKILLNDGTGEITLLFFYRK--TEMLKNVFFEGRKITVTGKIKKLKNRIIMVHPH 142 (700) Q Consensus 70 vti~g~V~~~~~~~~~~r~~~~v~v~D~tg~i~lvfFn~~--~~yl~k~lk~G~~v~vsGKv~~~~~~~qi~hPe 142 (700) +.+.|+|..... +. -|...++.|++|.+.+-=|.-. ..| -....|+.+.+.|+++..+|.+|+---+ T Consensus 1 V~i~GeV~qikQ--T~--GPTIFti~Detg~v~~AAFeeaGvRAy--Pev~~gdiV~v~G~V~~r~g~lQiE~~~ 69 (73) T cd04487 1 VHIEGEVVQIKQ--TS--GPTIFTLRDETGTVWAAAFEEAGVRAY--PEVEVGDIVRVTGEVEPRDGQLQIEVES 69 (73) T ss_pred CEEEEEEEEEEE--CC--CCEEEEEECCCCCEEHHHHCCCCCCCC--CCCCCCCEEEEEEEEEEECCEEEEEEEE T ss_conf 979999999898--89--999999975999698205130674128--8878898899998999708858999730 No 299 >pfam03237 Terminase_6 Terminase-like family. This family represents a group of terminase proteins. Probab=92.25 E-value=1 Score=25.16 Aligned_cols=136 Identities=13% Similarity=0.089 Sum_probs=73.9 Q ss_pred EEEECCCCCHHHHHHHHHH-HHHHHH-CCEEEEEHHHHHHHHHH-HHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCC Q ss_conf 8862144223699999973-344430-54588612799999999-86211014578658996246422566768776213 Q gi|254780945|r 297 ILQGDVGSGKTLVALIAMA-AAVEAG-GQAVIMAPIGILAQQHY-EFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAH 373 (700) Q Consensus 297 LLQGDVGSGKTiVA~~A~l-~~~~~G-~Q~alMaPTEILA~QH~-~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~ 373 (700) ++.|=.|||||.++...++ .|+.++ ..+++++||.-=|+.-+ ..+.++++.+ ..+.+-.. ++ -.-.+.+ T Consensus 1 ~~~ggr~~GKT~~~~~~~~~~a~~~~~~~~~i~~~t~~~~~~~~~~~~~~~~~~~-~~~~~~~~----~~---~~i~~~n 72 (380) T pfam03237 1 NILGSRQSGKTFAFAREALRHALGNGPKNQIILSASKAQARLEFKKGIIEIAGDL-LEITFEEK----NG---NPIILPN 72 (380) T ss_pred CCCCCCCCCHHHHHHHHHHHHHHHCCCCCEEEEECCHHHHHHHHHHHHHHHHHHH-CCCCEEEC----CC---CEEEECC T ss_conf 9426452528399999999999858997289997999999999999999966886-38716727----88---7399159 Q ss_pred CCCEEEEECH-HHCCCCCCCCCCCEEEECC--CCCCCHHHHHHHH--HCCCCCCCEEECHHHHHHHHHHHHH Q ss_conf 4754864111-2013345544441788521--0133568899874--0256776101010132278999975 Q gi|254780945|r 374 GQAHIIIGTH-ALFQDSIQYYKLILVIVDE--QHRFGVQQRLKLT--QKATAPHVLLMTATPIPRTLVLTSL 440 (700) Q Consensus 374 G~~~iiIGTH-AL~q~~v~F~~LgLvViDE--QHRFGV~QR~~L~--~Kg~~ph~L~MtATPIPRTLal~~y 440 (700) |..-.+.|+. +-=.+++.=..+.++++|| +++.-...-.... ..+...-.+++|-||=|..-.-.+| T Consensus 73 Gs~i~~~~~~~~~~~~~~rG~~~~~i~~DE~a~~~~~~~~~~~~~~~~~~~~~~~~~~stp~~~~~~~~~~~ 144 (380) T pfam03237 73 GAKLYFLGLESETTAQGYRGASIAGIYFDEATWLPKFQESELVRRLRATKGKWRKTFFSTPPSPGHWVYDFW 144 (380) T ss_pred CCEEEEEECCCCCCHHHCCCCCCCEEEEEEHHHCCCHHHHHHHHHHHCCCCCCCEEEEECCCCCCCCHHHHH T ss_conf 988999625776643103485455499830453662789999864410479975799988989985198998 No 300 >cd04497 hPOT1_OB1_like hPOT1_OB1_like: A subfamily of OB folds similar to the first OB fold (OB1) of human protection of telomeres 1 protein (hPOT1), the single OB fold of the N-terminal domain of Schizosaccharomyces pombe POT1 (SpPOT1), and the first OB fold of the N-terminal domain of the alpha subunit (OB1Nalpha) of Oxytricha nova telomere end binding protein (OnTEBP). POT1 proteins recognize single-stranded (ss) 3-prime ends of the telomere. A 3-prime ss overhang is conserved in ciliated protozoa, yeast, and mammals. SpPOT1 is essential for telomere maintenance. It binds specifically to the ss G-rich telomeric sequence (GGTTAC) of S. pombe. hPOT1 binds specifically to ss telomeric DNA repeats ending with the sequence GGTTAG. Deletion of the S. pombe pot1+ gene results in a rapid loss of telomere sequences, chromosome mis-segregation and chromosome circularization. hPOT1 is implicated in telomere length regulation. The hPOT1 monomer consists of two closely connected OB folds (OB1-OB Probab=92.24 E-value=1 Score=25.15 Aligned_cols=83 Identities=16% Similarity=0.126 Sum_probs=60.3 Q ss_pred CCCHHHCC--CCCEEEEEEEEEEEEEECCCCCC--EEEEEEECCCC----EEEEEEECCCHHHHHHHCCCCCEEEEEE-E Q ss_conf 46478889--98789999999897542158983--38999981893----6999995188789987328988899998-9 Q gi|254780945|r 58 RPKISEIS--EERIVTITGYISQHSSFQLQKRR--PYKILLNDGTG----EITLLFFYRKTEMLKNVFFEGRKITVTG-K 128 (700) Q Consensus 58 ~~~I~~l~--~g~~vti~g~V~~~~~~~~~~r~--~~~v~v~D~tg----~i~lvfFn~~~~yl~k~lk~G~~v~vsG-K 128 (700) ..+|+++. .|..+.+.|.|+........+++ ...+.+.|.+- .+.+.+|......|.. .++|+-+.+.. + T Consensus 3 y~~L~~a~~~~~~~VnvigVV~~~~~p~~s~g~d~~~tl~I~D~S~~~~~~l~v~~F~~~~~~LP~-v~~GDiIll~~~~ 81 (138) T cd04497 3 YTPLSSALKESGGSVNVIGVVVDAGPPVRSKGTDYCCTLTITDPSLANSDGLTVKLFRPNEESLPI-VKVGDIILLRRVK 81 (138) T ss_pred EEEHHHHHHHCCCEEEEEEEEEECCCCEECCCCEEEEEEEEECCCCCCCCCEEEEEECCCHHHCCC-CCCCCEEEEEEEE T ss_conf 150899986349858899999865796446997299999999289999996799998998656989-9999899998889 Q ss_pred EEECCCEEEEECC Q ss_conf 9731877999778 Q gi|254780945|r 129 IKKLKNRIIMVHP 141 (700) Q Consensus 129 v~~~~~~~qi~hP 141 (700) ++.+++..+.+.. T Consensus 82 v~~~~~~~~~~~~ 94 (138) T cd04497 82 IQSYNGKPQGISN 94 (138) T ss_pred EEEECCEEEEEEC T ss_conf 9998890799977 No 301 >PRK00476 aspS aspartyl-tRNA synthetase; Validated Probab=92.23 E-value=1 Score=25.14 Aligned_cols=69 Identities=20% Similarity=0.273 Sum_probs=48.3 Q ss_pred CCCHHHCCCCCEEEEEEEEEEEEEECCCCCCEEEEEEECCCCEEEEEEECCCH---HHHHHHCCCCCEEEEEEEEEE Q ss_conf 46478889987899999998975421589833899998189369999951887---899873289888999989973 Q gi|254780945|r 58 RPKISEISEERIVTITGYISQHSSFQLQKRRPYKILLNDGTGEITLLFFYRKT---EMLKNVFFEGRKITVTGKIKK 131 (700) Q Consensus 58 ~~~I~~l~~g~~vti~g~V~~~~~~~~~~r~~~~v~v~D~tg~i~lvfFn~~~---~yl~k~lk~G~~v~vsGKv~~ 131 (700) +..|..-..|+.|+|.|.|.+.+. .++ ..=+.+.|++|.+++++=.... ..+ +.+..|..+.|.|++.. T Consensus 8 ~~~l~~~~~g~~V~v~GwV~~~R~---~Gk-l~F~~LrD~~G~iQiv~~~~~~~~~~~~-~~l~~e~iv~V~G~v~~ 79 (587) T PRK00476 8 CGELRESHVGQTVTLCGWVHRRRD---HGG-VIFIDLRDREGIVQVVFDPDDAEAFAVA-ESLRSEYVIQVTGKVRA 79 (587) T ss_pred CCCCCHHHCCCEEEEEEEEEEEEC---CCC-CEEEEEEECCCCEEEEECCCCHHHHHHH-HCCCCCCEEEEEEEEEE T ss_conf 312884769898999785753664---798-2999998389788999918877899999-66999878999989993 No 302 >COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription] Probab=92.12 E-value=1.1 Score=25.05 Aligned_cols=171 Identities=19% Similarity=0.247 Sum_probs=105.0 Q ss_pred CCCCEEE-EEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCE-EEEEECCC---CHHHHH Q ss_conf 1343078-862144223699999973344430545886127999999998621101457865-89962464---225667 Q gi|254780945|r 291 KNRMLRI-LQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQII-VEIITGNM---PQAHRR 365 (700) Q Consensus 291 ~~pM~RL-LQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~-v~lLtg~~---~~~er~ 365 (700) +.||.|+ +-|-||||||.+-...+ ......|..|++.= .++.+--.+.+++. .+.+ +...||.. .++--. T Consensus 10 ~~~~~~i~v~Gp~GSGKTaLie~~~-~~L~~~~~~aVI~~-Di~t~~Da~~l~~~---~g~~i~~v~TG~~CH~da~m~~ 84 (202) T COG0378 10 NRPMLRIGVGGPPGSGKTALIEKTL-RALKDEYKIAVITG-DIYTKEDADRLRKL---PGEPIIGVETGKGCHLDASMNL 84 (202) T ss_pred CCCEEEEEECCCCCCCHHHHHHHHH-HHHHHHCCEEEEEC-EEECHHHHHHHHHC---CCCEEEEECCCCCCCCCHHHHH T ss_conf 5864899961799867899999999-99975277689964-04006559999737---7980687403876588678899 Q ss_pred HHHHHHCCC-C-CEEEEECH-----HHCCCCCCCCCCCEEEECCCCCCCHHHHHHHHHC-CC---CCCCEEECHHHHHHH Q ss_conf 687762134-7-54864111-----2013345544441788521013356889987402-56---776101010132278 Q gi|254780945|r 366 KALERIAHG-Q-AHIIIGTH-----ALFQDSIQYYKLILVIVDEQHRFGVQQRLKLTQK-AT---APHVLLMTATPIPRT 434 (700) Q Consensus 366 ~i~~~i~~G-~-~~iiIGTH-----AL~q~~v~F~~LgLvViDEQHRFGV~QR~~L~~K-g~---~ph~L~MtATPIPRT 434 (700) ..++++..- . .++++=-. +=|+-++. ..++.+||| |.|=...-.| |+ ..|+++.+-|- T Consensus 85 ~ai~~l~~~~~~~Dll~iEs~GNL~~~~sp~L~-d~~~v~Vid------vteGe~~P~K~gP~i~~aDllVInK~D---- 153 (202) T COG0378 85 EAIEELVLDFPDLDLLFIESVGNLVCPFSPDLG-DHLRVVVID------VTEGEDIPRKGGPGIFKADLLVINKTD---- 153 (202) T ss_pred HHHHHHHHCCCCCCEEEEECCCCEECCCCCCHH-HCEEEEEEE------CCCCCCCCCCCCCCEEEEEEEEEEHHH---- T ss_conf 999998631776778999237643244680413-046999998------788888765579964674189985677---- Q ss_pred HHHHHHHCCCHHH----HCCCCCCCCCCEEEEEECCCHHHHHHHHHHHH Q ss_conf 9999752010111----10235576662079997020026899997631 Q gi|254780945|r 435 LVLTSLGDIDISK----ITEKPAGRKPIKTVIIPINRIDEVIERLKVVL 479 (700) Q Consensus 435 Lal~~ygdldvS~----i~e~P~gR~~I~T~~~~~~~~~~~~~~i~~~l 479 (700) |+-|-+-|+.+ .+++-|++.-|.|.....+..+++++|++... T Consensus 154 --La~~v~~dlevm~~da~~~np~~~ii~~n~ktg~G~~~~~~~i~~~~ 200 (202) T COG0378 154 --LAPYVGADLEVMARDAKEVNPEAPIIFTNLKTGEGLDEWLRFIEPQA 200 (202) T ss_pred --HHHHHCCCHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHC T ss_conf --38772866999999999849999889984787868999999987640 No 303 >TIGR02237 recomb_radB DNA repair and recombination protein RadB; InterPro: IPR011939 This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA, eukaryotic RAD51 (IPR011941 from INTERPRO) and DMC1 (IPR011940 from INTERPRO), and archaeal RadA (IPR011938 from INTERPRO) ,, .; GO: 0003684 damaged DNA binding, 0005524 ATP binding, 0008094 DNA-dependent ATPase activity, 0006281 DNA repair, 0006310 DNA recombination. Probab=92.11 E-value=0.16 Score=31.44 Aligned_cols=47 Identities=30% Similarity=0.379 Sum_probs=37.6 Q ss_pred EEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHH-HHHHHHHHHHHHCCCC Q ss_conf 86214422369999997334443054588612799-9999998621101457 Q gi|254780945|r 298 LQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGI-LAQQHYEFIKKYTQNT 348 (700) Q Consensus 298 LQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEI-LA~QH~~~~~~~~~~~ 348 (700) +-|.=|||||=||+.++..++.+|..|++.= ||= |. .|-|+.++..- T Consensus 17 iYGp~G~GKTn~c~~~a~~a~~~Gk~v~YiD-TEGGLS---~ER~~q~~~~~ 64 (223) T TIGR02237 17 IYGPPGSGKTNICLILAVNAARQGKKVVYID-TEGGLS---PERFKQIAEDR 64 (223) T ss_pred EECCCCCCHHHHHHHHHHHHHHCCCCEEEEE-CCCCCH---HHHHHHHHHCC T ss_conf 8758998678999999999986189589996-289832---89999986305 No 304 >PRK05898 dnaE DNA polymerase III DnaE; Validated Probab=92.09 E-value=1.1 Score=25.02 Aligned_cols=82 Identities=11% Similarity=0.093 Sum_probs=51.4 Q ss_pred HHHHHHCCCC--EECCCCCCCHHHH-HHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEE--CHHHCCHHHHHHHH-- Q ss_conf 6668663710--3120146998999-999999755986999980034104688876589985--85254746887730-- Q gi|254780945|r 508 NSLHEHFTSS--IAIIHGRMSDIDK-ESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIE--NAEHFGLAQLHQLR-- 580 (700) Q Consensus 508 ~~l~~~~~~~--v~~lHGkm~~~ek-~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~--~aerfGLsqLHQLR-- 580 (700) .+||.+||.. .++|...+.+.+| ...+.+-+.-.+.|| -.-|+-..+...|-. ++=||||+-.--+. T Consensus 690 AyLKahyP~eF~aalL~~~~~~~~k~~~~i~ea~~~gi~vl------pPdIN~S~~~f~~~~~~~~Ir~GL~aIKgvG~~ 763 (971) T PRK05898 690 AYLKHYYPLEFLSILLSHTSASKDKLLSYLNEAKEFNISIK------KPDINYSSNSFVLDTQKQIIRFGFNTIKGFGDE 763 (971) T ss_pred HHHHHCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHCCCEEC------CCCCCCCCCCEEEECCCCEEEEEHHHHCCCCHH T ss_conf 99985478999999846899997579999999998699273------882257778527857998699764760785599 Q ss_pred -------HCCCCCCCCEEEEEEE Q ss_conf -------1166789835999970 Q gi|254780945|r 581 -------GRVGRGEEISSCILLY 596 (700) Q Consensus 581 -------GRVGRg~~~s~c~l~~ 596 (700) -| -.|.-.|++-++. T Consensus 764 ~~~~Iv~~R-~~g~f~~~~df~~ 785 (971) T PRK05898 764 LLKKIKSAL-QNKTFSDFISYID 785 (971) T ss_pred HHHHHHHHH-CCCCCCCHHHHHH T ss_conf 999999986-6899999999998 No 305 >TIGR01405 polC_Gram_pos DNA polymerase III, alpha subunit, Gram-positive type; InterPro: IPR006308 These are the polypeptide chains of DNA polymerase III. Full-length homologs of this protein are restricted to the Gram-positive lineages, including the Mycoplasmas. This protein is designated alpha chain and given the gene symbol polC, but is not a full-length homolog of other polC genes. The N-terminal region of about 200 amino acids is rich in low-complexity sequence and poorly alignable. ; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication, 0005737 cytoplasm. Probab=92.02 E-value=1.1 Score=24.97 Aligned_cols=78 Identities=26% Similarity=0.290 Sum_probs=59.2 Q ss_pred CCCCEEEEEEEEEEEEEECCC-CCCEEEEEEECCCC--EEEEEEECC----CHHHHHHHCCCCCEEEEEEEEEEC--CCE Q ss_conf 998789999999897542158-98338999981893--699999518----878998732898889999899731--877 Q gi|254780945|r 65 SEERIVTITGYISQHSSFQLQ-KRRPYKILLNDGTG--EITLLFFYR----KTEMLKNVFFEGRKITVTGKIKKL--KNR 135 (700) Q Consensus 65 ~~g~~vti~g~V~~~~~~~~~-~r~~~~v~v~D~tg--~i~lvfFn~----~~~yl~k~lk~G~~v~vsGKv~~~--~~~ 135 (700) +....+.|.|.|=.......+ +|..+.+.+.|.+. ++.+.||+. -...+ ..+++|++|.+.|++..- .+. T Consensus 5 ~~e~~~~~~G~iF~~e~~~~ksgr~~~~i~~tD~~~GGSl~~k~F~~~~~eD~~~~-~~~K~~~wv~~~g~~~~~~~~~~ 83 (1264) T TIGR01405 5 EEENRVKVEGVIFKIEIKELKSGRTLLKIKVTDYTDGGSLILKKFLKSEKEDKEKF-DGIKIGKWVRVRGKIELDKFSRD 83 (1264) T ss_pred CCCCEEEEEEEEEEEECCCCCCCCEEEEEEEEECCCCCEEEEEEECCCCCCHHHHH-HHHCCCCCEEEEEEEEEECCCCC T ss_conf 35344899999863302335775279999987317886068876048997205777-34203773599998875221200 Q ss_pred EEEECCEE Q ss_conf 99977868 Q gi|254780945|r 136 IIMVHPHY 143 (700) Q Consensus 136 ~qi~hPe~ 143 (700) ++|.=-++ T Consensus 84 ~~~~~~~I 91 (1264) T TIGR01405 84 LQMIIKDI 91 (1264) T ss_pred CEEEEECC T ss_conf 05877502 No 306 >COG4626 Phage terminase-like protein, large subunit [General function prediction only] Probab=91.99 E-value=0.46 Score=27.96 Aligned_cols=134 Identities=18% Similarity=0.200 Sum_probs=86.0 Q ss_pred HHCCCCCCHHHHHHHHHHHHHHCCCCCCEE----EEEECCCCCHHHHHH-HHHHHHH---HHHCCEEEEEHHHHHHHHHH Q ss_conf 630246798899999999984100134307----886214422369999-9973344---43054588612799999999 Q gi|254780945|r 267 RNIPFSPTKSQESAIKDILQDMSQKNRMLR----ILQGDVGSGKTLVAL-IAMAAAV---EAGGQAVIMAPIGILAQQHY 338 (700) Q Consensus 267 ~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~R----LLQGDVGSGKTiVA~-~A~l~~~---~~G~Q~alMaPTEILA~QH~ 338 (700) ...||+|-+=|+=.+.-|..--.+..--+| ++-=-=|-|||-+|+ ++++..+ .+|++..+.||++=-|.+-| T Consensus 56 ~~~p~~l~PwQkFiia~l~G~~~k~T~~rrf~e~fI~v~RkngKt~l~A~i~~~~~l~~~~~~~~~~i~A~s~~qa~~~F 135 (546) T COG4626 56 PGFPESLEPWQKFIVAALFGFYDKQTGIRRFKEAFIFIPRKNGKSTLAAGIMMTALLLNWRSGAGIYILAPSVEQAANSF 135 (546) T ss_pred CCCCCCCCCHHHHHHHHHHHEEECCCCEEEEEEEEEEEECCCCHHHHHHHHHHHHHHHHHCCCCEEEEEECCHHHHHHHH T ss_conf 89863435189999998760350578706888999997457855789999999998765304760899834289998876 Q ss_pred HHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEEC-HHHC------CCCCCCCCCCEEEECCCCCCCHHHH Q ss_conf 86211014578658996246422566768776213475486411-1201------3345544441788521013356889 Q gi|254780945|r 339 EFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGT-HALF------QDSIQYYKLILVIVDEQHRFGVQQR 411 (700) Q Consensus 339 ~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGT-HAL~------q~~v~F~~LgLvViDEQHRFGV~QR 411 (700) ...+.+....+ .... +..+......|..+- -|.+ .+.+.=.|-+++|+||=|=||-.| T Consensus 136 ~~ar~mv~~~~-~l~~-------------~~~~~~~s~~i~~~~~~s~ik~~aa~~~~~Dg~~~~~~I~DEih~f~~~~- 200 (546) T COG4626 136 NPARDMVKRDD-DLRD-------------LCNVQTHSRTITHRKTDSTIKAVAADPNTVDGLNSVGAIIDELHLFGKQE- 200 (546) T ss_pred HHHHHHHHHCC-CHHH-------------HCCCCCCEEEEEECCCCEEEEEHHCCCCCCCCCCCCEEEEEHHHHHCCHH- T ss_conf 89999987372-1333-------------20654540489861551113301048875567876548876375416789- Q ss_pred HHHH Q ss_conf 9874 Q gi|254780945|r 412 LKLT 415 (700) Q Consensus 412 ~~L~ 415 (700) ..+. T Consensus 201 ~~~~ 204 (546) T COG4626 201 DMYS 204 (546) T ss_pred HHHH T ss_conf 9999 No 307 >PRK10919 ATP-dependent DNA helicase Rep; Provisional Probab=91.94 E-value=0.54 Score=27.36 Aligned_cols=75 Identities=17% Similarity=0.213 Sum_probs=34.9 Q ss_pred HHCCHHHHHHHHHCCCCCCCCEEEEEEE------C--CCCC---HHHHHHHHHHHHHCHHHHHHHHHHHHCCCC--CCCC Q ss_conf 2547468877301166789835999970------8--8899---879999999984142589999998520630--0026 Q gi|254780945|r 569 EHFGLAQLHQLRGRVGRGEEISSCILLY------H--PPLS---KNSYTRLSVLKNTEDGFLIAEEDLKQRKEG--EILG 635 (700) Q Consensus 569 erfGLsqLHQLRGRVGRg~~~s~c~l~~------~--~~~~---~~~~~Rl~~l~~~~dGf~iAe~Dl~lRG~G--~~~G 635 (700) +.--|.++|+=.|. .=-++|++. + ...+ -+-..||=.. |..=|++-|-|=.+- ...| T Consensus 550 ~~V~LmTiH~SKGL-----Ef~~Vfl~gl~eg~~P~~~~~~~~~~eEERRLfYV-----a~TRAk~~L~ls~~~~r~~~g 619 (672) T PRK10919 550 DQVQLMTLHASKGL-----EFPYVYMVGMEEGFLPHQSSIDEDNIDEERRLAYV-----GITRAQKELTFTLCKERRQYG 619 (672) T ss_pred CEEEEEEHHHHHCC-----CCCEEEEECCCCCCCCCCCCCCCCHHHHHHHHHHH-----HHHHHHHHHEEEECCHHHHCC T ss_conf 90899648862310-----36879996783899987656998608799999999-----999987766550045234388 Q ss_pred CHHCCCCCCCCCCHHHHH Q ss_conf 000698744000388759 Q gi|254780945|r 636 IKQSGMPKFLIAQPELHD 653 (700) Q Consensus 636 ~~QsG~~~~~~~d~~~d~ 653 (700) ..++..|.=-+.++-.|. T Consensus 620 ~~~~~~pSrFl~eip~~~ 637 (672) T PRK10919 620 ELVRPEPSRFLLELPQDD 637 (672) T ss_pred CCCCCCCCCCHHHCCHHH T ss_conf 775899994621378999 No 308 >TIGR02903 spore_lon_C ATP-dependent protease, Lon family; InterPro: IPR014252 This entry shows some relation to the widely distributed ATP-dependent protease La, also called Lon or LonA (IPR004815 from INTERPRO), but is more closely related to LonB (IPR014251 from INTERPRO), a LonA paralog found only in endospore-forming bacteria. Proteins in this entry are unassigned peptidases belonging to the MEROPS peptidase family S16 (lon protease family, clan SJ). They are restricted to a subset of endospore-forming species, and probably participate in the program of endospore formation. We propose the designation LonC.. Probab=91.89 E-value=0.24 Score=30.12 Aligned_cols=47 Identities=36% Similarity=0.420 Sum_probs=42.2 Q ss_pred CCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHH Q ss_conf 24679889999999998410013430788621442236999999733 Q gi|254780945|r 270 PFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAA 316 (700) Q Consensus 270 PF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~ 316 (700) .|+--=+|.+||+...+-++||+|-+-+|.|==|-|||-+|=+|+=. T Consensus 153 ~f~EiVGQerAI~aLlaK~aSPfPQHiiLYGPPGVGKTTaARl~LEe 199 (616) T TIGR02903 153 AFSEIVGQERAIKALLAKLASPFPQHIILYGPPGVGKTTAARLALEE 199 (616) T ss_pred CCCCCCCHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHH T ss_conf 67643334689999997631888660785573388478999998762 No 309 >PRK08840 replicative DNA helicase; Provisional Probab=91.89 E-value=0.84 Score=25.89 Aligned_cols=73 Identities=16% Similarity=0.142 Sum_probs=45.4 Q ss_pred EEEEECCCCCHHHHHHHHHHHHH-HHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHH Q ss_conf 78862144223699999973344-4305458861279999999986211014578658996246422566768776 Q gi|254780945|r 296 RILQGDVGSGKTLVALIAMAAAV-EAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALER 370 (700) Q Consensus 296 RLLQGDVGSGKTiVA~~A~l~~~-~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~ 370 (700) -.|=|--|+|||..|+--+..++ .+|+.|+|..- |.=++|-...+-......+. -.+-+|.++..+..++... T Consensus 220 iviaaRPsmGKTalalnia~n~a~~~~~~v~~fSl-EMs~~ql~~Rlls~~s~i~~-~~ir~g~l~~~e~~~i~~a 293 (464) T PRK08840 220 IIVAARPSMGKTTFAMNLCENAAMDQDKPVLIFSL-EMPAEQLMMRMLASLSRVDQ-TKIRTGQLDDEDWARISST 293 (464) T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHCCCCEEEECC-CCCHHHHHHHHHHHHCCCCC-CHHHCCCCCHHHHHHHHHH T ss_conf 99983798736899999999999965996799767-79989999999998538982-0111488899999999999 No 310 >pfam11731 Cdd1 Pathogenicity locus. Cdd1 is expressed as part of the pathogenicity locus operon in several different orders of bacteria. Many members of the family are annotated as being putative mitomycin resistance proteins but this could not be confirmed. Probab=91.81 E-value=0.12 Score=32.38 Aligned_cols=39 Identities=18% Similarity=0.178 Sum_probs=32.9 Q ss_pred CCHHHCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCCCC Q ss_conf 772136785889999988740124688554898787089740134 Q gi|254780945|r 11 APLSTFRGVGKKYSLFLSKIINCGNANETRFIDLLFYHPSSFIDR 55 (700) Q Consensus 11 ~pI~~LkGVGpk~a~~L~kl~~l~~~GI~ti~DLL~~~PrrYeDr 55 (700) +.++.|+||||++++-|..| ||+++.||.-.=|..--++ T Consensus 12 ~~L~~lPnIG~a~a~DL~~L------Gi~~~~~L~g~dp~elY~~ 50 (92) T pfam11731 12 KELTDLPNIGKATAKDLRLL------GINSPAQLAGRDPLELYER 50 (92) T ss_pred HHHHCCCCCCHHHHHHHHHH------CCCCHHHHHCCCHHHHHHH T ss_conf 98741897469999999991------8998999917999999999 No 311 >pfam05707 Zot Zonular occludens toxin (Zot). This family consists of bacterial and viral proteins which are very similar to the Zonular occludens toxin (Zot). Zot is elaborated by bacteriophages present in toxigenic strains of Vibrio cholerae. Zot is a single polypeptide chain of 44.8 kDa, with the ability to reversibly alter intestinal epithelial tight junctions, allowing the passage of macromolecules through mucosal barriers Probab=91.77 E-value=0.24 Score=30.07 Aligned_cols=35 Identities=31% Similarity=0.518 Sum_probs=28.8 Q ss_pred CEEEEEECCCCCHHHHHHH-HHHHHHHHHCCEEEEE Q ss_conf 3078862144223699999-9733444305458861 Q gi|254780945|r 294 MLRILQGDVGSGKTLVALI-AMAAAVEAGGQAVIMA 328 (700) Q Consensus 294 M~RLLQGDVGSGKTiVA~~-A~l~~~~~G~Q~alMa 328 (700) |--|+.|-=|||||.-|+- .+..++..|..++.=- T Consensus 1 MI~litG~pGsGKS~~aV~~~i~~al~~GR~V~tNI 36 (183) T pfam05707 1 MIYLITGKPGSGKTLEAVSYHILPALKKGRKVITNI 36 (183) T ss_pred CEEEEECCCCCCCCHHHHHHHHHHHHHCCCEEEECC T ss_conf 979993599996229999999999987899899878 No 312 >PRK10536 hypothetical protein; Provisional Probab=91.76 E-value=0.36 Score=28.76 Aligned_cols=142 Identities=18% Similarity=0.195 Sum_probs=77.2 Q ss_pred CCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHC-C-EEEEEHHHHHHH-------HHHHHH Q ss_conf 4679889999999998410013430788621442236999999733444305-4-588612799999-------999862 Q gi|254780945|r 271 FSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGG-Q-AVIMAPIGILAQ-------QHYEFI 341 (700) Q Consensus 271 F~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~-Q-~alMaPTEILA~-------QH~~~~ 341 (700) +.-|..|++.++.|.+. . .-...|--|||||.+|+.+++..+..+. . ..+.=|+---.+ -..+.+ T Consensus 58 ~pkt~~Q~~yi~~i~~~-----~-ivf~~GpAGTGKT~lA~a~Al~~l~~~~~~kIIltRP~V~~ge~lGfLPGdl~EK~ 131 (262) T PRK10536 58 LARNEAQLHYLKAIESK-----Q-LIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVLQADEDLGFLPGDIAEKF 131 (262) T ss_pred CCCCHHHHHHHHHHHHC-----C-EEEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCCCCCCCCCCCCCCCHHHHH T ss_conf 78986499999998619-----8-39998999875899999999999985888689996678756766676989879988 Q ss_pred HHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEEECCCCCCCHHHHHHHH-HCCCC Q ss_conf 11014578658996246422566768776213475486411120133455444417885210133568899874-02567 Q gi|254780945|r 342 KKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKLILVIVDEQHRFGVQQRLKLT-QKATA 420 (700) Q Consensus 342 ~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFGV~QR~~L~-~Kg~~ 420 (700) ..|+.++--...-+.|. +..+-+..-..|.+.+ -.-|-+ .+-.|+| ..||+||=+-.-.+|=..+. .-|.+ T Consensus 132 ~Pyl~Pi~D~L~~~lg~----~~~~~~~~~e~G~Iei--~Plafm-RGrTf~n-a~IIvDEaQN~T~~qmk~iLTRiG~~ 203 (262) T PRK10536 132 APYFRPVYDVLVRRLGA----SFMQYCLRPEIGKVEI--APFAYM-RGRTFEN-AVVILDEAQNVTAAQMKMFLTRLGEN 203 (262) T ss_pred HHHHHHHHHHHHHHHCH----HHHHHHHHHHCCCEEE--EEHHHH-CCCCCCC-EEEEEEHHHCCCHHHHHHHHHHCCCC T ss_conf 78887899999999685----9999998730594899--875874-4775144-28998412128999998898542599 Q ss_pred CCCEEE Q ss_conf 761010 Q gi|254780945|r 421 PHVLLM 426 (700) Q Consensus 421 ph~L~M 426 (700) .-+.++ T Consensus 204 SKiVi~ 209 (262) T PRK10536 204 VTVIVN 209 (262) T ss_pred CEEEEE T ss_conf 689996 No 313 >pfam05496 RuvB_N Holliday junction DNA helicase ruvB N-terminus. 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 family contains the N-terminal region of the protein. Probab=91.75 E-value=1.2 Score=24.75 Aligned_cols=20 Identities=25% Similarity=0.350 Sum_probs=16.4 Q ss_pred EEEECCCCCCCHHHHHHHHH Q ss_conf 78852101335688998740 Q gi|254780945|r 397 LVIVDEQHRFGVQQRLKLTQ 416 (700) Q Consensus 397 LvViDEQHRFGV~QR~~L~~ 416 (700) ++.|||=|||.=.|-..|.. T Consensus 104 ILFIDEIHr~nK~qqd~Llp 123 (234) T pfam05496 104 VLFIDEIHRLNRAVEEILYP 123 (234) T ss_pred EEEEECHHHCCHHHHHHCCC T ss_conf 89996654358768874455 No 314 >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=91.74 E-value=0.72 Score=26.41 Aligned_cols=46 Identities=26% Similarity=0.268 Sum_probs=35.9 Q ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHH Q ss_conf 78862144223699999973344430545886127999999998621 Q gi|254780945|r 296 RILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIK 342 (700) Q Consensus 296 RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~ 342 (700) -|+-|+-|||||..++-.+..+...|..++++.- |--.+|-+..+. T Consensus 2 ~li~g~~g~GKttl~~~~~~~~~~~~~~~~~~~~-ee~~~q~~~~~~ 47 (165) T cd01120 2 ILVFGPTGSGKTTLALQLALNIATKGGKVVYVDI-EEEIEELTERLI 47 (165) T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEC-CCCHHHHHHHHH T ss_conf 8999899998999999999998763997999986-664489999999 No 315 >PRK04195 replication factor C large subunit; Provisional Probab=91.65 E-value=1.2 Score=24.67 Aligned_cols=17 Identities=41% Similarity=0.477 Sum_probs=14.7 Q ss_pred EEEEECCCCCHHHHHHH Q ss_conf 78862144223699999 Q gi|254780945|r 296 RILQGDVGSGKTLVALI 312 (700) Q Consensus 296 RLLQGDVGSGKTiVA~~ 312 (700) =||.|-=|+|||-.|-+ T Consensus 43 lLL~GPpGvGKTT~a~~ 59 (403) T PRK04195 43 LLLYGPPGVGKTSLAHA 59 (403) T ss_pred EEEECCCCCCHHHHHHH T ss_conf 99889399879999999 No 316 >TIGR02236 recomb_radA DNA repair and recombination protein RadA; InterPro: IPR011938 This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA, eukaryotic RAD51 (IPR011941 from INTERPRO), and archaeal RadB (IPR011939 from INTERPRO). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein .; GO: 0003684 damaged DNA binding, 0005524 ATP binding, 0008094 DNA-dependent ATPase activity, 0006281 DNA repair, 0006310 DNA recombination. Probab=91.62 E-value=0.11 Score=32.74 Aligned_cols=101 Identities=17% Similarity=0.114 Sum_probs=52.6 Q ss_pred CHHHCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCHHHCCCC------CEEEEEEEEEEEEEECCC Q ss_conf 72136785889999988740124688554898787089740134444647888998------789999999897542158 Q gi|254780945|r 12 PLSTFRGVGKKYSLFLSKIINCGNANETRFIDLLFYHPSSFIDRHYRPKISEISEE------RIVTITGYISQHSSFQLQ 85 (700) Q Consensus 12 pI~~LkGVGpk~a~~L~kl~~l~~~GI~ti~DLL~~~PrrYeDr~~~~~I~~l~~g------~~vti~g~V~~~~~~~~~ 85 (700) .|+.||||||+||++|..- |-.|+.++=.==|.---+-..+ ++..-- ..+.=.+...+-..+.-+ T Consensus 1 ~ledLPGVGp~TA~KL~Ea------Gy~t~~~iA~A~~~EL~~~~gI---~E~~A~kiI~AAR~a~~~~~F~~a~~vl~r 71 (333) T TIGR02236 1 DLEDLPGVGPATAEKLREA------GYDTLEAIAVASPKELSEIAGI---GEGTAAKIIQAARKAADLGGFETADDVLER 71 (333) T ss_pred CCCCCCCCCHHHHHHHHHH------HHHHHHHHHCCCHHHHHHHCCC---CHHHHHHHHHHHHHHHCCCCCHHHHHHHHH T ss_conf 9665789757688998861------0788999844585795320378---777899999999998467672148999998 Q ss_pred CCCEEEEEEE----C-------CCCEEEEEE--ECCCHHHHHHHCCCCC Q ss_conf 9833899998----1-------893699999--5188789987328988 Q gi|254780945|r 86 KRRPYKILLN----D-------GTGEITLLF--FYRKTEMLKNVFFEGR 121 (700) Q Consensus 86 ~r~~~~v~v~----D-------~tg~i~lvf--Fn~~~~yl~k~lk~G~ 121 (700) |+...+++-. | +|..|+=+| |..+..++.-+|.++- T Consensus 72 R~~v~kitTgs~~LDeLLGGGiETqaiTE~~GEFGSGKTQ~~HqLAVnV 120 (333) T TIGR02236 72 RKSVGKITTGSKELDELLGGGIETQAITEVFGEFGSGKTQICHQLAVNV 120 (333) T ss_pred HHCCCEEECCCHHHHHHCCCCCCCEEEEEEEEEECCCHHHHHHHHHHHH T ss_conf 7207504448636765607960000588877100786578766765532 No 317 >PRK02983 lysS lysyl-tRNA synthetase; Provisional Probab=91.48 E-value=1.2 Score=24.54 Aligned_cols=117 Identities=13% Similarity=0.092 Sum_probs=74.5 Q ss_pred HHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCHHHCCCCCEEEEEEEEEEEEEECCCCCCEEEEEEECCCCE Q ss_conf 89999988740124688554898787089740134444647888998789999999897542158983389999818936 Q gi|254780945|r 21 KKYSLFLSKIINCGNANETRFIDLLFYHPSSFIDRHYRPKISEISEERIVTITGYISQHSSFQLQKRRPYKILLNDGTGE 100 (700) Q Consensus 21 pk~a~~L~kl~~l~~~GI~ti~DLL~~~PrrYeDr~~~~~I~~l~~g~~vti~g~V~~~~~~~~~~r~~~~v~v~D~tg~ 100 (700) +...-.++|+..+-..|+ --||.++.--..+..+.+..+|+.|++.|.|..... -+...=+.+.|.+|. T Consensus 618 eq~rvr~~k~~~l~~~g~-------~pypv~~~RTHT~~e~~~~~~G~~VtvaGwV~r~RD----hGgl~FidLRD~~G~ 686 (1099) T PRK02983 618 EQVRVRLAKLDALRESGV-------DAYPVGRPPSHTVAQALAAPDGEEVSVSGRVLRIRD----YGGVLFAQLRDWSGE 686 (1099) T ss_pred HHHHHHHHHHHHHHHCCC-------CCCCCCCCCCCCHHHHCCCCCCCEEEEEEEEEEEEC----CCCEEEEEEEECCCC T ss_conf 999999999999997599-------999999999741666424799998999987999843----788699997418876 Q ss_pred EEEEEECCC-----HHHHHHHCCCCCEEEEEEEEEE-CCCEEEEECCEEEECCC Q ss_conf 999995188-----7899873289888999989973-18779997786896264 Q gi|254780945|r 101 ITLLFFYRK-----TEMLKNVFFEGRKITVTGKIKK-LKNRIIMVHPHYIFHNS 148 (700) Q Consensus 101 i~lvfFn~~-----~~yl~k~lk~G~~v~vsGKv~~-~~~~~qi~hPe~~~~~~ 148 (700) +++++=... ....++.+..|+.+.+.|++.. ..|.+++.--++++... T Consensus 687 iQvv~~~d~~g~~~~~~~~~~vdlGDvI~V~G~V~~t~tGEisV~a~~~~vlsK 740 (1099) T PRK02983 687 LQVLLDNSRLGQGRLADFTAAVDLGDLIEATGTMGASRNGTPSLLVTSWRLIGK 740 (1099) T ss_pred EEEEEECCCCCHHHHHHHHHHCCCCCEEEEEEEEECCCCCCEEEEEEEEEEEEC T ss_conf 799997775676899998762577887999858862789845799748998404 No 318 >pfam04076 BOF Bacterial OB fold (BOF) protein. Proteins in this family form an OB-fold. Analysis of the predicted binding site of BOF family proteins implies that they lack nucleic acid-binding properties. They contain an predicted N-terminal signal peptide which indicates that they localize in the periplasm where they may function to bind proteins, small molecules, or other typical OB-fold ligands. As hypothesized for the distantly related OB-fold containing bacterial enterotoxins, the loss of nucleotide-binding function and the rapid evolution of the BOF ligand-binding site may be associated with the presence of BOF proteins in mobile genetic elements and their potential role in bacterial pathogenicity. Probab=91.28 E-value=1.3 Score=24.40 Aligned_cols=73 Identities=15% Similarity=0.154 Sum_probs=52.4 Q ss_pred CCHHHCCCCCEEEEEEEEEEEEEECCCCCCEEEEEEECCCCEEEEEEECCCHHHHHHHCCCCCEEEEEEEEEECCCEEEE Q ss_conf 64788899878999999989754215898338999981893699999518878998732898889999899731877999 Q gi|254780945|r 59 PKISEISEERIVTITGYISQHSSFQLQKRRPYKILLNDGTGEITLLFFYRKTEMLKNVFFEGRKITVTGKIKKLKNRIIM 138 (700) Q Consensus 59 ~~I~~l~~g~~vti~g~V~~~~~~~~~~r~~~~v~v~D~tg~i~lvfFn~~~~yl~k~lk~G~~v~vsGKv~~~~~~~qi 138 (700) ....++.++..|++.|.|++.- +. =...+.|+||.|.+-.=+. -|--....+.+.|.++|++.... T Consensus 49 ~~a~~~~Dd~~V~L~G~Iv~~l----~~---d~Y~F~D~TG~I~VeId~~--~w~G~~v~p~~kVrI~GevDk~~----- 114 (126) T pfam04076 49 KQAKSAADDAWVSLEGNIVRQI----GD---DEYEFRDASGTIKVDIDDR--VWNGQEVQPKDKVKITGEVDKDL----- 114 (126) T ss_pred HHHHHCCCCCCEEEEEEEEEEE----CC---CEEEEECCCCCEEEEECHH--HCCCCCCCCCCEEEEEEEECCCC----- T ss_conf 9886587999399988999684----89---5389978996399996888--83898179999899999994788----- Q ss_pred ECCEEEE Q ss_conf 7786896 Q gi|254780945|r 139 VHPHYIF 145 (700) Q Consensus 139 ~hPe~~~ 145 (700) ..|++.+ T Consensus 115 ~~~eIdV 121 (126) T pfam04076 115 NKAEIDV 121 (126) T ss_pred CCEEEEE T ss_conf 8717988 No 319 >COG3743 Uncharacterized conserved protein [Function unknown] Probab=91.21 E-value=0.17 Score=31.28 Aligned_cols=29 Identities=21% Similarity=0.405 Sum_probs=25.5 Q ss_pred CCHHHCCCCCHHHHHHHHHHCCCCCCCCCCHHHHH Q ss_conf 77213678588999998874012468855489878 Q gi|254780945|r 11 APLSTFRGVGKKYSLFLSKIINCGNANETRFIDLL 45 (700) Q Consensus 11 ~pI~~LkGVGpk~a~~L~kl~~l~~~GI~ti~DLL 45 (700) ++|+.|+||||+.++.|+.+ ||+|.-++- T Consensus 67 DDLt~I~GIGPk~e~~Ln~~------GI~tfaQIA 95 (133) T COG3743 67 DDLTRISGIGPKLEKVLNEL------GIFTFAQIA 95 (133) T ss_pred CCCHHHCCCCHHHHHHHHHC------CCCCHHHHH T ss_conf 54211004378899899874------776399997 No 320 >smart00483 POLXc DNA polymerase X family. includes vertebrate polymerase beta and terminal deoxynucleotidyltransferases Probab=91.18 E-value=0.19 Score=30.90 Aligned_cols=10 Identities=10% Similarity=0.199 Sum_probs=5.5 Q ss_pred CCCCCEEEEE Q ss_conf 1347548641 Q gi|254780945|r 372 AHGQAHIIIG 381 (700) Q Consensus 372 ~~G~~~iiIG 381 (700) .+|.+||+|- T Consensus 179 t~gDIDili~ 188 (334) T smart00483 179 TGHDVDFLIT 188 (334) T ss_pred CCCCEEEEEE T ss_conf 6688128995 No 321 >PRK10416 cell division protein FtsY; Provisional Probab=90.96 E-value=1.4 Score=24.20 Aligned_cols=170 Identities=17% Similarity=0.185 Sum_probs=88.0 Q ss_pred HCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEE-ECCCCHHHHHH Q ss_conf 10013430788621442236999999733444305458861279999999986211014578658996-24642256676 Q gi|254780945|r 288 MSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEII-TGNMPQAHRRK 366 (700) Q Consensus 288 l~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lL-tg~~~~~er~~ 366 (700) +....|.--|+-|-=|||||--+.--+...-..|+.+.+-|- ..-=---.+.++.|-...++.+.-- +|+.+++--.+ T Consensus 290 ~~~~~P~VIl~vGvNG~GKTTTigKLA~~~~~~gkkVllaA~-DTfRaAAieQL~~w~~r~~v~vi~~~~g~Dpa~V~~d 368 (499) T PRK10416 290 VEGKTPFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAG-DTFRAAAVEQLQVWGQRNNIPVIAQHTGADSASVIFD 368 (499) T ss_pred CCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEEE-CCCCHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHH T ss_conf 689998799997478787898999999999977995378840-6675689999999842457369836899997999999 Q ss_pred HHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEEECCCCCCCHHHHH--------HHHHC--CCCCC--CEEECHHHHHHH Q ss_conf 8776213475486411120133455444417885210133568899--------87402--56776--101010132278 Q gi|254780945|r 367 ALERIAHGQAHIIIGTHALFQDSIQYYKLILVIVDEQHRFGVQQRL--------KLTQK--ATAPH--VLLMTATPIPRT 434 (700) Q Consensus 367 i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFGV~QR~--------~L~~K--g~~ph--~L~MtATPIPRT 434 (700) .++..++..+| ++|||-=-|.-.++.. ....| ...|| +|++-||-=--. T Consensus 369 ai~~a~~~~~D-------------------vviiDTAGRl~~~~~LM~EL~ki~rvi~k~~~~aP~e~lLVlDa~tGQna 429 (499) T PRK10416 369 AIQAAKARNVD-------------------VLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQNA 429 (499) T ss_pred HHHHHHHCCCC-------------------EEEEECCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCCHHH T ss_conf 99999972999-------------------89985776432609999999999999972378999748999778767789 Q ss_pred HHHHH-HHC-CCHHHHCCCCCCCCCCEEEEEECCCHHHHHHHHHHHHCCCCEEEEEE Q ss_conf 99997-520-10111102355766620799970200268999976310387389997 Q gi|254780945|r 435 LVLTS-LGD-IDISKITEKPAGRKPIKTVIIPINRIDEVIERLKVVLSEGKKAYWIC 489 (700) Q Consensus 435 Lal~~-ygd-ldvS~i~e~P~gR~~I~T~~~~~~~~~~~~~~i~~~l~~g~q~y~Vc 489 (700) +..+- |.+ ++++ .-|.|++=+..+-. +.-.|...+. --+++|. T Consensus 430 ~~qak~F~e~~~lt---------GiIlTKlDGtAKGG-~~lsi~~~~~--~PI~fiG 474 (499) T PRK10416 430 VSQAKLFHEAVGLT---------GITLTKLDGTAKGG-VIFSVADQFG--IPIRYIG 474 (499) T ss_pred HHHHHHHHHCCCCC---------EEEEECCCCCCCCH-HHHHHHHHHC--CCEEEEE T ss_conf 99999984427997---------59996567788525-9999999988--3959986 No 322 >COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms] Probab=90.69 E-value=0.51 Score=27.56 Aligned_cols=59 Identities=19% Similarity=0.260 Sum_probs=42.0 Q ss_pred HHHHHHHHCCCCCCEE--EEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHH Q ss_conf 9999984100134307--88621442236999999733444305458861279999999986211 Q gi|254780945|r 281 IKDILQDMSQKNRMLR--ILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKK 343 (700) Q Consensus 281 i~eI~~Dl~~~~pM~R--LLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~ 343 (700) ++||.. .+.|+.+ |+.|.=|||||+-|+-.+...+.+|.-|.+.+- +-.+..-.+++.. T Consensus 12 lD~~l~---GG~p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs~-~e~~~~l~~~~~~ 72 (260) T COG0467 12 LDEILG---GGLPRGSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVST-EESPEELLENARS 72 (260) T ss_pred HHHHHC---CCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHCCCEEEEEEE-ECCHHHHHHHHHH T ss_conf 888836---898899789999389986899999999977626985899992-0698999999988 No 323 >KOG0952 consensus Probab=90.66 E-value=0.28 Score=29.60 Aligned_cols=31 Identities=16% Similarity=0.261 Sum_probs=16.0 Q ss_pred EEECCCCHHHHHHHHHHHCCCCCEEEEECHH Q ss_conf 9624642256676877621347548641112 Q gi|254780945|r 354 IITGNMPQAHRRKALERIAHGQAHIIIGTHA 384 (700) Q Consensus 354 lLtg~~~~~er~~i~~~i~~G~~~iiIGTHA 384 (700) +-..++...+|.-.-...+.|.+.+++-|.. T Consensus 401 iHhAGm~r~DR~l~E~~F~~G~i~vL~cTaT 431 (1230) T KOG0952 401 IHHAGMLRSDRQLVEKEFKEGHIKVLCCTAT 431 (1230) T ss_pred HCCCCCCHHHHHHHHHHHHCCCCEEEEECCE T ss_conf 2025643146899999985598228996121 No 324 >COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms] Probab=90.64 E-value=1 Score=25.25 Aligned_cols=95 Identities=16% Similarity=0.252 Sum_probs=68.9 Q ss_pred HHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHC----CCCCEEEEECHHHCC-C Q ss_conf 73344430545886127999999998621101457865899624642256676877621----347548641112013-3 Q gi|254780945|r 314 MAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIA----HGQAHIIIGTHALFQ-D 388 (700) Q Consensus 314 ~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~----~G~~~iiIGTHAL~q-~ 388 (700) ....+.+|..+++.+=|-=-|.--|+.++..-+ ++.||+|..+.+.|.+..+.+. .+...|+|+|+.+=+ = T Consensus 433 ~~~~~~~~~kvlvI~NTV~~Aie~Y~~Lk~~~~----~v~LlHSRf~~~dR~~ke~~l~~~~~~~~~~IvVaTQVIEagv 508 (733) T COG1203 433 ISEEVKEGKKVLVIVNTVDRAIELYEKLKEKGP----KVLLLHSRFTLKDREEKERELKKLFKQNEGFIVVATQVIEAGV 508 (733) T ss_pred HHHHHCCCCCEEEEEECHHHHHHHHHHHHCCCC----CEEEEECCCCHHHHHHHHHHHHHHHHCCCCEEEEECCEEEEEE T ss_conf 677642588289999278999999999855589----5799886355766999999998887537862999834599886 Q ss_pred CCCCCCCCEEEECCC------CCCCHHHHHHHH Q ss_conf 455444417885210------133568899874 Q gi|254780945|r 389 SIQYYKLILVIVDEQ------HRFGVQQRLKLT 415 (700) Q Consensus 389 ~v~F~~LgLvViDEQ------HRFGV~QR~~L~ 415 (700) |+.|. ++|.|=. ||||=-+|..-. T Consensus 509 Didfd---~mITe~aPidSLIQR~GRv~R~g~~ 538 (733) T COG1203 509 DIDFD---VLITELAPIDSLIQRAGRVNRHGKK 538 (733) T ss_pred CCCCC---EEEECCCCHHHHHHHHHHHHHCCCC T ss_conf 26668---4663478756799987777415666 No 325 >pfam06745 KaiC KaiC. This family represents a conserved region within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein. This family includes KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria. Probab=90.62 E-value=0.5 Score=27.61 Aligned_cols=56 Identities=21% Similarity=0.233 Sum_probs=36.6 Q ss_pred HCCCCCCE--EEEEECCCCCHHHHHHHHHHH-HHHHHCCEEEEEHHHHHHHHHHHHHHHH Q ss_conf 10013430--788621442236999999733-4443054588612799999999862110 Q gi|254780945|r 288 MSQKNRML--RILQGDVGSGKTLVALIAMAA-AVEAGGQAVIMAPIGILAQQHYEFIKKY 344 (700) Q Consensus 288 l~~~~pM~--RLLQGDVGSGKTiVA~~A~l~-~~~~G~Q~alMaPTEILA~QH~~~~~~~ 344 (700) |..+.|-. -|+.|+-|||||+-|+--++. +...|..|++..- |-=.+|..+++..+ T Consensus 12 l~GGi~~gs~~LI~G~pGsGKT~la~qfl~~ga~~~ge~~lYis~-ee~~~~l~~~~~~~ 70 (231) T pfam06745 12 LKGGIPEGRVVLITGGPGTGKTIFGLQFLYNGALEYGEPGVYVTL-EEPPEDLRENAKSF 70 (231) T ss_pred CCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEEEE-CCCHHHHHHHHHHC T ss_conf 169982996999985897259999999999999865896899981-37999999999982 No 326 >KOG0921 consensus Probab=90.46 E-value=0.066 Score=34.55 Aligned_cols=332 Identities=22% Similarity=0.291 Sum_probs=164.9 Q ss_pred HHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEE-----EEEHHHHHHHHH Q ss_conf 999863024679889999999998410013430788621442236999999733444305458-----861279999999 Q gi|254780945|r 263 QKILRNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAV-----IMAPIGILAQQH 337 (700) Q Consensus 263 ~~f~~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~a-----lMaPTEILA~QH 337 (700) -++...||- +|.+ ++|..-. ..++. -++-|..|||||--..--+|.++..+-|++ .--||.|-|.-. T Consensus 371 ~a~re~lpv----a~~~--~~i~q~v-~dn~v-~~I~getgcgk~tq~aq~iLe~~~~ns~g~~~na~v~qprrisaisi 442 (1282) T KOG0921 371 TAQREELPV----AQYR--SEILQAV-AENRV-VIIKGETGCGKSTQVAQFLLESFLENSNGASFNAVVSQPRRISAISL 442 (1282) T ss_pred HHHHHHCCH----HHHH--HHHHHHH-HCCCE-EEEEECCCCCCHHHHHHHHHHHHHHCCCCCCCCCEECCCCCCCHHHH T ss_conf 622431768----8889--9999987-50750-46760236663147889999987622544200210026542111778 Q ss_pred HHHHHH-HCCCCCC----EEEEEECCCCHHHHHHHHHHHCCCCCEEEEECH-HHC--CCCCCCCCCCEEEECCCCCCCHH Q ss_conf 986211-0145786----589962464225667687762134754864111-201--33455444417885210133568 Q gi|254780945|r 338 YEFIKK-YTQNTQI----IVEIITGNMPQAHRRKALERIAHGQAHIIIGTH-ALF--QDSIQYYKLILVIVDEQHRFGVQ 409 (700) Q Consensus 338 ~~~~~~-~~~~~~i----~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTH-AL~--q~~v~F~~LgLvViDEQHRFGV~ 409 (700) .+.+.+ .-+..+- ++-.. +.++..++ .|..-|- -|+ -+.+-| -..++||||-|-|-|. T Consensus 443 aerva~er~e~~g~tvgy~vRf~-Sa~prpyg------------~i~fctvgvllr~~e~glr-g~sh~i~deiherdv~ 508 (1282) T KOG0921 443 AERVANERGEEVGETCGYNVRFD-SATPRPYG------------SIMFCTVGVLLRMMENGLR-GISHVIIDEIHERDVD 508 (1282) T ss_pred HHHHHHHHHHHHCCCCCCCCCCC-CCCCCCCC------------CEEEECCCHHHHHHHHCCC-CCCCCCCHHHHHHCCC T ss_conf 89887766776445323332212-24555433------------0232021055555440124-5442342033330230 Q ss_pred HHHHHHHC------CCCCCCEEECHHHHHHHHHHHHHHCC-CH------------------HHHCCCCCCCCCCEEEEEE Q ss_conf 89987402------56776101010132278999975201-01------------------1110235576662079997 Q gi|254780945|r 410 QRLKLTQK------ATAPHVLLMTATPIPRTLVLTSLGDI-DI------------------SKITEKPAGRKPIKTVIIP 464 (700) Q Consensus 410 QR~~L~~K------g~~ph~L~MtATPIPRTLal~~ygdl-dv------------------S~i~e~P~gR~~I~T~~~~ 464 (700) --..|.-- ...-|+..|||| |--++-+.+|++. |+ --+++.|..+-+.+-+... T Consensus 509 ~dfll~~lr~m~~ty~dl~v~lmsat-IdTd~f~~~f~~~p~~~~~grt~pvq~F~led~~~~~~~vp~~~~~~k~k~~~ 587 (1282) T KOG0921 509 TDFVLIVLREMISTYRDLRVVLMSAT-IDTDLFTNFFSSIPDVTVHGRTFPVQSFFLEDIIQMTQFVPSEPSQKKRKKDD 587 (1282) T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHCC-CCHHHHHHHHCCCCCEEECCCCCCHHHHHHHHHHHHHHCCCCCCCCCCHHHCC T ss_conf 47899998764123114555322212-34045555521464135316655289999998630222057876731011034 Q ss_pred CCCHHHHHHHHHHHHC-CCCEEEEEE-----CCC-------CC----------------CCCCCC---------CHHHHH Q ss_conf 0200268999976310-387389997-----120-------12----------------211121---------014666 Q gi|254780945|r 465 INRIDEVIERLKVVLS-EGKKAYWIC-----PQI-------EE----------------KKESNF---------RSVVER 506 (700) Q Consensus 465 ~~~~~~~~~~i~~~l~-~g~q~y~Vc-----PlI-------ee----------------se~~~~---------~~~~~~ 506 (700) . +.....+ +|+-.=.+| ..+ +| |+.++- .-+... T Consensus 588 ~--------~~~~~~ddK~~n~n~~~dd~~~~~~~~am~~~se~d~~f~l~Eal~~~i~s~~i~gailvflpgwa~i~~L 659 (1282) T KOG0921 588 D--------EEDEEVDDKGRNMNILCDPSYNESTRTAMSRLSEKDIPFGLIEALLNDIASRNIDGAVLVFLPGWAEIMTL 659 (1282) T ss_pred C--------CCCCHHHHCCCCCCCCCCHHHCCHHHHHHHCCHHHCCHHHHHHHHHHHHCCCCCCCCEEEECCCHHHHHHH T ss_conf 5--------56750121134445544721051244565222010252578999875430347764023304744776643 Q ss_pred HHHHH--HHCCC----CEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEE--------------- Q ss_conf 66668--66371----0312014699899999999975598699998003410468887658998--------------- Q gi|254780945|r 507 FNSLH--EHFTS----SIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIII--------------- 565 (700) Q Consensus 507 ~~~l~--~~~~~----~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI--------------- 565 (700) ..++. ..|++ .+--+|.+...+|.-++.+.--.|..||+++|.+.|.-+.+-+.+-+++ T Consensus 660 ~~~ll~~~~fg~~~~y~ilp~Hsq~~~~eqrkvf~~~p~gv~kii~stniaetsiTidd~v~vid~cka~~~~~~s~nn~ 739 (1282) T KOG0921 660 CNRLLEHQEFGQANKYEILPLHSQLTSQEQRKVFEPVPEGVTKIILSTNIAETSITIDDVVYVIDSCKAKEKLFTSHNNM 739 (1282) T ss_pred HHHHHHHHHHCCCHHCCCCCCHHHCCCHHHHHCCCCCCCCCCCCCCCCCEEEEEEEECCEEEEEEEEEEEEEEECCCCCE T ss_conf 31344433321210034665022014476641367554556540134533667642045068875200111121044320 Q ss_pred -----ECHHHCCHHHHHHHHHCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHCH---------HHHHHHHHHHHCCCC Q ss_conf -----585254746887730116678983599997088899879999999984142---------589999998520630 Q gi|254780945|r 566 -----ENAEHFGLAQLHQLRGRVGRGEEISSCILLYHPPLSKNSYTRLSVLKNTED---------GFLIAEEDLKQRKEG 631 (700) Q Consensus 566 -----~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~~~~~~~~~~Rl~~l~~~~d---------Gf~iAe~Dl~lRG~G 631 (700) .+|..+- +-|-+||-|| -.+|+|+-++ ++-|++++...-+ --.+.-+-|.+-.-| T Consensus 740 ~~~Atvw~sktn---~eqr~gr~gr-vR~G~~f~lc-------s~arF~~l~~~~t~em~r~plhemalTikll~l~SI~ 808 (1282) T KOG0921 740 THYATVWASKTN---LEQRKGRAGR-VRPGFCFHLC-------SRARFEALEDHGTAEMFRTPLHEIALTIKLLRLGSIG 808 (1282) T ss_pred EEEEEECCCCCC---HHHHCCCCCE-ECCCCCCCCC-------HHHHHHHHHHCCCHHHHCCCCHHHHHHHHHHHHHHHH T ss_conf 344552266430---6764266741-3566231210-------7899999876176766257208888667787763488 Q ss_pred CCCCC Q ss_conf 00260 Q gi|254780945|r 632 EILGI 636 (700) Q Consensus 632 ~~~G~ 636 (700) .+++. T Consensus 809 ~fl~k 813 (1282) T KOG0921 809 EFLGK 813 (1282) T ss_pred HHHHH T ss_conf 99860 No 327 >PTZ00205 DNA polymerase kappa; Provisional Probab=90.46 E-value=0.22 Score=30.37 Aligned_cols=18 Identities=11% Similarity=0.102 Sum_probs=11.3 Q ss_pred HHHHHHHHHHHHHHHHHH Q ss_conf 000045430013457874 Q gi|254780945|r 164 TGLSVDLFKKIIVEALSR 181 (700) Q Consensus 164 ~GLsqk~irk~I~~aL~~ 181 (700) +|+.+.++.++|.++=+- T Consensus 54 ~~VDk~Kv~~II~eaSKG 71 (571) T PTZ00205 54 GNVDKERVEAIIRNVSEG 71 (571) T ss_pred CHHHHHHHHHHHHHHCCC T ss_conf 114399999999985478 No 328 >TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB; InterPro: IPR014149 This entry represents TrbB, a protein, which is encoded 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 homologue of the vir system VirB11 ATPase , and the Flp pilus system ATPase TadA .. Probab=90.45 E-value=0.32 Score=29.16 Aligned_cols=39 Identities=28% Similarity=0.371 Sum_probs=32.0 Q ss_pred CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHH Q ss_conf 67988999999999841001343078862144223699999973 Q gi|254780945|r 272 SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMA 315 (700) Q Consensus 272 ~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l 315 (700) -+|.+|..++.+-.. ..||-|+-|=.|||||=-|=+-+. T Consensus 123 imtaaQ~d~l~~Av~-----ar~NIlv~GGTGSGKTTLaNAlla 161 (315) T TIGR02782 123 IMTAAQRDVLREAVA-----ARKNILVVGGTGSGKTTLANALLA 161 (315) T ss_pred CCCHHHHHHHHHHHH-----HCCCEEEECCCCCCHHHHHHHHHH T ss_conf 455789999999997-----129889981458857999999999 No 329 >pfam10391 DNA_pol_lambd_f Fingers domain of DNA polymerase lambda. DNA polymerases catalyse the addition of dNMPs onto the 3-prime ends of DNA chains. There is a general polymerase fold consisting of three subdomains that have been likened to the fingers, palm, and thumb of a right hand. DNA_pol_lambd_f is the central three-helical region of DNA polymerase lambda referred to as the F and G helices of the fingers domain. Contacts with DNA involve this conserved helix-hairpin-helix motif in the fingers region which interacts with the primer strand. This motif is common to several DNA binding proteins and confers a sequence-independent interaction with the DNA backbone. Probab=90.36 E-value=0.25 Score=29.94 Aligned_cols=28 Identities=21% Similarity=0.165 Sum_probs=23.9 Q ss_pred HHHCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHH Q ss_conf 2136785889999988740124688554898787 Q gi|254780945|r 13 LSTFRGVGKKYSLFLSKIINCGNANETRFIDLLF 46 (700) Q Consensus 13 I~~LkGVGpk~a~~L~kl~~l~~~GI~ti~DLL~ 46 (700) .+.+-||||++|+.+-.. ||.|+.||-- T Consensus 4 f~~I~GvGp~~A~~~~~~------G~~ti~dL~~ 31 (52) T pfam10391 4 FTNIWGVGPKTARKWYRQ------GIRTLEDLRE 31 (52) T ss_pred HHHCCCCCHHHHHHHHHH------CCCCHHHHHH T ss_conf 663544069999999994------7888999974 No 330 >PRK08506 replicative DNA helicase; Provisional Probab=90.35 E-value=1.5 Score=23.79 Aligned_cols=73 Identities=15% Similarity=0.181 Sum_probs=52.5 Q ss_pred EEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHH Q ss_conf 886214422369999997334443054588612799999999862110145786589962464225667687762 Q gi|254780945|r 297 ILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERI 371 (700) Q Consensus 297 LLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i 371 (700) .|=|=-|.|||..|+--+..++..|+-|+|..- |.=++|....+-......+. -.+-+|.++..+...+.... T Consensus 197 IIAARPsmGKTAfAlniA~~~a~~~~~V~~FSL-EMs~~ql~~Rlls~~s~V~~-~~lr~g~l~~~e~~~~~~a~ 269 (473) T PRK08506 197 IIAARPSMGKTTLVLNMVLKALNQGKGVAFFSL-EMPAEQLMLRMLSAKTSIPL-QNLRTGDLDDDEWENLSDAC 269 (473) T ss_pred EEECCCCCCHHHHHHHHHHHHHHCCCCEEEEEC-CCCHHHHHHHHHHHHCCCCC-CCCCCCCCCHHHHHHHHHHH T ss_conf 995079986789999999999965996589822-47999999999997288783-10006899999999999999 No 331 >TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB; InterPro: IPR013374 This model describes a protein involved in type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly, and is closely related to GspE (IPR013369 from INTERPRO) of type II secretion systems (also referred to as the main terminal branch of the general secretion pathway). Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.; GO: 0005524 ATP binding, 0008565 protein transporter activity, 0009297 pilus biogenesis. Probab=90.30 E-value=0.28 Score=29.67 Aligned_cols=133 Identities=19% Similarity=0.310 Sum_probs=68.5 Q ss_pred HHHHHHHHHHHHH-HCCC-CCCCCHHHHHCCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH- Q ss_conf 5430013457874-0468-433897786205699988999862045896565667999999987666666677776555- Q gi|254780945|r 169 DLFKKIIVEALSR-LPVL-PEWIEKDLLQKKSFPSIAEAFNIIHNPRKAKDFEWTSPARERLAYDELLAGQIALLLMRK- 245 (700) Q Consensus 169 k~irk~I~~aL~~-~~~i-~E~LP~~ll~k~~L~s~~eAL~~IH~P~~~~dle~~~~ArkRLafeELl~~QL~l~~~r~- 245 (700) |.+.++.-.|+.. ...+ -|+....++-+|.-=.. |+.+=.|+.. +...-.| |+|-= -+|=...+|- T Consensus 193 KFvN~iL~DAir~GASDIHFEPYE~~yRvRyR~DG~---L~Eva~PP~~--l~~ri~a--RiKvM----S~LDIaEkR~P 261 (577) T TIGR02538 193 KFVNKILLDAIRKGASDIHFEPYEKKYRVRYRIDGV---LHEVAQPPLK--LANRIAA--RIKVM----SRLDIAEKRIP 261 (577) T ss_pred HHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEECCE---EHHHHCCCHH--HHHHHHH--HHHHH----HCCCCCCCCCC T ss_conf 338787999984688612113676872067511673---1643258588--9999998--99997----32671224568 Q ss_pred -------HHHHCCCCCCCCC----------------CHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECC Q ss_conf -------5432035767877----------------57899998630246798899999999984100134307886214 Q gi|254780945|r 246 -------QFKKEIGIPINVE----------------GKIAQKILRNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDV 302 (700) Q Consensus 246 -------~~~~~~~~~~~~~----------------~~~~~~f~~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDV 302 (700) +..+.++.=|..+ ++-.+-=+..|.|+. +|++-+- +-+++|+=|- |+=|=. T Consensus 262 QDGRiKl~~sk~k~iDFRVStLPTLfGEKvVLRiLDsS~a~Ldi~~LGFeP--~Qk~~fL---~Ai~kPqGMv-LVTGPT 335 (577) T TIGR02538 262 QDGRIKLKLSKSKAIDFRVSTLPTLFGEKVVLRILDSSAAKLDIDKLGFEP--DQKALFL---EAIHKPQGMV-LVTGPT 335 (577) T ss_pred CCCCEEEEECCCEEEEEEECCCCCCCCCEEEEEEECHHHCCCCCHHHCCCH--HHHHHHH---HHHHCCCCCE-EEECCC T ss_conf 787367753784455125378742024446677655221226742206888--8999999---9970799728-862665 Q ss_pred CCCHHHHHHHHHHHHHH Q ss_conf 42236999999733444 Q gi|254780945|r 303 GSGKTLVALIAMAAAVE 319 (700) Q Consensus 303 GSGKTiVA~~A~l~~~~ 319 (700) |||||+ .+.++|+-+. T Consensus 336 GSGKTV-SLYTaLniLN 351 (577) T TIGR02538 336 GSGKTV-SLYTALNILN 351 (577) T ss_pred CCCHHH-HHHHHHCCCC T ss_conf 984168-7876311257 No 332 >cd03769 SR_IS607_transposase_like Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. This subfamily is composed of proteins that catalyze the transposition of insertion sequence (IS) elements such as IS607 from Helicobacter and IS1535 from Mycobacterium, and similar proteins from other bacteria and several archaeal species. IS elements are DNA segments that move to new sites in prokaryotic and eukaryotic genomes causing insertion mutations and gene rearrangements. Probab=90.16 E-value=1.6 Score=23.68 Aligned_cols=93 Identities=16% Similarity=0.224 Sum_probs=66.6 Q ss_pred HHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHH--HHHHHHHHHHHHC-CEEEEEHHHHHHHHHHHHHHHHCCCCCCE Q ss_conf 88999999999841001343078862144223699--9999733444305-45886127999999998621101457865 Q gi|254780945|r 275 KSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLV--ALIAMAAAVEAGG-QAVIMAPIGILAQQHYEFIKKYTQNTQII 351 (700) Q Consensus 275 ~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiV--A~~A~l~~~~~G~-Q~alMaPTEILA~QH~~~~~~~~~~~~i~ 351 (700) ..|...+.+-...- .. .-=+--|+|||.+.- .+..++..+.+|. .+.+..--.=|++-+|+-+..+|..+|++ T Consensus 17 ~~Q~~~l~~~~~~~--g~--~~~i~~D~gSG~~~~Rp~l~~Ll~~~~~g~v~~vvV~~~DRL~Rfg~elle~~~~~~gv~ 92 (134) T cd03769 17 ERQIERLEAYATAQ--GW--IVEVIKDIGSGLNEKRKGLLKLLEDVLAGKVERVVITYKDRLARFGFELLEELFKAYGVE 92 (134) T ss_pred HHHHHHHHHHHHHC--CC--EEEEEEECCCCCCCCHHHHHHHHHHHHCCCCCEEEEEECCHHHHHHHHHHHHHHHHCCCE T ss_conf 99999999999955--98--259998567776603589999999997389878999855577876899999999986988 Q ss_pred EEEEECCCCHHHHHHHHHHH Q ss_conf 89962464225667687762 Q gi|254780945|r 352 VEIITGNMPQAHRRKALERI 371 (700) Q Consensus 352 v~lLtg~~~~~er~~i~~~i 371 (700) +..+....+.....+..+++ T Consensus 93 iivin~~~~~~~~~EL~eDl 112 (134) T cd03769 93 IVVINQEENEELEQELVEDL 112 (134) T ss_pred EEEEECCCCCCHHHHHHHHH T ss_conf 99997998998689999999 No 333 >cd00141 NT_POLXc Nucleotidyltransferase (NT) domain of family X DNA Polymerases. X family polymerases fill in short gaps during DNA repair. They are relatively inaccurate enzymes and play roles in base excision repair, in non-homologous end joining (NHEJ) which acts mainly to repair damage due to ionizing radiation, and in V(D)J recombination. This family includes eukaryotic Pol beta, Pol lambda, Pol mu, and terminal deoxyribonucleotidyl transferase (TdT). Pol beta and Pol lambda are primarily DNA template-dependent polymerases. TdT is a DNA template-independent polymerase. Pol mu has both template dependent and template independent activities. This subgroup belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more distal carboxylate, coordinate two divalent metal cations involved in a two-metal ion mechanism of nucleotide addition. These three carboxylate residues are fairly well conserved in this Probab=90.14 E-value=0.27 Score=29.70 Aligned_cols=29 Identities=28% Similarity=0.316 Sum_probs=13.4 Q ss_pred HHHHHHHHHHHHHCHHHHHHHHHHHHCCCC Q ss_conf 879999999984142589999998520630 Q gi|254780945|r 602 KNSYTRLSVLKNTEDGFLIAEEDLKQRKEG 631 (700) Q Consensus 602 ~~~~~Rl~~l~~~~dGf~iAe~Dl~lRG~G 631 (700) +.=...|+.++. .-|+.+.|.-|.=+..| T Consensus 254 ~~fn~~lR~~A~-~kG~~Lne~GL~~~~~~ 282 (307) T cd00141 254 KQFNRALRRLAK-EKGLKLNEYGLFDGVDG 282 (307) T ss_pred HHHHHHHHHHHH-HCCCCCCCCCCCCCCCC T ss_conf 999999999999-85996542017458899 No 334 >cd01394 radB RadB. The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear. Probab=90.09 E-value=1.6 Score=23.64 Aligned_cols=49 Identities=16% Similarity=0.166 Sum_probs=38.0 Q ss_pred HHHHHHHCCCCCCEE--EEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHH Q ss_conf 999984100134307--88621442236999999733444305458861279 Q gi|254780945|r 282 KDILQDMSQKNRMLR--ILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIG 331 (700) Q Consensus 282 ~eI~~Dl~~~~pM~R--LLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTE 331 (700) .|+..=|..+.+.-+ ++-|+=|||||-+++-.+..+...|..|++.. || T Consensus 6 ~~lD~vLgGGi~~G~it~i~G~pG~GKStl~lq~a~~~~~~g~~v~Yid-tE 56 (218) T cd01394 6 KGLDELLGGGVERGTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYID-TE 56 (218) T ss_pred HHHHHHHCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEE-CC T ss_conf 7899985699878879999899998499999999999863698699996-65 No 335 >PRK12278 50S ribosomal protein L21/unknown domain fusion protein; Provisional Probab=89.76 E-value=0.27 Score=29.78 Aligned_cols=29 Identities=17% Similarity=0.363 Sum_probs=12.8 Q ss_pred HHHHHHHHHHHHHHHHHHCCCCCCCCHHH Q ss_conf 00045430013457874046843389778 Q gi|254780945|r 165 GLSVDLFKKIIVEALSRLPVLPEWIEKDL 193 (700) Q Consensus 165 GLsqk~irk~I~~aL~~~~~i~E~LP~~l 193 (700) |+..+.=.++...-+..+.++-.|-|.++ T Consensus 160 GIGP~~e~~Ln~~GI~~F~QIA~~t~~di 188 (216) T PRK12278 160 GVGPALAKKLNEAGITTFAQIAALTDEDI 188 (216) T ss_pred CCCHHHHHHHHHHCCCHHHHHHCCCHHHH T ss_conf 65889999999818723999855999999 No 336 >cd04317 EcAspRS_like_N EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND) Helicobacter pylori AspRS. These homodimeric enzymes are class2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic synthesis, wh Probab=89.69 E-value=1.7 Score=23.41 Aligned_cols=65 Identities=23% Similarity=0.308 Sum_probs=47.0 Q ss_pred HHCCCCCEEEEEEEEEEEEEECCCCCCEEEEEEECCCCEEEEEEECCCH---HHHHHHCCCCCEEEEEEEEEE Q ss_conf 8889987899999998975421589833899998189369999951887---899873289888999989973 Q gi|254780945|r 62 SEISEERIVTITGYISQHSSFQLQKRRPYKILLNDGTGEITLLFFYRKT---EMLKNVFFEGRKITVTGKIKK 131 (700) Q Consensus 62 ~~l~~g~~vti~g~V~~~~~~~~~~r~~~~v~v~D~tg~i~lvfFn~~~---~yl~k~lk~G~~v~vsGKv~~ 131 (700) ..-..|+.|++.|.|.+.+. .+ +..=+.+.|.+|.+++++-.... .++ +.++.+..+.|.|+|.. T Consensus 9 ~~~~~G~~V~v~GwV~~~R~---~g-ki~Fi~LRD~tg~iQ~v~~~~~~~~~~~~-~~l~~EsvV~V~G~V~~ 76 (135) T cd04317 9 RESHVGQEVTLCGWVQRRRD---HG-GLIFIDLRDRYGIVQVVFDPEEAPEFELA-EKLRNESVIQVTGKVRA 76 (135) T ss_pred CHHHCCCEEEEEEEEEEEEE---CC-CEEEEEEECCCCEEEEEECCCCCHHHHHH-HHCCCCCEEEEEEEEEE T ss_conf 95889999999999999971---79-79999985288358899957651678999-71897679999999996 No 337 >PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated Probab=89.51 E-value=1.8 Score=23.32 Aligned_cols=244 Identities=16% Similarity=0.149 Sum_probs=128.4 Q ss_pred CCHHHHHHHHHCCCCCCHHHH--HHHHHHHHHHCC---CCC-CE----EEEEECCCCCHHH-HHHHHHHHHHHHH-CCEE Q ss_conf 757899998630246798899--999999984100---134-30----7886214422369-9999973344430-5458 Q gi|254780945|r 258 EGKIAQKILRNIPFSPTKSQE--SAIKDILQDMSQ---KNR-ML----RILQGDVGSGKTL-VALIAMAAAVEAG-GQAV 325 (700) Q Consensus 258 ~~~~~~~f~~~LPF~LT~~Q~--~ai~eI~~Dl~~---~~p-M~----RLLQGDVGSGKTi-VA~~A~l~~~~~G-~Q~a 325 (700) +..+...+++.+|-.....+. .+...+..-+.. ..+ +. -.|-|=.|+|||- +|=+|+-.+...| .+++ T Consensus 131 ~~~la~~l~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~ggV~alVGPTGVGKTTTiAKLAAr~~l~~g~~kVa 210 (404) T PRK06995 131 SAQLVRMLLENLPAGDDAQAAMDWARSVLASNLPVLGSEDALMERGGVFALVGPTGVGKTTTTAKLAARCVMRHGASKVA 210 (404) T ss_pred CHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCHHCCCCEEEEECCCCCCHHHHHHHHHHHHHHHHCCCCEE T ss_conf 99999999984703389789999999999974666666531011475589866888763758999999999983898379 Q ss_pred EEEHH--HHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEEECCC Q ss_conf 86127--9999999986211014578658996246422566768776213475486411120133455444417885210 Q gi|254780945|r 326 IMAPI--GILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKLILVIVDEQ 403 (700) Q Consensus 326 lMaPT--EILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvViDEQ 403 (700) |..=- -|=|....+++.++ +||++.... +..+-+..++++++.+ -|+|-|--.= ++ |++ T Consensus 211 LIT~DTYRIgAvEQLktYa~I---lgvPv~vv~---~~~eL~~aL~~l~~~d-lILIDTaGrs-----~r-------D~~ 271 (404) T PRK06995 211 LLTTDSYRIGGHEQLRIYGKI---LGVPVHAVK---DAADLRLALAELRNKH-IVLIDTVGMS-----QR-------DRM 271 (404) T ss_pred EEECCCCCHHHHHHHHHHHHH---CCCEEEEEC---CHHHHHHHHHHHCCCC-EEEEECCCCC-----CC-------CHH T ss_conf 997687547899999999987---595599959---9999999999708999-9998099989-----76-------888 Q ss_pred CCCCHHHHHHHHHCCC-CCCCEEECHHHHHHHHHHHH--HHCCCHHHHCCCCCCCCCCEEEEEECCCHHHHHHHHHHHHC Q ss_conf 1335688998740256-77610101013227899997--52010111102355766620799970200268999976310 Q gi|254780945|r 404 HRFGVQQRLKLTQKAT-APHVLLMTATPIPRTLVLTS--LGDIDISKITEKPAGRKPIKTVIIPINRIDEVIERLKVVLS 480 (700) Q Consensus 404 HRFGV~QR~~L~~Kg~-~ph~L~MtATPIPRTLal~~--ygdldvS~i~e~P~gR~~I~T~~~~~~~~~~~~~~i~~~l~ 480 (700) + ++|...|..-+. .-.+|+||||-=+++|.-++ |+-+++ ..=|-|++=+......+++.+.+ T Consensus 272 ~---~e~l~~l~~~~~~~~~~LVLsat~~~~dl~~i~~~f~~~~~---------~~~I~TKLDEt~~~G~iln~~~~--- 336 (404) T PRK06995 272 V---SEQIAMLHGAGAPVQRLLLLNATSHGDTLNEVVQAYRGPGL---------AGCILTKLDEAASLGGALDTVIR--- 336 (404) T ss_pred H---HHHHHHHHHCCCCCEEEEEECCCCCHHHHHHHHHHHCCCCC---------CEEEEECCCCCCCHHHHHHHHHH--- T ss_conf 9---99999997357885289997798999999999998446999---------83998304067972399999999--- Q ss_pred CCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHH Q ss_conf 3873899971201221112101466666668663710312014699899999999975 Q gi|254780945|r 481 EGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFK 538 (700) Q Consensus 481 ~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~ 538 (700) .+--+.+|+-==+=-|++...++... +.+-|...-.--+=.+..+|--.+|..-. T Consensus 337 ~~lPlsy~T~GQ~VPeDi~~A~~~~L---v~ra~~~~~~~~~~~~~~~~~~~~~~~~~ 391 (404) T PRK06995 337 HKLPLHYVSNGQRVPEDLHVANAKFL---LHRAFCAPREGSPFVPQDDEMPLLLAALA 391 (404) T ss_pred HCCCEEEECCCCCCCCCHHCCCHHHH---HHHHHHCCCCCCCCCCCCCHHHHHHHHHH T ss_conf 78985998189958421210898999---99986264558999988007999998764 No 338 >PRK00076 recR recombination protein RecR; Reviewed Probab=89.51 E-value=0.17 Score=31.27 Aligned_cols=29 Identities=28% Similarity=0.406 Sum_probs=26.8 Q ss_pred CCCCHHCHHCCCHHHCCCCCHHHHHHHHH Q ss_conf 97102021017721367858899999887 Q gi|254780945|r 1 MRPSFLNPLFAPLSTFRGVGKKYSLFLSK 29 (700) Q Consensus 1 mrp~~l~~L~~pI~~LkGVGpk~a~~L~k 29 (700) |-|+.++.|-..++.|||||||+|+.++- T Consensus 1 ~~p~~i~~LI~~l~kLPGIG~KsA~Rla~ 29 (197) T PRK00076 1 MYPPPIEKLIEALRKLPGIGPKSAQRLAF 29 (197) T ss_pred CCCHHHHHHHHHHHHCCCCCHHHHHHHHH T ss_conf 98789999999998789998899999999 No 339 >pfam02367 UPF0079 Uncharacterized P-loop hydrolase UPF0079. This uncharacterized family contains a P-loop. Probab=89.40 E-value=0.35 Score=28.88 Aligned_cols=51 Identities=25% Similarity=0.285 Sum_probs=31.5 Q ss_pred HHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHH Q ss_conf 99998410013430788621442236999999733444305458861279999999 Q gi|254780945|r 282 KDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQH 337 (700) Q Consensus 282 ~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH 337 (700) +.|.+.+..+ .--+|+||.|||||.-+=.- +.+. |....+-.||=.|.+.+ T Consensus 6 ~~ia~~l~~G--~vi~L~G~LGaGKTtfvr~i-~~~l--g~~~~V~SPTF~lv~~Y 56 (123) T pfam02367 6 KRLAQLLKAG--DVVLLSGDLGAGKTTFVRGL-AKGL--GITGNVTSPTFTLVNVY 56 (123) T ss_pred HHHHHHCCCC--CEEEEECCCCCCHHHHHHHH-HHHC--CCCCCCCCCCEEEEEEE T ss_conf 9999768999--79999888778899999999-9985--99887379955889997 No 340 >PHA00012 assembly protein Probab=89.27 E-value=0.85 Score=25.84 Aligned_cols=82 Identities=26% Similarity=0.311 Sum_probs=54.0 Q ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCC-----CEEEEEECCCCHHHHHHHHHH Q ss_conf 788621442236999999733444305458861279999999986211014578-----658996246422566768776 Q gi|254780945|r 296 RILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQ-----IIVEIITGNMPQAHRRKALER 370 (700) Q Consensus 296 RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~-----i~v~lLtg~~~~~er~~i~~~ 370 (700) --+.|.-|||||++|..-+-..+..|.-||-=.+ |- +.+ |++.+ .++. ..+.|-.-+-+.. T Consensus 4 Y~vTGKlGsGKsl~av~kiq~~l~~G~~VATNld---l~------le~-mp~~gr~ak~~~v~----RlPDkPt~~DL~a 69 (361) T PHA00012 4 YVVTGKLGAGKTLVAVSRIQDKLVKGCIVATNLN---LR------LHH-LPQVGRFAKQPRVM----RIPDKPTLEDLEA 69 (361) T ss_pred EEEECCCCCCCHHHHHHHHHHHHHCCCEEEECCC---CC------HHH-CCCCCCCCCCCCEE----ECCCCCCHHHHHH T ss_conf 8996245788602559999999982981441587---67------655-75447655676459----8489998789987 Q ss_pred HCCCCCEEEEECHHHCCCCCCCCCCCEEEECCC Q ss_conf 213475486411120133455444417885210 Q gi|254780945|r 371 IAHGQAHIIIGTHALFQDSIQYYKLILVIVDEQ 403 (700) Q Consensus 371 i~~G~~~iiIGTHAL~q~~v~F~~LgLvViDEQ 403 (700) |..|. +.-.=++-||+|.||= T Consensus 70 lG~gn------------~~~dE~knGlLvLDE~ 90 (361) T PHA00012 70 IGRGN------------LSYDESKNGLLVLDEC 90 (361) T ss_pred HCCCC------------CCCCCCCCCEEEEEHH T ss_conf 46898------------7656222764997400 No 341 >pfam06431 Polyoma_lg_T_C Polyomavirus large T antigen C-terminus. Probab=89.21 E-value=1.9 Score=23.16 Aligned_cols=109 Identities=17% Similarity=0.193 Sum_probs=61.3 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCC-CCHHHHHHHHHCC-CC-CCHHHHHHHHHHHHHHCCCCCCEE--E Q ss_conf 99999987666666677776555543203576787-7578999986302-46-798899999999984100134307--8 Q gi|254780945|r 223 PARERLAYDELLAGQIALLLMRKQFKKEIGIPINV-EGKIAQKILRNIP-FS-PTKSQESAIKDILQDMSQKNRMLR--I 297 (700) Q Consensus 223 ~ArkRLafeELl~~QL~l~~~r~~~~~~~~~~~~~-~~~~~~~f~~~LP-F~-LT~~Q~~ai~eI~~Dl~~~~pM~R--L 297 (700) -|.||+.--|+-..++.-...+....+..-. +.. ....+..+.+..- |. |-..=..++-+|..-|-.+.|-.| | T Consensus 81 lA~rR~~~~~mTR~elL~eRf~~~l~~md~~-~~~~g~~~i~~ymAgvaw~~~L~p~~~~~i~~~lk~~v~N~PKkRy~l 159 (417) T pfam06431 81 LAKKRVDSLHMTREEMLTERFNDLLDKMDLI-FGAHGNAVLEQYMAGVAWLHCLLPKMDSVIYDFLKCIVYNIPKKRYWL 159 (417) T ss_pred HHHHHHHHHHCCHHHHHHHHHHHHHHHHHHH-HCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCEEEE T ss_conf 9999888876369999999999999999998-647873899999999999997453327999999999961887411588 Q ss_pred EEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHH Q ss_conf 8621442236999999733444305458861279999 Q gi|254780945|r 298 LQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILA 334 (700) Q Consensus 298 LQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA 334 (700) ..|-|-||||-+|+. +.-.-.|.---+=.|-|=|+ T Consensus 160 FkGPvNsGKTTlAAA--lldLcgGkaLNIN~P~dkL~ 194 (417) T pfam06431 160 FKGPIDSGKTTLAAA--LLDLCGGKALNVNLPLERLN 194 (417) T ss_pred EECCCCCCHHHHHHH--HHHHCCCCEEECCCCHHHCC T ss_conf 767867774879999--99863686120479856445 No 342 >PRK12445 lysyl-tRNA synthetase; Reviewed Probab=89.19 E-value=1.9 Score=23.15 Aligned_cols=97 Identities=16% Similarity=0.148 Sum_probs=59.9 Q ss_pred HCCCCCCCCCCCCCHHHC----------CCCCEEEEEEEEEEEEEECCCCCCEEEEEEECCCCEEEEEEECCCH---HH- Q ss_conf 089740134444647888----------9987899999998975421589833899998189369999951887---89- Q gi|254780945|r 47 YHPSSFIDRHYRPKISEI----------SEERIVTITGYISQHSSFQLQKRRPYKILLNDGTGEITLLFFYRKT---EM- 112 (700) Q Consensus 47 ~~PrrYeDr~~~~~I~~l----------~~g~~vti~g~V~~~~~~~~~~r~~~~v~v~D~tg~i~lvfFn~~~---~y- 112 (700) -||.+|.--..+..+.+. ..+..|++.|.|.+.+. .+ +..=+.+.|.+|.+++++-.... .| T Consensus 35 ~yp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~vaGrv~~~R~---~G-k~~F~~LrD~~G~iQ~~~~~~~~~~~~~~ 110 (505) T PRK12445 35 AFPNDFRRDHTSDQLHEEFDAKDNQELESLNIEVSVAGRMMTRRI---MG-KASFVTLQDVGGRIQLYVARDSLPEGVYN 110 (505) T ss_pred CCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCCEEEEEEEEEEEEC---CC-CEEEEEEEECCEEEEEEEECCCCCHHHHH T ss_conf 999989587709999998545684100147988999988987874---79-83999998598439999958868668999 Q ss_pred -HHHHCCCCCEEEEEEEEEEC-CCEEEEECCEEEECC Q ss_conf -98732898889999899731-877999778689626 Q gi|254780945|r 113 -LKNVFFEGRKITVTGKIKKL-KNRIIMVHPHYIFHN 147 (700) Q Consensus 113 -l~k~lk~G~~v~vsGKv~~~-~~~~qi~hPe~~~~~ 147 (700) ..+.+..|+.+-+.|++..- .|.+++.--++.+.+ T Consensus 111 ~~~~~~~~gdii~v~G~~~~t~tGe~~i~~~~~~ils 147 (505) T PRK12445 111 DQFKKWDLGDIIGARGTLFKTQTGELSIHCTELRLLT 147 (505) T ss_pred HHHHHCCCCEEEEEEEEEECCCCCCCCEEEEEEEEEC T ss_conf 9975121534999963660478776212578999934 No 343 >KOG1808 consensus Probab=89.14 E-value=0.74 Score=26.29 Aligned_cols=40 Identities=25% Similarity=0.337 Sum_probs=33.2 Q ss_pred CCCCHHHHHHHHHHHHHHCCC-CCCEEEEEECCCCCHHHHHHH Q ss_conf 467988999999999841001-343078862144223699999 Q gi|254780945|r 271 FSPTKSQESAIKDILQDMSQK-NRMLRILQGDVGSGKTLVALI 312 (700) Q Consensus 271 F~LT~~Q~~ai~eI~~Dl~~~-~pM~RLLQGDVGSGKTiVA~~ 312 (700) |-+|..+++.+.++..-..++ .|- ||||+.|||||-+... T Consensus 419 ~i~T~~vq~~la~~~~a~~~~~~pi--llqG~tssGKtsii~~ 459 (1856) T KOG1808 419 YIITPRVQKNLADLARAISSGKFPI--LLQGPTSSGKTSIIKE 459 (1856) T ss_pred EECCHHHHHHHHHHHHHHHCCCCCE--EEECCCCCCCHHHHHH T ss_conf 2046899988999999996589986--7754767681159999 No 344 >PRK07218 replication factor A; Provisional Probab=88.99 E-value=1.9 Score=23.04 Aligned_cols=84 Identities=20% Similarity=0.264 Sum_probs=59.6 Q ss_pred CCCCCCCCC------CCHHHCCCC-CEEEEEEEEEEEEEEC--CC--CCCEEEEEEECCCCEEEEEEECCCHHHHHHHCC Q ss_conf 740134444------647888998-7899999998975421--58--983389999818936999995188789987328 Q gi|254780945|r 50 SSFIDRHYR------PKISEISEE-RIVTITGYISQHSSFQ--LQ--KRRPYKILLNDGTGEITLLFFYRKTEMLKNVFF 118 (700) Q Consensus 50 rrYeDr~~~------~~I~~l~~g-~~vti~g~V~~~~~~~--~~--~r~~~~v~v~D~tg~i~lvfFn~~~~yl~k~lk 118 (700) |+|-+-+.. ..|+++.++ ..|++.++|+++.... +. ....+.-.+.|+||.|.-..|- +| -+. T Consensus 46 rky~~~~~~~~~~~~~~i~di~~~~~~V~i~~kVl~~~~rsi~~~g~~~i~~~g~l~d~tg~i~f~~w~---~f---~~e 119 (430) T PRK07218 46 RKYGDKRKIGSGPSTLDIKDLSTDDKNVTVTARVLTVGERSIRYQGDPSVIYEGELADETGRISYTAWK---EF---PLS 119 (430) T ss_pred HHHCCCCCCCCCCCCCCHHHCCCCCCCEEEEEEEEEECCCCEECCCCCCEEEEEEECCCCCCEEEEECC---CC---CCC T ss_conf 985788765677443557563877682589999987035301026875224432303666624000120---16---889 Q ss_pred CCCEEEEEEE-EEECCCEEEEE Q ss_conf 9888999989-97318779997 Q gi|254780945|r 119 EGRKITVTGK-IKKLKNRIIMV 139 (700) Q Consensus 119 ~G~~v~vsGK-v~~~~~~~qi~ 139 (700) +|+.|.+-|- ++.|++..++. T Consensus 120 ~Gd~v~I~nA~Vre~~g~peLn 141 (430) T PRK07218 120 PGDTVTIGNAGVREWDGRPELN 141 (430) T ss_pred CCCEEEECCCEEEEECCCEEEE T ss_conf 8878997552851447946786 No 345 >pfam11798 IMS_HHH IMS family HHH motif. These proteins are involved in UV protection, eg. Probab=88.90 E-value=0.25 Score=29.95 Aligned_cols=26 Identities=42% Similarity=0.788 Sum_probs=23.3 Q ss_pred CCHHCHHCCCHHHCCCCCHHHHHHHHHH Q ss_conf 1020210177213678588999998874 Q gi|254780945|r 3 PSFLNPLFAPLSTFRGVGKKYSLFLSKI 30 (700) Q Consensus 3 p~~l~~L~~pI~~LkGVGpk~a~~L~kl 30 (700) +++|.+| ||+.++|||+++++.|+.+ T Consensus 6 ~~~L~~l--pi~~i~GIG~~~~~~L~~~ 31 (33) T pfam11798 6 PEFLWPL--PISKIPGIGRKTAEKLEAL 31 (33) T ss_pred HHHHCCC--CCCCCCCCCHHHHHHHHHC T ss_conf 8886147--6221688666789999982 No 346 >PRK12726 flagellar biosynthesis regulator FlhF; Provisional Probab=88.61 E-value=1.7 Score=23.42 Aligned_cols=162 Identities=12% Similarity=0.137 Sum_probs=80.3 Q ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHH-HCCC Q ss_conf 788621442236999999733444305458861279999999986211014578658996246422566768776-2134 Q gi|254780945|r 296 RILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALER-IAHG 374 (700) Q Consensus 296 RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~-i~~G 374 (700) -+|-|--|||||--++=-+......|+.+++.|- ..-=-=-++.++.|-..++++|. .++.+..-...+... .+++ T Consensus 209 IaLVGvnGvGKTTTiAKLA~~l~~~gkkV~LVAa-DTFRaAAiEQLk~~g~rlgVpV~--~~~dpa~l~~av~~~a~~~~ 285 (407) T PRK12726 209 ISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFITT-DTFRSGAVEQFQGYADKLDVELI--VATSPAELEEAVQYMTYVNC 285 (407) T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEEC-CCCCHHHHHHHHHHHHHHCCEEE--EECCHHHHHHHHHHHHHCCC T ss_conf 9998999897899999999999977991799970-66778899999999999796499--81888999999999986289 Q ss_pred CCEEEEECHHHCCCCCCCCCCCEEEECCCCCCCHHHH--HHHH--HCCCCCCCEE--ECHHHHHHHHHHHHHHCCCHHHH Q ss_conf 7548641112013345544441788521013356889--9874--0256776101--01013227899997520101111 Q gi|254780945|r 375 QAHIIIGTHALFQDSIQYYKLILVIVDEQHRFGVQQR--LKLT--QKATAPHVLL--MTATPIPRTLVLTSLGDIDISKI 448 (700) Q Consensus 375 ~~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFGV~QR--~~L~--~Kg~~ph~L~--MtATPIPRTLal~~ygdldvS~i 448 (700) --+|+||---|--..+. ..|. ..-.+||.++ .+|+-=....+- .+.. . T Consensus 286 --------------------~DvVIIDTAGRl~~d~~Lm~EL~ki~~vi~P~~~lLV~dag~~~~~v~q-a~~~-----~ 339 (407) T PRK12726 286 --------------------VDHILIDTVGRNYLAEESVSEISAYTDVVHPDLTCFTFSSGMKSADVMT-ILPK-----L 339 (407) T ss_pred --------------------CCEEEEECCCCCCCCHHHHHHHHHHHHCCCCCEEEEEECCCCCHHHHHH-HHHH-----H T ss_conf --------------------9989996999881349999999998733289669999367566999999-9987-----0 Q ss_pred CCCCCCCCCCEEEEEECCCHHHHHHHHHHHHCCCCEEEEEEC Q ss_conf 023557666207999702002689999763103873899971 Q gi|254780945|r 449 TEKPAGRKPIKTVIIPINRIDEVIERLKVVLSEGKKAYWICP 490 (700) Q Consensus 449 ~e~P~gR~~I~T~~~~~~~~~~~~~~i~~~l~~g~q~y~VcP 490 (700) .+.|-. .-|.|++=+..+...+++...+ -|--+.+|+- T Consensus 340 ~~v~It-GiILTKLDgtAKGG~aLSi~~~---~~lPI~fIG~ 377 (407) T PRK12726 340 AEIPID-GFIITKMDETTRIGDLYTVMQE---TNLPVLYMTD 377 (407) T ss_pred CCCCCC-EEEEEECCCCCCCCHHHHHHHH---HCCCEEEEEC T ss_conf 479998-7999701478985399999999---8889799947 No 347 >PRK10867 signal recognition particle protein; Provisional Probab=88.55 E-value=2 Score=22.83 Aligned_cols=217 Identities=13% Similarity=0.124 Sum_probs=103.0 Q ss_pred HCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEE-ECCCCHHHHHH Q ss_conf 10013430788621442236999999733444305458861279999999986211014578658996-24642256676 Q gi|254780945|r 288 MSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEII-TGNMPQAHRRK 366 (700) Q Consensus 288 l~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lL-tg~~~~~er~~ 366 (700) +.+..|-.-|+-|==|||||--+.=-+...-..+...+++|...+-=.--++.++.|-...++++.-- +++.+.+--++ T Consensus 95 ~~~~~p~VIm~vGLqGsGKTTT~aKLA~~lk~k~~k~vllvaaDt~RpaA~eQL~~la~~~~v~~~~~~~~~dp~~ia~~ 174 (453) T PRK10867 95 LAAQPPAVVLMAGLQGAGKTTSVGKLGKFLREKHKKKVLVVSADVYRPAAIKQLETLAEQVGVDFFPSDVGQKPVDIVNA 174 (453) T ss_pred CCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHH T ss_conf 37899969999746888518589999999997389837985588770589999999998519804367889988999999 Q ss_pred HHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEEECCCCCCCHHHHH----HHHHCCCCCC--CEEECHHHHHHHH--HHH Q ss_conf 8776213475486411120133455444417885210133568899----8740256776--1010101322789--999 Q gi|254780945|r 367 ALERIAHGQAHIIIGTHALFQDSIQYYKLILVIVDEQHRFGVQQRL----KLTQKATAPH--VLLMTATPIPRTL--VLT 438 (700) Q Consensus 367 i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFGV~QR~----~L~~Kg~~ph--~L~MtATPIPRTL--al~ 438 (700) ..+..+.... -+||||---|--+++-. +-..+-.+|| +||+-|+-=--.. |-+ T Consensus 175 a~~~ak~~~~-------------------DvvivDTAGRl~~d~~Lm~El~~i~~~~~P~e~llV~Da~~GQ~a~~~a~~ 235 (453) T PRK10867 175 ALKEAKLKFY-------------------DVLLVDTAGRLHVDEAMMDEIKQVHASINPVETLFVVDAMTGQDAANTAKA 235 (453) T ss_pred HHHHHHHCCC-------------------CEEEEECCCCHHCCHHHHHHHHHHHHHHCCCCEEEEEECCCCHHHHHHHHH T ss_conf 9999997799-------------------999997876012108889999999876378713797432235668999999 Q ss_pred HHHCCCHHHHCCCCCCCCCCEEEEEECCCHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHH-HH-HHHHCC- Q ss_conf 752010111102355766620799970200268999976310387389997120122111210146666-66-686637- Q gi|254780945|r 439 SLGDIDISKITEKPAGRKPIKTVIIPINRIDEVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERF-NS-LHEHFT- 515 (700) Q Consensus 439 ~ygdldvS~i~e~P~gR~~I~T~~~~~~~~~~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~-~~-l~~~~~- 515 (700) .. +..|-+ --|.|++=+..+-.-+++... .-|--+++|+- .|+.| +.+.-+ ++ ..+.++ T Consensus 236 F~--------~~~~~~-gvIlTKlDgdarGG~alS~~~---~t~~PI~FiG~----GEk~d--dle~F~p~r~asRILGm 297 (453) T PRK10867 236 FN--------EALPLT-GVVLTKVDGDARGGAALSIRH---ITGKPIKFLGV----GEKTD--ALEPFHPDRIASRILGM 297 (453) T ss_pred HH--------HHCCCC-EEEEECCCCCCCCHHHHHHHH---HHCCCCEEEEC----CCCCC--CCCCCCHHHHHHHHCCC T ss_conf 99--------855987-078750467876138989999---97869678866----99824--58876848999986189 Q ss_pred -CC---EECCCCCCCHHHHHHHHHHHHCCC Q ss_conf -10---312014699899999999975598 Q gi|254780945|r 516 -SS---IAIIHGRMSDIDKESVMDSFKNGT 541 (700) Q Consensus 516 -~~---v~~lHGkm~~~ek~~~m~~F~~g~ 541 (700) += +.-+....+.++.++.++++..|+ T Consensus 298 GDi~~Lvek~~~~~d~~~~~~~~~k~~~g~ 327 (453) T PRK10867 298 GDVLSLIEDIESKVDRAQAEKLASKLKKGD 327 (453) T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHCCC T ss_conf 878999999998750889999999987069 No 348 >COG0802 Predicted ATPase or kinase [General function prediction only] Probab=88.53 E-value=0.47 Score=27.87 Aligned_cols=57 Identities=23% Similarity=0.390 Sum_probs=32.8 Q ss_pred HHHHHHHH-HHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHH Q ss_conf 89999999-998410013430788621442236999999733444305458861279999999 Q gi|254780945|r 276 SQESAIKD-ILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQH 337 (700) Q Consensus 276 ~Q~~ai~e-I~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH 337 (700) ++...+.+ +...+ +...--+|+||.|+|||--+ -+++.+. |.+..+-.||=-|.+-+ T Consensus 9 ~~t~~lg~~l~~~l--~~g~Vv~L~GdLGAGKTtf~-rgi~~~L--g~~~~V~SPTFtlv~~Y 66 (149) T COG0802 9 EATLALGERLAEAL--KAGDVVLLSGDLGAGKTTLV-RGIAKGL--GVDGNVKSPTFTLVEEY 66 (149) T ss_pred HHHHHHHHHHHHHC--CCCCEEEEECCCCCCHHHHH-HHHHHHC--CCCCCCCCCCEEEEHHH T ss_conf 99999999999657--89988999778768859999-9999974--99975249876101211 No 349 >PRK13889 conjugal transfer relaxase TraA; Provisional Probab=88.41 E-value=1.6 Score=23.67 Aligned_cols=140 Identities=20% Similarity=0.174 Sum_probs=91.1 Q ss_pred CCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHH-------HH Q ss_conf 02467988999999999841001343078862144223699999973344430545886127999999998-------62 Q gi|254780945|r 269 IPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYE-------FI 341 (700) Q Consensus 269 LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~-------~~ 341 (700) =+|.|...|..|+..|..+ .. ..++.|--|+|||-+--.|--+.-.+||.|.=+|||-+=|+..-. ++ T Consensus 343 ~~~~Ls~EQ~~A~~hiT~~----~~-iavVvG~AGtGKStmL~aAReawEa~GyrV~GaALsGkAAegLe~~sGI~SrTl 417 (992) T PRK13889 343 RGLVLSGEQADALAHVTDG----RD-LGVVVGYAGTGKSAMLGVAREAWEAAGYEVRGAALSGIAAENLEGGSGIASRTI 417 (992) T ss_pred CCCCCCHHHHHHHHHHCCC----CC-EEEEEECCCCCHHHHHHHHHHHHHHCCCEEEEECCCHHHHHHHHHCCCCCCHHH T ss_conf 2688799999999986478----97-589983388878899999999999779889811500689997653479431679 Q ss_pred HHHCCCC-------CCE-EEEE--ECCCCHHHHHHHHHHHC-CCCCEEEEECHHHCC---CCCCC----CCCCEEEECCC Q ss_conf 1101457-------865-8996--24642256676877621-347548641112013---34554----44417885210 Q gi|254780945|r 342 KKYTQNT-------QII-VEII--TGNMPQAHRRKALERIA-HGQAHIIIGTHALFQ---DSIQY----YKLILVIVDEQ 403 (700) Q Consensus 342 ~~~~~~~-------~i~-v~lL--tg~~~~~er~~i~~~i~-~G~~~iiIGTHAL~q---~~v~F----~~LgLvViDEQ 403 (700) ..|.-.. +-+ |.++ -|=.....-..+++... .|---++||-+.=+| .+=.| .+.|.+-++|= T Consensus 418 As~e~~w~~g~~~L~~~dVlVVDEAGMVgSRqMarll~~Ae~AGAKVVLVGD~~QLq~IeAGaaFral~er~G~aeLteI 497 (992) T PRK13889 418 ASLEHGWGQGRDLLTARDVLVIDEAGMVGTRQLERVLSHAADAGAKVVLVGDPQQLQAIEAGAAFRSIHERHGGAEIGEV 497 (992) T ss_pred HHHHHHHHCCCCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHCCCEEEEECCHHHCCCCCCCHHHHHHHHHCCCEEEEHE T ss_conf 99999874673347898589996765577499999999999849989994887771886468899999985196751022 Q ss_pred CCCCH-HHHHH Q ss_conf 13356-88998 Q gi|254780945|r 404 HRFGV-QQRLK 413 (700) Q Consensus 404 HRFGV-~QR~~ 413 (700) +||-. .||.+ T Consensus 498 rRQr~~w~ReA 508 (992) T PRK13889 498 RRQREDWQRDA 508 (992) T ss_pred ECCCCHHHHHH T ss_conf 21487999999 No 350 >pfam00158 Sigma54_activat Sigma-54 interaction domain. Probab=88.37 E-value=0.55 Score=27.30 Aligned_cols=23 Identities=26% Similarity=0.436 Sum_probs=17.6 Q ss_pred CCCCEEEEEECCCCCHHHHHHHH Q ss_conf 13430788621442236999999 Q gi|254780945|r 291 KNRMLRILQGDVGSGKTLVALIA 313 (700) Q Consensus 291 ~~pM~RLLQGDVGSGKTiVA~~A 313 (700) .....-|++|..|+||+.+|-.- T Consensus 20 ~~~~pVLI~GE~GtGK~~lAr~I 42 (168) T pfam00158 20 PTDATVLITGESGTGKELFARAI 42 (168) T ss_pred CCCCCEEEECCCCCCHHHHHHHH T ss_conf 88998899899988889999999 No 351 >PRK08769 DNA polymerase III subunit delta'; Validated Probab=88.36 E-value=0.91 Score=25.60 Aligned_cols=50 Identities=20% Similarity=0.228 Sum_probs=35.7 Q ss_pred CCCHHHHHHHHHHHHHHCCCC-CCEEEEEECCCCCHHHHHHHHHHHHHHHH Q ss_conf 679889999999998410013-43078862144223699999973344430 Q gi|254780945|r 272 SPTKSQESAIKDILQDMSQKN-RMLRILQGDVGSGKTLVALIAMAAAVEAG 321 (700) Q Consensus 272 ~LT~~Q~~ai~eI~~Dl~~~~-pM~RLLQGDVGSGKTiVA~~A~l~~~~~G 321 (700) .+|.=|+++++...+-+.+++ |=--|+.|.-|+||+..|..-+-...-++ T Consensus 4 ~~~PWq~~~~~~L~~~i~~~rl~HA~Lf~Gp~G~GK~~~A~~~A~~llc~~ 54 (319) T PRK08769 4 AFSPWQQRAFDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEHVLASG 54 (319) T ss_pred CCCCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHHCCC T ss_conf 558776899999999997699420687589998789999999999983799 No 352 >PRK00313 lpxK tetraacyldisaccharide 4'-kinase; Provisional Probab=88.35 E-value=2.1 Score=22.74 Aligned_cols=120 Identities=18% Similarity=0.222 Sum_probs=64.1 Q ss_pred CCCHHHHHHHHHHHHHHHHCCEEEEEH------H----HHHHHHHHHH----HHHHCCCCCCEEEEEECCCCHHHHHHHH Q ss_conf 422369999997334443054588612------7----9999999986----2110145786589962464225667687 Q gi|254780945|r 303 GSGKTLVALIAMAAAVEAGGQAVIMAP------I----GILAQQHYEF----IKKYTQNTQIIVEIITGNMPQAHRRKAL 368 (700) Q Consensus 303 GSGKTiVA~~A~l~~~~~G~Q~alMaP------T----EILA~QH~~~----~~~~~~~~~i~v~lLtg~~~~~er~~i~ 368 (700) |+|||=+...-+-...+.|++++++.= + .|=+....+. ---+....+++ ...| ++|.+.. T Consensus 63 GTGKTP~v~~La~~L~~~G~~~~IiSRGYg~~~~~~~~~v~~~~~~~~vGDEpllla~~~~~p--V~V~----~~R~~a~ 136 (332) T PRK00313 63 GTGKTPLILWLIEHCRRRGLRVGVVSRGYGARPPQLPWRVTADQDAAEAGDEPLLIVQRTGVP--LMID----PDRPRAV 136 (332) T ss_pred CCCHHHHHHHHHHHHHHCCCCEEEEECCCCCCCCCCCEEECCCCCHHHCCCHHHHHHHCCCCC--EEEC----CCHHHHH T ss_conf 877779999999999977996589864656766677355457768455585889998506962--9980----7699999 Q ss_pred H-HHCCCCCEEEEECHHHCCCCCCCCCCCEEEECCCCCCCHHH-------HHHHHHCCCCCCCEEECHHH Q ss_conf 7-62134754864111201334554444178852101335688-------99874025677610101013 Q gi|254780945|r 369 E-RIAHGQAHIIIGTHALFQDSIQYYKLILVIVDEQHRFGVQQ-------RLKLTQKATAPHVLLMTATP 430 (700) Q Consensus 369 ~-~i~~G~~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFGV~Q-------R~~L~~Kg~~ph~L~MtATP 430 (700) + .++.+.+++||=--+ ||..-..+++-+|++|.++.||=.. |+-+.. -...|.++.+..+ T Consensus 137 ~~l~~~~~~dviIlDDG-fQh~~l~rDl~Ivvid~~~~fGNg~lLPaGpLREp~~~-l~raD~vi~~g~~ 204 (332) T PRK00313 137 QALLAAEPLDLILSDDG-LQHYRLARDLELVLIDAARGLGNGRCLPAGPLREPAER-LAEVDAVLYNGAA 204 (332) T ss_pred HHHHHCCCCCEEEECCC-CCCHHHCCCCEEEEECCCCCCCCCCCCCCCCCCCCHHH-HHCCCEEEECCCC T ss_conf 99996499988995585-31201048806998456678889888778645588537-6008999997997 No 353 >TIGR00603 rad25 DNA repair helicase rad25; InterPro: IPR001161 Xeroderma pigmentosum (XP) is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. People's skin cells with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-G is one of the most rare and phenotypically heterogeneous of XP, showing anything from slight to extreme dysfunction in DNA excision repair , . XP-G can be corrected by a 133 Kd nuclear protein, XPGC . XPGC is an acidic protein that confers normal UV resistance in expressing cells . It is a magnesium-dependent, single-strand DNA endonuclease that makes structure-specific endonucleolytic incisions in a DNA substrate containing a duplex region and single-stranded arms , . XPGC cleaves one strand of the duplex at the border with the single-stranded region . XPG belongs to a family of proteins that includes RAD2 from Saccharomyces cerevisiae (Baker's yeast) and rad13 from Schizosaccharomyces pombe (Fission yeast), which are single-stranded DNA endonucleases , ; mouse and human FEN-1, a structure-specific endonuclease; RAD2 from fission yeast and RAD27 from budding yeast; fission yeast exo1, a 5'-3' double-stranded DNA exonuclease that may act in a pathway that corrects mismatched base pairs; yeast DHS1, and yeast DIN7. Sequence alignment of this family of proteins reveals that similarities are largely confined to two regions. The first is located at the N-terminal extremity (N-region) and corresponds to the first 95 to 105 amino acids. The second region is internal (I-region) and found towards the C-terminus; it spans about 140 residues and contains a highly conserved core of 27 amino acids that includes a conserved pentapeptide (E-A-[DE]-A-[QS]). It is possible that the conserved acidic residues are involved in the catalytic mechanism of DNA excision repair in XPG. The amino acids linking the N- and I-regions are not conserved. This entry represents XP group B (XP-B) give rise to both XP and Cockayne syndrome . The DNA/RNA helicase domain IPR001650 from INTERPRO is also present in this group of proteins.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding, 0006289 nucleotide-excision repair, 0005634 nucleus. Probab=88.33 E-value=0.74 Score=26.29 Aligned_cols=329 Identities=19% Similarity=0.228 Sum_probs=192.7 Q ss_pred CCHHHHHHHH-HHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCE Q ss_conf 7988999999-999841001343078862144223699999973344430545886127999999998621101457865 Q gi|254780945|r 273 PTKSQESAIK-DILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQII 351 (700) Q Consensus 273 LT~~Q~~ai~-eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~ 351 (700) +=+-|++++. -... .+..=.=.+====|.|||+|-+-|+..+= +.+.+++-.-|=-+|=-..|+-|-.--+-. T Consensus 270 ~RPYQEKSLrsKMFG---NGRARSGiIVLPCGAGKsLVGvTAACTvk---Ks~lVLctS~VSV~QW~~QFk~WSti~d~~ 343 (756) T TIGR00603 270 LRPYQEKSLRSKMFG---NGRARSGIIVLPCGAGKSLVGVTAACTVK---KSVLVLCTSAVSVEQWKQQFKLWSTIDDSQ 343 (756) T ss_pred CCCCHHHHCCCCCCC---CCCCCCCCEECCCCCCCCHHHHHHHEEEE---EEEEEEECCCHHHHHHHHHHHHCCCCCCCC T ss_conf 897511104445667---86110551776778883112254420231---007897267100889998875226887355 Q ss_pred EEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCC-------------CCCCCCCCCEEEECCCCCCCHHH-HHHHHHC Q ss_conf 899624642256676877621347548641112013-------------34554444178852101335688-9987402 Q gi|254780945|r 352 VEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQ-------------DSIQYYKLILVIVDEQHRFGVQQ-RLKLTQK 417 (700) Q Consensus 352 v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q-------------~~v~F~~LgLvViDEQHRFGV~Q-R~~L~~K 417 (700) |+--|+..| || -.|++.|+|-|-+.+. +-+.=.-=||+|.||=|=-=-++ |.-|.- T Consensus 344 IcrFTSD~K--e~-------~~~~~gv~vsTYsMva~t~kRS~es~k~m~~l~~rEWGl~~LDEVHvvPA~mFRrVlt~- 413 (756) T TIGR00603 344 ICRFTSDAK--EK-------FHGEAGVVVSTYSMVAHTGKRSYESEKVMEWLTNREWGLILLDEVHVVPAAMFRRVLTI- 413 (756) T ss_pred CCCCCCCCC--CC-------CCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHHCCCCEEEEECCCCCCCCCCCCCHHHH- T ss_conf 110252135--76-------26653358873300024754318899999997068731798611010350016601014- Q ss_pred CCCCCC-EEECHHHHHHHHHHHHHHCCCHHHHCCCCCCCCCCEEEEEECCCH--------HHHHHHHHHHHCCCCEEEEE Q ss_conf 567761-010101322789999752010111102355766620799970200--------26899997631038738999 Q gi|254780945|r 418 ATAPHV-LLMTATPIPRTLVLTSLGDIDISKITEKPAGRKPIKTVIIPINRI--------DEVIERLKVVLSEGKKAYWI 488 (700) Q Consensus 418 g~~ph~-L~MtATPIPRTLal~~ygdldvS~i~e~P~gR~~I~T~~~~~~~~--------~~~~~~i~~~l~~g~q~y~V 488 (700) ...|. |=+|||= +-+.+++ +++|++=.=+|++++=+-=| T Consensus 414 -~~aHcKLGLTATL-------------------------------vREDdKI~DLNFLIGPKLYEANWleL~~~GfIA~V 461 (756) T TIGR00603 414 -VQAHCKLGLTATL-------------------------------VREDDKIQDLNFLIGPKLYEANWLELQKKGFIANV 461 (756) T ss_pred -HHHHHCCCCCEEE-------------------------------ECCCCCCCCCCCCCCCHHHHHHHHHHHCCCEEEEE T ss_conf -4332001432110-------------------------------01114303122135721345326988208836887 Q ss_pred ------ECCCCC---------CC-CCC----------------------------------CCHHHHHHHHHHHHCCCCE Q ss_conf ------712012---------21-112----------------------------------1014666666686637103 Q gi|254780945|r 489 ------CPQIEE---------KK-ESN----------------------------------FRSVVERFNSLHEHFTSSI 518 (700) Q Consensus 489 ------cPlIee---------se-~~~----------------------------------~~~~~~~~~~l~~~~~~~v 518 (700) ||+=.| |. |-- +-+..+..-+|.+ T Consensus 462 qCAEVWCPMt~EFY~EYL~~~~~~Kr~LLY~MNP~KFrACqFLI~fHE~~RgDKIIVFsDNVfAL~~YA~kl~K------ 535 (756) T TIGR00603 462 QCAEVWCPMTPEFYREYLREKSRKKRMLLYVMNPNKFRACQFLIRFHERQRGDKIIVFSDNVFALKEYAIKLGK------ 535 (756) T ss_pred EECCCCCCCCHHHHHHHHHHHCCCCCEEEEECCCCHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHCCC------ T ss_conf 41210178877789999855112443031203864435778988885414888589942447899999987389------ Q ss_pred ECCCCCCCHHHHHHHHHHHHCCCE-EEEEECHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCC----------CC Q ss_conf 120146998999999999755986-9999800341046888765899858525474688773011667----------89 Q gi|254780945|r 519 AIIHGRMSDIDKESVMDSFKNGTC-KLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGR----------GE 587 (700) Q Consensus 519 ~~lHGkm~~~ek~~~m~~F~~g~~-~iLvaTtviEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGR----------g~ 587 (700) -.+-|-=+..|+=+|+++|+-.+. .=.-=.=|=---||+|.|||+|=..++-=-==|==|==|||=| |+ T Consensus 536 pfIYGpTsq~ER~~IL~nF~~n~~vnTIF~SKVGDtSiDlPEAnvlIQiSSH~GSRRQEAQRLGRILRAK~~~~~r~agg 615 (756) T TIGR00603 536 PFIYGPTSQQERMQILQNFKHNPKVNTIFLSKVGDTSIDLPEANVLIQISSHYGSRRQEAQRLGRILRAKKKSDARMAGG 615 (756) T ss_pred CEEECCCCHHHHHHHHHHCCCCCCCCEEEEEEECCCCCCCCCCCEEEEEEECCCCHHHHHHHCCCCCCCCCCCHHHHCCC T ss_conf 65407987137999986215588645689843027751422142677653267740368764132016787513331377 Q ss_pred CCEEEEEEECC--CCC-H--HHHHHHHHHHHHCHHHHHHHHHHHHCCCCCCCCCHHCCCCCCCCCCHHHHHHHHHHHHHH Q ss_conf 83599997088--899-8--799999999841425899999985206300026000698744000388759999999999 Q gi|254780945|r 588 EISSCILLYHP--PLS-K--NSYTRLSVLKNTEDGFLIAEEDLKQRKEGEILGIKQSGMPKFLIAQPELHDSLLEIARKD 662 (700) Q Consensus 588 ~~s~c~l~~~~--~~~-~--~~~~Rl~~l~~~~dGf~iAe~Dl~lRG~G~~~G~~QsG~~~~~~~d~~~d~~ll~~a~~~ 662 (700) +..|==+-|+- +.+ | -|.+|=+-|.+=-=-|++= -.+-|..+ .+++.++.-..-.+||.++=.. T Consensus 616 kE~YNAFFYSLVS~DTqEmyYStKRQ~FLvDQGYsFKVI---------T~L~G~d~--~~~L~Y~s~~Eq~~LLq~VL~~ 684 (756) T TIGR00603 616 KEEYNAFFYSLVSKDTQEMYYSTKRQRFLVDQGYSFKVI---------THLKGMDE--ESNLAYSSKEEQLELLQKVLAA 684 (756) T ss_pred CCCCCEEEEECCCCCCEEEECCHHHHHHHHCCCCCEEEE---------CCCCCCCC--CCCCCCCCHHHHHHHHHHHHHC T ss_conf 644220121013445146510212355543036503676---------16878887--6333446878999999999632 Q ss_pred HHHH Q ss_conf 9999 Q gi|254780945|r 663 AKHI 666 (700) Q Consensus 663 a~~~ 666 (700) .+.- T Consensus 685 ~d~~ 688 (756) T TIGR00603 685 GDDD 688 (756) T ss_pred CCCC T ss_conf 6311 No 354 >PRK03932 asnC asparaginyl-tRNA synthetase; Validated Probab=88.29 E-value=2.1 Score=22.71 Aligned_cols=77 Identities=16% Similarity=0.109 Sum_probs=49.2 Q ss_pred CCCEEEEEEEEEEEEEECCCCCCEEEEEEECCCCEEEEEEECCC--HHHH--HHHCCCCCEEEEEEEEEECC---CEEEE Q ss_conf 98789999999897542158983389999818936999995188--7899--87328988899998997318---77999 Q gi|254780945|r 66 EERIVTITGYISQHSSFQLQKRRPYKILLNDGTGEITLLFFYRK--TEML--KNVFFEGRKITVTGKIKKLK---NRIIM 138 (700) Q Consensus 66 ~g~~vti~g~V~~~~~~~~~~r~~~~v~v~D~tg~i~lvfFn~~--~~yl--~k~lk~G~~v~vsGKv~~~~---~~~qi 138 (700) .|+.|++.|.|.+.+ ..+ +..=+.+.|++|.+++..+... ..+. .+.+..|+.|.|.|++.... +.+++ T Consensus 16 ig~~V~v~Grv~~~R---~~G-kl~Fi~LrD~tg~~qiq~~~~~~~~~~~~~~~~l~~gd~V~V~G~v~~t~~~~~~~El 91 (462) T PRK03932 16 VGQEVTIRGWVRTKR---DSG-KISFLELNDGSCFKQIQVVKNNELPNYGEEVFKLTTGSSVYVTGTVVESPGAGQGYEL 91 (462) T ss_pred CCCEEEEEEEEEEEE---CCC-CCEEEEEECCCCCEEEEEEECCCCHHHHHHHHCCCCCEEEEEEEEEEECCCCCCCEEE T ss_conf 899899989778278---179-8389999828987899999679766799999669995699999999925999977799 Q ss_pred ECCEEEEC Q ss_conf 77868962 Q gi|254780945|r 139 VHPHYIFH 146 (700) Q Consensus 139 ~hPe~~~~ 146 (700) .--++.+. T Consensus 92 ~~~~i~vl 99 (462) T PRK03932 92 QATKIEVI 99 (462) T ss_pred EEEEEEEE T ss_conf 98389998 No 355 >PRK04301 radA DNA repair and recombination protein RadA; Validated Probab=88.23 E-value=0.35 Score=28.88 Aligned_cols=142 Identities=15% Similarity=0.102 Sum_probs=70.2 Q ss_pred CCHHHCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCHHHCCCCCE------EEEEEEEEEEEEECC Q ss_conf 77213678588999998874012468855489878708974013444464788899878------999999989754215 Q gi|254780945|r 11 APLSTFRGVGKKYSLFLSKIINCGNANETRFIDLLFYHPSSFIDRHYRPKISEISEERI------VTITGYISQHSSFQL 84 (700) Q Consensus 11 ~pI~~LkGVGpk~a~~L~kl~~l~~~GI~ti~DLL~~~PrrYeDr~~~~~I~~l~~g~~------vti~g~V~~~~~~~~ 84 (700) ..|+.|+||||...++|++- |++|+.|++..=|....+-.- |++....+. ..-.+...+.....- T Consensus 7 ~~l~~lpGv~~~~~~kL~~a------G~~tv~~l~~~~~~~L~~~~g---is~~~a~ki~~~a~~~~~~~~f~Ta~el~~ 77 (318) T PRK04301 7 KDLEDLPGVGPATAEKLREA------GYDTVEAIAVASPKELSEIAG---ISESTAAKIIEAAREALDIGGFETALEVLE 77 (318) T ss_pred CCCCCCCCCCHHHHHHHHHC------CCCCHHHHHCCCHHHHHHHHC---CCHHHHHHHHHHHHHHCCCCCCCCHHHHHH T ss_conf 77455899899999999986------995499987489999998509---999999999999998536579826999999 Q ss_pred CCCCEEEEEEECCCCEEEEEEECCCHHHHHHHCCCCCEEEEEEEEEECCCEEEEECCEE---EECCCCCCCCCCCCCCCC Q ss_conf 89833899998189369999951887899873289888999989973187799977868---962643344444110000 Q gi|254780945|r 85 QKRRPYKILLNDGTGEITLLFFYRKTEMLKNVFFEGRKITVTGKIKKLKNRIIMVHPHY---IFHNSQDVNFPLIEAVYS 161 (700) Q Consensus 85 ~~r~~~~v~v~D~tg~i~lvfFn~~~~yl~k~lk~G~~v~vsGKv~~~~~~~qi~hPe~---~~~~~~~~~~~~I~PIYp 161 (700) .++.. ..+.-+...++-. +.--++.|.--=++|.....+ -|+-|--- ....+....-+ .-+|= T Consensus 78 ~r~~~--~~isTg~~~lD~l--------LgGGi~~g~ITEi~Ge~gsGK--TQlc~qLav~~qlp~~~GGl~g--~vvYI 143 (318) T PRK04301 78 RRKSI--GKITTGSKELDEL--------LGGGIETQSITEFYGEFGSGK--TQICHQLAVNVQLPEEEGGLEG--KAVYI 143 (318) T ss_pred HHHCC--CCCCCCCHHHHHH--------CCCCCCCCEEEEEECCCCCCC--HHHHHHHHHHEECCHHHCCCCC--CEEEE T ss_conf 86347--8247888788805--------479833670788866887870--3566776765337677789886--37999 Q ss_pred CCHH-HHHHHHHHHH Q ss_conf 0000-0045430013 Q gi|254780945|r 162 LPTG-LSVDLFKKII 175 (700) Q Consensus 162 lt~G-Lsqk~irk~I 175 (700) -|+| .+...++.+. T Consensus 144 DTEgtF~peRi~qia 158 (318) T PRK04301 144 DTENTFRPERIEQMA 158 (318) T ss_pred ECCCCCCHHHHHHHH T ss_conf 568986979999999 No 356 >cd04316 ND_PkAspRS_like_N ND_PkAspRS_like_N: N-terminal, anticodon recognition domain of the type found in the homodimeric non-discriminating (ND) Pyrococcus kodakaraensis aspartyl-tRNA synthetase (AspRS). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. P. kodakaraensis AspRS is a class 2b aaRS. aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. P. kodakaraensis ND-AspRS can charge both tRNAAsp and tRNAAsn. Some of the enzymes in this group may be discriminating, based on the presence of homologs of asparaginyl-tRNA synthetase (AsnRS) in their completed genomes. Probab=88.14 E-value=2.2 Score=22.64 Aligned_cols=83 Identities=17% Similarity=0.211 Sum_probs=56.4 Q ss_pred HHHCCCCCEEEEEEEEEEEEEECCCCCCEEEEEEECCCCEEEEEEECCCH-----HHHHHHCCCCCEEEEEEEEEECC-- Q ss_conf 78889987899999998975421589833899998189369999951887-----89987328988899998997318-- Q gi|254780945|r 61 ISEISEERIVTITGYISQHSSFQLQKRRPYKILLNDGTGEITLLFFYRKT-----EMLKNVFFEGRKITVTGKIKKLK-- 133 (700) Q Consensus 61 I~~l~~g~~vti~g~V~~~~~~~~~~r~~~~v~v~D~tg~i~lvfFn~~~-----~yl~k~lk~G~~v~vsGKv~~~~-- 133 (700) ++.-..|+.|++.|-|.+.+. .+ +..=+.+.|.+|.+++++-.... .++ +.+..+..+.|.|++.... T Consensus 6 l~~~~~G~~V~i~Gwv~~~R~---~g-~~~Fi~LRD~~G~vQ~v~~~~~~~~~~~~~~-~~l~~EsvV~V~G~V~~~~~~ 80 (108) T cd04316 6 ITPELDGEEVTVAGWVHEIRD---LG-GIKFVILRDREGIVQVTAPKKKVDKELFKTV-RKLSRESVISVTGTVKAEPKA 80 (108) T ss_pred CCHHHCCCEEEEEEEEEEEEC---CC-CEEEEEEECCCEEEEEEEECCCCCHHHHHHH-HCCCCCEEEEEEEEEEECCCC T ss_conf 983899999999899982321---79-8799999809877999993788898999998-659994499999999948989 Q ss_pred -CEEEEECCEEEECCC Q ss_conf -779997786896264 Q gi|254780945|r 134 -NRIIMVHPHYIFHNS 148 (700) Q Consensus 134 -~~~qi~hPe~~~~~~ 148 (700) +.+++.--++++.+. T Consensus 81 ~~giEi~v~~i~ils~ 96 (108) T cd04316 81 PNGVEIIPEEIEVLSE 96 (108) T ss_pred CCCEEEEEEEEEEEEC T ss_conf 9967589648999858 No 357 >PRK08903 hypothetical protein; Validated Probab=88.04 E-value=1.5 Score=23.84 Aligned_cols=116 Identities=21% Similarity=0.220 Sum_probs=61.3 Q ss_pred HHHHHHHHHHCCCCCCE-EEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEEC Q ss_conf 99999998410013430-78862144223699999973344430545886127999999998621101457865899624 Q gi|254780945|r 279 SAIKDILQDMSQKNRML-RILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITG 357 (700) Q Consensus 279 ~ai~eI~~Dl~~~~pM~-RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg 357 (700) .++..+..-...+.+.+ =.|.|+.|||||=..-..+-.+...+..+.++-.-+ +...+. T Consensus 27 ~~~~~l~~~~~~~~~~~~l~i~G~~G~GKTHLl~a~~~~~~~~~~~~~yl~~~~---------~~~~~~----------- 86 (227) T PRK08903 27 ELVTRLRELAAGPVADRFFYLWGEAGSGRSHLLQALVAAASEGGKNARYLDPAS---------PLLAFD----------- 86 (227) T ss_pred HHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEECCCC---------CHHHHH----------- T ss_conf 999999988743887866999899999888999999999980699749965110---------457774----------- Q ss_pred CCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEEECCCCCCCHHHHHHHHH-----CCCCCCCEEECHHHHH Q ss_conf 64225667687762134754864111201334554444178852101335688998740-----2567761010101322 Q gi|254780945|r 358 NMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKLILVIVDEQHRFGVQQRLKLTQ-----KATAPHVLLMTATPIP 432 (700) Q Consensus 358 ~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFGV~QR~~L~~-----Kg~~ph~L~MtATPIP 432 (700) ...+..+++||.=|++.-..-..|-. +...--+|++|+..=| T Consensus 87 ---------------------------------~~~~~d~l~iDDi~~i~~~~q~~lF~l~N~~~~~~~~~ll~s~~~~p 133 (227) T PRK08903 87 ---------------------------------FDPRAELYAVDDVERLDDAQQIALFNLFNRVRAHGKTALLVAGPAAP 133 (227) T ss_pred ---------------------------------HHHCCCEEEEECCCCCCCHHHHHHHHHHHHHHHCCCCEEEECCCCCH T ss_conf ---------------------------------20018989996411489569999999999999729948997189971 Q ss_pred HHHHHHHHHCCCHHHHCC Q ss_conf 789999752010111102 Q gi|254780945|r 433 RTLVLTSLGDIDISKITE 450 (700) Q Consensus 433 RTLal~~ygdldvS~i~e 450 (700) ..+.+. .||- |.+.- T Consensus 134 ~~l~~~--~DL~-SRl~~ 148 (227) T PRK08903 134 LALDVR--EDLR-TRLGW 148 (227) T ss_pred HHCCCC--HHHH-HHHHC T ss_conf 201200--8999-99938 No 358 >pfam04994 TfoX_C TfoX C-terminal domain. TfoX may play a key role in the development of genetic competence by regulating the expression of late competence-specific genes. This family corresponds to the C-terminal presumed domain of TfoX. The domain is found associated with pfam00383 in a cytidine and deoxycytidylate deaminase family protein from Neisseria meningitidis serogroup B. It is also found as an isolated domain in some proteins suggesting this is an autonomous domain. Probab=88.02 E-value=0.46 Score=27.93 Aligned_cols=31 Identities=23% Similarity=0.188 Sum_probs=26.3 Q ss_pred HHHCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHCC Q ss_conf 2136785889999988740124688554898787089 Q gi|254780945|r 13 LSTFRGVGKKYSLFLSKIINCGNANETRFIDLLFYHP 49 (700) Q Consensus 13 I~~LkGVGpk~a~~L~kl~~l~~~GI~ti~DLL~~~P 49 (700) |..||++||+.+..|++. ||+|+.||-..=+ T Consensus 1 l~dLpNlg~~~er~L~~v------GI~t~~~L~~~Ga 31 (77) T pfam04994 1 LKDLPNLGLKLERMLKKA------GIHTVEDLRELGA 31 (77) T ss_pred CCCCCCCCHHHHHHHHHC------CCCCHHHHHHHCH T ss_conf 987889899999999994------9998999998189 No 359 >COG3390 Uncharacterized protein conserved in archaea [Function unknown] Probab=88.01 E-value=2.2 Score=22.59 Aligned_cols=75 Identities=16% Similarity=0.282 Sum_probs=53.0 Q ss_pred CEEEEEEEEEEEEEECCCCCCEEEEEEECCCCEEEEEEECCCHHH---HHHHCCCCCEEEEEEEEEECCCE----EEEEC Q ss_conf 789999999897542158983389999818936999995188789---98732898889999899731877----99977 Q gi|254780945|r 68 RIVTITGYISQHSSFQLQKRRPYKILLNDGTGEITLLFFYRKTEM---LKNVFFEGRKITVTGKIKKLKNR----IIMVH 140 (700) Q Consensus 68 ~~vti~g~V~~~~~~~~~~r~~~~v~v~D~tg~i~lvfFn~~~~y---l~k~lk~G~~v~vsGKv~~~~~~----~qi~h 140 (700) ..+-|.|++++...+.. -+-++++.+.|.||.+-+ |=++++|- ..+....++.+.|-||++.|... ++.+- T Consensus 46 nRifivGtltek~~i~e-d~~~~R~rVvDpTGsF~V-yag~yqPEa~a~l~~ve~~~~VaViGKi~~y~~d~g~~~~siR 123 (196) T COG3390 46 NRIFIVGTLTEKEGIGE-DREYWRIRVVDPTGSFYV-YAGQYQPEAKAFLEDVEVPDLVAVIGKIRTYRTDEGVVLFSIR 123 (196) T ss_pred EEEEEEEEEEECCCCCC-CCCEEEEEEECCCCCEEE-ECCCCCHHHHHHHHHCCCCCEEEEECCCCEEECCCCCEEEEEC T ss_conf 57899998871367677-532789999568861899-8278795789999855677547775132102148883699963 Q ss_pred CEEE Q ss_conf 8689 Q gi|254780945|r 141 PHYI 144 (700) Q Consensus 141 Pe~~ 144 (700) ||-+ T Consensus 124 pE~v 127 (196) T COG3390 124 PELV 127 (196) T ss_pred HHHH T ss_conf 5773 No 360 >pfam00154 RecA recA bacterial DNA recombination protein. RecA is a DNA-dependent ATPase and functions in DNA repair systems. RecA protein catalyses an ATP-dependent DNA strand-exchange reaction that is the central step in the repair of dsDNA breaks by homologous recombination. Probab=87.95 E-value=2.2 Score=22.56 Aligned_cols=82 Identities=23% Similarity=0.305 Sum_probs=51.2 Q ss_pred CCCCCEE--EEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHH-HHHHHHHHHHHHCCCCCCEEE--EEECCCCHHHH Q ss_conf 0134307--886214422369999997334443054588612799-999999862110145786589--96246422566 Q gi|254780945|r 290 QKNRMLR--ILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGI-LAQQHYEFIKKYTQNTQIIVE--IITGNMPQAHR 364 (700) Q Consensus 290 ~~~pM~R--LLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEI-LA~QH~~~~~~~~~~~~i~v~--lLtg~~~~~er 364 (700) .+.|..| .+-|.=+||||-.|+.++..+-..|..|++.-- |= +-.+ |+..+|+.+. ++.-..+.-+- T Consensus 47 GGlP~GRi~ei~G~essGKTtlal~~ia~aQk~gg~~~~iD~-E~a~d~~-------~a~~lGVD~~~l~~~qpd~~Eqa 118 (322) T pfam00154 47 GGLPKGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDA-EHALDPV-------YAKKLGVDIDNLLVSQPDTGEQA 118 (322) T ss_pred CCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEH-HHHCCHH-------HHHHCCCCHHHEEEECCCHHHHH T ss_conf 997787089998898777899999999999734993899853-6605988-------99980988025389778839999 Q ss_pred HHHHHH-HCCCCCEEE Q ss_conf 768776-213475486 Q gi|254780945|r 365 RKALER-IAHGQAHII 379 (700) Q Consensus 365 ~~i~~~-i~~G~~~ii 379 (700) -++.+. +.+|.++++ T Consensus 119 l~i~~~li~~~~~~li 134 (322) T pfam00154 119 LEIADMLVRSGAVDLI 134 (322) T ss_pred HHHHHHHHCCCCCCEE T ss_conf 9999998537997659 No 361 >cd04496 SSB_OBF SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date oligomerize to bring together four OB folds in their active state. The majority (e.g. Escherichia coli SSB) have a single OB fold per monomer, which oligomerize to form a homotetramer. However, Deinococcus and Thermus SSB proteins have two OB folds per monomer, which oligomerize to form a homodimer. Mycobacterium tuberculosis SSB varies in quaternary structure from E. coli SSB. It forms a dimer of dimers having a unique dimer interface, which lends the protein greater stability. Included in this group are OB folds similar to Escherichia coli PriB. E.coli PriB is homodimeric with each monomer having a single OB fold. It does not appear to form higher order oligomers. PriB is an essential protein for the replication restart Probab=87.75 E-value=2.3 Score=22.47 Aligned_cols=38 Identities=18% Similarity=0.268 Sum_probs=31.2 Q ss_pred CCCCEEEEEEECCCHHHHHHHCCCCCEEEEEEEEEECC Q ss_conf 18936999995188789987328988899998997318 Q gi|254780945|r 96 DGTGEITLLFFYRKTEMLKNVFFEGRKITVTGKIKKLK 133 (700) Q Consensus 96 D~tg~i~lvfFn~~~~yl~k~lk~G~~v~vsGKv~~~~ 133 (700) +++.-+.++.|+.....+.+.+++|+.+.|.|.+.... T Consensus 41 ~~t~~~~v~~wg~~A~~~~~~l~KG~~V~V~G~l~~~~ 78 (100) T cd04496 41 EETDWIRVVAFGKLAENAAKYLKKGDLVYVEGRLRTRS 78 (100) T ss_pred CCCEEEEEEEECHHHHHHHHHCCCCCEEEEEEEEECCE T ss_conf 34199999999708987787537998899999988123 No 362 >KOG0949 consensus Probab=87.74 E-value=0.6 Score=27.00 Aligned_cols=153 Identities=17% Similarity=0.221 Sum_probs=93.1 Q ss_pred CCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHH--HCCEEEEEHHHHHHHHHHHHHHHHCCC- Q ss_conf 46798899999999984100134307886214422369999997334443--054588612799999999862110145- Q gi|254780945|r 271 FSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEA--GGQAVIMAPIGILAQQHYEFIKKYTQN- 347 (700) Q Consensus 271 F~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~--G~Q~alMaPTEILA~QH~~~~~~~~~~- 347 (700) |..-.=|.+-++-. .-+.| -++---.-||||-+...||-.+... ..=+.+.|||.-|-.|--.+...+|.. T Consensus 510 F~Pd~WQ~elLDsv-Dr~eS-----avIVAPTSaGKTfisfY~iEKVLResD~~VVIyvaPtKaLVnQvsa~VyaRF~~~ 583 (1330) T KOG0949 510 FCPDEWQRELLDSV-DRNES-----AVIVAPTSAGKTFISFYAIEKVLRESDSDVVIYVAPTKALVNQVSANVYARFDTK 583 (1330) T ss_pred CCCCHHHHHHHHHH-HCCCC-----EEEEEECCCCCEECCHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHHHCCC T ss_conf 69838888776655-05662-----5998204678610058999999854279879996645877666667788763367 Q ss_pred CCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHC-----CC--CC-CCCCCCEEEECCCCCCCHHHHHHHHHCC- Q ss_conf 786589962464225667687762134754864111201-----33--45-5444417885210133568899874025- Q gi|254780945|r 348 TQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALF-----QD--SI-QYYKLILVIVDEQHRFGVQQRLKLTQKA- 418 (700) Q Consensus 348 ~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~-----q~--~v-~F~~LgLvViDEQHRFGV~QR~~L~~Kg- 418 (700) .-.+..-|-|.++.-=+ +.-=.++|+|---..+ +. .- --++-..||.||=|.-|-.--..+++.- T Consensus 584 t~~rg~sl~g~ltqEYs------inp~nCQVLITvPecleslLlspp~~q~~cerIRyiIfDEVH~iG~~ed~l~~Eqll 657 (1330) T KOG0949 584 TFLRGVSLLGDLTQEYS------INPWNCQVLITVPECLESLLLSPPHHQKFCERIRYIIFDEVHLIGNEEDGLLWEQLL 657 (1330) T ss_pred CCCCCHHHHHHHHHHHC------CCCHHCEEEEECHHHHHHHHCCCHHHHHHHHCCEEEEECHHHHCCCCCCCHHHHHHH T ss_conf 65631346766667735------784113599974678998863856653022400589711233246524341899877 Q ss_pred --CCCCCEEECHHHHHHHH Q ss_conf --67761010101322789 Q gi|254780945|r 419 --TAPHVLLMTATPIPRTL 435 (700) Q Consensus 419 --~~ph~L~MtATPIPRTL 435 (700) ..+-+|+.|||==|--+ T Consensus 658 ~li~CP~L~LSATigN~~l 676 (1330) T KOG0949 658 LLIPCPFLVLSATIGNPNL 676 (1330) T ss_pred HHCCCCEEEEECCCCCHHH T ss_conf 7457870687413388889 No 363 >PRK10646 putative ATPase; Provisional Probab=87.52 E-value=0.37 Score=28.67 Aligned_cols=42 Identities=29% Similarity=0.361 Sum_probs=28.9 Q ss_pred CCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHH Q ss_conf 430788621442236999999733444305458861279999999 Q gi|254780945|r 293 RMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQH 337 (700) Q Consensus 293 pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH 337 (700) ..--+|+||.|+|||.-+=. ++.+. |.+..+-.||=.|.+.+ T Consensus 28 g~vi~L~G~LGaGKTtf~r~-i~~~l--g~~~~V~SPTf~lv~~Y 69 (153) T PRK10646 28 ATVIYLYGDLGAGKTTFSRG-FLQAL--GHQGNVKSPTYTLVEPY 69 (153) T ss_pred CCEEEEECCCCCCHHHHHHH-HHHHC--CCCCCCCCCCEEEEEEE T ss_conf 97999988887899999999-99984--99786269976479973 No 364 >COG2247 LytB Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane] Probab=87.36 E-value=1.2 Score=24.56 Aligned_cols=67 Identities=15% Similarity=0.245 Sum_probs=54.8 Q ss_pred CCHHHHHHHHHHHHCCC-----CEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCC---CEEEEECHHHC Q ss_conf 10146666666866371-----03120146998999999999755986999980034104688876---58998585254 Q gi|254780945|r 500 FRSVVERFNSLHEHFTS-----SIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDA---SIIIIENAEHF 571 (700) Q Consensus 500 ~~~~~~~~~~l~~~~~~-----~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna---~~mvI~~aerf 571 (700) ...++...+.+++.||. ++-++||-.-.+ +.|+..++|-+.++++-|+++ +|+- .+...+.|+++ T Consensus 112 ~ETa~~v~~~~~~~yp~af~n~kvvvv~GwDy~~---~~~e~~k~~~~p~~~~n~~~~----~~~~~~~~l~~s~~a~~~ 184 (337) T COG2247 112 YETAEKVAKFFREDYPNAFKNVKVVVVYGWDYAD---ALMELMKEGIVPVILKNTSIL----VRWSRKLALAESPYAANI 184 (337) T ss_pred HHHHHHHHHHHHHHCHHHHCCEEEEEEECCCCHH---HHHHHHHCCCCEEEECCCCCC----CCCCCCEEEEECHHHHHC T ss_conf 8999999999976442331581799996602277---788887537532674166422----332222113444757854 Q ss_pred CH Q ss_conf 74 Q gi|254780945|r 572 GL 573 (700) Q Consensus 572 GL 573 (700) |- T Consensus 185 ~~ 186 (337) T COG2247 185 GC 186 (337) T ss_pred CC T ss_conf 88 No 365 >KOG2383 consensus Probab=87.30 E-value=0.42 Score=28.22 Aligned_cols=42 Identities=31% Similarity=0.355 Sum_probs=25.2 Q ss_pred CCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHH--HHHHHHH Q ss_conf 01343078862144223699999973344430545886127999999--9986211 Q gi|254780945|r 290 QKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQ--HYEFIKK 343 (700) Q Consensus 290 ~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~Q--H~~~~~~ 343 (700) ..-|---.|-||||||||.+ |=...++ .| .|.-+| ||..|.. T Consensus 111 ~~~PkGlYlYG~VGcGKTmL----MDlFy~~-------~~-~i~rkqRvHFh~fM~ 154 (467) T KOG2383 111 PGPPKGLYLYGSVGCGKTML----MDLFYDA-------LP-PIWRKQRVHFHGFML 154 (467) T ss_pred CCCCCEEEEECCCCCCHHHH----HHHHHHC-------CC-CCHHHHHHHHHHHHH T ss_conf 89984689963567544677----8877632-------78-401344403999999 No 366 >PRK08006 replicative DNA helicase; Provisional Probab=87.23 E-value=2.4 Score=22.26 Aligned_cols=71 Identities=15% Similarity=0.113 Sum_probs=44.5 Q ss_pred EEEECCCCCHHHHHHHHHHHHH-HHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHH Q ss_conf 8862144223699999973344-430545886127999999998621101457865899624642256676877 Q gi|254780945|r 297 ILQGDVGSGKTLVALIAMAAAV-EAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALE 369 (700) Q Consensus 297 LLQGDVGSGKTiVA~~A~l~~~-~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~ 369 (700) .|=|--|.|||..|+--+..++ ..|..|++... |.=++|-+..+-......+. -.+-+|..+..+...+.. T Consensus 228 viaaRPsmGKTalalnia~~~a~~~~~~V~~fSl-EMs~~ql~~Rlla~~s~v~~-~~i~~g~l~~~e~~~l~~ 299 (471) T PRK08006 228 IVAARPSMGKTTFAMNLCENAAMLQDKPVLIFSL-EMPGEQIMMRMLASLSRVDQ-TRIRTGQLDDEDWARISG 299 (471) T ss_pred EEEECCCCCHHHHHHHHHHHHHHHCCCCEEEEEC-CCCHHHHHHHHHHHHCCCCC-CCCCCCCCCHHHHHHHHH T ss_conf 9994699876999999999999866995799816-79999999999997447775-545368879999999999 No 367 >PRK09302 circadian clock protein KaiC; Reviewed Probab=87.20 E-value=0.81 Score=25.99 Aligned_cols=36 Identities=28% Similarity=0.431 Sum_probs=31.4 Q ss_pred CEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEH Q ss_conf 307886214422369999997334443054588612 Q gi|254780945|r 294 MLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAP 329 (700) Q Consensus 294 M~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaP 329 (700) -.-|+-|--|||||..|+.-+..++.+|-.|++.+= T Consensus 267 sstLi~Gp~GtGKTtla~qFl~~~a~~GE~~l~~~F 302 (501) T PRK09302 267 SIILVSGATGTGKTLLVSKFAEAACRRGERCLLFAF 302 (501) T ss_pred CEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEEE T ss_conf 469998899988899999999999865990899999 No 368 >PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed Probab=87.17 E-value=2.2 Score=22.60 Aligned_cols=152 Identities=17% Similarity=0.305 Sum_probs=67.4 Q ss_pred CCCCHHCHHCCCHHHCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCHHHCCCCCEEEEEEEEEEEE Q ss_conf 97102021017721367858899999887401246885548987870897401344446478889987899999998975 Q gi|254780945|r 1 MRPSFLNPLFAPLSTFRGVGKKYSLFLSKIINCGNANETRFIDLLFYHPSSFIDRHYRPKISEISEERIVTITGYISQHS 80 (700) Q Consensus 1 mrp~~l~~L~~pI~~LkGVGpk~a~~L~kl~~l~~~GI~ti~DLL~~~PrrYeDr~~~~~I~~l~~g~~vti~g~V~~~~ 80 (700) |||..|+.+. .=+.|-|-|. .|.+++- =.++.-+++|=|-.-=--|-..-|++-..-..+.+.++...+. T Consensus 22 mRP~~Lde~v-GQ~hllg~g~----~Lrr~i~-----~~~~~S~Il~GPPGtGKTTLA~iIA~~t~~~F~~lsAv~sgvk 91 (726) T PRK13341 22 LRPRTLEEFV-GQDHILGEGR----LLRRAIK-----ADRVGSLILYGPPGVGKTTLARIIANHTRAHFSSLNAVLAGVK 91 (726) T ss_pred HCCCCHHHHC-CCHHHCCCCC----HHHHHHH-----CCCCCEEEEECCCCCCHHHHHHHHHHHHCCCEEEEECCCCCHH T ss_conf 2999877735-9575428982----8999997-----6999827888979999999999998874886799856203779 Q ss_pred EEC-----CCCC-C---EEEEEEECCCCEEEEEEECCCHH-HHHHHCCCCCEEEEEEEEEECCCEEEEECCEEEECCCCC Q ss_conf 421-----5898-3---38999981893699999518878-998732898889999899731877999778689626433 Q gi|254780945|r 81 SFQ-----LQKR-R---PYKILLNDGTGEITLLFFYRKTE-MLKNVFFEGRKITVTGKIKKLKNRIIMVHPHYIFHNSQD 150 (700) Q Consensus 81 ~~~-----~~~r-~---~~~v~v~D~tg~i~lvfFn~~~~-yl~k~lk~G~~v~vsGKv~~~~~~~qi~hPe~~~~~~~~ 150 (700) .++ .+.+ . .-++.+-|+ +--||..+. .+-.....|. +++-|-- --||-|++.+.- T Consensus 92 dlr~ii~~A~~~~~~~g~~tILFIDE-----IHRfNK~QQD~LLp~vE~G~-i~LIGAT--------TENP~F~vn~AL- 156 (726) T PRK13341 92 DLRAEVDAAKERLERHGKRTILFIDE-----VHRFNKAQQDALLPWVENGT-VTLIGAT--------TENPYFEVNKAL- 156 (726) T ss_pred HHHHHHHHHHHHHHHCCCCEEEEEEC-----HHHCCHHHHHHHHHHHCCCE-EEEEEEC--------CCCCCEEECHHH- T ss_conf 99999999999987459965999862-----54258878998788860683-8999704--------789743642988- Q ss_pred CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 4444411000000000045430013457874 Q gi|254780945|r 151 VNFPLIEAVYSLPTGLSVDLFKKIIVEALSR 181 (700) Q Consensus 151 ~~~~~I~PIYplt~GLsqk~irk~I~~aL~~ 181 (700) ..+- -||.+ +.++...+.++++.|++. T Consensus 157 --lSR~-~vf~L-~~L~~~dl~~il~rAl~d 183 (726) T PRK13341 157 --VSRS-RLFRL-KSLEDEDLHQLLKRALQD 183 (726) T ss_pred --HHHC-EEEEE-CCCCHHHHHHHHHHHHHH T ss_conf --8323-46674-389999999999999876 No 369 >cd04482 RPA2_OBF_like RPA2_OBF_like: A subgroup of uncharacterized archaeal OB folds with similarity to the OB fold of the central ssDNA-binding domain (DBD)-D of human RPA2 (also called RPA32). RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B; RPA2 DBD-D is a weak ssDNA-binding domain. RPA2 DBD-D is also involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. N-terminal to human RPA2 DBD-D is a domain containing all the known phosphorylation sites of RPA. Human RPA2 is phosphorylated in a cell cycle depende Probab=87.08 E-value=2.5 Score=22.20 Aligned_cols=61 Identities=20% Similarity=0.333 Sum_probs=44.3 Q ss_pred EEEEEEEEEEEECCCCCCEEEEEEECCCCEEEEEEECCCH--HHHHHHCCCCCEEEEEEEEEECC Q ss_conf 9999998975421589833899998189369999951887--89987328988899998997318 Q gi|254780945|r 71 TITGYISQHSSFQLQKRRPYKILLNDGTGEITLLFFYRKT--EMLKNVFFEGRKITVTGKIKKLK 133 (700) Q Consensus 71 ti~g~V~~~~~~~~~~r~~~~v~v~D~tg~i~lvfFn~~~--~yl~k~lk~G~~v~vsGKv~~~~ 133 (700) .+.|+|.+.... .+++ -..+.+.|+++.+.+..|--.. .-+.+.|.+|+.+.++|-++... T Consensus 2 ~~~G~V~~~P~~-i~GG-Hv~~~v~~~~~~i~~~afepTg~~r~~~r~L~~GD~I~v~G~v~~~~ 64 (91) T cd04482 2 RVTGKVVEEPRT-IEGG-HVFFKISDGTGEIDCAAYEPTKEFRDVVRLLIPGDEVTVYGSVRPGT 64 (91) T ss_pred EEEEEEECCEEE-ECCC-EEEEEEEECCCEEEEEEECCCCHHHHHHHHCCCCCEEEEEEEECCCC T ss_conf 899999786489-5287-49999993998899999987750889997389999999999987898 No 370 >pfam03969 AFG1_ATPase AFG1-like ATPase. This family of proteins contains a P-loop motif and are predicted to be ATPases. Probab=87.01 E-value=2 Score=22.89 Aligned_cols=43 Identities=21% Similarity=0.107 Sum_probs=25.0 Q ss_pred CCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCC Q ss_conf 430788621442236999999733444305458861279999999986211014 Q gi|254780945|r 293 RMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQ 346 (700) Q Consensus 293 pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~ 346 (700) |.-=-|.|+||+|||.+-=+- +.++ |.+-=-+.||..|....- T Consensus 61 ~kGlYl~G~VGrGKTmLMDlF-y~~l----------p~~~K~R~HFh~FM~~vH 103 (361) T pfam03969 61 VRGLYLWGGVGRGKTHLMDSF-FESL----------PGERKRRTHFHRFMFRVH 103 (361) T ss_pred CCEEEEECCCCCCHHHHHHHH-HHHC----------CCCCCCCCCHHHHHHHHH T ss_conf 986898899888699999999-9867----------753444566789999999 No 371 >COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion] Probab=86.86 E-value=2.5 Score=22.11 Aligned_cols=122 Identities=21% Similarity=0.259 Sum_probs=71.2 Q ss_pred HCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEE-CCCCHHHHHH Q ss_conf 100134307886214422369999997334443054588612799999999862110145786589962-4642256676 Q gi|254780945|r 288 MSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIIT-GNMPQAHRRK 366 (700) Q Consensus 288 l~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLt-g~~~~~er~~ 366 (700) +....|-.-|+-|==|||||--|.--+...-..|+.+.+.| +.+--.--|+.++.+-...++.+.-.. +..+..--++ T Consensus 95 l~~~~P~vImmvGLQGsGKTTt~~KLA~~lkk~~~kvllVa-aD~~RpAA~eQL~~La~q~~v~~f~~~~~~~Pv~Iak~ 173 (451) T COG0541 95 LAKKPPTVILMVGLQGSGKTTTAGKLAKYLKKKGKKVLLVA-ADTYRPAAIEQLKQLAEQVGVPFFGSGTEKDPVEIAKA 173 (451) T ss_pred CCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHCCCCEEEEE-CCCCCHHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHH T ss_conf 37899858999815679748689999999997499458985-05678689999999998609853167788997999999 Q ss_pred HHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEEECCCCCCCHHHHH----HHHHCCCCCC--CEEECHH Q ss_conf 8776213475486411120133455444417885210133568899----8740256776--1010101 Q gi|254780945|r 367 ALERIAHGQAHIIIGTHALFQDSIQYYKLILVIVDEQHRFGVQQRL----KLTQKATAPH--VLLMTAT 429 (700) Q Consensus 367 i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFGV~QR~----~L~~Kg~~ph--~L~MtAT 429 (700) .++..++...| +||||---|-.++... .-..+-.+|| +||+-|+ T Consensus 174 al~~ak~~~~D-------------------vvIvDTAGRl~ide~Lm~El~~Ik~~~~P~E~llVvDam 223 (451) T COG0541 174 ALEKAKEEGYD-------------------VVIVDTAGRLHIDEELMDELKEIKEVINPDETLLVVDAM 223 (451) T ss_pred HHHHHHHCCCC-------------------EEEEECCCCCCCHHHHHHHHHHHHHHCCCCEEEEEEECC T ss_conf 99999974998-------------------899968873303099999999998553987489987644 No 372 >PRK08609 hypothetical protein; Provisional Probab=86.74 E-value=0.65 Score=26.77 Aligned_cols=30 Identities=27% Similarity=0.130 Sum_probs=23.7 Q ss_pred CHHHCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHH Q ss_conf 72136785889999988740124688554898787 Q gi|254780945|r 12 PLSTFRGVGKKYSLFLSKIINCGNANETRFIDLLF 46 (700) Q Consensus 12 pI~~LkGVGpk~a~~L~kl~~l~~~GI~ti~DLL~ 46 (700) .+..++|||||++..|-+- .||.|+.||-. T Consensus 89 eLl~IpGlGPKka~~L~~e-----LGI~sleeL~~ 118 (570) T PRK08609 89 PLLKLPGLGGKKIAKLYKE-----LGVVDKESLKE 118 (570) T ss_pred HHHCCCCCCHHHHHHHHHH-----HCCCCHHHHHH T ss_conf 9977898778999999998-----29999999999 No 373 >PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated Probab=86.68 E-value=2.6 Score=22.05 Aligned_cols=159 Identities=23% Similarity=0.241 Sum_probs=94.5 Q ss_pred EEEECCCCCHHH-HHHHHHHHHHHHHC-CEEEEEH-H-HHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHC Q ss_conf 886214422369-99999733444305-4588612-7-999999998621101457865899624642256676877621 Q gi|254780945|r 297 ILQGDVGSGKTL-VALIAMAAAVEAGG-QAVIMAP-I-GILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIA 372 (700) Q Consensus 297 LLQGDVGSGKTi-VA~~A~l~~~~~G~-Q~alMaP-T-EILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~ 372 (700) .+-|=.|+|||- +|=+|+..+...|. .++|..= | -|=|....+++.++ +|+++..... ..+=+++++++. T Consensus 214 alVGPTGVGKTTTiAKLAA~~~l~~~~~kV~lIT~DtyRigA~eQLk~Ya~i---lgvp~~v~~~---~~~l~~al~~~~ 287 (412) T PRK05703 214 ALVGPTGVGKTTTLAKLAARYALEEGKDKVALITLDTYRIGAVEQLKTYAKI---MGIPVKVAYD---PKELAKALEQLA 287 (412) T ss_pred EEECCCCCCHHHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHHH---CCCEEEEECC---HHHHHHHHHHHC T ss_conf 9988888756769999999999972998179998376777799999999997---1973798479---999999998715 Q ss_pred CCCCEEEEECHHHCCCCCCCCCCCEEEECCCCCCCHHHHHHHHHCCC-CCCCEEECHHHHHHHHHHHH--HHCCCHHHHC Q ss_conf 34754864111201334554444178852101335688998740256-77610101013227899997--5201011110 Q gi|254780945|r 373 HGQAHIIIGTHALFQDSIQYYKLILVIVDEQHRFGVQQRLKLTQKAT-APHVLLMTATPIPRTLVLTS--LGDIDISKIT 449 (700) Q Consensus 373 ~G~~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFGV~QR~~L~~Kg~-~ph~L~MtATPIPRTLal~~--ygdldvS~i~ 449 (700) +.+ -|+|-|--.=+ + |+++ +.|=..+..... .--.||||||-=++.|.-++ |+.+.+ T Consensus 288 ~~d-lILIDTaG~s~-----~-------d~~~---~~eL~~~~~~~~~~~~~LVlsat~~~~dl~~i~~~f~~~~~---- 347 (412) T PRK05703 288 NCD-LILIDTAGRSQ-----R-------DPRL---ISELKALIENSKPIDVYLVLSATTKYRDLKDIVKHFSRLPL---- 347 (412) T ss_pred CCC-EEEEECCCCCC-----C-------CHHH---HHHHHHHHHHCCCCCEEEEECCCCCHHHHHHHHHHHCCCCC---- T ss_conf 899-79996898897-----8-------9999---99999998624887189997598998999999998467999---- Q ss_pred CCCCCCCCCEEEEEECCCHHHHHHHHHHHHCCCCEEEEEE Q ss_conf 2355766620799970200268999976310387389997 Q gi|254780945|r 450 EKPAGRKPIKTVIIPINRIDEVIERLKVVLSEGKKAYWIC 489 (700) Q Consensus 450 e~P~gR~~I~T~~~~~~~~~~~~~~i~~~l~~g~q~y~Vc 489 (700) ..=|-|++=.......+++.+.+. +--+.+++ T Consensus 348 -----~~lI~TKlDEt~~~G~il~~~~~~---~lplsy~t 379 (412) T PRK05703 348 -----DGLILTKLDETSSLGSILSLLIES---GLPISYLT 379 (412) T ss_pred -----CEEEEEEECCCCCCCHHHHHHHHH---CCCEEEEE T ss_conf -----879997112899862999999998---87969994 No 374 >PRK13844 recombination protein RecR; Provisional Probab=86.63 E-value=0.32 Score=29.16 Aligned_cols=29 Identities=21% Similarity=0.260 Sum_probs=25.3 Q ss_pred CCCCHHCHHCCCHHHCCCCCHHHHHHHHH Q ss_conf 97102021017721367858899999887 Q gi|254780945|r 1 MRPSFLNPLFAPLSTFRGVGKKYSLFLSK 29 (700) Q Consensus 1 mrp~~l~~L~~pI~~LkGVGpk~a~~L~k 29 (700) |-|+.+..|-..++.|||||||+|+.++- T Consensus 5 ~~~~~i~~LI~~l~kLPGIG~KsA~Rla~ 33 (200) T PRK13844 5 IFSPKISAVIESLRKLPTIGKKSSQRLAL 33 (200) T ss_pred CCCHHHHHHHHHHHHCCCCCHHHHHHHHH T ss_conf 58899999999981689987889999999 No 375 >COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only] Probab=86.49 E-value=2.6 Score=21.97 Aligned_cols=104 Identities=19% Similarity=0.196 Sum_probs=65.9 Q ss_pred HCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCC-CCCCCC---------CHHHCCCCCEEEEEEEEEEEEEECC Q ss_conf 367858899999887401246885548987870897401-344446---------4788899878999999989754215 Q gi|254780945|r 15 TFRGVGKKYSLFLSKIINCGNANETRFIDLLFYHPSSFI-DRHYRP---------KISEISEERIVTITGYISQHSSFQL 84 (700) Q Consensus 15 ~LkGVGpk~a~~L~kl~~l~~~GI~ti~DLL~~~PrrYe-Dr~~~~---------~I~~l~~g~~vti~g~V~~~~~~~~ 84 (700) -|.|.-|+....+.++. ....|-++. ++|+.. +++++.+.....+.|+|...... T Consensus 217 GIRg~~p~~l~~a~~~i-------------~~e~~e~~~if~TNqatD~hl~~~~~l~d~~~~~~~~v~g~v~~~p~~-- 281 (421) T COG1571 217 GIRGAVPEVLLKAMSLI-------------KRELVERSAIFETNQATDDHLVDKGKLNDIEDYSKYRVVGRVEAEPRA-- 281 (421) T ss_pred EEECCCHHHHHHHHHHH-------------HCCCCCEEEEEECCCHHHHHCCCCCHHHHHHHCCCEEEEEEEECCCEE-- T ss_conf 98058878999999987-------------315823289984043024330363105455323432899998123189-- Q ss_pred CCCCEEEEEEECCCCEEEEEEECCCH--HHHHHHCCCCCEEEEEEEEEECC Q ss_conf 89833899998189369999951887--89987328988899998997318 Q gi|254780945|r 85 QKRRPYKILLNDGTGEITLLFFYRKT--EMLKNVFFEGRKITVTGKIKKLK 133 (700) Q Consensus 85 ~~r~~~~v~v~D~tg~i~lvfFn~~~--~yl~k~lk~G~~v~vsGKv~~~~ 133 (700) ....-..+.+.|++|.|.++.|---. +-+...+.+|+++.+||.++-.. T Consensus 282 ieGghv~v~i~d~~G~I~~~A~eptk~fr~~a~~L~pGD~i~~~G~~~~~~ 332 (421) T COG1571 282 IEGGHVVVEITDGEGEIGAVAFEPTKEFRELARKLIPGDEITVYGSVKPGT 332 (421) T ss_pred EECCEEEEEECCCCCEEEEEEECCCCCCHHHHHHCCCCCEEEEECCCCCCC T ss_conf 638879999618981699999635552257898568999899805745662 No 376 >TIGR00455 apsK adenylylsulfate kinase; InterPro: IPR002891 Enzyme that catalyses the phosphorylation of adenylylsulphate to 3'-phosphoadenylylsulphate. This domain contains an ATP binding P-loop motif .; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity transferring phosphorus-containing groups, 0000103 sulfate assimilation. Probab=86.46 E-value=0.59 Score=27.08 Aligned_cols=104 Identities=22% Similarity=0.299 Sum_probs=66.7 Q ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCC Q ss_conf 78862144223699999973344430545886127999999998621101457865899624642256676877621347 Q gi|254780945|r 296 RILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQ 375 (700) Q Consensus 296 RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~ 375 (700) ==|-|==|||||.||-+.--.-.+ .|+++.+|=|-- |. T Consensus 22 lWlTGLSGsGKsTiA~Al~~~L~~----------------------------~G~~~~~LDGDn-------vR------- 59 (187) T TIGR00455 22 LWLTGLSGSGKSTIANALEKKLEK----------------------------KGYRVYVLDGDN-------VR------- 59 (187) T ss_pred EEEECCCCCHHHHHHHHHHHHHHH----------------------------CCCEEEEECCCE-------EE------- T ss_conf 851168856357999999999996----------------------------697499975863-------42------- Q ss_pred CEEEEECHHHCCCCCCCCCCCEEEECCCCCCCHHHHH-HHHHCCCCCCCEEECHHHHHHHHHHHHHHCCCHHHHCCCCCC Q ss_conf 5486411120133455444417885210133568899-874025677610101013227899997520101111023557 Q gi|254780945|r 376 AHIIIGTHALFQDSIQYYKLILVIVDEQHRFGVQQRL-KLTQKATAPHVLLMTATPIPRTLVLTSLGDIDISKITEKPAG 454 (700) Q Consensus 376 ~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFGV~QR~-~L~~Kg~~ph~L~MtATPIPRTLal~~ygdldvS~i~e~P~g 454 (700) |-| .++|| |.=+-|. ..+.=|+.+|+|+=+- T Consensus 60 -------~gL------~~dLG---------FS~~DR~eNIRRigEVa~L~~~~G-------------------------- 91 (187) T TIGR00455 60 -------HGL------NKDLG---------FSEEDRKENIRRIGEVAKLLVRNG-------------------------- 91 (187) T ss_pred -------CCC------CCCCC---------CCHHHHCCCCCEEHHHHHHHHHCC-------------------------- T ss_conf -------477------88888---------885670568835326467776479-------------------------- Q ss_pred CCCCEEEEEECCCHHHHHHHHHHHHCCC----CEEEEEECCC Q ss_conf 6662079997020026899997631038----7389997120 Q gi|254780945|r 455 RKPIKTVIIPINRIDEVIERLKVVLSEG----KKAYWICPQI 492 (700) Q Consensus 455 R~~I~T~~~~~~~~~~~~~~i~~~l~~g----~q~y~VcPlI 492 (700) .-|.|.+|++-.-++ +.+++.+.+| -=|||=|||= T Consensus 92 -~i~ltsfISPyR~~R--~~vR~~~~~~Gl~F~Evfv~~PL~ 130 (187) T TIGR00455 92 -VIVLTSFISPYRADR--QMVRELIEEGGLEFIEVFVKCPLE 130 (187) T ss_pred -EEEEEEEECCCHHHH--HHHHHHHHCCCEEEEEEECCCCHH T ss_conf -389984217766678--999887540573689972178868 No 377 >TIGR02759 TraD_Ftype type IV conjugative transfer system coupling protein TraD; InterPro: IPR014128 The TraD protein performs an essential coupling function in conjugative type IV secretion systems. This protein sits at the inner membrane in contact with the assembled pilus and its scaffold as well as the relaxosome-plasmid DNA complex (through TraM) , .; GO: 0000746 conjugation. Probab=86.43 E-value=0.78 Score=26.11 Aligned_cols=37 Identities=30% Similarity=0.451 Sum_probs=28.0 Q ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHH Q ss_conf 07886214422369999997334443054588612799 Q gi|254780945|r 295 LRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGI 332 (700) Q Consensus 295 ~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEI 332 (700) +=|+.|-|||||| ||+.-.+..+.+-.+=|+|-=++= T Consensus 210 h~L~~GTtG~GKs-~~lr~LL~~iR~rGd~AIiYDkgC 246 (613) T TIGR02759 210 HILIHGTTGSGKS-VALRKLLRWIRQRGDRAIIYDKGC 246 (613) T ss_pred CEEEECCCCCHHH-HHHHHHHHHHHHCCCEEEEEECCC T ss_conf 5266454174389-999999999986398589982574 No 378 >COG2874 FlaH Predicted ATPases involved in biogenesis of archaeal flagella [Cell motility and secretion / Intracellular trafficking and secretion] Probab=86.40 E-value=1.6 Score=23.76 Aligned_cols=50 Identities=14% Similarity=0.262 Sum_probs=42.0 Q ss_pred HHHHHHHCC--CCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHH Q ss_conf 999984100--134307886214422369999997334443054588612799 Q gi|254780945|r 282 KDILQDMSQ--KNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGI 332 (700) Q Consensus 282 ~eI~~Dl~~--~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEI 332 (700) +|+.+-|.. |.+-.-|+-||=|+|||+-...-++-++.+||-+++.+- |- T Consensus 15 delDkrLGGGiP~GsL~lIEGd~~tGKSvLsqr~~YG~L~~g~~v~yvsT-e~ 66 (235) T COG2874 15 DELDKRLGGGIPVGSLILIEGDNGTGKSVLSQRFAYGFLMNGYRVTYVST-EL 66 (235) T ss_pred HHHHHHCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEE-CH T ss_conf 77786516997467699998889854889999999988708954899984-03 No 379 >pfam10236 DAP3 Mitochondrial ribosomal death-associated protein 3. This is a family of conserved proteins which were originally described as death-associated-protein-3 (DAP-3). The proteins carry a P-loop DNA-binding motif, and induce apoptosis. DAP3 has been shown to be a pro-apoptotic factor in the mitochondrial matrix and to be crucial for mitochondrial biogenesis and so has also been designated as MRP-S29 (mitochondrial ribosomal protein subunit 29). Probab=86.38 E-value=1.3 Score=24.36 Aligned_cols=38 Identities=37% Similarity=0.510 Sum_probs=30.3 Q ss_pred CCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEH Q ss_conf 134307886214422369999997334443054588612 Q gi|254780945|r 291 KNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAP 329 (700) Q Consensus 291 ~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaP 329 (700) ...-..+|-|.-|||||+.-.-++..|..+|+ .++=+| T Consensus 21 ~~~~r~vL~G~~GsGKS~~L~q~v~~A~~~~w-iVl~vP 58 (274) T pfam10236 21 KKVVRFVLTGERGSGKSVLLAQAMAYALTQGW-VVLHVP 58 (274) T ss_pred CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCE-EEEECC T ss_conf 99518998897997799999999999985998-999849 No 380 >PRK11608 pspF phage shock protein operon transcriptional activator; Provisional Probab=86.34 E-value=0.84 Score=25.86 Aligned_cols=33 Identities=18% Similarity=0.330 Sum_probs=20.8 Q ss_pred HHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHH Q ss_conf 99999998410013430788621442236999999 Q gi|254780945|r 279 SAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIA 313 (700) Q Consensus 279 ~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A 313 (700) ++.+.|..=-.++.| -|++|..||||+.+|-.- T Consensus 17 ~v~~~~~~~A~~~~p--VLI~GE~GtGK~~~Ar~I 49 (325) T PRK11608 17 EVLEQVSHLAPLDKP--VLIIGERGTGKELIASRL 49 (325) T ss_pred HHHHHHHHHHCCCCC--EEEECCCCCCHHHHHHHH T ss_conf 999999999688999--898898983799999999 No 381 >PRK10875 recD exonuclease V subunit alpha; Provisional Probab=86.29 E-value=2 Score=22.96 Aligned_cols=88 Identities=24% Similarity=0.374 Sum_probs=57.6 Q ss_pred CCCCCHHHHHHHHHCCCCC---CHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHH--HHHHHHHHHHHHH--HCCEEEE Q ss_conf 7877578999986302467---9889999999998410013430788621442236--9999997334443--0545886 Q gi|254780945|r 255 INVEGKIAQKILRNIPFSP---TKSQESAIKDILQDMSQKNRMLRILQGDVGSGKT--LVALIAMAAAVEA--GGQAVIM 327 (700) Q Consensus 255 ~~~~~~~~~~f~~~LPF~L---T~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKT--iVA~~A~l~~~~~--G~Q~alM 327 (700) ...+.......++.| |.- ++-|+.|+.- -+.+ +. -++-|-=|+||| ++.++|++..... +...++. T Consensus 128 ~~~~~~~~~~~L~~l-f~~~~~~dwQk~A~a~---Al~~--~~-~vIsGGPGTGKTttV~~lLa~l~~~~~~~~l~I~La 200 (607) T PRK10875 128 IEVDEALLAQTLDAL-FPPGDEVNWQKVAAAV---ALTR--RI-SVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLA 200 (607) T ss_pred CCCCHHHHHHHHHHH-CCCCCCCCHHHHHHHH---HHHC--CE-EEEECCCCCCHHHHHHHHHHHHHHHCCCCCCEEEEE T ss_conf 889989999999985-7998885189999999---8755--77-899679998778899999999999645899708998 Q ss_pred EHHHHHHHHHHHHHHHHCCCCC Q ss_conf 1279999999986211014578 Q gi|254780945|r 328 APIGILAQQHYEFIKKYTQNTQ 349 (700) Q Consensus 328 aPTEILA~QH~~~~~~~~~~~~ 349 (700) |||-==|..--+++.+-+..++ T Consensus 201 APTGKAAaRL~Esi~~~~~~l~ 222 (607) T PRK10875 201 APTGKAAARLTESLGKALRQLP 222 (607) T ss_pred CCHHHHHHHHHHHHHHHHHHCC T ss_conf 8228999999999987875347 No 382 >KOG0987 consensus Probab=86.28 E-value=1.8 Score=23.21 Aligned_cols=72 Identities=25% Similarity=0.232 Sum_probs=55.4 Q ss_pred HHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHH Q ss_conf 9999863024679889999999998410013430788621442236999999733444305458861279999 Q gi|254780945|r 262 AQKILRNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILA 334 (700) Q Consensus 262 ~~~f~~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA 334 (700) ...--..+|=.||..|+++.++|...+.. ..+....-|.=|+|||.+.-.-+.+.-.-|.+++..|++-+.| T Consensus 107 ~~~~~~~~~~~l~~eqk~v~d~~~~~v~~-~~g~~ff~g~~gtgKt~l~~t~~~~~~~~g~~~~~v~~s~ia~ 178 (540) T KOG0987 107 LKEKHAELPKKLTPEQKRVYDAILEAVEN-NLGGVFFYGFGGTGKTYLLKTLIAALRSRGKIVLNVASSGIAA 178 (540) T ss_pred HHHHHHHHHHHCCHHHHHHHHHHHHHHHC-CCCCEEECCCCCCCCEEEHHHHHHHHHHCCCCEEEEEECCHHH T ss_conf 55531023665598776379999999854-7876534367886540237889999974587146653301244 No 383 >PRK06696 uridine kinase; Validated Probab=85.83 E-value=2.1 Score=22.82 Aligned_cols=60 Identities=20% Similarity=0.229 Sum_probs=39.3 Q ss_pred HHHHHHHHHHHHCCCCCCEEE---EEECCCCCHHHHHHHHHHHHHHHHCCEE------EEEHHHHHHHH Q ss_conf 999999999841001343078---8621442236999999733444305458------86127999999 Q gi|254780945|r 277 QESAIKDILQDMSQKNRMLRI---LQGDVGSGKTLVALIAMAAAVEAGGQAV------IMAPIGILAQQ 336 (700) Q Consensus 277 Q~~ai~eI~~Dl~~~~pM~RL---LQGDVGSGKTiVA~~A~l~~~~~G~Q~a------lMaPTEILA~Q 336 (700) -.+.++||.+-+.+-.|-.++ +-|.-|||||-+|-.-+-..-..|.+|+ |..|-++..++ T Consensus 7 r~~~~~~~~~~i~~~~p~rpl~VgIdG~~gSGKTTlA~~La~~L~~~G~~V~~v~~Ddf~~~~~~r~~~ 75 (227) T PRK06696 7 RKQVVKEIANHILTLNLTRPLRVAIDGITASGKTTFANELAEEIKKRGRPVIRASIDDFHNPKVIRYRR 75 (227) T ss_pred HHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEECCCCCCCCHHHHHHH T ss_conf 878999999999835999868999778998787999999999997469948997154434737777651 No 384 >PRK06893 DNA replication initiation factor; Validated Probab=85.77 E-value=2.8 Score=21.71 Aligned_cols=34 Identities=15% Similarity=0.084 Sum_probs=27.4 Q ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEH Q ss_conf 7886214422369999997334443054588612 Q gi|254780945|r 296 RILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAP 329 (700) Q Consensus 296 RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaP 329 (700) -.|.|+.|||||=..-.++-.+..++..++++-- T Consensus 42 l~i~G~~gsGKTHLLqa~~~~~~~~~~~~~yi~~ 75 (229) T PRK06893 42 FYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPL 75 (229) T ss_pred EEEECCCCCCHHHHHHHHHHHHHHHCCCEEEEEH T ss_conf 9998999998899999999999971898599973 No 385 >pfam02606 LpxK Tetraacyldisaccharide-1-P 4'-kinase. This family consists of tetraacyldisaccharide-1-P 4'-kinase also known as Lipid-A 4'-kinase or Lipid A biosynthesis protein LpxK, EC:2.7.1.130. This enzyme catalyses the reaction: ATP + 2,3-bis(3-hydroxytetradecanoyl)-D -glucosaminyl-(beta-D-1,6)-2,3-bis(3-hydroxytetradecanoyl)-D-glu cosam inyl beta-phosphate <= ADP + 2,3,2',3'-tetrakis(3-hydroxytetradecanoyl)-D- glucosaminyl-1,6-beta-D-glucosamine 1,4'-bisphosphate. This enzyme is involved in the synthesis of lipid A portion of the bacterial lipopolysaccharide layer (LPS). The family contains a P-loop motif at the N terminus. Probab=85.68 E-value=0.46 Score=27.91 Aligned_cols=204 Identities=18% Similarity=0.209 Sum_probs=101.4 Q ss_pred CCCHHHHHHHHHHHHHHHHCCEEEEE---------HHHHHHHHHHH-------HHHHHCCCCCCEEEEEECCCCHHHHHH Q ss_conf 42236999999733444305458861---------27999999998-------621101457865899624642256676 Q gi|254780945|r 303 GSGKTLVALIAMAAAVEAGGQAVIMA---------PIGILAQQHYE-------FIKKYTQNTQIIVEIITGNMPQAHRRK 366 (700) Q Consensus 303 GSGKTiVA~~A~l~~~~~G~Q~alMa---------PTEILA~QH~~-------~~~~~~~~~~i~v~lLtg~~~~~er~~ 366 (700) |+|||=+...-+-...+.|++++++. |..|=.....+ -+.+. ++++|. .| +.|.+ T Consensus 47 GtGKTP~v~~l~~~l~~~g~~~~ilSRGYg~~~~~~~~v~~~~~~~~~GDEp~lla~~---~~~~v~--V~----~~R~~ 117 (318) T pfam02606 47 GTGKTPLVIALAELLRARGLRPGVLSRGYGGKSKGPVLVDPGSSAAEVGDEPLLLARR---TPVPVV--VG----PDRAA 117 (318) T ss_pred CCCHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCCCEEECCCCCHHHCCCHHHHHHHH---CCCCEE--EC----CCHHH T ss_conf 8785899999999999769944783267676578878971688946739699999875---698599--80----52899 Q ss_pred HHHH-HCCCCCEEEEECHHHCCCCCCCCCCCEEEECCCCCCCHHH-------HHHHHHCCCCCCCEEECHHHHHHHHHHH Q ss_conf 8776-2134754864111201334554444178852101335688-------9987402567761010101322789999 Q gi|254780945|r 367 ALER-IAHGQAHIIIGTHALFQDSIQYYKLILVIVDEQHRFGVQQ-------RLKLTQKATAPHVLLMTATPIPRTLVLT 438 (700) Q Consensus 367 i~~~-i~~G~~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFGV~Q-------R~~L~~Kg~~ph~L~MtATPIPRTLal~ 438 (700) ..+. ++...+++||=--+ ||..--.+++-+|++|-+..||=.. |+.+.. -..+|+++.|..|-..... T Consensus 118 a~~~l~~~~~~dviIlDDG-fQh~~l~rDl~Ivl~d~~~~fgng~lLPaGpLREp~~~-l~raD~ii~~~~~~~~~~~-- 193 (318) T pfam02606 118 AARALLEAHGADVIILDDG-FQHYRLARDLEIVVVDGARGFGNGRLLPAGPLREPLSR-LKRADAVILNGGEAADPEI-- 193 (318) T ss_pred HHHHHHHHCCCCEEEECCC-CCCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCHHH-HCCCCEEEECCCCCCHHHH-- T ss_conf 9999998489979991486-66730018868999728878879977858135489658-7003999993985321134-- Q ss_pred HHHCCCHHHHCCCCCCCCCCEEEEEECCCHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCC- Q ss_conf 7520101111023557666207999702002689999763103873899971201221112101466666668663710- Q gi|254780945|r 439 SLGDIDISKITEKPAGRKPIKTVIIPINRIDEVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSS- 517 (700) Q Consensus 439 ~ygdldvS~i~e~P~gR~~I~T~~~~~~~~~~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~- 517 (700) .+.|.-+ +.+.+... ......-... -+|.++..+|-. .+-+.-++.|++. +-+ T Consensus 194 ----------~~~~~~~----~~~~~~~~-~~~~~~~~~~-l~~~~v~a~sGI---------anP~~F~~~L~~~-g~~i 247 (318) T pfam02606 194 ----------AEAPVLR----ARLEPSAA-VNLADGERRP-LAGKRVLAFAGI---------GNPQRFFDTLRAL-GLEV 247 (318) T ss_pred ----------HHCCHHH----EEEEEEEE-EECCCCCCCC-CCCCEEEEEEEC---------CCHHHHHHHHHHC-CCEE T ss_conf ----------4323011----48850044-7427732000-169848999964---------7879999999976-9878 Q ss_pred ----EECCCCCCCHHHHHHHHHHHHCCCEEEEEEC Q ss_conf ----3120146998999999999755986999980 Q gi|254780945|r 518 ----IAIIHGRMSDIDKESVMDSFKNGTCKLLIAT 548 (700) Q Consensus 518 ----v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaT 548 (700) .--=|-.-+.++-+.+.+..++.. +|.| T Consensus 248 ~~~~~f~DHh~y~~~dl~~i~~~a~~~~---iitT 279 (318) T pfam02606 248 VATLAFPDHHPFTAADLAFLEAEAKEPG---LVTT 279 (318) T ss_pred EEEEECCCCCCCCHHHHHHHHHHCCCCC---EEEC T ss_conf 7867778877799999999998656997---5874 No 386 >PRK06904 replicative DNA helicase; Validated Probab=85.63 E-value=2.7 Score=21.93 Aligned_cols=70 Identities=20% Similarity=0.168 Sum_probs=39.1 Q ss_pred EEEECCCCCHHHHHHHHHHHHHHHH-CCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEE-EEECC-CCHHHHHHHHH Q ss_conf 8862144223699999973344430-54588612799999999862110145786589-96246-42256676877 Q gi|254780945|r 297 ILQGDVGSGKTLVALIAMAAAVEAG-GQAVIMAPIGILAQQHYEFIKKYTQNTQIIVE-IITGN-MPQAHRRKALE 369 (700) Q Consensus 297 LLQGDVGSGKTiVA~~A~l~~~~~G-~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~-lLtg~-~~~~er~~i~~ 369 (700) +|=|--|+|||..|+--+..++..+ ..|+|.. -|.=++|-+..+-..... |+.. +-+|. +...+.+++.. T Consensus 225 ViAaRPsmGKTa~alnia~n~A~~~~~~V~~fS-LEM~~~~l~~R~ls~~s~--v~~~~i~~g~~l~~~e~~~~~~ 297 (472) T PRK06904 225 IVAARPSMGKTTFAMNLCENAAMASEKPVLVFS-LEMPAEQIMMRMLASLSR--VDQTKIRTGQNLDQQDWAKISS 297 (472) T ss_pred EEEECCCCCHHHHHHHHHHHHHHHCCCCEEEEC-CCCCHHHHHHHHHHHHCC--CCHHHHHCCCCCHHHHHHHHHH T ss_conf 997379875689999999999995599579977-879999999999998649--9988864688560999999999 No 387 >PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional Probab=85.56 E-value=0.62 Score=26.89 Aligned_cols=38 Identities=24% Similarity=0.462 Sum_probs=27.0 Q ss_pred HHHHHHHHHHHHHC--CCCCCEEEEEECCCCCHHHHHHHH Q ss_conf 89999999998410--013430788621442236999999 Q gi|254780945|r 276 SQESAIKDILQDMS--QKNRMLRILQGDVGSGKTLVALIA 313 (700) Q Consensus 276 ~Q~~ai~eI~~Dl~--~~~pM~RLLQGDVGSGKTiVA~~A 313 (700) +|..++.++.+++. .+.+.+-|++|..|+||..||-.- T Consensus 190 G~S~~m~~l~~~i~~vA~sd~pVLI~GEtGTGKelvAr~I 229 (510) T PRK05022 190 GQSPAMQQLKKEIEVVAASDLNVLITGETGVGKELVARAI 229 (510) T ss_pred ECCHHHHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHH T ss_conf 0899999999999999689998898898981399999999 No 388 >PRK12820 bifunctional aspartyl-tRNA synthetase/aspartyl/glutamyl-tRNA amidotransferase subunit C; Provisional Probab=85.41 E-value=3 Score=21.59 Aligned_cols=92 Identities=17% Similarity=0.205 Sum_probs=62.0 Q ss_pred CCCCCCCCHHHCCCCCEEEEEEEEEEEEEECCCCCCEEEEEEECCCCEEEEEEECCCH--H--HHHHHCCCCCEEEEEEE Q ss_conf 1344446478889987899999998975421589833899998189369999951887--8--99873289888999989 Q gi|254780945|r 53 IDRHYRPKISEISEERIVTITGYISQHSSFQLQKRRPYKILLNDGTGEITLLFFYRKT--E--MLKNVFFEGRKITVTGK 128 (700) Q Consensus 53 eDr~~~~~I~~l~~g~~vti~g~V~~~~~~~~~~r~~~~v~v~D~tg~i~lvfFn~~~--~--yl~k~lk~G~~v~vsGK 128 (700) -+|..+-.+..-..|+.|++.|-|.+.+. .+ ...=+.+.|.+|.+++++=.... . -..+.++.+..+.|.|+ T Consensus 4 ~~~~ycg~l~~~~vG~~V~l~GWV~~~R~---~G-~l~FidLRD~~G~vQvv~~~~~~~~d~~~~~~~l~~E~vI~V~G~ 79 (706) T PRK12820 4 NDRSFCGHLSLDDTGREVCLAGWVDAFRD---HG-ELLFIHLRDRNGFIQAVFSPEAAPADVYELAASLRAEFCVALQGE 79 (706) T ss_pred CCCCCCCCCCHHHCCCEEEEEEEEEEEEC---CC-CEEEEEEEECCCCEEEEECCCCCCHHHHHHHHCCCCCCEEEEEEE T ss_conf 77745134994889998999786878966---89-849999972894589998688688889999853998678999989 Q ss_pred EEEC----------CCEEEEECCEEEECCC Q ss_conf 9731----------8779997786896264 Q gi|254780945|r 129 IKKL----------KNRIIMVHPHYIFHNS 148 (700) Q Consensus 129 v~~~----------~~~~qi~hPe~~~~~~ 148 (700) |..- .|.+++.-.++++.+. T Consensus 80 V~~r~~~~~n~~~~tGeiEI~v~~l~iLs~ 109 (706) T PRK12820 80 VQKRLEETENPHIETGDIEVFVRELSILAA 109 (706) T ss_pred EEECCCCCCCCCCCCCCEEEEEEEEEEEEC T ss_conf 993476566888988618999769999877 No 389 >PRK07004 replicative DNA helicase; Provisional Probab=85.28 E-value=3 Score=21.55 Aligned_cols=72 Identities=15% Similarity=0.086 Sum_probs=45.5 Q ss_pred EEEEECCCCCHHHHHHHHHHHHH-HHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHH Q ss_conf 78862144223699999973344-430545886127999999998621101457865899624642256676877 Q gi|254780945|r 296 RILQGDVGSGKTLVALIAMAAAV-EAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALE 369 (700) Q Consensus 296 RLLQGDVGSGKTiVA~~A~l~~~-~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~ 369 (700) -.|=|--|.|||..|+--+..++ .+|+-|+|..- |.=++|....+-.-....+ .-.+-+|.++..+..++.. T Consensus 216 iIIAARPsmGKTafAlniA~n~A~~~g~~V~~FSL-EMs~eql~~Rlls~~s~I~-~~~ir~g~l~~~e~~~i~~ 288 (460) T PRK07004 216 IIVAGRPSMGKTAFSMNIGEYVAVEYGLPVAVFSM-EMPGTQLAMRMLGSVGRLD-QHRMRTGRLTDEDWPKLTH 288 (460) T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHCCCCEEEECC-CCCHHHHHHHHHHHCCCCC-CCHHHCCCCCHHHHHHHHH T ss_conf 99973687642699999999998725886699847-7999999999998606988-2110078899999999999 No 390 >cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. Probab=85.18 E-value=2.6 Score=21.96 Aligned_cols=72 Identities=15% Similarity=0.190 Sum_probs=46.7 Q ss_pred EEEEEECCCCCHHHHHHHHHHHH-HHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHH Q ss_conf 07886214422369999997334-443054588612799999999862110145786589962464225667687 Q gi|254780945|r 295 LRILQGDVGSGKTLVALIAMAAA-VEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKAL 368 (700) Q Consensus 295 ~RLLQGDVGSGKTiVA~~A~l~~-~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~ 368 (700) .-++-|.-|+|||..+.-.++.+ ..+|+-|++... |.=.++....+-......+.. .+..+.....+..++. T Consensus 15 L~vi~a~~g~GKS~~~~~la~~~a~~~g~~V~~~Sl-Em~~~~~~~R~~s~~~~i~~~-~i~~~~~~~~~~~~~~ 87 (242) T cd00984 15 LIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFSL-EMSKEQLLQRLLASESGISLS-KLRTGSLSDEDWERLA 87 (242) T ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHCCCCEEEEEC-CCCHHHHHHHHHHHHHCCCHH-HHHCCCCCHHHHHHHH T ss_conf 899996899999999999999999977995999933-353889999999998297745-5302652279999999 No 391 >TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily. Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model. Probab=84.92 E-value=3.1 Score=21.43 Aligned_cols=71 Identities=21% Similarity=0.216 Sum_probs=45.4 Q ss_pred EEEEECCCCCHHHHHHHHHHH-HHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEE-EEECCCCHHHHHHHHH Q ss_conf 788621442236999999733-4443054588612799999999862110145786589-9624642256676877 Q gi|254780945|r 296 RILQGDVGSGKTLVALIAMAA-AVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVE-IITGNMPQAHRRKALE 369 (700) Q Consensus 296 RLLQGDVGSGKTiVA~~A~l~-~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~-lLtg~~~~~er~~i~~ 369 (700) -.|-|--|.|||..|+--+.. +..+|+-|++..- |.=++|....+-....+ |+.. +-+|..+..+...+.. T Consensus 197 iIiaARPsmGKTafalnia~n~A~~~g~~Vl~fSL-EMs~eql~~R~la~~s~--i~~~~i~~g~l~~~~~~~~~~ 269 (421) T TIGR03600 197 IVIGARPSMGKTTLALNIAENVALREGKPVLFFSL-EMSAEQLGERLLASKSG--INTGNIRTGRFNDSDFNRLLN 269 (421) T ss_pred EEEEEECCCCHHHHHHHHHHHHHHHCCCEEEEEEC-CCCHHHHHHHHHHHHCC--CCHHHHHCCCCCHHHHHHHHH T ss_conf 99985467874599999999999866983899925-79999999999998548--977666528999899999999 No 392 >PRK13609 diacylglycerol glucosyltransferase; Provisional Probab=84.89 E-value=3.1 Score=21.42 Aligned_cols=159 Identities=14% Similarity=0.210 Sum_probs=83.2 Q ss_pred HHHHHHHCCCCCEEEEECHHHCCC-------CCCCCCCCEEEEC-CCCCCCHH------------HHHHHHHCCCCCCCE Q ss_conf 768776213475486411120133-------4554444178852-10133568------------899874025677610 Q gi|254780945|r 365 RKALERIAHGQAHIIIGTHALFQD-------SIQYYKLILVIVD-EQHRFGVQ------------QRLKLTQKATAPHVL 424 (700) Q Consensus 365 ~~i~~~i~~G~~~iiIGTHAL~q~-------~v~F~~LgLvViD-EQHRFGV~------------QR~~L~~Kg~~ph~L 424 (700) +.+.+-|+.-++|+||.||.+..= +... -+--||.| --|+|=+. -+..+.++|..++-+ T Consensus 94 ~~l~~li~~~kPDvII~T~P~~~l~~lk~~~~~~i-P~~tViTD~~~H~~Wi~~~~D~y~Vase~~k~~l~~~Gv~~~kI 172 (388) T PRK13609 94 KRLKLLLQAEKPDIVINTFPIIAVPELKKQTGISI-PVYNVLTDFCVHKIWIHREVDRYFVATDHVKEVMVDIGVPAEQI 172 (388) T ss_pred HHHHHHHHHCCCCEEEECCCHHHHHHHHHHCCCCC-CEEEEECCCCCHHHHCCCCCCEEEECCHHHHHHHHHHCCCHHHE T ss_conf 99999999829599998887899999998459999-88999478520464557899979939899999999809988899 Q ss_pred EECHHHHHHHHHHHHHHCCCHHHHC---CCCCCCCCCEEEEEEC-C-----CHHHHHHHHHHHHCCCCEEEEEECCCCCC Q ss_conf 1010132278999975201011110---2355766620799970-2-----00268999976310387389997120122 Q gi|254780945|r 425 LMTATPIPRTLVLTSLGDIDISKIT---EKPAGRKPIKTVIIPI-N-----RIDEVIERLKVVLSEGKKAYWICPQIEEK 495 (700) Q Consensus 425 ~MtATPIPRTLal~~ygdldvS~i~---e~P~gR~~I~T~~~~~-~-----~~~~~~~~i~~~l~~g~q~y~VcPlIees 495 (700) ..|-.||...-. ...+-..+. .+|+.++ + .++.. . ...++.+.+.. ..+-|+.|||-. T Consensus 173 ~vtGiPVr~~F~----~~~~k~~~r~~lgL~~d~~-~--vLimgGg~G~~g~i~~l~~~L~~--~~~~qiiVVcGr---- 239 (388) T PRK13609 173 VETGIPIRSSFE----LKINPDIIYNKYQLCKNKK-I--LLIVAGAHGVLGNVKELCQSFMS--VPDLQVVVVCGK---- 239 (388) T ss_pred EEECCCCCHHHC----CCCCHHHHHHHHCCCCCCC-E--EEEECCHHHHHHHHHHHHHHHHC--CCCCEEEEEECC---- T ss_conf 988984387872----7588789999828998784-7--99976601211479999999745--899249999089---- Q ss_pred CCCCCCHHHHHHHHHHH---HCCCCEECCCCCCCHHHHHHHHHHHHCCCEEEEEE----CHHHH Q ss_conf 11121014666666686---63710312014699899999999975598699998----00341 Q gi|254780945|r 496 KESNFRSVVERFNSLHE---HFTSSIAIIHGRMSDIDKESVMDSFKNGTCKLLIA----TTVIE 552 (700) Q Consensus 496 e~~~~~~~~~~~~~l~~---~~~~~v~~lHGkm~~~ek~~~m~~F~~g~~~iLva----TtviE 552 (700) + ++.+++|.+ ..+.+|- +.|=- ++-.+.|. ..|++|+ .|+-| T Consensus 240 ------N-~~L~~~L~~~~~~~~~~v~-vlGf~--~~~~~~~~-----~~d~~i~k~Gg~t~~E 288 (388) T PRK13609 240 ------N-EALKQDLVGLQETNPDALK-VFGYV--ENIDELFR-----VTSCMITKPGGITLSE 288 (388) T ss_pred ------C-HHHHHHHHHHHHCCCCCEE-EEECH--HHHHHHHH-----HCCEEEECCCHHHHHH T ss_conf ------9-8999999988750799469-95045--20999998-----5759995786458999 No 393 >PRK05642 DNA replication initiation factor; Validated Probab=84.84 E-value=3.1 Score=21.40 Aligned_cols=33 Identities=24% Similarity=0.260 Sum_probs=26.4 Q ss_pred EEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEH Q ss_conf 886214422369999997334443054588612 Q gi|254780945|r 297 ILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAP 329 (700) Q Consensus 297 LLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaP 329 (700) .|.|.+|||||=..-.++..+.+.|..++++-- T Consensus 49 ~i~G~~G~GKTHLL~A~~~~~~~~~~~~~yl~~ 81 (234) T PRK05642 49 YLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPL 81 (234) T ss_pred EEECCCCCCHHHHHHHHHHHHHHCCCCEEEEEH T ss_conf 998899998899999999999807996799789 No 394 >PRK12374 putative dithiobiotin synthetase; Provisional Probab=84.78 E-value=0.9 Score=25.64 Aligned_cols=33 Identities=27% Similarity=0.417 Sum_probs=29.1 Q ss_pred EEEE-CCCCCHHHHHHHHHHHHHHHHCCEEEEEH Q ss_conf 8862-14422369999997334443054588612 Q gi|254780945|r 297 ILQG-DVGSGKTLVALIAMAAAVEAGGQAVIMAP 329 (700) Q Consensus 297 LLQG-DVGSGKTiVA~~A~l~~~~~G~Q~alMaP 329 (700) .+.| |.+.|||+|+..-+......|++++.+=| T Consensus 6 FITGTDTdVGKT~vsaaL~~~l~~~G~~v~~~KP 39 (231) T PRK12374 6 FITGTDTSVGKTVVSRALLQALASQGKSVAGYKP 39 (231) T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEEE T ss_conf 9987899953999999999999978994888856 No 395 >COG0132 BioD Dethiobiotin synthetase [Coenzyme metabolism] Probab=84.68 E-value=0.87 Score=25.73 Aligned_cols=30 Identities=30% Similarity=0.337 Sum_probs=27.7 Q ss_pred ECCCCCHHHHHHHHHHHHHHHHCCEEEEEH Q ss_conf 214422369999997334443054588612 Q gi|254780945|r 300 GDVGSGKTLVALIAMAAAVEAGGQAVIMAP 329 (700) Q Consensus 300 GDVGSGKTiVA~~A~l~~~~~G~Q~alMaP 329 (700) =|.|-|||+|+..-+-++..+|++++.+=| T Consensus 10 TDT~VGKTv~S~aL~~~l~~~g~~~~~~KP 39 (223) T COG0132 10 TDTGVGKTVVSAALAQALKQQGYSVAGYKP 39 (223) T ss_pred CCCCCCHHHHHHHHHHHHHHCCCCEEEECC T ss_conf 799964999999999999968970598775 No 396 >PRK07263 consensus Probab=84.49 E-value=3.2 Score=21.29 Aligned_cols=86 Identities=14% Similarity=0.122 Sum_probs=50.4 Q ss_pred HHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHH-HHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECC Q ss_conf 99999984100134307886214422369999997334-44305458861279999999986211014578658996246 Q gi|254780945|r 280 AIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAA-VEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGN 358 (700) Q Consensus 280 ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~-~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~ 358 (700) .++++..-|..+. .-.|=|--|.|||..|+--+..+ +.+|+-|+|..- |.=++|....+-......+. -.+-+|. T Consensus 192 ~LD~~t~Gl~~Gd--LiviaaRPsmGKTa~alnia~~iA~~~~~~V~~fSl-EMs~~ql~~R~la~~~~i~~-~~i~~g~ 267 (453) T PRK07263 192 DLDKITTGLHPDQ--LIILAARPAVGKTAFVLNIAQNVGTKQKKTVAIFSL-EMGAESLVDRMLAAEGMVDS-HSLRTGQ 267 (453) T ss_pred HHHHHHCCCCCCC--EEEEEECCCCCHHHHHHHHHHHHHHHCCCEEEEEEC-CCCHHHHHHHHHHHHCCCCH-HCCCCCC T ss_conf 7997732899786--899972788847899999999999855982899924-69989999999998617331-0331365 Q ss_pred CCHHHHHHHHH Q ss_conf 42256676877 Q gi|254780945|r 359 MPQAHRRKALE 369 (700) Q Consensus 359 ~~~~er~~i~~ 369 (700) ++..+...+.. T Consensus 268 l~~~e~~~~~~ 278 (453) T PRK07263 268 LTDQDWNNVTI 278 (453) T ss_pred CCHHHHHHHHH T ss_conf 24799999999 No 397 >cd03468 Pol_Y_like Pol_Y_like: a group of putative Y-family DNA polymerases. Y-family polymerases can transverse normal replication-blocking DNA lesions, such as cyclobutane pyrimidine dimers resulting from UV damage, at higher error rate. The Y-family has no 3'-5' exonuclease activity. In addition to possessing a topology akin to a right hand, with "thumb", "fingers" and "palm" motifs, like polymerases from the A-, B-, C- and X-families, the Y-family has a unique "little finger" motif. Expression of Y-family polymerases is often induced by DNA damage. These polymerases are phylogenetically unrelated to classical DNA polymerases. Probab=84.41 E-value=0.97 Score=25.39 Aligned_cols=49 Identities=16% Similarity=0.125 Sum_probs=24.9 Q ss_pred HHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHH Q ss_conf 999999999841001343078862144223699999973344430545886127999 Q gi|254780945|r 277 QESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGIL 333 (700) Q Consensus 277 Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEIL 333 (700) .....+.|.+-+..- =+.--||.|-|..++..+. ..+....+..|.++- T Consensus 114 ~~~~~~~i~~~l~~~-----gl~~s~Gia~~~~~Aklaa---~~~~~~~~~~~~~~~ 162 (330) T cd03468 114 EAALLERLRAALAAL-----GLTARAALADTPGAAWLLA---RAGAGRVVGAGEALA 162 (330) T ss_pred HHHHHHHHHHHHHHH-----CCEEEEEECCCHHHHHHHH---CCCCCCEECCCHHHH T ss_conf 999999999999983-----9839999899989999984---579998215826788 No 398 >PRK08084 DNA replication initiation factor; Provisional Probab=84.30 E-value=3.3 Score=21.23 Aligned_cols=36 Identities=22% Similarity=0.302 Sum_probs=26.1 Q ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHH Q ss_conf 7886214422369999997334443054588612799 Q gi|254780945|r 296 RILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGI 332 (700) Q Consensus 296 RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEI 332 (700) =.|.|.+|||||=..-.++..+.+.|.++.++ |-+. T Consensus 48 l~l~G~~G~GKTHLLqA~~~~~~~~~~~~~yl-~~~~ 83 (235) T PRK08084 48 IYLWGREGAGRSHLLHAACAELSQRGDAVGYV-PLDK 83 (235) T ss_pred EEEECCCCCCHHHHHHHHHHHHHCCCCCEEEE-EHHH T ss_conf 99989999888999999999997079857998-7798 No 399 >TIGR00615 recR recombination protein RecR; InterPro: IPR000093 The bacterial protein recR seems to play a role in a recombinational process of DNA repair . It may act with recF and recO. RecR is a protein of about 200 amino acid residues. This protein contains a putative C4-type zinc finger in the N-terminal section.; GO: 0006281 DNA repair, 0006310 DNA recombination. Probab=84.26 E-value=0.41 Score=28.34 Aligned_cols=136 Identities=22% Similarity=0.236 Sum_probs=72.8 Q ss_pred CCHHCHHCCCHHHCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCHHHCCCC-CEEEEEE--EEEEE Q ss_conf 10202101772136785889999988740124688554898787089740134444647888998-7899999--99897 Q gi|254780945|r 3 PSFLNPLFAPLSTFRGVGKKYSLFLSKIINCGNANETRFIDLLFYHPSSFIDRHYRPKISEISEE-RIVTITG--YISQH 79 (700) Q Consensus 3 p~~l~~L~~pI~~LkGVGpk~a~~L~kl~~l~~~GI~ti~DLL~~~PrrYeDr~~~~~I~~l~~g-~~vti~g--~V~~~ 79 (700) |..+..|=+.++.|||||||+|++|+= .||-.=|..-++..+ .+.++..+ ..|...+ .+... T Consensus 4 ~~~~~~Lie~L~kLPgiG~KsA~RlAf-------------~LL~~~~~~~~~la~--aL~~a~~~~~~C~~C~Cl~~s~~ 68 (205) T TIGR00615 4 PPPISKLIESLKKLPGIGPKSAQRLAF-------------HLLKRDPSEVERLAQ--ALLEAKEELRTCSVCGCLALSDQ 68 (205) T ss_pred HHHHHHHHHHHHHCCCCCHHHHHHHHH-------------HHCCCCHHHHHHHHH--HHHHHHHHCCCCCCCCEEECCCC T ss_conf 668999999864078987147899999-------------860789999999999--99999871474656750211477 Q ss_pred EE--E--CCCCC-CEEEEEEECCCCEEEEEEECCCHHHHHHHCCCCCEEEEEEEEEECCCEEEEECCEEEECCCCCC--- Q ss_conf 54--2--15898-3389999818936999995188789987328988899998997318779997786896264334--- Q gi|254780945|r 80 SS--F--QLQKR-RPYKILLNDGTGEITLLFFYRKTEMLKNVFFEGRKITVTGKIKKLKNRIIMVHPHYIFHNSQDV--- 151 (700) Q Consensus 80 ~~--~--~~~~r-~~~~v~v~D~tg~i~lvfFn~~~~yl~k~lk~G~~v~vsGKv~~~~~~~qi~hPe~~~~~~~~~--- 151 (700) .. + -.+|- +....+|++.-...- ..-++. | .|..+++-|-+.=- .=+|||=+..+.-.. T Consensus 69 ~~C~ICsd~~Rde~s~iCvV~~p~Dv~a-------~E~~~~-f-~G~YhVL~G~isPl----~Gigp~~~~i~~L~~riG 135 (205) T TIGR00615 69 EVCNICSDERRDENSVICVVEDPKDVFA-------LEKTKE-F-RGRYHVLGGLISPL----DGIGPEDLKIAALLKRIG 135 (205) T ss_pred CCCCCCCCCCCCCCCEEEEECCHHHHHH-------HHHHHH-H-CCCEEEECCEECCC----CCCCCCCCCHHHHHHHHH T ss_conf 8777578887344753687447267999-------876542-1-66014315641764----576832214688998860 Q ss_pred -------CCCCCCCCCCCCHHH Q ss_conf -------444411000000000 Q gi|254780945|r 152 -------NFPLIEAVYSLPTGL 166 (700) Q Consensus 152 -------~~~~I~PIYplt~GL 166 (700) -..-|...=|..+|= T Consensus 136 eRl~~~~~~EVIlA~nPt~EGe 157 (205) T TIGR00615 136 ERLQEESVKEVILATNPTVEGE 157 (205) T ss_pred CCCCCCCCCEEEEECCCCCHHH T ss_conf 0000057977886078984134 No 400 >cd00983 recA 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. Probab=84.26 E-value=3.3 Score=21.22 Aligned_cols=83 Identities=23% Similarity=0.303 Sum_probs=52.6 Q ss_pred CCCCCEEE--EEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHH-HHHHHHHHHHHHCCCCCCEE--EEEECCCCHHHH Q ss_conf 01343078--86214422369999997334443054588612799-99999986211014578658--996246422566 Q gi|254780945|r 290 QKNRMLRI--LQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGI-LAQQHYEFIKKYTQNTQIIV--EIITGNMPQAHR 364 (700) Q Consensus 290 ~~~pM~RL--LQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEI-LA~QH~~~~~~~~~~~~i~v--~lLtg~~~~~er 364 (700) .+.|..|. +-|.-+||||-.|+.++..+-..|..||+.-- |= +- ..|+..+||.+ -++.-..+.-+- T Consensus 50 GGiP~GRivei~G~essGKTtlal~~ia~aQk~gg~~~~iDa-E~a~d-------~~~a~~lGVD~~~l~~~qp~~~Eq~ 121 (325) T cd00983 50 GGYPKGRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFIDA-EHALD-------PVYAKKLGVDLDNLLISQPDTGEQA 121 (325) T ss_pred CCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEH-HHCCC-------HHHHHHCCCCHHHEEEECCCHHHHH T ss_conf 996688089998898777999999999998735983999962-54259-------8999980998467589666389999 Q ss_pred HHHHHH-HCCCCCEEEE Q ss_conf 768776-2134754864 Q gi|254780945|r 365 RKALER-IAHGQAHIII 380 (700) Q Consensus 365 ~~i~~~-i~~G~~~iiI 380 (700) -++.+. +++|.++++| T Consensus 122 l~i~~~li~s~~~dliV 138 (325) T cd00983 122 LEIADSLVRSGAVDLIV 138 (325) T ss_pred HHHHHHHHCCCCCCEEE T ss_conf 99999975158876799 No 401 >COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair] Probab=84.16 E-value=3.3 Score=21.19 Aligned_cols=34 Identities=21% Similarity=0.142 Sum_probs=16.0 Q ss_pred HHHHHHHHHHCHHHHHHHHHHHHCCCCCC--CCCHHCCCCC Q ss_conf 99999998414258999999852063000--2600069874 Q gi|254780945|r 605 YTRLSVLKNTEDGFLIAEEDLKQRKEGEI--LGIKQSGMPK 643 (700) Q Consensus 605 ~~Rl~~l~~~~dGf~iAe~Dl~lRG~G~~--~G~~QsG~~~ 643 (700) ..||-...-|. |++.|-+-.+-.- .|..+.+.|. T Consensus 597 ERRL~YVaiTR-----A~~~L~~t~~~~~~~~~~~~~~~~s 632 (655) T COG0210 597 ERRLLYVAITR-----AKKKLYLTYAASRKLWGKEVEEEPS 632 (655) T ss_pred HHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCCCCCCCC T ss_conf 88899998788-----8765533236555532652344735 No 402 >KOG3416 consensus Probab=84.13 E-value=3.3 Score=21.18 Aligned_cols=102 Identities=13% Similarity=0.052 Sum_probs=65.4 Q ss_pred CCCHHHCCCCCEEEEE-EEEEEEEEE-CCCCC-CEEEEEEECCCCEEEEEEECCCHHHHHHHCCCCCEEEEEEEE-EECC Q ss_conf 4647888998789999-999897542-15898-338999981893699999518878998732898889999899-7318 Q gi|254780945|r 58 RPKISEISEERIVTIT-GYISQHSSF-QLQKR-RPYKILLNDGTGEITLLFFYRKTEMLKNVFFEGRKITVTGKI-KKLK 133 (700) Q Consensus 58 ~~~I~~l~~g~~vti~-g~V~~~~~~-~~~~r-~~~~v~v~D~tg~i~lvfFn~~~~yl~k~lk~G~~v~vsGKv-~~~~ 133 (700) ..+|.|++||..-... --|+..... +++-+ ..-...+.|+||.|++..||- .-..|++|+-+.+.|-. +.|+ T Consensus 4 ~i~ikdi~P~~kN~~v~fIvl~~g~~tkTkdg~~v~~~kVaD~TgsI~isvW~e----~~~~~~PGDIirLt~Gy~Si~q 79 (134) T KOG3416 4 MIFIKDIKPGLKNINVTFIVLEYGRATKTKDGHEVRSCKVADETGSINISVWDE----EGCLIQPGDIIRLTGGYASIFQ 79 (134) T ss_pred CHHHHHCCHHHHCCEEEEEEEEECEEEECCCCCEEEEEEEECCCCEEEEEEECC----CCCCCCCCCEEEECCCCHHHHC T ss_conf 023766682341624899998614030136898888999806655289998347----6764588668996363043403 Q ss_pred CEEEEECCEEEECCCCCCCCCCCCCCCCCCHHHH Q ss_conf 7799977868962643344444110000000000 Q gi|254780945|r 134 NRIIMVHPHYIFHNSQDVNFPLIEAVYSLPTGLS 167 (700) Q Consensus 134 ~~~qi~hPe~~~~~~~~~~~~~I~PIYplt~GLs 167 (700) |.+.+.. -...+-..++.+.-+|..+..++ T Consensus 80 g~LtL~~----GK~Ge~~KiGef~~vf~etpn~S 109 (134) T KOG3416 80 GCLTLYV----GKGGEVQKIGEFCMVFSETPNIS 109 (134) T ss_pred CCEEEEE----CCCCEEEEEEEEEEEEECCCCCC T ss_conf 8569996----17832767101577653178745 No 403 >PRK12402 replication factor C small subunit 2; Reviewed Probab=84.08 E-value=1.5 Score=23.90 Aligned_cols=42 Identities=24% Similarity=0.205 Sum_probs=28.7 Q ss_pred HHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHH Q ss_conf 899999999984100134307886214422369999997334 Q gi|254780945|r 276 SQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAA 317 (700) Q Consensus 276 ~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~ 317 (700) +|..+++.+.+-+.++..=+=|+.|--|+|||-.|.+-+-.. T Consensus 19 Gq~~i~~~L~~~~~~~~~phlLf~GPpG~GKTt~A~~lA~~l 60 (337) T PRK12402 19 GQESVVDHLSALAASGNLPHLVVYGPSGSGKTAAVRALAREL 60 (337) T ss_pred CCHHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHH T ss_conf 979999999999977998769888929848999999999996 No 404 >PRK05480 uridine kinase; Provisional Probab=84.06 E-value=2 Score=22.99 Aligned_cols=25 Identities=40% Similarity=0.461 Sum_probs=20.4 Q ss_pred HCCCCCCEEEEEECCCCCHHHHHHH Q ss_conf 1001343078862144223699999 Q gi|254780945|r 288 MSQKNRMLRILQGDVGSGKTLVALI 312 (700) Q Consensus 288 l~~~~pM~RLLQGDVGSGKTiVA~~ 312 (700) |...+|+--.+-|+.|||||-+|-. T Consensus 1 ~~~k~P~iIgIaG~SgSGKTT~a~~ 25 (209) T PRK05480 1 MMMKQPIIIGIAGGSGSGKTTVAST 25 (209) T ss_pred CCCCCCEEEEEECCCCCCHHHHHHH T ss_conf 9988988999989997789999999 No 405 >PRK07459 single-stranded DNA-binding protein; Provisional Probab=84.04 E-value=3.4 Score=21.15 Aligned_cols=63 Identities=17% Similarity=0.230 Sum_probs=43.0 Q ss_pred EEEEEEEEEEEEEECCC-CC-CEEEEEEE-------CCCCEEEEEEECCCHHHHHHHCCCCCEEEEEEEEEE Q ss_conf 89999999897542158-98-33899998-------189369999951887899873289888999989973 Q gi|254780945|r 69 IVTITGYISQHSSFQLQ-KR-RPYKILLN-------DGTGEITLLFFYRKTEMLKNVFFEGRKITVTGKIKK 131 (700) Q Consensus 69 ~vti~g~V~~~~~~~~~-~r-~~~~v~v~-------D~tg~i~lvfFn~~~~yl~k~lk~G~~v~vsGKv~~ 131 (700) .|++.|.+.+-...++. .+ ......+. +++.-+.++.|+.....+.+.++.|+.|.|.|++.. T Consensus 5 ~V~LiGrLg~DpElr~t~sG~~v~~fslAv~~~~k~~~t~w~~v~~wgk~Ae~~~~yl~KG~~V~V~G~l~~ 76 (121) T PRK07459 5 SVTLVGRAGRDPEVRYFESGSVVCNLTLAVNRRSRDDEPDWFNLEIWGKTAQVAADYVKKGSLIGITGSLKF 76 (121) T ss_pred EEEEEEECCCCCEEEECCCCCEEEEEEEEECCCCCCCCCCEEEEEEECHHHHHHHHHHCCCCEEEEEEEEEC T ss_conf 899999667696188979997899999984675357787499999989089999887368989999999865 No 406 >PRK08760 replicative DNA helicase; Provisional Probab=83.99 E-value=2 Score=22.88 Aligned_cols=72 Identities=17% Similarity=0.117 Sum_probs=42.4 Q ss_pred EEEECCCCCHHHHHHHHHHHHH-HHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHH Q ss_conf 8862144223699999973344-4305458861279999999986211014578658996246422566768776 Q gi|254780945|r 297 ILQGDVGSGKTLVALIAMAAAV-EAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALER 370 (700) Q Consensus 297 LLQGDVGSGKTiVA~~A~l~~~-~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~ 370 (700) .|=|--|.|||..|+--+..++ .+|.-|+|... |.=++|-...+-.-....+. -.+-+|.++..+...+.+. T Consensus 233 ViaaRPsmGKTalalnia~~~A~~~~~~V~~fSL-EMs~~ql~~Rlls~~s~v~~-~~i~~g~l~~~e~~~~~~a 305 (476) T PRK08760 233 ILAARPAMGKTTFALNIAEYAAIKSKKGVAVFSM-EMSASQLAMRLISSNGRINA-QRLRTGALEDEDWARVTGA 305 (476) T ss_pred EEEECCCCCHHHHHHHHHHHHHHHCCCCEEEEEC-CCCHHHHHHHHHHHHCCCCH-HHHHCCCCCHHHHHHHHHH T ss_conf 9987788747899999999999837997899703-69999999999998338976-7776489999999999999 No 407 >PRK00090 bioD dithiobiotin synthetase; Reviewed Probab=83.97 E-value=1 Score=25.27 Aligned_cols=32 Identities=34% Similarity=0.440 Sum_probs=28.4 Q ss_pred EEE-CCCCCHHHHHHHHHHHHHHHHCCEEEEEH Q ss_conf 862-14422369999997334443054588612 Q gi|254780945|r 298 LQG-DVGSGKTLVALIAMAAAVEAGGQAVIMAP 329 (700) Q Consensus 298 LQG-DVGSGKTiVA~~A~l~~~~~G~Q~alMaP 329 (700) ++| |.|+|||+|++.-+......|+.++.|=| T Consensus 4 I~GT~T~vGKT~vt~~L~~~l~~~G~~v~~~KP 36 (223) T PRK00090 4 VTGTDTGVGKTVVTAALAQALREQGYRVAGYKP 36 (223) T ss_pred EEECCCCCCHHHHHHHHHHHHHHCCCCEEEECE T ss_conf 986899976999999999999978994899751 No 408 >COG3111 Periplasmic protein with OB-fold [Function unknown] Probab=83.87 E-value=3.4 Score=21.10 Aligned_cols=71 Identities=15% Similarity=0.252 Sum_probs=50.7 Q ss_pred CCHHHCCCCCEEEEEEEEEEEEEECCCCCCEEEEEEECCCCEEEEEEECCCHHHHHHHCCCCCEEEEEEEEEECCCEEEE Q ss_conf 64788899878999999989754215898338999981893699999518878998732898889999899731877999 Q gi|254780945|r 59 PKISEISEERIVTITGYISQHSSFQLQKRRPYKILLNDGTGEITLLFFYRKTEMLKNVFFEGRKITVTGKIKKLKNRIIM 138 (700) Q Consensus 59 ~~I~~l~~g~~vti~g~V~~~~~~~~~~r~~~~v~v~D~tg~i~lvfFn~~~~yl~k~lk~G~~v~vsGKv~~~~~~~qi 138 (700) ..-.++.++..|+++|.|++.-. -=+..+.|.+|.|++-.=+. -|.-....+.+.+.++|++...-+..++ T Consensus 49 ~~Ak~~~Dda~V~l~GnIv~qi~-------~D~y~FrD~sGeI~VeIdd~--~w~g~tv~P~dkV~I~GevDk~~~~~eI 119 (128) T COG3111 49 DQAKTLHDDAWVSLEGNIVRQIG-------DDRYVFRDASGEINVDIDDK--VWNGQTVTPKDKVRIQGEVDKDWNSVEI 119 (128) T ss_pred HHHHCCCCCCEEEEEEEEEEEEC-------CCEEEEECCCCCEEEEECCC--CCCCCCCCCCCEEEEEEEECCCCCCCEE T ss_conf 87533025984999756777607-------83699975896199981601--1389706856689997687378766256 No 409 >PRK11388 DNA-binding transcriptional regulator DhaR; Provisional Probab=83.81 E-value=1.3 Score=24.47 Aligned_cols=160 Identities=17% Similarity=0.162 Sum_probs=72.8 Q ss_pred HHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHH-HHCCEEE---EEHHHHHHHHHHHHHHHHCCCCCC Q ss_conf 889999999998410013430788621442236999999733444-3054588---612799999999862110145786 Q gi|254780945|r 275 KSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVE-AGGQAVI---MAPIGILAQQHYEFIKKYTQNTQI 350 (700) Q Consensus 275 ~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~-~G~Q~al---MaPTEILA~QH~~~~~~~~~~~~i 350 (700) ..-+++++....-..++.| -||+|+.|+||+.+|-..-...-. .|-=+++ ..|.|.+....|-.-. T Consensus 332 ~~~~~~~~~a~~~a~~~~p--VLI~GE~GtGKe~lAraIH~~S~r~~~pfv~vnC~ai~~~~~e~elfG~~~-------- 401 (639) T PRK11388 332 PQMRRLIHFGRQAAKSSFP--ILLCGEEGVGKALLAQAIHNESERAAGPYIAVNCQLLPDEALAEEFLGSDR-------- 401 (639) T ss_pred HHHHHHHHHHHHHHCCCCC--EEEECCCCCCHHHHHHHHHHCCCCCCCCEEEEECCCCCHHHHHHHHCCCCC-------- T ss_conf 9999999999999688996--898898981099999999955777899818987898984678998738776-------- Q ss_pred EEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEEECCCCCCCHHHHHHHHH----C-----C--- Q ss_conf 589962464225667687762134754864111201334554444178852101335688998740----2-----5--- Q gi|254780945|r 351 IVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKLILVIVDEQHRFGVQQRLKLTQ----K-----A--- 418 (700) Q Consensus 351 ~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFGV~QR~~L~~----K-----g--- 418 (700) |..+. |. . ..| +-.+=|-+++||=+-.--....+|.. + | T Consensus 402 ------~~~~~------------g~----~---g~~----e~A~gGTL~LdeI~~lp~~~Q~~LlrvL~~~~~~r~g~~~ 452 (639) T PRK11388 402 ------TDSEN------------GR----L---SKF----ELAHGGTLFLEKVEYLSVELQSALLQVLKTGVITRLDSRR 452 (639) T ss_pred ------CCCCC------------CC----C---CHH----HCCCCCEEEECCHHHCCHHHHHHHHHHHHCCCEEECCCCC T ss_conf ------76434------------66----8---624----4036982884672649999999999998659378569994 Q ss_pred -CCCCCEEECHHHHHHHHHH-------HHHHCCCHHHHCCCCCCCCCCEEEEEECCCHHHHHHHHHHHHCC Q ss_conf -6776101010132278999-------97520101111023557666207999702002689999763103 Q gi|254780945|r 419 -TAPHVLLMTATPIPRTLVL-------TSLGDIDISKITEKPAGRKPIKTVIIPINRIDEVIERLKVVLSE 481 (700) Q Consensus 419 -~~ph~L~MtATPIPRTLal-------~~ygdldvS~i~e~P~gR~~I~T~~~~~~~~~~~~~~i~~~l~~ 481 (700) ...|+=+++||-.+=.-.. -+|--|....|. +||=|.- .++++.+++.+-.++.. T Consensus 453 ~~~vdvRiiaat~~~l~~~v~~g~fr~dLyyrl~~~~i~-lPpLReR-------~~Di~~L~~~~l~~~~~ 515 (639) T PRK11388 453 LIPVDVRVIATTTADLAMLVEQNRFSRQLYYALHAFEIT-IPPLRMR-------REDIPALVNNKLRSLEK 515 (639) T ss_pred EEEEEEEEEEECCHHHHHHHHCCCCHHHHHHHHHHHHCC-CCCHHHC-------HHHHHHHHHHHHHHHHH T ss_conf 666427999736450899987498549999876744105-7332325-------34399999999999999 No 410 >PRK08763 single-stranded DNA-binding protein; Provisional Probab=83.80 E-value=3.4 Score=21.08 Aligned_cols=64 Identities=19% Similarity=0.258 Sum_probs=42.5 Q ss_pred CEEEEEEEEEEEEEECCC--CCCEEEEEEE------CC-------CCEEEEEEECCCHHHHHHHCCCCCEEEEEEEEEE Q ss_conf 789999999897542158--9833899998------18-------9369999951887899873289888999989973 Q gi|254780945|r 68 RIVTITGYISQHSSFQLQ--KRRPYKILLN------DG-------TGEITLLFFYRKTEMLKNVFFEGRKITVTGKIKK 131 (700) Q Consensus 68 ~~vti~g~V~~~~~~~~~--~r~~~~v~v~------D~-------tg~i~lvfFn~~~~yl~k~lk~G~~v~vsGKv~~ 131 (700) ..|++.|.+.+-..+++. +.....+.+. |. +.-+.|+.|+.....+.+.|++|+.|+|.|+++. T Consensus 6 NkV~LiG~l~~Dpelr~t~sG~~v~~fslA~~~~~~~~~g~~~~~t~w~~vv~~gk~AE~~~~yl~KG~~V~VeGrL~~ 84 (160) T PRK08763 6 NKVILVGNLGNDPDIKYTQSGMTITRISLATTSMRKDREGNTQERTEWHRVKFFGKLGEIAGEYLRKGSQCYIEGEIRY 84 (160) T ss_pred CEEEEEEECCCCCEEEECCCCCEEEEEEEEECCCEECCCCCCEECEEEEEEEEEHHHHHHHHHHHHCCCEEEEEEEEEE T ss_conf 1999987547597587889998799999997787356888825210599999836899999987417998999888888 No 411 >PRK08727 hypothetical protein; Validated Probab=83.75 E-value=3.1 Score=21.44 Aligned_cols=36 Identities=39% Similarity=0.530 Sum_probs=29.4 Q ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHH Q ss_conf 7886214422369999997334443054588612799 Q gi|254780945|r 296 RILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGI 332 (700) Q Consensus 296 RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEI 332 (700) =.|.|..|||||=.+-.++..+...|..++++ |.+- T Consensus 44 lyl~G~~GsGKTHLl~a~~~~~~~~~~~~~yl-~l~~ 79 (233) T PRK08727 44 LYLSGPAGTGKTHLALSLCAAAEQAGRSSAYL-PLQA 79 (233) T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCCEEEE-EHHH T ss_conf 99989999988999999999998279972884-4788 No 412 >PRK05636 replicative DNA helicase; Provisional Probab=83.61 E-value=3.5 Score=21.03 Aligned_cols=72 Identities=19% Similarity=0.279 Sum_probs=45.4 Q ss_pred EEEECCCCCHHHHHHHHHHHH-HHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHH Q ss_conf 886214422369999997334-44305458861279999999986211014578658996246422566768776 Q gi|254780945|r 297 ILQGDVGSGKTLVALIAMAAA-VEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALER 370 (700) Q Consensus 297 LLQGDVGSGKTiVA~~A~l~~-~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~ 370 (700) .|=|--|.|||..|+--+..+ +.+|+-|+|... |.=++|-...+-......+.. .+-+|.++..+..++.+. T Consensus 271 IiAARPsmGKTalAlnia~n~A~~~g~~v~~fSL-EMs~~ql~~Rlla~~s~V~~~-~ir~g~l~~~~~~~l~~a 343 (507) T PRK05636 271 IVAARPGVGKSTIALDFMRSASIKNNKASVIFSL-EMSKSEIVMRLLSAEAEVRLA-DMRGGKMDEDAWEKLVQR 343 (507) T ss_pred EEEECCCCCHHHHHHHHHHHHHHHCCCCEEEEEC-CCCHHHHHHHHHHHHCCCCHH-HHHCCCCCHHHHHHHHHH T ss_conf 9973787866899999999999876993799715-699899999999984798878-885588788999999999 No 413 >cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK). Probab=83.60 E-value=1.3 Score=24.30 Aligned_cols=31 Identities=29% Similarity=0.249 Sum_probs=22.1 Q ss_pred EEEECCCCCHHHHHHHHHHHHHHHHCCEEEE Q ss_conf 8862144223699999973344430545886 Q gi|254780945|r 297 ILQGDVGSGKTLVALIAMAAAVEAGGQAVIM 327 (700) Q Consensus 297 LLQGDVGSGKTiVA~~A~l~~~~~G~Q~alM 327 (700) -+-|+.|||||-+|-.-.-..-.+|.+++++ T Consensus 3 gIaG~SgSGKTT~a~~L~~~l~~~~~~~~vi 33 (179) T cd02028 3 GIAGPSGSGKTTFAKKLSNQLRVNGIGPVVI 33 (179) T ss_pred EEECCCCCCHHHHHHHHHHHHHHCCCCEEEE T ss_conf 9989897789999999999984648853999 No 414 >PRK07471 DNA polymerase III subunit delta'; Validated Probab=83.53 E-value=1.8 Score=23.27 Aligned_cols=41 Identities=17% Similarity=0.197 Sum_probs=31.1 Q ss_pred HHHHHHHHHHHHHHCCCC-CCEEEEEECCCCCHHHHHHHHHH Q ss_conf 889999999998410013-43078862144223699999973 Q gi|254780945|r 275 KSQESAIKDILQDMSQKN-RMLRILQGDVGSGKTLVALIAMA 315 (700) Q Consensus 275 ~~Q~~ai~eI~~Dl~~~~-pM~RLLQGDVGSGKTiVA~~A~l 315 (700) -+|..+.+...+-+.+++ |=--|+.|--|+|||-.|...+- T Consensus 20 iGqe~~~~~L~~a~~~grl~HA~Lf~Gp~GiGK~tlA~~~A~ 61 (363) T PRK07471 20 FGHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMAR 61 (363) T ss_pred CCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHH T ss_conf 681999999999998599764587679998188999999999 No 415 >pfam05876 Terminase_GpA Phage terminase large subunit (GpA). This family consists of several phage terminase large subunit proteins as well as related sequences from several bacterial species. The DNA packaging enzyme of bacteriophage lambda, terminase, is a heteromultimer composed of a small subunit, gpNu1, and a large subunit, gpA, products of the Nu1 and A genes, respectively. Terminase is involved in the site-specific binding and cutting of the DNA in the initial stages of packaging. It is now known that gpA is actively involved in late stages of packaging, including DNA translocation, and that this enzyme contains separate functional domains for its early and late packaging activities. Probab=83.53 E-value=3.5 Score=21.00 Aligned_cols=130 Identities=14% Similarity=0.184 Sum_probs=63.8 Q ss_pred CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHH-HCCEEEEEHHHHHHHHHHH-HHHHHCCCCC Q ss_conf 6798899999999984100134307886214422369999997334443-0545886127999999998-6211014578 Q gi|254780945|r 272 SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEA-GGQAVIMAPIGILAQQHYE-FIKKYTQNTQ 349 (700) Q Consensus 272 ~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~-G~Q~alMaPTEILA~QH~~-~~~~~~~~~~ 349 (700) +.|.-|. ||.+-|+.+.--.--+++=.-+|||.+....+...++. ---..++-||+-.|+...+ .|..++...+ T Consensus 16 ~~~Py~~----eimd~l~~~~v~~V~~~k~aQ~GkT~~~~n~igy~i~~~P~p~l~v~Pt~~~a~~~s~~rl~Pmi~~sP 91 (552) T pfam05876 16 DRTPYLR----EIMDALSPPSVERVVFMKSAQVGKTELLLNWIGYFIDHDPAPMLVVQPTDDDAKRFSKDRLDPMIRASP 91 (552) T ss_pred CCCCHHH----HHHHHCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHHHHCCH T ss_conf 8880769----999854887844999995787038899999998866308988799941899999999998999986198 Q ss_pred CEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEEECCCCCCC Q ss_conf 6589962464225667687762134754864111201334554444178852101335 Q gi|254780945|r 350 IIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKLILVIVDEQHRFG 407 (700) Q Consensus 350 i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFG 407 (700) .--.+++...+......++.+--.|-.-.++|..+- .++.=....+++.||=-+|- T Consensus 92 ~L~~~~~~~~~r~~~nt~~~K~f~gg~l~~~ga~S~--~~L~s~~~r~l~~DEvD~~~ 147 (552) T pfam05876 92 ALRERLAPARSRDSDNTLLSKRFPGGSLLLIGANSP--ANLRSRPVRYVILDEVDAYP 147 (552) T ss_pred HHHHHHCCCCCCCCCCCEEEEEECCCEEEEEECCCC--HHHHCCCCCEEEECCHHHCC T ss_conf 999750755565667741247607837999557996--14304863558851344365 No 416 >COG1663 LpxK Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane] Probab=83.29 E-value=1.5 Score=23.97 Aligned_cols=95 Identities=21% Similarity=0.212 Sum_probs=54.1 Q ss_pred CCCHHHHHHHHHHHHH---------HHHCCEEEEEHHHHHHHHH-HHHHH--HH--CCCCCCEEEEEECCCCHHHHHHHH Q ss_conf 4223699999973344---------4305458861279999999-98621--10--145786589962464225667687 Q gi|254780945|r 303 GSGKTLVALIAMAAAV---------EAGGQAVIMAPIGILAQQH-YEFIK--KY--TQNTQIIVEIITGNMPQAHRRKAL 368 (700) Q Consensus 303 GSGKTiVA~~A~l~~~---------~~G~Q~alMaPTEILA~QH-~~~~~--~~--~~~~~i~v~lLtg~~~~~er~~i~ 368 (700) |+|||=+++.-+-..- +-||-+-.-++|.+....| .+..- .+ ....+.++.. ...|.+.. T Consensus 59 GtGKTP~vi~la~~l~~rG~~~gvvSRGYgg~~~~~~~~~~~~~~a~~~GDEPlLlA~~t~~pv~v------~~~R~~~~ 132 (336) T COG1663 59 GTGKTPVVIWLAEALQARGVRVGVVSRGYGGKLKVVPLVDNIHTTAAEVGDEPLLLARRTGAPVAV------SPDRKDAA 132 (336) T ss_pred CCCCCHHHHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCCHHHCCCHHHHHHHHCCCCEEE------EHHHHHHH T ss_conf 899688999999999866973679805768887654102567678677284688875533996898------64298999 Q ss_pred HHHCC--CCCEEEEEC----HHHCCCCCCCCCCCEEEECCCCCCCH Q ss_conf 76213--475486411----12013345544441788521013356 Q gi|254780945|r 369 ERIAH--GQAHIIIGT----HALFQDSIQYYKLILVIVDEQHRFGV 408 (700) Q Consensus 369 ~~i~~--G~~~iiIGT----HAL~q~~v~F~~LgLvViDEQHRFGV 408 (700) ..+.. ..++|||=- |.=++ +++-+||||-|-+||= T Consensus 133 ~~l~~~~~~~diIi~DDG~Qh~rL~-----rD~eIvvvd~~r~fGn 173 (336) T COG1663 133 KALLAAHLGCDIIVLDDGLQHYRLH-----RDFEIVVVDGQRGFGN 173 (336) T ss_pred HHHHHHCCCCCEEEECCCCHHHHHH-----CCEEEEEEECCCCCCC T ss_conf 9998517898999976743126764-----3646999736646878 No 417 >COG3421 Uncharacterized protein conserved in bacteria [Function unknown] Probab=83.29 E-value=0.68 Score=26.61 Aligned_cols=60 Identities=13% Similarity=0.260 Sum_probs=34.0 Q ss_pred HHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHH-HCCEEEEE Q ss_conf 998630246798899999999984100134307886214422369999997334443-05458861 Q gi|254780945|r 264 KILRNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEA-GGQAVIMA 328 (700) Q Consensus 264 ~f~~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~-G~Q~alMa 328 (700) +.+..|-|-=-.+|.+-|.|+.+.+.. -+++--.|.|||+.-.-......++ ||.+++.- T Consensus 408 r~LE~l~yh~~~~~SkyIseLkn~L~~-----lGl~~~~~~dk~l~k~KLk~~f~~~k~fK~~L~f 468 (812) T COG3421 408 RILEELFYHTHDEQSKYISELKNELRK-----LGLNPETDADKVLMKFKLKSEFADNKGFKHLLIF 468 (812) T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHHH-----HCCCCCCCCCHHHHHHHHHHHCCCCCCCEEEEEE T ss_conf 898888766042056469999867888-----4578866631788988864221566673189997 No 418 >TIGR01447 recD exodeoxyribonuclease V, alpha subunit; InterPro: IPR006344 This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. C-terminal part of the protein matches a domain found in viral RNA helicase, superfamily 1, IPR000606 from INTERPRO. ; GO: 0008854 exodeoxyribonuclease V activity, 0009338 exodeoxyribonuclease V complex. Probab=83.06 E-value=3.6 Score=20.87 Aligned_cols=142 Identities=19% Similarity=0.283 Sum_probs=74.8 Q ss_pred HHHHHHCCCCCCHHHHHH--HHHHHHHHCCCCCCEEEEEECCCCCHH--HHHHHHHHHHHHHH-----CCEEEEEHHHHH Q ss_conf 999863024679889999--999998410013430788621442236--99999973344430-----545886127999 Q gi|254780945|r 263 QKILRNIPFSPTKSQESA--IKDILQDMSQKNRMLRILQGDVGSGKT--LVALIAMAAAVEAG-----GQAVIMAPIGIL 333 (700) Q Consensus 263 ~~f~~~LPF~LT~~Q~~a--i~eI~~Dl~~~~pM~RLLQGDVGSGKT--iVA~~A~l~~~~~G-----~Q~alMaPTEIL 333 (700) ..+.+-+|-.-++.++++ ...+...++-..+. -|+-|-=|+||| |+-+++++..-... -+.++.|||-== T Consensus 211 ~~l~~~f~~~~~~~~~~~~D~Q~~a~~~aL~~~f-~li~GGPGTGKTTTv~~LL~al~~~~~~~G~~~~~I~l~APTGKA 289 (753) T TIGR01447 211 AILENLFPLLNEQNGRKVTDWQKVAVALALKSNF-SLITGGPGTGKTTTVARLLLALIKQSPKQGKPRLRIALAAPTGKA 289 (753) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCE-EEEECCCCCCHHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCHHH T ss_conf 9999985421045443113799999999860876-899879889778999999999999898649974047886684479 Q ss_pred HHHHHHHHHHHCCCCCCE-----EEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEEECCCCCCCH Q ss_conf 999998621101457865-----899624642256676877621347548641112013345544441788521013356 Q gi|254780945|r 334 AQQHYEFIKKYTQNTQII-----VEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKLILVIVDEQHRFGV 408 (700) Q Consensus 334 A~QH~~~~~~~~~~~~i~-----v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFGV 408 (700) |.--.+++.+-+..+.+. -+++.+ .+. +- ..+.++- | ..-|++-..++..=.--++=+.|||| T Consensus 290 a~RL~esl~~~~~~L~~~~~aid~~~~~~-~~~-~~-~TiHrLL-G--~~~I~~~~fr~h~~N~L~~DVLvvDE------ 357 (753) T TIGR01447 290 AARLAESLRKAVKKLAAENMAIDEDLIAA-LPS-EA-TTIHRLL-G--IKPIDTKRFRHHERNPLPLDVLVVDE------ 357 (753) T ss_pred HHHHHHHHHHHHHHHHHHCCCCCHHHHCC-CCH-HH-HHHHHHH-C--CCCCCCCCCCCCCCCCCCCCEEEECC------ T ss_conf 99999999988632234236658798548-720-45-6888861-6--61478767767777889855278706------ Q ss_pred HHHHHHHHCCCCCCCEEE Q ss_conf 889987402567761010 Q gi|254780945|r 409 QQRLKLTQKATAPHVLLM 426 (700) Q Consensus 409 ~QR~~L~~Kg~~ph~L~M 426 (700) +.+.|+.+| T Consensus 358 ---------aSMVdl~lm 366 (753) T TIGR01447 358 ---------ASMVDLPLM 366 (753) T ss_pred ---------CHHCCHHHH T ss_conf ---------002267999 No 419 >cd01127 TrwB Bacterial conjugation protein TrwB, ATP binding domain. TrwB is a homohexamer encoded by conjugative plasmids in Gram-negative bacteria. TrwB also has an all alpha domain which has been hypothesized to be responsible for DNA binding. TrwB is a component of Type IV secretion and is responsible for the horizontal transfer of DNA between bacteria. Probab=83.05 E-value=2.3 Score=22.50 Aligned_cols=111 Identities=9% Similarity=0.069 Sum_probs=49.0 Q ss_pred HCCCHHHHCCCCCCCCCCEEEEEEC-CC---HHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHH-HHHHH-HC Q ss_conf 2010111102355766620799970-20---0268999976310387389997120122111210146666-66686-63 Q gi|254780945|r 441 GDIDISKITEKPAGRKPIKTVIIPI-NR---IDEVIERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERF-NSLHE-HF 514 (700) Q Consensus 441 gdldvS~i~e~P~gR~~I~T~~~~~-~~---~~~~~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~-~~l~~-~~ 514 (700) =++.++.+-.+|+.+.+=.-.++.+ .. ++.+-+.+..-=..|-.++.++- ++.-.++.| +...+ .+ T Consensus 254 l~~~~~~ll~~~~~~~~rv~~~lDE~~~l~~l~~~~~~l~~~R~~g~~~~~~~Q--------~~~Ql~~~YG~~~a~~i~ 325 (410) T cd01127 254 LDVAVNTLLGLPENRERRLWFFIDELPSLHKLPDLVDALAEGRKFGGCFVLGIQ--------SYAQLEDIYGKKGAQTLA 325 (410) T ss_pred HHHHHHHHHCCCCCCCCCEEEEEECHHCCCCCHHHHHHHHHHHHCCCEEEEEEC--------CHHHHHHHHCHHHHHHHH T ss_conf 999999985388767860799988700037717799999988517978999917--------889999997873899998 Q ss_pred CC-CEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCC Q ss_conf 71-031201469989999999997559869999800341046888765 Q gi|254780945|r 515 TS-SIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGIDVVDAS 561 (700) Q Consensus 515 ~~-~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~ 561 (700) .. .+-+.-+ ..+.|-.+-+.+. -|+..|.+.+.-.--|.+--..+ T Consensus 326 ~~~~~~i~~~-~~d~~ta~~~S~~-lG~~~v~~~~~s~s~g~~~~~~~ 371 (410) T cd01127 326 SNLRTRIVLA-APDAKTAEHASDS-LGEQEVREMRENYSYGANNIRDG 371 (410) T ss_pred HCCCCEEEEE-CCCHHHHHHHHHH-CCCEEEEEEEEEECCCCCCCCCC T ss_conf 4277689982-7998899999996-09669988750044787888898 No 420 >PRK12373 NADH dehydrogenase subunit E; Provisional Probab=83.03 E-value=0.78 Score=26.14 Aligned_cols=12 Identities=8% Similarity=-0.238 Sum_probs=5.1 Q ss_pred CCCCCCCCCCCC Q ss_conf 444441100000 Q gi|254780945|r 151 VNFPLIEAVYSL 162 (700) Q Consensus 151 ~~~~~I~PIYpl 162 (700) .....++..||. T Consensus 21 ~~a~~~iakYPe 32 (403) T PRK12373 21 AWAEKQITKYPE 32 (403) T ss_pred HHHHHHHHHCCC T ss_conf 999999986887 No 421 >pfam00485 PRK Phosphoribulokinase / Uridine kinase family. In Arabidopsis the region carries two binding domains, a phosphoribosylpyrophosphate-binding domain and, at the very C-terminus, a uracil-binding domain. Probab=83.00 E-value=1.7 Score=23.50 Aligned_cols=27 Identities=30% Similarity=0.278 Sum_probs=17.3 Q ss_pred EEEECCCCCHHHHHHHHHHHHHHHHCC Q ss_conf 886214422369999997334443054 Q gi|254780945|r 297 ILQGDVGSGKTLVALIAMAAAVEAGGQ 323 (700) Q Consensus 297 LLQGDVGSGKTiVA~~A~l~~~~~G~Q 323 (700) .+-|..|||||-+|-.-.-..-..|.+ T Consensus 3 gIaG~SgSGKTT~a~~L~~~l~~~~~~ 29 (196) T pfam00485 3 GVAGSSGAGKTTVARTFVSIFGREGVP 29 (196) T ss_pred EEECCCCCCHHHHHHHHHHHHCCCCCC T ss_conf 998998571999999999996605877 No 422 >PRK06674 DNA polymerase III subunits gamma and tau; Validated Probab=82.76 E-value=3.7 Score=20.78 Aligned_cols=19 Identities=21% Similarity=0.354 Sum_probs=11.4 Q ss_pred EEEEEEECCCCEEEEEEEC Q ss_conf 3899998189369999951 Q gi|254780945|r 89 PYKILLNDGTGEITLLFFY 107 (700) Q Consensus 89 ~~~v~v~D~tg~i~lvfFn 107 (700) .++|.+-|+-..++--=|| T Consensus 119 ~yKV~IIDeah~Lt~~A~N 137 (563) T PRK06674 119 EYKVYIIDEVHMLSIGAFN 137 (563) T ss_pred CEEEEEEECHHHCCHHHHH T ss_conf 7379998545637999999 No 423 >PRK08486 single-stranded DNA-binding protein; Provisional Probab=82.56 E-value=3.8 Score=20.73 Aligned_cols=63 Identities=16% Similarity=0.265 Sum_probs=40.3 Q ss_pred EEEEEEEEEEEEEECCC-C-CCEEEEE--EE-----------CCCCEEEEEEECCCHHHHHHHCCCCCEEEEEEEEEE Q ss_conf 89999999897542158-9-8338999--98-----------189369999951887899873289888999989973 Q gi|254780945|r 69 IVTITGYISQHSSFQLQ-K-RRPYKIL--LN-----------DGTGEITLLFFYRKTEMLKNVFFEGRKITVTGKIKK 131 (700) Q Consensus 69 ~vti~g~V~~~~~~~~~-~-r~~~~v~--v~-----------D~tg~i~lvfFn~~~~yl~k~lk~G~~v~vsGKv~~ 131 (700) .|++.|.+.+-..+++. . ....++. +. +++.-+.|++|+.....+.+.|++|+.|+|.|++.. T Consensus 4 kViLvGrL~~DpElr~t~~G~~v~~f~lAv~r~~~~~~Ge~~e~t~f~~v~~wgk~AE~~~~yl~KGs~V~VeGrL~~ 81 (180) T PRK08486 4 KVILVGNLTRDVELRYLPSGSAIATIGLATSRRFKKQDGEKGEEVCFIDIRLFGRTAEIANQYLSKGSKVLIEGRLTF 81 (180) T ss_pred EEEEEEECCCCCEEEECCCCCEEEEEEEEECCCEECCCCCCCCCCEEEEEEECCHHHHHHHHHCCCCCEEEEEEEEEC T ss_conf 699988568686388879998899999986686667888780223699998816789888752189999999999884 No 424 >COG3972 Superfamily I DNA and RNA helicases [General function prediction only] Probab=82.24 E-value=1.9 Score=23.03 Aligned_cols=142 Identities=15% Similarity=0.053 Sum_probs=73.3 Q ss_pred CHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHH--HHHHHHCCEEEEEHHHHHHHH Q ss_conf 578999986302467988999999999841001343078862144223699999973--344430545886127999999 Q gi|254780945|r 259 GKIAQKILRNIPFSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMA--AAVEAGGQAVIMAPIGILAQQ 336 (700) Q Consensus 259 ~~~~~~f~~~LPF~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l--~~~~~G~Q~alMaPTEILA~Q 336 (700) +.+++.+.+.. -.+-..|.+|.-++-. +.+ -++|=-|||||+|-+.-+. ..-.-..|-|+-.=|-+||.| T Consensus 150 ~a~l~~ieskI-anfD~~Q~kaa~~~~~----G~q---rIrGLAGSGKT~~La~Kaa~lh~knPd~~I~~Tfftk~L~s~ 221 (660) T COG3972 150 NALLDTIESKI-ANFDTDQTKAAFQSGF----GKQ---RIRGLAGSGKTELLAHKAAELHSKNPDSRIAFTFFTKILAST 221 (660) T ss_pred HHHHHHHHHHH-HCCCCHHHEEEEECCC----CHH---HHHCCCCCCCHHHHHHHHHHHHCCCCCCEEEEEEEHHHHHHH T ss_conf 78999999988-5235042314465477----346---520024787302988777897447998638998666788899 Q ss_pred HHHHHHHHCCC-------CCC-EEEEEE-CCCCH------HHHHHHHHHHCCCCCEEEEEC-HHHCCCCCCCCCCCEEEE Q ss_conf 99862110145-------786-589962-46422------566768776213475486411-120133455444417885 Q gi|254780945|r 337 HYEFIKKYTQN-------TQI-IVEIIT-GNMPQ------AHRRKALERIAHGQAHIIIGT-HALFQDSIQYYKLILVIV 400 (700) Q Consensus 337 H~~~~~~~~~~-------~~i-~v~lLt-g~~~~------~er~~i~~~i~~G~~~iiIGT-HAL~q~~v~F~~LgLvVi 400 (700) .-.-+.++|-. -+- -++-=- |+++. .++-.-++.--+|.-.=.=|. .-|+++.-.-+-+-.|.| T Consensus 222 ~r~lv~~F~f~~~e~~pdW~~~l~~h~wgG~t~~g~y~~~~~~~~~~~~~fsg~g~~F~~aC~eli~~~~~~~~yD~ilI 301 (660) T COG3972 222 MRTLVPEFFFMRVEKQPDWGTKLFCHNWGGLTKEGFYGMYRYICHYYEIPFSGFGNGFDAACKELIADINNKKAYDYILI 301 (660) T ss_pred HHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCCCCCHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCEEEE T ss_conf 99999999998862488724268884357878886038899984266545478774067999999986425642317994 Q ss_pred CCCCCCCH Q ss_conf 21013356 Q gi|254780945|r 401 DEQHRFGV 408 (700) Q Consensus 401 DEQHRFGV 408 (700) ||-+-|-- T Consensus 302 DE~QDFP~ 309 (660) T COG3972 302 DESQDFPQ 309 (660) T ss_pred CCCCCCCH T ss_conf 24554778 No 425 >PHA00350 putative assembly protein Probab=82.17 E-value=1.3 Score=24.40 Aligned_cols=18 Identities=11% Similarity=-0.045 Sum_probs=7.2 Q ss_pred HHHHHCCCCEEEE-EECCC Q ss_conf 9763103873899-97120 Q gi|254780945|r 475 LKVVLSEGKKAYW-ICPQI 492 (700) Q Consensus 475 i~~~l~~g~q~y~-VcPlI 492 (700) .--+|..|+..+| -|+=. T Consensus 364 Clv~Lt~~~~~~~VTC~p~ 382 (402) T PHA00350 364 CVYRLTWESNSRVVTCIPR 382 (402) T ss_pred EEEEEEECCEEEEEECCCC T ss_conf 3899877788558965851 No 426 >cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis. Probab=82.00 E-value=1.4 Score=24.18 Aligned_cols=30 Identities=17% Similarity=0.244 Sum_probs=16.6 Q ss_pred EEECCCCCHHHHHH-HHH-HHHHHHHCCEEEE Q ss_conf 86214422369999-997-3344430545886 Q gi|254780945|r 298 LQGDVGSGKTLVAL-IAM-AAAVEAGGQAVIM 327 (700) Q Consensus 298 LQGDVGSGKTiVA~-~A~-l~~~~~G~Q~alM 327 (700) +-|.+|||||-+|- +.. +.....+.+++++ T Consensus 4 IaG~sgSGKST~a~~l~~~l~~~~~~~~v~ii 35 (220) T cd02025 4 IAGSVAVGKSTTARVLQALLSRWPDHPNVELI 35 (220) T ss_pred EECCCCCCHHHHHHHHHHHHHHCCCCCCEEEE T ss_conf 78899877999999999986002699948999 No 427 >PRK10053 hypothetical protein; Provisional Probab=81.99 E-value=4 Score=20.58 Aligned_cols=64 Identities=16% Similarity=0.290 Sum_probs=48.6 Q ss_pred HHHCCCCCEEEEEEEEEEEEEECCCCCCEEEEEEECCCCEEEEEEECCCHHHHHHHCCCCCEEEEEEEEEECC Q ss_conf 7888998789999999897542158983389999818936999995188789987328988899998997318 Q gi|254780945|r 61 ISEISEERIVTITGYISQHSSFQLQKRRPYKILLNDGTGEITLLFFYRKTEMLKNVFFEGRKITVTGKIKKLK 133 (700) Q Consensus 61 I~~l~~g~~vti~g~V~~~~~~~~~~r~~~~v~v~D~tg~i~lvfFn~~~~yl~k~lk~G~~v~vsGKv~~~~ 133 (700) -.++.++..|++.|.|++... . =...+.|.||.|.+-.=+. -|--....+.+.|.++|+|..-. T Consensus 55 Ak~m~Dda~V~L~GnIv~~lg----~---d~Y~FrD~TG~I~VeId~~--~W~G~~VtP~d~V~I~GeVDke~ 118 (130) T PRK10053 55 AKTMHDGATVSLRGNLIDHKG----D---DRYVFRDKSGEINVIIPAA--VFDGREVQPDQMININGSLDKKS 118 (130) T ss_pred HHHCCCCCEEEEEEEEEEECC----C---CEEEEECCCCCEEEEECHH--HCCCCCCCCCCEEEEEEEECCCC T ss_conf 864669984999888886148----8---3489977997599996777--74897859998789988972566 No 428 >PRK10365 transcriptional regulatory protein ZraR; Provisional Probab=81.92 E-value=2.1 Score=22.71 Aligned_cols=35 Identities=26% Similarity=0.388 Sum_probs=22.0 Q ss_pred HHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHH Q ss_conf 9999999998410013430788621442236999999 Q gi|254780945|r 277 QESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIA 313 (700) Q Consensus 277 Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A 313 (700) =+++.+.|..= ......-|++|..|+||..+|-.- T Consensus 148 m~~v~~~i~~~--A~s~~pVLI~GE~GTGK~~~Ar~I 182 (441) T PRK10365 148 MQHLLSEIALV--APSEATVLIHGDSGTGKELVARAI 182 (441) T ss_pred HHHHHHHHHHH--HCCCCCEEEECCCCHHHHHHHHHH T ss_conf 99999999998--488994899899981099999999 No 429 >pfam06068 TIP49 TIP49 C-terminus. This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the pfam00004 domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear Probab=81.86 E-value=2.5 Score=22.18 Aligned_cols=132 Identities=19% Similarity=0.337 Sum_probs=64.5 Q ss_pred HHHHHHHH--HHHHHCCCCCCE-E--EEEECCCCCHHHHHHHHHHHHHHHH----------CCEEEEEHHHHHHHHHHHH Q ss_conf 89999999--998410013430-7--8862144223699999973344430----------5458861279999999986 Q gi|254780945|r 276 SQESAIKD--ILQDMSQKNRML-R--ILQGDVGSGKTLVALIAMAAAVEAG----------GQAVIMAPIGILAQQHYEF 340 (700) Q Consensus 276 ~Q~~ai~e--I~~Dl~~~~pM~-R--LLQGDVGSGKTiVA~~A~l~~~~~G----------~Q~alMaPTEILA~QH~~~ 340 (700) +|.+|=+. |.-||-+...|. | ||-|--|||||..|+. +...+... -.++=|--||+|.+ . T Consensus 28 GQ~~AReAagiiv~mIk~~K~aGraiLlaGppGTGKTAlA~a-iakeLG~~vPF~~i~gSEvyS~E~kKTE~L~q----a 102 (395) T pfam06068 28 GQEKAREAAGVIVEMIKEGKIAGRAVLIAGPPGTGKTALAIA-ISKELGEDTPFCPISGSEVYSLEMKKTEALTQ----A 102 (395) T ss_pred CHHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHH-HHHHHCCCCCEEEEEHHEEECCCCCHHHHHHH----H T ss_conf 549999998999999972775773899877999888999999-99974879973450011121256548899999----9 Q ss_pred HHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCE-EEE--ECHHH--CCCCCCCCCCCEEEECCCCCCCHHHH--HH Q ss_conf 2110145786589962464225667687762134754-864--11120--13345544441788521013356889--98 Q gi|254780945|r 341 IKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAH-III--GTHAL--FQDSIQYYKLILVIVDEQHRFGVQQR--LK 413 (700) Q Consensus 341 ~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~-iiI--GTHAL--~q~~v~F~~LgLvViDEQHRFGV~QR--~~ 413 (700) |++- .|+++ +|.+++++ |++- |-+ ..|.+ ......--.++|--.|++-.|-+... .. T Consensus 103 fRrs---IGvrI---------kE~~eVyE----GEV~ei~~~~~~~p~~~~~k~~~~~~itLkT~~~~~~l~l~~~i~e~ 166 (395) T pfam06068 103 FRKA---IGVRI---------KEEKEVYE----GEVVELEIEEAENPLSGYGKTIKHGKITLKTTKMEKTLKLGPKIYEQ 166 (395) T ss_pred HHHH---HCEEE---------EEEEEEEE----EEEEEEEEEECCCCCCCCCCCCEEEEEEEEECCCCEEEECCHHHHHH T ss_conf 9887---55686---------78889999----99999997414688898765403799999975881787258899999 Q ss_pred HHHCCC-CCCCEEECH Q ss_conf 740256-776101010 Q gi|254780945|r 414 LTQKAT-APHVLLMTA 428 (700) Q Consensus 414 L~~Kg~-~ph~L~MtA 428 (700) |...+. .-|+.+.-| T Consensus 167 l~kekV~~GDVI~Id~ 182 (395) T pfam06068 167 LQKEKVQAGDVIYIDK 182 (395) T ss_pred HHHCCCCCCCEEEEEC T ss_conf 9974986687899985 No 430 >TIGR00101 ureG urease accessory protein UreG; InterPro: IPR004400 This is a GTP hydrolase for assembly of the nickel metallocentre of urease. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel. They play a central role in nitrogen metabolism.; GO: 0005524 ATP binding, 0016151 nickel ion binding. Probab=81.86 E-value=2.2 Score=22.66 Aligned_cols=61 Identities=28% Similarity=0.418 Sum_probs=42.3 Q ss_pred EEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHH--CCCCCCEEEEEECCCC Q ss_conf 886214422369999997334443054588612799999999862110--1457865899624642 Q gi|254780945|r 297 ILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKY--TQNTQIIVEIITGNMP 360 (700) Q Consensus 297 LLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~--~~~~~i~v~lLtg~~~ 360 (700) =+.|-||||||.. +-++...+.+.||.|++.- +|-.+.-.+.+.+- +++-- -+..=||+-+ T Consensus 5 G~~GPvG~Gktal-~e~l~~~~~~~y~~av~tn-diyt~eda~fl~~~~~l~~~r-i~GvetGGCP 67 (199) T TIGR00101 5 GVAGPVGSGKTAL-IEALTRELAKKYDLAVITN-DIYTQEDAEFLVKNSVLPPER-ILGVETGGCP 67 (199) T ss_pred EEECCCCCCHHHH-HHHHHHHHHHCCCEEEEEC-CHHHHHHHHHHHHHHCCCCCC-EEEEECCCCC T ss_conf 6504777646899-9999998874066778731-100124688887641266222-6774158987 No 431 >COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair] Probab=81.79 E-value=3.1 Score=21.38 Aligned_cols=101 Identities=23% Similarity=0.304 Sum_probs=53.8 Q ss_pred HHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHH Q ss_conf 99841001343078862144223699999973344430545886127999999998621101457865899624642256 Q gi|254780945|r 284 ILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAH 363 (700) Q Consensus 284 I~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~e 363 (700) |..-+.++..-+=.|-|-=|+|||-+|-+- |. ++..-|..+ .-.++ ..|+ T Consensus 39 lrr~v~~~~l~SmIl~GPPG~GKTTlA~li--------------------A~----~~~~~f~~~----sAv~~--gvkd 88 (436) T COG2256 39 LRRAVEAGHLHSMILWGPPGTGKTTLARLI--------------------AG----TTNAAFEAL----SAVTS--GVKD 88 (436) T ss_pred HHHHHHCCCCCEEEEECCCCCCHHHHHHHH--------------------HH----HHCCCEEEE----CCCCC--CHHH T ss_conf 899996499860577789998888999999--------------------87----617766995----15234--6799 Q ss_pred HHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEEECCCCCCCHHHHHHHHHCCCCCCCEEECHH Q ss_conf 676877621347548641112013345544441788521013356889987402567761010101 Q gi|254780945|r 364 RRKALERIAHGQAHIIIGTHALFQDSIQYYKLILVIVDEQHRFGVQQRLKLTQKATAPHVLLMTAT 429 (700) Q Consensus 364 r~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFGV~QR~~L~~Kg~~ph~L~MtAT 429 (700) =+++.+.-+.- ..-| +=-+..|||=|||-=.|-..|..-=++-.++..-|| T Consensus 89 lr~i~e~a~~~---~~~g------------r~tiLflDEIHRfnK~QQD~lLp~vE~G~iilIGAT 139 (436) T COG2256 89 LREIIEEARKN---RLLG------------RRTILFLDEIHRFNKAQQDALLPHVENGTIILIGAT 139 (436) T ss_pred HHHHHHHHHHH---HHCC------------CCEEEEEEHHHHCCHHHHHHHHHHHCCCEEEEEECC T ss_conf 99999999998---7258------------834998722533374456551033248868999626 No 432 >COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair] Probab=81.57 E-value=1.8 Score=23.35 Aligned_cols=98 Identities=19% Similarity=0.276 Sum_probs=56.7 Q ss_pred EEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHH-HHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCC Q ss_conf 8862144223699999973344430545886127-999999998621101457865899624642256676877621347 Q gi|254780945|r 297 ILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPI-GILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQ 375 (700) Q Consensus 297 LLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPT-EILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~ 375 (700) +|.|.||+|||=..-++...+..++..+.++-=| |--. ..+. ..+.++ T Consensus 117 fi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~se~f~----~~~v--------------------------~a~~~~- 165 (408) T COG0593 117 FIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSEDFT----NDFV--------------------------KALRDN- 165 (408) T ss_pred EEECCCCCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHH----HHHH--------------------------HHHHHH- T ss_conf 998799997899999999999862998648850489989----9999--------------------------998850- Q ss_pred CEEEEECHHHCCCCCCCCCCCEEEECCCCCCCHH---HHH------HHHHCCCCCCCEEECHHHHHHHHHH Q ss_conf 5486411120133455444417885210133568---899------8740256776101010132278999 Q gi|254780945|r 376 AHIIIGTHALFQDSIQYYKLILVIVDEQHRFGVQ---QRL------KLTQKATAPHVLLMTATPIPRTLVL 437 (700) Q Consensus 376 ~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFGV~---QR~------~L~~Kg~~ph~L~MtATPIPRTLal 437 (700) +--=|-+ .| ++-+++||-=|.|+-. |.+ .|.+.| ..|++|+-=-|..|.. T Consensus 166 ------~~~~Fk~--~y-~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~---kqIvltsdr~P~~l~~ 224 (408) T COG0593 166 ------EMEKFKE--KY-SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENG---KQIVLTSDRPPKELNG 224 (408) T ss_pred ------HHHHHHH--HH-CCCEEEECHHHHHCCCHHHHHHHHHHHHHHHHCC---CEEEEECCCCCHHHCC T ss_conf ------4888887--64-2673555138675677157999999999888508---8799970788322110 No 433 >PRK06751 single-stranded DNA-binding protein; Provisional Probab=81.34 E-value=4.2 Score=20.41 Aligned_cols=63 Identities=14% Similarity=0.286 Sum_probs=41.1 Q ss_pred EEEEEEEEEEEEEECCC-C-CCEEEEE--EE----C-----CCCEEEEEEECCCHHHHHHHCCCCCEEEEEEEEEE Q ss_conf 89999999897542158-9-8338999--98----1-----89369999951887899873289888999989973 Q gi|254780945|r 69 IVTITGYISQHSSFQLQ-K-RRPYKIL--LN----D-----GTGEITLLFFYRKTEMLKNVFFEGRKITVTGKIKK 131 (700) Q Consensus 69 ~vti~g~V~~~~~~~~~-~-r~~~~v~--v~----D-----~tg~i~lvfFn~~~~yl~k~lk~G~~v~vsGKv~~ 131 (700) .|++.|.+.+-..+++. . .....+. +. | ++.-+.++.|+.....+.+.+++|+.|+|.|+++. T Consensus 3 kV~LiGrL~~DPElr~t~~G~~v~~f~lAv~r~~~~~~g~~~td~~~vv~wgk~AE~~~~yl~KG~~V~VeGrl~~ 78 (172) T PRK06751 3 RVILVGRLTKDPDLRYTPNGVAVATFTLAVNRAFANQQGEREADFINCVIWRKQAENVANYLKKGSLAGVDGRLQT 78 (172) T ss_pred EEEEEEECCCCCEEEECCCCCEEEEEEEEECCCEECCCCCEEEEEEEEEEECHHHHHHHHHHCCCCEEEEEEEEEC T ss_conf 7999987687875888899987999999966760267897677899999728889999987578998999998624 No 434 >COG1485 Predicted ATPase [General function prediction only] Probab=80.99 E-value=1.5 Score=23.82 Aligned_cols=72 Identities=21% Similarity=0.220 Sum_probs=40.8 Q ss_pred EEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCC Q ss_conf 88621442236999999733444305458861279999999986211014578658996246422566768776213475 Q gi|254780945|r 297 ILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQA 376 (700) Q Consensus 297 LLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~ 376 (700) -|-|+||+|||.. |-... + .+|.+---+.||..|....-. + +..+. |+. T Consensus 69 Yl~GgVGrGKT~L----MD~Fy----~---~lp~~~k~R~HFh~FM~~vH~---~----------------l~~l~-g~~ 117 (367) T COG1485 69 YLWGGVGRGKTML----MDLFY----E---SLPGERKRRLHFHRFMARVHQ---R----------------LHTLQ-GQT 117 (367) T ss_pred EEECCCCCCHHHH----HHHHH----H---HCCCCCCCCCCHHHHHHHHHH---H----------------HHHHC-CCC T ss_conf 8889978649999----99998----6---587645665507799999999---9----------------99971-888 Q ss_pred EEEEECHHHCCCCCCCCCCCEEEECCCC Q ss_conf 4864111201334554444178852101 Q gi|254780945|r 377 HIIIGTHALFQDSIQYYKLILVIVDEQH 404 (700) Q Consensus 377 ~iiIGTHAL~q~~v~F~~LgLvViDEQH 404 (700) +.+-..-+=+ +++--+..+||=| T Consensus 118 dpl~~iA~~~-----~~~~~vLCfDEF~ 140 (367) T COG1485 118 DPLPPIADEL-----AAETRVLCFDEFE 140 (367) T ss_pred CCCHHHHHHH-----HHCCCEEEEEEEE T ss_conf 8657999999-----8417889863036 No 435 >PRK08694 consensus Probab=80.89 E-value=4.3 Score=20.30 Aligned_cols=73 Identities=15% Similarity=0.113 Sum_probs=45.2 Q ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHCC-EEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHH Q ss_conf 7886214422369999997334443054-58861279999999986211014578658996246422566768776 Q gi|254780945|r 296 RILQGDVGSGKTLVALIAMAAAVEAGGQ-AVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALER 370 (700) Q Consensus 296 RLLQGDVGSGKTiVA~~A~l~~~~~G~Q-~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~ 370 (700) -.+=|--|.|||..|+--+..++..|++ |+|..- |.=++|-+..+-.-....+. -.+-+|.++..+...+... T Consensus 221 iVIaaRPsmGKTalalnia~~~a~~~~~~V~~fSL-EMs~~~l~~Rlla~~s~v~~-~~i~~g~l~~~e~~~~~~a 294 (468) T PRK08694 221 IIVAGRPSMGKTAFSINIAEHVAVEGKLPVAVFSM-EMGGAQLVMRMLGSVGRLDQ-SVLKTGRLEDEHWGRLNEA 294 (468) T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHCCCCEEEECC-CCCHHHHHHHHHHHHCCCCH-HHCCCCCCCHHHHHHHHHH T ss_conf 99961786537899999999999847984799778-89999999999997259863-2110489999999999999 No 436 >KOG3928 consensus Probab=80.85 E-value=2.4 Score=22.27 Aligned_cols=38 Identities=24% Similarity=0.431 Sum_probs=30.9 Q ss_pred CCCCEE-EEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEH Q ss_conf 134307-886214422369999997334443054588612 Q gi|254780945|r 291 KNRMLR-ILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAP 329 (700) Q Consensus 291 ~~pM~R-LLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaP 329 (700) ..|-.| +|-|.+||||||--.-|...|+++ .+..+=+| T Consensus 176 ~~P~~r~vL~Ge~GtGKSiaL~qa~h~a~~~-~wlIlhip 214 (461) T KOG3928 176 MHPVKRFVLDGEPGTGKSIALAQAVHYAADQ-KWLILHIP 214 (461) T ss_pred CCCCEEEEEECCCCCCHHHHHHHHHHHHHCC-CEEEEECC T ss_conf 6763589985799876205999999987317-85999778 No 437 >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=80.78 E-value=4.3 Score=20.28 Aligned_cols=156 Identities=16% Similarity=0.090 Sum_probs=73.8 Q ss_pred EEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCH-HHHHHHHHHHC-CC Q ss_conf 88621442236999999733444305458861279999999986211014578658996246422-56676877621-34 Q gi|254780945|r 297 ILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQ-AHRRKALERIA-HG 374 (700) Q Consensus 297 LLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~-~er~~i~~~i~-~G 374 (700) ++-|=-|+|||--.+--+.....+|+.+++.+= .-----=.+.++.|-+.+++++.-....... +--++.++.-+ ++ T Consensus 4 ~lvGptGvGKTTTiaKLA~~~~~~~~kV~lit~-Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (173) T cd03115 4 LLVGLQGVGKTTTAAKLALYLKKKGKKVLLVAA-DTYRPAAIEQLRVLGEQVGVPVFEEGEGKDPVSIAKRAIEHAREEN 82 (173) T ss_pred EEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEC-CCCCHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHHHCC T ss_conf 998999998899999999999976992899974-8875779999999999749859922775587999999999987568 Q ss_pred CCEEEEECHHHCCCCCCCCCCCEEEECCCCCCCHHHHHHHHH-CCCCCCCEEECHHHHHHHHHH--HHHHCCCHHHHCCC Q ss_conf 754864111201334554444178852101335688998740-256776101010132278999--97520101111023 Q gi|254780945|r 375 QAHIIIGTHALFQDSIQYYKLILVIVDEQHRFGVQQRLKLTQ-KATAPHVLLMTATPIPRTLVL--TSLGDIDISKITEK 451 (700) Q Consensus 375 ~~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFGV~QR~~L~~-Kg~~ph~L~MtATPIPRTLal--~~ygdldvS~i~e~ 451 (700) .--|+|-|----+. |+++ .+|=..+.. -.....+|+|+||.=...+.. ..+. .. T Consensus 83 ~D~IlIDTaGr~~~------------d~~~---~~el~~l~~~~~p~~~~LVl~a~~~~~~~~~~~~f~~--------~~ 139 (173) T cd03115 83 FDVVIVDTAGRLQI------------DENL---MEELKKIKRVVKPDEVLLVVDAMTGQDAVNQAKAFNE--------AL 139 (173) T ss_pred CCEEEEECCCCCCC------------CHHH---HHHHHHHHHHHCCCCCEEECCCCCHHHHHHHHHHHHH--------CC T ss_conf 99899978887879------------9999---9999999864489721574246550658999999874--------27 Q ss_pred CCCCCCCEEEEEECCCHHHHHHHHHH Q ss_conf 55766620799970200268999976 Q gi|254780945|r 452 PAGRKPIKTVIIPINRIDEVIERLKV 477 (700) Q Consensus 452 P~gR~~I~T~~~~~~~~~~~~~~i~~ 477 (700) |.. .=|.|++=+..+...+++.+.+ T Consensus 140 ~~~-~~I~TKlDet~~~G~~ls~~~~ 164 (173) T cd03115 140 GIT-GVILTKLDGDARGGAALSIRAV 164 (173) T ss_pred CCC-EEEEEEECCCCCCCHHHHHHHH T ss_conf 997-8999714389975799999999 No 438 >cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion. Probab=80.77 E-value=1.4 Score=24.15 Aligned_cols=30 Identities=30% Similarity=0.411 Sum_probs=26.0 Q ss_pred EECCCCCHHHHHHHHHHHHHHHHCCEEEEE Q ss_conf 621442236999999733444305458861 Q gi|254780945|r 299 QGDVGSGKTLVALIAMAAAVEAGGQAVIMA 328 (700) Q Consensus 299 QGDVGSGKTiVA~~A~l~~~~~G~Q~alMa 328 (700) .|=-|+|||-+|..-+....+.|+.+++.- T Consensus 5 ~~~kGvGKTT~a~~La~~la~~g~~Vl~vD 34 (99) T cd01983 5 TGKGGVGKTTLAANLAAALAKRGKRVLLID 34 (99) T ss_pred ECCCCCCHHHHHHHHHHHHHHCCCEEEEEC T ss_conf 589977689999999999998899699986 No 439 >COG3911 Predicted ATPase [General function prediction only] Probab=80.70 E-value=2 Score=22.90 Aligned_cols=44 Identities=36% Similarity=0.403 Sum_probs=34.7 Q ss_pred CCCEE----EEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHH Q ss_conf 34307----8862144223699999973344430545886127999999998 Q gi|254780945|r 292 NRMLR----ILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYE 339 (700) Q Consensus 292 ~pM~R----LLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~ 339 (700) .|||| .|-|--|+|||.. ..+-...|+-+.--+|+.|.+.|-.+ T Consensus 4 ~~~nR~~~fIltGgpGaGKTtL----L~aLa~~Gfatvee~~r~ii~~es~~ 51 (183) T COG3911 4 RPFNRHKRFILTGGPGAGKTTL----LAALARAGFATVEEAGRDIIALESAQ 51 (183) T ss_pred CCCCCCEEEEEECCCCCCHHHH----HHHHHHCCCEEECCCHHHHHHHHHHC T ss_conf 6456533899837999768999----99999758635013416689998754 No 440 >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=80.63 E-value=4.4 Score=20.24 Aligned_cols=92 Identities=30% Similarity=0.316 Sum_probs=54.5 Q ss_pred EEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCC Q ss_conf 88621442236999999733444305458861279999999986211014578658996246422566768776213475 Q gi|254780945|r 297 ILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQA 376 (700) Q Consensus 297 LLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~ 376 (700) .|.|..|||||=.+-..+-.+-..|..+.++.. +-+. .++.+ +++. T Consensus 42 ~i~G~~GsGKTHLl~a~~~~~~~~~~~~~yl~~-~~~~--------~~~~~-------------------~l~~------ 87 (226) T TIGR03420 42 YLWGESGSGKSHLLQAACAAAEERGKSAIYLPL-AELA--------QADPE-------------------VLEG------ 87 (226) T ss_pred EEECCCCCCHHHHHHHHHHHHHCCCCCEEEECH-HHHH--------HHHHH-------------------HHHH------ T ss_conf 998999998899999999998626995799529-9987--------75399-------------------9972------ Q ss_pred EEEEECHHHCCCCCCCCCCCEEEECCCCCCCHHHHH--HH---HH-CCCCCCCEEECHHHHHHHHHH Q ss_conf 486411120133455444417885210133568899--87---40-256776101010132278999 Q gi|254780945|r 377 HIIIGTHALFQDSIQYYKLILVIVDEQHRFGVQQRL--KL---TQ-KATAPHVLLMTATPIPRTLVL 437 (700) Q Consensus 377 ~iiIGTHAL~q~~v~F~~LgLvViDEQHRFGV~QR~--~L---~~-Kg~~ph~L~MtATPIPRTLal 437 (700) +++.-+++||.=|.+.-++.. .| .. --.+-..+++|++.-|+.+.. T Consensus 88 ---------------l~~~d~l~iDDi~~i~~~~~~e~~lF~l~N~~~~~~~~ilits~~~p~~l~~ 139 (226) T TIGR03420 88 ---------------LEQADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPL 139 (226) T ss_pred ---------------CCCCCEEEEECHHHHCCCHHHHHHHHHHHHHHHHHCCEEEEECCCCHHHCCC T ss_conf ---------------7448999996633343783789999999999986528289867888232032 No 441 >PRK10820 DNA-binding transcriptional regulator TyrR; Provisional Probab=80.58 E-value=2 Score=22.90 Aligned_cols=100 Identities=20% Similarity=0.231 Sum_probs=49.9 Q ss_pred CCCEEEEEECCCCCHHHHHHHHHHHHHHH-HCCEEEEE---HHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHH Q ss_conf 34307886214422369999997334443-05458861---279999999986211014578658996246422566768 Q gi|254780945|r 292 NRMLRILQGDVGSGKTLVALIAMAAAVEA-GGQAVIMA---PIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKA 367 (700) Q Consensus 292 ~pM~RLLQGDVGSGKTiVA~~A~l~~~~~-G~Q~alMa---PTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i 367 (700) ..+.-|++|..|+||..+|-.--...-.+ +-=+++=+ |.+.+... +|+.. T Consensus 226 ~d~pVLI~GEsGTGKellAraIH~~S~R~~~pFv~vnC~alp~~l~ese-------LFG~a------------------- 279 (513) T PRK10820 226 LSAPLLITGDTGTGKDLFAYACHLASPRAKKPYLALNCASIPEDAVESE-------LFGHA------------------- 279 (513) T ss_pred CCCCEEEECCCCCCHHHHHHHHHHCCCCCCCCCEEEECCCCCHHHHHHH-------HCCCC------------------- T ss_conf 8998899898982499999999966887899826888998996789998-------63876------------------- Q ss_pred HHHHCCCCCEEEEECHHHCCCCCCCCCCCEEEECCCCCCCHHHHHHHHH----C-----C----CCCCCEEECHHHHH Q ss_conf 7762134754864111201334554444178852101335688998740----2-----5----67761010101322 Q gi|254780945|r 368 LERIAHGQAHIIIGTHALFQDSIQYYKLILVIVDEQHRFGVQQRLKLTQ----K-----A----TAPHVLLMTATPIP 432 (700) Q Consensus 368 ~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFGV~QR~~L~~----K-----g----~~ph~L~MtATPIP 432 (700) ..|+ .-+| +-.+=|-+..||=+.-....-.+|.. + | ...|+=+++||--+ T Consensus 280 ----~~~~-------~G~f----e~A~gGTLfLdEI~~l~~~~Q~kLLr~Lq~~~~~rvG~~~~~~~dvRiIaaT~~d 342 (513) T PRK10820 280 ----PEGK-------KGFF----EQANGGSVLLDEIGEMSPRMQAKLLRFLNDGTFRRVGEDHEVHVDVRVICATQKN 342 (513) T ss_pred ----CCCC-------CCCE----EECCCCEEEEECHHHCCHHHHHHHHHHHHCCEEEECCCCCEEEEEEEEEECCCHH T ss_conf ----6688-------9755----7858988999783659999999999998689799659985356778999626530 No 442 >PRK10246 exonuclease subunit SbcC; Provisional Probab=80.49 E-value=1.3 Score=24.46 Aligned_cols=13 Identities=23% Similarity=0.483 Sum_probs=10.0 Q ss_pred HHCCCCCEEEEEC Q ss_conf 6213475486411 Q gi|254780945|r 370 RIAHGQAHIIIGT 382 (700) Q Consensus 370 ~i~~G~~~iiIGT 382 (700) .+..|+++-|-|- T Consensus 499 ~L~~G~pCPVCGS 511 (1047) T PRK10246 499 QLQAGQPCPLCGS 511 (1047) T ss_pred HCCCCCCCCCCCC T ss_conf 6479998999999 No 443 >TIGR00963 secA preprotein translocase, SecA subunit; InterPro: IPR000185 Secretion across the inner membrane in some Gram-negative bacteria occurs via the preprotein translocase pathway. Proteins are produced in the cytoplasm as precursors, and require a chaperone subunit to direct them to the translocase component. . From there, the mature proteins are either targeted to the outer membrane, or remain as periplasmic proteins. The translocase protein subunits are encoded on the bacterial chromosome. The translocase itself comprises 7 proteins, including a chaperone protein (SecB), an ATPase (SecA), an integral membrane complex (SecCY, SecE and SecG), and two additional membrane proteins that promote the release of the mature peptide into the periplasm (SecD and SecF) . The chaperone protein SecB is a highly acidic homotetrameric protein that exists as a "dimer of dimers" in the bacterial cytoplasm. SecB maintains preproteins in an unfolded state after translation, and targets these to the peripheral membrane protein ATPase SecA for secretion . SecA is a cytoplasmic protein of 800 to 960 amino acid residues. Homologs of secA are also encoded in the chloroplast genome of some algae as well as in the nuclear genome of plants . It could be involved in the intraorganellar protein transport into thylakoids.; GO: 0005524 ATP binding, 0006605 protein targeting, 0006886 intracellular protein transport. Probab=80.46 E-value=0.6 Score=27.02 Aligned_cols=81 Identities=28% Similarity=0.431 Sum_probs=48.5 Q ss_pred HHHHCCCCCCCCEEE-EEEECCCCCHHHHHHHHHHHHHCHHHHHHHHHHHHCCCCCCCCCHHCC-CCCCCCCC-HHHHHH Q ss_conf 730116678983599-997088899879999999984142589999998520630002600069-87440003-887599 Q gi|254780945|r 578 QLRGRVGRGEEISSC-ILLYHPPLSKNSYTRLSVLKNTEDGFLIAEEDLKQRKEGEILGIKQSG-MPKFLIAQ-PELHDS 654 (700) Q Consensus 578 QLRGRVGRg~~~s~c-~l~~~~~~~~~~~~Rl~~l~~~~dGf~iAe~Dl~lRG~G~~~G~~QsG-~~~~~~~d-~~~d~~ 654 (700) |||||=||-+.+|-- |++ |=+|=-||=+| |.+=.+ +..|.+.| .--... T Consensus 645 QLRGRsGRQGDPG~SrFfL-------------------------SleD~LmR~Fg---~drl~~~m~~lg~~dd~Pies~ 696 (904) T TIGR00963 645 QLRGRSGRQGDPGSSRFFL-------------------------SLEDNLMRIFG---GDRLKGLMRRLGLEDDEPIESK 696 (904) T ss_pred CCCCCCCCCCCCCCCCEEE-------------------------CHHHHHHHHCC---CHHHHHHHHHCCCCCCCCCCCH T ss_conf 1023243638498731120-------------------------01014776518---7789999986388888966526 Q ss_pred HHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHH Q ss_conf 99999999999998484636655648899998512545677 Q gi|254780945|r 655 LLEIARKDAKHILTQDPDLTSVRGQSIRILLYLYQYNEAFQ 695 (700) Q Consensus 655 ll~~a~~~a~~~~~~d~~l~~~~~~~l~~~~~~~~~~~~~~ 695 (700) ++..|=+.||.=++. .|=.+|+-| |+||+.+. T Consensus 697 ~v~r~le~AQKrVE~-------~Nfd~RK~l--leYDdVlN 728 (904) T TIGR00963 697 MVTRALESAQKRVEA-------RNFDIRKQL--LEYDDVLN 728 (904) T ss_pred HHHHHHHHHHHHHHH-------HHHHHHHHH--HHHHHHHH T ss_conf 788999998889863-------000343113--12679999 No 444 >PRK06863 single-stranded DNA-binding protein; Provisional Probab=80.46 E-value=4.4 Score=20.20 Aligned_cols=65 Identities=20% Similarity=0.359 Sum_probs=39.1 Q ss_pred CEEEEEEEEEEEEEECCC--CCCE--EEEEEE----C-CCC-------EEEEEEECCCHHHHHHHCCCCCEEEEEEEEEE Q ss_conf 789999999897542158--9833--899998----1-893-------69999951887899873289888999989973 Q gi|254780945|r 68 RIVTITGYISQHSSFQLQ--KRRP--YKILLN----D-GTG-------EITLLFFYRKTEMLKNVFFEGRKITVTGKIKK 131 (700) Q Consensus 68 ~~vti~g~V~~~~~~~~~--~r~~--~~v~v~----D-~tg-------~i~lvfFn~~~~yl~k~lk~G~~v~vsGKv~~ 131 (700) ..|++.|.+.+-..+++. +... +.+-+. | .+| -+.+++|+.....+.+.|++|+.|+|.|+++. T Consensus 5 NkV~LiGnlg~DPElr~t~sG~~v~~fslA~~~~~~~~~~ge~~e~t~w~~v~~wgk~AE~~~~yl~KG~~V~VeGrL~~ 84 (168) T PRK06863 5 NKVIIVGHLGNDPEIRTMPNGEAVANISVATSESWTDKNTGERREVTEWHRIVFYRRQAEVAGEYLRKGSQVYVEGRLKT 84 (168) T ss_pred CEEEEEEECCCCCEEEECCCCCEEEEEEEEECCCCEECCCCEEEEECHHHHHHHCHHHHHHHHHHHCCCCEEEEEEEEEE T ss_conf 88999874686854888799987999999961561205887377502032120056899999987568987999888875 Q ss_pred C Q ss_conf 1 Q gi|254780945|r 132 L 132 (700) Q Consensus 132 ~ 132 (700) - T Consensus 85 r 85 (168) T PRK06863 85 R 85 (168) T ss_pred C T ss_conf 5 No 445 >PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional Probab=80.30 E-value=2.7 Score=21.86 Aligned_cols=36 Identities=22% Similarity=0.369 Sum_probs=23.1 Q ss_pred HHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHH Q ss_conf 89999999998410013430788621442236999999 Q gi|254780945|r 276 SQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIA 313 (700) Q Consensus 276 ~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A 313 (700) +-+++.+.|.. + .+.+.+-|++|..|+||.+||-.- T Consensus 151 ~m~~v~~~i~~-~-A~s~~~VLI~GEsGTGKe~~Ar~I 186 (457) T PRK11361 151 AMMDICKDTAK-I-ALSQASVLISGESGTGKELIARAI 186 (457) T ss_pred HHHHHHHHHHH-H-HCCCCCEEEECCCCCCHHHHHHHH T ss_conf 99999999999-8-488995899889985789999999 No 446 >KOG0701 consensus Probab=80.20 E-value=0.61 Score=26.95 Aligned_cols=66 Identities=17% Similarity=0.115 Sum_probs=35.3 Q ss_pred HHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEE-CHHHCCHHHHHHHHHCC-----------CCCCCCEEEEEEE Q ss_conf 99999999755986999980034104688876589985-85254746887730116-----------6789835999970 Q gi|254780945|r 529 DKESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIE-NAEHFGLAQLHQLRGRV-----------GRGEEISSCILLY 596 (700) Q Consensus 529 ek~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~-~aerfGLsqLHQLRGRV-----------GRg~~~s~c~l~~ 596 (700) -++..-..|+.+++..+++|.+-+.|-|+- +++.++ ...+--.--+-|=|||| -||..++--.+.. T Consensus 709 ~rn~~~~~~~~~~v~~~~~pss~~~g~~~~--~~~~v~~~~~~~~i~~~~q~~~~~~~~~s~l~~~~~r~~~~~~~~l~~ 786 (1606) T KOG0701 709 YRNDDQPQFYVAEVLPLLAPSSLFPGLDYE--TFNEVYRFKYALTITSLNQSLLDVDHTSSRLNLLVPRGDNQKGSALPN 786 (1606) T ss_pred HHCCCCCCEEEEEEEEECCCHHCCCCCCHH--EEEEEEECCCCCHHHHCCCCCCCCCCCHHHHCCCCCHHHCCCCCEEEC T ss_conf 424664414654312302631017996621--002356404100122122100355553123202575333146624541 No 447 >TIGR00382 clpX ATP-dependent Clp protease, ATP-binding subunit ClpX; InterPro: IPR004487 ClpX is a member of the HSP (heat-shock protein) 100 family. Gel filtration and electron microscopy showed that ClpX subunits associate to form a six-membered ring that is stabilized by binding of ATP or nonhydrolyzable analogs of ATP . It functions as an ATP-depedent molecular chaperone and is the regulatory subunit of the ClpXP protease . ClpXP is involved in DNA damage repair, stationary-phase gene expression, and ssrA-mediated protein quality control. To date more than 50 proteins include transcription factors, metabolic enzymes, and proteins involved in the starvation and oxidative stress responses have been identified as substrates . The N-terminal domain of ClpX is a C4-type zinc binding domain (ZBD) involved in substrate recognition. ZBD forms a very stable dimer that is essential for promoting the degradation of some typical ClpXP substrates such as lO and MuA . ; GO: 0005515 protein binding, 0005524 ATP binding, 0016887 ATPase activity, 0015031 protein transport. Probab=80.15 E-value=0.95 Score=25.47 Aligned_cols=19 Identities=47% Similarity=0.648 Sum_probs=15.3 Q ss_pred CCCEEEEEECCCCCHHHHH Q ss_conf 3430788621442236999 Q gi|254780945|r 292 NRMLRILQGDVGSGKTLVA 310 (700) Q Consensus 292 ~pM~RLLQGDVGSGKTiVA 310 (700) ..-|-||-|=.|||||+.| T Consensus 151 ~KSNILLiGPTGSGKTLLA 169 (452) T TIGR00382 151 SKSNILLIGPTGSGKTLLA 169 (452) T ss_pred HCCCEEEECCCCCCHHHHH T ss_conf 0066245468885268999 No 448 >PRK07275 single-stranded DNA-binding protein; Provisional Probab=80.13 E-value=4.5 Score=20.12 Aligned_cols=63 Identities=21% Similarity=0.286 Sum_probs=41.2 Q ss_pred EEEEEEEEEEEEEECCC--CCCEEEEEEE------C-----CCCEEEEEEECCCHHHHHHHCCCCCEEEEEEEEEE Q ss_conf 89999999897542158--9833899998------1-----89369999951887899873289888999989973 Q gi|254780945|r 69 IVTITGYISQHSSFQLQ--KRRPYKILLN------D-----GTGEITLLFFYRKTEMLKNVFFEGRKITVTGKIKK 131 (700) Q Consensus 69 ~vti~g~V~~~~~~~~~--~r~~~~v~v~------D-----~tg~i~lvfFn~~~~yl~k~lk~G~~v~vsGKv~~ 131 (700) .|++.|.+.+-..+++. +....++.+. | .+.-+.|+.|+.....+.+.+++|..|+|.|+++. T Consensus 4 kV~LiGrl~~DpElr~t~~G~~v~~fslAv~r~~k~~~ge~~td~~~~v~wg~~AE~~~~yl~KG~~V~VeGrl~~ 79 (163) T PRK07275 4 NVVLVGRMTRDAELRYTPSNVAVATFTLAVNRTFKSQNGEREADFINCVIWRQQAENLANWAKKGALIGVTGRIQT 79 (163) T ss_pred EEEEEEECCCCCEEEECCCCCEEEEEEEEECCCEECCCCCCCCEEEEEEECCHHHHHHHHHHCCCCEEEEEEEEEC T ss_conf 6999896588863889899988999999847855878895033089999807789999987458999999999721 No 449 >pfam07015 VirC1 VirC1 protein. This family consists of several bacterial VirC1 proteins. In Agrobacterium tumefaciens, a cis-active 24-base-pair sequence adjacent to the right border of the T-DNA, called overdrive, stimulates tumour formation by increasing the level of T-DNA processing. It is thought that the virC operon which enhances T-DNA processing probably does so because the VirC1 protein interacts with overdrive. It has now been shown that the virC1 gene product binds to overdrive but not to the right border of T-DNA. Probab=79.90 E-value=1.7 Score=23.56 Aligned_cols=31 Identities=19% Similarity=0.200 Sum_probs=25.6 Q ss_pred EEECCCCCHHHHHHHHHHHHHHHHCCEEEEE Q ss_conf 8621442236999999733444305458861 Q gi|254780945|r 298 LQGDVGSGKTLVALIAMAAAVEAGGQAVIMA 328 (700) Q Consensus 298 LQGDVGSGKTiVA~~A~l~~~~~G~Q~alMa 328 (700) .+.-=|||||-+|+.-+......|+.|+++= T Consensus 7 ~~~KGG~GKtT~a~~la~~~~~~g~~V~liD 37 (231) T pfam07015 7 CSFKGGAGKTTALMGLCSALASDGKRVALFE 37 (231) T ss_pred EECCCCCCHHHHHHHHHHHHHHCCCEEEEEE T ss_conf 6179986599999999999996899599996 No 450 >PRK13765 ATP-dependent protease Lon; Provisional Probab=79.89 E-value=4.6 Score=20.07 Aligned_cols=102 Identities=16% Similarity=0.315 Sum_probs=50.4 Q ss_pred EECHH--HC-CCCCCCCCCCEEEECCCCCCCHHHHHHH----HHC-----CCCCC---CEEECHHHHHHHHHHHHHHCCC Q ss_conf 41112--01-3345544441788521013356889987----402-----56776---1010101322789999752010 Q gi|254780945|r 380 IGTHA--LF-QDSIQYYKLILVIVDEQHRFGVQQRLKL----TQK-----ATAPH---VLLMTATPIPRTLVLTSLGDID 444 (700) Q Consensus 380 IGTHA--L~-q~~v~F~~LgLvViDEQHRFGV~QR~~L----~~K-----g~~ph---~L~MtATPIPRTLal~~ygdld 444 (700) .||-| -+ --.+.=.|=|..+|||-.--+..+-..| .+| |.++. -.+ -.-|+|=..-|...|++| T Consensus 209 lgTPah~Rv~aGAiHkA~gGvL~IDei~~L~~~~q~~Ll~alq~~k~~I~g~~e~SsgA~v-~tepvP~Df~lV~aGn~d 287 (637) T PRK13765 209 LETPAHERVEAGAIHKAHKGVLFIDEINTLRLESQQSLLTAMQEKKYPITGQSERSSGAMV-RTEPVPCDFIMVAAGNLD 287 (637) T ss_pred CCCCCEEEECCCHHHHCCCCEEEEEHHHHCCHHHHHHHHHHHHCCCEECCCCCCCCCCCCC-CCCCCCEEEEEEEECCHH T ss_conf 8999610002661211358569984456479889999999996591532368866677625-789866136999953727 Q ss_pred H-HHHCCCCCCCCCCE---EEEE-------ECCCHHHHHHHHHHHHCCCCE Q ss_conf 1-11102355766620---7999-------702002689999763103873 Q gi|254780945|r 445 I-SKITEKPAGRKPIK---TVII-------PINRIDEVIERLKVVLSEGKK 484 (700) Q Consensus 445 v-S~i~e~P~gR~~I~---T~~~-------~~~~~~~~~~~i~~~l~~g~q 484 (700) . ..+ .|+-|--|. -.+. +.+++.++..||..++++-+. T Consensus 288 ~~~~m--~palrsri~g~gyev~~~~~m~dt~enr~k~arfiaqev~~dg~ 336 (637) T PRK13765 288 AIENM--HPALRSRIRGYGYEVYMNDTMEDTPENRKKLVRFVAQEVKRDGK 336 (637) T ss_pred HHHHC--CHHHHHHHHCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCC T ss_conf 66643--99888651047749982356778788999999999999974388 No 451 >PRK07220 DNA topoisomerase I; Validated Probab=79.67 E-value=1.7 Score=23.44 Aligned_cols=13 Identities=0% Similarity=0.043 Sum_probs=6.3 Q ss_pred CCCCCCEEEECCC Q ss_conf 5444417885210 Q gi|254780945|r 391 QYYKLILVIVDEQ 403 (700) Q Consensus 391 ~F~~LgLvViDEQ 403 (700) .|..=|-+|+++- T Consensus 415 ~F~a~G~~i~~~G 427 (740) T PRK07220 415 EFKANGARLLEQG 427 (740) T ss_pred EEEEEEEEEEECC T ss_conf 9998658996376 No 452 >cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine. Probab=79.63 E-value=3.6 Score=20.89 Aligned_cols=29 Identities=34% Similarity=0.333 Sum_probs=18.3 Q ss_pred EEEECCCCCHHHHHHHHHHHHHHHHCCEEEE Q ss_conf 8862144223699999973344430545886 Q gi|254780945|r 297 ILQGDVGSGKTLVALIAMAAAVEAGGQAVIM 327 (700) Q Consensus 297 LLQGDVGSGKTiVA~~A~l~~~~~G~Q~alM 327 (700) .+.|+.|||||-+|-. +.-.-++..++++ T Consensus 3 gI~G~sgsGKTT~a~~--L~~~l~~~~v~~i 31 (198) T cd02023 3 GIAGGSGSGKTTVAEE--IIEQLGNPKVVII 31 (198) T ss_pred EEECCCCCCHHHHHHH--HHHHHCCCCEEEE T ss_conf 9889998859999999--9998099985899 No 453 >pfam06309 Torsin Torsin. This family consists of several eukaryotic torsin proteins. Torsion dystonia is an autosomal dominant movement disorder characterized by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of (pfam00004) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia. Probab=79.57 E-value=4.3 Score=20.31 Aligned_cols=54 Identities=17% Similarity=0.294 Sum_probs=38.4 Q ss_pred CCCCHHHHHHHHHHHHHHCC---CCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCE Q ss_conf 46798899999999984100---1343078862144223699999973344430545 Q gi|254780945|r 271 FSPTKSQESAIKDILQDMSQ---KNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQA 324 (700) Q Consensus 271 F~LT~~Q~~ai~eI~~Dl~~---~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~ 324 (700) |----+++.+++.|..-+++ .+|+-=-+.|..|+||+-||-+-+-+...+|-.. T Consensus 28 fGQhla~~~v~~al~~~l~~~~p~KpLVlSfHG~tGtGKn~vs~liA~~Ly~~G~~S 84 (127) T pfam06309 28 FGQHLVKQLVVRSVKGHWENPKPRKPLVLSFHGWTGTGKNFVAEIIADNLYRDGLRS 84 (127) T ss_pred CCHHHHHHHHHHHHHHHHCCCCCCCCEEEEECCCCCCCHHHHHHHHHHHHHHCCCCC T ss_conf 477989999999999997489999974887018999879899999999987543478 No 454 >pfam03808 Glyco_tran_WecB Glycosyl transferase WecB/TagA/CpsF family. Probab=79.46 E-value=4.7 Score=19.97 Aligned_cols=98 Identities=17% Similarity=0.207 Sum_probs=66.6 Q ss_pred HHHHHHHHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCC-C-EECCCCCCCHHHHHHHHHHHHCCCEEEEEECH Q ss_conf 999976310387389997120122111210146666666866371-0-31201469989999999997559869999800 Q gi|254780945|r 472 IERLKVVLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTS-S-IAIIHGRMSDIDKESVMDSFKNGTCKLLIATT 549 (700) Q Consensus 472 ~~~i~~~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~-~-v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTt 549 (700) .+.++..-++|..+|++=. ++ ..+....+.+++.||. + +|..||-++++|.++++++-.+.+.|+++ T Consensus 38 ~~ll~~~~~~~~~v~llG~----~~----~~~~~~~~~l~~~yP~l~i~g~~~g~f~~~e~~~i~~~I~~~~~div~--- 106 (172) T pfam03808 38 PALLERAAERGKRVFLLGG----KP----GVLEKAAARLRARYPGLRIVGTHDGYFSPEEEEAIIEAINASGPDLLF--- 106 (172) T ss_pred HHHHHHHHHCCCEEEEEEC----CH----HHHHHHHHHHHHHCCCCEEEEEECCCCCHHHHHHHHHHHHHCCCCEEE--- T ss_conf 9999999864983899808----88----999999999998879955999879999868999999999845999999--- Q ss_pred HHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHCCCCCCCCEE Q ss_conf 341046888765899858525474688773011667898359 Q gi|254780945|r 550 VIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISS 591 (700) Q Consensus 550 viEVGvdvpna~~mvI~~aerfGLsqLHQLRGRVGRg~~~s~ 591 (700) ||+-.|. -|.|...-.++|...|.=|-..++ T Consensus 107 ---vglG~Pk--------QE~~~~~~~~~~~~~v~~~vGa~~ 137 (172) T pfam03808 107 ---VGLGAPK--------QEKWIARNRARLPVPVFIGVGGSF 137 (172) T ss_pred ---EECCCCH--------HHHHHHHHHHHCCCCEEEECCCHH T ss_conf ---9569817--------799999999877998798524012 No 455 >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=79.43 E-value=3.2 Score=21.30 Aligned_cols=40 Identities=25% Similarity=0.223 Sum_probs=31.1 Q ss_pred HHHHHHCCCCCCEE--EEEECCCCCHHHHHHHHHHHHHHHHC Q ss_conf 99984100134307--88621442236999999733444305 Q gi|254780945|r 283 DILQDMSQKNRMLR--ILQGDVGSGKTLVALIAMAAAVEAGG 322 (700) Q Consensus 283 eI~~Dl~~~~pM~R--LLQGDVGSGKTiVA~~A~l~~~~~G~ 322 (700) .+..=|..+.|..| .+.|.=|||||-+|+-.+..+..+|. T Consensus 7 ~lD~~LgGGip~G~ItEi~G~~gsGKT~l~lqla~~~q~~~~ 48 (226) T cd01393 7 ALDELLGGGIPTGRITEIFGEFGSGKTQLCLQLAVEAQLPGE 48 (226) T ss_pred HHHHHHCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHCCCC T ss_conf 899885799888839999999999899999999999854221 No 456 >COG0353 RecR Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair] Probab=79.23 E-value=0.89 Score=25.68 Aligned_cols=29 Identities=31% Similarity=0.409 Sum_probs=23.5 Q ss_pred CCCCHHCHHCCCHHHCCCCCHHHHHHHHH Q ss_conf 97102021017721367858899999887 Q gi|254780945|r 1 MRPSFLNPLFAPLSTFRGVGKKYSLFLSK 29 (700) Q Consensus 1 mrp~~l~~L~~pI~~LkGVGpk~a~~L~k 29 (700) |-|..+..|-..+..|||||||+|+.++- T Consensus 2 ~~~~~i~~LI~~l~kLPGvG~KsA~R~Af 30 (198) T COG0353 2 MYPPPIEKLIDALKKLPGVGPKSAQRLAF 30 (198) T ss_pred CCCHHHHHHHHHHHHCCCCCHHHHHHHHH T ss_conf 77179999999997689988327999999 No 457 >KOG1942 consensus Probab=79.19 E-value=2 Score=22.96 Aligned_cols=57 Identities=28% Similarity=0.388 Sum_probs=39.9 Q ss_pred HHHHHHH--HHHHHHCCCCCCEE---EEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHH Q ss_conf 8999999--99984100134307---8862144223699999973344430545886127999 Q gi|254780945|r 276 SQESAIK--DILQDMSQKNRMLR---ILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGIL 333 (700) Q Consensus 276 ~Q~~ai~--eI~~Dl~~~~pM~R---LLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEIL 333 (700) +|..|-+ -|.-||-+.+.|.- ||-|-+|+|||..|+ |+.+-+.++---+=|+-.|+- T Consensus 42 GQ~~AReAagiivdlik~KkmaGravLlaGppgtGKTAlAl-aisqELG~kvPFcpmvgSEvy 103 (456) T KOG1942 42 GQENAREAAGIIVDLIKSKKMAGRAVLLAGPPGTGKTALAL-AISQELGPKVPFCPMVGSEVY 103 (456) T ss_pred CCHHHHHHHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHH-HHHHHHCCCCCCCCCCCHHHH T ss_conf 52666655108999998663267279973699876568999-999974799985666410555 No 458 >COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms] Probab=79.10 E-value=4 Score=20.59 Aligned_cols=201 Identities=18% Similarity=0.147 Sum_probs=103.8 Q ss_pred HHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHH-CCE-------EEEEHHHHHHHHHHHHHHHHCCC Q ss_conf 8999999999841001343078862144223699999973344430-545-------88612799999999862110145 Q gi|254780945|r 276 SQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAG-GQA-------VIMAPIGILAQQHYEFIKKYTQN 347 (700) Q Consensus 276 ~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G-~Q~-------alMaPTEILA~QH~~~~~~~~~~ 347 (700) +=+++++.|...= +.-+.-|+.|+.|.||+.+|-+-- ..++. .++ |.+++.-.+++ + T Consensus 86 ~~~~~~eqik~~a--p~~~~vLi~GetGtGKel~A~~iH--~~s~r~~~~PFI~~NCa~~~en~~~~e--------L--- 150 (403) T COG1221 86 SLQELREQIKAYA--PSGLPVLIIGETGTGKELFARLIH--ALSARRAEAPFIAFNCAAYSENLQEAE--------L--- 150 (403) T ss_pred HHHHHHHHHHHHC--CCCCCEEEECCCCCCHHHHHHHHH--HHHHCCCCCCEEEEEHHHHCCCHHHHH--------H--- T ss_conf 8999999998618--999847986688753889999999--861213589879977777376777777--------7--- Q ss_pred CCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEEECCCCCCCHHHHHHHH---HCC------ Q ss_conf 78658996246422566768776213475486411120133455444417885210133568899874---025------ Q gi|254780945|r 348 TQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKLILVIVDEQHRFGVQQRLKLT---QKA------ 418 (700) Q Consensus 348 ~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFGV~QR~~L~---~Kg------ 418 (700) ||+.-...||....+ .- +| +-.|=|-...||=||+--.+-.+|. ++| T Consensus 151 FG~~kGaftGa~~~k--~G------------------lf----e~A~GGtLfLDEI~~LP~~~Q~kLl~~le~g~~~rvG 206 (403) T COG1221 151 FGHEKGAFTGAQGGK--AG------------------LF----EQANGGTLFLDEIHRLPPEGQEKLLRVLEEGEYRRVG 206 (403) T ss_pred HCCCCCEEECCCCCC--CC------------------HH----EECCCCEEEHHHHHHCCHHHHHHHHHHHHCCCEEECC T ss_conf 320000002566786--76------------------42----0527977765636537985899999998718657668 Q ss_pred ----CCCCCEEECHH--HHHHHHHH--HHHHCCCHHHHCCCCCCCCCCEEEEEECCCHHHHHHHHHHHHCCCCEEEEEEC Q ss_conf ----67761010101--32278999--97520101111023557666207999702002689999763103873899971 Q gi|254780945|r 419 ----TAPHVLLMTAT--PIPRTLVL--TSLGDIDISKITEKPAGRKPIKTVIIPINRIDEVIERLKVVLSEGKKAYWICP 490 (700) Q Consensus 419 ----~~ph~L~MtAT--PIPRTLal--~~ygdldvS~i~e~P~gR~~I~T~~~~~~~~~~~~~~i~~~l~~g~q~y~VcP 490 (700) ..+|+.+.+|| .+++.+.- ++|--+.+-+| ++||=|. + ..+...-+--|++....+.+....+- T Consensus 207 ~~~~~~~dVRli~AT~~~l~~~~~~g~dl~~rl~~~~I-~LPpLrE----R--~~Di~~L~e~Fl~~~~~~l~~~~~~~- 278 (403) T COG1221 207 GSQPRPVDVRLICATTEDLEEAVLAGADLTRRLNILTI-TLPPLRE----R--KEDILLLAEHFLKSEARRLGLPLSVD- 278 (403) T ss_pred CCCCCCCCCEEEECCCCCHHHHHHHHCCHHHHHCCCEE-CCCCHHH----C--HHHHHHHHHHHHHHHHHHCCCCCCCC- T ss_conf 88886777404513566879998740525564167543-1897243----5--55599999999999999739998888- Q ss_pred CCCCCCCCCCCHHHHHHHHHHH-HCCCCEECCCCCCCHHHHHHHHHHHHC Q ss_conf 2012211121014666666686-637103120146998999999999755 Q gi|254780945|r 491 QIEEKKESNFRSVVERFNSLHE-HFTSSIAIIHGRMSDIDKESVMDSFKN 539 (700) Q Consensus 491 lIeese~~~~~~~~~~~~~l~~-~~~~~v~~lHGkm~~~ek~~~m~~F~~ 539 (700) + .+....|.. .||.+|+=| ++.-+..+...+.. T Consensus 279 -----------~-~~a~~~L~~y~~pGNirEL----kN~Ve~~~~~~~~~ 312 (403) T COG1221 279 -----------S-PEALRALLAYDWPGNIREL----KNLVERAVAQASGE 312 (403) T ss_pred -----------C-HHHHHHHHHCCCCCCHHHH----HHHHHHHHHHHCCC T ss_conf -----------8-9999999848899839999----99999999973545 No 459 >KOG2093 consensus Probab=79.09 E-value=1.7 Score=23.51 Aligned_cols=195 Identities=11% Similarity=0.087 Sum_probs=78.2 Q ss_pred CCCC-HHHHHHHHHHHHHHHHHHHCCCCCCCCHH-------------HHHCCCC----CCHHHHHHHHCCCCCHHHH--H Q ss_conf 0000-00004543001345787404684338977-------------8620569----9988999862045896565--6 Q gi|254780945|r 160 YSLP-TGLSVDLFKKIIVEALSRLPVLPEWIEKD-------------LLQKKSF----PSIAEAFNIIHNPRKAKDF--E 219 (700) Q Consensus 160 Yplt-~GLsqk~irk~I~~aL~~~~~i~E~LP~~-------------ll~k~~L----~s~~eAL~~IH~P~~~~dl--e 219 (700) |+.. .||.+-.+ +.+|++.+|++. .+|.+ .++.|.+ +|..||+-.+--|...... . T Consensus 418 Y~AR~~GIKNGMf---V~~A~klCPqL~-~lPY~FE~Ykevs~tlYetlasytl~I~aVSCDEa~vd~s~~~~~~~~tp~ 493 (1016) T KOG2093 418 YEARAYGIKNGMF---VRHAKKLCPQLV-ILPYDFEAYKEVSETLYETLASYTLNIEAVSCDEAFVDVSDLSDEENETPA 493 (1016) T ss_pred CHHHHHCCCCCEE---HHHHHHHCCCCE-EECCCHHHHHHHHHHHHHHHHHHCCCEEEECCHHHHHHHHHHHHHHCCCHH T ss_conf 0788738413401---788987493207-616638999999999999998640010231201655211013544316899 Q ss_pred HHHHHHHHHHHHHH-HH----HHHHHHHHHHHHH-HCCCCCCCCCCHHHHHHHHHCCCCCC------------------- Q ss_conf 67999999987666-66----6677776555543-20357678775789999863024679------------------- Q gi|254780945|r 220 WTSPARERLAYDEL-LA----GQIALLLMRKQFK-KEIGIPINVEGKIAQKILRNIPFSPT------------------- 274 (700) Q Consensus 220 ~~~~ArkRLafeEL-l~----~QL~l~~~r~~~~-~~~~~~~~~~~~~~~~f~~~LPF~LT------------------- 274 (700) .+..+.|--+||-- .. .--.+++.|-..+ .++.-.+-.+.+.+++|++.++-..- T Consensus 494 ~la~~IRqEI~e~TgC~aS~Gig~t~LLARlATr~AKP~Gq~~l~a~~veeFis~~~v~~LPGVG~sm~~kL~s~~i~tC 573 (1016) T KOG2093 494 VLAEHIRQEILEKTGCPASAGIGGTMLLARLATRVAKPNGQFYLSAEKVEEFISQLKVDDLPGVGSSMKSKLVSQFIQTC 573 (1016) T ss_pred HHHHHHHHHHHHCCCCCEEECCCHHHHHHHHHHHHCCCCCEEEECHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCHH T ss_conf 99999999998624986231314479999998730588861663588999986105556687742899999998524246 Q ss_pred -HHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHH--HHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCE Q ss_conf -88999999999841001343078862144223699999973--344430545886127999999998621101457865 Q gi|254780945|r 275 -KSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMA--AAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQII 351 (700) Q Consensus 275 -~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l--~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~ 351 (700) +=|.....+...-+...--|+ +.+|==|.---=++..+.- ..++=+|---|--|+|+ .|-+..+.+.+..-.+. T Consensus 574 gdLq~~T~~kl~k~~G~Klgq~-i~~~CrG~Dd~P~~~~~~RKSvS~dIN~GIRFtn~~ev--~~fl~~~~eEl~rkL~e 650 (1016) T KOG2093 574 GDLQLITLIKLRKVFGPKLGQK-IYRGCRGIDDDPRSIEQVRKSVSADINYGIRFTNIKEV--EQFLCLLSEELRRKLLE 650 (1016) T ss_pred HHHHHHHHHHHHHHHCCCHHHH-HHHHCCCCCCCHHHHHHHHCCEEEEEECCEEECCHHHH--HHHHHHHHHHHHHHHHH T ss_conf 8899999998776535207799-99862787677087765310234310010563557999--99999889999999998 Q ss_pred EEEEECCCCH Q ss_conf 8996246422 Q gi|254780945|r 352 VEIITGNMPQ 361 (700) Q Consensus 352 v~lLtg~~~~ 361 (700) +...+++.+- T Consensus 651 i~k~~~sitL 660 (1016) T KOG2093 651 ISKTASSITL 660 (1016) T ss_pred HHCCCCCHHH T ss_conf 5401241038 No 460 >PRK10923 glnG nitrogen regulation protein NR(I); Provisional Probab=79.06 E-value=2.4 Score=22.29 Aligned_cols=33 Identities=27% Similarity=0.602 Sum_probs=21.0 Q ss_pred HHHHHHHHHHC--CCCCCEEEEEECCCCCHHHHHH Q ss_conf 99999998410--0134307886214422369999 Q gi|254780945|r 279 SAIKDILQDMS--QKNRMLRILQGDVGSGKTLVAL 311 (700) Q Consensus 279 ~ai~eI~~Dl~--~~~pM~RLLQGDVGSGKTiVA~ 311 (700) .+++.+..-+. ......-|++|..|+||+.+|- T Consensus 145 ~~m~~v~~~i~~~a~~~~pVLI~GE~GTGK~~~Ar 179 (469) T PRK10923 145 PAMQDVFRIIGRLSRSSISVLINGESGTGKELVAH 179 (469) T ss_pred HHHHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHH T ss_conf 99999999999985889978998989826999999 No 461 >pfam05729 NACHT NACHT domain. This NTPase domain is found in apoptosis proteins as well as those involved in MHC transcription activation. This family is closely related to pfam00931. Probab=78.90 E-value=1.7 Score=23.57 Aligned_cols=25 Identities=36% Similarity=0.391 Sum_probs=20.3 Q ss_pred EEEEECCCCCHHHHHHHHHHHHHHH Q ss_conf 7886214422369999997334443 Q gi|254780945|r 296 RILQGDVGSGKTLVALIAMAAAVEA 320 (700) Q Consensus 296 RLLQGDVGSGKTiVA~~A~l~~~~~ 320 (700) -+++|+-|+|||..+--.++..++. T Consensus 3 i~i~G~aG~GKTtll~kl~~~wa~g 27 (165) T pfam05729 3 VILQGEAGSGKTTLLQKLALLWAQG 27 (165) T ss_pred EEEECCCCCCHHHHHHHHHHHHHCC T ss_conf 9998279898999999999999869 No 462 >pfam00493 MCM MCM2/3/5 family. Probab=78.85 E-value=3.4 Score=21.16 Aligned_cols=86 Identities=20% Similarity=0.261 Sum_probs=49.2 Q ss_pred CEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCC Q ss_conf 30788621442236999999733444305458861279999999986211014578658996246422566768776213 Q gi|254780945|r 294 MLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAH 373 (700) Q Consensus 294 M~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~ 373 (700) .|-||-||-|.|||-..-.++- ++|- ..+....+.+-+=||++... +. .+ T Consensus 58 ihiLLvGdPG~gKSqlLk~~~~-----------~~pr-----------~~~tsg~~ss~~GLTa~~~~-d~-------~~ 107 (327) T pfam00493 58 INVLLVGDPGTAKSQLLKYVAK-----------LAPR-----------AVYTSGKGSSAAGLTAAVVR-DP-------DT 107 (327) T ss_pred CEEEEECCCCCCHHHHHHHHHH-----------HCCC-----------CEEECCCCCCCCCCEEEEEE-EC-------CC T ss_conf 1189846998156099999998-----------6887-----------08831776656776158998-06-------88 Q ss_pred CCCEEEEECHHHCCCCCCCCCCCEEEECCCCCCCHHHHHHHHH Q ss_conf 4754864111201334554444178852101335688998740 Q gi|254780945|r 374 GQAHIIIGTHALFQDSIQYYKLILVIVDEQHRFGVQQRLKLTQ 416 (700) Q Consensus 374 G~~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFGV~QR~~L~~ 416 (700) |+..+-=| || ...+-|.+-|||=.|..-..|.+|.+ T Consensus 108 ~~~~leaG--al-----vlAd~Gv~cIDEfdk~~~~d~saL~E 143 (327) T pfam00493 108 GEWTLEAG--AL-----VLADGGVCCIDEFDKMNEEDRVAIHE 143 (327) T ss_pred CCEEEECC--CE-----EECCCCEEEEECCCCCCHHHHHHHHH T ss_conf 83698368--47-----75589827850055588767999999 No 463 >PRK07274 single-stranded DNA-binding protein; Provisional Probab=78.61 E-value=5 Score=19.79 Aligned_cols=80 Identities=14% Similarity=0.240 Sum_probs=47.3 Q ss_pred EEEEEEEEEEEEEECCC--CCCEEE--EEEE----CC-----CCEEEEEEECCCHHHHHHHCCCCCEEEEEEEEEECCC- Q ss_conf 89999999897542158--983389--9998----18-----9369999951887899873289888999989973187- Q gi|254780945|r 69 IVTITGYISQHSSFQLQ--KRRPYK--ILLN----DG-----TGEITLLFFYRKTEMLKNVFFEGRKITVTGKIKKLKN- 134 (700) Q Consensus 69 ~vti~g~V~~~~~~~~~--~r~~~~--v~v~----D~-----tg~i~lvfFn~~~~yl~k~lk~G~~v~vsGKv~~~~~- 134 (700) .|++.|.+.+-..+++. +..... +-+. +. +.-+.++.|+.....+.+.++.|+.+.|.|+++...+ T Consensus 4 ~V~LiGrL~~Dpel~~t~~G~~v~~fslAv~r~~k~~~ge~~td~~~vv~wgk~Ae~~~~~~~KG~~V~V~G~L~~~~yd 83 (131) T PRK07274 4 KVILIGRLTAKPELVKTATDKSVARVTLAVNRRFKNQNGEREADFINVVVWGKLAETLVSYASKGSLISIDGELRTRKYD 83 (131) T ss_pred EEEEEEECCCCCEEEECCCCCEEEEEEEEEECCEECCCCCEEEEEEEEEECCHHHHHHHHHCCCCCEEEEEEEEECCCCC T ss_conf 69999977779769998999889999998713068788978877999998284799998751699999999998874872 Q ss_pred -------EEEEECCEEEECCC Q ss_conf -------79997786896264 Q gi|254780945|r 135 -------RIIMVHPHYIFHNS 148 (700) Q Consensus 135 -------~~qi~hPe~~~~~~ 148 (700) ..+++-.++.++++ T Consensus 84 kdG~~~~~~eI~v~~~~~L~s 104 (131) T PRK07274 84 KDGQTHYVTEVLCQSFQLLES 104 (131) T ss_pred CCCCEEEEEEEEEEEEEECCC T ss_conf 499799999999978997457 No 464 >cd01294 DHOase Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is monofunctional and mainly dimeric. Probab=78.58 E-value=1.5 Score=23.83 Aligned_cols=25 Identities=16% Similarity=0.329 Sum_probs=21.7 Q ss_pred CHHHHHHHHHHHCCCCCEEEEEC-HH Q ss_conf 22566768776213475486411-12 Q gi|254780945|r 360 PQAHRRKALERIAHGQAHIIIGT-HA 384 (700) Q Consensus 360 ~~~er~~i~~~i~~G~~~iiIGT-HA 384 (700) +..+|+..++.+.+|.+++.||| || T Consensus 219 ~~~Dr~AL~~al~~G~id~~iaTDHA 244 (335) T cd01294 219 RPEDREALRKAATSGHPKFFLGSDSA 244 (335) T ss_pred CHHHHHHHHHHHHCCCCCEEEECCCC T ss_conf 98999999999974998489847999 No 465 >PRK12311 rpsB 30S ribosomal protein S2; Provisional Probab=78.54 E-value=1.5 Score=23.86 Aligned_cols=15 Identities=13% Similarity=0.443 Sum_probs=5.6 Q ss_pred HHHHCCCCCEEEEEE Q ss_conf 987328988899998 Q gi|254780945|r 113 LKNVFFEGRKITVTG 127 (700) Q Consensus 113 l~k~lk~G~~v~vsG 127 (700) +++.-..|..+.|-| T Consensus 59 v~~ia~~Gg~ILFVG 73 (332) T PRK12311 59 VSDTVAKGGRVLFVG 73 (332) T ss_pred HHHHHHCCCEEEEEE T ss_conf 999996699799986 No 466 >COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning] Probab=78.49 E-value=3 Score=21.52 Aligned_cols=35 Identities=23% Similarity=0.325 Sum_probs=26.4 Q ss_pred CEEEEEECCCCCHHHHHHH-HHHHHHHHHCCEEEEE Q ss_conf 3078862144223699999-9733444305458861 Q gi|254780945|r 294 MLRILQGDVGSGKTLVALI-AMAAAVEAGGQAVIMA 328 (700) Q Consensus 294 M~RLLQGDVGSGKTiVA~~-A~l~~~~~G~Q~alMa 328 (700) |.-.+.|-=|||||-+|++ ++...-..||++...- T Consensus 1 mkIaI~GKGG~GKTtiaalll~~l~~~~~~~VLvVD 36 (255) T COG3640 1 MKIAITGKGGVGKTTIAALLLKRLLSKGGYNVLVVD 36 (255) T ss_pred CEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEEE T ss_conf 969996599765899999999999864895499994 No 467 >PRK09354 recA recombinase A; Provisional Probab=78.44 E-value=5.1 Score=19.75 Aligned_cols=85 Identities=22% Similarity=0.261 Sum_probs=54.1 Q ss_pred CCCCCEE--EEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCC--CHHHHH Q ss_conf 0134307--886214422369999997334443054588612799999999862110145786589962464--225667 Q gi|254780945|r 290 QKNRMLR--ILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNM--PQAHRR 365 (700) Q Consensus 290 ~~~pM~R--LLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~--~~~er~ 365 (700) .+.|..| -+-|--+||||-.|+.++..+-..|..||+.-----|-.+ |...+|+.+.-|.=+. +.-+-- T Consensus 55 GG~P~GRivEi~G~esSGKTtlal~~iaeaQk~Gg~~a~iDaE~ald~~-------~a~~lGVd~d~llv~qpd~~Eqal 127 (350) T PRK09354 55 GGLPKGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPV-------YAKKLGVDIDNLLVSQPDTGEQAL 127 (350) T ss_pred CCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEEECCCCCHH-------HHHHCCCCHHHEEEECCCHHHHHH T ss_conf 9967870899988987779999999999999759947999600027988-------999849771571785686799999 Q ss_pred HHHHHH-CCCCCEEEEE Q ss_conf 687762-1347548641 Q gi|254780945|r 366 KALERI-AHGQAHIIIG 381 (700) Q Consensus 366 ~i~~~i-~~G~~~iiIG 381 (700) ++.+.+ .+|.+++||= T Consensus 128 ~i~e~Lvrsg~vd~IVv 144 (350) T PRK09354 128 EIADALVRSGAVDLIVV 144 (350) T ss_pred HHHHHHHHCCCCCEEEE T ss_conf 99999985488418998 No 468 >pfam10412 TrwB_AAD_bind Type IV secretion-system coupling protein DNA-binding domain. The plasmid conjugative coupling protein TrwB forms hexamers from six structurally very similar protomers. This hexamer contains a central channel running from the cytosolic pole (made up by the AADs) to the membrane pole ending at the transmembrane pore shaped by 12 transmembrane helices, rendering an overall mushroom-like structure. The TrwB_AAD (all-alpha domain) domain appears to be the DNA-binding domain of the structure. TrwB, a basic integral inner-membrane nucleoside-triphosphate-binding protein, is the structural prototype for the type IV secretion system coupling proteins, a family of proteins essential for macromolecular transport between cells and export. Probab=78.37 E-value=4.8 Score=19.92 Aligned_cols=125 Identities=15% Similarity=0.106 Sum_probs=51.7 Q ss_pred CCCEEECHHHHHHHHHHH---HHHCCCHHHHCCCCCCCCCCEEEEEEC-CC---HHHHHHHHHHHHCCCCEEEEEECCCC Q ss_conf 761010101322789999---752010111102355766620799970-20---02689999763103873899971201 Q gi|254780945|r 421 PHVLLMTATPIPRTLVLT---SLGDIDISKITEKPAGRKPIKTVIIPI-NR---IDEVIERLKVVLSEGKKAYWICPQIE 493 (700) Q Consensus 421 ph~L~MtATPIPRTLal~---~ygdldvS~i~e~P~gR~~I~T~~~~~-~~---~~~~~~~i~~~l~~g~q~y~VcPlIe 493 (700) +..|+.+.+|--++..-. ++=++-+..+..+|++++.-.-.++.+ .. ++.+-+.+..--..|-+++.++- T Consensus 204 ~~~l~i~~~~~~~~~~~~li~l~~~~~~~~l~~~~~~~~~~v~~~lDEf~~lg~i~~l~~~l~~~Rs~gi~~~l~~Q--- 280 (386) T pfam10412 204 GGWLFITSREDQRAALRPLISLWLDIAIRALLSLPPNRDRRLWFFLDELPSLHKLPSLADALAEGRKFGGCVVLGIQ--- 280 (386) T ss_pred CEEEEEECCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEECHHHCCCCHHHHHHHHHHHCCCCEEEEEEE--- T ss_conf 72999973763589999999999999999997347567874499998711027668899999986407849999983--- Q ss_pred CCCCCCCCHHHHHH-HHHHHH-CCC-CEECCCCCCCHHHHHHHHHHHHCCCEEEEEECHHHHCCC Q ss_conf 22111210146666-666866-371-031201469989999999997559869999800341046 Q gi|254780945|r 494 EKKESNFRSVVERF-NSLHEH-FTS-SIAIIHGRMSDIDKESVMDSFKNGTCKLLIATTVIEVGI 555 (700) Q Consensus 494 ese~~~~~~~~~~~-~~l~~~-~~~-~v~~lHGkm~~~ek~~~m~~F~~g~~~iLvaTtviEVGv 555 (700) ++...++.| +...+. +++ .+-+.- +.++.|-.+-+.+ .-|+..|-+.++=.--|. T Consensus 281 -----s~~QL~~~YG~~~a~~il~n~~~~i~~-~~~d~eTA~~iS~-~lG~~tv~~~s~s~S~g~ 338 (386) T pfam10412 281 -----SFAQLEEVYGEDGAQTLLGLCNTKLIL-RVSDAETAEWMSE-LLGEQEVERMRESYSYGA 338 (386) T ss_pred -----CHHHHHHHHCHHHHHHHHHHCCCEEEE-ECCCHHHHHHHHH-HHCCEEEEEEEEEEECCC T ss_conf -----899999987988999999625659998-2799899999999-739749999861055478 No 469 >TIGR03491 RecB family nuclease, putative, TM0106 family. Members of this uncharacterized protein family are found broadly but sporadically among bacteria. The N-terminal region is homologous to the Cas4 protein of CRISPR systems, although this protein family shows no signs of association with CRISPR repeats. Probab=78.29 E-value=2.8 Score=21.81 Aligned_cols=41 Identities=15% Similarity=0.232 Sum_probs=23.8 Q ss_pred HHHCCCCCEEEEEEEEEE--CCCEEEEECCEEEECCCCCCCCC Q ss_conf 873289888999989973--18779997786896264334444 Q gi|254780945|r 114 KNVFFEGRKITVTGKIKK--LKNRIIMVHPHYIFHNSQDVNFP 154 (700) Q Consensus 114 ~k~lk~G~~v~vsGKv~~--~~~~~qi~hPe~~~~~~~~~~~~ 154 (700) ....+.|..++.-|.+.. +.+..-..||++.+........| T Consensus 60 ~~am~~G~~~I~~~~L~~~~~~~~~~~g~pdlLvk~~g~S~~G 102 (457) T TIGR03491 60 LDACAAGADGIYGGRLKHDLPQNLPHVSHPDLLVKDPGRSAWG 102 (457) T ss_pred HHHHHCCCCEEEEEEEECCCCCCCCEEEECCEEEECCCCCCCC T ss_conf 9999738865999998046677884047779899628988878 No 470 >PRK08058 DNA polymerase III subunit delta'; Validated Probab=78.29 E-value=5.1 Score=19.72 Aligned_cols=143 Identities=13% Similarity=0.151 Sum_probs=70.9 Q ss_pred CCCHHHHHHHHHHHHHHCCCCCCEE-EEEECCCCCHHHHHHHH--HHHHHHH-HCCEEEEEHHHHHHHHHHHHHHHHCCC Q ss_conf 6798899999999984100134307-88621442236999999--7334443-054588612799999999862110145 Q gi|254780945|r 272 SPTKSQESAIKDILQDMSQKNRMLR-ILQGDVGSGKTLVALIA--MAAAVEA-GGQAVIMAPIGILAQQHYEFIKKYTQN 347 (700) Q Consensus 272 ~LT~~Q~~ai~eI~~Dl~~~~pM~R-LLQGDVGSGKTiVA~~A--~l~~~~~-G~Q~alMaPTEILA~QH~~~~~~~~~~ 347 (700) ++..-|..+++-+.+-+.+++--+- |+.|.-|+||+..|..- ++.|-+. +..++--++. -+.+-.. T Consensus 6 ~~~~~Q~~i~~~L~~~i~~~rl~HA~Lf~Gp~G~GK~~~A~~~A~~LlC~~~~~~~~Cg~C~~----------C~~~~~~ 75 (329) T PRK08058 6 QLTALQPIVVKMLQNSIAKNRLAHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTN----------CKRIESG 75 (329) T ss_pred HHHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHH----------HHHHHCC T ss_conf 888318999999999998599661565578999889999999999973999999998878889----------9998769 Q ss_pred CCCEEEEEEC---CCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEEECCCCCCCHHHHHHHHHC--CCCCC Q ss_conf 7865899624---642256676877621347548641112013345544441788521013356889987402--56776 Q gi|254780945|r 348 TQIIVEIITG---NMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKLILVIVDEQHRFGVQQRLKLTQK--ATAPH 422 (700) Q Consensus 348 ~~i~v~lLtg---~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvViDEQHRFGV~QR~~L~~K--g~~ph 422 (700) ....+..+.. +.+..+-+++.+.+.-. + .. .+--.+||||=|+-..+==++|..- .+.+| T Consensus 76 ~HPD~~~i~p~~~~i~idqiR~L~~~~~~~---------p-----~~-g~~KV~II~~Ae~m~~~AaNALLKtLEEPp~~ 140 (329) T PRK08058 76 NHPDVHLVAPDGQSIKKDQIRYLKEEFSKS---------G-----VE-SNKKVYIIEHADKMTASAANSLLKFLEEPSGD 140 (329) T ss_pred CCCCEEEECCCCCCCCHHHHHHHHHHHCCC---------C-----CC-CCCEEEEEECHHHHCHHHHHHHHHHHHCCCCC T ss_conf 999767745661407799999999996438---------7-----57-88679997347762999999999986468978 Q ss_pred CEEECHHHHHHHHHHHH Q ss_conf 10101013227899997 Q gi|254780945|r 423 VLLMTATPIPRTLVLTS 439 (700) Q Consensus 423 ~L~MtATPIPRTLal~~ 439 (700) ++..=+|+=|-.+--|+ T Consensus 141 t~fIL~t~~~~~lLpTI 157 (329) T PRK08058 141 TTAILLTENKHQILPTI 157 (329) T ss_pred CEEEEEECCHHHHHHHH T ss_conf 67998729966643688 No 471 >PRK09112 DNA polymerase III subunit delta'; Validated Probab=78.24 E-value=2.6 Score=22.04 Aligned_cols=44 Identities=18% Similarity=0.157 Sum_probs=34.2 Q ss_pred HHHHHHHHHHHHHHCCCCCCE-EEEEECCCCCHHHHHHHHHHHHH Q ss_conf 889999999998410013430-78862144223699999973344 Q gi|254780945|r 275 KSQESAIKDILQDMSQKNRML-RILQGDVGSGKTLVALIAMAAAV 318 (700) Q Consensus 275 ~~Q~~ai~eI~~Dl~~~~pM~-RLLQGDVGSGKTiVA~~A~l~~~ 318 (700) -+|..+...+.+-+++++--+ -|+.|--|.|||-.|..-+-... T Consensus 26 iGq~~~~~~L~~a~~~gRl~HA~Lf~GP~GiGKaTlA~~~A~~Ll 70 (352) T PRK09112 26 FGHEEARAFLAQAYREGRLHHALLFEGPEGIGKATLAFHLANHIL 70 (352) T ss_pred CCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHH T ss_conf 786999999999998499652465358998089999999999986 No 472 >PRK06958 single-stranded DNA-binding protein; Provisional Probab=78.20 E-value=5.1 Score=19.70 Aligned_cols=64 Identities=19% Similarity=0.307 Sum_probs=38.8 Q ss_pred CEEEEEEEEEEEEEECCC--CCCEEEEEEE--------------CCCCEEEEEEECCCHHHHHHHCCCCCEEEEEEEEEE Q ss_conf 789999999897542158--9833899998--------------189369999951887899873289888999989973 Q gi|254780945|r 68 RIVTITGYISQHSSFQLQ--KRRPYKILLN--------------DGTGEITLLFFYRKTEMLKNVFFEGRKITVTGKIKK 131 (700) Q Consensus 68 ~~vti~g~V~~~~~~~~~--~r~~~~v~v~--------------D~tg~i~lvfFn~~~~yl~k~lk~G~~v~vsGKv~~ 131 (700) ..|++.|.+.+-..+++. +.....+.+. +.|.-+.++.|+..-..+.+.+++|+.|+|.|+++. T Consensus 5 NkV~LiG~L~~DPelr~t~~G~~va~f~lA~~~~~~d~~~ge~~e~t~w~~v~~~gk~AE~~~~yl~KG~~V~VeGrL~~ 84 (181) T PRK06958 5 NKVILVGNLGADPEVRYLPSGDAVANIRLATTDRYKDKASGEFKEATEWHRVAFFGRLAEIVGEYLKKGSSVYIEGRIRT 84 (181) T ss_pred CEEEEEEECCCCCEEEECCCCCEEEEEEEEEECCEEECCCCCEEECCEEEEEECCCHHHHHHHHHCCCCCEEEEEEEEEE T ss_conf 87999885786965878799977999999986333323788376316377850335699999864479998999757770 No 473 >TIGR03167 tRNA_sel_U_synt tRNA 2-selenouridine synthase. The Escherichia coli YbbB protein was shown to encode a selenophosphate-dependent tRNA 2-selenouridine synthase, essential for modification of some tRNAs to replace a sulfur atom with selenium. This enzyme works with SelD, the selenium donor protein, which also acts in selenocysteine incorporation. Although the members of this protein family show a fairly deep split, sequences from both sides of the split are supported by co-occurence with, and often proximity to, the selD gene. Probab=78.14 E-value=3.3 Score=21.18 Aligned_cols=77 Identities=25% Similarity=0.245 Sum_probs=42.3 Q ss_pred HHHHHHHHHCCCC---CCHHHHHH---HHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHH Q ss_conf 7899998630246---79889999---99999841001343078862144223699999973344430545886127999 Q gi|254780945|r 260 KIAQKILRNIPFS---PTKSQESA---IKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGIL 333 (700) Q Consensus 260 ~~~~~f~~~LPF~---LT~~Q~~a---i~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEIL 333 (700) ..+..+++...|. |..+=+.= +-+-...+..+.+. .+|.|=.|||||.+ +-..-.+|+|+.=+ |=| T Consensus 89 ~s~~~~L~~~G~~v~~l~GGYKayR~~v~~~l~~~~~~~~~-~vl~G~TG~GKT~i----L~~L~~~G~qviDL---Egl 160 (311) T TIGR03167 89 GSLAWLLAQIGFRVPRLEGGYKAYRRFVIDQLEELPQPFPL-IVLGGMTGSGKTEL----LHALANAGAQVLDL---EGL 160 (311) T ss_pred HHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCE-EEEECCCCCCHHHH----HHHHHHCCCCCCCH---HHH T ss_conf 99999999859984315783899999999999714546876-99878888778999----99999769974258---998 Q ss_pred HHHHHHHHHHHCCCC Q ss_conf 999998621101457 Q gi|254780945|r 334 AQQHYEFIKKYTQNT 348 (700) Q Consensus 334 A~QH~~~~~~~~~~~ 348 (700) |. .--..|... T Consensus 161 An----HRGS~FG~~ 171 (311) T TIGR03167 161 AN----HRGSSFGAL 171 (311) T ss_pred HH----CCCCCCCCC T ss_conf 63----146534688 No 474 >TIGR01292 TRX_reduct thioredoxin-disulfide reductase; InterPro: IPR005982 Reactive oxygen species (ROS) are known mediators of intracellular signaling cascades. Excessive production of ROS may, however, lead to oxidative stress, loss of cell function, and ultimately apoptosis or necrosis. A balance between oxidant and antioxidant intracellular systems is hence vital for cell function, regulation, and adaptation to diverse growth conditions. Thioredoxin reductase in conjunction with thioredoxin is a ubiquitous oxidoreductase system with antioxidant and redox regulatory roles. Thioredoxin reductase (1.8.1.9 from EC) reduces oxidised thioredoxin in the presence of NADPH. Reduced thioredoxin serves as an electron donor for thioredoxin peroxidase which consequently reduces H_2O_2 to H_2O. In mammals, extracellular forms of Trx also have cytokine-like effects. Mammalian TrxR has a highly reactive active site selenocysteine residue resulting in a profound reductive capacity, reducing several substrates in addition to Trx .; GO: 0004791 thioredoxin-disulfide reductase activity, 0019430 removal of superoxide radicals, 0005737 cytoplasm. Probab=78.11 E-value=4.4 Score=20.26 Aligned_cols=81 Identities=19% Similarity=0.197 Sum_probs=62.3 Q ss_pred HHCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHCC---CEEEEEECHHHHCC Q ss_conf 310387389997120122111210146666666866371031201469989999999997559---86999980034104 Q gi|254780945|r 478 VLSEGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMDSFKNG---TCKLLIATTVIEVG 554 (700) Q Consensus 478 ~l~~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~~~ek~~~m~~F~~g---~~~iLvaTtviEVG 554 (700) -+-+|..|.|| =.=.||.+..-+|++ +..+|-++|=|-+---.....+++++. +|.+|--+||.|+- T Consensus 147 ~ffk~K~V~Vv---------GGGdsA~eEA~yL~~-~a~kV~lvHRRd~fRA~k~~~~r~~~~~eG~I~~l~n~~v~Ei~ 216 (321) T TIGR01292 147 PFFKNKEVAVV---------GGGDSALEEALYLTR-IAKKVTLVHRRDKFRAEKILLDRLKKNPEGKIEFLWNSTVEEIV 216 (321) T ss_pred HHHCCCEEEEE---------CCCCHHHHHHHHHHH-CCCEEEEEECCCCCCCCHHHHHHHHHCCCCCEEEECCCEEEEEE T ss_conf 12059889998---------798248888899985-38767999779863632899989983789878996486899996 Q ss_pred CCC-CCCCEEEEECH Q ss_conf 688-87658998585 Q gi|254780945|r 555 IDV-VDASIIIIENA 568 (700) Q Consensus 555 vdv-pna~~mvI~~a 568 (700) =|- ...+=.+|.|- T Consensus 217 G~~~~~V~~v~i~N~ 231 (321) T TIGR01292 217 GDNSKKVESVKIKNT 231 (321) T ss_pred CCCCEEEEEEEEEEC T ss_conf 178315533589962 No 475 >COG2251 Predicted nuclease (RecB family) [General function prediction only] Probab=78.07 E-value=2.1 Score=22.79 Aligned_cols=34 Identities=21% Similarity=0.315 Sum_probs=18.0 Q ss_pred CHHHHHHHHHHHHHHCCCHHHHCCCCCCCCCCEEEEEE Q ss_conf 10132278999975201011110235576662079997 Q gi|254780945|r 427 TATPIPRTLVLTSLGDIDISKITEKPAGRKPIKTVIIP 464 (700) Q Consensus 427 tATPIPRTLal~~ygdldvS~i~e~P~gR~~I~T~~~~ 464 (700) --||+-++ .|-.+.|.+|+++-.--.||...+.+ T Consensus 232 Gi~~~r~~----~l~~~GI~Ti~~LA~~~~~~~~~~~g 265 (474) T COG2251 232 GITPSRYD----VLEEVGITTIEDLADASLPILELVAG 265 (474) T ss_pred CCCHHHHH----HHHHCCCCHHHHHHHCCCCCHHHHHH T ss_conf 99878899----99973822399997525540256654 No 476 >pfam02399 Herpes_ori_bp Origin of replication binding protein. This Pfam family represents the herpesvirus origin of replication binding protein, probably involved in DNA replication. Probab=78.00 E-value=4.9 Score=19.89 Aligned_cols=25 Identities=16% Similarity=0.215 Sum_probs=9.2 Q ss_pred HHHHHHHHHHCCCEEEEEECHHHHC Q ss_conf 9999999975598699998003410 Q gi|254780945|r 529 DKESVMDSFKNGTCKLLIATTVIEV 553 (700) Q Consensus 529 ek~~~m~~F~~g~~~iLvaTtviEV 553 (700) ....+.+...+|.+.++=.+-+.|. T Consensus 588 vf~~iy~~Yasg~vP~i~~~G~~e~ 612 (829) T pfam02399 588 VFRRIYDHYASGWVPVLGIAGALET 612 (829) T ss_pred HHHHHHHHHCCCCEEEECCCCCEEE T ss_conf 9999999871684446427887667 No 477 >PRK13732 single-stranded DNA-binding protein; Provisional Probab=77.97 E-value=5.2 Score=19.65 Aligned_cols=65 Identities=11% Similarity=0.242 Sum_probs=41.8 Q ss_pred CEEEEEEEEEEEEEECCC-C-CCE--EEEEEE------------CCCCEEEEEEECCCHHHHHHHCCCCCEEEEEEEEEE Q ss_conf 789999999897542158-9-833--899998------------189369999951887899873289888999989973 Q gi|254780945|r 68 RIVTITGYISQHSSFQLQ-K-RRP--YKILLN------------DGTGEITLLFFYRKTEMLKNVFFEGRKITVTGKIKK 131 (700) Q Consensus 68 ~~vti~g~V~~~~~~~~~-~-r~~--~~v~v~------------D~tg~i~lvfFn~~~~yl~k~lk~G~~v~vsGKv~~ 131 (700) ..|++.|.+.+-..+++. . ... +.+.+. +.+.-+.|+.|+..-..+.+.|++|..|+|-|+++. T Consensus 7 NkViLiG~Lg~DPElr~t~~G~~va~f~lAt~~~~~d~~~ge~~e~t~w~~vv~~gk~AE~~~~yl~KGs~V~VeGrL~~ 86 (175) T PRK13732 7 NKVILVGRLGKDPEVRYIPNGGAVANLQVATSESWRDKQTGEMREQTEWHRVVLFGKLAEVAGEYLRKGAQVYIEGQLRT 86 (175) T ss_pred CEEEEEEECCCCCEEEECCCCCEEEEEEEEEECCCCCCCCCCEECCCCEEEEEEEHHHHHHHHHHHCCCCEEEEEEEEEE T ss_conf 58999874577961788899987999999983662127788364133548999864899999987279998999998772 Q ss_pred C Q ss_conf 1 Q gi|254780945|r 132 L 132 (700) Q Consensus 132 ~ 132 (700) - T Consensus 87 r 87 (175) T PRK13732 87 R 87 (175) T ss_pred C T ss_conf 1 No 478 >cd04486 YhcR_OBF_like YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate nucleosides. YhcR appears to be the major Ca2+ activated nuclease of B. subtilis. YhcR may be localized in the cell wall. Probab=77.97 E-value=5.2 Score=19.65 Aligned_cols=68 Identities=15% Similarity=0.122 Sum_probs=40.5 Q ss_pred EEEEEEEEEEEECCCCCCEEEEEEECC----CC-EEEEEEECCCHHHHHHHCCCCCEEEEEEEEEECCCEEEEECCE-EE Q ss_conf 999999897542158983389999818----93-6999995188789987328988899998997318779997786-89 Q gi|254780945|r 71 TITGYISQHSSFQLQKRRPYKILLNDG----TG-EITLLFFYRKTEMLKNVFFEGRKITVTGKIKKLKNRIIMVHPH-YI 144 (700) Q Consensus 71 ti~g~V~~~~~~~~~~r~~~~v~v~D~----tg-~i~lvfFn~~~~yl~k~lk~G~~v~vsGKv~~~~~~~qi~hPe-~~ 144 (700) +++|.|..... .....- ..++|. .. .-.-+|-... . ...+++|++|.+.|++..|++..|+..+. +. T Consensus 1 tv~GvVTa~~~--~~~~~G--FyiQ~~~~d~~~~tS~gifV~~~-~--~~~~~~Gd~V~vtG~V~Ey~g~TqL~~~~~~~ 73 (78) T cd04486 1 TVEGVVTAVFS--GGGLGG--FYIQDEDGDGDPATSEGIFVYTG-S--GADVAVGDLVRVTGTVTEYYGLTQLTAVSAIE 73 (78) T ss_pred CEEEEEEEECC--CCCCCE--EEEECCCCCCCCCCCCEEEEECC-C--CCCCCCCCEEEEEEEEEEECCCEEEECCCCEE T ss_conf 92899999752--898476--99972789999764237999817-8--88889899999978998624858984451169 Q ss_pred E Q ss_conf 6 Q gi|254780945|r 145 F 145 (700) Q Consensus 145 ~ 145 (700) . T Consensus 74 ~ 74 (78) T cd04486 74 V 74 (78) T ss_pred E T ss_conf 8 No 479 >COG1341 Predicted GTPase or GTP-binding protein [General function prediction only] Probab=77.95 E-value=5.2 Score=19.65 Aligned_cols=65 Identities=22% Similarity=0.227 Sum_probs=45.2 Q ss_pred CCCCCHHHHHHHHHHHH-----HHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHC----------CEEEEEHHHH-H Q ss_conf 24679889999999998-----410013430788621442236999999733444305----------4588612799-9 Q gi|254780945|r 270 PFSPTKSQESAIKDILQ-----DMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGG----------QAVIMAPIGI-L 333 (700) Q Consensus 270 PF~LT~~Q~~ai~eI~~-----Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~----------Q~alMaPTEI-L 333 (700) +++-+.+-...+++|.. +.+...+-.-++-|+|+||||=-+.+-+=....-|+ |.-+..|+-| | T Consensus 45 ~ve~P~d~~~~~e~i~~~~~~~~~~~~~~~~vmvvG~vDSGKSTLt~~LaN~~l~rG~~v~iiDaDvGQ~ei~pPg~ISL 124 (398) T COG1341 45 LVEVPEDRSEPLEEIADTWESKSESAGKVGVVMVVGPVDSGKSTLTTYLANKLLARGRKVAIIDADVGQSEIGPPGFISL 124 (398) T ss_pred CCCCCHHHHHHHHHHHHCCCCCCHHCCCCCEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCCCCCEEEE T ss_conf 42281676317899763224420120687389998986767889999999887644741899968999766679746774 Q ss_pred H Q ss_conf 9 Q gi|254780945|r 334 A 334 (700) Q Consensus 334 A 334 (700) | T Consensus 125 ~ 125 (398) T COG1341 125 A 125 (398) T ss_pred E T ss_conf 1 No 480 >pfam02765 Telo_bind Telomeric single stranded DNA binding POT1/CDC13. This domain binds single stranded telomeric DNA and adopts an OB fold. It includes the proteins POT1 and CDC13 which have been shown to regulate telomere length, replication and capping. Probab=77.85 E-value=5.3 Score=19.63 Aligned_cols=80 Identities=18% Similarity=0.213 Sum_probs=57.6 Q ss_pred HHHCCCCCEEEEEEEEEEEEEECCCCCC--EEEEEEECCC------CEEEEEEECCCHHHHHHHCCCCCEEEEE-EEEEE Q ss_conf 7888998789999999897542158983--3899998189------3699999518878998732898889999-89973 Q gi|254780945|r 61 ISEISEERIVTITGYISQHSSFQLQKRR--PYKILLNDGT------GEITLLFFYRKTEMLKNVFFEGRKITVT-GKIKK 131 (700) Q Consensus 61 I~~l~~g~~vti~g~V~~~~~~~~~~r~--~~~v~v~D~t------g~i~lvfFn~~~~yl~k~lk~G~~v~vs-GKv~~ 131 (700) ......|..+.+.|.|+........++. .+...+.|.+ ..+.+.+|......+...-..|+-+++. =+++. T Consensus 6 ~a~~~~~~~vnv~gVV~~~~~p~~s~g~~~~~t~~i~d~s~~~~~~~~l~v~~F~~~~e~LP~v~~~GDIi~l~r~~v~~ 85 (141) T pfam02765 6 LALLKSGVVVNVIGVVVDAKFPSKSRGSDYDFTLTIVDEDNKGDSNDGLTVKLFSENFEDLPNVQSAGDIIRLHRVKVKL 85 (141) T ss_pred HHHHCCCCEEEEEEEEEECCCCEECCCCCEEEEEEEECCCCCCCCCCCCEEEEECCCHHHCCCCCCCCCEEEEEEEEEEE T ss_conf 23317798899999995635753459985799999990788877899639999899967899867779899997789999 Q ss_pred CCCEEEEEC Q ss_conf 187799977 Q gi|254780945|r 132 LKNRIIMVH 140 (700) Q Consensus 132 ~~~~~qi~h 140 (700) |++..+.+- T Consensus 86 ~~~~~~~~~ 94 (141) T pfam02765 86 YNGKPQGVA 94 (141) T ss_pred ECCEEEEEE T ss_conf 989678987 No 481 >KOG0554 consensus Probab=77.82 E-value=5.3 Score=19.62 Aligned_cols=99 Identities=14% Similarity=0.253 Sum_probs=63.9 Q ss_pred CCCCCEEEEEEEEEEEEEECCCCCCEEEEEEECCCC--EEEEEEECCCHHHHHHHCCCCCEEEEEEEEEECCCEEEEECC Q ss_conf 899878999999989754215898338999981893--699999518878998732898889999899731877999778 Q gi|254780945|r 64 ISEERIVTITGYISQHSSFQLQKRRPYKILLNDGTG--EITLLFFYRKTEMLKNVFFEGRKITVTGKIKKLKNRIIMVHP 141 (700) Q Consensus 64 l~~g~~vti~g~V~~~~~~~~~~r~~~~v~v~D~tg--~i~lvfFn~~~~yl~k~lk~G~~v~vsGKv~~~~~~~qi~hP 141 (700) -..|+..++-|=|.+++. .++..-+.+.|++. .++++-= .+ .-+.+..|+.+.+.|.....++..|-++ T Consensus 17 ~~~g~t~~i~GWvKsvr~----~~~~~Fl~i~DGs~~~~lQvVv~---~~-~~q~la~Gt~i~~~g~l~~~~~~~q~ie- 87 (446) T KOG0554 17 PRAGDTISIGGWVKSVRK----LKKVTFLDINDGSCPSPLQVVVD---SE-QSQLLATGTCISAEGVLKVSKGAKQQIE- 87 (446) T ss_pred CCCCCCEEECCHHHHCCC----CCCEEEEEECCCCCCCCEEEEEC---HH-HHHHCCCCCEEEEEEEEEECCCHHEEEE- T ss_conf 889980463324541314----55428999558988766499956---27-8402056526999756873465010110- Q ss_pred EEEECCCCCCCCCCCCCCCCCCHH-HHHHHHHHH Q ss_conf 689626433444441100000000-004543001 Q gi|254780945|r 142 HYIFHNSQDVNFPLIEAVYSLPTG-LSVDLFKKI 174 (700) Q Consensus 142 e~~~~~~~~~~~~~I~PIYplt~G-Lsqk~irk~ 174 (700) ...+.....|.+.|-||+.+. ++...+|.. T Consensus 88 ---l~~eki~~vG~v~~~ypl~Kk~lt~e~LR~~ 118 (446) T KOG0554 88 ---LNAEKIKVVGTVDESYPLQKKKLTPEMLRDK 118 (446) T ss_pred ---EEEEEEEEEEECCCCCCCCCCCCCHHHHHHC T ss_conf ---2005789985348998774233898898532 No 482 >cd03109 DTBS Dethiobiotin synthetase (DTBS) is the penultimate enzyme in the biotin biosynthesis pathway in Escherichia coli and other microorganisms. The enzyme catalyzes formation of the ureido ring of dethiobiotin from (7R,8S)-7,8-diaminononanoic acid (DAPA) and carbon dioxide. The enzyme utilizes carbon dioxide instead of hydrogen carbonate as substrate and is dependent on ATP and divalent metal ions as cofactors. Probab=77.31 E-value=2.6 Score=21.98 Aligned_cols=34 Identities=24% Similarity=0.295 Sum_probs=29.8 Q ss_pred EEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHH Q ss_conf 8621442236999999733444305458861279 Q gi|254780945|r 298 LQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIG 331 (700) Q Consensus 298 LQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTE 331 (700) +==|.|-|||+|...-+-...+.|+.++.|=|-+ T Consensus 4 ~GTdT~VGKT~vt~~l~~~l~~~G~~v~~~KPv~ 37 (134) T cd03109 4 FGTGTDIGKTVATAILARALKEKGYRVAPLKPVQ 37 (134) T ss_pred EECCCCCCHHHHHHHHHHHHHHCCCCEEEECHHH T ss_conf 5278887689999999999997799177875667 No 483 >cd04323 AsnRS_cyto_like_N AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic synthesis, whereas the other exclusively with Probab=77.28 E-value=5.4 Score=19.51 Aligned_cols=62 Identities=19% Similarity=0.304 Sum_probs=44.2 Q ss_pred EEEEEEEEEEEEEECCCCCCEEEEEEECCCCEEEEEEECCCH--HHHHHHCCCCCEEEEEEEEEECCC Q ss_conf 899999998975421589833899998189369999951887--899873289888999989973187 Q gi|254780945|r 69 IVTITGYISQHSSFQLQKRRPYKILLNDGTGEITLLFFYRKT--EMLKNVFFEGRKITVTGKIKKLKN 134 (700) Q Consensus 69 ~vti~g~V~~~~~~~~~~r~~~~v~v~D~tg~i~lvfFn~~~--~yl~k~lk~G~~v~vsGKv~~~~~ 134 (700) .|++.|-|.+.+. .+...=+.+.|++|.+++++..... ....+.+..+..+.+.|++..... T Consensus 1 kV~l~GWV~~~R~----~g~l~Fi~LRD~~G~iQ~V~~~~~~~~~~~~~~l~~Es~v~V~G~v~~~~~ 64 (84) T cd04323 1 RVKVFGWVHRLRS----QKKLMFLVLRDGTGFLQCVLSKKLVTEFYDAKSLTQESSVEVTGEVKEDPR 64 (84) T ss_pred CEEEEEEEEEEEC----CCCCEEEEEEECCEEEEEEECCCCCCHHHHHHHCCCCEEEEEEEEEEECCC T ss_conf 9999998998623----899289999508879999988865736899973888359999999997897 No 484 >COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription] Probab=77.19 E-value=3.4 Score=21.11 Aligned_cols=173 Identities=17% Similarity=0.228 Sum_probs=77.3 Q ss_pred HHHHHHHH--HHHHHCCCCCCE---EEEEECCCCCHHHHHHHHHHHHHHHH----------CCEEEEEHHHHHHHHHHHH Q ss_conf 89999999--998410013430---78862144223699999973344430----------5458861279999999986 Q gi|254780945|r 276 SQESAIKD--ILQDMSQKNRML---RILQGDVGSGKTLVALIAMAAAVEAG----------GQAVIMAPIGILAQQHYEF 340 (700) Q Consensus 276 ~Q~~ai~e--I~~Dl~~~~pM~---RLLQGDVGSGKTiVA~~A~l~~~~~G----------~Q~alMaPTEILA~QH~~~ 340 (700) +|.+|=+. |.-+|-+...|. -|+-|..|||||..|+.-+ .-+..+ --.+=|--||.|-+- T Consensus 43 GQ~~AReAaGvIv~mik~gk~aGrgiLi~GppgTGKTAlA~gIa-~eLG~dvPF~~isgsEiYS~E~kKTE~L~qa---- 117 (450) T COG1224 43 GQEEAREAAGVIVKMIKQGKMAGRGILIVGPPGTGKTALAMGIA-RELGEDVPFVAISGSEIYSLEVKKTEALTQA---- 117 (450) T ss_pred CHHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHH-HHHCCCCCCEEECCCEEEEECCCHHHHHHHH---- T ss_conf 24988876259999997176666179997899976889999999-9858999821501332233100088999999---- Q ss_pred HHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCE---EEEECHHHC--CCCCCCCCCCEEEECCCCCCCHHHH--HH Q ss_conf 2110145786589962464225667687762134754---864111201--3345544441788521013356889--98 Q gi|254780945|r 341 IKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAH---IIIGTHALF--QDSIQYYKLILVIVDEQHRFGVQQR--LK 413 (700) Q Consensus 341 ~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~---iiIGTHAL~--q~~v~F~~LgLvViDEQHRFGV~QR--~~ 413 (700) |++- .|+++ +|.+++++ |++- +--.-|-+= ++-..=-.+.|---||.-.|-+.-. .. T Consensus 118 ~Rra---IGvri---------kE~reV~E----GeV~~l~i~~~~~p~~~y~~~~~~~~i~LkT~d~~k~~~lg~~i~~q 181 (450) T COG1224 118 LRRA---IGVRI---------KETREVYE----GEVVELEIRRARNPLNPYGKVPSGAIITLKTKDEEKTLRLGPEIAEQ 181 (450) T ss_pred HHHH---HCEEE---------EEEEEEEE----EEEEEEEEEECCCCCCCCCCCCCCEEEEEEECCCCEEEECCHHHHHH T ss_conf 9986---45486---------46668887----78999987623579987665545328999963664576259899999 Q ss_pred HHHCCC-CCCCEEECH-----HHHHHHHHHHH-HHCCCHHHHCCCCCCCC---CCEEEEEECCCHH Q ss_conf 740256-776101010-----13227899997-52010111102355766---6207999702002 Q gi|254780945|r 414 LTQKAT-APHVLLMTA-----TPIPRTLVLTS-LGDIDISKITEKPAGRK---PIKTVIIPINRID 469 (700) Q Consensus 414 L~~Kg~-~ph~L~MtA-----TPIPRTLal~~-ygdldvS~i~e~P~gR~---~I~T~~~~~~~~~ 469 (700) |..-|. .-|+.+.-| +-+-|+-+-.- --|+....--++|.|-. +=.|+.++..+++ T Consensus 182 l~~~~V~~GDVI~Id~etG~V~klGrs~~~~~~~~dl~~~~~V~~P~Gev~K~KEi~~~vTLHDlD 247 (450) T COG1224 182 LVKEGVEEGDVIYIDAETGRVKKLGRSKARAREDFDLEDTRFVPLPEGEVQKRKEIVQTVTLHDLD 247 (450) T ss_pred HHHHCCCCCCEEEEECCCCEEEEEECCCCCCCCCCCCCCEEEEECCCCCEEEEEEEEEEEEEHHHH T ss_conf 998374458789998256679994224233542233442179877988525667789998700313 No 485 >pfam07728 AAA_5 AAA domain (dynein-related subfamily). This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model. Probab=76.84 E-value=1.7 Score=23.40 Aligned_cols=18 Identities=33% Similarity=0.405 Sum_probs=15.0 Q ss_pred EEEEECCCCCHHHHHHHH Q ss_conf 788621442236999999 Q gi|254780945|r 296 RILQGDVGSGKTLVALIA 313 (700) Q Consensus 296 RLLQGDVGSGKTiVA~~A 313 (700) -||+|.-|+|||.+|-.- T Consensus 2 vll~Gp~G~GKT~la~~l 19 (139) T pfam07728 2 VLLVGPPGTGKSELAERL 19 (139) T ss_pred EEEECCCCCHHHHHHHHH T ss_conf 899989975699999999 No 486 >PRK05201 hslU ATP-dependent protease ATP-binding subunit; Provisional Probab=76.83 E-value=1.5 Score=23.83 Aligned_cols=22 Identities=27% Similarity=0.262 Sum_probs=18.8 Q ss_pred CCCEEEEEECCCCCHHHHHHHH Q ss_conf 3430788621442236999999 Q gi|254780945|r 292 NRMLRILQGDVGSGKTLVALIA 313 (700) Q Consensus 292 ~pM~RLLQGDVGSGKTiVA~~A 313 (700) .|.|-|+-|-.|||||.+|=.- T Consensus 49 ~pkNILmIGPTGvGKTeIARrL 70 (442) T PRK05201 49 TPKNILMIGPTGVGKTEIARRL 70 (442) T ss_pred CCCCEEEECCCCCCHHHHHHHH T ss_conf 6431688788886678999999 No 487 >PRK05733 single-stranded DNA-binding protein; Provisional Probab=76.69 E-value=5.6 Score=19.39 Aligned_cols=66 Identities=14% Similarity=0.214 Sum_probs=41.7 Q ss_pred CEEEEEEEEEEEEEECCC-CC-CE--EEEEEE------------CCCCEEEEEEECCCHHHHHHHCCCCCEEEEEEEEEE Q ss_conf 789999999897542158-98-33--899998------------189369999951887899873289888999989973 Q gi|254780945|r 68 RIVTITGYISQHSSFQLQ-KR-RP--YKILLN------------DGTGEITLLFFYRKTEMLKNVFFEGRKITVTGKIKK 131 (700) Q Consensus 68 ~~vti~g~V~~~~~~~~~-~r-~~--~~v~v~------------D~tg~i~lvfFn~~~~yl~k~lk~G~~v~vsGKv~~ 131 (700) ..|++.|.+.+-..+++. .. .. +.+-+. +.|.-+.|+.|...-..+.+.+++|+.|+|.|+++. T Consensus 6 NkV~LiG~lg~DPElr~t~~G~~v~~fslAt~~~~~~~~~ge~~e~T~w~~v~~wgk~AE~~~~yl~KG~~V~VeGrL~t 85 (172) T PRK05733 6 NKVILVGTCGQDPEVRYLPNGNAVTNLSLATSEQWTDKQSGQKVERTEWHRVSLFGKVAEIAGEYLRKGSQVYIEGKLQT 85 (172) T ss_pred CEEEEEEECCCCCEEEECCCCCEEEEEEEEEECCCCCCCCCCEECCCCEEEEEEECHHHHHHHHHCCCCCEEEEEEEEEE T ss_conf 28999755577963888899987999999972550016787583123228998734578888865389998999988884 Q ss_pred CC Q ss_conf 18 Q gi|254780945|r 132 LK 133 (700) Q Consensus 132 ~~ 133 (700) .. T Consensus 86 r~ 87 (172) T PRK05733 86 RE 87 (172) T ss_pred EC T ss_conf 04 No 488 >PTZ00301 uridine kinase; Provisional Probab=76.66 E-value=3 Score=21.58 Aligned_cols=14 Identities=36% Similarity=0.589 Sum_probs=11.3 Q ss_pred EEEECCCCCHHHHH Q ss_conf 88621442236999 Q gi|254780945|r 297 ILQGDVGSGKTLVA 310 (700) Q Consensus 297 LLQGDVGSGKTiVA 310 (700) -+-|+-|||||-+| T Consensus 7 gIaGgSgSGKTT~a 20 (210) T PTZ00301 7 GISGASGSGKSSLS 20 (210) T ss_pred EEECCCCCCHHHHH T ss_conf 99688767899999 No 489 >PRK13849 putative crown gall tumor protein VirC1; Provisional Probab=76.63 E-value=2.4 Score=22.32 Aligned_cols=31 Identities=23% Similarity=0.214 Sum_probs=24.9 Q ss_pred EEECCCCCHHHHHHHHHHHHHHHHCCEEEEE Q ss_conf 8621442236999999733444305458861 Q gi|254780945|r 298 LQGDVGSGKTLVALIAMAAAVEAGGQAVIMA 328 (700) Q Consensus 298 LQGDVGSGKTiVA~~A~l~~~~~G~Q~alMa 328 (700) .+.-=|||||-+|+.-+......|+.|+++= T Consensus 7 ~~~KGG~GKtT~a~~la~~~~~~g~~v~~iD 37 (231) T PRK13849 7 CSFKGGAGKTTALMGLCAALASDGKRVALFE 37 (231) T ss_pred EECCCCCCHHHHHHHHHHHHHHCCCEEEEEE T ss_conf 6189987699999999999997899599996 No 490 >COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion] Probab=76.55 E-value=5.4 Score=19.51 Aligned_cols=60 Identities=18% Similarity=0.310 Sum_probs=44.1 Q ss_pred CCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHH Q ss_conf 679889999999998410013430788621442236999999733444305458861279999999 Q gi|254780945|r 272 SPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQH 337 (700) Q Consensus 272 ~LT~~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH 337 (700) +++.+|...+.-+..- .+|-|+.|-.|||||-- +-|++..+...-.+..+=-|+-|.-|| T Consensus 157 t~~~~~a~~L~~av~~-----r~NILisGGTGSGKTTl-LNal~~~i~~~eRvItiEDtaELql~~ 216 (355) T COG4962 157 TMIRRAAKFLRRAVGI-----RCNILISGGTGSGKTTL-LNALSGFIDSDERVITIEDTAELQLAH 216 (355) T ss_pred CCCHHHHHHHHHHHHH-----CEEEEEECCCCCCHHHH-HHHHHHCCCCCCEEEEEEEHHHHCCCC T ss_conf 9588999999999862-----01599967878879999-999971579765089981236644699 No 491 >PRK05748 replicative DNA helicase; Provisional Probab=76.50 E-value=5.7 Score=19.36 Aligned_cols=73 Identities=15% Similarity=0.073 Sum_probs=42.8 Q ss_pred EEEEECCCCCHHHHHHHHHHHHH-HHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHH Q ss_conf 78862144223699999973344-4305458861279999999986211014578658996246422566768776 Q gi|254780945|r 296 RILQGDVGSGKTLVALIAMAAAV-EAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALER 370 (700) Q Consensus 296 RLLQGDVGSGKTiVA~~A~l~~~-~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~ 370 (700) -.+=|--|.|||..|+--+..++ .+|+-|+|..- |.=++|....+-......+. -.+-.|.++..+...+... T Consensus 206 iviaaRP~mGKTa~alnia~~~a~~~~~~v~~fSl-EM~~~~l~~R~la~~s~v~~-~~i~~g~l~~~~~~~~~~a 279 (448) T PRK05748 206 IIVAARPSVGKTAFALNIAQNVATKTDKNVAIFSL-EMGAESLVMRMLCAEGRIDQ-QKLRTGQLTDEDWPKLTIA 279 (448) T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHCCCEEEEEEC-CCCHHHHHHHHHHHHHCCCH-HHHHCCCCCHHHHHHHHHH T ss_conf 99984799876899999999999856980899817-78888999999999746777-7776289999999999999 No 492 >PRK05973 replicative DNA helicase; Provisional Probab=76.39 E-value=5.7 Score=19.34 Aligned_cols=58 Identities=17% Similarity=0.344 Sum_probs=40.6 Q ss_pred HHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHH Q ss_conf 9998410013430788621442236999999733444305458861279999999986211 Q gi|254780945|r 283 DILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKK 343 (700) Q Consensus 283 eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~ 343 (700) |+..-|.-+- | -+|-|==|=|||.-|+--+..|+.+|+.|+|-.= |-=++|-...+.. T Consensus 56 ~l~~gLqPGD-L-IIlAARPsMGKTafaLnla~~A~k~g~~v~fFSL-EM~~~ql~~RL~~ 113 (237) T PRK05973 56 ELFGQLRPGD-L-VLLGARPGQGKTLLGLELAVEAMKSGRTGVFFTL-EYTEKDVLDRLRA 113 (237) T ss_pred HHHCCCCCCC-E-EEEECCCCCCHHHHHHHHHHHHHHHCCCEEEEEE-CCCHHHHHHHHHH T ss_conf 9856899867-7-9994289887899999999999995996699961-5999999999997 No 493 >TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA; InterPro: IPR010222 This entry represents HrpA, one of two related but uncharacterised 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 uncharacterised, is about 800 amino acids long. Related characterised eukaryotic proteins are RNA helicases associated with pre-mRNA processing.; GO: 0005524 ATP binding, 0008026 ATP-dependent helicase activity. Probab=76.33 E-value=1.6 Score=23.73 Aligned_cols=271 Identities=21% Similarity=0.347 Sum_probs=150.2 Q ss_pred HHHHHHHHHHHHHCCCCCCEEEEEECCCCCHH------------------------HHHHHHHHHHHHH----------H Q ss_conf 89999999998410013430788621442236------------------------9999997334443----------0 Q gi|254780945|r 276 SQESAIKDILQDMSQKNRMLRILQGDVGSGKT------------------------LVALIAMAAAVEA----------G 321 (700) Q Consensus 276 ~Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKT------------------------iVA~~A~l~~~~~----------G 321 (700) +++| +||.+-++.+.-. .+-|..||||| =+|+.+.+.-+.. | T Consensus 71 S~kR--edI~~AI~~nQVv--iiAGETGSGKTTQLPKICLELGrG~~GlIGHTQPRRlAAR~VA~R~AeELgtplGe~VG 146 (1320) T TIGR01967 71 SAKR--EDIAKAIAENQVV--IIAGETGSGKTTQLPKICLELGRGSRGLIGHTQPRRLAARSVAERVAEELGTPLGELVG 146 (1320) T ss_pred HHHH--HHHHHHHHHCCEE--EEECCCCCCCCCCCHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCC T ss_conf 1118--9999999848989--99724487620232167775427876541247146889999999999983889886132 Q ss_pred CCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHCCCCCEEEEECHHHCCCCCCCCCCCEEEEC Q ss_conf 54588612799999999862110145786589962464225667687762134754864111201334554444178852 Q gi|254780945|r 322 GQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKLILVIVD 401 (700) Q Consensus 322 ~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~~G~~~iiIGTHAL~q~~v~F~~LgLvViD 401 (700) |+|= |..-.++ +--|-|+|-++= |.++.. |=-...=--+||| T Consensus 147 YkVR---------------F~D~v~~-~t~VKLmTDGiL-------LAE~Q~---------------DRfL~~YDTIIID 188 (1320) T TIGR01967 147 YKVR---------------FEDQVSS-NTLVKLMTDGIL-------LAETQQ---------------DRFLERYDTIIID 188 (1320) T ss_pred CEEE---------------ECCCCCC-CCEEEEHHHHHH-------HHHHHH---------------HHHHHHCCCEEEC T ss_conf 0366---------------3142688-543630322358-------998520---------------0222106733651 Q ss_pred CCCCCCHHHHHHHH-HCC---CCCCC--EEECHHHHHHHHHHHHHHCC--CHHHHCCCCCCCC-CCEEEEEECC------ Q ss_conf 10133568899874-025---67761--01010132278999975201--0111102355766-6207999702------ Q gi|254780945|r 402 EQHRFGVQQRLKLT-QKA---TAPHV--LLMTATPIPRTLVLTSLGDI--DISKITEKPAGRK-PIKTVIIPIN------ 466 (700) Q Consensus 402 EQHRFGV~QR~~L~-~Kg---~~ph~--L~MtATPIPRTLal~~ygdl--dvS~i~e~P~gR~-~I~T~~~~~~------ 466 (700) |=|==.-|==--|. -|+ ..||+ +.-|||==|==-|-= |.+= .-.=|-| =+||+ ||.|+.-+-. T Consensus 189 EAHERSLNIDFLLGYLK~lL~rRPDLKiIITSATID~ERFs~H-Fn~AeGkPaPIIE-VSGRTyPVe~RYRPL~~~~~~~ 266 (1320) T TIGR01967 189 EAHERSLNIDFLLGYLKQLLPRRPDLKIIITSATIDPERFSRH-FNNAEGKPAPIIE-VSGRTYPVEVRYRPLVEEQEDD 266 (1320) T ss_pred CHHHHHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCHHHHHHH-HCCCCCCCCCEEE-ECCCCCCCCEEECCCCCCCCCC T ss_conf 1231123388999888763266886525740023574468786-2278889887555-2785466511116876444887 Q ss_pred ---------CHHHHHHHHHHHHCCCCE-----EEEEECCCCCCCCCCCCHHHHHHHHHHHHCCC--CEECCCCCCCHHHH Q ss_conf ---------002689999763103873-----89997120122111210146666666866371--03120146998999 Q gi|254780945|r 467 ---------RIDEVIERLKVVLSEGKK-----AYWICPQIEEKKESNFRSVVERFNSLHEHFTS--SIAIIHGRMSDIDK 530 (700) Q Consensus 467 ---------~~~~~~~~i~~~l~~g~q-----~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~--~v~~lHGkm~~~ek 530 (700) .++-+++.|.+=.+.|.. -=|.|=+=.|- .+-+..+.|.+.-.. +|-=|.+|++++|. T Consensus 267 Gnqi~~d~d~~~ai~~AvdEL~~e~~~eGkGPGDiLIFlpGER------EIRDaAE~L~k~~~rhtEIlPLYARLS~~EQ 340 (1320) T TIGR01967 267 GNQIVIDLDQLEAILAAVDELVAEGPDEGKGPGDILIFLPGER------EIRDAAEILRKRNLRHTEILPLYARLSNKEQ 340 (1320) T ss_pred CCEEEECCCHHHHHHHHHHHHHHCCCCCCCCCCCEEEECCCCC------CHHHHHHHHHCCCCCCEEEECCHHHCCHHHC T ss_conf 7704101127889999999997427555789972676378886------3689999984468787044055221586447 Q ss_pred HHHHHHHHCCCEEEEEECHHHHCCCCCCCCCEEEEECH-----------------HHCCHHHHHHHHHCCCCCCCCEEEE Q ss_conf 99999975598699998003410468887658998585-----------------2547468877301166789835999 Q gi|254780945|r 531 ESVMDSFKNGTCKLLIATTVIEVGIDVVDASIIIIENA-----------------EHFGLAQLHQLRGRVGRGEEISSCI 593 (700) Q Consensus 531 ~~~m~~F~~g~~~iLvaTtviEVGvdvpna~~mvI~~a-----------------erfGLsqLHQLRGRVGRg~~~s~c~ 593 (700) ++|.+.=. .=.|..||.|=|--..||.---.|==+- |+--=|-=-|=.||-||= .+|-|+ T Consensus 341 ~RvF~pHs--GRRIVLaTNVAETSLTVPGI~YVIDtGtARiSRYS~RTKVQRLPIEpISQASANQRkGRCGRV-~~GICI 417 (1320) T TIGR01967 341 QRVFQPHS--GRRIVLATNVAETSLTVPGIRYVIDTGTARISRYSYRTKVQRLPIEPISQASANQRKGRCGRV-APGICI 417 (1320) T ss_pred CCCCCCCC--CCEEEEECCHHHHHCCCCCCCCEECCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCC-CCCEEE T ss_conf 44006859--623453301013305788711135688532000100330133676603122320068875414-777047 Q ss_pred EEECCC Q ss_conf 970888 Q gi|254780945|r 594 LLYHPP 599 (700) Q Consensus 594 l~~~~~ 599 (700) =+|+.. T Consensus 418 RLYSE~ 423 (1320) T TIGR01967 418 RLYSEE 423 (1320) T ss_pred ECCCHH T ss_conf 557757 No 494 >PTZ00150 phosphoglucomutase; Provisional Probab=76.25 E-value=2.7 Score=21.91 Aligned_cols=20 Identities=15% Similarity=0.182 Sum_probs=14.3 Q ss_pred CCCCCHHHHHHHHHHHHCCC Q ss_conf 14699899999999975598 Q gi|254780945|r 522 HGRMSDIDKESVMDSFKNGT 541 (700) Q Consensus 522 HGkm~~~ek~~~m~~F~~g~ 541 (700) +...+.++...+|++|+... T Consensus 472 ~~~~~~~~i~~i~~~~r~~~ 491 (593) T PTZ00150 472 YIVLDPNDIVSIFNDFRGNG 491 (593) T ss_pred EEECCHHHHHHHHHHHHCCC T ss_conf 87279899999999986189 No 495 >cd04480 RPA1_DBD_A_like RPA1_DBD_A_like: A subgroup of uncharacterized plant OB folds with similarity to the second OB fold, the ssDNA-binding domain (DBD)-A, of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-A, RPA1 contains three other OB folds: DBD-B, DBD-C, and RPA1N. The major DNA binding activity of RPA is associated with DBD-A and DBD-B of RPA1. RPA1 DBD-C is involved in trimerization. The ssDNA-binding mechanism is believed to be multistep and to involve conformational change. Probab=76.23 E-value=5.8 Score=19.31 Aligned_cols=74 Identities=14% Similarity=0.104 Sum_probs=50.7 Q ss_pred EEEEEEEEEEECC-CCCCEEEEEEECCCC-EEEEEEECCCHHHHHHHCCCCCEEEEE-EEEEECCCEEEEECCEEEE Q ss_conf 9999989754215-898338999981893-699999518878998732898889999-8997318779997786896 Q gi|254780945|r 72 ITGYISQHSSFQL-QKRRPYKILLNDGTG-EITLLFFYRKTEMLKNVFFEGRKITVT-GKIKKLKNRIIMVHPHYIF 145 (700) Q Consensus 72 i~g~V~~~~~~~~-~~r~~~~v~v~D~tg-~i~lvfFn~~~~yl~k~lk~G~~v~vs-GKv~~~~~~~qi~hPe~~~ 145 (700) |.++|.+.-.... .....+..++.|+.| .|.+..+..........|++|..+.++ ++|....+.+-.+...|.+ T Consensus 2 I~Vrv~r~W~~~~~~~~~~~~mvL~De~G~~I~a~i~~~~~~~f~~~L~eg~vy~is~F~V~~~~~~yk~t~~~y~I 78 (86) T cd04480 2 ICVRVLRLWDVYNNASGESLEMVLVDEKGNRIHATIPKRLAAKFRPLLKEGKWYTISNFEVAPNTGSYRPTDHPYKI 78 (86) T ss_pred EEEEEEEEEECCCCCCCCEEEEEEECCCCCEEEEEECHHHHHHHHHHCCCCCEEEECCEEEEECCCCEEEECCCEEE T ss_conf 89999996866788997178899987899999999948998777755100629998719999689981781996899 No 496 >pfam00436 SSB Single-strand binding protein family. This family includes single stranded binding proteins and also the primosomal replication protein N (PriB). PriB forms a complex with PriA, PriC and ssDNA. Probab=75.72 E-value=5.9 Score=19.21 Aligned_cols=64 Identities=14% Similarity=0.320 Sum_probs=42.6 Q ss_pred EEEEEEEEEEEEEECC-CCCCE---EEEEEE-----------CCCCEEEEEEECCCHHHHHHHCCCCCEEEEEEEEEEC Q ss_conf 8999999989754215-89833---899998-----------1893699999518878998732898889999899731 Q gi|254780945|r 69 IVTITGYISQHSSFQL-QKRRP---YKILLN-----------DGTGEITLLFFYRKTEMLKNVFFEGRKITVTGKIKKL 132 (700) Q Consensus 69 ~vti~g~V~~~~~~~~-~~r~~---~~v~v~-----------D~tg~i~lvfFn~~~~yl~k~lk~G~~v~vsGKv~~~ 132 (700) .+++.|.+.+-...+. ...++ +.+.+. +.+.-+.++.|+.....+.+.+++|+.+.|.|+++.. T Consensus 3 ~v~l~G~l~~dpe~r~~~~g~~~~~f~va~~~~~~~~~~~~~~~t~~~~v~~~g~~A~~~~~~l~KG~~V~V~G~l~~~ 81 (104) T pfam00436 3 KVILVGRLTRDPELRYTPNGNAVANFTLAVNRRFKDQNGESDEETDFIRVVVWGKLAENAAEYLKKGSLVYVEGRLRTR 81 (104) T ss_pred EEEEEEEECCCCEEEECCCCCEEEEEEEEEEECCCCCCCCCCCCCEEEEEEECCHHHHHHHHCCCCCCEEEEEEEEEEE T ss_conf 9999999056989999689988999999996021346787024558998773054465431227899799999997811 No 497 >pfam00308 Bac_DnaA Bacterial dnaA protein. Probab=75.70 E-value=5.9 Score=19.20 Aligned_cols=48 Identities=19% Similarity=0.159 Sum_probs=27.0 Q ss_pred HHHHHHHHHCCCCCCE-EEEEECCCCCHHHHHHHHHHHHHHH--HCCEEEEEH Q ss_conf 9999998410013430-7886214422369999997334443--054588612 Q gi|254780945|r 280 AIKDILQDMSQKNRML-RILQGDVGSGKTLVALIAMAAAVEA--GGQAVIMAP 329 (700) Q Consensus 280 ai~eI~~Dl~~~~pM~-RLLQGDVGSGKTiVA~~A~l~~~~~--G~Q~alMaP 329 (700) +.+.|.+.-.. ++| =.|.|..|||||=..-.++..+... +..+.++-+ T Consensus 22 ~~~~i~~~~~~--~~npl~i~G~~G~GKTHLLqA~~~~~~~~~~~~~v~yl~~ 72 (219) T pfam00308 22 AALAVAEAPGK--AYNPLFIYGGVGLGKTHLLHAIGNYALRNFPNLRVVYLTS 72 (219) T ss_pred HHHHHHHCCCC--CCCCEEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEEEEH T ss_conf 99999967587--6782699889999888999999999998499982888439 No 498 >pfam00448 SRP54 SRP54-type protein, GTPase domain. This family includes relatives of the G-domain of the SRP54 family of proteins. Probab=75.67 E-value=6 Score=19.20 Aligned_cols=87 Identities=22% Similarity=0.229 Sum_probs=0.0 Q ss_pred CCEEEEEECCCCCHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEE-ECCCCHHHHHHHHHHH Q ss_conf 430788621442236999999733444305458861279999999986211014578658996-2464225667687762 Q gi|254780945|r 293 RMLRILQGDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEII-TGNMPQAHRRKALERI 371 (700) Q Consensus 293 pM~RLLQGDVGSGKTiVA~~A~l~~~~~G~Q~alMaPTEILA~QH~~~~~~~~~~~~i~v~lL-tg~~~~~er~~i~~~i 371 (700) |---++-|=-|+|||--++--++.....|+.+++.+= ..----=.+.++.|-+.+++++... +++.+..-.++.++.. T Consensus 1 P~vi~lvGptGvGKTTTiaKLAa~~~~~~~~V~lit~-Dt~R~gA~eQL~~ya~~l~v~~~~~~~~~d~~~~~~~~l~~~ 79 (196) T pfam00448 1 PNVILLVGLQGSGKTTTIAKLAAYLKKQGKKVLLVAA-DTFRAAAIEQLKQLAERLGVPVFGSGTGSDPAAVAFDAVEKA 79 (196) T ss_pred CEEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEEC-CCCCHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHH T ss_conf 9699998999998899999999999977992899975-877688999999999863981781487778789999999998 Q ss_pred CCCCCEEEE Q ss_conf 134754864 Q gi|254780945|r 372 AHGQAHIII 380 (700) Q Consensus 372 ~~G~~~iiI 380 (700) +....|+|+ T Consensus 80 ~~~~~D~Il 88 (196) T pfam00448 80 KAENYDVVL 88 (196) T ss_pred HHCCCCEEE T ss_conf 846899999 No 499 >PHA02518 ParA-like protein; Provisional Probab=75.57 E-value=2.6 Score=21.99 Aligned_cols=25 Identities=28% Similarity=0.341 Sum_probs=0.0 Q ss_pred CCCHHHHHHHHHHHHHHHHCCEEEE Q ss_conf 4223699999973344430545886 Q gi|254780945|r 303 GSGKTLVALIAMAAAVEAGGQAVIM 327 (700) Q Consensus 303 GSGKTiVA~~A~l~~~~~G~Q~alM 327 (700) |+|||-+|+.-+......|+.|+++ T Consensus 11 GvGKTT~a~nLA~~la~~G~~Vlli 35 (211) T PHA02518 11 GAGKTTVATNLASWLHADGHKVLLV 35 (211) T ss_pred CCHHHHHHHHHHHHHHHCCCCEEEE T ss_conf 9749999999999999789948999 No 500 >PRK07276 DNA polymerase III subunit delta'; Validated Probab=75.50 E-value=4 Score=20.59 Aligned_cols=46 Identities=13% Similarity=0.077 Sum_probs=0.0 Q ss_pred CCCHHHHHHHHHHHHHHCCCCCCEE-EEEECCCCCHHHHHHHHHHHH Q ss_conf 6798899999999984100134307-886214422369999997334 Q gi|254780945|r 272 SPTKSQESAIKDILQDMSQKNRMLR-ILQGDVGSGKTLVALIAMAAA 317 (700) Q Consensus 272 ~LT~~Q~~ai~eI~~Dl~~~~pM~R-LLQGDVGSGKTiVA~~A~l~~ 317 (700) +++.-|-++++...+-+.+++--+- |+.|++|+|++..++..++.| T Consensus 2 ~~~~~Qp~i~~~l~~~i~~~rl~HAyLf~G~~Gk~~~A~~~A~~l~C 48 (290) T PRK07276 2 DLAQKQPKLFQRFQTILEQDRLNHAYLFSGDFASFEMALFLAQSLFC 48 (290) T ss_pred CHHHHHHHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHHHC T ss_conf 87787899999999999849965054216986879999999999818 Done!