Query 000107
Match_columns 2191
No_of_seqs 833 out of 5169
Neff 6.7
Searched_HMMs 46136
Date Thu Mar 28 18:37:29 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/000107.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/000107hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0749 PolA DNA polymerase I 100.0 4E-123 8E-128 1156.4 46.3 577 1494-2177 8-593 (593)
2 TIGR00593 pola DNA polymerase 100.0 1E-110 3E-115 1118.5 60.1 573 1494-2177 309-887 (887)
3 KOG0950 DNA polymerase theta/e 100.0 3E-110 6E-115 1051.4 47.4 740 501-1302 199-955 (1008)
4 PRK05755 DNA polymerase I; Pro 100.0 3E-101 7E-106 1048.4 61.5 580 1490-2177 297-880 (880)
5 PRK14975 bifunctional 3'-5' ex 100.0 1E-91 2.2E-96 910.8 51.0 460 1652-2177 72-553 (553)
6 PRK02362 ski2-like helicase; P 100.0 3.8E-85 8.3E-90 881.8 66.1 689 509-1299 8-706 (737)
7 cd08637 DNA_pol_A_pol_I_C Poly 100.0 2.8E-85 6.1E-90 812.3 38.9 377 1757-2174 1-377 (377)
8 PRK01172 ski2-like helicase; P 100.0 2.3E-81 5E-86 840.0 62.9 657 509-1301 8-670 (674)
9 PF00476 DNA_pol_A: DNA polyme 100.0 6.2E-83 1.3E-87 797.2 34.5 382 1756-2176 1-383 (383)
10 PRK00254 ski2-like helicase; P 100.0 5.3E-80 1.1E-84 830.1 62.7 684 509-1297 8-699 (720)
11 cd08638 DNA_pol_A_theta DNA po 100.0 8.5E-82 1.8E-86 780.2 36.5 373 1753-2176 1-373 (373)
12 cd08643 DNA_pol_A_pol_I_B Poly 100.0 2.8E-81 6E-86 776.9 36.6 366 1756-2177 1-429 (429)
13 cd08640 DNA_pol_A_plastid_like 100.0 1.7E-77 3.6E-82 733.2 29.1 306 1831-2175 41-371 (371)
14 COG1204 Superfamily II helicas 100.0 2.1E-74 4.5E-79 759.6 46.8 696 509-1300 16-733 (766)
15 cd08642 DNA_pol_A_pol_I_A Poly 100.0 4E-74 8.7E-79 696.4 30.1 349 1762-2173 3-377 (378)
16 cd08639 DNA_pol_A_Aquificae_li 100.0 5.6E-72 1.2E-76 676.3 30.7 315 1756-2174 1-324 (324)
17 cd06444 DNA_pol_A Family A pol 100.0 2.6E-71 5.7E-76 679.8 28.2 301 1832-2174 26-347 (347)
18 KOG0952 DNA/RNA helicase MER3/ 100.0 4.6E-57 1E-61 569.9 33.0 511 482-1049 68-623 (1230)
19 COG1202 Superfamily II helicas 100.0 6.2E-54 1.3E-58 512.0 41.3 590 509-1225 201-829 (830)
20 cd08641 DNA_pol_gammaA Pol gam 100.0 4.4E-56 9.6E-61 526.7 20.4 249 1865-2166 94-400 (425)
21 smart00482 POLAc DNA polymeras 100.0 6.1E-53 1.3E-57 483.9 21.0 204 1920-2140 3-206 (206)
22 KOG0951 RNA helicase BRR2, DEA 100.0 3.5E-50 7.5E-55 510.4 35.1 654 486-1250 270-971 (1674)
23 KOG0331 ATP-dependent RNA heli 100.0 5.7E-43 1.2E-47 433.5 33.9 341 509-936 98-452 (519)
24 TIGR03817 DECH_helic helicase/ 100.0 2.8E-42 6E-47 461.2 40.5 361 504-931 16-385 (742)
25 PRK13767 ATP-dependent helicas 100.0 3.8E-42 8.2E-47 468.4 40.4 429 507-1011 16-476 (876)
26 KOG0330 ATP-dependent RNA heli 100.0 1.7E-42 3.7E-47 401.7 27.1 338 509-938 68-413 (476)
27 PLN00206 DEAD-box ATP-dependen 100.0 3E-42 6.6E-47 448.2 32.6 343 502-939 120-482 (518)
28 PTZ00110 helicase; Provisional 100.0 7.5E-42 1.6E-46 445.7 32.1 334 509-937 137-489 (545)
29 KOG0947 Cytoplasmic exosomal R 100.0 2.2E-41 4.9E-46 422.8 29.8 389 520-954 294-747 (1248)
30 PRK04837 ATP-dependent RNA hel 100.0 8E-41 1.7E-45 426.8 35.8 334 509-937 15-367 (423)
31 PRK10590 ATP-dependent RNA hel 100.0 1.8E-40 3.8E-45 426.7 35.6 329 509-936 8-356 (456)
32 PRK11776 ATP-dependent RNA hel 100.0 2.2E-40 4.9E-45 427.1 33.8 332 509-937 11-354 (460)
33 PRK04537 ATP-dependent RNA hel 100.0 3.6E-40 7.9E-45 431.2 36.2 334 509-936 16-368 (572)
34 KOG0948 Nuclear exosomal RNA h 100.0 2.1E-40 4.5E-45 405.4 28.9 390 524-956 129-564 (1041)
35 PRK11192 ATP-dependent RNA hel 100.0 2.1E-39 4.5E-44 415.4 36.0 331 509-937 8-357 (434)
36 COG0513 SrmB Superfamily II DN 100.0 3.2E-40 6.9E-45 426.7 28.6 339 509-937 36-386 (513)
37 COG1201 Lhr Lhr-like helicases 100.0 5.9E-39 1.3E-43 417.4 37.9 419 508-1015 7-446 (814)
38 PRK01297 ATP-dependent RNA hel 100.0 3E-39 6.6E-44 417.8 34.2 333 508-935 93-445 (475)
39 PRK11634 ATP-dependent RNA hel 100.0 7E-39 1.5E-43 421.1 34.5 332 509-938 13-358 (629)
40 PTZ00424 helicase 45; Provisio 100.0 7.1E-39 1.5E-43 406.7 33.0 340 509-938 35-380 (401)
41 KOG0333 U5 snRNP-like RNA heli 100.0 3.6E-39 7.9E-44 384.2 25.9 357 509-936 252-628 (673)
42 KOG0338 ATP-dependent RNA heli 100.0 2.2E-39 4.8E-44 384.1 22.2 346 509-943 188-544 (691)
43 PRK09751 putative ATP-dependen 100.0 9.4E-38 2E-42 428.3 38.5 421 546-1009 1-461 (1490)
44 COG4581 Superfamily II RNA hel 100.0 2E-38 4.3E-43 416.0 29.9 401 518-957 114-564 (1041)
45 PRK11664 ATP-dependent RNA hel 100.0 1.8E-37 3.8E-42 415.3 37.5 397 538-1049 17-430 (812)
46 KOG0345 ATP-dependent RNA heli 100.0 1.6E-37 3.5E-42 367.4 31.0 356 509-953 13-385 (567)
47 TIGR01970 DEAH_box_HrpB ATP-de 100.0 5.5E-37 1.2E-41 409.5 38.8 395 538-1048 14-426 (819)
48 KOG0326 ATP-dependent RNA heli 100.0 1.8E-38 3.9E-43 358.5 20.5 345 509-953 92-453 (459)
49 KOG0328 Predicted ATP-dependen 100.0 6.5E-38 1.4E-42 349.3 23.5 341 509-939 34-380 (400)
50 KOG0951 RNA helicase BRR2, DEA 100.0 1.4E-38 3E-43 405.4 20.2 523 447-1094 1070-1616(1674)
51 KOG0340 ATP-dependent RNA heli 100.0 7E-38 1.5E-42 359.7 23.1 350 497-937 6-366 (442)
52 PLN03137 ATP-dependent DNA hel 100.0 7.5E-37 1.6E-41 402.9 34.9 332 511-943 446-798 (1195)
53 KOG0348 ATP-dependent RNA heli 100.0 2.9E-37 6.4E-42 368.2 25.5 394 509-945 143-566 (708)
54 KOG0342 ATP-dependent RNA heli 100.0 3.5E-37 7.7E-42 367.8 26.2 342 509-939 89-444 (543)
55 TIGR00614 recQ_fam ATP-depende 100.0 2.5E-36 5.3E-41 389.5 32.4 321 519-943 6-344 (470)
56 KOG0343 RNA Helicase [RNA proc 100.0 2.7E-36 5.8E-41 360.5 25.7 340 509-944 76-434 (758)
57 KOG0335 ATP-dependent RNA heli 100.0 1.9E-36 4.1E-41 369.4 24.5 339 509-932 81-444 (482)
58 PRK11131 ATP-dependent RNA hel 100.0 5.2E-35 1.1E-39 394.9 36.6 401 538-1049 86-507 (1294)
59 TIGR01389 recQ ATP-dependent D 100.0 8.1E-35 1.8E-39 385.7 32.7 326 516-946 4-345 (591)
60 PRK11057 ATP-dependent DNA hel 100.0 1.5E-34 3.4E-39 382.0 34.6 327 513-945 13-356 (607)
61 KOG0922 DEAH-box RNA helicase 100.0 1.7E-34 3.7E-39 357.7 32.4 407 529-1048 56-481 (674)
62 TIGR01967 DEAH_box_HrpA ATP-de 100.0 1.8E-34 3.8E-39 391.5 35.0 403 538-1049 79-498 (1283)
63 KOG0336 ATP-dependent RNA heli 100.0 3.2E-35 7E-40 340.1 21.8 332 511-941 229-581 (629)
64 KOG0347 RNA helicase [RNA proc 100.0 2E-35 4.3E-40 353.5 19.2 361 502-940 177-578 (731)
65 COG1643 HrpA HrpA-like helicas 100.0 8.6E-34 1.9E-38 372.2 33.1 400 538-1049 62-479 (845)
66 KOG0339 ATP-dependent RNA heli 100.0 7.3E-34 1.6E-38 336.4 26.8 340 509-941 230-584 (731)
67 KOG0350 DEAD-box ATP-dependent 100.0 3.6E-34 7.9E-39 340.6 23.4 378 509-943 144-551 (620)
68 KOG0923 mRNA splicing factor A 100.0 2.2E-33 4.8E-38 341.0 30.1 413 522-1048 263-697 (902)
69 KOG0341 DEAD-box protein abstr 100.0 2.8E-34 6.1E-39 330.3 18.1 332 509-932 177-528 (610)
70 KOG0332 ATP-dependent RNA heli 100.0 6.5E-33 1.4E-37 320.3 26.6 352 492-934 84-445 (477)
71 KOG0334 RNA helicase [RNA proc 100.0 1.4E-33 2.9E-38 363.6 20.1 338 509-936 372-724 (997)
72 PHA02653 RNA helicase NPH-II; 100.0 5.4E-32 1.2E-36 354.1 34.7 390 527-1045 167-591 (675)
73 KOG0924 mRNA splicing factor A 100.0 7.9E-32 1.7E-36 327.0 31.4 413 523-1048 355-788 (1042)
74 TIGR00580 mfd transcription-re 100.0 1.6E-31 3.4E-36 360.5 32.3 313 511-932 438-770 (926)
75 TIGR00643 recG ATP-dependent D 100.0 2.2E-31 4.7E-36 353.6 32.7 323 511-930 223-564 (630)
76 KOG0346 RNA helicase [RNA proc 100.0 1.7E-31 3.8E-36 313.5 24.7 331 509-935 26-413 (569)
77 PRK10917 ATP-dependent DNA hel 100.0 5.2E-31 1.1E-35 352.0 32.6 317 513-930 251-587 (681)
78 KOG0344 ATP-dependent RNA heli 100.0 1.7E-31 3.6E-36 326.8 22.3 340 509-936 143-499 (593)
79 COG0514 RecQ Superfamily II DN 100.0 1.5E-30 3.1E-35 329.0 28.2 326 515-946 7-351 (590)
80 KOG4284 DEAD box protein [Tran 100.0 2.3E-31 5.1E-36 321.7 20.0 333 509-932 32-379 (980)
81 COG1205 Distinct helicase fami 100.0 1.8E-30 3.9E-35 348.4 30.1 357 506-931 52-421 (851)
82 PRK10689 transcription-repair 100.0 3.9E-30 8.5E-35 353.6 30.2 310 514-931 591-918 (1147)
83 KOG0920 ATP-dependent RNA heli 100.0 3.4E-30 7.3E-35 336.1 26.1 427 525-1046 174-635 (924)
84 KOG0327 Translation initiation 100.0 2.3E-30 5E-35 303.8 21.9 346 509-948 33-389 (397)
85 KOG0337 ATP-dependent RNA heli 100.0 2.6E-30 5.7E-35 302.7 20.3 341 509-939 28-375 (529)
86 TIGR02621 cas3_GSU0051 CRISPR- 100.0 2.3E-29 5E-34 330.0 28.5 321 513-928 4-388 (844)
87 TIGR01587 cas3_core CRISPR-ass 100.0 4.2E-29 9E-34 312.8 27.6 303 543-932 1-336 (358)
88 KOG0926 DEAH-box RNA helicase 100.0 2.9E-28 6.2E-33 300.6 24.8 440 537-1050 267-797 (1172)
89 KOG0949 Predicted helicase, DE 100.0 1.3E-27 2.9E-32 300.2 26.6 392 524-952 511-1066(1330)
90 PHA02558 uvsW UvsW helicase; P 100.0 3.2E-27 7E-32 306.6 30.3 311 523-918 113-440 (501)
91 TIGR03158 cas3_cyano CRISPR-as 100.0 8.8E-27 1.9E-31 290.4 26.6 291 528-915 1-357 (357)
92 COG1111 MPH1 ERCC4-like helica 99.9 1.8E-26 4E-31 278.9 27.7 340 523-932 14-481 (542)
93 PRK09401 reverse gyrase; Revie 99.9 5.1E-26 1.1E-30 313.8 32.8 306 511-897 67-409 (1176)
94 KOG0925 mRNA splicing factor A 99.9 4.3E-26 9.2E-31 270.1 26.8 417 511-1048 34-478 (699)
95 KOG0351 ATP-dependent DNA heli 99.9 1.1E-26 2.3E-31 309.1 23.9 335 508-944 248-604 (941)
96 KOG0354 DEAD-box like helicase 99.9 1.8E-25 4E-30 284.9 26.7 343 523-933 61-530 (746)
97 PRK14701 reverse gyrase; Provi 99.9 1.8E-25 3.9E-30 313.6 28.6 356 511-943 66-467 (1638)
98 KOG0352 ATP-dependent DNA heli 99.9 1.1E-25 2.3E-30 263.0 20.9 334 511-945 5-375 (641)
99 TIGR01054 rgy reverse gyrase. 99.9 6.3E-25 1.4E-29 303.6 32.0 305 511-894 65-405 (1171)
100 PRK13766 Hef nuclease; Provisi 99.9 3.1E-24 6.7E-29 294.0 32.9 340 523-932 14-479 (773)
101 PRK12898 secA preprotein trans 99.9 5.4E-24 1.2E-28 274.8 28.3 344 519-933 99-587 (656)
102 TIGR00603 rad25 DNA repair hel 99.9 4.1E-24 8.9E-29 278.7 27.4 322 523-933 254-608 (732)
103 KOG0353 ATP-dependent DNA heli 99.9 2.7E-24 5.9E-29 246.8 22.2 333 511-941 80-476 (695)
104 COG1200 RecG RecG-like helicas 99.9 1.6E-23 3.4E-28 263.8 28.4 320 513-933 252-592 (677)
105 TIGR03714 secA2 accessory Sec 99.9 2E-23 4.3E-28 272.1 29.4 340 525-933 69-538 (762)
106 PRK09200 preprotein translocas 99.9 2E-23 4.2E-28 274.8 28.3 338 520-933 75-542 (790)
107 PRK09694 helicase Cas3; Provis 99.9 1.6E-23 3.4E-28 280.5 27.9 325 522-919 284-664 (878)
108 KOG0329 ATP-dependent RNA heli 99.9 2.8E-24 6.1E-29 237.4 15.6 308 509-942 49-365 (387)
109 PRK05580 primosome assembly pr 99.9 4.4E-23 9.4E-28 275.1 27.5 354 524-932 144-549 (679)
110 TIGR00963 secA preprotein tran 99.9 1.1E-22 2.4E-27 263.5 29.2 339 520-933 53-518 (745)
111 TIGR00595 priA primosomal prot 99.9 2.6E-22 5.6E-27 259.1 25.9 320 545-931 1-380 (505)
112 KOG0952 DNA/RNA helicase MER3/ 99.9 8E-24 1.7E-28 270.1 4.2 364 453-861 859-1229(1230)
113 COG4098 comFA Superfamily II D 99.9 1.9E-20 4.1E-25 216.1 27.9 307 524-930 97-414 (441)
114 COG1197 Mfd Transcription-repa 99.9 2.1E-20 4.5E-25 247.0 29.3 301 520-932 591-913 (1139)
115 KOG0349 Putative DEAD-box RNA 99.9 2E-21 4.4E-26 227.0 15.9 293 572-931 288-614 (725)
116 cd00268 DEADc DEAD-box helicas 99.9 1.1E-20 2.5E-25 217.7 19.6 173 509-711 6-186 (203)
117 COG1061 SSL2 DNA or RNA helica 99.9 7.3E-20 1.6E-24 233.9 28.9 306 523-917 35-376 (442)
118 PRK11448 hsdR type I restricti 99.8 1.2E-18 2.6E-23 240.1 27.7 332 524-918 413-801 (1123)
119 PRK13104 secA preprotein trans 99.8 1.5E-18 3.3E-23 227.8 27.0 130 520-655 79-215 (896)
120 PRK04914 ATP-dependent helicas 99.8 6.5E-18 1.4E-22 228.2 32.3 125 779-946 493-620 (956)
121 PF00270 DEAD: DEAD/DEAH box h 99.8 1.9E-19 4.1E-24 200.9 14.4 157 526-710 1-163 (169)
122 PRK12906 secA preprotein trans 99.8 4.8E-18 1E-22 222.6 23.3 355 520-933 77-554 (796)
123 PRK12904 preprotein translocas 99.8 2.8E-17 6.1E-22 216.2 26.5 130 520-655 78-214 (830)
124 COG1203 CRISPR-associated heli 99.8 1.2E-17 2.5E-22 225.4 20.7 322 524-932 195-550 (733)
125 PRK12899 secA preprotein trans 99.7 7.3E-17 1.6E-21 211.4 24.4 142 509-655 69-228 (970)
126 PRK13107 preprotein translocas 99.7 1.2E-16 2.5E-21 209.5 22.4 130 520-655 79-215 (908)
127 COG1198 PriA Primosomal protei 99.7 1.9E-15 4.2E-20 197.7 21.0 354 523-933 197-604 (730)
128 PLN03142 Probable chromatin-re 99.6 2.1E-14 4.5E-19 195.0 28.0 326 524-932 169-599 (1033)
129 TIGR01407 dinG_rel DnaQ family 99.6 1.6E-13 3.5E-18 189.2 30.8 95 509-605 231-330 (850)
130 KOG0921 Dosage compensation co 99.6 2E-14 4.3E-19 181.2 19.5 415 538-1045 390-863 (1282)
131 KOG0953 Mitochondrial RNA heli 99.6 1.2E-14 2.5E-19 177.2 16.2 293 540-948 190-492 (700)
132 KOG4150 Predicted ATP-dependen 99.6 5.8E-15 1.3E-19 177.8 13.1 354 512-931 274-641 (1034)
133 cd06140 DNA_polA_I_Bacillus_li 99.6 4.9E-14 1.1E-18 159.5 17.9 170 1509-1747 4-177 (178)
134 COG4096 HsdR Type I site-speci 99.6 1.3E-13 2.8E-18 176.6 23.2 319 523-919 164-527 (875)
135 TIGR00348 hsdR type I site-spe 99.5 2.1E-13 4.5E-18 182.8 23.1 127 525-655 239-378 (667)
136 smart00487 DEXDc DEAD-like hel 99.5 2.9E-13 6.3E-18 153.3 16.2 163 519-711 3-172 (201)
137 COG1110 Reverse gyrase [DNA re 99.5 7.7E-12 1.7E-16 162.2 28.4 306 511-895 69-414 (1187)
138 PRK12900 secA preprotein trans 99.5 1.2E-12 2.6E-17 172.7 20.9 120 766-933 585-712 (1025)
139 cd06139 DNA_polA_I_Ecoli_like_ 99.5 1.4E-12 3E-17 149.3 18.7 182 1507-1747 4-192 (193)
140 KOG1123 RNA polymerase II tran 99.4 5.8E-13 1.2E-17 159.8 14.4 309 523-918 301-635 (776)
141 PRK12326 preprotein translocas 99.4 1.3E-11 2.8E-16 159.4 22.8 130 520-655 75-211 (764)
142 TIGR00631 uvrb excinuclease AB 99.4 3.7E-12 8E-17 169.1 16.9 124 766-933 429-554 (655)
143 COG0556 UvrB Helicase subunit 99.3 5.6E-11 1.2E-15 145.5 22.8 122 766-931 433-556 (663)
144 PRK07246 bifunctional ATP-depe 99.3 1.5E-10 3.3E-15 158.0 28.2 82 520-605 242-327 (820)
145 PRK13103 secA preprotein trans 99.3 2E-11 4.3E-16 161.3 17.8 130 520-655 79-215 (913)
146 cd00046 DEXDc DEAD-like helica 99.3 2E-11 4.4E-16 130.1 14.7 114 542-658 1-119 (144)
147 PF01612 DNA_pol_A_exo1: 3'-5' 99.3 3.7E-11 8.1E-16 135.2 16.2 171 1490-1727 2-176 (176)
148 cd00079 HELICc Helicase superf 99.3 1.7E-11 3.8E-16 130.5 12.0 116 767-928 16-131 (131)
149 PF04851 ResIII: Type III rest 99.3 2.6E-11 5.7E-16 136.8 12.8 126 524-656 3-160 (184)
150 PRK12903 secA preprotein trans 99.2 1E-09 2.2E-14 143.8 24.8 130 520-655 75-211 (925)
151 TIGR02562 cas3_yersinia CRISPR 99.2 9.7E-10 2.1E-14 146.3 24.6 72 846-924 789-886 (1110)
152 KOG0385 Chromatin remodeling c 99.2 2.6E-09 5.5E-14 135.3 26.6 330 524-933 167-600 (971)
153 PRK08074 bifunctional ATP-depe 99.2 2.7E-09 5.8E-14 148.5 29.2 68 520-588 254-323 (928)
154 PF00271 Helicase_C: Helicase 99.2 3.4E-11 7.5E-16 117.4 6.3 73 842-918 6-78 (78)
155 PRK14873 primosome assembly pr 99.1 5.4E-10 1.2E-14 148.3 18.1 325 547-932 166-539 (665)
156 PRK05298 excinuclease ABC subu 99.1 2.3E-10 5E-15 153.3 14.0 123 765-931 432-556 (652)
157 KOG1000 Chromatin remodeling p 99.1 5.9E-08 1.3E-12 118.0 28.4 139 522-670 196-335 (689)
158 PRK12902 secA preprotein trans 99.0 2.2E-08 4.8E-13 132.1 25.1 130 520-655 82-218 (939)
159 CHL00122 secA preprotein trans 99.0 6.2E-09 1.4E-13 137.6 20.1 130 520-655 73-209 (870)
160 KOG3657 Mitochondrial DNA poly 99.0 1E-09 2.2E-14 138.8 11.6 222 1911-2157 713-999 (1075)
161 cd06142 RNaseD_exo DEDDy 3'-5' 99.0 6.8E-09 1.5E-13 117.4 16.8 171 1499-1742 3-175 (178)
162 COG4889 Predicted helicase [Ge 98.9 7.4E-09 1.6E-13 131.3 15.5 146 503-654 140-316 (1518)
163 smart00474 35EXOc 3'-5' exonuc 98.9 1.3E-08 2.8E-13 113.9 16.0 167 1491-1726 3-171 (172)
164 TIGR01388 rnd ribonuclease D. 98.9 1.2E-08 2.5E-13 128.2 16.5 177 1492-1741 2-180 (367)
165 COG1199 DinG Rad3-related DNA 98.9 4.8E-08 1E-12 132.8 23.4 73 520-592 11-85 (654)
166 KOG0387 Transcription-coupled 98.9 1.7E-07 3.6E-12 120.0 23.5 328 523-932 204-658 (923)
167 KOG0390 DNA repair protein, SN 98.8 5.7E-07 1.2E-11 118.6 28.2 162 524-720 238-427 (776)
168 PRK11747 dinG ATP-dependent DN 98.8 8.2E-07 1.8E-11 120.4 30.5 66 521-587 23-95 (697)
169 smart00490 HELICc helicase sup 98.8 4.7E-09 1E-13 102.2 6.4 72 843-918 11-82 (82)
170 PF02399 Herpes_ori_bp: Origin 98.8 1.1E-07 2.4E-12 124.5 20.7 307 540-932 48-388 (824)
171 PF07652 Flavi_DEAD: Flaviviru 98.8 5.9E-08 1.3E-12 103.8 14.5 135 540-710 3-137 (148)
172 PRK10829 ribonuclease D; Provi 98.8 6E-08 1.3E-12 121.0 16.6 175 1489-1735 3-179 (373)
173 cd06129 RNaseD_like DEDDy 3'-5 98.8 6.1E-08 1.3E-12 108.3 14.9 156 1498-1723 2-160 (161)
174 cd06148 Egl_like_exo DEDDy 3'- 98.8 8E-08 1.7E-12 110.9 15.7 171 1502-1736 4-187 (197)
175 cd06147 Rrp6p_like_exo DEDDy 3 98.8 1.4E-07 3E-12 108.6 17.4 172 1486-1729 2-175 (192)
176 smart00611 SEC63 Domain of unk 98.7 4.8E-08 1E-12 120.8 12.9 111 1156-1271 81-191 (312)
177 cd00007 35EXOc 3'-5' exonuclea 98.7 2.3E-07 5.1E-12 101.8 16.0 148 1510-1725 2-154 (155)
178 cd06141 WRN_exo DEDDy 3'-5' ex 98.7 1.4E-07 3E-12 106.4 14.2 163 1494-1723 3-169 (170)
179 TIGR00604 rad3 DNA repair heli 98.7 1.9E-06 4E-11 117.8 27.4 73 521-593 7-83 (705)
180 KOG0384 Chromodomain-helicase 98.7 3E-07 6.4E-12 122.3 17.6 325 523-933 369-812 (1373)
181 COG0349 Rnd Ribonuclease D [Tr 98.7 2.2E-07 4.9E-12 112.7 14.5 171 1494-1736 3-176 (361)
182 cd09018 DEDDy_polA_RNaseD_like 98.6 3.4E-07 7.4E-12 100.5 14.5 129 1530-1723 17-149 (150)
183 PRK12901 secA preprotein trans 98.6 4.7E-07 1E-11 120.8 16.7 127 524-655 169-303 (1112)
184 cd06128 DNA_polA_exo DEDDy 3'- 98.5 1.1E-06 2.4E-11 97.0 14.2 129 1529-1723 18-150 (151)
185 PF00176 SNF2_N: SNF2 family N 98.5 1.1E-06 2.4E-11 107.4 15.2 111 540-656 24-148 (299)
186 TIGR03117 cas_csf4 CRISPR-asso 98.5 8.3E-07 1.8E-11 117.1 13.0 57 538-594 13-70 (636)
187 KOG0392 SNF2 family DNA-depend 98.4 2E-05 4.3E-10 105.1 23.9 127 524-657 975-1115(1549)
188 KOG0389 SNF2 family DNA-depend 98.4 1.6E-05 3.6E-10 102.3 20.6 93 840-936 798-892 (941)
189 cd06146 mut-7_like_exo DEDDy 3 98.4 5.6E-06 1.2E-10 95.4 15.3 181 1489-1723 1-192 (193)
190 smart00488 DEXDc2 DEAD-like he 98.3 3.9E-06 8.5E-11 102.6 12.4 70 524-593 8-84 (289)
191 smart00489 DEXDc3 DEAD-like he 98.3 3.9E-06 8.5E-11 102.6 12.4 70 524-593 8-84 (289)
192 PF14520 HHH_5: Helix-hairpin- 98.2 1E-06 2.2E-11 81.9 4.8 57 1230-1298 4-60 (60)
193 KOG1002 Nucleotide excision re 98.0 4.2E-05 9.2E-10 93.5 11.9 129 523-657 183-331 (791)
194 COG0610 Type I site-specific r 97.8 0.0004 8.6E-09 97.2 19.1 111 541-654 273-388 (962)
195 COG0653 SecA Preprotein transl 97.7 0.00025 5.5E-09 94.6 14.1 129 524-655 78-213 (822)
196 PF07517 SecA_DEAD: SecA DEAD- 97.6 0.00016 3.4E-09 86.8 9.0 130 520-655 74-210 (266)
197 PF13872 AAA_34: P-loop contai 97.5 0.0018 3.9E-08 78.1 15.1 171 509-709 28-220 (303)
198 PF02889 Sec63: Sec63 Brl doma 97.4 0.0022 4.8E-08 79.7 15.6 111 1157-1272 79-189 (314)
199 COG0553 HepA Superfamily II DN 97.4 0.0024 5.1E-08 90.2 17.9 86 844-933 736-823 (866)
200 PRK15483 type III restriction- 97.4 0.0014 3.1E-08 89.5 14.3 52 869-924 501-552 (986)
201 KOG0391 SNF2 family DNA-depend 97.3 0.0065 1.4E-07 81.2 19.2 136 524-668 615-762 (1958)
202 PRK12766 50S ribosomal protein 97.3 0.00023 5.1E-09 81.9 5.5 55 1231-1297 3-57 (232)
203 PF13604 AAA_30: AAA domain; P 97.3 0.00062 1.4E-08 78.8 8.9 63 524-589 1-65 (196)
204 PF02562 PhoH: PhoH-like prote 97.2 0.00013 2.8E-09 84.3 1.8 59 522-582 2-61 (205)
205 PRK10536 hypothetical protein; 97.1 0.00071 1.5E-08 80.3 6.4 60 520-581 55-115 (262)
206 PF06862 DUF1253: Protein of u 97.0 0.18 4E-06 64.7 27.3 95 846-941 327-424 (442)
207 KOG4439 RNA polymerase II tran 97.0 0.0022 4.7E-08 82.5 9.4 171 524-724 325-521 (901)
208 KOG1802 RNA helicase nonsense 96.9 0.0021 4.6E-08 81.9 8.6 84 516-605 402-485 (935)
209 TIGR01447 recD exodeoxyribonuc 96.9 0.0046 1E-07 82.5 12.4 128 527-670 148-283 (586)
210 KOG0386 Chromatin remodeling c 96.9 0.0018 4E-08 86.1 7.8 81 846-932 753-838 (1157)
211 PRK10875 recD exonuclease V su 96.8 0.0056 1.2E-07 82.0 12.1 118 525-655 153-278 (615)
212 TIGR01448 recD_rel helicase, p 96.6 0.011 2.4E-07 81.1 12.8 63 520-586 320-384 (720)
213 PF09848 DUF2075: Uncharacteri 96.6 0.0047 1E-07 78.2 8.5 93 542-656 2-97 (352)
214 PF14229 DUF4332: Domain of un 96.5 0.0028 6E-08 67.8 5.0 69 1230-1299 52-122 (122)
215 KOG2340 Uncharacterized conser 96.5 0.023 4.9E-07 71.6 13.4 149 522-676 214-445 (698)
216 PF13401 AAA_22: AAA domain; P 96.5 0.014 3E-07 62.6 10.3 25 540-564 3-27 (131)
217 KOG0950 DNA polymerase theta/e 96.5 0.0027 5.9E-08 84.6 5.2 220 1779-2057 715-943 (1008)
218 TIGR02768 TraA_Ti Ti-type conj 96.3 0.037 8E-07 76.4 15.0 100 524-656 352-453 (744)
219 PF13245 AAA_19: Part of AAA d 96.3 0.0095 2.1E-07 58.4 6.5 50 541-590 10-62 (76)
220 PF12340 DUF3638: Protein of u 96.3 0.022 4.7E-07 66.8 10.6 132 520-656 20-186 (229)
221 PRK13889 conjugal transfer rel 96.2 0.043 9.4E-07 76.8 14.7 104 519-656 342-447 (988)
222 PF13086 AAA_11: AAA domain; P 96.2 0.011 2.3E-07 69.5 7.6 66 524-592 1-75 (236)
223 PF05970 PIF1: PIF1-like helic 96.1 0.02 4.3E-07 72.8 9.8 122 524-674 1-130 (364)
224 PRK12723 flagellar biosynthesi 95.9 0.15 3.2E-06 65.0 16.2 90 540-655 173-267 (388)
225 PF13307 Helicase_C_2: Helicas 95.8 0.015 3.3E-07 65.7 6.4 127 778-945 8-164 (167)
226 cd00984 DnaB_C DnaB helicase C 95.6 0.17 3.6E-06 60.5 14.8 129 537-675 9-160 (242)
227 cd01122 GP4d_helicase GP4d_hel 95.4 0.063 1.4E-06 65.4 10.4 136 536-675 25-178 (271)
228 PRK14722 flhF flagellar biosyn 95.4 0.093 2E-06 66.4 11.9 89 539-653 135-226 (374)
229 PRK13826 Dtr system oriT relax 95.4 0.14 3.1E-06 72.3 14.6 110 524-670 381-492 (1102)
230 PF10391 DNA_pol_lambd_f: Fing 95.3 0.014 3.1E-07 52.6 3.2 29 1232-1260 3-31 (52)
231 smart00382 AAA ATPases associa 95.3 0.077 1.7E-06 56.2 9.3 42 541-583 2-43 (148)
232 PF00580 UvrD-helicase: UvrD/R 95.2 0.041 8.9E-07 67.8 7.9 68 525-596 1-71 (315)
233 PRK04301 radA DNA repair and r 95.2 0.029 6.4E-07 70.0 6.5 58 1231-1300 6-63 (317)
234 PHA02533 17 large terminase pr 95.1 0.22 4.8E-06 66.1 14.7 122 524-656 59-183 (534)
235 PF11731 Cdd1: Pathogenicity l 95.0 0.033 7.2E-07 56.1 5.0 44 1227-1270 8-51 (93)
236 PF03796 DnaB_C: DnaB-like hel 95.0 0.24 5.1E-06 60.1 13.4 145 537-708 15-179 (259)
237 COG1419 FlhF Flagellar GTP-bin 95.0 0.43 9.4E-06 60.2 15.6 142 539-738 201-345 (407)
238 PRK04296 thymidine kinase; Pro 94.9 0.05 1.1E-06 62.9 7.0 37 541-578 2-38 (190)
239 PRK05973 replicative DNA helic 94.8 0.17 3.6E-06 60.4 11.2 121 536-674 59-179 (237)
240 TIGR00376 DNA helicase, putati 94.8 0.061 1.3E-06 73.0 8.4 67 523-592 156-223 (637)
241 cd00009 AAA The AAA+ (ATPases 94.7 0.11 2.4E-06 55.6 8.7 38 541-579 19-56 (151)
242 PF00448 SRP54: SRP54-type pro 94.7 0.29 6.3E-06 56.9 12.6 56 542-601 2-59 (196)
243 PHA03333 putative ATPase subun 94.6 0.34 7.3E-06 64.5 14.0 120 538-670 184-318 (752)
244 PRK05703 flhF flagellar biosyn 94.6 0.6 1.3E-05 60.6 16.3 89 540-654 220-311 (424)
245 PRK06526 transposase; Provisio 94.6 0.17 3.6E-06 61.2 10.6 40 538-578 95-134 (254)
246 TIGR02236 recomb_radA DNA repa 94.3 0.067 1.5E-06 66.6 6.7 55 1233-1299 1-55 (310)
247 TIGR01954 nusA_Cterm_rpt trans 94.3 0.09 2E-06 46.9 5.6 48 1240-1299 2-49 (50)
248 cd00141 NT_POLXc Nucleotidyltr 94.3 0.075 1.6E-06 66.0 6.8 38 1225-1262 79-116 (307)
249 PRK14973 DNA topoisomerase I; 94.2 0.11 2.5E-06 72.6 9.1 104 1168-1300 831-934 (936)
250 PRK08181 transposase; Validate 94.2 0.5 1.1E-05 57.6 13.3 39 538-577 103-141 (269)
251 TIGR03877 thermo_KaiC_1 KaiC d 94.2 0.4 8.7E-06 57.4 12.5 55 536-592 16-70 (237)
252 PRK11823 DNA repair protein Ra 94.0 0.32 6.9E-06 63.6 12.1 114 536-674 75-194 (446)
253 cd01124 KaiC KaiC is a circadi 93.8 0.13 2.9E-06 58.6 7.3 48 543-592 1-48 (187)
254 PRK14974 cell division protein 93.7 0.57 1.2E-05 58.8 13.0 93 541-655 140-235 (336)
255 PRK06067 flagellar accessory p 93.7 0.17 3.8E-06 60.3 8.2 42 536-578 20-61 (234)
256 PRK07952 DNA replication prote 93.7 1 2.2E-05 54.1 14.6 34 542-576 100-133 (244)
257 COG1875 NYN ribonuclease and A 93.6 0.29 6.4E-06 60.2 9.8 64 519-584 223-290 (436)
258 smart00483 POLXc DNA polymeras 93.5 0.13 2.8E-06 64.6 7.0 44 1220-1263 78-121 (334)
259 KOG2206 Exosome 3'-5' exoribon 93.5 0.36 7.7E-06 62.1 10.5 167 1488-1728 192-362 (687)
260 PRK06921 hypothetical protein; 93.4 0.33 7.2E-06 59.2 10.1 38 540-578 116-154 (266)
261 TIGR03600 phage_DnaB phage rep 93.4 0.46 1E-05 61.8 12.0 160 521-708 176-353 (421)
262 TIGR03499 FlhF flagellar biosy 93.3 0.39 8.6E-06 59.0 10.6 86 540-651 193-281 (282)
263 PHA03368 DNA packaging termina 93.3 0.54 1.2E-05 62.4 12.0 134 538-709 251-390 (738)
264 PRK12377 putative replication 93.3 0.57 1.2E-05 56.5 11.5 44 541-586 101-144 (248)
265 COG3421 Uncharacterized protei 93.2 0.34 7.4E-06 62.4 9.7 111 546-656 2-126 (812)
266 PRK11889 flhF flagellar biosyn 93.2 1.9 4.2E-05 54.7 16.2 90 541-654 241-332 (436)
267 PF00004 AAA: ATPase family as 93.2 0.46 9.9E-06 50.6 9.7 18 544-561 1-18 (132)
268 PRK14956 DNA polymerase III su 93.2 0.36 7.7E-06 62.8 10.2 19 543-561 42-60 (484)
269 TIGR01075 uvrD DNA helicase II 93.1 0.39 8.5E-06 66.7 11.4 107 523-652 3-113 (715)
270 cd01120 RecA-like_NTPases RecA 93.1 0.46 1E-05 52.3 9.9 38 544-582 2-39 (165)
271 TIGR02760 TraI_TIGR conjugativ 93.1 1.1 2.4E-05 68.1 16.5 62 524-588 429-492 (1960)
272 PRK08727 hypothetical protein; 93.1 0.5 1.1E-05 56.5 10.7 35 542-577 42-76 (233)
273 PRK11054 helD DNA helicase IV; 93.0 0.27 5.8E-06 67.3 9.3 87 523-633 195-285 (684)
274 KOG1803 DNA helicase [Replicat 93.0 0.17 3.6E-06 65.6 6.7 67 523-591 184-250 (649)
275 PRK06893 DNA replication initi 92.9 0.52 1.1E-05 56.2 10.6 36 541-577 39-74 (229)
276 cd01121 Sms Sms (bacterial rad 92.9 0.75 1.6E-05 58.7 12.6 114 536-674 77-196 (372)
277 PRK08116 hypothetical protein; 92.9 1 2.2E-05 55.0 13.3 42 541-584 114-155 (268)
278 PRK05748 replicative DNA helic 92.9 0.48 1.1E-05 62.1 11.2 147 537-708 199-364 (448)
279 COG1444 Predicted P-loop ATPas 92.8 0.96 2.1E-05 61.4 13.7 130 506-655 200-336 (758)
280 PRK08760 replicative DNA helic 92.8 0.42 9.2E-06 62.9 10.4 146 537-708 225-388 (476)
281 TIGR01547 phage_term_2 phage t 92.8 0.54 1.2E-05 60.7 11.3 118 543-671 3-126 (396)
282 PRK04328 hypothetical protein; 92.7 0.37 8.1E-06 58.2 9.0 40 537-577 19-58 (249)
283 PRK05636 replicative DNA helic 92.7 1.3 2.9E-05 58.7 14.7 145 537-708 261-424 (505)
284 PRK14087 dnaA chromosomal repl 92.6 0.99 2.2E-05 59.1 13.3 92 542-673 142-235 (450)
285 KOG1805 DNA replication helica 92.6 0.51 1.1E-05 64.0 10.5 122 523-657 668-811 (1100)
286 PRK06063 DNA polymerase III su 92.5 1.8 3.8E-05 54.1 14.8 96 1583-1728 82-181 (313)
287 TIGR03878 thermo_KaiC_2 KaiC d 92.5 0.24 5.2E-06 60.2 7.0 41 536-577 31-71 (259)
288 KOG1132 Helicase of the DEAD s 92.5 0.43 9.3E-06 64.3 9.6 44 524-567 21-69 (945)
289 TIGR00665 DnaB replicative DNA 92.5 0.56 1.2E-05 61.3 10.9 144 537-708 191-354 (434)
290 PRK06904 replicative DNA helic 92.5 0.81 1.8E-05 60.3 12.3 146 537-708 217-383 (472)
291 COG3587 Restriction endonuclea 92.5 0.53 1.2E-05 63.1 10.3 56 868-927 482-537 (985)
292 PF05621 TniB: Bacterial TniB 92.4 0.36 7.8E-06 59.0 8.3 110 542-675 62-177 (302)
293 PRK10919 ATP-dependent DNA hel 92.3 0.28 6.2E-06 67.3 8.2 89 524-633 2-94 (672)
294 PRK05642 DNA replication initi 92.0 0.8 1.7E-05 54.8 10.6 36 542-578 46-81 (234)
295 PRK12727 flagellar biosynthesi 92.0 1.8 3.9E-05 57.0 14.2 91 538-654 347-440 (559)
296 PRK07764 DNA polymerase III su 92.0 0.82 1.8E-05 63.7 12.0 26 542-568 38-63 (824)
297 PRK12724 flagellar biosynthesi 92.0 3.1 6.8E-05 53.5 16.1 51 540-590 222-274 (432)
298 PRK08084 DNA replication initi 91.9 0.99 2.1E-05 54.0 11.2 38 540-578 44-81 (235)
299 PF00308 Bac_DnaA: Bacterial d 91.9 1.6 3.6E-05 51.6 12.9 90 542-673 35-126 (219)
300 cd01393 recA_like RecA is a b 91.8 0.88 1.9E-05 53.8 10.6 124 536-674 14-155 (226)
301 PF06745 KaiC: KaiC; InterPro 91.8 0.57 1.2E-05 55.5 9.0 55 536-591 14-68 (226)
302 PRK08903 DnaA regulatory inact 91.8 0.86 1.9E-05 54.0 10.5 37 540-577 41-77 (227)
303 PRK12726 flagellar biosynthesi 91.7 1.7 3.7E-05 55.0 13.1 91 539-653 204-296 (407)
304 TIGR03420 DnaA_homol_Hda DnaA 91.7 1.1 2.3E-05 53.0 11.1 36 540-576 37-72 (226)
305 PF12826 HHH_2: Helix-hairpin- 91.6 0.18 3.8E-06 47.8 3.6 49 1234-1295 6-54 (64)
306 PRK14723 flhF flagellar biosyn 91.5 1.3 2.8E-05 60.7 12.7 89 540-654 184-275 (767)
307 PRK07004 replicative DNA helic 91.5 0.7 1.5E-05 60.7 10.1 146 537-708 209-373 (460)
308 PRK08840 replicative DNA helic 91.3 1.8 4E-05 56.8 13.7 160 521-708 199-378 (464)
309 PRK14964 DNA polymerase III su 91.3 1.4 2.9E-05 58.1 12.3 105 542-670 36-140 (491)
310 TIGR02237 recomb_radB DNA repa 91.3 1.3 2.9E-05 51.7 11.2 43 536-579 7-49 (209)
311 PRK08006 replicative DNA helic 91.3 1.4 3E-05 58.1 12.4 147 536-708 219-385 (471)
312 PRK05595 replicative DNA helic 91.1 1.2 2.7E-05 58.3 11.9 145 537-708 197-360 (444)
313 TIGR00362 DnaA chromosomal rep 91.1 1.4 3.1E-05 57.1 12.3 36 542-578 137-174 (405)
314 PRK05707 DNA polymerase III su 91.1 1.2 2.6E-05 55.9 11.2 42 524-568 3-48 (328)
315 PRK14721 flhF flagellar biosyn 91.1 2.1 4.5E-05 55.3 13.5 87 539-651 189-278 (420)
316 COG1484 DnaC DNA replication p 91.0 0.8 1.7E-05 55.5 9.2 49 538-588 102-150 (254)
317 TIGR02760 TraI_TIGR conjugativ 90.9 0.9 2E-05 69.0 11.5 62 523-586 1018-1084(1960)
318 PF05127 Helicase_RecD: Helica 90.9 0.15 3.3E-06 58.0 2.7 102 545-655 1-103 (177)
319 PRK14960 DNA polymerase III su 90.8 1.1 2.4E-05 60.2 10.9 20 542-561 38-57 (702)
320 KOG0388 SNF2 family DNA-depend 90.8 0.94 2E-05 59.1 9.6 133 524-668 567-720 (1185)
321 PRK09165 replicative DNA helic 90.7 1.1 2.3E-05 59.5 10.8 145 537-708 213-392 (497)
322 TIGR02012 tigrfam_recA protein 90.7 0.59 1.3E-05 58.2 7.8 93 536-654 50-145 (321)
323 PRK11773 uvrD DNA-dependent he 90.5 0.53 1.1E-05 65.5 8.0 107 523-652 8-118 (721)
324 cd01123 Rad51_DMC1_radA Rad51_ 90.4 0.82 1.8E-05 54.4 8.6 127 536-674 14-156 (235)
325 PRK08506 replicative DNA helic 90.4 1.1 2.4E-05 59.1 10.4 145 536-708 187-351 (472)
326 PRK14952 DNA polymerase III su 90.4 1.3 2.9E-05 59.4 11.2 24 543-567 37-60 (584)
327 TIGR01074 rep ATP-dependent DN 90.3 0.54 1.2E-05 64.9 7.9 84 524-628 1-87 (664)
328 TIGR02881 spore_V_K stage V sp 90.3 1.1 2.5E-05 54.3 9.8 21 541-561 42-62 (261)
329 PRK14949 DNA polymerase III su 90.2 1.1 2.4E-05 61.8 10.4 24 543-567 40-63 (944)
330 PRK14666 uvrC excinuclease ABC 90.2 0.93 2E-05 61.0 9.4 83 1184-1299 610-692 (694)
331 PRK14712 conjugal transfer nic 90.2 1.3 2.8E-05 65.0 11.5 61 524-586 835-900 (1623)
332 PRK14672 uvrC excinuclease ABC 90.1 0.86 1.9E-05 61.1 8.9 83 1184-1299 581-663 (691)
333 PRK08533 flagellar accessory p 90.0 0.93 2E-05 54.1 8.5 51 538-590 21-71 (230)
334 TIGR03881 KaiC_arch_4 KaiC dom 90.0 3.9 8.4E-05 48.6 13.8 41 537-578 16-56 (229)
335 PF03354 Terminase_1: Phage Te 90.0 1.2 2.6E-05 59.0 10.3 68 527-596 1-80 (477)
336 PRK13833 conjugal transfer pro 89.9 0.61 1.3E-05 58.2 7.0 61 518-582 124-186 (323)
337 PRK14961 DNA polymerase III su 89.9 1.4 3E-05 56.3 10.5 23 543-566 40-62 (363)
338 PRK08609 hypothetical protein; 89.8 0.46 9.9E-06 63.9 6.3 38 1225-1262 82-120 (570)
339 PRK14958 DNA polymerase III su 89.6 2.3 4.9E-05 56.6 12.4 25 542-567 39-63 (509)
340 PHA02542 41 41 helicase; Provi 89.6 1.3 2.9E-05 58.1 10.2 144 537-708 186-353 (473)
341 PRK06321 replicative DNA helic 89.5 1.7 3.7E-05 57.2 11.0 145 537-708 222-388 (472)
342 PRK06645 DNA polymerase III su 89.5 2.6 5.5E-05 56.0 12.6 42 625-670 111-152 (507)
343 PRK09354 recA recombinase A; P 89.4 0.85 1.8E-05 57.4 7.8 93 536-654 55-150 (349)
344 PRK07003 DNA polymerase III su 89.4 1.4 3.1E-05 59.8 10.1 24 543-567 40-63 (830)
345 PRK00411 cdc6 cell division co 89.4 1.2 2.5E-05 57.5 9.3 35 541-576 55-91 (394)
346 PTZ00112 origin recognition co 89.3 2.5 5.3E-05 58.0 12.1 22 544-566 784-805 (1164)
347 PRK07740 hypothetical protein; 89.3 5.9 0.00013 47.8 14.6 101 1583-1729 129-229 (244)
348 PRK14670 uvrC excinuclease ABC 89.1 1.1 2.5E-05 59.7 9.1 79 1184-1297 489-567 (574)
349 PRK00149 dnaA chromosomal repl 89.1 2.4 5.2E-05 55.7 12.1 42 542-585 149-192 (450)
350 PRK14873 primosome assembly pr 88.9 1.7 3.7E-05 59.3 10.8 92 762-892 171-262 (665)
351 PRK07942 DNA polymerase III su 88.9 5.9 0.00013 47.5 14.1 98 1584-1725 81-179 (232)
352 cd00983 recA RecA is a bacter 88.9 0.82 1.8E-05 57.0 7.1 93 536-654 50-145 (325)
353 PRK05563 DNA polymerase III su 88.8 1.6 3.4E-05 58.9 10.1 95 542-656 39-133 (559)
354 PRK07883 hypothetical protein; 88.8 3.5 7.6E-05 55.5 13.3 96 1583-1728 83-184 (557)
355 PRK14973 DNA topoisomerase I; 88.7 0.39 8.5E-06 67.5 4.6 38 1232-1269 803-840 (936)
356 PRK10917 ATP-dependent DNA hel 88.6 1.8 3.9E-05 59.8 10.8 82 775-892 306-388 (681)
357 PRK12422 chromosomal replicati 88.5 2.8 6.2E-05 54.9 12.0 36 542-578 142-177 (445)
358 PRK12323 DNA polymerase III su 88.5 1.9 4.1E-05 57.9 10.3 25 543-568 40-64 (700)
359 TIGR03117 cas_csf4 CRISPR-asso 88.5 2.5 5.4E-05 57.3 11.7 112 778-931 469-616 (636)
360 PRK08939 primosomal protein Dn 88.4 2 4.4E-05 53.4 10.1 37 540-577 155-191 (306)
361 COG2256 MGS1 ATPase related to 88.3 1.7 3.6E-05 54.7 9.1 20 542-561 49-68 (436)
362 PRK07773 replicative DNA helic 88.3 4.5 9.7E-05 57.7 14.6 145 537-708 213-376 (886)
363 PRK08691 DNA polymerase III su 88.3 2.5 5.4E-05 57.4 11.3 20 542-561 39-58 (709)
364 PF13173 AAA_14: AAA domain 88.2 1.5 3.1E-05 47.4 7.7 34 541-576 2-35 (128)
365 PRK14951 DNA polymerase III su 88.1 2.6 5.6E-05 57.0 11.5 24 543-567 40-63 (618)
366 PRK14955 DNA polymerase III su 88.1 1.8 3.9E-05 56.0 9.8 42 625-670 110-151 (397)
367 PRK13894 conjugal transfer ATP 88.1 0.85 1.8E-05 57.0 6.5 62 517-582 127-190 (319)
368 PRK05601 DNA polymerase III su 88.0 5.6 0.00012 50.2 13.3 31 1582-1614 112-142 (377)
369 KOG0298 DEAD box-containing he 87.9 1.8 4E-05 60.5 9.8 154 538-722 371-567 (1394)
370 TIGR01073 pcrA ATP-dependent D 87.8 1.1 2.3E-05 62.5 8.1 89 523-633 3-95 (726)
371 TIGR01405 polC_Gram_pos DNA po 87.7 3.5 7.6E-05 59.7 13.0 100 1583-1728 258-357 (1213)
372 PRK08769 DNA polymerase III su 87.6 4 8.7E-05 51.1 12.0 47 522-569 2-53 (319)
373 PRK06731 flhF flagellar biosyn 87.5 14 0.0003 45.3 16.2 104 540-670 74-180 (270)
374 TIGR02782 TrbB_P P-type conjug 87.5 1.3 2.8E-05 55.1 7.6 56 525-582 117-174 (299)
375 PRK13709 conjugal transfer nic 87.5 2.7 5.9E-05 62.6 11.9 60 524-585 967-1031(1747)
376 COG1474 CDC6 Cdc6-related prot 87.4 1.1 2.5E-05 56.9 7.2 27 541-568 42-68 (366)
377 cd01394 radB RadB. The archaea 87.4 4.5 9.7E-05 47.7 11.8 41 536-577 14-54 (218)
378 PRK05896 DNA polymerase III su 87.4 4 8.7E-05 54.8 12.4 95 542-656 39-133 (605)
379 TIGR03015 pepcterm_ATPase puta 87.3 1.5 3.3E-05 53.2 8.1 21 541-561 43-63 (269)
380 PRK14962 DNA polymerase III su 87.3 3 6.6E-05 54.9 11.2 19 543-561 38-56 (472)
381 PF01695 IstB_IS21: IstB-like 87.3 0.94 2E-05 51.9 5.8 46 538-585 44-89 (178)
382 PRK07994 DNA polymerase III su 87.2 3.1 6.7E-05 56.5 11.4 23 544-567 41-63 (647)
383 TIGR01425 SRP54_euk signal rec 87.0 6.4 0.00014 51.1 13.5 48 542-590 101-150 (429)
384 TIGR00595 priA primosomal prot 86.9 2.6 5.6E-05 56.2 10.4 86 768-893 14-100 (505)
385 PF05496 RuvB_N: Holliday junc 86.9 1.4 3.1E-05 51.8 7.0 19 542-560 51-69 (233)
386 PRK09361 radB DNA repair and r 86.9 3.9 8.5E-05 48.4 11.0 42 536-578 18-59 (225)
387 TIGR00416 sms DNA repair prote 86.8 3.6 7.8E-05 54.1 11.5 52 536-589 89-140 (454)
388 PRK14954 DNA polymerase III su 86.6 3.5 7.6E-05 56.0 11.4 43 624-670 109-151 (620)
389 PTZ00035 Rad51 protein; Provis 86.6 1.2 2.6E-05 56.2 6.7 54 1236-1301 28-81 (337)
390 PRK14948 DNA polymerase III su 86.5 3.9 8.5E-05 55.7 11.9 97 542-656 39-135 (620)
391 PRK06995 flhF flagellar biosyn 86.5 1.9 4.2E-05 56.5 8.7 85 540-627 255-346 (484)
392 TIGR02928 orc1/cdc6 family rep 86.5 1.5 3.3E-05 55.8 7.7 25 541-566 40-64 (365)
393 PRK09111 DNA polymerase III su 86.4 5 0.00011 54.4 12.7 110 542-670 47-156 (598)
394 PRK09146 DNA polymerase III su 86.3 9.8 0.00021 45.8 13.9 30 1583-1614 117-146 (239)
395 TIGR02639 ClpA ATP-dependent C 86.3 2.7 5.8E-05 58.7 10.5 25 540-564 202-226 (731)
396 PRK10867 signal recognition pa 86.2 2 4.3E-05 55.8 8.5 57 541-601 100-159 (433)
397 PF05876 Terminase_GpA: Phage 86.2 0.79 1.7E-05 61.6 5.2 139 523-672 15-166 (557)
398 PRK14667 uvrC excinuclease ABC 86.2 2 4.4E-05 57.5 8.8 78 1184-1295 487-564 (567)
399 TIGR02880 cbbX_cfxQ probable R 86.2 5.2 0.00011 49.4 11.9 20 541-560 58-77 (284)
400 COG4626 Phage terminase-like p 86.2 2.9 6.3E-05 54.8 9.8 123 524-657 61-199 (546)
401 PRK14965 DNA polymerase III su 86.0 4.9 0.00011 54.5 12.4 30 627-656 104-133 (576)
402 KOG2228 Origin recognition com 86.0 6.3 0.00014 48.7 11.8 129 540-715 48-187 (408)
403 PRK13342 recombination factor 85.9 2.9 6.4E-05 54.3 10.0 19 542-560 37-55 (413)
404 PRK05580 primosome assembly pr 85.8 3.3 7.1E-05 57.2 10.8 85 769-893 180-265 (679)
405 TIGR01298 RNaseT ribonuclease 85.8 9.6 0.00021 44.6 13.2 105 1583-1729 88-195 (200)
406 COG2176 PolC DNA polymerase II 85.7 2.1 4.5E-05 59.5 8.4 96 1583-1728 489-588 (1444)
407 PRK14959 DNA polymerase III su 85.7 3.7 7.9E-05 55.4 10.8 21 542-562 39-59 (624)
408 PHA00729 NTP-binding motif con 85.6 1.6 3.5E-05 51.7 6.7 19 542-560 18-36 (226)
409 PRK04195 replication factor C 85.5 3.6 7.7E-05 54.7 10.7 20 541-560 39-58 (482)
410 PRK00771 signal recognition pa 85.5 7.3 0.00016 50.9 13.1 56 541-600 95-152 (437)
411 KOG0388 SNF2 family DNA-depend 85.4 3.3 7.1E-05 54.5 9.5 124 766-933 1031-1155(1185)
412 PRK12402 replication factor C 85.4 4.5 9.8E-05 50.8 11.1 24 543-567 38-61 (337)
413 KOG0391 SNF2 family DNA-depend 85.4 3.7 8E-05 56.8 10.3 127 763-933 1260-1388(1958)
414 PRK14963 DNA polymerase III su 85.4 5 0.00011 53.4 11.8 25 543-568 38-62 (504)
415 TIGR03491 RecB family nuclease 85.3 0.82 1.8E-05 60.1 4.6 57 1232-1300 208-264 (457)
416 PRK06195 DNA polymerase III su 85.2 3.1 6.6E-05 52.0 9.2 96 1582-1728 67-166 (309)
417 PRK14086 dnaA chromosomal repl 85.1 5.7 0.00012 53.5 12.1 56 1158-1223 559-615 (617)
418 TIGR00959 ffh signal recogniti 85.0 2.4 5.2E-05 55.1 8.4 57 542-601 100-158 (428)
419 CHL00181 cbbX CbbX; Provisiona 85.0 6.1 0.00013 48.9 11.6 22 540-561 58-79 (287)
420 PRK08451 DNA polymerase III su 84.9 6.2 0.00013 52.6 12.2 42 625-670 100-141 (535)
421 TIGR02785 addA_Gpos recombinat 84.8 1.9 4.2E-05 63.3 8.4 122 524-653 1-126 (1232)
422 smart00492 HELICc3 helicase su 84.5 1.8 3.9E-05 47.8 6.0 79 849-928 27-135 (141)
423 TIGR03880 KaiC_arch_3 KaiC dom 84.5 1.4 3.1E-05 52.1 5.7 54 537-592 12-65 (224)
424 PRK14669 uvrC excinuclease ABC 84.5 2.9 6.2E-05 56.6 9.1 66 1184-1270 525-590 (624)
425 COG1222 RPT1 ATP-dependent 26S 84.5 5.2 0.00011 49.8 10.3 24 536-559 180-203 (406)
426 COG2874 FlaH Predicted ATPases 84.5 6.4 0.00014 45.9 10.4 128 538-674 25-155 (235)
427 COG1198 PriA Primosomal protei 84.3 2.6 5.7E-05 57.6 8.7 90 763-892 229-318 (730)
428 PRK06871 DNA polymerase III su 83.9 5.7 0.00012 49.9 10.7 115 524-656 2-121 (325)
429 PF09281 Taq-exonuc: Taq polym 83.8 3.1 6.8E-05 44.2 7.0 52 1652-1726 87-138 (138)
430 PRK07758 hypothetical protein; 83.7 2.6 5.6E-05 42.8 6.1 33 1237-1269 40-72 (95)
431 PRK06964 DNA polymerase III su 83.5 6.2 0.00013 49.9 10.9 41 525-568 2-47 (342)
432 PRK14088 dnaA chromosomal repl 83.5 7.8 0.00017 50.9 12.3 36 542-578 131-168 (440)
433 TIGR02238 recomb_DMC1 meiotic 83.4 2.5 5.5E-05 52.8 7.4 104 537-654 92-203 (313)
434 COG2251 Predicted nuclease (Re 83.4 1.4 3.1E-05 55.6 5.2 38 1232-1269 226-263 (474)
435 PLN03187 meiotic recombination 83.3 2.1 4.5E-05 54.1 6.7 54 1236-1301 36-89 (344)
436 PRK00116 ruvA Holliday junctio 83.3 1.9 4E-05 50.1 5.8 58 1231-1300 73-132 (192)
437 PRK10416 signal recognition pa 83.3 20 0.00042 45.1 15.1 52 540-592 113-166 (318)
438 PRK07246 bifunctional ATP-depe 83.1 5.8 0.00013 55.9 11.5 95 1583-1728 74-172 (820)
439 PRK13341 recombination factor 83.1 4.7 0.0001 55.8 10.4 20 542-561 53-72 (725)
440 PRK14957 DNA polymerase III su 83.0 5.8 0.00013 53.1 10.9 24 543-567 40-63 (546)
441 PRK05711 DNA polymerase III su 83.0 14 0.0003 44.6 13.1 96 1583-1723 74-173 (240)
442 TIGR00580 mfd transcription-re 83.0 4.8 0.0001 57.1 10.7 83 774-892 495-578 (926)
443 TIGR00678 holB DNA polymerase 82.6 6.5 0.00014 45.2 10.0 44 623-670 77-120 (188)
444 PRK14969 DNA polymerase III su 82.5 6.6 0.00014 52.7 11.2 32 625-656 102-133 (527)
445 PRK14950 DNA polymerase III su 82.4 8.1 0.00018 52.6 12.2 95 542-656 39-134 (585)
446 TIGR00643 recG ATP-dependent D 82.1 5.1 0.00011 55.0 10.3 82 775-892 280-362 (630)
447 PRK07956 ligA NAD-dependent DN 82.1 2.6 5.6E-05 57.7 7.3 103 1165-1296 461-563 (665)
448 PRK06647 DNA polymerase III su 81.9 9.1 0.0002 51.7 12.2 25 542-567 39-63 (563)
449 PRK08517 DNA polymerase III su 81.9 21 0.00046 43.5 14.2 30 1583-1614 135-164 (257)
450 cd01129 PulE-GspE PulE/GspE Th 81.7 2.2 4.7E-05 52.1 5.9 52 525-577 64-115 (264)
451 PHA00350 putative assembly pro 81.7 3.9 8.5E-05 52.4 8.2 30 544-573 4-33 (399)
452 KOG0729 26S proteasome regulat 81.7 12 0.00026 44.5 11.2 23 537-559 207-229 (435)
453 TIGR00575 dnlj DNA ligase, NAD 81.6 2.6 5.6E-05 57.6 7.1 67 1216-1297 420-487 (652)
454 TIGR00575 dnlj DNA ligase, NAD 81.1 3.1 6.8E-05 56.8 7.6 103 1165-1296 448-550 (652)
455 COG3743 Uncharacterized conser 81.1 3.4 7.3E-05 44.3 6.1 39 1231-1269 67-105 (133)
456 cd01130 VirB11-like_ATPase Typ 81.1 2.5 5.5E-05 48.7 5.8 50 524-576 9-58 (186)
457 cd01125 repA Hexameric Replica 80.7 23 0.00051 42.4 14.1 53 542-595 2-65 (239)
458 PHA02544 44 clamp loader, smal 80.7 5.6 0.00012 49.6 9.2 18 543-560 45-62 (316)
459 COG2804 PulE Type II secretory 80.6 2.5 5.4E-05 54.9 6.0 46 526-572 243-288 (500)
460 PRK10436 hypothetical protein; 80.5 2.2 4.9E-05 55.9 5.7 50 526-576 203-252 (462)
461 KOG1015 Transcription regulato 80.2 6.7 0.00015 53.3 9.6 126 551-708 706-858 (1567)
462 PF00437 T2SE: Type II/IV secr 80.2 1.7 3.8E-05 52.9 4.4 41 538-579 124-164 (270)
463 PRK07956 ligA NAD-dependent DN 80.2 2.9 6.2E-05 57.3 6.8 67 1216-1297 433-500 (665)
464 TIGR03346 chaperone_ClpB ATP-d 80.1 4.9 0.00011 57.1 9.3 23 540-562 193-215 (852)
465 PRK03992 proteasome-activating 80.1 2.7 5.9E-05 54.2 6.3 23 538-560 162-184 (389)
466 PF12846 AAA_10: AAA-like doma 80.0 2 4.4E-05 52.6 4.9 41 541-582 1-41 (304)
467 PLN03187 meiotic recombination 80.0 7.9 0.00017 49.0 10.0 104 537-654 122-233 (344)
468 TIGR02238 recomb_DMC1 meiotic 79.9 3.1 6.6E-05 52.1 6.4 53 1237-1301 7-59 (313)
469 PRK11034 clpA ATP-dependent Cl 79.9 6.7 0.00015 54.6 10.2 24 540-563 206-229 (758)
470 COG1223 Predicted ATPase (AAA+ 79.9 8.8 0.00019 45.7 9.4 18 541-558 151-168 (368)
471 COG1435 Tdk Thymidine kinase [ 79.8 10 0.00022 43.9 9.7 92 541-656 4-96 (201)
472 PRK07993 DNA polymerase III su 79.6 7.4 0.00016 49.2 9.7 116 524-656 2-122 (334)
473 PF04408 HA2: Helicase associa 79.5 2.3 5E-05 44.1 4.4 43 1002-1049 1-43 (102)
474 PF00154 RecA: recA bacterial 79.5 4.4 9.4E-05 50.6 7.4 94 536-655 48-144 (322)
475 PF00940 RNA_pol: DNA-dependen 79.2 17 0.00036 47.3 12.9 123 1933-2055 87-251 (405)
476 KOG0741 AAA+-type ATPase [Post 79.2 8.8 0.00019 49.7 9.8 117 509-666 496-623 (744)
477 COG0470 HolB ATPase involved i 79.2 13 0.00027 46.4 11.7 27 541-568 23-50 (325)
478 COG3973 Superfamily I DNA and 79.1 3.8 8.3E-05 53.7 6.9 61 528-591 216-281 (747)
479 cd03115 SRP The signal recogni 79.1 6.3 0.00014 44.6 8.2 34 543-577 2-35 (173)
480 TIGR02655 circ_KaiC circadian 79.1 8.1 0.00017 51.4 10.3 137 537-708 259-398 (484)
481 PRK10263 DNA translocase FtsK; 79.0 10 0.00022 54.5 11.4 26 542-567 1011-1036(1355)
482 PRK14351 ligA NAD-dependent DN 79.0 6.6 0.00014 54.0 9.5 127 1161-1323 474-600 (689)
483 PRK05168 ribonuclease T; Provi 78.6 40 0.00087 39.8 14.8 103 1584-1728 98-203 (211)
484 TIGR02397 dnaX_nterm DNA polym 78.5 12 0.00027 47.3 11.5 32 625-656 100-131 (355)
485 PLN03025 replication factor C 78.3 6.2 0.00013 49.5 8.5 24 542-566 35-58 (319)
486 PRK07133 DNA polymerase III su 78.3 14 0.00031 50.8 12.2 42 625-670 101-142 (725)
487 TIGR00573 dnaq exonuclease, DN 78.1 19 0.0004 42.7 12.0 31 1583-1615 75-105 (217)
488 PF05729 NACHT: NACHT domain 77.9 14 0.0003 40.8 10.4 43 542-585 1-48 (166)
489 cd06149 ISG20 DEDDh 3'-5' exon 77.8 18 0.00039 40.7 11.1 30 1583-1614 65-94 (157)
490 PRK09112 DNA polymerase III su 77.7 11 0.00023 48.1 10.4 25 543-568 47-71 (351)
491 PRK04301 radA DNA repair and r 77.6 5 0.00011 50.3 7.4 43 536-578 97-144 (317)
492 PRK09519 recA DNA recombinatio 77.5 5.7 0.00012 54.9 8.3 93 537-655 56-151 (790)
493 TIGR00631 uvrb excinuclease AB 77.5 4.1 9E-05 55.8 7.1 69 524-596 9-80 (655)
494 PHA03372 DNA packaging termina 77.5 27 0.00058 46.8 13.7 128 539-708 200-336 (668)
495 KOG1001 Helicase-like transcri 77.4 5.7 0.00012 54.3 8.2 108 542-658 153-270 (674)
496 PRK14953 DNA polymerase III su 77.4 12 0.00026 49.8 11.0 20 543-562 40-59 (486)
497 COG4962 CpaF Flp pilus assembl 77.2 2.8 6E-05 52.1 4.7 58 522-582 155-212 (355)
498 PF03237 Terminase_6: Terminas 77.1 8.8 0.00019 48.3 9.5 106 545-656 1-111 (384)
499 PRK13851 type IV secretion sys 77.1 1.8 3.9E-05 54.7 3.2 44 537-582 158-201 (344)
500 PLN03186 DNA repair protein RA 77.0 6.4 0.00014 49.8 8.0 102 537-649 119-225 (342)
No 1
>COG0749 PolA DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair]
Probab=100.00 E-value=3.6e-123 Score=1156.36 Aligned_cols=577 Identities=32% Similarity=0.476 Sum_probs=515.1
Q ss_pred CcccHHHHHHHHhhCCeEEEEeeccCCcccCCCccceEEEEEEEEeCCcEEEEeCCCCcccccccccchhccCCCCCCCC
Q 000107 1494 ASGGFDCFLDRWEATHEFYFDIHYDKHSEANSGVLFEIHGLAVCWENSPVYYVNLPKDLWSDHRRKDRFLIYGSSDKNVL 1573 (2191)
Q Consensus 1494 ~~~~~~~~l~~~~~~~~~afD~e~~~~~~~~s~~~~~i~Gia~~~~~~~ayYi~l~~~~~~~~~~~~~~~~~~~~~~~~~ 1573 (2191)
+...+..++..+.....++||+++.+. ......++|+++++.+ .++|+++.+.. .+
T Consensus 8 ~~~~~~~~~~~~~~~~~~a~~~et~~l----~~~~~~lvg~s~~~~~-~~~yi~~~~~~----~~--------------- 63 (593)
T COG0749 8 DLAVLNAWLTKLNAAANIAFDTETDGL----DPHGADLVGLSVASEE-EAAYIPLLHGP----EQ--------------- 63 (593)
T ss_pred HHHHHHHHHHHHhhcccceeecccccc----CcccCCeeEEEeeccc-cceeEeeccch----hh---------------
Confidence 334456666666666669999987643 2233479999999988 89999997631 00
Q ss_pred ChhhHHHHHHHHHHHHHHhhccCCccEEEechHHHHHHHHhcCcccccccCccccccccccccccccccccccCCCCccc
Q 000107 1574 TPEHQLEMIKQRWKRIGEIMEKRDVRKFTWNMKVQIQVLKHAAVSIQRFGGLNLVGTSLGLENVGSSFLLLSPVHLKDGI 1653 (2191)
Q Consensus 1574 ~~~~~~~~~~~~~~~L~~lLe~~~v~kv~hNlK~dl~vL~~~gi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1653 (2191)
+ .....+++||++++.+|++||+|+|+++|+++|+. .+. .+
T Consensus 64 -----~----~~~~~l~~~l~~~~~~kv~~~~K~d~~~l~~~Gi~-~~~-----------------------------~~ 104 (593)
T COG0749 64 -----L----NVLAALKPLLEDEGIKKVGQNLKYDYKVLANLGIE-PGV-----------------------------AF 104 (593)
T ss_pred -----h----hhHHHHHHHhhCcccchhccccchhHHHHHHcCCc-ccc-----------------------------hH
Confidence 0 13467899999999999999999999999999954 221 58
Q ss_pred hHHHHHHhcCCCCCCCCchhHHHHHHHhhChHH---HHHhhccCchhhhhH----HHHhhhHHHHHHHHHHHHHHHHHHH
Q 000107 1654 DMCIVSWILWPDDERSSNPNLEKEVKKRLSSEA---AAAANRSGRWKNQMR----RAAHNGCCRRVAQTRALCSVLWKLL 1726 (2191)
Q Consensus 1654 Dt~lAawLL~P~~~~~~l~~L~~~~~~~l~~e~---~~~~~~~g~~~~~~~----~~~~~ya~~Da~~t~~L~~~L~~~L 1726 (2191)
|||||+||++|+...+++++|... +++.+. ....++..+. ..+. ..+..|++.|++++++|+..|++++
T Consensus 105 DtmlasYll~~~~~~~~~~~l~~r---~l~~~~~~~~~i~~kg~~~-~~~~~~~~~~~~~y~a~~a~~~~~L~~~l~~~l 180 (593)
T COG0749 105 DTMLASYLLNPGAGAHNLDDLAKR---YLGLETITFEDIAGKGKKQ-LTFADVKLEKATEYAAEDADATLRLESILEPEL 180 (593)
T ss_pred HHHHHHhccCcCcCcCCHHHHHHH---hcCCccchhHHhhcccccc-CccccchHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 999999999999888876666544 444433 3333322211 1121 3467899999999999999999876
Q ss_pred HH-HHHHHHHHhhhhhHHHHHHHHHhcCcccCHHHHHHHHHHHHHHHHHHHHHHHHHhCCcCCCCCHHHHHHHHHHhcCC
Q 000107 1727 VS-EELIEALLNIEIPLVNVLADMELWGIGVDMEGCLQARNLLQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHLKL 1805 (2191)
Q Consensus 1727 ~~-~~L~~l~~~iEmpl~~vLa~ME~~Gi~vD~~~l~~~~~~l~~~l~~le~~i~~l~G~~fnl~S~~ql~~vLf~~l~l 1805 (2191)
.+ ..|.++|.++|||++.||+.||.+||.||.+.|..+..++..++.+++++||+++|.+||++|||||+.+||++|||
T Consensus 181 ~~~~~L~~l~~~iE~Pl~~VLa~ME~~Gi~vD~~~L~~l~~el~~~l~~le~eiy~laG~~FNi~SPKQL~~ILfeKl~L 260 (593)
T COG0749 181 LKTPVLLELYEEIEMPLVRVLARMERNGIKVDVQYLKELSKELGCELAELEEEIYELAGEEFNINSPKQLGEILFEKLGL 260 (593)
T ss_pred hhhhhHHHHHHHHhccHHHHHHHhHhcCceecHHHHHHHHHHHHHHHHHHHHHHHHHhcCcCCCCCHHHHHHHHHHhcCC
Confidence 65 55799999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCCCC-CCCCcHHHHHHhhhcCCcHHHHHHHHHHHHHHHhHHHHHHHHhhhhcCCCceeecccccccccccccc
Q 000107 1806 PIPEGHNKGKQ-HPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARISMSTQKYTLHGHWLQTSTATGRL 1884 (2191)
Q Consensus 1806 p~~~~~~k~k~-~~ST~~~vL~~L~~~hpi~~~ile~R~l~Kllsty~~~l~~~~~~~~~~~~grih~~~~q~gTaTGRl 1884 (2191)
|+ .. +|+|+ +|||+.+||++|+..||++++||+||+++|+.+||+++|+.+++ ..+|||||+|+|++|+||||
T Consensus 261 p~-~~-kKtktG~yST~~~vLe~L~~~h~i~~~iL~~Rql~KLksTY~d~L~~~i~----~~t~RIHTsf~Q~~t~TGRL 334 (593)
T COG0749 261 PP-GL-KKTKTGNYSTDAEVLEKLADDHPLPKLILEYRQLAKLKSTYTDGLPKLIN----PDTGRIHTSFNQTGTATGRL 334 (593)
T ss_pred Cc-cc-cccCCCCCccHHHHHHHHhhcCccHHHHHHHHHHHHHHHHhhhccHHhhC----CCCCccCcchHHHHHHhhcc
Confidence 96 33 45554 49999999999999999999999999999999999999998876 34599999999999999999
Q ss_pred ccCCCCccccccccccccccccccCCCcccccccccccccccccCCCeEEEEeccchhHHHHHHHhcCChHHHHHhcCCC
Q 000107 1885 SMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINARDFFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPH 1964 (2191)
Q Consensus 1885 Sss~PNLQNiPk~~~~~~~~~~g~~~~~~~~~~~~~iR~~Fi~~~~G~~lvsaDySQIELRilAhlS~D~~Li~af~~~g 1964 (2191)
||++||||||| +|++.|| .||++|+|+ +||.+++|||||||||||||+|+|+.|++||++ |
T Consensus 335 SSsdPNLQNIP------iRse~Gr-----------~IR~aFva~-~g~~~i~aDYSQIELRilAHls~D~~Ll~AF~~-g 395 (593)
T COG0749 335 SSSDPNLQNIP------IRSEEGR-----------KIRKAFVAE-KGYTLISADYSQIELRILAHLSQDEGLLRAFTE-G 395 (593)
T ss_pred cCCCCCcccCC------cCCHhHH-----------hhhhceeCC-CCCeEEEechHHHHHHHHHHhcCCHHHHHHHhc-C
Confidence 99999999998 8999999 899999997 999999999999999999999999999999998 9
Q ss_pred chHHHHHHHHHcCCCCCCCChhhhcccchhhhhhhcCCChhhhhhhcCCCHHHHHHHHHHHHHhChhHHHHHHHHHHHHH
Q 000107 1965 GDVFTMIAARWTGRSEDSVGSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSSCH 2044 (2191)
Q Consensus 1965 ~Dih~~~Aa~~~g~~~e~Vt~~~R~~AK~i~fGiiYGmG~~~La~~l~is~~eA~~~i~~f~~~yp~v~~~~~~~~~~a~ 2044 (2191)
.|||+.||+++||+|+++||+++|+.||++|||+|||||+++||++||||..||+.||++||++||||+.|+++++++|+
T Consensus 396 ~DiH~~TA~~vFgv~~~~Vt~e~Rr~AKaINFGiiYG~safgLa~~L~I~~~eA~~~I~~YF~rypgv~~ym~~~~~~ar 475 (593)
T COG0749 396 EDIHTATAAEVFGVPIEEVTSEQRRKAKAINFGLIYGMSAFGLAQQLGIPRKEAKEYIDRYFERYPGVKEYMERTKEEAR 475 (593)
T ss_pred ccHHHHHHHHHhCCChhhCCHHHhhhhhhhccceeeccchhhHHHHcCCChHHHHHHHHHHHHhChHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcCeEEcccCCeeecCcccCCChhhhhhhhhhhhHhhhHHHHHHHHHHHHHHHHHHHHcCCCCCCChhhhhhhccCCcee
Q 000107 2045 QKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIVGGVYKPDSSLAANFQMLKGRCR 2124 (2191)
Q Consensus 2045 ~~GyV~Tl~GRrr~lp~i~s~~~~~r~~aeRqAvNt~iQGsAADI~K~Ami~i~~~l~~~~~~~~~~~~~~~~~~~~~~~ 2124 (2191)
++|||+|++|||||+|+|++.|...|+++||.|+|+|||||||||+|.|||.|+++|... +..+|
T Consensus 476 ~~GyV~Tl~gRRry~p~i~s~n~~~R~~aER~AiNaPIQGTAADiiK~AMI~vd~~l~~~---------------~~~~r 540 (593)
T COG0749 476 EDGYVETLFGRRRYLPDINSSNRVVRAAAERAAINAPIQGTAADIIKLAMIKVDKALKEE---------------KLKAR 540 (593)
T ss_pred HcCceeecccccccCcccccCCHHHHHHHHHHHhcCcCcccHHHHHHHHHHhHHHHHhhc---------------chhhh
Confidence 999999999999999999999999999999999999999999999999999999999875 46889
Q ss_pred EEEEecceeeeeeChhhHHHHHHHHHHHHhcccCcccceEEEeeccCCccccC
Q 000107 2125 LLLQVHDELVLEVDPSVIKEAVSLVQKCMESAALLLVPLLVKIQVGSTWGSLE 2177 (2191)
Q Consensus 2125 lvlqVHDELv~Evp~~~~~~v~~~vk~~Me~a~~l~VPL~v~~~iG~sW~~~~ 2177 (2191)
|+|||||||+||||+++++++.++|+..||+|+.|.|||.|++.+|+||+++|
T Consensus 541 llLQVHDELvfEv~~~e~e~~~~~v~~~Me~a~~L~VPL~vdv~~g~nW~ea~ 593 (593)
T COG0749 541 LLLQVHDELVFEVPKEELEEVKKLLKAIMENAVNLSVPLEVDVGIGKNWDEAH 593 (593)
T ss_pred hHHhhhhhhhhcCcHhHHHHHHHHHHHHHHHhhccCCceEEecCCCcChhhcC
Confidence 99999999999999999999999999999999999999999999999999986
No 2
>TIGR00593 pola DNA polymerase I. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=100.00 E-value=1.2e-110 Score=1118.55 Aligned_cols=573 Identities=32% Similarity=0.474 Sum_probs=503.7
Q ss_pred CcccHHHHHHHHhhCCeEEEEeeccCCcccCCCcc--ceEEEEEEEEeC-CcEEEEeCCCCcccccccccchhccCCCCC
Q 000107 1494 ASGGFDCFLDRWEATHEFYFDIHYDKHSEANSGVL--FEIHGLAVCWEN-SPVYYVNLPKDLWSDHRRKDRFLIYGSSDK 1570 (2191)
Q Consensus 1494 ~~~~~~~~l~~~~~~~~~afD~e~~~~~~~~s~~~--~~i~Gia~~~~~-~~ayYi~l~~~~~~~~~~~~~~~~~~~~~~ 1570 (2191)
+...+..|++. .....++++ +..+ ..++|++||+++ +.+||+++. .. . +..
T Consensus 309 ~~~~~~~~~~~-~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~--~--~~~---------- 362 (887)
T TIGR00593 309 EAAPLANPAEK-AEVGGFVLE----------RLLDQLKKALALAFATENQSYVAYASEA-DG--I--PLL---------- 362 (887)
T ss_pred CHHHHHHHHHh-CcCCeEEEc----------CcccccCceeEEEEEecCCCceEEEecc-cc--h--hhh----------
Confidence 34556666654 333456551 1222 368999999987 668999864 10 0 000
Q ss_pred CCCChhhHHHHHHHHHHHHHHhhccCCccEEEechHHHHHHHHhcCcccccccCccccccccccccccccccccccCCCC
Q 000107 1571 NVLTPEHQLEMIKQRWKRIGEIMEKRDVRKFTWNMKVQIQVLKHAAVSIQRFGGLNLVGTSLGLENVGSSFLLLSPVHLK 1650 (2191)
Q Consensus 1571 ~~~~~~~~~~~~~~~~~~L~~lLe~~~v~kv~hNlK~dl~vL~~~gi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1650 (2191)
.....+.|+++|+++.+.|++||+|||+++|+++|+.+.+.
T Consensus 363 -----------~~~~~~~l~~~l~~~~~~~v~~n~K~d~~~l~~~gi~~~~~---------------------------- 403 (887)
T TIGR00593 363 -----------TILTDDKFARWLLNEQIKKIGHDAKFLMHLLKREGIELGGV---------------------------- 403 (887)
T ss_pred -----------hHHHHHHHHHHHhCCCCcEEEeeHHHHHHHHHhCCCCCCCc----------------------------
Confidence 02334678899999999999999999999999999876542
Q ss_pred ccchHHHHHHhcCCCCCCCCchhHHHHHHHhhChHH---HHHhhccCchhhhhHHHHhhhHHHHHHHHHHHHHHHHHHHH
Q 000107 1651 DGIDMCIVSWILWPDDERSSNPNLEKEVKKRLSSEA---AAAANRSGRWKNQMRRAAHNGCCRRVAQTRALCSVLWKLLV 1727 (2191)
Q Consensus 1651 ~~~Dt~lAawLL~P~~~~~~l~~L~~~~~~~l~~e~---~~~~~~~g~~~~~~~~~~~~ya~~Da~~t~~L~~~L~~~L~ 1727 (2191)
++|||||+|||+|+.. + +|+.++.++++.+. ....+....+.....+.+..||++|+.++++||..|.++|.
T Consensus 404 -~~Dt~la~yll~~~~~-~---~l~~la~~yl~~~~~~~~~~~~~~~~~~~~~~~~~~~ya~~d~~~~~~L~~~l~~~l~ 478 (887)
T TIGR00593 404 -IFDTMLAAYLLDPAQV-S---TLDTLARRYLVEELILDEKIGGKLAKFAFPPLEEATEYLARRAAATKRLAEELLKELD 478 (887)
T ss_pred -chhHHHHHHHcCCCCC-C---CHHHHHHHHcCcccccHHHhccCCCCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 5899999999999753 4 46666666665432 12222111111111234678999999999999999999999
Q ss_pred HHHHHHHHHhhhhhHHHHHHHHHhcCcccCHHHHHHHHHHHHHHHHHHHHHHHHHhCCcCCCCCHHHHHHHHHHhcCCCC
Q 000107 1728 SEELIEALLNIEIPLVNVLADMELWGIGVDMEGCLQARNLLQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHLKLPI 1807 (2191)
Q Consensus 1728 ~~~L~~l~~~iEmpl~~vLa~ME~~Gi~vD~~~l~~~~~~l~~~l~~le~~i~~l~G~~fnl~S~~ql~~vLf~~l~lp~ 1807 (2191)
++++.++|.++|||++++|++||.+||+||.+.|+++..++.+++++++++|++++|.+||++||+||+++||++||||+
T Consensus 479 ~~~l~~l~~~iE~pl~~vLa~ME~~Gi~vD~~~l~~~~~~~~~~l~~le~~i~~~~g~~fN~~SpkQl~~~Lf~~lgl~~ 558 (887)
T TIGR00593 479 ENKLLSLYREIELPLSKVLAEMEKTGIKVDADYLQELSQEFGEEIADLEEEIYELAGEEFNINSPKQLGEVLFEKLGLPV 558 (887)
T ss_pred hccHHHHHHHHHHHHHHHHHHHHhCCEEeCHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHhCCCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999997
Q ss_pred CCCCCCCCCCCCCcHHHHHHhhhcCCcHHHHHHHHHHHHHHHhHHHHHHHHhhhhcCCCceeeccccccccccccccccC
Q 000107 1808 PEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARISMSTQKYTLHGHWLQTSTATGRLSME 1887 (2191)
Q Consensus 1808 ~~~~~k~k~~~ST~~~vL~~L~~~hpi~~~ile~R~l~Kllsty~~~l~~~~~~~~~~~~grih~~~~q~gTaTGRlSss 1887 (2191)
++ |+++++||++++|++|+..||++..|++||+++|+++||+++++.+++ ..+||||++|+|++|+||||||+
T Consensus 559 ~k---ktktg~ST~~~vL~~L~~~hp~~~~ileyR~l~Kl~sty~~~l~~~i~----~~tgRIh~~~~q~~t~TGRlSs~ 631 (887)
T TIGR00593 559 GK---KTKTGYSTDADVLEKLREKHPIIALILEYRQLTKLKSTYVDGLPELVN----PDTGRIHTTFNQTGTATGRLSSS 631 (887)
T ss_pred CC---CCCCCCCChHHHHHHhhhcCcHHHHHHHHHHHHHHHHHHHHHHHHHhc----CCCCceeeeeEecccceeeeccc
Confidence 64 344459999999999999999999999999999999999999988764 33599999999999999999999
Q ss_pred CCCccccccccccccccccccCCCcccccccccccccccccCCCeEEEEeccchhHHHHHHHhcCChHHHHHhcCCCchH
Q 000107 1888 EPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINARDFFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDV 1967 (2191)
Q Consensus 1888 ~PNLQNiPk~~~~~~~~~~g~~~~~~~~~~~~~iR~~Fi~~~~G~~lvsaDySQIELRilAhlS~D~~Li~af~~~g~Di 1967 (2191)
+||||||| ++++.|+ .||+||+|+ +||+||+|||||||||||||||+|+.|+++|++ |.||
T Consensus 632 ~PNLQNIP------~r~~~g~-----------~iR~~Fia~-~G~~lv~aDySQIELRilAhls~D~~Li~af~~-g~Di 692 (887)
T TIGR00593 632 NPNLQNIP------IRSEEGR-----------KIRKAFVAE-KGWLLISADYSQIELRVLAHLSQDENLIEAFQN-GEDI 692 (887)
T ss_pred CCCccccC------CCCcccc-----------hhhheEecC-CCCeEEEechhHhHHHHHHHHcCCHHHHHHHhc-CCCh
Confidence 99999999 4666777 799999996 999999999999999999999999999999998 8999
Q ss_pred HHHHHHHHcCCCCCCCChhhhcccchhhhhhhcCCChhhhhhhcCCCHHHHHHHHHHHHHhChhHHHHHHHHHHHHHhcC
Q 000107 1968 FTMIAARWTGRSEDSVGSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSSCHQKG 2047 (2191)
Q Consensus 1968 h~~~Aa~~~g~~~e~Vt~~~R~~AK~i~fGiiYGmG~~~La~~l~is~~eA~~~i~~f~~~yp~v~~~~~~~~~~a~~~G 2047 (2191)
|+.||+.|||+|+++||+++|+.||++|||++||||+++||+++|||.+||+++|++||++||+|++|++++++.|+++|
T Consensus 693 H~~tA~~~fg~~~e~vt~~~R~~AK~infGiiYG~g~~~La~~l~is~~eA~~~i~~yf~~yp~v~~~~~~~~~~a~~~G 772 (887)
T TIGR00593 693 HTETASRLFGVEIEDVTPNMRRIAKTINFGVVYGMSAFGLAQELGISRKEAKEFIERYFARYPGVKDYIENTVEEARKKG 772 (887)
T ss_pred HHHHHHHHhCCChhhCCHHHHhhhhHhhcCcccccchhHHHHHcCCCHHHHHHHHHHHHHHCccHHHHHHHHHHHHHHcC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eEEcccCCeeecCcccCCChhhhhhhhhhhhHhhhHHHHHHHHHHHHHHHHHHHHcCCCCCCChhhhhhhccCCceeEEE
Q 000107 2048 YVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIVGGVYKPDSSLAANFQMLKGRCRLLL 2127 (2191)
Q Consensus 2048 yV~Tl~GRrr~lp~i~s~~~~~r~~aeRqAvNt~iQGsAADI~K~Ami~i~~~l~~~~~~~~~~~~~~~~~~~~~~~lvl 2127 (2191)
||+|++|||||+|++++.|...|+.+||+|+|+|||||||||+|.||++++++|.+. +..++|||
T Consensus 773 yv~Tl~GRrr~lp~i~s~n~~~r~~aeR~A~N~~iQGsAADi~K~Ami~v~~~l~~~---------------~~~~~lvl 837 (887)
T TIGR00593 773 YVETLFGRRRYIPDINSRNRNVREAAERMAINAPIQGSAADIMKIAMIKLDKRLKER---------------KLKARLLL 837 (887)
T ss_pred cEEecCCCEeeCCCccccchhhHhHHHhhhhhhhhhhHHHHHHHHHHHHHHHHHHhc---------------CCCeEEEe
Confidence 999999999999999999999999999999999999999999999999999999874 45689999
Q ss_pred EecceeeeeeChhhHHHHHHHHHHHHhcccCcccceEEEeeccCCccccC
Q 000107 2128 QVHDELVLEVDPSVIKEAVSLVQKCMESAALLLVPLLVKIQVGSTWGSLE 2177 (2191)
Q Consensus 2128 qVHDELv~Evp~~~~~~v~~~vk~~Me~a~~l~VPL~v~~~iG~sW~~~~ 2177 (2191)
||||||+||||++++++++.+|+++||++..|.|||.|++++|+||+++|
T Consensus 838 qVHDElv~Evp~~~~~~v~~~l~~~Me~a~~l~VPL~v~~~~G~~W~e~~ 887 (887)
T TIGR00593 838 QVHDELIFEAPEEEAEEVAALVKEVMEHAYPLAVPLEVEVGTGKNWGEAK 887 (887)
T ss_pred eEceEeeeecCHHHHHHHHHHHHHHHHhhcCCCCcEEEecCccCCHHhcC
Confidence 99999999999999999999999999999999999999999999999986
No 3
>KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only]
Probab=100.00 E-value=2.8e-110 Score=1051.38 Aligned_cols=740 Identities=44% Similarity=0.720 Sum_probs=665.2
Q ss_pred CcCCcCCCCcHHHHHHHH-HcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchh
Q 000107 501 DCLDLSSWLPSEICSIYK-KRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPY 579 (2191)
Q Consensus 501 e~l~L~~~Lp~~l~~~l~-~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~ 579 (2191)
..+....|+|+.+.+.+. .+|+..+|.||.+|+..+.+++++|+|+++||++|||+++++.|++.++..++++++++|+
T Consensus 199 l~~~~a~~~~~k~~~~~~~~kgi~~~fewq~ecls~~~~~e~~nliys~Pts~gktlvaeilml~~~l~~rr~~llilp~ 278 (1008)
T KOG0950|consen 199 LLFGFAKRLPTKVSHLYAKDKGILKLFEWQAECLSLPRLLERKNLIYSLPTSAGKTLVAEILMLREVLCRRRNVLLILPY 278 (1008)
T ss_pred hhhhhhhcCchHHHHHHHHhhhHHHHHHHHHHHhcchhhhcccceEEeCCCccchHHHHHHHHHHHHHHHhhceeEecce
Confidence 344555698888888765 5899999999999999888999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccch
Q 000107 580 VSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNR 659 (2191)
Q Consensus 580 raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~R 659 (2191)
++.++++...+..++.++|+.|..++|........+..++.|||+|+.+.+++++++.+.+..+++|||||.||++|.+|
T Consensus 279 vsiv~Ek~~~l~~~~~~~G~~ve~y~g~~~p~~~~k~~sv~i~tiEkanslin~lie~g~~~~~g~vvVdElhmi~d~~r 358 (1008)
T KOG0950|consen 279 VSIVQEKISALSPFSIDLGFPVEEYAGRFPPEKRRKRESVAIATIEKANSLINSLIEQGRLDFLGMVVVDELHMIGDKGR 358 (1008)
T ss_pred eehhHHHHhhhhhhccccCCcchhhcccCCCCCcccceeeeeeehHhhHhHHHHHHhcCCccccCcEEEeeeeeeecccc
Confidence 99999999999999999999999999888777777788999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhccccccccccccceEEEEe
Q 000107 660 GYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQAALYETNFRPVPLEEYIKV 739 (2191)
Q Consensus 660 G~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a~l~~~~~RpvpL~e~i~~ 739 (2191)
|+.+|.+++++.|.+.. ..+||||||||++|...+++||++.+|.+.|||||+.+++++
T Consensus 359 g~~lE~~l~k~~y~~~~---------------------~~~~iIGMSATi~N~~lL~~~L~A~~y~t~fRPv~L~E~ik~ 417 (1008)
T KOG0950|consen 359 GAILELLLAKILYENLE---------------------TSVQIIGMSATIPNNSLLQDWLDAFVYTTRFRPVPLKEYIKP 417 (1008)
T ss_pred chHHHHHHHHHHHhccc---------------------cceeEeeeecccCChHHHHHHhhhhheecccCcccchhccCC
Confidence 99999999999998643 238999999999999999999999999999999999999999
Q ss_pred ccccccc-hhhHHHHHH--HhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCch
Q 000107 740 GNAIYSK-KMDVVRTIL--TAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSE 816 (2191)
Q Consensus 740 ~~~~~~~-~~~~~r~l~--~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~ 816 (2191)
+..+|.. +...++.+. .....+..|+|+++.+|.+++.++.++||||++|++|+.+|..+...++........ ..
T Consensus 418 G~~i~~~~r~~~lr~ia~l~~~~~g~~dpD~~v~L~tet~~e~~~~lvfc~sk~~ce~~a~~~~~~vpk~~~~e~~--~~ 495 (1008)
T KOG0950|consen 418 GSLIYESSRNKVLREIANLYSSNLGDEDPDHLVGLCTETAPEGSSVLVFCPSKKNCENVASLIAKKVPKHIKSEKR--LG 495 (1008)
T ss_pred CcccccchhhHHHHHhhhhhhhhcccCCCcceeeehhhhhhcCCeEEEEcCcccchHHHHHHHHHHhhHhhhhhhh--hh
Confidence 9999998 777777776 344555678899999999999999999999999999999998888877654322110 11
Q ss_pred hhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecCC
Q 000107 817 FIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPR 896 (2191)
Q Consensus 817 ~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~ 896 (2191)
.-++.+..+.+++.+.++|+.|++++++||+|||+|++.++|+.|+.+|+.|.+.|++||+|+++|||+|++||||+.|+
T Consensus 496 ~~~~~s~s~~lr~~~~~ld~Vl~~ti~~GvAyHhaGLT~eER~~iE~afr~g~i~vl~aTSTlaaGVNLPArRVIiraP~ 575 (1008)
T KOG0950|consen 496 LWELLSISNLLRRIPGILDPVLAKTIPYGVAYHHAGLTSEEREIIEAAFREGNIFVLVATSTLAAGVNLPARRVIIRAPY 575 (1008)
T ss_pred HHHHHHHHhHhhcCCcccchHHheeccccceecccccccchHHHHHHHHHhcCeEEEEecchhhccCcCCcceeEEeCCc
Confidence 22456677888889999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcccCcccccccccccCCCCCCCceEEEEEeChhhHHHHHhhhccCCCCcccccccccchhh-HHHHHHHhcccccCH
Q 000107 897 IGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKIMGLLNESCPPLHSCLSEDKNGMT-HAILEVVAGGIVQTA 975 (2191)
Q Consensus 897 ~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~~~ll~~~l~~l~S~L~~~~~~l~-~~iLeiia~gi~~t~ 975 (2191)
.|.++++..+|+||+|||||+|.|+.|++|++|++.+.+.+.++++.+++++.|||.++.++.. +++|++|..+++.|.
T Consensus 576 ~g~~~l~~~~YkQM~GRAGR~gidT~GdsiLI~k~~e~~~~~~lv~~~~~~~~S~l~~e~~g~~~~~ilsvI~~~ia~t~ 655 (1008)
T KOG0950|consen 576 VGREFLTRLEYKQMVGRAGRTGIDTLGDSILIIKSSEKKRVRELVNSPLKPLNSCLSNEVNGPILMAILSLISLKIAETA 655 (1008)
T ss_pred cccchhhhhhHHhhhhhhhhcccccCcceEEEeeccchhHHHHHHhccccccccccccccccccceeehhhhcchhhhhH
Confidence 9999999999999999999999999999999999999999999999999999999987766554 889999999999999
Q ss_pred HHHHHHHHhhhcCCCCcchhHHHH----------HHHHHHHHHHccccee-ccCCCccCCCHHHHHHHhcCCChhhHHHH
Q 000107 976 EDIHRYVRCTLLNSTKPFQDVVKS----------AQDSLRWLCHRKFLEW-NEDTKLYSTTPLGRAAFGSSLCPEESLIV 1044 (2191)
Q Consensus 976 ~di~~~l~~tll~~~~~~~~~~~~----------~~~al~~L~~~~~i~~-~~~~~~~~~T~LG~a~~~s~L~p~~a~~l 1044 (2191)
+|+..|+.+||+..+..+....+. ....-+++....|+.. ..+...-.+|+||++++..+++|..|..+
T Consensus 656 ~di~~~va~tl~s~q~~~~~~~~~le~~s~ql~~~~~~~d~~l~~d~i~~~~~~~~~~~~t~Lg~a~f~~~~~~~~a~~l 735 (1008)
T KOG0950|consen 656 EDILHFVAVTLLSAQEKPENVREQLEMESDQLVINDFKSDQLLEKDFIYKKQIENLRENITRLGRACFNAGSDPEVANIL 735 (1008)
T ss_pred HHHHHHHHHhhhhcccchhhhhhcccchhhhhccchhhHHHHHHHHHHHhHHHHhhhhhhhhhhhhhhcccCChhhhHHH
Confidence 999999999999987654332111 1112267777777762 21211224999999999999999999999
Q ss_pred HHHHhhhcccccccCccceeeeeccCCCCCC-CcHHHHHHHHHhhhhhhhhhhcccCCCHHHHHHHhcCCCccccccccc
Q 000107 1045 LDDLSRAREGFVLASDLHLVYLSTPINVEVE-PDWELYYERFLELSALDQSVGNQVGVSEPYLMRMAHGAPMRISSKLRD 1123 (2191)
Q Consensus 1045 ~~~L~~a~~~~vl~~dlhllylvtp~~~~~~-~dw~~~~~~~~~l~~~~~~v~~~~Gv~e~~l~~~~~~~~~~~~~~~~~ 1123 (2191)
+.+|++++.++|+++++|+||++||++..+. +||..|+..|++|+..++.+++.+|+.|.|+.++..|..+.
T Consensus 736 ~~~L~~~~~~~vle~~lh~lylvtP~~~~~~~~dwli~f~i~~~L~~~~~~~~~~~G~~e~fi~~~~~gqs~~------- 808 (1008)
T KOG0950|consen 736 FADLKKSLPQLVLESSLHLLYLVTPYLEVMNDIDWLIYFQIYHTLPSPEQKLAKLLGVIESFIEKCVSGQSVR------- 808 (1008)
T ss_pred HHHHHHhhhccccccccceeeeecchHhhcccccHHHHHHHHhcCCcHHHHHHhhhchHHHHHHHhhhccccc-------
Confidence 9999999999999999999999999988776 99999999999999999999999999999999999885321
Q ss_pred cccCccchhhhhhccccCCCcchhHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHhCCCcchHHHHHHHHHHHHHHHHHHH
Q 000107 1124 STKGLHGKLEYRLGITSNNMLSDAQTLRVCKRFYVALILSRLVQETPVLEVCETFKVARGMVQALQENAGRFASMVSVFC 1203 (2191)
Q Consensus 1124 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rfy~al~L~dli~e~~~~~i~~~y~v~rG~lq~l~~~a~~~a~~v~~fc 1203 (2191)
+.+.+++|+|||++++|+++|+|.|++.|+++|||.||.||+||++|+.||+||+.||
T Consensus 809 ----------------------~~~~~~~~~r~y~~l~L~~li~espi~~V~~kYk~~rg~lqall~~a~~~a~~It~Fc 866 (1008)
T KOG0950|consen 809 ----------------------NLQNVQKRKRLYVALALQKLINESPIRTVAEKYKVERGRLQALLSNASSFASLITFFC 866 (1008)
T ss_pred ----------------------cccchhHHHHHHHHHHHHHHHhhCcHHHHHHHhCchHHHHHHHHhcchhHHHHHHHHH
Confidence 1245789999999999999999999999999999999999999999999999999999
Q ss_pred HHhCchhHHHHHHHHHHHHhccCchhhhhhcCCCCCCHHHHHHHHHcCCCCHHHHHcCCHHHHHHHHhhcchhHHHHHhh
Q 000107 1204 ERLGWYDLEGLIAKFQNRVSFGVRAEIVELTTIPYVKGSRARALYKAGLRTPLAIAEASISEIVKALFESSSWIAEAQRR 1283 (2191)
Q Consensus 1204 ~~lg~~~~~~ll~~~~~RL~~Gv~~ELl~L~~ip~v~~~RAR~Ly~aG~~t~~~la~a~~~~l~~~l~~~~~~~~~~~~~ 1283 (2191)
++|+|.+++.++.+|..||+||++.||+|||++|++++.|||+||.|||+|+.+||+|+|.+|++.+..+.
T Consensus 867 e~l~w~~~~~l~~~~~~rl~~g~~~eL~~Lmrv~~~~~~RAr~lf~Agf~tv~~iA~a~p~klvkel~~si--------- 937 (1008)
T KOG0950|consen 867 ESIQWFPLRALLSEFYGRLSFGGHAELIPLMRVPDVKAERARQLFKAGFTSVGSIANATPEKLVKELPISI--------- 937 (1008)
T ss_pred HHhhhcchHHHHHHHHHHHhccchhhhhhhhcCchhHHHHHHHHHHhhccchHHHhcCChHHHHHHhhccc---------
Confidence 99999999999999999999999999999999999999999999999999999999999999999997654
Q ss_pred hhHHHHHHHHHHHHHHHHH
Q 000107 1284 VQLGVAKKIKNGARKIVLE 1302 (2191)
Q Consensus 1284 ~~~~~A~~I~~~A~~l~~~ 1302 (2191)
..+.|.+|+++|++.+.+
T Consensus 938 -~~~~a~~i~~s~~~~l~~ 955 (1008)
T KOG0950|consen 938 -SMKQATQIVASAKDELRK 955 (1008)
T ss_pred -cHHHhhhHHhhhhHHHHH
Confidence 456788888888887764
No 4
>PRK05755 DNA polymerase I; Provisional
Probab=100.00 E-value=3.4e-101 Score=1048.39 Aligned_cols=580 Identities=33% Similarity=0.489 Sum_probs=513.9
Q ss_pred eeccCcccHHHHHHHHhhCCeEEEEeeccCCcccCCCccceEEEEEEEEeCCcEEEEeCCCCcccccccccchhccCCCC
Q 000107 1490 NAINASGGFDCFLDRWEATHEFYFDIHYDKHSEANSGVLFEIHGLAVCWENSPVYYVNLPKDLWSDHRRKDRFLIYGSSD 1569 (2191)
Q Consensus 1490 ~~v~~~~~~~~~l~~~~~~~~~afD~e~~~~~~~~s~~~~~i~Gia~~~~~~~ayYi~l~~~~~~~~~~~~~~~~~~~~~ 1569 (2191)
..+.+...+..|++.+.....++||+|+.+. ......+++++++|.++.+||+++.+. +
T Consensus 297 ~~I~~~~~L~~~l~~l~~~~~~a~DtEt~~l----~~~~~~i~~i~ls~~~g~~~~ip~~~i----~------------- 355 (880)
T PRK05755 297 ETILDEEELEAWLAKLKAAGLFAFDTETTSL----DPMQAELVGLSFAVEPGEAAYIPLDQL----D------------- 355 (880)
T ss_pred EEeCCHHHHHHHHHHhhccCeEEEEeccCCC----CcccccEEEEEEEeCCCcEEEEecccc----c-------------
Confidence 4566778889999999888899999988643 122236899999999988999987531 0
Q ss_pred CCCCChhhHHHHHHHHHHHHHHhhccCCccEEEechHHHHHHHHhcCcccccccCccccccccccccccccccccccCCC
Q 000107 1570 KNVLTPEHQLEMIKQRWKRIGEIMEKRDVRKFTWNMKVQIQVLKHAAVSIQRFGGLNLVGTSLGLENVGSSFLLLSPVHL 1649 (2191)
Q Consensus 1570 ~~~~~~~~~~~~~~~~~~~L~~lLe~~~v~kv~hNlK~dl~vL~~~gi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1649 (2191)
...++.|.++|+++.+.||+||+|||+.+|.++|+.+.+
T Consensus 356 -------------~~~l~~l~~~L~d~~v~kV~HNakfDl~~L~~~gi~~~~---------------------------- 394 (880)
T PRK05755 356 -------------REVLAALKPLLEDPAIKKVGQNLKYDLHVLARYGIELRG---------------------------- 394 (880)
T ss_pred -------------HHHHHHHHHHHhCCCCcEEEeccHhHHHHHHhCCCCcCC----------------------------
Confidence 023567888999999999999999999999988776543
Q ss_pred CccchHHHHHHhcCCCCCCCCchhHHHHHHHhhChHH---HHHhhccCchhhhhHHHHhhhHHHHHHHHHHHHHHHHHHH
Q 000107 1650 KDGIDMCIVSWILWPDDERSSNPNLEKEVKKRLSSEA---AAAANRSGRWKNQMRRAAHNGCCRRVAQTRALCSVLWKLL 1726 (2191)
Q Consensus 1650 ~~~~Dt~lAawLL~P~~~~~~l~~L~~~~~~~l~~e~---~~~~~~~g~~~~~~~~~~~~ya~~Da~~t~~L~~~L~~~L 1726 (2191)
.++|||+|+||++|+.. + +|..++..+++.+. ....++...|.....+....||+.|+.++++||..|...|
T Consensus 395 -~~~DT~iAa~Ll~~~~~-~---~L~~L~~~ylg~~~~~~~~~~gk~~~~~~~ple~~~~YAa~Dv~~~~~L~~~L~~~L 469 (880)
T PRK05755 395 -IAFDTMLASYLLDPGRR-H---GLDSLAERYLGHKTISFEEVAGKQLTFAQVDLEEAAEYAAEDADVTLRLHEVLKPKL 469 (880)
T ss_pred -CcccHHHHHHHcCCCCC-C---CHHHHHHHHhCCCccchHHhcCCCCCccccCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 26999999999999753 4 46666666665542 1111211112111113467899999999999999999999
Q ss_pred HHH-HHHHHHHhhhhhHHHHHHHHHhcCcccCHHHHHHHHHHHHHHHHHHHHHHHHHhCCcCCCCCHHHHHHHHHHhcCC
Q 000107 1727 VSE-ELIEALLNIEIPLVNVLADMELWGIGVDMEGCLQARNLLQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHLKL 1805 (2191)
Q Consensus 1727 ~~~-~L~~l~~~iEmpl~~vLa~ME~~Gi~vD~~~l~~~~~~l~~~l~~le~~i~~l~G~~fnl~S~~ql~~vLf~~l~l 1805 (2191)
.+. +++.+|.++|||++.+|+.||.+||+||.++++++..+++++++++++++++++|.+||++||+|++++||++||+
T Consensus 470 ~~~~~l~~l~~eiE~p~~~~l~~me~~Gi~vD~~~~~~~~~~~~~~~~~l~~~~~~~~g~~fn~~S~~ql~~~L~~~lgl 549 (880)
T PRK05755 470 LEEPGLLELYEEIELPLVPVLARMERNGIKVDREYLKELSAELAQRLAELEQEIYELAGEEFNINSPKQLGEILFEKLGL 549 (880)
T ss_pred HhcccHHHHHHHhhchHHHHHHHHHhcCeEeCHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHhcCC
Confidence 875 8999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCCCCCCCCcHHHHHHhhhcCCcHHHHHHHHHHHHHHHhHHHHHHHHhhhhcCCCceeeccccccccccccccc
Q 000107 1806 PIPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARISMSTQKYTLHGHWLQTSTATGRLS 1885 (2191)
Q Consensus 1806 p~~~~~~k~k~~~ST~~~vL~~L~~~hpi~~~ile~R~l~Kllsty~~~l~~~~~~~~~~~~grih~~~~q~gTaTGRlS 1885 (2191)
|+.+ +++.++||++++|++|...||++..|+|||++.|+++||++++.+++. ..+||||++|+|+||+|||||
T Consensus 550 ~~~~---kt~~g~st~~~~L~~l~~~~p~~~~lle~r~~~kl~sty~~~l~~~~~----~~~~rih~~~~~~~t~TGRls 622 (880)
T PRK05755 550 PVGK---KTKTGYSTDAEVLEKLADDHPIPDKILEYRQLSKLKSTYTDALPKLIN----PDTGRIHTSFNQTVTATGRLS 622 (880)
T ss_pred CCCC---CCCCCCCCcHHHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHHHHhc----cCCCeecceEeecccceeeee
Confidence 8653 344459999999999998999999999999999999999999987664 334699999999999999999
Q ss_pred cCCCCccccccccccccccccccCCCcccccccccccccccccCCCeEEEEeccchhHHHHHHHhcCChHHHHHhcCCCc
Q 000107 1886 MEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINARDFFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHG 1965 (2191)
Q Consensus 1886 ss~PNLQNiPk~~~~~~~~~~g~~~~~~~~~~~~~iR~~Fi~~~~G~~lvsaDySQIELRilAhlS~D~~Li~af~~~g~ 1965 (2191)
|++|||||||+ ++..|+ .+|++|+|+ +||+||++||||||||||||||+|+.|+++|++ |.
T Consensus 623 s~~PnlQniP~------~~~~~~-----------~iR~~f~~~-~G~~lv~~DysqiElRilA~ls~D~~l~~~~~~-g~ 683 (880)
T PRK05755 623 SSDPNLQNIPI------RTEEGR-----------RIRKAFVAP-EGYKLLSADYSQIELRILAHLSGDEGLIEAFAE-GE 683 (880)
T ss_pred ccCCCcccCCC------CCccch-----------hhhheEecC-CCCEEEEechhhhHHHHHHHHcCCHHHHHHHhc-CC
Confidence 99999999995 333444 799999996 999999999999999999999999999999998 89
Q ss_pred hHHHHHHHHHcCCCCCCCChhhhcccchhhhhhhcCCChhhhhhhcCCCHHHHHHHHHHHHHhChhHHHHHHHHHHHHHh
Q 000107 1966 DVFTMIAARWTGRSEDSVGSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSSCHQ 2045 (2191)
Q Consensus 1966 Dih~~~Aa~~~g~~~e~Vt~~~R~~AK~i~fGiiYGmG~~~La~~l~is~~eA~~~i~~f~~~yp~v~~~~~~~~~~a~~ 2045 (2191)
|+|+.+|+.|||+++++|++++|+.||++|||++||||+++||+++|+|.+||++++++||++||+|++|++++.++|++
T Consensus 684 Dih~~~A~~~~~~~~~~v~~~~R~~aK~~~fg~~YG~g~~~la~~l~is~~eA~~~~~~~~~~~p~v~~~~~~~~~~a~~ 763 (880)
T PRK05755 684 DIHTATASEVFGVPLEEVTSEQRRRAKAINFGIIYGMSAFGLAQQLGISRKEAKEYIDRYFERYPGVKEYMERTVEQARE 763 (880)
T ss_pred CHHHHHHHHHhCCChhhCCHHHHHHHHHHhcchhhCCChHHHHHHcCCCHHHHHHHHHHHHHHCccHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCeEEcccCCeeecCcccCCChhhhhhhhhhhhHhhhHHHHHHHHHHHHHHHHHHHHcCCCCCCChhhhhhhccCCceeE
Q 000107 2046 KGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIVGGVYKPDSSLAANFQMLKGRCRL 2125 (2191)
Q Consensus 2046 ~GyV~Tl~GRrr~lp~i~s~~~~~r~~aeRqAvNt~iQGsAADI~K~Ami~i~~~l~~~~~~~~~~~~~~~~~~~~~~~l 2125 (2191)
+|||+|++||||++|++++.+...|+.++|+|+|++||||||||+|.||+++++.+... +.+++|
T Consensus 764 ~g~v~t~~GR~r~~p~~~~~~~~~~~~~~r~a~N~~iQgsaAdi~k~am~~~~~~l~~~---------------~~~~~l 828 (880)
T PRK05755 764 KGYVETLFGRRRYLPDINSRNGNRRAFAERAAINAPIQGSAADIIKLAMIRVDKALKEE---------------GLKSRM 828 (880)
T ss_pred cCCEECCCCCeEeCCcccCCCHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHhc---------------CCCceE
Confidence 99999999999999999999999999999999999999999999999999999998763 456899
Q ss_pred EEEecceeeeeeChhhHHHHHHHHHHHHhcccCcccceEEEeeccCCccccC
Q 000107 2126 LLQVHDELVLEVDPSVIKEAVSLVQKCMESAALLLVPLLVKIQVGSTWGSLE 2177 (2191)
Q Consensus 2126 vlqVHDELv~Evp~~~~~~v~~~vk~~Me~a~~l~VPL~v~~~iG~sW~~~~ 2177 (2191)
++||||||+||||++.+++++++|+++||++..+.|||.|++++|+|||++|
T Consensus 829 ~l~vHDel~~ev~~~~~~~~~~~~~~~me~~~~l~vpl~v~~~~g~~W~~~~ 880 (880)
T PRK05755 829 LLQVHDELVFEVPEDELEEVKKLVKEVMENAVELSVPLVVDVGVGDNWDEAH 880 (880)
T ss_pred EEEEcceeEEEeCHHHHHHHHHHHHHHHhCcccCCceEEEeCCcCCChHhcC
Confidence 9999999999999999999999999999999999999999999999999987
No 5
>PRK14975 bifunctional 3'-5' exonuclease/DNA polymerase; Provisional
Probab=100.00 E-value=1e-91 Score=910.83 Aligned_cols=460 Identities=23% Similarity=0.304 Sum_probs=420.0
Q ss_pred cchHHHHHHhcCCCCC--CCCchhHHHHHHHhhChHHHHHhhccCchhhhhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Q 000107 1652 GIDMCIVSWILWPDDE--RSSNPNLEKEVKKRLSSEAAAAANRSGRWKNQMRRAAHNGCCRRVAQTRALCSVLWKLLVSE 1729 (2191)
Q Consensus 1652 ~~Dt~lAawLL~P~~~--~~~l~~L~~~~~~~l~~e~~~~~~~~g~~~~~~~~~~~~ya~~Da~~t~~L~~~L~~~L~~~ 1729 (2191)
.|||+||+|||+++.. .+ ++..++..+++.+..+...+ ..|...+.+....|++.|+.++++||..|..+|.+.
T Consensus 72 ~fDT~LAa~lL~~~~~~~~~---~l~~la~~~l~~~l~k~~~~-sdw~rpls~~q~~YAa~Dv~~l~~L~~~L~~qL~~~ 147 (553)
T PRK14975 72 CHDLMLASQLLLGSEGRAGS---SLSAAAARALGEGLDKPPQT-SALSDPPDEEQLLYAAADADVLLELYAVLADQLNRI 147 (553)
T ss_pred CchHHHHHHHcCCCCCcCCC---CHHHHHHHHhCCCCCChhhh-ccccccchHHHHHHHHHHhHHHHHHHHHHHHHHHhh
Confidence 4999999999999653 34 46666777776554322222 235444455567899999999999999999999876
Q ss_pred ------HHHHHHHhhhhhHHHHHHHHHhcCcccCHHHHHHHHHHHH----------HHHHHHHHHHHHHhCCc-CCCCCH
Q 000107 1730 ------ELIEALLNIEIPLVNVLADMELWGIGVDMEGCLQARNLLQ----------KKLRYLEKKAYTLAGMK-FSLYTA 1792 (2191)
Q Consensus 1730 ------~L~~l~~~iEmpl~~vLa~ME~~Gi~vD~~~l~~~~~~l~----------~~l~~le~~i~~l~G~~-fnl~S~ 1792 (2191)
++..+|.++|||++.+|+.||.+||+||.+.++++..++. ++++++++++++++|.+ ||++||
T Consensus 148 ~~~~~~g~l~ll~~~E~~~~~~l~~me~~Gi~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~g~~~~n~~S~ 227 (553)
T PRK14975 148 AAAAHPGRLRLLAAAESAGALAAAEMELAGLPWDTDVHEALLAELLGPRPAAGGRPARLAELAAEIREALGRPRLNPDSP 227 (553)
T ss_pred hcccchhHHHHHHHHHhhHHHHHHHHHHhCeEeCHHHHHHHHHHHhcccccccchHHHHHHHHHHHHHHhCCCCCCCCCH
Confidence 8999999999999999999999999999999999999999 88999999999999986 999999
Q ss_pred HHHHHHHHHhcCCCCCCCCCCCCCCCCCcHHHHHHhhhcCCcHHHHHHHHHHHHHHHhHHHHHHHHhhhhcCCCceeecc
Q 000107 1793 ADIANVLYGHLKLPIPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARISMSTQKYTLHG 1872 (2191)
Q Consensus 1793 ~ql~~vLf~~l~lp~~~~~~k~k~~~ST~~~vL~~L~~~hpi~~~ile~R~l~Kllsty~~~l~~~~~~~~~~~~grih~ 1872 (2191)
+||+++| +++|+|. ++|++++| +...||++..|++||++.|+++||+.++...+. .|||||+
T Consensus 228 ~ql~~~L-~~~g~~~----------~~t~~~~L--~~~~hp~~~~ile~r~~~kl~st~~~~~~~~~~-----~~grih~ 289 (553)
T PRK14975 228 QQVLRAL-RRAGIEL----------PSTRKWEL--REIDHPAVEPLLEYRKLSKLLSANGWAWLDYWV-----RDGRFHP 289 (553)
T ss_pred HHHHHHH-HHCCCCC----------CCCcHHHh--ccCCCchHHHHHHHHHHHHHHHHHHHHHHHHhc-----cCCcccc
Confidence 9999999 7899973 25778999 445799999999999999999999988766542 5799999
Q ss_pred ccccccccccccccCCCCccccccccccccccccccCCCcccccccccccccccccCCCeEEEEeccchhHHHHHHHhcC
Q 000107 1873 HWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINARDFFIPSQENWILLAADYSQIELRLMAHFSK 1952 (2191)
Q Consensus 1873 ~~~q~gTaTGRlSss~PNLQNiPk~~~~~~~~~~g~~~~~~~~~~~~~iR~~Fi~~~~G~~lvsaDySQIELRilAhlS~ 1952 (2191)
+|+|+||+||||||++|||||||| .+|++|+|+ +||+||++||||||+|||||||+
T Consensus 290 ~~~~~gt~TGRlss~~pnlQniP~-----------------------~iR~~f~a~-~G~~lv~aDysqiElRvlA~ls~ 345 (553)
T PRK14975 290 EYVPGGVVTGRWASRGPNAQQIPR-----------------------DIRSAFVAD-PGWKLVVADASQIELRVLAAYSG 345 (553)
T ss_pred eeeecceeecccccCCCccccCCH-----------------------HHhceEEcC-CCCEEEEechhhhHHHHHHHHcC
Confidence 999999999999999999999996 599999996 99999999999999999999999
Q ss_pred ChHHHHHhcCCCchHHHHHHHHHcCCCCCCCChhhhcccchhhhhhhcCCChhhhhhhcCCCHHHHHHHHHHHHHhChhH
Q 000107 1953 DPALIGLLSKPHGDVFTMIAARWTGRSEDSVGSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGV 2032 (2191)
Q Consensus 1953 D~~Li~af~~~g~Dih~~~Aa~~~g~~~e~Vt~~~R~~AK~i~fGiiYGmG~~~La~~l~is~~eA~~~i~~f~~~yp~v 2032 (2191)
|+.|+++|++ |.|+|+.||+.|||+++++ +++|+.||++|||++||||+++|++++| +.+||+.++++||++||+|
T Consensus 346 D~~l~~~~~~-g~Dih~~~A~~~~~~~~~~--~~~R~~aK~~~~g~~YG~g~~~l~~~~~-~~~ea~~~~~~~~~~~p~v 421 (553)
T PRK14975 346 DERMIEAFRT-GGDLHRLTASVGFGKPEEE--KEERALAKAANFGAIYGATSKGLQEYAK-NYGEAARLLERLRRAYPRA 421 (553)
T ss_pred CHHHHHHHhc-CCCHHHHHHHHHhCCCccc--hhHHHHHHHHHHHhhhCCcHHHHHHHcC-CHHHHHHHHHHHHHHCccH
Confidence 9999999998 8999999999999999888 8999999999999999999999999999 9999999999999999999
Q ss_pred HHHHHHHHHHHHhcCeEEcccCCeeecCcccCCChhhhhhhhhhhhHhhhHHHHHHHHHHHHHHHHHHHHcCCCCCCChh
Q 000107 2033 ASWLHVAVSSCHQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIVGGVYKPDSSL 2112 (2191)
Q Consensus 2033 ~~~~~~~~~~a~~~GyV~Tl~GRrr~lp~i~s~~~~~r~~aeRqAvNt~iQGsAADI~K~Ami~i~~~l~~~~~~~~~~~ 2112 (2191)
++|++.+++.|+++|||+|++||||++|++++.+...++.++|+|+|++||||||||+|.||++++++|..
T Consensus 422 ~~~~~~~~~~a~~~g~v~T~~GR~~~~~~~~~~~~~~~~~~~r~a~N~~iQGsaAdi~k~am~~~~~~l~~--------- 492 (553)
T PRK14975 422 VGWVERAAREGERGGVVRTLLGRTSPPPGFAWRARRRARSRGRFTRNFPVQGTAADWAKLALALLRRRLAE--------- 492 (553)
T ss_pred HHHHHHHHHHHHHCCeEECCCCCeecCCCccccChhHHhHhhhhhcCccchhHHHHHHHHHHHHHHHHHhh---------
Confidence 99999999999999999999999999999999999999999999999999999999999999999998864
Q ss_pred hhhhhccCCceeEEEEecceeeeeeChhhHHHHHHHHHHHHhcccCc---ccceEEEeeccCCccccC
Q 000107 2113 AANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCMESAALL---LVPLLVKIQVGSTWGSLE 2177 (2191)
Q Consensus 2113 ~~~~~~~~~~~~lvlqVHDELv~Evp~~~~~~v~~~vk~~Me~a~~l---~VPL~v~~~iG~sW~~~~ 2177 (2191)
+.+++||+||||||+||||++.+++++++|+++||++..+ .|||+|++++|+||+++|
T Consensus 493 -------~~~~~lvl~vHDEl~~e~~~~~~~~~~~~i~~~M~~a~~~~~~~Vpl~v~~~~g~~w~~~~ 553 (553)
T PRK14975 493 -------GLDAELVFFVHDEVVVECPEEEAEEVAAAIEEAMEEAGRLLFGPVPFPVEVAVVESYAEAK 553 (553)
T ss_pred -------cCCcEEEEEecceeEEEecHHHHHHHHHHHHHHHHHHHhccCCCccEEEecCccCCHhhcC
Confidence 2467999999999999999999999999999999999876 499999999999999986
No 6
>PRK02362 ski2-like helicase; Provisional
Probab=100.00 E-value=3.8e-85 Score=881.82 Aligned_cols=689 Identities=30% Similarity=0.461 Sum_probs=557.7
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHH
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAE 588 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~ 588 (2191)
||+.+.+.|++.||.+|||||.+|++. ++.+|+|++++||||||||++|++++++.+. .++++|||+|+++||.|+++
T Consensus 8 lp~~~~~~l~~~g~~~l~p~Q~~ai~~-~~~~g~nvlv~APTGSGKTlia~lail~~l~-~~~kal~i~P~raLa~q~~~ 85 (737)
T PRK02362 8 LPEGVIEFYEAEGIEELYPPQAEAVEA-GLLDGKNLLAAIPTASGKTLIAELAMLKAIA-RGGKALYIVPLRALASEKFE 85 (737)
T ss_pred CCHHHHHHHHhCCCCcCCHHHHHHHHH-HHhCCCcEEEECCCcchHHHHHHHHHHHHHh-cCCcEEEEeChHHHHHHHHH
Confidence 789999999999999999999999974 4788999999999999999999999999886 57899999999999999999
Q ss_pred HHHHHhhccCCeEEEEeccCCCCC-CCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHH
Q 000107 589 HLEVLLEPLGRHVRSYYGNQGGGS-LPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLL 667 (2191)
Q Consensus 589 ~l~~l~~~lg~~V~~~~G~~~~~~-l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL 667 (2191)
.|+.+ ..+|++|..++|+..... .....+|+|||||+++.++++ ...+++++++|||||+|++++.+||+.+|.++
T Consensus 86 ~~~~~-~~~g~~v~~~tGd~~~~~~~l~~~~IiV~Tpek~~~llr~--~~~~l~~v~lvViDE~H~l~d~~rg~~le~il 162 (737)
T PRK02362 86 EFERF-EELGVRVGISTGDYDSRDEWLGDNDIIVATSEKVDSLLRN--GAPWLDDITCVVVDEVHLIDSANRGPTLEVTL 162 (737)
T ss_pred HHHHh-hcCCCEEEEEeCCcCccccccCCCCEEEECHHHHHHHHhc--ChhhhhhcCEEEEECccccCCCcchHHHHHHH
Confidence 99874 456899999999864321 234579999999999999986 44578999999999999999999999999999
Q ss_pred HHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhccccccccccccceEEEEeccccccch
Q 000107 668 TKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQAALYETNFRPVPLEEYIKVGNAIYSKK 747 (2191)
Q Consensus 668 ~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a~l~~~~~RpvpL~e~i~~~~~~~~~~ 747 (2191)
++++++. +.+|+|+||||++|++++++|+++.++...+||+++..++..........
T Consensus 163 ~rl~~~~-----------------------~~~qii~lSATl~n~~~la~wl~~~~~~~~~rpv~l~~~v~~~~~~~~~~ 219 (737)
T PRK02362 163 AKLRRLN-----------------------PDLQVVALSATIGNADELADWLDAELVDSEWRPIDLREGVFYGGAIHFDD 219 (737)
T ss_pred HHHHhcC-----------------------CCCcEEEEcccCCCHHHHHHHhCCCcccCCCCCCCCeeeEecCCeecccc
Confidence 9998752 45899999999999999999999999999999999998776443322111
Q ss_pred hhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHh
Q 000107 748 MDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDAL 827 (2191)
Q Consensus 748 ~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L 827 (2191)
.. ........+....++.+.+..++++||||+|++.|+.+|..|...+..... ..+...+....+.+
T Consensus 220 ~~--------~~~~~~~~~~~~~~~~~~~~~~~~~LVF~~sr~~~~~~a~~L~~~~~~~~~-----~~~~~~~~~~~~~l 286 (737)
T PRK02362 220 SQ--------REVEVPSKDDTLNLVLDTLEEGGQCLVFVSSRRNAEGFAKRAASALKKTLT-----AAERAELAELAEEI 286 (737)
T ss_pred cc--------ccCCCccchHHHHHHHHHHHcCCCeEEEEeCHHHHHHHHHHHHHHhhhcCC-----HHHHHHHHHHHHHH
Confidence 00 000111123455666666777899999999999999999999876542110 11222333444455
Q ss_pred hcC-CCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeec-----CCCCCcc
Q 000107 828 RRC-PAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQ-----PRIGRDF 901 (2191)
Q Consensus 828 ~~~-~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~-----p~~g~~~ 901 (2191)
... ....+..|.+++.+||++|||||++++|+.|++.|++|.++|||||+++++|||+|+++|||+. +..|..+
T Consensus 287 ~~~~~~~~~~~L~~~l~~gva~hHagl~~~eR~~ve~~Fr~G~i~VLvaT~tla~GvnlPa~~VVI~~~~~yd~~~g~~~ 366 (737)
T PRK02362 287 REVSDTETSKDLADCVAKGAAFHHAGLSREHRELVEDAFRDRLIKVISSTPTLAAGLNLPARRVIIRDYRRYDGGAGMQP 366 (737)
T ss_pred HhccCccccHHHHHHHHhCEEeecCCCCHHHHHHHHHHHHcCCCeEEEechhhhhhcCCCceEEEEecceeecCCCCcee
Confidence 332 2335789999999999999999999999999999999999999999999999999999999974 2234567
Q ss_pred cCcccccccccccCCCCCCCceEEEEEeChh-hH-HHHHhhhccCCCCcccccccccchhhHHHHHHHhcccccCHHHHH
Q 000107 902 IDGTRYRQMAGRAGRTGIDTKGESMLICKPE-EV-KKIMGLLNESCPPLHSCLSEDKNGMTHAILEVVAGGIVQTAEDIH 979 (2191)
Q Consensus 902 is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~-e~-~~~~~ll~~~l~~l~S~L~~~~~~l~~~iLeiia~gi~~t~~di~ 979 (2191)
++..+|+||+|||||+|+|..|+||++|.+. +. +.+..++....++++|+|..+ ..+...++..|+.|.+.+.+|+.
T Consensus 367 ~s~~~y~Qm~GRAGR~g~d~~G~~ii~~~~~~~~~~~~~~~l~~~~~~i~S~l~~~-~~l~~~lla~I~~~~~~~~~d~~ 445 (737)
T PRK02362 367 IPVLEYHQMAGRAGRPGLDPYGEAVLLAKSYDELDELFERYIWADPEDVRSKLATE-PALRTHVLSTIASGFARTRDGLL 445 (737)
T ss_pred CCHHHHHHHhhcCCCCCCCCCceEEEEecCchhHHHHHHHHHhCCCCceeecCCCh-hhHHHHHHHHHHhCccCCHHHHH
Confidence 8999999999999999999999999999874 33 345678877788999999643 35777899999999999999999
Q ss_pred HHHHhhhcCCCCcch-hHHHHHHHHHHHHHHcccceeccCCCccCCCHHHHHHHhcCCChhhHHHHHHHHhhhccccccc
Q 000107 980 RYVRCTLLNSTKPFQ-DVVKSAQDSLRWLCHRKFLEWNEDTKLYSTTPLGRAAFGSSLCPEESLIVLDDLSRAREGFVLA 1058 (2191)
Q Consensus 980 ~~l~~tll~~~~~~~-~~~~~~~~al~~L~~~~~i~~~~~~~~~~~T~LG~a~~~s~L~p~~a~~l~~~L~~a~~~~vl~ 1058 (2191)
+|+.+||++.+.... ...+.+..+|++|.+.|||+.+. +.+.+|++|++++.++|+|.++..+.+.|+.... .
T Consensus 446 ~~l~~Tf~~~~~~~~~~l~~~v~~~l~~L~~~~~i~~~~--~~~~~t~lG~~~s~~~l~~~t~~~~~~~l~~~~~----~ 519 (737)
T PRK02362 446 EFLEATFYATQTDDTGRLERVVDDVLDFLERNGMIEEDG--ETLEATELGHLVSRLYIDPLSAAEIIDGLEAAKK----P 519 (737)
T ss_pred HHHHhChHHhhccchHHHHHHHHHHHHHHHHCCCeeecC--CeEeEChHHHHHHHhcCCHHHHHHHHHHhhhccc----C
Confidence 999999999876533 34466889999999999998643 3589999999999999999999999999987654 2
Q ss_pred CccceeeeeccCCCCCCCcHHHHHHHHHhhhhhhhhhhcccCCCHHHHHHHhcCCCccccccccccccCccchhhhhhcc
Q 000107 1059 SDLHLVYLSTPINVEVEPDWELYYERFLELSALDQSVGNQVGVSEPYLMRMAHGAPMRISSKLRDSTKGLHGKLEYRLGI 1138 (2191)
Q Consensus 1059 ~dlhllylvtp~~~~~~~dw~~~~~~~~~l~~~~~~v~~~~Gv~e~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1138 (2191)
++.++||+++.. ++|..++.+..+.+.+.+ ++.. +...+. . .++.++.
T Consensus 520 ~~~~~l~~i~~~-----~e~~~~~~r~~e~~~l~~-----------~~~~--~~~~~~--~-------~~p~~~~----- 567 (737)
T PRK02362 520 TDLGLLHLVCST-----PDMYELYLRSGDYEWLNE-----------YLYE--HEDELL--G-------DVPSEFE----- 567 (737)
T ss_pred chHHHHHHhhcC-----ccccccccChhHHHHHHH-----------HHHh--cccchh--c-------cCCchhh-----
Confidence 678899988764 676666554443322221 1100 000000 0 0000000
Q ss_pred ccCCCcchhHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHhCCCcchHHHHHHHHHHHHHHHHHHHHHhCchhHHHHHHHH
Q 000107 1139 TSNNMLSDAQTLRVCKRFYVALILSRLVQETPVLEVCETFKVARGMVQALQENAGRFASMVSVFCERLGWYDLEGLIAKF 1218 (2191)
Q Consensus 1139 ~~~~~~~~~~~~~~~~rfy~al~L~dli~e~~~~~i~~~y~v~rG~lq~l~~~a~~~a~~v~~fc~~lg~~~~~~ll~~~ 1218 (2191)
.. .....+.+|++|++|++||+|+|+.+|+++||+.+|+||+++++|.|+++++..||+.++ +.++.++..|
T Consensus 568 ----~~---~~~~~~~~~k~~~ll~~~i~~~~~~~i~~~~~~~~gdl~~~~~~~~~l~~a~~~i~~~~~-~~~~~~~~~l 639 (737)
T PRK02362 568 ----DD---EFEDFLSAVKTALLLEDWIDEVDEERITERYGVGPGDIRGKVETAEWLLHAAERLASELD-LDLARAAREL 639 (737)
T ss_pred ----hh---hHHHHHHHHHHHHHHHHHHhCCCHHHHHHHhCCCchHHHHHHHHHHHHHHHHHHHHHHhC-ccHHHHHHHH
Confidence 00 111234688999999999999999999999999999999999999999999999999876 5788999999
Q ss_pred HHHHhccCchhhhhhcCCCCCCHHHHHHHHHcCCCCHHHHHcCCHHHHHHHHhhcchhHHHHHhhhhHHHHHHHHHHHHH
Q 000107 1219 QNRVSFGVRAEIVELTTIPYVKGSRARALYKAGLRTPLAIAEASISEIVKALFESSSWIAEAQRRVQLGVAKKIKNGARK 1298 (2191)
Q Consensus 1219 ~~RL~~Gv~~ELl~L~~ip~v~~~RAR~Ly~aG~~t~~~la~a~~~~l~~~l~~~~~~~~~~~~~~~~~~A~~I~~~A~~ 1298 (2191)
++||.|||++|++||++||||++.|||+||++||+|+.||+.+++++|++++ +.++|.+|+++++.
T Consensus 640 ~~~l~~gv~~~~~~L~~ip~i~~~~a~~l~~~gi~s~~dl~~~~~~~l~~~~--------------g~~~~~~i~~~~~~ 705 (737)
T PRK02362 640 EKRVEYGVREELLDLVGLRGVGRVRARRLYNAGIESRADLRAADKSVVLAIL--------------GEKIAENILEQAGR 705 (737)
T ss_pred HHHHHhCCCHHHHHHhCCCCCCHHHHHHHHHcCCCCHHHHHhCCHHHHHHHH--------------CHHHHHHHHHHhCc
Confidence 9999999999999999999999999999999999999999999999999983 45789999998764
Q ss_pred H
Q 000107 1299 I 1299 (2191)
Q Consensus 1299 l 1299 (2191)
.
T Consensus 706 ~ 706 (737)
T PRK02362 706 R 706 (737)
T ss_pred c
Confidence 3
No 7
>cd08637 DNA_pol_A_pol_I_C Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication. Family A polymerase (polymerase I) functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication. DNA-dependent DNA polymerases can be classified in six main groups based upon phylogenetic relationships with E. coli polymerase I (classA), E. coli polymerase II (class B), E.coli polymerase III (class C), euryarchaaeota polymerase II (class D), human polymerase beta (class x), E. coli UmuC/DinB and eukaryotic RAP 30/Xeroderma pigmentosum variant (class Y). Family A polymerase are found primarily in organisms related to prokaryotes and include prokaryotic DNA polymerase I (pol I) ,mitochondrial polymerase delta, and several bacteriphage polymerases including those from odd-numbered phage (T3, T5, and T7). Prokaryotic Pol Is have two functional domains located on the same polypeptide; a 5'-3' polymerase and 5'-3' exonuc
Probab=100.00 E-value=2.8e-85 Score=812.26 Aligned_cols=377 Identities=41% Similarity=0.608 Sum_probs=357.6
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHhCCcCCCCCHHHHHHHHHHhcCCCCCCCCCCCCCCCCCcHHHHHHhhhcCCcHH
Q 000107 1757 DMEGCLQARNLLQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHLKLPIPEGHNKGKQHPSTDKHCLDLLRHEHPIVP 1836 (2191)
Q Consensus 1757 D~~~l~~~~~~l~~~l~~le~~i~~l~G~~fnl~S~~ql~~vLf~~l~lp~~~~~~k~k~~~ST~~~vL~~L~~~hpi~~ 1836 (2191)
|.++|+++.+++.++++++++++++++|..||++||+||+++||++||||+++ +++.+.+|++++|+.|.+.||+++
T Consensus 1 d~~~l~~~~~~~~~~~~~l~~~~~~l~g~~fn~~S~~qv~~~L~~~lgl~~~~---~t~~~~~t~~~~L~~l~~~~p~~~ 77 (377)
T cd08637 1 DTEYLEELSEELEKELAELEEEIYELAGEEFNINSPKQLGEVLFEKLGLPVGK---KTKTGYSTDAEVLEKLADEHPIVE 77 (377)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHhCCCCCCC---cCCCCCCchHHHHHhhhhcChHHH
Confidence 78999999999999999999999999999999999999999999999999764 344456899999999999999999
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHhhhhcCCCceeeccccccccccccccccCCCCccccccccccccccccccCCCccccc
Q 000107 1837 VIKEHRTLAKLLNCTLGSICSLARISMSTQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDH 1916 (2191)
Q Consensus 1837 ~ile~R~l~Kllsty~~~l~~~~~~~~~~~~grih~~~~q~gTaTGRlSss~PNLQNiPk~~~~~~~~~~g~~~~~~~~~ 1916 (2191)
+|+|||++.|+++||++++.+++. ..|||||++|+|+||+||||||++|||||||+. +..|+
T Consensus 78 ~lle~r~l~k~~~t~~~~l~~~~~----~~dgrih~~~~~~gt~TGRlS~~~PNlQniP~~------~~~~~-------- 139 (377)
T cd08637 78 LILEYRELTKLKSTYVDALPKLIN----PKTGRIHTSFNQTVTATGRLSSSDPNLQNIPIR------TEEGR-------- 139 (377)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcC----CCCCceeeeeeeccccccchhcccCccccCCCC------ccchH--------
Confidence 999999999999999999877653 248999999999999999999999999999962 22343
Q ss_pred ccccccccccccCCCeEEEEeccchhHHHHHHHhcCChHHHHHhcCCCchHHHHHHHHHcCCCCCCCChhhhcccchhhh
Q 000107 1917 CKINARDFFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDSVGSQERDQTKRLIY 1996 (2191)
Q Consensus 1917 ~~~~iR~~Fi~~~~G~~lvsaDySQIELRilAhlS~D~~Li~af~~~g~Dih~~~Aa~~~g~~~e~Vt~~~R~~AK~i~f 1996 (2191)
.+|++|+|+ +||+||++||||||||||||||+|+.|+++|++ |.|+|+.+|+.|+|+|+++|++++|+.||+++|
T Consensus 140 ---~~R~~f~~~-~G~~lv~aDysqiElRilA~ls~D~~l~~~~~~-g~Dih~~~A~~~~g~~~~~v~~~~R~~aK~~~~ 214 (377)
T cd08637 140 ---EIRKAFVAE-EGWVLLSADYSQIELRILAHLSGDEALIEAFKN-GEDIHTRTAAEVFGVPPEEVTPEMRRIAKAVNF 214 (377)
T ss_pred ---hHHHheeCC-CCCEEEEechhHhHHHHHHHHhCCHHHHHHHhc-CCCHHHHHHHHHhCCChhhCCHHHHhhhhHhhc
Confidence 799999997 899999999999999999999999999999998 899999999999999999999999999999999
Q ss_pred hhhcCCChhhhhhhcCCCHHHHHHHHHHHHHhChhHHHHHHHHHHHHHhcCeEEcccCCeeecCcccCCChhhhhhhhhh
Q 000107 1997 GILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSSCHQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQ 2076 (2191)
Q Consensus 1997 GiiYGmG~~~La~~l~is~~eA~~~i~~f~~~yp~v~~~~~~~~~~a~~~GyV~Tl~GRrr~lp~i~s~~~~~r~~aeRq 2076 (2191)
|++||||+++||+++|+|.+||++++++||++||+|++|++++++.|+++|||+|++||||++|++++.+...++.++|+
T Consensus 215 g~~YG~g~~~la~~lg~s~~eA~~~~~~f~~~~p~v~~~~~~~~~~a~~~g~v~t~~GRrr~~~~~~~~~~~~r~~~~r~ 294 (377)
T cd08637 215 GIIYGISAFGLSQQLGISRKEAKEYIDRYFARYPGVKEYMEETVEEAREKGYVETLFGRRRYIPEINSKNRNVRAFAERI 294 (377)
T ss_pred chhcCcchhHHHHHcCCCHHHHHHHHHHHHHHCccHHHHHHHHHHHHHHcCcEEccCCCEEeCCcccCCcHHHhhHHHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHhhhHHHHHHHHHHHHHHHHHHHHcCCCCCCChhhhhhhccCCceeEEEEecceeeeeeChhhHHHHHHHHHHHHhcc
Q 000107 2077 AVNSICQGSAADIIKIAMINIHSIIVGGVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCMESA 2156 (2191)
Q Consensus 2077 AvNt~iQGsAADI~K~Ami~i~~~l~~~~~~~~~~~~~~~~~~~~~~~lvlqVHDELv~Evp~~~~~~v~~~vk~~Me~a 2156 (2191)
|+|++||||||||+|.||+++++.|... +.+++|++||||||+||||++.+++++++|+++|+++
T Consensus 295 a~N~~iQGsaAdi~k~am~~~~~~l~~~---------------~~~~~lvl~vHDEl~~ev~~~~~~~~~~~l~~~M~~~ 359 (377)
T cd08637 295 AINTPIQGTAADIIKLAMIRVHKALKEE---------------GLKARMLLQVHDELVFEVPEEELEEVAALVKEEMENA 359 (377)
T ss_pred HhcccchhHHHHHHHHHHHHHHHHHHhc---------------CCCeEEEeeEeeeeeEecCHHHHHHHHHHHHHHHhhc
Confidence 9999999999999999999999999874 4578999999999999999999999999999999999
Q ss_pred cCcccceEEEeeccCCcc
Q 000107 2157 ALLLVPLLVKIQVGSTWG 2174 (2191)
Q Consensus 2157 ~~l~VPL~v~~~iG~sW~ 2174 (2191)
..+.|||.|+++||+|||
T Consensus 360 ~~l~VPl~v~~~ig~~W~ 377 (377)
T cd08637 360 VELSVPLKVDVGVGKNWG 377 (377)
T ss_pred ccCCCcEEEecccCCCCC
Confidence 999999999999999997
No 8
>PRK01172 ski2-like helicase; Provisional
Probab=100.00 E-value=2.3e-81 Score=839.99 Aligned_cols=657 Identities=28% Similarity=0.415 Sum_probs=536.7
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHH
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAE 588 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~ 588 (2191)
||+.+.+.+.+.||. |++||.+|++. +.+++|++++||||||||++|++++++.+.. ++++||++|+++||.|+++
T Consensus 8 l~~~~~~~~~~~~~~-l~~~Q~~ai~~--l~~~~nvlv~apTGSGKTl~a~lail~~l~~-~~k~v~i~P~raLa~q~~~ 83 (674)
T PRK01172 8 YDDEFLNLFTGNDFE-LYDHQRMAIEQ--LRKGENVIVSVPTAAGKTLIAYSAIYETFLA-GLKSIYIVPLRSLAMEKYE 83 (674)
T ss_pred CCHHHHHHHhhCCCC-CCHHHHHHHHH--HhcCCcEEEECCCCchHHHHHHHHHHHHHHh-CCcEEEEechHHHHHHHHH
Confidence 889999999999996 99999999987 8999999999999999999999999988764 7789999999999999999
Q ss_pred HHHHHhhccCCeEEEEeccCCCC-CCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHH
Q 000107 589 HLEVLLEPLGRHVRSYYGNQGGG-SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLL 667 (2191)
Q Consensus 589 ~l~~l~~~lg~~V~~~~G~~~~~-~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL 667 (2191)
+|.++ ..+|.+|...+|+.... ......+|+|+|||+++.+++++ ..+++++++|||||+|++++.+||..++.++
T Consensus 84 ~~~~l-~~~g~~v~~~~G~~~~~~~~~~~~dIiv~Tpek~~~l~~~~--~~~l~~v~lvViDEaH~l~d~~rg~~le~ll 160 (674)
T PRK01172 84 ELSRL-RSLGMRVKISIGDYDDPPDFIKRYDVVILTSEKADSLIHHD--PYIINDVGLIVADEIHIIGDEDRGPTLETVL 160 (674)
T ss_pred HHHHH-hhcCCeEEEEeCCCCCChhhhccCCEEEECHHHHHHHHhCC--hhHHhhcCEEEEecchhccCCCccHHHHHHH
Confidence 99875 46789998888876432 12346799999999999999873 3468899999999999999999999999999
Q ss_pred HHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhccccccccccccceEEEEeccccccch
Q 000107 668 TKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQAALYETNFRPVPLEEYIKVGNAIYSKK 747 (2191)
Q Consensus 668 ~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a~l~~~~~RpvpL~e~i~~~~~~~~~~ 747 (2191)
.++++. .+++|+|+||||++|..++++|+++..+...+||+|++..+......+...
T Consensus 161 ~~~~~~-----------------------~~~~riI~lSATl~n~~~la~wl~~~~~~~~~r~vpl~~~i~~~~~~~~~~ 217 (674)
T PRK01172 161 SSARYV-----------------------NPDARILALSATVSNANELAQWLNASLIKSNFRPVPLKLGILYRKRLILDG 217 (674)
T ss_pred HHHHhc-----------------------CcCCcEEEEeCccCCHHHHHHHhCCCccCCCCCCCCeEEEEEecCeeeecc
Confidence 998765 246899999999999999999999999999999999987665433222110
Q ss_pred hhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHh
Q 000107 748 MDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDAL 827 (2191)
Q Consensus 748 ~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L 827 (2191)
. ......+..++.+....++++||||+|++.|+.+|..|.+.+....... . .
T Consensus 218 ~-------------~~~~~~~~~~i~~~~~~~~~vLVF~~sr~~~~~~a~~L~~~~~~~~~~~---------~------~ 269 (674)
T PRK01172 218 Y-------------ERSQVDINSLIKETVNDGGQVLVFVSSRKNAEDYAEMLIQHFPEFNDFK---------V------S 269 (674)
T ss_pred c-------------ccccccHHHHHHHHHhCCCcEEEEeccHHHHHHHHHHHHHhhhhccccc---------c------c
Confidence 0 0011124456666667789999999999999999999987654321000 0 0
Q ss_pred hcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecC-C---CCCcccC
Q 000107 828 RRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQP-R---IGRDFID 903 (2191)
Q Consensus 828 ~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p-~---~g~~~is 903 (2191)
.......+..|.+++++||++|||||+.++|..|++.|++|.++|||||+++++|||+|+++|||+.. + .+..+++
T Consensus 270 ~~~~~~~~~~L~~~l~~gv~~~hagl~~~eR~~ve~~f~~g~i~VLvaT~~la~Gvnipa~~VII~~~~~~~~~~~~~~s 349 (674)
T PRK01172 270 SENNNVYDDSLNEMLPHGVAFHHAGLSNEQRRFIEEMFRNRYIKVIVATPTLAAGVNLPARLVIVRDITRYGNGGIRYLS 349 (674)
T ss_pred ccccccccHHHHHHHhcCEEEecCCCCHHHHHHHHHHHHcCCCeEEEecchhhccCCCcceEEEEcCceEeCCCCceeCC
Confidence 01123347789999999999999999999999999999999999999999999999999999998642 1 2345689
Q ss_pred cccccccccccCCCCCCCceEEEEEeChhh-HHHHHhhhccCCCCcccccccccchhhHHHHHHHhcccccCHHHHHHHH
Q 000107 904 GTRYRQMAGRAGRTGIDTKGESMLICKPEE-VKKIMGLLNESCPPLHSCLSEDKNGMTHAILEVVAGGIVQTAEDIHRYV 982 (2191)
Q Consensus 904 ~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e-~~~~~~ll~~~l~~l~S~L~~~~~~l~~~iLeiia~gi~~t~~di~~~l 982 (2191)
..+|.||+|||||.|+|..|.+++++...+ ...+.+++....+|++|+|..... +...+|..|+.|.+.+.+|+.+|+
T Consensus 350 ~~~~~Qm~GRAGR~g~d~~g~~~i~~~~~~~~~~~~~~l~~~~~pi~S~l~~~~~-~~~~~l~~i~~g~~~~~~d~~~~l 428 (674)
T PRK01172 350 NMEIKQMIGRAGRPGYDQYGIGYIYAASPASYDAAKKYLSGEPEPVISYMGSQRK-VRFNTLAAISMGLASSMEDLILFY 428 (674)
T ss_pred HHHHHHHhhcCCCCCCCCcceEEEEecCcccHHHHHHHHcCCCCceeecCCCccc-HHHHHHHHHHhcccCCHHHHHHHH
Confidence 999999999999999999999999987644 677888897778899999975433 334478899999999999999999
Q ss_pred HhhhcCCCCcchhHHHHHHHHHHHHHHcccceeccCCCccCCCHHHHHHHhcCCChhhHHHHHHHHhhhcccccccCccc
Q 000107 983 RCTLLNSTKPFQDVVKSAQDSLRWLCHRKFLEWNEDTKLYSTTPLGRAAFGSSLCPEESLIVLDDLSRAREGFVLASDLH 1062 (2191)
Q Consensus 983 ~~tll~~~~~~~~~~~~~~~al~~L~~~~~i~~~~~~~~~~~T~LG~a~~~s~L~p~~a~~l~~~L~~a~~~~vl~~dlh 1062 (2191)
.+||++.+.+.....+.++.++++|.+.|||+.+ ..+.+|++|++++.+||+|.++..+.+.|+... ++.+
T Consensus 429 ~~tf~~~~~~~~~l~~~v~~~l~~L~~~~~i~~~---~~~~~t~lG~~~s~~~l~~~t~~~~~~~l~~~~------~~~~ 499 (674)
T PRK01172 429 NETLMAIQNGVDEIDYYIESSLKFLKENGFIKGD---VTLRATRLGKLTSDLYIDPESALILKSAFDHDY------DEDL 499 (674)
T ss_pred HhhhhHhcCchHHHHHHHHHHHHHHHHCCCcccC---CcEeECHHHHHHHHhCCCHHHHHHHHHHhhccC------CHHH
Confidence 9999988765444567789999999999999732 247899999999999999999999999997653 4456
Q ss_pred eeeeeccCCCCCCCcHHHHHHHHHhhhhhhhhhhcccCCCHHHHHHHhcCCCccccccccccccCccchhhhhhccccCC
Q 000107 1063 LVYLSTPINVEVEPDWELYYERFLELSALDQSVGNQVGVSEPYLMRMAHGAPMRISSKLRDSTKGLHGKLEYRLGITSNN 1142 (2191)
Q Consensus 1063 llylvtp~~~~~~~dw~~~~~~~~~l~~~~~~v~~~~Gv~e~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1142 (2191)
+|++++.. +++... +..+. ..+.+.+...+. .
T Consensus 500 ~l~~~~~~-----~e~~~~--~~~~~---------------~~~~~~~~~~~~----------------~---------- 531 (674)
T PRK01172 500 ALYYISLC-----REIIPA--NTRDD---------------YYAMEFLEDIGV----------------I---------- 531 (674)
T ss_pred HHHHhhcC-----cccccc--ccchH---------------HHHHHHHHHhcc----------------c----------
Confidence 66666543 232000 00000 111111110000 0
Q ss_pred CcchhHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHhCCCcchHHHHHHHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHH
Q 000107 1143 MLSDAQTLRVCKRFYVALILSRLVQETPVLEVCETFKVARGMVQALQENAGRFASMVSVFCERLGWYDLEGLIAKFQNRV 1222 (2191)
Q Consensus 1143 ~~~~~~~~~~~~rfy~al~L~dli~e~~~~~i~~~y~v~rG~lq~l~~~a~~~a~~v~~fc~~lg~~~~~~ll~~~~~RL 1222 (2191)
+ .. ..+++++++|++|++|++++.|+++|++.+|+||+++++++|+++++.+||+.+ +..+..+|..|+.||
T Consensus 532 ---~-~~---~~~~k~~~ll~~~~~~~~~~~i~~~~~~~~g~l~~~~~~~~~~~~a~~~~~~~~-~~~~~~~l~~~~~rl 603 (674)
T PRK01172 532 ---D-GD---ISAAKTAMVLRGWISEASMQKITDTYGIAPGDVQARASSADWISYSLARLSSIY-KPEMRRKLEILNIRI 603 (674)
T ss_pred ---c-ch---hHHHHHHHHHHHHHcCCCHHHHHHHhCCChHHHHHHHHHHHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH
Confidence 0 01 136889999999999999999999999999999999999999999999999875 578899999999999
Q ss_pred hccCchhhhhhcCCCCCCHHHHHHHHHcCCCCHHHHHcCCHHHHHHHHhhcchhHHHHHhhhhHHHHHHHHHHHHHHHH
Q 000107 1223 SFGVRAEIVELTTIPYVKGSRARALYKAGLRTPLAIAEASISEIVKALFESSSWIAEAQRRVQLGVAKKIKNGARKIVL 1301 (2191)
Q Consensus 1223 ~~Gv~~ELl~L~~ip~v~~~RAR~Ly~aG~~t~~~la~a~~~~l~~~l~~~~~~~~~~~~~~~~~~A~~I~~~A~~l~~ 1301 (2191)
.|||++|++|||+||||++.|||+||++||+|+.||++++++++.+++ +++.++|++|+++|++++.
T Consensus 604 ~~gv~~~~~~L~~ip~~~~~~a~~l~~~g~~~~~di~~~~~~~~~~i~------------~~~~~~~~~i~~~~~~~~~ 670 (674)
T PRK01172 604 KEGIREDLIDLVLIPKVGRVRARRLYDAGFKTVDDIARSSPERIKKIY------------GFSDTLANAIVNRAMKISS 670 (674)
T ss_pred HcCCCHHHHhhcCCCCCCHHHHHHHHHcCCCCHHHHHhCCHHHHHHHh------------ccCHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999985 4677899999999999973
No 9
>PF00476 DNA_pol_A: DNA polymerase family A; InterPro: IPR001098 Synonym(s): DNA nucleotidyltransferase (DNA-directed) DNA-directed DNA polymerases(2.7.7.7 from EC) are the key enzymes catalysing the accurate replication of DNA. They require either a small RNA molecule or a protein as a primer for the de novo synthesis of a DNA chain. A number of polymerases belong to this family [, , ].; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication; PDB: 1TKD_A 1TK5_A 2AJQ_F 1T8E_A 1T7P_A 1SKR_A 1X9W_A 1TK8_A 1TK0_A 1SL2_A ....
Probab=100.00 E-value=6.2e-83 Score=797.23 Aligned_cols=382 Identities=40% Similarity=0.603 Sum_probs=355.4
Q ss_pred cCHHHHHHHHHHHHHHHHHHHHHHHHHhCCcCCCCCHHHHHHHHHHhcCCCCCCCCCCCCCCCCCcHHHHHHhhh-cCCc
Q 000107 1756 VDMEGCLQARNLLQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHLKLPIPEGHNKGKQHPSTDKHCLDLLRH-EHPI 1834 (2191)
Q Consensus 1756 vD~~~l~~~~~~l~~~l~~le~~i~~l~G~~fnl~S~~ql~~vLf~~l~lp~~~~~~k~k~~~ST~~~vL~~L~~-~hpi 1834 (2191)
||.++|+.+..++..++++++.+++++.|.+||++||+|++++||+++|+|+.+.+ +.++++||++++|++|.. .||+
T Consensus 1 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~g~~fN~~S~~q~~~~L~~~lgl~~~~~t-~~~g~~st~~~~L~~l~~~~~~~ 79 (383)
T PF00476_consen 1 VDREYLEQQSEELDAKLRELEAKAYKLAGEEFNPNSPKQLAEVLFEELGLPPTKKT-KKKGKPSTDKEVLKKLAEDAHPI 79 (383)
T ss_dssp ETHHHHHHHHHHHHHHHHHHHHHHHHHHTSCSSTTTHHHHHHHHHTTSSSTTSSBE-TTCSEBHCTHHHHHHHCCCCHTH
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHhHHhcCCccCCCCHHHHHHHHHHcCCCCCCCCC-cccchhhhHHHHHHHhhhhhhhh
Confidence 79999999999999999999999999999999999999999999999999965432 223679999999999998 8999
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHhhhhcCCCceeeccccccccccccccccCCCCccccccccccccccccccCCCccc
Q 000107 1835 VPVIKEHRTLAKLLNCTLGSICSLARISMSTQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEV 1914 (2191)
Q Consensus 1835 ~~~ile~R~l~Kllsty~~~l~~~~~~~~~~~~grih~~~~q~gTaTGRlSss~PNLQNiPk~~~~~~~~~~g~~~~~~~ 1914 (2191)
+.++++||++.|+.++|++.+...+. ..||||||+|+|+||+|||+||++|||||||+.. ..|.
T Consensus 80 ~~~~l~~r~~~kl~~~~~~~~~~~~~----~~dgrih~~~~~~gt~TGRls~~~PNlQniP~~~------~~~~------ 143 (383)
T PF00476_consen 80 AKLLLEYRKLSKLRSTYIDNLLDKVD----PEDGRIHPSFNQTGTATGRLSSSNPNLQNIPKRD------PYGK------ 143 (383)
T ss_dssp HHHHHHHHHHHHHHHHTTHHHHHHSB----TTTTEE--EEESSSSSSS--EEESSCTSSSSSSS------HHHH------
T ss_pred HHHHHHHHHHHHHHhhhhhHHHHhcc----ccCCeecceeeecccccCCceeechhhhcccccc------ccCc------
Confidence 99999999999999999998865442 4689999999999999999999999999999732 2333
Q ss_pred ccccccccccccccCCCeEEEEeccchhHHHHHHHhcCChHHHHHhcCCCchHHHHHHHHHcCCCCCCCChhhhcccchh
Q 000107 1915 DHCKINARDFFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDSVGSQERDQTKRL 1994 (2191)
Q Consensus 1915 ~~~~~~iR~~Fi~~~~G~~lvsaDySQIELRilAhlS~D~~Li~af~~~g~Dih~~~Aa~~~g~~~e~Vt~~~R~~AK~i 1994 (2191)
.+|++|+|+ +||+||++||||||||||||||+|+.|+++|.+ |.|+|+.+|+.|||++.++|++++|+.||++
T Consensus 144 -----~~R~~f~a~-~G~~lv~aD~sqiElRvlA~ls~D~~l~~~~~~-g~D~h~~~a~~~~~~~~~~v~~~~R~~aK~~ 216 (383)
T PF00476_consen 144 -----EIRSAFVAP-PGYVLVSADYSQIELRVLAHLSGDENLIEAFRN-GEDIHTETASDIFGKPYEEVTKEERQKAKTV 216 (383)
T ss_dssp -----GGGGGEEGS-STEEEEEEEESSHHHHHHHHHHTHHHHHHHHHT-TCCHHHHHHHHHTTCHGGGTTHHHHHHHHHH
T ss_pred -----ccceeEecC-ccceeeeeehhhhhHHHHHHhcccHHHHHhhcc-cccHHHHHHHHhcCCCccccchhhHHHHhHH
Confidence 799999997 999999999999999999999999999999998 8999999999999999999999999999999
Q ss_pred hhhhhcCCChhhhhhhcCCCHHHHHHHHHHHHHhChhHHHHHHHHHHHHHhcCeEEcccCCeeecCcccCCChhhhhhhh
Q 000107 1995 IYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSSCHQKGYVESLKGRKRFLSKIKFGNNKEKSKAQ 2074 (2191)
Q Consensus 1995 ~fGiiYGmG~~~La~~l~is~~eA~~~i~~f~~~yp~v~~~~~~~~~~a~~~GyV~Tl~GRrr~lp~i~s~~~~~r~~ae 2074 (2191)
|||++||||+++||+.+|+|.+||++++++||++||+|++|++++.+.|+++|||+|++||||++|++++.+...++.++
T Consensus 217 ~~g~~YG~g~~~la~~l~~s~~eA~~~~~~f~~~~p~v~~~~~~~~~~a~~~g~v~t~~gr~r~~p~~~~~~~~~~~~~~ 296 (383)
T PF00476_consen 217 NFGLIYGMGAKGLAEQLGISEEEAKELIDAFFEAFPGVKKWMERVKKRARENGYVETLFGRRRYLPNIDSRNKSLRASAE 296 (383)
T ss_dssp HHHHHTT-THHHHHHHHTSCHHHHHHHHHHHHHHSHHHHHHHHHHHHHHHHHSEEECTTSSEEECGGGGSSSHHHHHHHH
T ss_pred HHhhhhccCHHHHHHHccCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHhcCCeEEEeccccccCCchhcccchhhhHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhHhhhHHHHHHHHHHHHHHHHHHHHcCCCCCCChhhhhhhccCCceeEEEEecceeeeeeChhhHHHHHHHHHHHHh
Q 000107 2075 RQAVNSICQGSAADIIKIAMINIHSIIVGGVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCME 2154 (2191)
Q Consensus 2075 RqAvNt~iQGsAADI~K~Ami~i~~~l~~~~~~~~~~~~~~~~~~~~~~~lvlqVHDELv~Evp~~~~~~v~~~vk~~Me 2154 (2191)
|+|+|++||||||||+|.||+++++.+.+. +.+.+|++||||||+||||++.+++++++|+++|+
T Consensus 297 r~a~N~~iQgsaAdi~k~am~~i~~~l~~~---------------~~~~~l~l~VHDEli~ev~~~~~~~v~~~l~~~M~ 361 (383)
T PF00476_consen 297 RQAVNTPIQGSAADIMKLAMIRIHEALREK---------------GLGARLVLQVHDELIFEVPEDEAEEVAEILKEIME 361 (383)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHT---------------T-SEEEEEEESSEEEEEEEGGGHHHHHHHHHHHHH
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHHHHhc---------------CcCceeEEEEcCeeheeecHhHHHHHHHHHHHHHH
Confidence 999999999999999999999999999874 45779999999999999999999999999999999
Q ss_pred cccCcccceEEEeeccCCcccc
Q 000107 2155 SAALLLVPLLVKIQVGSTWGSL 2176 (2191)
Q Consensus 2155 ~a~~l~VPL~v~~~iG~sW~~~ 2176 (2191)
++..+.|||.|++++|+||+++
T Consensus 362 ~~~~~~vPl~~~~~iG~~W~~~ 383 (383)
T PF00476_consen 362 NAGELRVPLPVEVEIGKNWGEA 383 (383)
T ss_dssp TSSHHSSCTCEEEEEESSTTTH
T ss_pred hhccCCCeEEeecCCCCChhcC
Confidence 9999999999999999999985
No 10
>PRK00254 ski2-like helicase; Provisional
Probab=100.00 E-value=5.3e-80 Score=830.07 Aligned_cols=684 Identities=27% Similarity=0.428 Sum_probs=544.0
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHH
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAE 588 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~ 588 (2191)
+|+.+.+.+++.||.+|+|+|.+||+. .+++|+|++++||||||||++|++++++.+...++++|||+|+++||.|+++
T Consensus 8 l~~~~~~~l~~~g~~~l~~~Q~~ai~~-~~~~g~nvlv~apTGsGKT~~~~l~il~~l~~~~~~~l~l~P~~aLa~q~~~ 86 (720)
T PRK00254 8 VDERIKRVLKERGIEELYPPQAEALKS-GVLEGKNLVLAIPTASGKTLVAEIVMVNKLLREGGKAVYLVPLKALAEEKYR 86 (720)
T ss_pred CCHHHHHHHHhCCCCCCCHHHHHHHHH-HHhCCCcEEEECCCCcHHHHHHHHHHHHHHHhcCCeEEEEeChHHHHHHHHH
Confidence 789999999999999999999999974 4789999999999999999999999999988788899999999999999999
Q ss_pred HHHHHhhccCCeEEEEeccCCCC-CCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHH
Q 000107 589 HLEVLLEPLGRHVRSYYGNQGGG-SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLL 667 (2191)
Q Consensus 589 ~l~~l~~~lg~~V~~~~G~~~~~-~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL 667 (2191)
.|..+ ..+|++|..++|+.... .....++|+|+|||+++.++++ ...+++++++|||||+|++++.+||..++.++
T Consensus 87 ~~~~~-~~~g~~v~~~~Gd~~~~~~~~~~~~IiV~Tpe~~~~ll~~--~~~~l~~l~lvViDE~H~l~~~~rg~~le~il 163 (720)
T PRK00254 87 EFKDW-EKLGLRVAMTTGDYDSTDEWLGKYDIIIATAEKFDSLLRH--GSSWIKDVKLVVADEIHLIGSYDRGATLEMIL 163 (720)
T ss_pred HHHHH-hhcCCEEEEEeCCCCCchhhhccCCEEEEcHHHHHHHHhC--CchhhhcCCEEEEcCcCccCCccchHHHHHHH
Confidence 99874 56799999999987532 2234689999999999999875 44578999999999999999999999999998
Q ss_pred HHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhccccccccccccceEEEEeccccccch
Q 000107 668 TKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQAALYETNFRPVPLEEYIKVGNAIYSKK 747 (2191)
Q Consensus 668 ~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a~l~~~~~RpvpL~e~i~~~~~~~~~~ 747 (2191)
+++. ..+|+|+||||++|+.++++|+++..+...+||+|+...+......+...
T Consensus 164 ~~l~--------------------------~~~qiI~lSATl~n~~~la~wl~~~~~~~~~rpv~l~~~~~~~~~~~~~~ 217 (720)
T PRK00254 164 THML--------------------------GRAQILGLSATVGNAEELAEWLNAELVVSDWRPVKLRKGVFYQGFLFWED 217 (720)
T ss_pred HhcC--------------------------cCCcEEEEEccCCCHHHHHHHhCCccccCCCCCCcceeeEecCCeeeccC
Confidence 8761 35799999999999999999999999999999999976554332222111
Q ss_pred hhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHh
Q 000107 748 MDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDAL 827 (2191)
Q Consensus 748 ~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L 827 (2191)
... .........++.+.+..++++||||+||+.|+.+|..|.+.+...-. ..+...+....+.+
T Consensus 218 ~~~-----------~~~~~~~~~~~~~~i~~~~~vLVF~~sr~~~~~~a~~l~~~~~~~~~-----~~~~~~~~~~~~~~ 281 (720)
T PRK00254 218 GKI-----------ERFPNSWESLVYDAVKKGKGALVFVNTRRSAEKEALELAKKIKRFLT-----KPELRALKELADSL 281 (720)
T ss_pred cch-----------hcchHHHHHHHHHHHHhCCCEEEEEcChHHHHHHHHHHHHHHHHhcC-----chhHHHHHHHHHHH
Confidence 100 00112334555566667889999999999999999999876542110 01112223333333
Q ss_pred hcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecCC----CCCcccC
Q 000107 828 RRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPR----IGRDFID 903 (2191)
Q Consensus 828 ~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~----~g~~~is 903 (2191)
... ..+..|.+++.+||++|||||++++|..|++.|++|.++|||||+++++|||+|+++|||.... .+...++
T Consensus 282 ~~~--~~~~~L~~~l~~gv~~hHagl~~~eR~~ve~~F~~G~i~VLvaT~tLa~Gvnipa~~vVI~~~~~~~~~~~~~~~ 359 (720)
T PRK00254 282 EEN--PTNEKLKKALRGGVAFHHAGLGRTERVLIEDAFREGLIKVITATPTLSAGINLPAFRVIIRDTKRYSNFGWEDIP 359 (720)
T ss_pred hcC--CCcHHHHHHHhhCEEEeCCCCCHHHHHHHHHHHHCCCCeEEEeCcHHhhhcCCCceEEEECCceEcCCCCceeCC
Confidence 322 2367899999999999999999999999999999999999999999999999999999996432 2334567
Q ss_pred cccccccccccCCCCCCCceEEEEEeChhh-HHHHHhhhccCCCCcccccccccchhhHHHHHHHhcccccCHHHHHHHH
Q 000107 904 GTRYRQMAGRAGRTGIDTKGESMLICKPEE-VKKIMGLLNESCPPLHSCLSEDKNGMTHAILEVVAGGIVQTAEDIHRYV 982 (2191)
Q Consensus 904 ~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e-~~~~~~ll~~~l~~l~S~L~~~~~~l~~~iLeiia~gi~~t~~di~~~l 982 (2191)
..+|+||+|||||+|+|..|++|++++..+ .+.+..++...++++.+.+..+. .+...++..|+.+.+.+.+|+.+|+
T Consensus 360 ~~~~~Qm~GRAGR~~~d~~G~~ii~~~~~~~~~~~~~~~~~~pe~l~s~l~~es-~l~~~ll~~i~~~~~~~~~~~~~~l 438 (720)
T PRK00254 360 VLEIQQMMGRAGRPKYDEVGEAIIVATTEEPSKLMERYIFGKPEKLFSMLSNES-AFRSQVLALITNFGVSNFKELVNFL 438 (720)
T ss_pred HHHHHHhhhccCCCCcCCCceEEEEecCcchHHHHHHHHhCCchhhhccCCchH-HHHHHHHHHHHhCCCCCHHHHHHHH
Confidence 889999999999999999999999998755 34466788777777878875433 4667789999999999999999999
Q ss_pred HhhhcCCCCcc-hhHHHHHHHHHHHHHHcccceeccCCCccCCCHHHHHHHhcCCChhhHHHHHHHHhhhcccccccCcc
Q 000107 983 RCTLLNSTKPF-QDVVKSAQDSLRWLCHRKFLEWNEDTKLYSTTPLGRAAFGSSLCPEESLIVLDDLSRAREGFVLASDL 1061 (2191)
Q Consensus 983 ~~tll~~~~~~-~~~~~~~~~al~~L~~~~~i~~~~~~~~~~~T~LG~a~~~s~L~p~~a~~l~~~L~~a~~~~vl~~dl 1061 (2191)
.+||++.+.+. ......+++++++|.+.+||+.+++ ..+.+|++|++++.++++|.++..+.+.|+..... .++.
T Consensus 439 ~~Tf~~~~~~~~~~~~~~v~~~l~~L~~~~~i~~~~~-~~~~~t~lG~~~s~~~i~~~t~~~~~~~l~~~~~~---~~~~ 514 (720)
T PRK00254 439 ERTFYAHQRKDLYSLEEKAKEIVYFLLENEFIDIDLE-DRFIPLPLGIRTSQLYIDPLTAKKFKDAFPKIEKN---PNPL 514 (720)
T ss_pred HhCHHHHhhcChHhHHHHHHHHHHHHHHCCCeEEcCC-CCEeeChHHHHHHHHhCCHHHHHHHHHHHHhhccC---CCHH
Confidence 99999876543 2344567889999999999997643 35899999999999999999999999999875432 3567
Q ss_pred ceeeeeccCCCCCCCcHHHHHHHHHhhhhhhhhhhcccCCCHHHHHHHhcCCCccccccccccccCccchhhhhhccccC
Q 000107 1062 HLVYLSTPINVEVEPDWELYYERFLELSALDQSVGNQVGVSEPYLMRMAHGAPMRISSKLRDSTKGLHGKLEYRLGITSN 1141 (2191)
Q Consensus 1062 hllylvtp~~~~~~~dw~~~~~~~~~l~~~~~~v~~~~Gv~e~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1141 (2191)
++||+++.. ++|..+..+..+.+.+.....+. ..++....|.
T Consensus 515 ~~l~~~~~~-----~e~~~~~~r~~e~~~l~~~~~~~-------~~~l~~~~~~-------------------------- 556 (720)
T PRK00254 515 GIFQLIAST-----PDMTPLNYSRKEMEDLLDEAYEM-------EDRLYFNIPY-------------------------- 556 (720)
T ss_pred HHHHHhhCC-----ccccccCcchhhHHHHHHHHHhh-------cccccccCCc--------------------------
Confidence 888888775 44333332222221111000000 0000000000
Q ss_pred CCcchhHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHhCCCcchHHHHHHHHHHHHHHHHHHHHHhCc-hhHHHHHHHHHH
Q 000107 1142 NMLSDAQTLRVCKRFYVALILSRLVQETPVLEVCETFKVARGMVQALQENAGRFASMVSVFCERLGW-YDLEGLIAKFQN 1220 (2191)
Q Consensus 1142 ~~~~~~~~~~~~~rfy~al~L~dli~e~~~~~i~~~y~v~rG~lq~l~~~a~~~a~~v~~fc~~lg~-~~~~~ll~~~~~ 1220 (2191)
.. ...+...+.||++|++|++|++|+|+..|.++|++++||+|+++++|.|++++++.||+.||| ..+...|..+++
T Consensus 557 -~~-~~~~~~~~~~~k~~~ll~~~~~~~~~~~~~~~~~~~~gd~~~~~~~~~~l~~a~~~i~~~~~~~~~~~~~l~~l~~ 634 (720)
T PRK00254 557 -WE-DYKFQKFLRAFKTAKVLLDWINEVPEGEIVETYNIDPGDLYRILELADWLMYSLIELYKLFEPKQEVLDYLETLHL 634 (720)
T ss_pred -ch-hhHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHhCCChHHHHHHHHHHHHHHHHHHHHHHHhCcchhHHHHHHHHHH
Confidence 00 012234467999999999999999999999999999999999999999999999999999997 466678889999
Q ss_pred HHhccCchhhhhhcCCCCCCHHHHHHHHHcCCCCHHHHHcCCHHHHHHHHhhcchhHHHHHhhhhHHHHHHHHHHHH
Q 000107 1221 RVSFGVRAEIVELTTIPYVKGSRARALYKAGLRTPLAIAEASISEIVKALFESSSWIAEAQRRVQLGVAKKIKNGAR 1297 (2191)
Q Consensus 1221 RL~~Gv~~ELl~L~~ip~v~~~RAR~Ly~aG~~t~~~la~a~~~~l~~~l~~~~~~~~~~~~~~~~~~A~~I~~~A~ 1297 (2191)
||.|||+.|+++|++|||||+.|||+||++||+|+.||+.|++++|.++ .+++.++|++|++..+
T Consensus 635 rl~~g~~~~~~~L~~ipgig~~~~~~l~~~g~~s~~~i~~a~~~el~~~------------~gi~~~~a~~i~~~~~ 699 (720)
T PRK00254 635 RVKHGVREELLELMRLPMIGRKRARALYNAGFRSIEDIVNAKPSELLKV------------EGIGAKIVEGIFKHLG 699 (720)
T ss_pred HHHcCCCHHHhhhhcCCCCCHHHHHHHHHccCCCHHHHHhCCHHHHhcC------------CCCCHHHHHHHHHHhc
Confidence 9999999999999999999999999999999999999999999999887 4677889999988643
No 11
>cd08638 DNA_pol_A_theta DNA polymerase theta is a low-fidelity family A enzyme implicated in translesion synthesis and in somatic hypermutation. DNA polymerase theta is a low-fidelity family A enzyme implicated in translesion synthesis (TLS) and in somatic hypermutation (SHM). DNA-dependent DNA polymerases can be classified in six main groups based upon phylogenetic relationships with E. coli polymerase I (classA), E. coli polymerase II (class B), E.coli polymerase III (class C), euryarchaaeota polymerase II (class D), human polymerase beta (class x), E. coli UmuC/DinB and eukaryotic RAP 30/Xeroderma pigmentosum variant (class Y). Family A polymerase functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication. Pol theta is an exception among family A polymerases and generates processive single base substitutions. Family A polymerase are found primarily in organisms related to prokaryotes and include prokaryotic DNA polymerase I (pol I) ,mitochondri
Probab=100.00 E-value=8.5e-82 Score=780.24 Aligned_cols=373 Identities=49% Similarity=0.759 Sum_probs=340.9
Q ss_pred CcccCHHHHHHHHHHHHHHHHHHHHHHHHHhCCcCCCCCHHHHHHHHHHhcCCCCCCCCCCCCCCCCCcHHHHHHhhhcC
Q 000107 1753 GIGVDMEGCLQARNLLQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHLKLPIPEGHNKGKQHPSTDKHCLDLLRHEH 1832 (2191)
Q Consensus 1753 Gi~vD~~~l~~~~~~l~~~l~~le~~i~~l~G~~fnl~S~~ql~~vLf~~l~lp~~~~~~k~k~~~ST~~~vL~~L~~~h 1832 (2191)
||.||.+.|+++...++.++++||+++++ ||++++|+.|...|
T Consensus 1 Gi~~d~~~l~~~~~~l~~~~~~le~~~~~-------------------------------------st~~~~L~~l~~~~ 43 (373)
T cd08638 1 GIGFDPEELERQRALLQAKLKELEEEAYR-------------------------------------STSKEVLEQLKRLH 43 (373)
T ss_pred CeEeCHHHHHHHHHHHHHHHHHHHHHHHh-------------------------------------cchHHHHHHHHhcC
Confidence 89999999999999999999999999987 79999999999999
Q ss_pred CcHHHHHHHHHHHHHHHhHHHHHHHHhhhhcCCCceeeccccccccccccccccCCCCccccccccccccccccccCCCc
Q 000107 1833 PIVPVIKEHRTLAKLLNCTLGSICSLARISMSTQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNA 1912 (2191)
Q Consensus 1833 pi~~~ile~R~l~Kllsty~~~l~~~~~~~~~~~~grih~~~~q~gTaTGRlSss~PNLQNiPk~~~~~~~~~~g~~~~~ 1912 (2191)
|++.+|+|||++.|+++||++.+..++.+...+.+||||++|+|+||+||||||++|||||||+..++.... +.....
T Consensus 44 p~~~~ile~r~l~Kl~sty~~~~~~~~~~~~~~~~grih~~~~~~gt~TGRlSs~~PNlQniP~~~~~~~~~--~~~~~~ 121 (373)
T cd08638 44 PLPKLILEYRKLSKLLTTYVEPLLLLCKLSSSLQMYRIHPTWNQTGTATGRLSSSEPNLQNVPKDFEIKDAP--SPPAGS 121 (373)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCeEeeEEEEccceeeeeeeccCCcCCCCCCCcccccc--cccccc
Confidence 999999999999999999999998876532235689999999999999999999999999999864432110 000001
Q ss_pred ccccccccccccccccCCCeEEEEeccchhHHHHHHHhcCChHHHHHhcCCCchHHHHHHHHHcCCCCCCCChhhhcccc
Q 000107 1913 EVDHCKINARDFFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDSVGSQERDQTK 1992 (2191)
Q Consensus 1913 ~~~~~~~~iR~~Fi~~~~G~~lvsaDySQIELRilAhlS~D~~Li~af~~~g~Dih~~~Aa~~~g~~~e~Vt~~~R~~AK 1992 (2191)
..+.....+|++|+|+ +||+||++||||||||||||||+|+.|+++|++ |.|+|+.+|+.|||+|+++|++++|+.||
T Consensus 122 ~~~~~~~~iR~~f~a~-~G~~lv~~DysqiElRvlA~ls~D~~l~~~~~~-g~Dih~~~A~~~~g~~~~~v~~~~R~~aK 199 (373)
T cd08638 122 EGDIPTISLRHAFIPP-PGRVLLSADYSQLELRILAHLSGDPALIELLNS-GGDVFKMIAAQWLGKPVEEVTDEERQQAK 199 (373)
T ss_pred ccchhhhhhhheeeCC-CCCEEEEechhhhHHHHHHHHhCCHHHHHHHhc-CCCHHHHHHHHHhCCChhhCCHHHHHHHh
Confidence 1223345899999997 899999999999999999999999999999998 89999999999999999999999999999
Q ss_pred hhhhhhhcCCChhhhhhhcCCCHHHHHHHHHHHHHhChhHHHHHHHHHHHHHhcCeEEcccCCeeecCcccCCChhhhhh
Q 000107 1993 RLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSSCHQKGYVESLKGRKRFLSKIKFGNNKEKSK 2072 (2191)
Q Consensus 1993 ~i~fGiiYGmG~~~La~~l~is~~eA~~~i~~f~~~yp~v~~~~~~~~~~a~~~GyV~Tl~GRrr~lp~i~s~~~~~r~~ 2072 (2191)
++|||++||||+++||+++|+|.+||++++++||++||+|++|++++++.|+++|||+|++||||++|++++.++..++.
T Consensus 200 ~~~fg~~YG~g~~~La~~l~~s~~eA~~~i~~f~~~~p~v~~~~~~~~~~a~~~g~v~T~~GRrr~~p~~~~~~~~~~~~ 279 (373)
T cd08638 200 QLVYGILYGMGAKSLAEQLGVSEEEAKQFIESFKNAYPGVRRFIRETIERARRNGFVETLTGRRRYLPEINSGNSSERAQ 279 (373)
T ss_pred HHHHhhHhCCcHHHHHHHhCCCHHHHHHHHHHHHHHCccHHHHHHHHHHHHHHcCcEEccCCCEEeCCCCCCCCHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhHhhhHHHHHHHHHHHHHHHHHHHHcCCCCCCChhhhhhhccCCceeEEEEecceeeeeeChhhHHHHHHHHHHH
Q 000107 2073 AQRQAVNSICQGSAADIIKIAMINIHSIIVGGVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKC 2152 (2191)
Q Consensus 2073 aeRqAvNt~iQGsAADI~K~Ami~i~~~l~~~~~~~~~~~~~~~~~~~~~~~lvlqVHDELv~Evp~~~~~~v~~~vk~~ 2152 (2191)
++|+|+|++||||||||+|.||+++++.+...... ....+++|++||||||+||||++.+++++++|+++
T Consensus 280 ~~r~a~N~~iQGsaAdi~K~ami~i~~~l~~~~~~----------~~~~~~~lvl~VHDEl~~ev~~~~~~~~~~~i~~~ 349 (373)
T cd08638 280 AERQAVNTVIQGSAADIMKIAMINIHEKLHSLLPN----------LPAGRARLVLQIHDELLFEVPESDVDEVARIIKRS 349 (373)
T ss_pred HHHHHhchhhhhHHHHHHHHHHHHHHHHHHhhccc----------ccCCCeEEEEEEccEEEEEeCHHHHHHHHHHHHHH
Confidence 99999999999999999999999999998763110 11467899999999999999999999999999999
Q ss_pred HhcccCcccceEEEeeccCCcccc
Q 000107 2153 MESAALLLVPLLVKIQVGSTWGSL 2176 (2191)
Q Consensus 2153 Me~a~~l~VPL~v~~~iG~sW~~~ 2176 (2191)
||++..+.|||+|++++|+|||++
T Consensus 350 Me~~~~l~VPl~v~~~iG~~w~~l 373 (373)
T cd08638 350 MENAAKLSVPLPVKVSIGKSWGSL 373 (373)
T ss_pred HhCccCCCCceEEeecccCCcccC
Confidence 999999999999999999999986
No 12
>cd08643 DNA_pol_A_pol_I_B Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication. Family A polymerase functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication. DNA-dependent DNA polymerases can be classified in six main groups based upon phylogenetic relationships with E. coli polymerase I (classA), E. coli polymerase II (class B), E.coli polymerase III (class C), euryarchaaeota polymerase II (class D), human polymerase beta (class x), E. coli UmuC/DinB and eukaryotic RAP 30/Xeroderma pigmentosum variant (class Y). Family A polymerase are found primarily in organisms related to prokaryotes and include prokaryotic DNA polymerase I ,mitochondrial polymerase delta, and several bacteriphage polymerases including those from odd-numbered phage (T3, T5, and T7). Prokaryotic Pol Is have two functional domains located on the same polypeptide; a 5'-3' polymerase and 5'-3' exonuclease. Pol I uses its 5
Probab=100.00 E-value=2.8e-81 Score=776.89 Aligned_cols=366 Identities=21% Similarity=0.287 Sum_probs=332.0
Q ss_pred cCHHHHHHHHHHHHHHHHHHHHHHHHHhC---------------------------------CcCCCCCHHHHHHHHHHh
Q 000107 1756 VDMEGCLQARNLLQKKLRYLEKKAYTLAG---------------------------------MKFSLYTAADIANVLYGH 1802 (2191)
Q Consensus 1756 vD~~~l~~~~~~l~~~l~~le~~i~~l~G---------------------------------~~fnl~S~~ql~~vLf~~ 1802 (2191)
+|.+....+..++..++.+|+.++.+.++ .+||++||+||+++||++
T Consensus 1 ~d~~~a~~l~~~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~fN~~S~~ql~~~L~~~ 80 (429)
T cd08643 1 FNQEKAAKLYAQLAGRREDLENELQEVFPPWYVSDGFVPKKRTTNNSVRGYVKGAPYTKIKLVTFNPSSRKHIAKRLKAK 80 (429)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHcCCcccccccccCccccCCcccceecCCCccccCCccCCCCCHHHHHHHHHHh
Confidence 68899999999999999999999977652 269999999999999999
Q ss_pred cCCCCCCCCCCCCCCCCCcHHHHHHhhhcCCcHHHHHHHHHHHHHHHhHHHHHHHHhhhhcCCCceeecccccccccccc
Q 000107 1803 LKLPIPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARISMSTQKYTLHGHWLQTSTATG 1882 (2191)
Q Consensus 1803 l~lp~~~~~~k~k~~~ST~~~vL~~L~~~hpi~~~ile~R~l~Kllsty~~~l~~~~~~~~~~~~grih~~~~q~gTaTG 1882 (2191)
+|||+.+. +.++++|||+++|++|. ||++.+|++||+++|+++||+++...|.+. .+.+|||||+|+|+||+||
T Consensus 81 lg~~~~~~--t~~G~~std~~vL~~l~--~p~~~~ileyr~l~K~~st~~~~~~~~l~~--v~~dgRIH~~~nq~gt~TG 154 (429)
T cd08643 81 YGWEPQEF--TESGEPKVDEDVLSKLD--YPEAKLLAEYLLVQKRLGQLADGNNAWLKL--VHEDGRIHGAVNTNGAVTG 154 (429)
T ss_pred cCCCCCCc--CCCCCCCcCHHHHHhcc--chHHHHHHHHHHHHHHHHHHHhhHHHHHHH--cCCCCceeeeEEeCCcccc
Confidence 99986543 33456899999999996 999999999999999999999987767664 3457999999999999999
Q ss_pred ccccCCCCccccccccccccccccccCCCcccccccccccccccccCCCeEEEEeccchhHHHHHHHhcCC---hHHHHH
Q 000107 1883 RLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINARDFFIPSQENWILLAADYSQIELRLMAHFSKD---PALIGL 1959 (2191)
Q Consensus 1883 RlSss~PNLQNiPk~~~~~~~~~~g~~~~~~~~~~~~~iR~~Fi~~~~G~~lvsaDySQIELRilAhlS~D---~~Li~a 1959 (2191)
||||++|||||||+ ++++.|+ .||++|+|+ +||+||+|||||||||||||||+| +.|++
T Consensus 155 RlSss~PNLQnIP~-----~~~~~G~-----------~iR~~Fva~-~G~~lv~aDySQiELRiLAhls~d~~~~~l~~- 216 (429)
T cd08643 155 RATHFSPNMAQVPA-----VGSPYGK-----------ECRELFGVP-PGWSLVGADASGLELRCLAHYLARYDGGAYTR- 216 (429)
T ss_pred ccccCCCcccCCCC-----CCcccch-----------hhhheEecC-CCCEEEEecHHHHHHHHHHHHhcccchHHHHh-
Confidence 99999999999996 4556666 799999996 999999999999999999999998 78888
Q ss_pred hcCCCchHHHHHHHHHcCCCCCCCChhhhcccchhhhhhhcCCChhhhhhhcCCCHHHHHH-------------------
Q 000107 1960 LSKPHGDVFTMIAARWTGRSEDSVGSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKE------------------- 2020 (2191)
Q Consensus 1960 f~~~g~Dih~~~Aa~~~g~~~e~Vt~~~R~~AK~i~fGiiYGmG~~~La~~l~is~~eA~~------------------- 2020 (2191)
|.. |.|+|+.+|+. +|+ ++|+.||++|||++||||+++||+.+|++.+||++
T Consensus 217 ~~~-~~DiH~~ta~~-~g~-------~~R~~AK~i~fGiiYG~g~~~La~~lg~~~~eA~~~~~~~~~~~~~~~~~~~~~ 287 (429)
T cd08643 217 KVL-GGDIHWANAQA-MGL-------LSRDGAKTFIYAFLYGAGDEKLGQIVGDDLRTAKNLNAEWPQTKKGTIKKIADK 287 (429)
T ss_pred hhc-ccchhHHHHHH-hCh-------HHHhhhHHHHHHHHHCCChhHHHHHhCCCHHHHHhhhhcccccccchhhhhhhh
Confidence 655 89999999987 564 78999999999999999999999999999999887
Q ss_pred -----HHHHHHHhChhHHHHHHHHHHHHHhcCeEEcccCCeeecCcccCCChhhhhhhhhhhhHhhhHHHHHHHHHHHHH
Q 000107 2021 -----KIKSFKSSFPGVASWLHVAVSSCHQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMI 2095 (2191)
Q Consensus 2021 -----~i~~f~~~yp~v~~~~~~~~~~a~~~GyV~Tl~GRrr~lp~i~s~~~~~r~~aeRqAvNt~iQGsAADI~K~Ami 2095 (2191)
++++||++||+|++|++++++.|+++|||+|++||||++|. +|+|+|++||||||||+|.||+
T Consensus 288 ~~g~~~~~~f~~~~P~v~~~~~~~~~~a~~~Gyv~tl~GRrr~~~~------------~r~A~Nt~iQGsAADi~K~Ami 355 (429)
T cd08643 288 AKGRVVRANFLKGLPALGKLIKKVKEAAKKRGHLVGLDGRRIRVRS------------AHAALNTLLQSAGAILMKKWLV 355 (429)
T ss_pred hhHHHHHHHHHHhCccHHHHHHHHHHHHHhCCceeCCCCCcccCch------------HHHHhChhhhhHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999975 5899999999999999999999
Q ss_pred HHHHHHHcCCCCCCChhhhhhhccCCceeEEEEecceeeeeeChhhHHHHHHHHHHHHhccc---CcccceEEEeeccCC
Q 000107 2096 NIHSIIVGGVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCMESAA---LLLVPLLVKIQVGST 2172 (2191)
Q Consensus 2096 ~i~~~l~~~~~~~~~~~~~~~~~~~~~~~lvlqVHDELv~Evp~~~~~~v~~~vk~~Me~a~---~l~VPL~v~~~iG~s 2172 (2191)
++++.|...+. .++.+++|||||||||+||||++++++++++|+++||+|. .|.|||.|++++|+|
T Consensus 356 ~i~~~l~~~g~-----------~~~~~~~lvlqVHDElv~ev~~~~ae~v~~~v~~~Me~a~~~~~l~VPL~v~~~iG~n 424 (429)
T cd08643 356 LLDDELTAKGG-----------VWGGDFEYCAWVHDEVQIECRKGIAEEVGKIAVEAAEKAGEHFNFRCPLAGEFDIGRN 424 (429)
T ss_pred HHHHHHHhcCC-----------CcCCCeEEEEEEccceEEEeCHHHHHHHHHHHHHHHHHhhhccCCCcceEeecCccCC
Confidence 99999986421 1245789999999999999999999999999999999997 689999999999999
Q ss_pred ccccC
Q 000107 2173 WGSLE 2177 (2191)
Q Consensus 2173 W~~~~ 2177 (2191)
|+|+|
T Consensus 425 W~e~h 429 (429)
T cd08643 425 WAETH 429 (429)
T ss_pred HHHcC
Confidence 99987
No 13
>cd08640 DNA_pol_A_plastid_like DNA polymerase A type from plastids of higher plants possibly involve in DNA replication or in the repair of errors occurring during replication. DNA polymerase A type from plastids of higher plants possibly involve in DNA replication or in the repair of errors occurring during replication. Family A polymerase functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication. DNA-dependent DNA polymerases can be classified in six main groups based upon phylogenetic relationships with E. coli polymerase I (classA), E. coli polymerase II (class B), E.coli polymerase III (class C), euryarchaaeota polymerase II (class D), human polymerase beta (class x), E. coli UmuC/DinB and eukaryotic RAP 30/Xeroderma pigmentosum variant (class Y). Family A polymerase are found primarily in organisms related to prokaryotes and include prokaryotic DNA polymerase I ,mitochondrial polymerase delta, and several bacteriphage polymerases including
Probab=100.00 E-value=1.7e-77 Score=733.25 Aligned_cols=306 Identities=33% Similarity=0.485 Sum_probs=288.4
Q ss_pred cCCcHHHHHHHHHHHHHHHhHHHHHHHHhhhhcCCCceeeccccccccccccccccCCCCccccccccccccccccccCC
Q 000107 1831 EHPIVPVIKEHRTLAKLLNCTLGSICSLARISMSTQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGG 1910 (2191)
Q Consensus 1831 ~hpi~~~ile~R~l~Kllsty~~~l~~~~~~~~~~~~grih~~~~q~gTaTGRlSss~PNLQNiPk~~~~~~~~~~g~~~ 1910 (2191)
-||++.+|++||+++|+++||+++++..+. +.+||||++|+|+ |+||||||++|||||||+. +..+.
T Consensus 41 ~~~~~~~il~~r~~~Kl~sty~~~l~~~~~----~~dgRih~~~~~~-t~TGRlSs~~PNLQNiP~~------~~~~~-- 107 (371)
T cd08640 41 ACEAIEALKEIKSISTLLSTFIIPLQELLN----DSTGRIHCSLNIN-TETGRLSSRNPNLQNQPAL------EKDRY-- 107 (371)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHcc----CCCCCeeeeEeec-cceeehhcCCCCCCCCCCC------Ccccc--
Confidence 489999999999999999999999988763 4579999999999 9999999999999999962 22232
Q ss_pred CcccccccccccccccccCCCeEEEEeccchhHHHHHHHhcCChHHHHHhcCCCchHHHHHHHHHcCCCCCCCC------
Q 000107 1911 NAEVDHCKINARDFFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDSVG------ 1984 (2191)
Q Consensus 1911 ~~~~~~~~~~iR~~Fi~~~~G~~lvsaDySQIELRilAhlS~D~~Li~af~~~g~Dih~~~Aa~~~g~~~e~Vt------ 1984 (2191)
.+|+||+|+ +||+||+|||||||||||||||+|+.|+++|++ |.|+|+.||+.+||+++++|+
T Consensus 108 ---------~iR~~Fva~-~G~~lv~aDySQiElRvlA~lS~D~~Li~af~~-g~DiH~~tA~~if~~~~e~v~~~~~~~ 176 (371)
T cd08640 108 ---------KIRKAFIAS-PGNTLIVADYSQLELRLLAHMTRCKSMIEAFNA-GGDFHSRTASGMYPHVAEAVANGEVLL 176 (371)
T ss_pred ---------chhheEecC-CCCEEEEechhhhhHHHHHHHcCCHHHHHHHHc-CCCHHHHHHHHHhCCCHHHhccccccc
Confidence 699999997 999999999999999999999999999999998 899999999999999988665
Q ss_pred -----------------hhhhcccchhhhhhhcCCChhhhhhhcCCCHHHHHHHHHHHHHhChhHHHHHHHHHHHHHhcC
Q 000107 1985 -----------------SQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSSCHQKG 2047 (2191)
Q Consensus 1985 -----------------~~~R~~AK~i~fGiiYGmG~~~La~~l~is~~eA~~~i~~f~~~yp~v~~~~~~~~~~a~~~G 2047 (2191)
+++|+.||++|||++||||+++||+++|||.+||++++++||++||+|++|++++++.|+++|
T Consensus 177 ~~~~~~~~~~~~~~~~~~~~R~~AK~infGi~YG~g~~~La~~lgis~~eA~~~i~~f~~~fP~v~~~~~~~~~~a~~~G 256 (371)
T cd08640 177 EWKSEGKPPAPLLKDKFKSERRKAKVLNFSIAYGKTAHGLAKDWKVKLKEAERTVDAWYSDRPEVEQWQKKTKKEARERG 256 (371)
T ss_pred cccccccccccccccccHHHHHHHHHHHHHHHhccchhHHHHHcCCCHHHHHHHHHHHHHHCccHHHHHHHHHHHHHHcC
Confidence 789999999999999999999999999999999999999999999999999999999999999
Q ss_pred eEEcccCCeeecCcccCCChhhhhhhhhhhhHhhhHHHHHHHHHHHHHHHHHHHHcCCCCCCChhhhhhhccCCceeEEE
Q 000107 2048 YVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIVGGVYKPDSSLAANFQMLKGRCRLLL 2127 (2191)
Q Consensus 2048 yV~Tl~GRrr~lp~i~s~~~~~r~~aeRqAvNt~iQGsAADI~K~Ami~i~~~l~~~~~~~~~~~~~~~~~~~~~~~lvl 2127 (2191)
||+|++||||++|++++.+...++.++|+|+|++||||||||+|.||+++++.+... +.+++|||
T Consensus 257 yv~T~~GRrr~lp~i~s~~~~~~~~~eR~avN~~IQGsAADI~K~Ami~i~~~l~~~---------------~~~~~lvl 321 (371)
T cd08640 257 YTRTLLGRYRYLPDIKSRNRKKRGHAERAAINTPIQGSAADIAMKAMLRIYRNLRLK---------------RLGWKLLL 321 (371)
T ss_pred cEEccCCCEEECCCcccccHhhhhhhHHHHHhhhhhHHHHHHHHHHHHHHHHHHhhc---------------cCCceEEE
Confidence 999999999999999999999999999999999999999999999999999998542 45789999
Q ss_pred EecceeeeeeChhhHHHHHHHHHHHHhccc--CcccceEEEeeccCCccc
Q 000107 2128 QVHDELVLEVDPSVIKEAVSLVQKCMESAA--LLLVPLLVKIQVGSTWGS 2175 (2191)
Q Consensus 2128 qVHDELv~Evp~~~~~~v~~~vk~~Me~a~--~l~VPL~v~~~iG~sW~~ 2175 (2191)
||||||+||||++.+++++++|+++|+++. .+.|||.|++++|+||++
T Consensus 322 qVHDElv~evp~~~~~~~~~~v~~~Me~~~~~~l~VPl~v~~~iG~~W~~ 371 (371)
T cd08640 322 QIHDEVILEGPEEKADEALKIVKDCMENPFFGPLDVPLEVDGSVGYNWYE 371 (371)
T ss_pred EEcceeEEEcCHHHHHHHHHHHHHHHHhcCccCCCccEEEeccccCCCCC
Confidence 999999999999999999999999999998 789999999999999986
No 14
>COG1204 Superfamily II helicase [General function prediction only]
Probab=100.00 E-value=2.1e-74 Score=759.56 Aligned_cols=696 Identities=29% Similarity=0.385 Sum_probs=548.6
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHH
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAE 588 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~ 588 (2191)
+++.+.+.++..|+.++++.|++++.. ++.+++|+|+|+|||||||++|+++|++.+.+.+.++|||+|+++||.|+++
T Consensus 16 ~~~~v~~i~~~~~~~el~~~qq~av~~-~~~~~~N~li~aPTgsGKTlIA~lai~~~l~~~~~k~vYivPlkALa~Ek~~ 94 (766)
T COG1204 16 LDDRVLEILKGDGIDELFNPQQEAVEK-GLLSDENVLISAPTGSGKTLIALLAILSTLLEGGGKVVYIVPLKALAEEKYE 94 (766)
T ss_pred ccHHHHHHhccCChHHhhHHHHHHhhc-cccCCCcEEEEcCCCCchHHHHHHHHHHHHHhcCCcEEEEeChHHHHHHHHH
Confidence 678899999999999999999999984 5777999999999999999999999999999888999999999999999999
Q ss_pred HHHHHhhccCCeEEEEeccCCCCC-CCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHH
Q 000107 589 HLEVLLEPLGRHVRSYYGNQGGGS-LPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLL 667 (2191)
Q Consensus 589 ~l~~l~~~lg~~V~~~~G~~~~~~-l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL 667 (2191)
+|+ .+..+|++|...+|+..... ...+++|+|+|||||++++++ ...++.++++|||||+|+++|..||+.+|.++
T Consensus 95 ~~~-~~~~~GirV~~~TgD~~~~~~~l~~~~ViVtT~EK~Dsl~R~--~~~~~~~V~lvViDEiH~l~d~~RG~~lE~iv 171 (766)
T COG1204 95 EFS-RLEELGIRVGISTGDYDLDDERLARYDVIVTTPEKLDSLTRK--RPSWIEEVDLVVIDEIHLLGDRTRGPVLESIV 171 (766)
T ss_pred Hhh-hHHhcCCEEEEecCCcccchhhhccCCEEEEchHHhhHhhhc--CcchhhcccEEEEeeeeecCCcccCceehhHH
Confidence 999 67889999999999986432 345789999999999999998 44489999999999999999999999999999
Q ss_pred HHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhccccccccccccceEEEEeccccccch
Q 000107 668 TKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQAALYETNFRPVPLEEYIKVGNAIYSKK 747 (2191)
Q Consensus 668 ~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a~l~~~~~RpvpL~e~i~~~~~~~~~~ 747 (2191)
++++... ..+|||++|||+||+.++++||++..+...|||+|+...+.....++...
T Consensus 172 ~r~~~~~-----------------------~~~rivgLSATlpN~~evA~wL~a~~~~~~~rp~~l~~~v~~~~~~~~~~ 228 (766)
T COG1204 172 ARMRRLN-----------------------ELIRIVGLSATLPNAEEVADWLNAKLVESDWRPVPLRRGVPYVGAFLGAD 228 (766)
T ss_pred HHHHhhC-----------------------cceEEEEEeeecCCHHHHHHHhCCcccccCCCCcccccCCccceEEEEec
Confidence 9998763 45899999999999999999999999988999999876555443333322
Q ss_pred hhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHh
Q 000107 748 MDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDAL 827 (2191)
Q Consensus 748 ~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L 827 (2191)
.... .......+.+..++.+.++.++++||||+||+.+..+|+.+...+....... +..........+
T Consensus 229 ~~~k-------~~~~~~~~~~~~~v~~~~~~~~qvLvFv~sR~~a~~~A~~l~~~~~~~~~~~-----~~~~~~~~a~~~ 296 (766)
T COG1204 229 GKKK-------TWPLLIDNLALELVLESLAEGGQVLVFVHSRKEAEKTAKKLRIKMSATLSDD-----EKIVLDEGASPI 296 (766)
T ss_pred Cccc-------cccccchHHHHHHHHHHHhcCCeEEEEEecCchHHHHHHHHHHHHhhcCChh-----hhhhcccccccc
Confidence 1110 0112234567788889999999999999999999999999987554321110 000000011111
Q ss_pred --hcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecC-----CCCCc
Q 000107 828 --RRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQP-----RIGRD 900 (2191)
Q Consensus 828 --~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p-----~~g~~ 900 (2191)
...+...+..|.+++..|++|||+||+.++|..||+.|+.|.++|||||+||++|||+|+.+|||... ..|..
T Consensus 297 ~~~~~~~~~~~~l~e~v~~GvafHhAGL~~~~R~~vE~~Fr~g~ikVlv~TpTLA~GVNLPA~~VIIk~~~~y~~~~g~~ 376 (766)
T COG1204 297 LIPETPTSEDEELAELVLRGVAFHHAGLPREDRQLVEDAFRKGKIKVLVSTPTLAAGVNLPARTVIIKDTRRYDPKGGIV 376 (766)
T ss_pred ccccccccchHHHHHHHHhCccccccCCCHHHHHHHHHHHhcCCceEEEechHHhhhcCCcceEEEEeeeEEEcCCCCeE
Confidence 23344457899999999999999999999999999999999999999999999999999999998742 33456
Q ss_pred ccCcccccccccccCCCCCCCceEEEEEeCh-hhHHH-HHhhhccCCCCcccccccccchhhHHHHHHHhcccccCHHHH
Q 000107 901 FIDGTRYRQMAGRAGRTGIDTKGESMLICKP-EEVKK-IMGLLNESCPPLHSCLSEDKNGMTHAILEVVAGGIVQTAEDI 978 (2191)
Q Consensus 901 ~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~-~e~~~-~~~ll~~~l~~l~S~L~~~~~~l~~~iLeiia~gi~~t~~di 978 (2191)
.+++.+|+||+|||||+|+|..|+++++++. ++... ...+++..++++.|.|..+. +....++.+++.+.+.+..++
T Consensus 377 ~i~~~dv~QM~GRAGRPg~d~~G~~~i~~~~~~~~~~~~~~~~~~~~e~~~s~l~~~~-~~~~~l~~v~~~~~~v~~~~~ 455 (766)
T COG1204 377 DIPVLDVLQMAGRAGRPGYDDYGEAIILATSHDELEYLAELYIQSEPEPIESKLGDEL-NLRTFLLGVISVGDAVSWLEL 455 (766)
T ss_pred ECchhhHhhccCcCCCCCcCCCCcEEEEecCccchhHHHHHhhccCcchHHHhhcccc-cchheEEEEEeccchhhHHHH
Confidence 7899999999999999999999999999954 33333 34567777778888888766 455556777788888888888
Q ss_pred HHHHHhhhcCCCCcch-hHHHHHHHHHHHHHHcc-cceeccCCCccCCCHHHHHHHhcCCChhhHHHHHHHHhhhccccc
Q 000107 979 HRYVRCTLLNSTKPFQ-DVVKSAQDSLRWLCHRK-FLEWNEDTKLYSTTPLGRAAFGSSLCPEESLIVLDDLSRAREGFV 1056 (2191)
Q Consensus 979 ~~~l~~tll~~~~~~~-~~~~~~~~al~~L~~~~-~i~~~~~~~~~~~T~LG~a~~~s~L~p~~a~~l~~~L~~a~~~~v 1056 (2191)
..|+..||.+++.... .....+..++.+|.+++ ++. .....+.+|.+|+.++..+++|.+++.+.+.+......
T Consensus 456 ~~f~~~t~~~~~~~~~~~~~~~i~~~~~~L~~~~~~~~--~~~~~~~ate~g~~~s~~yi~~~sa~~~~~~l~~~~~~-- 531 (766)
T COG1204 456 TDFYERTFYNPQTYGEGMLREEILASLRYLEENGLILD--ADWEALHATELGKLVSRLYIDPESAKIFRDLLAELALE-- 531 (766)
T ss_pred HHHHHHHHhhhhhccccchHHHHHHHHHHHHhccceee--ccccccchhHHHHHhhhccCCHHHHHHHHHHHHHhccc--
Confidence 8999999998874333 23455678999999987 443 22335899999999999999999999999999876531
Q ss_pred ccCccceeeeeccCCCCCCCcHHHHHHHHHhhhhhhhhhhcccCCCHHHHHHHhcCCCccccccccccccCccchhhhhh
Q 000107 1057 LASDLHLVYLSTPINVEVEPDWELYYERFLELSALDQSVGNQVGVSEPYLMRMAHGAPMRISSKLRDSTKGLHGKLEYRL 1136 (2191)
Q Consensus 1057 l~~dlhllylvtp~~~~~~~dw~~~~~~~~~l~~~~~~v~~~~Gv~e~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1136 (2191)
.+++.++|+++-. ||+...+.+......... ............ .+
T Consensus 532 -~~~~~~l~~is~~-----pd~~~~~~~~~~~~~~~~-------------~~~~~~~~~~~~--~~-------------- 576 (766)
T COG1204 532 -PTEIGLLYLISLT-----PDLMPIKLRERESSELVL-------------DELEEQSDYLLG--ER-------------- 576 (766)
T ss_pred -cchHHHhhhhhcC-----ccchhhhhhhhhhhhhhH-------------HHHHhcchHHhh--cc--------------
Confidence 3778888887764 776555444333222100 000000000000 00
Q ss_pred ccccCCCcchhHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHhCCCcchHHHHHHHHHHH-------HHHHHHHHHHhCch
Q 000107 1137 GITSNNMLSDAQTLRVCKRFYVALILSRLVQETPVLEVCETFKVARGMVQALQENAGRF-------ASMVSVFCERLGWY 1209 (2191)
Q Consensus 1137 ~~~~~~~~~~~~~~~~~~rfy~al~L~dli~e~~~~~i~~~y~v~rG~lq~l~~~a~~~-------a~~v~~fc~~lg~~ 1209 (2191)
.... ..+.-....+++++.+|.+||+|.+...|+++|++.+|+++...+.|.|+ ++++.+.+..++-.
T Consensus 577 ----~~~~-~~e~~~~l~~~~~~~~l~~wi~~~~~~~i~~~~~~~~~dl~~~~~~a~w~~~~~~~l~~~~~r~~~~~~~~ 651 (766)
T COG1204 577 ----LDEL-AVEYNLLLQALKTAARLLDWINEADEDEILNAYGVAPGDLLRIAETAEWLSADLLALGKAAERLAKILGLG 651 (766)
T ss_pred ----cccc-chhhHHHHHHHHHHHHHHHHHHhCcHHHHHHHhCcchhhHHhhcchhhhhhhhhhhhhhhhhhhHhhhCCC
Confidence 0000 00111234688899999999999999999999999999999999999999 99999999999953
Q ss_pred hHH-HHHHHHHHHHhccCc-hhhhhhcCCCCCCHHHHHHHHHcCCCCHHHHH-cCCHHHHHHHHhhcchhHHHHHhhhhH
Q 000107 1210 DLE-GLIAKFQNRVSFGVR-AEIVELTTIPYVKGSRARALYKAGLRTPLAIA-EASISEIVKALFESSSWIAEAQRRVQL 1286 (2191)
Q Consensus 1210 ~~~-~ll~~~~~RL~~Gv~-~ELl~L~~ip~v~~~RAR~Ly~aG~~t~~~la-~a~~~~l~~~l~~~~~~~~~~~~~~~~ 1286 (2191)
... ..+..+..|+.+||+ +|+++|+.++++++.|||+||++||+++++++ .+.+.++... .+++.
T Consensus 652 ~~~~~~~~~~~~rie~gv~~e~~~~l~~i~~~grvrar~ly~~g~~~~~~~~~~~~~~~~~~~------------~~~~~ 719 (766)
T COG1204 652 LHVLRKLEILSLRIEYGVRSEELLELVEIRGVGRVRARKLYNAGYKSLEDLRLIADPAELLPL------------TGIGE 719 (766)
T ss_pred ccccccchhhhhhhhcCCChhhhcccccccccchhHHHHHHHhhhccHHHHHhhcChhhhhhh------------hhhHH
Confidence 322 789999999999999 99999999999999999999999999999999 7777777665 34556
Q ss_pred HHHHHHHHHHHHHH
Q 000107 1287 GVAKKIKNGARKIV 1300 (2191)
Q Consensus 1287 ~~A~~I~~~A~~l~ 1300 (2191)
+.+..|..+.....
T Consensus 720 ~~~~~i~~~~~~~~ 733 (766)
T COG1204 720 RLVEAILESLGRDV 733 (766)
T ss_pred HHHHHHHHHhhhhh
Confidence 77777877766654
No 15
>cd08642 DNA_pol_A_pol_I_A Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication. Family A polymerase (polymerase I) functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication. DNA-dependent DNA polymerases can be classified in six main groups based upon phylogenetic relationships with E. coli polymerase I (classA), E. coli polymerase II (class B), E.coli polymerase III (class C), euryarchaaeota polymerase II (class D), human polymerase beta (class x), E. coli UmuC/DinB and eukaryotic RAP 30/Xeroderma pigmentosum variant (class Y). Family A polymerase are found primarily in organisms related to prokaryotes and include prokaryotic DNA polymerase I ,mitochondrial polymerase delta, and several bacteriphage polymerases including those from odd-numbered phage (T3, T5, and T7). Prokaryotic Pol Is have two functional domains located on the same polypeptide; a 5'-3' polymerase and 5'-3' exonuclease. P
Probab=100.00 E-value=4e-74 Score=696.43 Aligned_cols=349 Identities=18% Similarity=0.182 Sum_probs=300.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhCCcCCCCCHHHHHHHHHHhcCCCCCCCCCCCCCCCCCcHHHHHHhhhcCCcHHHHHHH
Q 000107 1762 LQARNLLQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHLKLPIPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEH 1841 (2191)
Q Consensus 1762 ~~~~~~l~~~l~~le~~i~~l~G~~fnl~S~~ql~~vLf~~l~lp~~~~~~k~k~~~ST~~~vL~~L~~~hpi~~~ile~ 1841 (2191)
........+..++|+++||+++|.+ |++||+||+++||+++++|.+.. ++ | .+|+.|.+.||+++.||+|
T Consensus 3 ~~a~~~~~~~k~~l~~~i~~~~g~~-n~~SpkQL~~~Lf~~~~l~~~~~-k~------t--tvl~~l~~~~~~~~~iL~~ 72 (378)
T cd08642 3 NAAIACDDQYKEELLEEAKELTGLD-NPNSPAQLKDWLNEQGGEVDSLL-KK------D--VVALLLKTAPGDVKRVLEL 72 (378)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCC-CCCCHHHHHHHHHHcCCCCCCCc-hh------H--HHHHHhcccCcHHHHHHHH
Confidence 3445667788899999999999998 99999999999999999974321 11 1 1899999999999999999
Q ss_pred HHHHHHHH-hHHHHHHHHhhhhcCCCceeecccccccc-ccccccccCCCCccccccccccccccccc----cCCC----
Q 000107 1842 RTLAKLLN-CTLGSICSLARISMSTQKYTLHGHWLQTS-TATGRLSMEEPNLQCVEHMVEFKMSNEDI----YGGN---- 1911 (2191)
Q Consensus 1842 R~l~Klls-ty~~~l~~~~~~~~~~~~grih~~~~q~g-TaTGRlSss~PNLQNiPk~~~~~~~~~~g----~~~~---- 1911 (2191)
|++.|+.+ ||++.|+..+ +.+||||++|+|+| |+||||||++|||||||+...-.+ +.+ +.++
T Consensus 73 R~~~k~~s~t~~~~l~~~~-----~~~gRih~~~~~~gat~TGRlss~~pnlQNiP~~~~~~~--~~~~~~~~~~d~~~~ 145 (378)
T cd08642 73 RQELSKTSVKKYEAMERAV-----CSDGRVRGLLQFYGANRTGRWAGRLVQVQNLPRNYLKDL--DLARELVKSGDFDAL 145 (378)
T ss_pred HHHHhhccHHHHHHHHHHc-----CCCCceeeeeeeecchhccccccCCCCcccCCCCcccch--HHHHHHhhccchhhh
Confidence 99999998 9999998765 35699999999999 999999999999999997310000 000 0000
Q ss_pred -----cccccccccccccccccCCCeEEEEeccchhHHHHHHHhcCChHHHHHhcCCCchHHHHHHHHHcCCCCC--CCC
Q 000107 1912 -----AEVDHCKINARDFFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSED--SVG 1984 (2191)
Q Consensus 1912 -----~~~~~~~~~iR~~Fi~~~~G~~lvsaDySQIELRilAhlS~D~~Li~af~~~g~Dih~~~Aa~~~g~~~e--~Vt 1984 (2191)
...+.....||+||+|+ +||+|++|||||||||||||||+|+.|+++|++ |.|||+.||+.|||+|++ +|+
T Consensus 146 ~~~~~~~~~~~~~~iR~aFva~-~G~~lvsaDySQIElRVLAhlS~D~~li~af~~-g~Dih~~tAs~if~vp~e~~~v~ 223 (378)
T cd08642 146 ELLYGSVPDVLSQLIRTAFIPS-EGHRFIVSDFSAIEARVIAWLAGEQWRLDVFAT-HGKIYEASASQMFGVPVEKIGKN 223 (378)
T ss_pred hhhccccccHHHHHhHHheecC-CCCEEEEecHHHHHHHHHHHHhCCHHHHHHHhc-CCChHHHHHHHHhCCChhhcccC
Confidence 00111223799999997 999999999999999999999999999999998 899999999999999998 799
Q ss_pred hhhhcccchhhhhhhcCCChhhh----hhhcCCCHHHHHHHHHHHHHhChhHHHHHHHH---HHHHHhcCeEEcccCCee
Q 000107 1985 SQERDQTKRLIYGILYGMGPNTL----SEQLNCSSNEAKEKIKSFKSSFPGVASWLHVA---VSSCHQKGYVESLKGRKR 2057 (2191)
Q Consensus 1985 ~~~R~~AK~i~fGiiYGmG~~~L----a~~l~is~~eA~~~i~~f~~~yp~v~~~~~~~---~~~a~~~GyV~Tl~GRrr 2057 (2191)
+++|++||++|||++||||+++| ++++|+|.+||+.++++||++||+|++|++++ ++.|+++|||.|+
T Consensus 224 ~~~R~~AK~vnfGiiYG~g~~~L~~~aa~~lgis~~EA~~~i~~yf~~yP~v~~~~~~~~~~~~~a~~~g~v~t~----- 298 (378)
T cd08642 224 SHLRQKGKVAELALGYGGSVGALKAMGALEMGLTEDELPGIVDAWRNANPNIVKLWWDVDKAAKKAVKERKTVKL----- 298 (378)
T ss_pred HHHHHHhhhhhccceeccchHHHHHhhhhhcCCCHHHHHHHHHHHHHHCccHHHHHHHHHHHHHHHHHcCceEee-----
Confidence 99999999999999999999999 89999999999999999999999999999987 7788899999998
Q ss_pred ecCcccCCChhhhhhhhhhhhHhhhHHHHHHHHHHHHHHHHHHHHcCCCCCCChhhhhhhccCCceeEEEEecceeeeee
Q 000107 2058 FLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIVGGVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEV 2137 (2191)
Q Consensus 2058 ~lp~i~s~~~~~r~~aeRqAvNt~iQGsAADI~K~Ami~i~~~l~~~~~~~~~~~~~~~~~~~~~~~lvlqVHDELv~Ev 2137 (2191)
+ ++++|+|||||||||+|.||+++++. +++|||||||||||||
T Consensus 299 ---------------g-~r~~~n~IQGtAADi~k~Ami~l~~~---------------------g~~ivLqVHDElv~Ev 341 (378)
T cd08642 299 ---------------G-GKLVENIVQAIARDCLAEAMLRLEKA---------------------GYDIVMHVHDEVVIEV 341 (378)
T ss_pred ---------------h-HhhhhcccchhHHHHHHHHHHHHHhc---------------------CCeEEEEECceeEEee
Confidence 1 33566699999999999999999842 3689999999999999
Q ss_pred ChhhHHHHHHHHHHHHhcccCc--ccceEEEeeccCCc
Q 000107 2138 DPSVIKEAVSLVQKCMESAALL--LVPLLVKIQVGSTW 2173 (2191)
Q Consensus 2138 p~~~~~~v~~~vk~~Me~a~~l--~VPL~v~~~iG~sW 2173 (2191)
|+ .++.++.|+++|++++.| .|||.++..++..|
T Consensus 342 p~--~~~~~~~v~~iM~~~p~wa~~lPl~a~g~~~~~y 377 (378)
T cd08642 342 PE--GEGSLEEVNEIMAQPPPWAPGLPLNADGFESPYY 377 (378)
T ss_pred cc--chhHHHHHHHHHccCCccccCCcccccccccccc
Confidence 98 345788999999999998 69999999998877
No 16
>cd08639 DNA_pol_A_Aquificae_like Phylum Aquificae Pol A is different from Escherichia coli Pol A by three signature sequences. Family A polymerase functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication. DNA-dependent DNA polymerases can be classified in six main groups based upon phylogenetic relationships with E. coli polymerase I (classA), E. coli polymerase II (class B), E.coli polymerase III (class C), euryarchaaeota polymerase II (class D), human polymerase beta (class x), E. coli UmuC/DinB and eukaryotic RAP 30/Xeroderma pigmentosum variant (class Y). Family A polymerase are found primarily in organisms related to prokaryotes and include prokaryotic DNA polymerase I ,mitochondrial polymerase delta, and several bacteriphage polymerases including those from odd-numbered phage (T3, T5, and T7). Prokaryotic Pol Is have two functional domains located on the same polypeptide; a 5'-3' polymerase and 5'-3' exonuclease. Pol I uses its 5' nucleas
Probab=100.00 E-value=5.6e-72 Score=676.30 Aligned_cols=315 Identities=30% Similarity=0.439 Sum_probs=291.2
Q ss_pred cCHHHHHHHHHHHHHHHHHHHHHHHHHhCCcCCCCCHHHHHHHHHHhcCCCCCCCCCCCCCCCCCcHHHHHHhhhcCCcH
Q 000107 1756 VDMEGCLQARNLLQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHLKLPIPEGHNKGKQHPSTDKHCLDLLRHEHPIV 1835 (2191)
Q Consensus 1756 vD~~~l~~~~~~l~~~l~~le~~i~~l~G~~fnl~S~~ql~~vLf~~l~lp~~~~~~k~k~~~ST~~~vL~~L~~~hpi~ 1835 (2191)
+|.++|..+..+++.++..|+.++|. ..||++
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~------------------------------------------------~~~p~~ 32 (324)
T cd08639 1 LDLERWKELEKELERERQEAAKELYI------------------------------------------------EEHPAV 32 (324)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHhhh------------------------------------------------cCChHH
Confidence 68899999999999888888777662 259999
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHhhhhcCCCceeeccccccccccccccccCCCCccccccccccccccccccCCCcccc
Q 000107 1836 PVIKEHRTLAKLLNCTLGSICSLARISMSTQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVD 1915 (2191)
Q Consensus 1836 ~~ile~R~l~Kllsty~~~l~~~~~~~~~~~~grih~~~~q~gTaTGRlSss~PNLQNiPk~~~~~~~~~~g~~~~~~~~ 1915 (2191)
.+|+|||++.|+++||++++...+. ..+|||||+|+|++|+|||||+++|||||||++ .
T Consensus 33 ~~lle~r~~~kl~~t~~~~l~~~~~----~~~grih~~~~~~gt~TGRlS~~~PnlQniP~~----------~------- 91 (324)
T cd08639 33 RLLLEYRKLNKLISTFGEKLPKHIH----PVTGRIHPSFNQIGAASGRMSCSNPNLQQIPRE----------R------- 91 (324)
T ss_pred HHHHHHHHHhHHHHHHHHHHHHHcc----CCCCceeeeEEecccceeehhhccCccccCCCC----------c-------
Confidence 9999999999999999999876653 457999999999999999999999999999962 1
Q ss_pred cccccccccccccCCCeEEEEeccchhHHHHHHHhcCChHHHHHhcCCCchHHHHHHHHHcCCCCCCCChhhhcccchhh
Q 000107 1916 HCKINARDFFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDSVGSQERDQTKRLI 1995 (2191)
Q Consensus 1916 ~~~~~iR~~Fi~~~~G~~lvsaDySQIELRilAhlS~D~~Li~af~~~g~Dih~~~Aa~~~g~~~e~Vt~~~R~~AK~i~ 1995 (2191)
.+|++|+|+ +||+|+++||||||+|||||||+|+.|+++|++ |.|+|+.+|+.|||+|+++|++++|+.||++|
T Consensus 92 ----~iR~~f~a~-~G~~lv~aDysqiElRilA~ls~D~~l~~~~~~-g~Dih~~~A~~~~g~~~~~v~~~~R~~aK~~~ 165 (324)
T cd08639 92 ----EFRRCFVAP-EGNKLIIADYSQIELRIAAEISGDERMISAYQK-GEDLHRLTASLITGKPIEEITKEERQLAKAVN 165 (324)
T ss_pred ----ccceeEEcC-CCCEEEEechhhhHHHHHHHHhCCHHHHHHHhc-CCCHhHHHHHHHhCCChhhCCHHHHHHhhhHH
Confidence 599999997 999999999999999999999999999999998 89999999999999999999999999999999
Q ss_pred hhhhcCCChhhhhhhcC------CCHHHHHHHHHHHHHhChhHHHHHHHHHHHHHhcCeEEcccCCeeecCcccCCChhh
Q 000107 1996 YGILYGMGPNTLSEQLN------CSSNEAKEKIKSFKSSFPGVASWLHVAVSSCHQKGYVESLKGRKRFLSKIKFGNNKE 2069 (2191)
Q Consensus 1996 fGiiYGmG~~~La~~l~------is~~eA~~~i~~f~~~yp~v~~~~~~~~~~a~~~GyV~Tl~GRrr~lp~i~s~~~~~ 2069 (2191)
||++||||+++|+++++ ++.+||++++++||..||+|.+|++++. +++.|||+|++||||+++
T Consensus 166 fg~~YG~g~~~L~~~l~~~~g~~~s~~eA~~~~~~f~~~~p~v~~~~~~~~--a~~~g~v~Tl~GRrr~~~--------- 234 (324)
T cd08639 166 FGLIYGMSAKGLREYARTNYGVEMSLEEAEKFRESFFFFYKGILRWHHRLK--AKGPIEVRTLLGRRRVFE--------- 234 (324)
T ss_pred HHHHhCCchHHHHHHHhhhcCcCCCHHHHHHHHHHHHHhChhHHHHHHHHH--HhhcCeEECCCCCeeccc---------
Confidence 99999999999999764 9999999999999999999999999865 678899999999999984
Q ss_pred hhhhhhhhhHhhhHHHHHHHHHHHHHHHHHHHHcCCCCCCChhhhhhhccCCceeEEEEecceeeeeeChhhHHHHHHHH
Q 000107 2070 KSKAQRQAVNSICQGSAADIIKIAMINIHSIIVGGVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLV 2149 (2191)
Q Consensus 2070 r~~aeRqAvNt~iQGsAADI~K~Ami~i~~~l~~~~~~~~~~~~~~~~~~~~~~~lvlqVHDELv~Evp~~~~~~v~~~v 2149 (2191)
..++|+|+|++||||||||+|.||+++++++.. .+++|++||||||+||||++.+++++++|
T Consensus 235 -~~~~r~avN~~IQGsaADi~K~ami~i~~~l~~-----------------~~~~lvl~VHDElv~ev~~~~~~~~~~~i 296 (324)
T cd08639 235 -YFTFTEALNYPIQGTGADILKLALALLVDRLKD-----------------LDAKIVLCVHDEIVLEVPEDEAEEAKKIL 296 (324)
T ss_pred -chhhhhHhhhhhhhHHHHHHHHHHHHHHHHHhc-----------------CCCeEEeeeceeeeeecCHHHHHHHHHHH
Confidence 357899999999999999999999999998764 26799999999999999999999999999
Q ss_pred HHHHhcccC---cccceEEEeeccCCcc
Q 000107 2150 QKCMESAAL---LLVPLLVKIQVGSTWG 2174 (2191)
Q Consensus 2150 k~~Me~a~~---l~VPL~v~~~iG~sW~ 2174 (2191)
+++||++.. +.|||.|+++||+||+
T Consensus 297 ~~~Me~a~~~~~~~VPl~v~~~iG~sW~ 324 (324)
T cd08639 297 ESSMEEAGKRILKKVPVEVEVSISDSWA 324 (324)
T ss_pred HHHHHHHHHhcCCCCCeEEecccCCCCC
Confidence 999999985 4899999999999997
No 17
>cd06444 DNA_pol_A Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication. DNA polymerase family A, 5'-3' polymerase domain. Family A polymerase functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication. DNA-dependent DNA polymerases can be classified into six main groups based upon phylogenetic relationships with E. coli polymerase I (classA), E. coli polymerase II (class B), E.coli polymerase III (class C), euryarchaeota polymerase II (class D), human polymerase beta (class X), E. coli UmuC/DinB and eukaryotic RAP 30/Xeroderma pigmentosum variant (class Y). Family A polymerases are found primarily in organisms related to prokaryotes and include prokaryotic DNA polymerase I, mitochondrial polymerase gamma, and several bacteriophage polymerases including those from odd-numbered phage (T3, T5, and T7). Prokaryotic polymerase I (pol I) has two functional domains located on the same polypeptide; a 5'-
Probab=100.00 E-value=2.6e-71 Score=679.83 Aligned_cols=301 Identities=29% Similarity=0.429 Sum_probs=285.2
Q ss_pred CCcHHHHHHHHHHHHHHHhHHHHHHHHhhhhcCCCceeeccccccccccccccccCCCCccccccccccccccccccCCC
Q 000107 1832 HPIVPVIKEHRTLAKLLNCTLGSICSLARISMSTQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGN 1911 (2191)
Q Consensus 1832 hpi~~~ile~R~l~Kllsty~~~l~~~~~~~~~~~~grih~~~~q~gTaTGRlSss~PNLQNiPk~~~~~~~~~~g~~~~ 1911 (2191)
||++.+|+|||++.|+++||++.+...+. .+||||++|+|++|+|||||+++|||||||+. +..|+
T Consensus 26 hp~~~~ile~r~~~Kl~st~~~~~~~~~~-----~~gRih~~~~~~gT~TGRlSs~~PNlQniP~~------~~~g~--- 91 (347)
T cd06444 26 HPAVPLLLEYKKLAKLWSANGWPWLDQWV-----RDGRFHPEYVPGGTVTGRWASRGGNAQQIPRR------DPLGR--- 91 (347)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHhc-----ccCccccEEEEcccceeeeccCCCccccCCCC------Cchhh---
Confidence 99999999999999999999999876553 47999999999999999999999999999963 22344
Q ss_pred cccccccccccccccccCCCeEEEEeccchhHHHHHHHhcCChHHHHHhcCCCchHHHHHHHHHcCCCCCCCChhhhccc
Q 000107 1912 AEVDHCKINARDFFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDSVGSQERDQT 1991 (2191)
Q Consensus 1912 ~~~~~~~~~iR~~Fi~~~~G~~lvsaDySQIELRilAhlS~D~~Li~af~~~g~Dih~~~Aa~~~g~~~e~Vt~~~R~~A 1991 (2191)
.+|++|+|+ +||+||+|||||||||||||||+|+.|+++|++ |.|+|+.+|+.||++| |++++|+.|
T Consensus 92 --------~iR~~f~a~-~G~~lv~aDysqiElRilA~ls~D~~l~~~f~~-g~Dih~~~A~~~~~~~---v~~~~R~~A 158 (347)
T cd06444 92 --------DIRQAFVAD-PGWTLVVADASQLELRVLAALSGDEALAEAFGR-GGDLYTATASAMFGVP---VGGGERQHA 158 (347)
T ss_pred --------hhhheEecC-CCCEEEEechhHHHHHHHHHHhCCHHHHHHHhc-CCCHHHHHHHHHhCCC---CCHHHHHHH
Confidence 799999997 999999999999999999999999999999998 8999999999999998 899999999
Q ss_pred chhhhhhhcC----CChhhhhhhcCCCHHHHHHHHHHHHHhChhHHHHHHHHHHHHHhc---CeEEcccCCeeecCcccC
Q 000107 1992 KRLIYGILYG----MGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSSCHQK---GYVESLKGRKRFLSKIKF 2064 (2191)
Q Consensus 1992 K~i~fGiiYG----mG~~~La~~l~is~~eA~~~i~~f~~~yp~v~~~~~~~~~~a~~~---GyV~Tl~GRrr~lp~i~s 2064 (2191)
|++|||++|| ||+++|++.++++.+||++++++||++||+|++|++.+++.|++. |||+|++||||++|++++
T Consensus 159 K~~~fg~~YG~~~~~g~~~L~~~~~is~~ea~~~~~~f~~~~p~v~~~~~~~~~~a~~~~~~g~v~T~~GR~r~~~~~~~ 238 (347)
T cd06444 159 KIANLGAMYGATSGISARLLAQLRRISTKEAAALIELFFSRFPAFPKAMEYVEDAARRGERGGYVRTLLGRRSPPPDIRW 238 (347)
T ss_pred HHHHHHHHhCCchhhhHHHHHHHhCCCHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhccCCceEEEeCCcEeecCCCcc
Confidence 9999999999 999999999999999999999999999999999999999999998 999999999999999987
Q ss_pred -----------CChhhhhhhhhhhhHhhhHHHHHHHHHHHHHHHHHHHHcCCCCCCChhhhhhhccCCceeEEEEeccee
Q 000107 2065 -----------GNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIVGGVYKPDSSLAANFQMLKGRCRLLLQVHDEL 2133 (2191)
Q Consensus 2065 -----------~~~~~r~~aeRqAvNt~iQGsAADI~K~Ami~i~~~l~~~~~~~~~~~~~~~~~~~~~~~lvlqVHDEL 2133 (2191)
.++..+..++|+|+|++||||||||+|.||+++++.+.+. +.+++||+||||||
T Consensus 239 ~~~~~~~~~~~~~~~~~~~~~r~a~N~~IQGsaADi~K~ami~~~~~l~~~---------------~~~~~lvl~VHDEl 303 (347)
T cd06444 239 TEVVSDPAAASRARRVRRAAGRFARNFVVQGTAADWAKLAMVALRRRLEEL---------------ALDARLVFFVHDEV 303 (347)
T ss_pred cccccccccccccHHHHHHhHHHHhhhhhhhHHHHHHHHHHHHHHHHHHhc---------------CCCcEEEEEEccce
Confidence 6778889999999999999999999999999999998764 45789999999999
Q ss_pred eeeeChhhHHHHHHHHHHHHhccc---CcccceEEEeeccCCcc
Q 000107 2134 VLEVDPSVIKEAVSLVQKCMESAA---LLLVPLLVKIQVGSTWG 2174 (2191)
Q Consensus 2134 v~Evp~~~~~~v~~~vk~~Me~a~---~l~VPL~v~~~iG~sW~ 2174 (2191)
+||||++.+++++.+|+++|+++. .+.|||.|++++|+||+
T Consensus 304 v~evp~~~~~~~~~~l~~~M~~~~~~~~~~vPl~v~~~ig~~W~ 347 (347)
T cd06444 304 VLHCPKEEAEAVAAIVREAAEQAVRLLFGSVPVRFPVKIGVVWR 347 (347)
T ss_pred EEEeCHHHHHHHHHHHHHHHHHHhhccCCCCCEEEEeeecCCCC
Confidence 999999999999999999999998 58999999999999995
No 18
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=100.00 E-value=4.6e-57 Score=569.91 Aligned_cols=511 Identities=26% Similarity=0.356 Sum_probs=400.6
Q ss_pred cCCCCCCccCCCCCCCCCC---CcCCcCCCCcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHH
Q 000107 482 VGNEKSDEAGTPSSSGMLK---DCLDLSSWLPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVA 558 (2191)
Q Consensus 482 i~~~~~~e~~~P~~~~~~~---e~l~L~~~Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlva 558 (2191)
+.+..+.++..|...+.+. ..+..+. ||.-... .-++|..++.+|.+|++. ++..+.|+|||||||||||-+|
T Consensus 68 ~~~~~~eE~~~P~s~~~~~~~~k~~~isd-ld~~~rk--~~f~f~~fN~iQS~vFp~-aY~SneNMLIcAPTGsGKT~la 143 (1230)
T KOG0952|consen 68 EDYKTYEEVKIPASVPMPMDGEKLLSISD-LDDVGRK--GFFSFEEFNRIQSEVFPV-AYKSNENMLICAPTGSGKTVLA 143 (1230)
T ss_pred cccCcceEEecCccCCCccccccceeEEe-cchhhhh--hcccHHHHHHHHHHhhhh-hhcCCCCEEEECCCCCCchHHH
Confidence 4455666777777766652 2233322 5544332 235788999999999995 5778999999999999999999
Q ss_pred HHHHHHHHHh---------cCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCC-CCCCCceEEEchHHHH
Q 000107 559 EILMLRRLIS---------TGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGS-LPKDTSVAVCTIEKAN 628 (2191)
Q Consensus 559 el~iL~~ll~---------~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~-l~~~~~IiV~TpEkl~ 628 (2191)
+|.||+.+.+ ++-|+|||+|.+|||.|+++.|.+.+..+|++|..++|+..... --.+++|+|+|||||+
T Consensus 144 ~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~~~~~kkl~~~gi~v~ELTGD~ql~~tei~~tqiiVTTPEKwD 223 (1230)
T KOG0952|consen 144 ELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVDKFSKKLAPLGISVRELTGDTQLTKTEIADTQIIVTTPEKWD 223 (1230)
T ss_pred HHHHHHHHHhhccccccccCCceEEEEechHHHHHHHHHHHhhhcccccceEEEecCcchhhHHHHHhcCEEEeccccee
Confidence 9999999875 56699999999999999999999999999999999999975322 1356899999999999
Q ss_pred HHHHHhhhcC-CCCccceEEEcccccccccchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEec
Q 000107 629 SLVNRMLEEG-RLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSA 707 (2191)
Q Consensus 629 ~Ll~~l~~~~-~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSA 707 (2191)
-+.|++.... .++.|++|||||+|+|.|. ||+.+|.|++|+.+.... ....+||||+||
T Consensus 224 vvTRk~~~d~~l~~~V~LviIDEVHlLhd~-RGpvlEtiVaRtlr~ves-------------------sqs~IRivgLSA 283 (1230)
T KOG0952|consen 224 VVTRKSVGDSALFSLVRLVIIDEVHLLHDD-RGPVLETIVARTLRLVES-------------------SQSMIRIVGLSA 283 (1230)
T ss_pred eeeeeeccchhhhhheeeEEeeeehhhcCc-ccchHHHHHHHHHHHHHh-------------------hhhheEEEEeec
Confidence 8888765444 4677999999999999986 999999999998765321 236799999999
Q ss_pred cCCCHHHHHHHhhcc------ccccccccccceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCc
Q 000107 708 TMPNVAAVADWLQAA------LYETNFRPVPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHS 781 (2191)
Q Consensus 708 TL~N~~~la~wL~a~------l~~~~~RpvpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~ 781 (2191)
|+||.+++|.||+.. .|...|||+|++..+..-... +.......+ ......-+.+.+.+|++
T Consensus 284 TlPN~eDvA~fL~vn~~~glfsFd~~yRPvpL~~~~iG~k~~--~~~~~~~~~----------d~~~~~kv~e~~~~g~q 351 (1230)
T KOG0952|consen 284 TLPNYEDVARFLRVNPYAGLFSFDQRYRPVPLTQGFIGIKGK--KNRQQKKNI----------DEVCYDKVVEFLQEGHQ 351 (1230)
T ss_pred cCCCHHHHHHHhcCCCccceeeecccccccceeeeEEeeecc--cchhhhhhH----------HHHHHHHHHHHHHcCCe
Confidence 999999999999974 457899999999776522111 111111011 11233445566788999
Q ss_pred EEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHH
Q 000107 782 VLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVV 861 (2191)
Q Consensus 782 vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~V 861 (2191)
++|||++|+.+.+.|+.|.+.....+...... +...+..|.++..+|+++||+||...+|..+
T Consensus 352 VlvFvhsR~~Ti~tA~~l~~~a~~~g~~~~f~-----------------~~~~~k~l~elf~~g~~iHhAGm~r~DR~l~ 414 (1230)
T KOG0952|consen 352 VLVFVHSRNETIRTAKKLRERAETNGEKDLFL-----------------PSPRNKQLKELFQQGMGIHHAGMLRSDRQLV 414 (1230)
T ss_pred EEEEEecChHHHHHHHHHHHHHHhcCcccccC-----------------CChhhHHHHHHHHhhhhhcccccchhhHHHH
Confidence 99999999999999999988765543321110 1113567888999999999999999999999
Q ss_pred HHHhhcCCceEEEecccccccCCCCCceEEeecCCC------CCcccCcccccccccccCCCCCCCceEEEEEeChhhHH
Q 000107 862 ETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRI------GRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVK 935 (2191)
Q Consensus 862 e~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~~------g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~ 935 (2191)
|..|..|.++|||||+|++||||||+.-|||..... +-..+...+.+|+.|||||+++|..|+++++++.+...
T Consensus 415 E~~F~~G~i~vL~cTaTLAwGVNLPA~aViIKGT~~ydsskg~f~dlgilDVlQifGRAGRPqFd~~G~giIiTt~dkl~ 494 (1230)
T KOG0952|consen 415 EKEFKEGHIKVLCCTATLAWGVNLPAYAVIIKGTQVYDSSKGSFVDLGILDVLQIFGRAGRPQFDSSGEGIIITTRDKLD 494 (1230)
T ss_pred HHHHhcCCceEEEecceeeeccCCcceEEEecCCcccccccCceeeehHHHHHHHHhccCCCCCCCCceEEEEecccHHH
Confidence 999999999999999999999999999999963321 11224455779999999999999999999999999999
Q ss_pred HHHhhhccCCCCcccccccccchhhHHHHHHHhcccccCHHHHHHHHHhhhcCCC---Ccch----------------hH
Q 000107 936 KIMGLLNESCPPLHSCLSEDKNGMTHAILEVVAGGIVQTAEDIHRYVRCTLLNST---KPFQ----------------DV 996 (2191)
Q Consensus 936 ~~~~ll~~~l~~l~S~L~~~~~~l~~~iLeiia~gi~~t~~di~~~l~~tll~~~---~~~~----------------~~ 996 (2191)
.|..+|.+.- +++|.|.. .+.+.+...|+.|.+.+.+...+|+.|||++.. +|.. ..
T Consensus 495 ~Y~sLl~~~~-piES~~~~---~L~dnLnAEi~LgTVt~VdeAVeWL~yTylYVRm~KNP~~Ygi~~~~l~~dp~l~s~~ 570 (1230)
T KOG0952|consen 495 HYESLLTGQN-PIESQLLP---CLIDNLNAEISLGTVTNVDEAVEWLKYTYLYVRMRKNPMAYGISYEELEPDPRLESHR 570 (1230)
T ss_pred HHHHHHcCCC-hhHHHHHH---HHHHhhhhheeeceeecHHHHHHHhhceeEEEEeccChHHhhhhhhcccCCchHHHHH
Confidence 9999998875 78888865 344556677889999999999999999999732 2211 11
Q ss_pred HHHHHHHHHHHHHcccceeccCCCccCCCHHHHHHHhcCCChhhHHHHHHHHh
Q 000107 997 VKSAQDSLRWLCHRKFLEWNEDTKLYSTTPLGRAAFGSSLCPEESLIVLDDLS 1049 (2191)
Q Consensus 997 ~~~~~~al~~L~~~~~i~~~~~~~~~~~T~LG~a~~~s~L~p~~a~~l~~~L~ 1049 (2191)
.+-+..+++.|....+|+.+..+.+|.+|.+||.++..||.-++...+.+..+
T Consensus 571 ~~l~~~~~~~L~~~qmi~~D~~t~~~~stdlGR~aS~yYik~ETme~~nn~~k 623 (1230)
T KOG0952|consen 571 RELCLVAAMELDKVQMIRFDERTGYLKSTDLGRVASNYYIKYETMETFNNLPK 623 (1230)
T ss_pred HHHHHHHHHHhhhhheEEEecccceEcccchhhhhhhhhhhhHHHHHHHhccc
Confidence 23456788888888999988888899999999999999999886665555443
No 19
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=100.00 E-value=6.2e-54 Score=512.03 Aligned_cols=590 Identities=24% Similarity=0.354 Sum_probs=436.8
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHH
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAE 588 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~ 588 (2191)
+|+.+.+.++..|++.|.|+|.-|+.. ++++|+|++|.++|+||||++++++-+..++..|++.||++|.++||+|+++
T Consensus 201 ipe~fk~~lk~~G~~eLlPVQ~laVe~-GLLeG~nllVVSaTasGKTLIgElAGi~~~l~~g~KmlfLvPLVALANQKy~ 279 (830)
T COG1202 201 IPEKFKRMLKREGIEELLPVQVLAVEA-GLLEGENLLVVSATASGKTLIGELAGIPRLLSGGKKMLFLVPLVALANQKYE 279 (830)
T ss_pred CcHHHHHHHHhcCcceecchhhhhhhh-ccccCCceEEEeccCCCcchHHHhhCcHHHHhCCCeEEEEehhHHhhcchHH
Confidence 789999999999999999999999985 8999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhccCCeEEEEeccCCC--------CCCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchh
Q 000107 589 HLEVLLEPLGRHVRSYYGNQGG--------GSLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRG 660 (2191)
Q Consensus 589 ~l~~l~~~lg~~V~~~~G~~~~--------~~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG 660 (2191)
+|++.+.++|++|..-.|-... .....+.||||+|+|-++.+++. ...+.+|+.|||||+|++.|..||
T Consensus 280 dF~~rYs~LglkvairVG~srIk~~~~pv~~~t~~dADIIVGTYEGiD~lLRt---g~~lgdiGtVVIDEiHtL~deERG 356 (830)
T COG1202 280 DFKERYSKLGLKVAIRVGMSRIKTREEPVVVDTSPDADIIVGTYEGIDYLLRT---GKDLGDIGTVVIDEIHTLEDEERG 356 (830)
T ss_pred HHHHHhhcccceEEEEechhhhcccCCccccCCCCCCcEEEeechhHHHHHHc---CCcccccceEEeeeeeeccchhcc
Confidence 9999999999998877775421 12345789999999999999985 378999999999999999999999
Q ss_pred HHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhccccccccccccceEEEEec
Q 000107 661 YLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQAALYETNFRPVPLEEYIKVG 740 (2191)
Q Consensus 661 ~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a~l~~~~~RpvpL~e~i~~~ 740 (2191)
+.++-++.+||+.. +..|+|++|||+.|++++++.|++.++..+.||||++.++.+.
T Consensus 357 ~RLdGLI~RLr~l~-----------------------~~AQ~i~LSATVgNp~elA~~l~a~lV~y~~RPVplErHlvf~ 413 (830)
T COG1202 357 PRLDGLIGRLRYLF-----------------------PGAQFIYLSATVGNPEELAKKLGAKLVLYDERPVPLERHLVFA 413 (830)
T ss_pred cchhhHHHHHHHhC-----------------------CCCeEEEEEeecCChHHHHHHhCCeeEeecCCCCChhHeeeee
Confidence 99999999999984 5689999999999999999999999999999999999887643
Q ss_pred cccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHh----c--CCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCC
Q 000107 741 NAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQ----E--GHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSD 814 (2191)
Q Consensus 741 ~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~----~--g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~ 814 (2191)
..-. .+.+.+..|+..... . .+++|||++||+.|..+|..|... +
T Consensus 414 ~~e~------------------eK~~ii~~L~k~E~~~~sskg~rGQtIVFT~SRrr~h~lA~~L~~k----G------- 464 (830)
T COG1202 414 RNES------------------EKWDIIARLVKREFSTESSKGYRGQTIVFTYSRRRCHELADALTGK----G------- 464 (830)
T ss_pred cCch------------------HHHHHHHHHHHHHHhhhhccCcCCceEEEecchhhHHHHHHHhhcC----C-------
Confidence 2211 122334444443332 2 379999999999999999887431 1
Q ss_pred chhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeec
Q 000107 815 SEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQ 894 (2191)
Q Consensus 815 ~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~ 894 (2191)
..++++|+||+..+|+.||.+|.++.+.++|+|..|++|||+|+..||+.+
T Consensus 465 -----------------------------~~a~pYHaGL~y~eRk~vE~~F~~q~l~~VVTTAAL~AGVDFPASQVIFEs 515 (830)
T COG1202 465 -----------------------------LKAAPYHAGLPYKERKSVERAFAAQELAAVVTTAALAAGVDFPASQVIFES 515 (830)
T ss_pred -----------------------------cccccccCCCcHHHHHHHHHHHhcCCcceEeehhhhhcCCCCchHHHHHHH
Confidence 127789999999999999999999999999999999999999999999999
Q ss_pred CCCCCcccCcccccccccccCCCCCCCceEEEEEeChh----------hHHHHHhhhccCCCCcccccccccchhhHHHH
Q 000107 895 PRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPE----------EVKKIMGLLNESCPPLHSCLSEDKNGMTHAIL 964 (2191)
Q Consensus 895 p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~----------e~~~~~~ll~~~l~~l~S~L~~~~~~l~~~iL 964 (2191)
-.+|.+|+++.+|.||.|||||++++..|.+|+++.+. +-+...++|+..++|+.-...++.. ...+|
T Consensus 516 LaMG~~WLs~~EF~QM~GRAGRp~yHdrGkVyllvepg~~Y~~~m~~TEdevA~kLL~s~~e~V~vey~ee~e--~e~vL 593 (830)
T COG1202 516 LAMGIEWLSVREFQQMLGRAGRPDYHDRGKVYLLVEPGKKYHASMEETEDEVAFKLLESEPEPVIVEYDEEDE--EENVL 593 (830)
T ss_pred HHcccccCCHHHHHHHhcccCCCCcccCceEEEEecCChhhcccccccHHHHHHHHhcCCCCcceeccCcHHH--HHHHH
Confidence 89999999999999999999999999999999998762 2344567999998888766654322 22234
Q ss_pred HHHhcccccCHHHHHHHHHhhhcCCCCcchhHHHHHHHHHHHHHHcccceeccCCCccCCCHHHHHHHhcCCChhhHHHH
Q 000107 965 EVVAGGIVQTAEDIHRYVRCTLLNSTKPFQDVVKSAQDSLRWLCHRKFLEWNEDTKLYSTTPLGRAAFGSSLCPEESLIV 1044 (2191)
Q Consensus 965 eiia~gi~~t~~di~~~l~~tll~~~~~~~~~~~~~~~al~~L~~~~~i~~~~~~~~~~~T~LG~a~~~s~L~p~~a~~l 1044 (2191)
. ..|+..+..+|.+.-+.++-..-. ...+|..|.+.|||..+ ++.+.+|+.|++++.+-|.|..|..+
T Consensus 594 A--~~~v~~s~~~i~~v~~~~~g~~~~--------~~k~l~~Lee~g~i~~~--G~~v~~T~yGrava~~Fl~p~~a~~I 661 (830)
T COG1202 594 A--SAGVTNSLSVIERVNSLMLGAAFD--------PKKALSKLEEYGMIKKK--GNIVRPTPYGRAVAMSFLGPSEAEFI 661 (830)
T ss_pred H--HhhhcCcHHHHhhcChhhccccCC--------HHHHHHHHHhcCCeecc--CCEeeeccccceeEEeecCchHHHHH
Confidence 3 456677888887765545443221 24578899999999643 44589999999999999999999999
Q ss_pred HHHHhhhcccccccCccceeeeeccCCCCCCCcHHHHHHHHHhhhhhhhhhhcccCCCHH-----HHHHHhcCCCccccc
Q 000107 1045 LDDLSRAREGFVLASDLHLVYLSTPINVEVEPDWELYYERFLELSALDQSVGNQVGVSEP-----YLMRMAHGAPMRISS 1119 (2191)
Q Consensus 1045 ~~~L~~a~~~~vl~~dlhllylvtp~~~~~~~dw~~~~~~~~~l~~~~~~v~~~~Gv~e~-----~l~~~~~~~~~~~~~ 1119 (2191)
.+.+-..+. .+.+.-.+.|+....-+. .+- ..++.. + +..+.-. ++.-...+..+.
T Consensus 662 r~~v~~~~~------pl~i~~~l~pfE~ayls~--~l~---r~i~~~---~--~~~vpsr~f~~a~~~I~~e~d~ii--- 722 (830)
T COG1202 662 REGVLASMD------PLRIAAELEPFENAYLSG--FLK---RAIESA---L--RGRVPSRLFDSALLDILEEGDKII--- 722 (830)
T ss_pred HHhhhccCC------hHhHhhccccccccccCh--HHH---HHHHHH---h--cCCCchhhhhHHHHHHHhchhhhh---
Confidence 888644333 334333344542111111 010 011100 0 0111111 111111111000
Q ss_pred cccccccCccchhhhhh-cc---ccCCCcchhHHHHHHHHHHHHHHHHHHhcCCCHHHHHH----HhCCC--cchHHHHH
Q 000107 1120 KLRDSTKGLHGKLEYRL-GI---TSNNMLSDAQTLRVCKRFYVALILSRLVQETPVLEVCE----TFKVA--RGMVQALQ 1189 (2191)
Q Consensus 1120 ~~~~~~~~~~~~~~~~~-~~---~~~~~~~~~~~~~~~~rfy~al~L~dli~e~~~~~i~~----~y~v~--rG~lq~l~ 1189 (2191)
.+.+++...+ .+ ...+.-.| ......+...-+++.-=++.....+|.+ +|||. +|||-+-+
T Consensus 723 -------~ld~k~~e~l~~i~~df~~c~c~d--~ce~~~~~lse~ii~lR~~gk~p~~Isr~l~~~Ygi~aYpgDif~wL 793 (830)
T COG1202 723 -------ELDPKLKEKLLLIYMDFLNCTCRD--CCECAEQRLSEKIIELRIEGKDPSQISRILEKRYGIQAYPGDIFTWL 793 (830)
T ss_pred -------cCCHHHHHHHHHHHHHHhcCchhh--hHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHhhCeeecChhHHHHH
Confidence 1111111100 00 00000000 0111112222344444456666666664 68865 89999999
Q ss_pred HHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcc
Q 000107 1190 ENAGRFASMVSVFCERLGWYDLEGLIAKFQNRVSFG 1225 (2191)
Q Consensus 1190 ~~a~~~a~~v~~fc~~lg~~~~~~ll~~~~~RL~~G 1225 (2191)
+++-+..-++-+++...+-..++.....+.+.+.-|
T Consensus 794 d~~vr~Lea~~rIArvf~kr~~~~ea~~lk~~ie~~ 829 (830)
T COG1202 794 DTLVRLLEAIGRIARVFKKREVEAEAKALKKKIEEG 829 (830)
T ss_pred HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhcC
Confidence 999999999999999988777777777777766544
No 20
>cd08641 DNA_pol_gammaA Pol gammaA is a family A polymerase that is responsible for DNA replication and repair in mitochondria. DNA polymerase gamma (Pol gamma), 5'-3' polymerase domain (Pol gammaA). Pol gammaA is a family A polymerase that is responsible for DNA replication and repair in mitochondria. Family A polymerase functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication. DNA-dependent DNA polymerases can be classified into six main groups based upon phylogenetic relationships with E. coli polymerase I (classA), E. coli polymerase II (class B), E.coli polymerase III (class C), euryarchaeota polymerase II (class D), human polymerase beta (class X), E. coli UmuC/DinB and eukaryotic RAP 30/Xeroderma pigmentosum variant (class Y). Family A polymerases are found primarily in organisms related to prokaryotes and include prokaryotic DNA polymerase I, mitochondrial polymerase gammaA, and several bacteriophage polymerases including those from odd-nu
Probab=100.00 E-value=4.4e-56 Score=526.74 Aligned_cols=249 Identities=22% Similarity=0.243 Sum_probs=232.0
Q ss_pred CCceeeccccccccccccc------cccCCCCccccccccccccccccccCCCcccccccccccccccccCCCeEEEEec
Q 000107 1865 TQKYTLHGHWLQTSTATGR------LSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINARDFFIPSQENWILLAAD 1938 (2191)
Q Consensus 1865 ~~~grih~~~~q~gTaTGR------lSss~PNLQNiPk~~~~~~~~~~g~~~~~~~~~~~~~iR~~Fi~~~~G~~lvsaD 1938 (2191)
..+|||||.+.+.||+||| +|+++||.+++|+ .||++|+|+ |||+||+||
T Consensus 94 ~~~Gri~p~~~~~GtvTgRa~~~tW~tas~~~~~~iG~-----------------------eiR~aF~ap-~G~~lVgAD 149 (425)
T cd08641 94 PGYGAILPQVVPMGTITRRAVEPTWLTASNAKKNRVGS-----------------------ELKAMVQAP-PGYSFVGAD 149 (425)
T ss_pred CCCCeEeeeeecCcccccccccccccccCCCCcchhhH-----------------------HHHhheecC-CCCEEEEEc
Confidence 4579999999999999999 8889999999985 699999996 999999999
Q ss_pred cchhHHHHHHHhcCChHHH-----HHh---------cCCCchHHHHHHHHHcCCCCCCCChhhhcccchhhhhhhcCCC-
Q 000107 1939 YSQIELRLMAHFSKDPALI-----GLL---------SKPHGDVFTMIAARWTGRSEDSVGSQERDQTKRLIYGILYGMG- 2003 (2191)
Q Consensus 1939 ySQIELRilAhlS~D~~Li-----~af---------~~~g~Dih~~~Aa~~~g~~~e~Vt~~~R~~AK~i~fGiiYGmG- 2003 (2191)
|||||||| ||+|+|+.|+ ++| .+ |.|||+.||+ +||++ |+.||++|||+|||||
T Consensus 150 ySQiELRi-A~lsgD~~l~~~~~~~AF~~~~l~g~k~~-g~DIH~~TA~-i~gis--------R~~AK~~NfG~IYG~g~ 218 (425)
T cd08641 150 VDSQELWI-ASVLGDAHFGGIHGATAIGWMTLQGKKSE-GTDLHSKTAS-ILGIS--------RDHAKVFNYGRIYGAGQ 218 (425)
T ss_pred hhHHHHHH-HHHcCCHhhhhccccchhhhhhhcccccC-CCCHHHHHHH-HhCCC--------HHHhHHHHHHHHHCCCc
Confidence 99999998 9999999999 899 66 8999999999 88974 9999999999999999
Q ss_pred --hhhhhhhcC--CCHHHHHHHHHHHHHhChhHHH-----------------------HHHHHHH-HHHhcCeEEcccCC
Q 000107 2004 --PNTLSEQLN--CSSNEAKEKIKSFKSSFPGVAS-----------------------WLHVAVS-SCHQKGYVESLKGR 2055 (2191)
Q Consensus 2004 --~~~La~~l~--is~~eA~~~i~~f~~~yp~v~~-----------------------~~~~~~~-~a~~~GyV~Tl~GR 2055 (2191)
+++|+++++ +|.+||++++++||++||||+. |++++++ .|+++||++|++||
T Consensus 219 ~~a~~L~~~l~~~is~~EA~~~i~~yF~~y~gVr~~~~~~~~~~~~~~~~~w~gg~es~m~n~le~~A~~~g~~tTllGr 298 (425)
T cd08641 219 PFAERLLMQFNPRLTPAEATEKAKQMYAATKGIRIAIQRSTKGKRLFKRPFWSGGSESIMFNKLEEIAAQSQPRTPVLGA 298 (425)
T ss_pred hhhHHHHHHhcCcCCHHHHHHHHHHHHHhCcChhhhhcccccccccccccccccchHHHHHHHHHHHHHhcCCCcCccCC
Confidence 899999999 9999999999999999999999 9999999 99999999999999
Q ss_pred eeecCcccCCChhhhhhhhhhhhHhhhHHHHHHHHHHHHHHHHHHHHcCCCCCCChhhhhhhccCCceeEEEEecceeee
Q 000107 2056 KRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIVGGVYKPDSSLAANFQMLKGRCRLLLQVHDELVL 2135 (2191)
Q Consensus 2056 rr~lp~i~s~~~~~r~~aeRqAvNt~iQGsAADI~K~Ami~i~~~l~~~~~~~~~~~~~~~~~~~~~~~lvlqVHDELv~ 2135 (2191)
| ++|+|++.|...+.. +|.|+|+|||||||||+|+|||.++..|..+ +.+++|+|||||||+|
T Consensus 299 r-~~~~l~s~n~~~~~~-~rsaIN~pIQGSAADiiKlaMV~m~~~l~~~---------------~i~aRmlLqVHDEL~f 361 (425)
T cd08641 299 C-ITSALLEPNLVKNEF-MTSRINWVVQSSAVDYLHLMLVSMRWLIEKY---------------DIDARFCISIHDEVRY 361 (425)
T ss_pred E-echhhcccchhHHHH-HHHHhcccchhhHHHHHHHHHHHHHHHHHhc---------------CCCceEEEEECeEeee
Confidence 9 999999999988877 9999999999999999999999999999875 5688999999999999
Q ss_pred eeChhh------HHHHHHHHHHHHhcccCc---ccceEEE
Q 000107 2136 EVDPSV------IKEAVSLVQKCMESAALL---LVPLLVK 2166 (2191)
Q Consensus 2136 Evp~~~------~~~v~~~vk~~Me~a~~l---~VPL~v~ 2166 (2191)
|||+++ +.++..++.++|. |.++ .||-.|.
T Consensus 362 eV~eed~yr~alalqi~nlltram~-a~~lg~~dlPqs~a 400 (425)
T cd08641 362 LVKEEDKYRAALALQITNLLTRAMF-AQKLGINDLPQSVA 400 (425)
T ss_pred eccHHHHHHHHHHHHHHHHHHHHHH-HHHhccccCCcchh
Confidence 999998 6778888999999 7776 5777654
No 21
>smart00482 POLAc DNA polymerase A domain.
Probab=100.00 E-value=6.1e-53 Score=483.91 Aligned_cols=204 Identities=43% Similarity=0.673 Sum_probs=197.9
Q ss_pred cccccccccCCCeEEEEeccchhHHHHHHHhcCChHHHHHhcCCCchHHHHHHHHHcCCCCCCCChhhhcccchhhhhhh
Q 000107 1920 NARDFFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDSVGSQERDQTKRLIYGIL 1999 (2191)
Q Consensus 1920 ~iR~~Fi~~~~G~~lvsaDySQIELRilAhlS~D~~Li~af~~~g~Dih~~~Aa~~~g~~~e~Vt~~~R~~AK~i~fGii 1999 (2191)
++|++|+|+ +||+||++||||||||||||||+|+.|+++|++ |.|+|+.+|+.|||+|+++|++++|+.||++|||++
T Consensus 3 ~iR~~f~a~-~G~~lv~~DysqiElRilA~ls~D~~l~~~~~~-g~D~h~~~A~~~~g~~~~~v~~~~R~~aK~~~~g~~ 80 (206)
T smart00482 3 EIRRAFVAP-PGYVLVSADYSQIELRILAHLSGDENLLEAFNN-GGDIHSKTAAQVFGVPEEEVTKELRRAAKAINFGII 80 (206)
T ss_pred hhhheeeCC-CCCEEEEeeHHHHHHHHHHHHcCCHHHHHHHhc-CCCHHHHHHHHHhCCChhhCCHHHHHHHhHHHHHhh
Confidence 699999997 999999999999999999999999999999998 899999999999999999999999999999999999
Q ss_pred cCCChhhhhhhcCCCHHHHHHHHHHHHHhChhHHHHHHHHHHHHHhcCeEEcccCCeeecCcccCCChhhhhhhhhhhhH
Q 000107 2000 YGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSSCHQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVN 2079 (2191)
Q Consensus 2000 YGmG~~~La~~l~is~~eA~~~i~~f~~~yp~v~~~~~~~~~~a~~~GyV~Tl~GRrr~lp~i~s~~~~~r~~aeRqAvN 2079 (2191)
||||+.+||+++|+|.+||++++++||++||+|++|++++.+.|+++|||+|++||||++|++++.+...++.++|+|+|
T Consensus 81 YG~g~~~la~~lg~s~~ea~~~~~~f~~~~p~v~~~~~~~~~~a~~~g~v~t~~Gr~r~~~~~~~~~~~~~~~~~r~a~N 160 (206)
T smart00482 81 YGMGAKGLAEQLGISEAEAKELIKAYFARFPGVKRYIKRTLEEARRKGYVTTLFGRRRYIPDIDSRNPVLRAAAERAAVN 160 (206)
T ss_pred hccchhHHHHHcCCCHHHHHHHHHHHHHHCccHHHHHHHHHHHHHhCCEEEecCCCeeeCCCCCCCCHHHHhHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHcCCCCCCChhhhhhhccCCceeEEEEecceeeeeeChh
Q 000107 2080 SICQGSAADIIKIAMINIHSIIVGGVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPS 2140 (2191)
Q Consensus 2080 t~iQGsAADI~K~Ami~i~~~l~~~~~~~~~~~~~~~~~~~~~~~lvlqVHDELv~Evp~~ 2140 (2191)
++||||||||+|.||+++++.+... +.+++|++||||||+||||++
T Consensus 161 ~~iQgsaAdi~k~am~~~~~~~~~~---------------~~~~~~vl~vHDElv~evp~~ 206 (206)
T smart00482 161 APIQGSAADILKLAMIKMDEALKEK---------------GLRARLLLQVHDELVFEVPEE 206 (206)
T ss_pred HhhhhHHHHHHHHHHHHHHHHHHhc---------------CCCceEEEeeceeEEeecCCC
Confidence 9999999999999999999998864 447899999999999999974
No 22
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=100.00 E-value=3.5e-50 Score=510.38 Aligned_cols=654 Identities=25% Similarity=0.354 Sum_probs=458.5
Q ss_pred CCCccCCCCCCCCCCC---cCCcCCCCcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHH
Q 000107 486 KSDEAGTPSSSGMLKD---CLDLSSWLPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILM 562 (2191)
Q Consensus 486 ~~~e~~~P~~~~~~~e---~l~L~~~Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~i 562 (2191)
.+.++++|.....++. .+.--.-+|..-..+| .|...|+++|..+... ++....|+++|||||+|||.+|++-|
T Consensus 270 ~yeevhVPa~~~~pf~~~Ekl~~iselP~Wnq~aF--~g~~sLNrIQS~v~da-Al~~~EnmLlCAPTGaGKTNVAvLti 346 (1674)
T KOG0951|consen 270 GYEEVHVPAPSYFPFHKEEKLVKISELPKWNQPAF--FGKQSLNRIQSKVYDA-ALRGDENMLLCAPTGAGKTNVAVLTI 346 (1674)
T ss_pred CceEEeCCCCCCCCCCccceeEeecCCcchhhhhc--ccchhhhHHHHHHHHH-HhcCcCcEEEeccCCCCchHHHHHHH
Confidence 4456677765533321 1111111454444454 4677899999999875 45567999999999999999999999
Q ss_pred HHHHHhc----------CCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCC-CCCCCceEEEchHHHHHHH
Q 000107 563 LRRLIST----------GKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGS-LPKDTSVAVCTIEKANSLV 631 (2191)
Q Consensus 563 L~~ll~~----------g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~-l~~~~~IiV~TpEkl~~Ll 631 (2191)
|+.+... ..+++||+|.++|++++...|.+.+..+|++|..++|+...+. .-..++|+|||||+++-+.
T Consensus 347 Lqel~~h~r~dgs~nl~~fKIVYIAPmKaLvqE~VgsfSkRla~~GI~V~ElTgD~~l~~~qieeTqVIV~TPEK~DiIT 426 (1674)
T KOG0951|consen 347 LQELGNHLREDGSVNLAPFKIVYIAPMKALVQEMVGSFSKRLAPLGITVLELTGDSQLGKEQIEETQVIVTTPEKWDIIT 426 (1674)
T ss_pred HHHHhcccccccceecccceEEEEeeHHHHHHHHHHHHHhhccccCcEEEEecccccchhhhhhcceeEEeccchhhhhh
Confidence 9998652 2389999999999999999999999999999999999865332 2346899999999998877
Q ss_pred HHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC
Q 000107 632 NRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN 711 (2191)
Q Consensus 632 ~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N 711 (2191)
++--.....+-++++||||+|++.|. ||+.+|.+..+....... ....+++||+|||+||
T Consensus 427 Rk~gdraY~qlvrLlIIDEIHLLhDd-RGpvLESIVaRt~r~ses-------------------~~e~~RlVGLSATLPN 486 (1674)
T KOG0951|consen 427 RKSGDRAYEQLVRLLIIDEIHLLHDD-RGPVLESIVARTFRRSES-------------------TEEGSRLVGLSATLPN 486 (1674)
T ss_pred cccCchhHHHHHHHHhhhhhhhcccc-cchHHHHHHHHHHHHhhh-------------------cccCceeeeecccCCc
Confidence 76333345567899999999999886 999999999998654321 1356899999999999
Q ss_pred HHHHHHHhhccc-----cccccccccceEEE-EeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEE
Q 000107 712 VAAVADWLQAAL-----YETNFRPVPLEEYI-KVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIF 785 (2191)
Q Consensus 712 ~~~la~wL~a~l-----~~~~~RpvpL~e~i-~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF 785 (2191)
..+++.||+... |.+.|||+||...+ .+.......... .+ .+...+-+.+.. ..++||||
T Consensus 487 y~DV~~Fl~v~~~glf~fd~syRpvPL~qq~Igi~ek~~~~~~q---am----------Ne~~yeKVm~~a-gk~qVLVF 552 (1674)
T KOG0951|consen 487 YEDVASFLRVDPEGLFYFDSSYRPVPLKQQYIGITEKKPLKRFQ---AM----------NEACYEKVLEHA-GKNQVLVF 552 (1674)
T ss_pred hhhhHHHhccCcccccccCcccCcCCccceEeccccCCchHHHH---HH----------HHHHHHHHHHhC-CCCcEEEE
Confidence 999999998763 57899999998644 333221111111 11 111222222222 23799999
Q ss_pred eCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCC--CChhhhhhcCCcEEEEcCCCCHHHHHHHHH
Q 000107 786 CSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAG--LDPVLEETLPSGVAYHHAGLTVEEREVVET 863 (2191)
Q Consensus 786 ~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~g--ld~~L~~~l~~GVa~hHagLs~~eR~~Ve~ 863 (2191)
+.+|+++-++|+.|...+.....- ..+..-.+...++-++..+ .++.|++++++|++.||+||+..+|..+|+
T Consensus 553 VHsRkET~ktA~aIRd~~le~dtl-----s~fmre~s~s~eilrtea~~~kn~dLkdLLpygfaIHhAGl~R~dR~~~Ed 627 (1674)
T KOG0951|consen 553 VHSRKETAKTARAIRDKALEEDTL-----SRFMREDSASREILRTEAGQAKNPDLKDLLPYGFAIHHAGLNRKDRELVED 627 (1674)
T ss_pred EEechHHHHHHHHHHHHHhhhhHH-----HHHHhcccchhhhhhhhhhcccChhHHHHhhccceeeccCCCcchHHHHHH
Confidence 999999999999998644321110 1111111222233333333 588999999999999999999999999999
Q ss_pred HhhcCCceEEEecccccccCCCCCceEEeecCCC-----C-CcccCcccccccccccCCCCCCCceEEEEEeChhhHHHH
Q 000107 864 CYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRI-----G-RDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKI 937 (2191)
Q Consensus 864 ~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~~-----g-~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~ 937 (2191)
.|+.|.++|+|+|.|+|||||+|+..|||..+.. | ...+++.+.+||.|||||+++|+.|+.+++....+..++
T Consensus 628 Lf~~g~iqvlvstatlawgvnlpahtViikgtqvy~pekg~w~elsp~dv~qmlgragrp~~D~~gegiiit~~se~qyy 707 (1674)
T KOG0951|consen 628 LFADGHIQVLVSTATLAWGVNLPAHTVIIKGTQVYDPEKGRWTELSPLDVMQMLGRAGRPQYDTCGEGIIITDHSELQYY 707 (1674)
T ss_pred HHhcCceeEEEeehhhhhhcCCCcceEEecCccccCcccCccccCCHHHHHHHHhhcCCCccCcCCceeeccCchHhhhh
Confidence 9999999999999999999999999999974322 1 234778899999999999999999999999999999999
Q ss_pred HhhhccCCCCcccccccccchhhHHHHHHHhcccccCHHHHHHHHHhhhcCCCC---cch--------h-HH-----HHH
Q 000107 938 MGLLNESCPPLHSCLSEDKNGMTHAILEVVAGGIVQTAEDIHRYVRCTLLNSTK---PFQ--------D-VV-----KSA 1000 (2191)
Q Consensus 938 ~~ll~~~l~~l~S~L~~~~~~l~~~iLeiia~gi~~t~~di~~~l~~tll~~~~---~~~--------~-~~-----~~~ 1000 (2191)
..++++++| ++|.+.. .+...+...|..| +++..|..+|+.+||++... |.. + .. ..+
T Consensus 708 ls~mn~qLp-iesq~~~---rl~d~lnaeiv~G-v~~~~d~~~wl~yTylyvRm~~~p~ly~~~~~~~d~~le~~r~~lv 782 (1674)
T KOG0951|consen 708 LSLMNQQLP-IESQFVS---RLADCLNAEIVLG-VRSARDAVDWLGYTYLYVRMVRNPTLYGVSPEASDRLLEQRRADLV 782 (1674)
T ss_pred HHhhhhcCC-ChHHHHH---Hhhhhhhhhhhcc-hhhHHHHHhhhcceeeEEeeccCchhccCCcccchHHHHHHHhhhH
Confidence 999999994 5666543 2344455556667 89999999999999986321 110 1 11 224
Q ss_pred HHHHHHHHHcccceeccCCCccCCCHHHHHHHhcCCChhhHHHHHHHHhhhcccccccCccceeeeeccCCCCCCCcHHH
Q 000107 1001 QDSLRWLCHRKFLEWNEDTKLYSTTPLGRAAFGSSLCPEESLIVLDDLSRAREGFVLASDLHLVYLSTPINVEVEPDWEL 1080 (2191)
Q Consensus 1001 ~~al~~L~~~~~i~~~~~~~~~~~T~LG~a~~~s~L~p~~a~~l~~~L~~a~~~~vl~~dlhllylvtp~~~~~~~dw~~ 1080 (2191)
..|.-.|.+.++|-.+...+.+.+|.+|+..+..++...+.....+.|+.... ++.+. .
T Consensus 783 hsa~~ll~~~~li~yd~~s~~~~~telg~ias~yyi~~~s~~~yn~~L~~~~~------~i~lf---------------r 841 (1674)
T KOG0951|consen 783 HSAATLLDKAGLIKYDRKSGAIQATELGRIASSYYITHGSMATYNELLKETMS------EIDLF---------------R 841 (1674)
T ss_pred HHHHhhHhhcCccccccccCcccchhhccccceeeeecchHHHHHhhhhhhhc------cchhh---------------h
Confidence 45677788889998777667789999999999999988776655555654432 22211 1
Q ss_pred HHHHHHhhhhhhhhhhcccCCCHHH---HHHHhcCCCccccccccccccCccchhhhhhccccCCCcchhHHHHHHHHHH
Q 000107 1081 YYERFLELSALDQSVGNQVGVSEPY---LMRMAHGAPMRISSKLRDSTKGLHGKLEYRLGITSNNMLSDAQTLRVCKRFY 1157 (2191)
Q Consensus 1081 ~~~~~~~l~~~~~~v~~~~Gv~e~~---l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rfy 1157 (2191)
|+.+- ++|. . +-+.+.- +..+....|+.. ...+ ++- --.
T Consensus 842 ifs~s---eEfk-~----~svr~~ek~el~~l~~~vpIpi---------------re~l---------~~p------~ak 883 (1674)
T KOG0951|consen 842 IFSKS---EEFK-Y----VSVREEEKMELAKLLERVPIPI---------------RENL---------DEP------SAK 883 (1674)
T ss_pred hhhhc---cccc-c----CCccHHHHHHhhhhcccCCcCc---------------hhcc---------ccc------hHH
Confidence 11111 1110 0 1111110 111111222211 0000 000 012
Q ss_pred HHHHHHHHhcCCCHHHHHHHhCCCcchHHHHHHHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhccCchhhhhhcCCC
Q 000107 1158 VALILSRLVQETPVLEVCETFKVARGMVQALQENAGRFASMVSVFCERLGWYDLEGLIAKFQNRVSFGVRAEIVELTTIP 1237 (2191)
Q Consensus 1158 ~al~L~dli~e~~~~~i~~~y~v~rG~lq~l~~~a~~~a~~v~~fc~~lg~~~~~~ll~~~~~RL~~Gv~~ELl~L~~ip 1237 (2191)
++.+|+.-|+..-+.= |.+ +-+.-.+-|+|+++..++-.+|-+=||..++..+-.+-+.+..-.+++..||-+.+
T Consensus 884 invllq~yiS~lk~eG----~al-~~dmv~i~q~agRl~Ra~fei~l~rgw~~~~~~~l~~ck~v~~r~w~~~~plrqf~ 958 (1674)
T KOG0951|consen 884 INVLLQSYISQLKLEG----FAL-TSDMVYITQSAGRLFRALFEIVLKRGWAGLAQMALNLCKMVEKRMWPTQTPLRQFK 958 (1674)
T ss_pred HHHHHHHHHhhccccc----cee-eeeEEEeccchHHHHHHHHHHHhhcCcchHHHHHHHhHhHhhhhcccccCchhhcC
Confidence 6777777776643311 111 23344466899999999999998889999998888899999999999999999999
Q ss_pred CCCHHHHHHHHHc
Q 000107 1238 YVKGSRARALYKA 1250 (2191)
Q Consensus 1238 ~v~~~RAR~Ly~a 1250 (2191)
|+...--|.|=..
T Consensus 959 ~~~~ev~~~lE~k 971 (1674)
T KOG0951|consen 959 GCPKEVLRRLEKK 971 (1674)
T ss_pred CCCHHHHHHHHhc
Confidence 9887666655443
No 23
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=5.7e-43 Score=433.45 Aligned_cols=341 Identities=23% Similarity=0.352 Sum_probs=277.7
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHh--------cCCEEEEEchhH
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIS--------TGKMALLVLPYV 580 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~--------~g~kaL~I~P~r 580 (2191)
|++++..+++..||+.|+|+|.+.++. ++.|+++|..|.|||||||+|.+|++.++.. +++.+|+++|||
T Consensus 98 ls~~~~~~lk~~g~~~PtpIQaq~wp~--~l~GrD~v~iA~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P~vLVL~PTR 175 (519)
T KOG0331|consen 98 LSEELMKALKEQGFEKPTPIQAQGWPI--ALSGRDLVGIARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGPIVLVLAPTR 175 (519)
T ss_pred ccHHHHHHHHhcCCCCCchhhhcccce--eccCCceEEEeccCCcchhhhhhHHHHHHHhccccccCCCCCeEEEEcCcH
Confidence 778999999999999999999999987 9999999999999999999999999999885 267899999999
Q ss_pred HHHHHHHHHHHHHhhccCCeEEEEeccCCCC----CCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccc
Q 000107 581 SICAEKAEHLEVLLEPLGRHVRSYYGNQGGG----SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVAD 656 (2191)
Q Consensus 581 aLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~----~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d 656 (2191)
+||.|+...+.++...++++..++||+...+ .+..+.+|+|+||+++.+++.. ....|+++.++|+||+|.|.|
T Consensus 176 ELA~QV~~~~~~~~~~~~~~~~cvyGG~~~~~Q~~~l~~gvdiviaTPGRl~d~le~--g~~~l~~v~ylVLDEADrMld 253 (519)
T KOG0331|consen 176 ELAVQVQAEAREFGKSLRLRSTCVYGGAPKGPQLRDLERGVDVVIATPGRLIDLLEE--GSLNLSRVTYLVLDEADRMLD 253 (519)
T ss_pred HHHHHHHHHHHHHcCCCCccEEEEeCCCCccHHHHHHhcCCcEEEeCChHHHHHHHc--CCccccceeEEEeccHHhhhc
Confidence 9999999999999999999899999998653 3567899999999999999987 677899999999999999999
Q ss_pred cchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC-HHHHHHHhhccccccccccccceE
Q 000107 657 QNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN-VAAVADWLQAALYETNFRPVPLEE 735 (2191)
Q Consensus 657 ~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N-~~~la~wL~a~l~~~~~RpvpL~e 735 (2191)
.++.+.++.|+..+ +++..|.++.|||.|- +..++.-+-. .|+ +.
T Consensus 254 mGFe~qI~~Il~~i-------------------------~~~~rQtlm~saTwp~~v~~lA~~fl~-------~~~--~i 299 (519)
T KOG0331|consen 254 MGFEPQIRKILSQI-------------------------PRPDRQTLMFSATWPKEVRQLAEDFLN-------NPI--QI 299 (519)
T ss_pred cccHHHHHHHHHhc-------------------------CCCcccEEEEeeeccHHHHHHHHHHhc-------Cce--EE
Confidence 99999999999887 2344599999999983 5555432211 121 11
Q ss_pred EEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHH-hcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCC
Q 000107 736 YIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVV-QEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSD 814 (2191)
Q Consensus 736 ~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~-~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~ 814 (2191)
. +++.........++++..... .......+..++.+.. ..++++||||.|++.|+.++..+...
T Consensus 300 ~--ig~~~~~~a~~~i~qive~~~-~~~K~~~l~~lL~~~~~~~~~KvIIFc~tkr~~~~l~~~l~~~------------ 364 (519)
T KOG0331|consen 300 N--VGNKKELKANHNIRQIVEVCD-ETAKLRKLGKLLEDISSDSEGKVIIFCETKRTCDELARNLRRK------------ 364 (519)
T ss_pred E--ecchhhhhhhcchhhhhhhcC-HHHHHHHHHHHHHHHhccCCCcEEEEecchhhHHHHHHHHHhc------------
Confidence 1 121111111112222222221 1123345566666665 34579999999999999999887541
Q ss_pred chhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeec
Q 000107 815 SEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQ 894 (2191)
Q Consensus 815 ~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~ 894 (2191)
.+++..+||+.++.+|+.+++.|++|...|||||+++++|+|||++++||++
T Consensus 365 ----------------------------~~~a~~iHGd~sQ~eR~~~L~~FreG~~~vLVATdVAaRGLDi~dV~lVIny 416 (519)
T KOG0331|consen 365 ----------------------------GWPAVAIHGDKSQSERDWVLKGFREGKSPVLVATDVAARGLDVPDVDLVINY 416 (519)
T ss_pred ----------------------------CcceeeecccccHHHHHHHHHhcccCCcceEEEcccccccCCCccccEEEeC
Confidence 1347789999999999999999999999999999999999999999999999
Q ss_pred CCCCCcccCcccccccccccCCCCCCCceEEEEEeChhhHHH
Q 000107 895 PRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKK 936 (2191)
Q Consensus 895 p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~ 936 (2191)
++|. ++++|+||+||+||+| ..|.++.|++..+...
T Consensus 417 dfP~----~vEdYVHRiGRTGRa~--~~G~A~tfft~~~~~~ 452 (519)
T KOG0331|consen 417 DFPN----NVEDYVHRIGRTGRAG--KKGTAITFFTSDNAKL 452 (519)
T ss_pred CCCC----CHHHHHhhcCccccCC--CCceEEEEEeHHHHHH
Confidence 9987 8999999999999998 7999999999876544
No 24
>TIGR03817 DECH_helic helicase/secretion neighborhood putative DEAH-box helicase. A conserved gene neighborhood widely spread in the Actinobacteria contains this uncharacterized DEAH-box family helicase encoded convergently towards an operon of genes for protein homologous to type II secretion and pilus formation proteins. The context suggests that this helicase may play a role in conjugal transfer of DNA.
Probab=100.00 E-value=2.8e-42 Score=461.21 Aligned_cols=361 Identities=22% Similarity=0.262 Sum_probs=274.7
Q ss_pred CcCCCCcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHh-cCCEEEEEchhHHH
Q 000107 504 DLSSWLPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIS-TGKMALLVLPYVSI 582 (2191)
Q Consensus 504 ~L~~~Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~-~g~kaL~I~P~raL 582 (2191)
++..||++.+.+.|++.||++||++|.++|+. +++|+|+|+++|||||||++|.+|+++.+.. .+.++|||+||++|
T Consensus 16 ~~~~~l~~~l~~~L~~~g~~~p~~~Q~~ai~~--il~G~nvvv~apTGSGKTla~~LPiL~~l~~~~~~~aL~l~PtraL 93 (742)
T TIGR03817 16 PWPAWAHPDVVAALEAAGIHRPWQHQARAAEL--AHAGRHVVVATGTASGKSLAYQLPVLSALADDPRATALYLAPTKAL 93 (742)
T ss_pred CCCCcCCHHHHHHHHHcCCCcCCHHHHHHHHH--HHCCCCEEEECCCCCcHHHHHHHHHHHHHhhCCCcEEEEEcChHHH
Confidence 56678999999999999999999999999987 8999999999999999999999999998876 45699999999999
Q ss_pred HHHHHHHHHHHhhccCCeEEEEeccCCCC---CCCCCCceEEEchHHHHHH-HHHh-hhcCCCCccceEEEccccccccc
Q 000107 583 CAEKAEHLEVLLEPLGRHVRSYYGNQGGG---SLPKDTSVAVCTIEKANSL-VNRM-LEEGRLSEIGIIVIDELHMVADQ 657 (2191)
Q Consensus 583 A~q~~~~l~~l~~~lg~~V~~~~G~~~~~---~l~~~~~IiV~TpEkl~~L-l~~l-~~~~~L~~l~lVVIDEaH~l~d~ 657 (2191)
|.|+...++++. ..++++..+.|+.... .+..+++|+|+||+++... +... .-...++++++|||||+|.+.+
T Consensus 94 a~q~~~~l~~l~-~~~i~v~~~~Gdt~~~~r~~i~~~~~IivtTPd~L~~~~L~~~~~~~~~l~~l~~vViDEah~~~g- 171 (742)
T TIGR03817 94 AADQLRAVRELT-LRGVRPATYDGDTPTEERRWAREHARYVLTNPDMLHRGILPSHARWARFLRRLRYVVIDECHSYRG- 171 (742)
T ss_pred HHHHHHHHHHhc-cCCeEEEEEeCCCCHHHHHHHhcCCCEEEEChHHHHHhhccchhHHHHHHhcCCEEEEeChhhccC-
Confidence 999999999876 4578888888876532 2344689999999998642 2210 0012378999999999999977
Q ss_pred chhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhccc---cccccccccce
Q 000107 658 NRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQAAL---YETNFRPVPLE 734 (2191)
Q Consensus 658 ~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a~l---~~~~~RpvpL~ 734 (2191)
.+|..+..++.+++++... .+.++|+|++|||++|+.++++++.... +..+..|....
T Consensus 172 ~fg~~~~~il~rL~ri~~~-------------------~g~~~q~i~~SATi~n~~~~~~~l~g~~~~~i~~~~~~~~~~ 232 (742)
T TIGR03817 172 VFGSHVALVLRRLRRLCAR-------------------YGASPVFVLASATTADPAAAASRLIGAPVVAVTEDGSPRGAR 232 (742)
T ss_pred ccHHHHHHHHHHHHHHHHh-------------------cCCCCEEEEEecCCCCHHHHHHHHcCCCeEEECCCCCCcCce
Confidence 4999999999999887532 2356899999999999888887764321 12222232222
Q ss_pred EEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCC
Q 000107 735 EYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSD 814 (2191)
Q Consensus 735 e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~ 814 (2191)
.+............. ...............++..++..+.++||||+|++.|+.++..+.+.+....
T Consensus 233 ~~~~~~p~~~~~~~~------~~~~~r~~~~~~~~~~l~~l~~~~~~~IVF~~sr~~ae~l~~~l~~~l~~~~------- 299 (742)
T TIGR03817 233 TVALWEPPLTELTGE------NGAPVRRSASAEAADLLADLVAEGARTLTFVRSRRGAELVAAIARRLLGEVD------- 299 (742)
T ss_pred EEEEecCCccccccc------cccccccchHHHHHHHHHHHHHCCCCEEEEcCCHHHHHHHHHHHHHHHHhhc-------
Confidence 222111110000000 0000000111223455666666788999999999999999998876542210
Q ss_pred chhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeec
Q 000107 815 SEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQ 894 (2191)
Q Consensus 815 ~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~ 894 (2191)
..+...|..||||+++++|..+++.|++|.+++||||+++++|||||++++||++
T Consensus 300 -------------------------~~l~~~v~~~hgg~~~~eR~~ie~~f~~G~i~vLVaTd~lerGIDI~~vd~VI~~ 354 (742)
T TIGR03817 300 -------------------------PDLAERVAAYRAGYLPEDRRELERALRDGELLGVATTNALELGVDISGLDAVVIA 354 (742)
T ss_pred -------------------------cccccchhheecCCCHHHHHHHHHHHHcCCceEEEECchHhccCCcccccEEEEe
Confidence 0123358889999999999999999999999999999999999999999999998
Q ss_pred CCCCCcccCcccccccccccCCCCCCCceEEEEEeCh
Q 000107 895 PRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKP 931 (2191)
Q Consensus 895 p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~ 931 (2191)
+.++ +..+|+||+|||||.| ..|.+++++..
T Consensus 355 ~~P~----s~~~y~qRiGRaGR~G--~~g~ai~v~~~ 385 (742)
T TIGR03817 355 GFPG----TRASLWQQAGRAGRRG--QGALVVLVARD 385 (742)
T ss_pred CCCC----CHHHHHHhccccCCCC--CCcEEEEEeCC
Confidence 8877 8899999999999999 67999999874
No 25
>PRK13767 ATP-dependent helicase; Provisional
Probab=100.00 E-value=3.8e-42 Score=468.38 Aligned_cols=429 Identities=20% Similarity=0.247 Sum_probs=310.3
Q ss_pred CCCcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHh--------cCCEEEEEch
Q 000107 507 SWLPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIS--------TGKMALLVLP 578 (2191)
Q Consensus 507 ~~Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~--------~g~kaL~I~P 578 (2191)
.+|++.+.+.+++ +|..|+|+|.++++. +++|+|++++||||||||++|.++++..+.. .+.++|||+|
T Consensus 16 ~~l~~~v~~~~~~-~~~~~tpiQ~~Ai~~--il~g~nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsP 92 (876)
T PRK13767 16 DLLRPYVREWFKE-KFGTFTPPQRYAIPL--IHEGKNVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSP 92 (876)
T ss_pred hhcCHHHHHHHHH-ccCCCCHHHHHHHHH--HHcCCCEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcC
Confidence 3478888888776 799999999999987 8999999999999999999999999988864 2347999999
Q ss_pred hHHHHHHHHHHHHHHhh-----------cc-CCeEEEEeccCCCCC----CCCCCceEEEchHHHHHHHHHhhhcCCCCc
Q 000107 579 YVSICAEKAEHLEVLLE-----------PL-GRHVRSYYGNQGGGS----LPKDTSVAVCTIEKANSLVNRMLEEGRLSE 642 (2191)
Q Consensus 579 ~raLA~q~~~~l~~l~~-----------~l-g~~V~~~~G~~~~~~----l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~ 642 (2191)
+++|+.|+++.+...+. .+ +++|...+|+..... +...++|+|||||++..+++...-...+.+
T Consensus 93 traLa~di~~~L~~~l~~i~~~~~~~g~~~~~i~v~v~~Gdt~~~~r~~~l~~~p~IlVtTPE~L~~ll~~~~~~~~l~~ 172 (876)
T PRK13767 93 LRALNNDIHRNLEEPLTEIREIAKERGEELPEIRVAIRTGDTSSYEKQKMLKKPPHILITTPESLAILLNSPKFREKLRT 172 (876)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCeeEEEEcCCCCHHHHHHHHhCCCCEEEecHHHHHHHhcChhHHHHHhc
Confidence 99999999987653221 22 667888888875321 334679999999999888764322235789
Q ss_pred cceEEEcccccccccchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhcc
Q 000107 643 IGIIVIDELHMVADQNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQAA 722 (2191)
Q Consensus 643 l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a~ 722 (2191)
+++|||||+|.+.+..||..++.++.+++.+. ....|+|++|||++|.++++.|+...
T Consensus 173 l~~VVIDE~H~l~~~~RG~~l~~~L~rL~~l~----------------------~~~~q~IglSATl~~~~~va~~L~~~ 230 (876)
T PRK13767 173 VKWVIVDEIHSLAENKRGVHLSLSLERLEELA----------------------GGEFVRIGLSATIEPLEEVAKFLVGY 230 (876)
T ss_pred CCEEEEechhhhccCccHHHHHHHHHHHHHhc----------------------CCCCeEEEEecccCCHHHHHHHhcCc
Confidence 99999999999999889999999999998763 24679999999999999999999865
Q ss_pred ccccccccccceEEEEec---cccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHH
Q 000107 723 LYETNFRPVPLEEYIKVG---NAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHV 799 (2191)
Q Consensus 723 l~~~~~RpvpL~e~i~~~---~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L 799 (2191)
......+++.+....... ..+........ .. ........+...+.+.+..++++||||+|++.|+.++..|
T Consensus 231 ~~~~~~r~~~iv~~~~~k~~~i~v~~p~~~l~----~~--~~~~~~~~l~~~L~~~i~~~~~~LVF~nTr~~ae~la~~L 304 (876)
T PRK13767 231 EDDGEPRDCEIVDARFVKPFDIKVISPVDDLI----HT--PAEEISEALYETLHELIKEHRTTLIFTNTRSGAERVLYNL 304 (876)
T ss_pred cccCCCCceEEEccCCCccceEEEeccCcccc----cc--ccchhHHHHHHHHHHHHhcCCCEEEEeCCHHHHHHHHHHH
Confidence 332223332211000000 00000000000 00 0011123445566666677889999999999999999888
Q ss_pred HHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccc
Q 000107 800 SKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTL 879 (2191)
Q Consensus 800 ~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstL 879 (2191)
.+.+... ....+|++|||+|+.++|..+++.|++|.++|||||+++
T Consensus 305 ~~~~~~~----------------------------------~~~~~i~~hHg~ls~~~R~~ve~~fk~G~i~vLVaTs~L 350 (876)
T PRK13767 305 RKRFPEE----------------------------------YDEDNIGAHHSSLSREVRLEVEEKLKRGELKVVVSSTSL 350 (876)
T ss_pred HHhchhh----------------------------------ccccceeeeeCCCCHHHHHHHHHHHHcCCCeEEEECChH
Confidence 6533210 123469999999999999999999999999999999999
Q ss_pred cccCCCCCceEEeecCCCCCcccCcccccccccccCCCC-CCCceEEEEEeChhhHH----HHHhhhccCCCCccccccc
Q 000107 880 AAGVNLPARRVIFRQPRIGRDFIDGTRYRQMAGRAGRTG-IDTKGESMLICKPEEVK----KIMGLLNESCPPLHSCLSE 954 (2191)
Q Consensus 880 a~GVNLPav~VVI~~p~~g~~~is~~~y~QmiGRAGR~G-~d~~Ge~ill~~~~e~~----~~~~ll~~~l~~l~S~L~~ 954 (2191)
++|||+|++++||++..+. +..+|+||+|||||.+ ....|.++... ..+.. ....+....++++.... .
T Consensus 351 e~GIDip~Vd~VI~~~~P~----sv~~ylQRiGRaGR~~g~~~~g~ii~~~-~~~l~e~~~~~~~~~~~~ie~~~~~~-~ 424 (876)
T PRK13767 351 ELGIDIGYIDLVVLLGSPK----SVSRLLQRIGRAGHRLGEVSKGRIIVVD-RDDLVECAVLLKKAREGKIDRVHIPK-N 424 (876)
T ss_pred HhcCCCCCCcEEEEeCCCC----CHHHHHHhcccCCCCCCCCCcEEEEEcC-chhHHHHHHHHHHHHhCCCCCCCCCC-C
Confidence 9999999999999876654 8899999999999874 23456655543 33321 12234444444432221 1
Q ss_pred ccchhhHHHHHHHhcccccCHHHHHHHHHhhhcCCCCcchhHHHHHHHHHHHHHHcc
Q 000107 955 DKNGMTHAILEVVAGGIVQTAEDIHRYVRCTLLNSTKPFQDVVKSAQDSLRWLCHRK 1011 (2191)
Q Consensus 955 ~~~~l~~~iLeiia~gi~~t~~di~~~l~~tll~~~~~~~~~~~~~~~al~~L~~~~ 1011 (2191)
...-+.+.++.+++.+ ..+.+++..++..|+.+...+. +....+|++|...+
T Consensus 425 ~~dvl~q~i~~~~~~~-~~~~~~~~~~~~~~~~~~~l~~----~~~~~~l~~l~~~~ 476 (876)
T PRK13767 425 PLDVLAQHIVGMAIER-PWDIEEAYNIVRRAYPYRDLSD----EDFESVLRYLAGDY 476 (876)
T ss_pred cHHHHHHHHHHHHHcC-CCCHHHHHHHHhccCCcccCCH----HHHHHHHHHHhccC
Confidence 1224566677777765 5689999999999998876652 44567888887663
No 26
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1.7e-42 Score=401.71 Aligned_cols=338 Identities=22% Similarity=0.293 Sum_probs=276.3
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcC--CEEEEEchhHHHHHHH
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTG--KMALLVLPYVSICAEK 586 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g--~kaL~I~P~raLA~q~ 586 (2191)
+.+.+++++.+.||..|+++|.++||. ++.|+++|..|.||||||.+|.+||+++++... ..++|++|+|+||.|+
T Consensus 68 v~~~L~~ac~~l~~~~PT~IQ~~aiP~--~L~g~dvIglAeTGSGKT~afaLPIl~~LL~~p~~~~~lVLtPtRELA~QI 145 (476)
T KOG0330|consen 68 VHPELLEACQELGWKKPTKIQSEAIPV--ALGGRDVIGLAETGSGKTGAFALPILQRLLQEPKLFFALVLTPTRELAQQI 145 (476)
T ss_pred cCHHHHHHHHHhCcCCCchhhhhhcch--hhCCCcEEEEeccCCCchhhhHHHHHHHHHcCCCCceEEEecCcHHHHHHH
Confidence 678999999999999999999999987 999999999999999999999999999999743 4899999999999999
Q ss_pred HHHHHHHhhccCCeEEEEeccCCC----CCCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHH
Q 000107 587 AEHLEVLLEPLGRHVRSYYGNQGG----GSLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYL 662 (2191)
Q Consensus 587 ~~~l~~l~~~lg~~V~~~~G~~~~----~~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~ 662 (2191)
.+.++.+...+|++|..+.|+... ..+.+.++|+||||+++.+++.+. ....+..++++|+||+|.+.|..|+..
T Consensus 146 ~e~fe~Lg~~iglr~~~lvGG~~m~~q~~~L~kkPhilVaTPGrL~dhl~~T-kgf~le~lk~LVlDEADrlLd~dF~~~ 224 (476)
T KOG0330|consen 146 AEQFEALGSGIGLRVAVLVGGMDMMLQANQLSKKPHILVATPGRLWDHLENT-KGFSLEQLKFLVLDEADRLLDMDFEEE 224 (476)
T ss_pred HHHHHHhccccCeEEEEEecCchHHHHHHHhhcCCCEEEeCcHHHHHHHHhc-cCccHHHhHHHhhchHHhhhhhhhHHH
Confidence 999999999999999999998754 235678999999999998888642 445788999999999999999999999
Q ss_pred HHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhccccccccccccceEEEEeccc
Q 000107 663 LELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQAALYETNFRPVPLEEYIKVGNA 742 (2191)
Q Consensus 663 lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a~l~~~~~RpvpL~e~i~~~~~ 742 (2191)
++.||..+ +...|.+++|||++. .+.+.+.+.+ .+|+.+.. ..
T Consensus 225 ld~ILk~i--------------------------p~erqt~LfsATMt~--kv~kL~rasl----~~p~~v~~-----s~ 267 (476)
T KOG0330|consen 225 LDYILKVI--------------------------PRERQTFLFSATMTK--KVRKLQRASL----DNPVKVAV-----SS 267 (476)
T ss_pred HHHHHHhc--------------------------CccceEEEEEeecch--hhHHHHhhcc----CCCeEEec-----cc
Confidence 99999887 356899999999983 3444444332 12222110 11
Q ss_pred cccchhhHHHHHHHhhc--cCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhh
Q 000107 743 IYSKKMDVVRTILTAAN--LGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDI 820 (2191)
Q Consensus 743 ~~~~~~~~~r~l~~~~~--~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~ 820 (2191)
.| ..+..+...+- ....+...++.++.+. .|.++||||+|...+..++-.|..
T Consensus 268 ky----~tv~~lkQ~ylfv~~k~K~~yLV~ll~e~--~g~s~iVF~~t~~tt~~la~~L~~------------------- 322 (476)
T KOG0330|consen 268 KY----QTVDHLKQTYLFVPGKDKDTYLVYLLNEL--AGNSVIVFCNTCNTTRFLALLLRN------------------- 322 (476)
T ss_pred hh----cchHHhhhheEeccccccchhHHHHHHhh--cCCcEEEEEeccchHHHHHHHHHh-------------------
Confidence 11 12222222111 1233455677777765 368999999999998888877644
Q ss_pred HHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecCCCCCc
Q 000107 821 TSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRIGRD 900 (2191)
Q Consensus 821 ~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~~g~~ 900 (2191)
+++....+||.|++..|.-.++.|++|...|||||++++||+|+|.+++|||++.|.
T Consensus 323 ---------------------lg~~a~~LhGqmsq~~Rlg~l~~Fk~~~r~iLv~TDVaSRGLDip~Vd~VVNyDiP~-- 379 (476)
T KOG0330|consen 323 ---------------------LGFQAIPLHGQMSQSKRLGALNKFKAGARSILVCTDVASRGLDIPHVDVVVNYDIPT-- 379 (476)
T ss_pred ---------------------cCcceecccchhhHHHHHHHHHHHhccCCcEEEecchhcccCCCCCceEEEecCCCC--
Confidence 223366799999999999999999999999999999999999999999999999876
Q ss_pred ccCcccccccccccCCCCCCCceEEEEEeChhhHHHHH
Q 000107 901 FIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKIM 938 (2191)
Q Consensus 901 ~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~~ 938 (2191)
+..+|+||+||+||+| ..|.+|.+++.-|++.+.
T Consensus 380 --~skDYIHRvGRtaRaG--rsG~~ItlVtqyDve~~q 413 (476)
T KOG0330|consen 380 --HSKDYIHRVGRTARAG--RSGKAITLVTQYDVELVQ 413 (476)
T ss_pred --cHHHHHHHcccccccC--CCcceEEEEehhhhHHHH
Confidence 7889999999999999 899999999987766544
No 27
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=100.00 E-value=3e-42 Score=448.20 Aligned_cols=343 Identities=20% Similarity=0.277 Sum_probs=265.2
Q ss_pred cCCcCCC-CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHh---------cCC
Q 000107 502 CLDLSSW-LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIS---------TGK 571 (2191)
Q Consensus 502 ~l~L~~~-Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~---------~g~ 571 (2191)
.+.+... ||+.+.+.+.+.||..|+|+|.++|+. ++.|+|+|++||||||||++|++|++.++.. .+.
T Consensus 120 i~~f~~~~l~~~l~~~L~~~g~~~ptpiQ~~aip~--il~g~dviv~ApTGSGKTlayllPil~~l~~~~~~~~~~~~~~ 197 (518)
T PLN00206 120 ILSFSSCGLPPKLLLNLETAGYEFPTPIQMQAIPA--ALSGRSLLVSADTGSGKTASFLVPIISRCCTIRSGHPSEQRNP 197 (518)
T ss_pred hcCHHhCCCCHHHHHHHHHcCCCCCCHHHHHHHHH--HhcCCCEEEEecCCCCccHHHHHHHHHHHHhhccccccccCCc
Confidence 3444443 899999999999999999999999987 8999999999999999999999999987753 456
Q ss_pred EEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCC----CCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEE
Q 000107 572 MALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGG----SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIV 647 (2191)
Q Consensus 572 kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~----~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVV 647 (2191)
++|||+||++||.|+.+.++.+...+++++..++|+.... .+..+++|+|+||+++..++.+ ....++++++||
T Consensus 198 ~aLIL~PTreLa~Qi~~~~~~l~~~~~~~~~~~~gG~~~~~q~~~l~~~~~IiV~TPgrL~~~l~~--~~~~l~~v~~lV 275 (518)
T PLN00206 198 LAMVLTPTRELCVQVEDQAKVLGKGLPFKTALVVGGDAMPQQLYRIQQGVELIVGTPGRLIDLLSK--HDIELDNVSVLV 275 (518)
T ss_pred eEEEEeCCHHHHHHHHHHHHHHhCCCCceEEEEECCcchHHHHHHhcCCCCEEEECHHHHHHHHHc--CCccchheeEEE
Confidence 8999999999999999999988888888888888765421 2445789999999999988876 456789999999
Q ss_pred EcccccccccchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC-HHHHHHHhhccccc-
Q 000107 648 IDELHMVADQNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN-VAAVADWLQAALYE- 725 (2191)
Q Consensus 648 IDEaH~l~d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N-~~~la~wL~a~l~~- 725 (2191)
|||+|.|.+.++...+..++..+ ++.|+++||||+++ .+.++.++......
T Consensus 276 iDEad~ml~~gf~~~i~~i~~~l---------------------------~~~q~l~~SATl~~~v~~l~~~~~~~~~~i 328 (518)
T PLN00206 276 LDEVDCMLERGFRDQVMQIFQAL---------------------------SQPQVLLFSATVSPEVEKFASSLAKDIILI 328 (518)
T ss_pred eecHHHHhhcchHHHHHHHHHhC---------------------------CCCcEEEEEeeCCHHHHHHHHHhCCCCEEE
Confidence 99999999987776665555433 34699999999985 56677766543211
Q ss_pred ---ccccccc-ceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHH
Q 000107 726 ---TNFRPVP-LEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSK 801 (2191)
Q Consensus 726 ---~~~Rpvp-L~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~ 801 (2191)
...++.. +...+. +... ......+..++........++||||+++..|+.++..|..
T Consensus 329 ~~~~~~~~~~~v~q~~~-----~~~~--------------~~k~~~l~~~l~~~~~~~~~~iVFv~s~~~a~~l~~~L~~ 389 (518)
T PLN00206 329 SIGNPNRPNKAVKQLAI-----WVET--------------KQKKQKLFDILKSKQHFKPPAVVFVSSRLGADLLANAITV 389 (518)
T ss_pred EeCCCCCCCcceeEEEE-----eccc--------------hhHHHHHHHHHHhhcccCCCEEEEcCCchhHHHHHHHHhh
Confidence 1111111 111110 0000 0011233444433333346899999999999988877643
Q ss_pred HHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccc
Q 000107 802 FLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAA 881 (2191)
Q Consensus 802 ~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~ 881 (2191)
.. +..+..+||+|++++|..+++.|++|.++|||||+++++
T Consensus 390 ~~---------------------------------------g~~~~~~Hg~~~~~eR~~il~~Fr~G~~~ILVaTdvl~r 430 (518)
T PLN00206 390 VT---------------------------------------GLKALSIHGEKSMKERREVMKSFLVGEVPVIVATGVLGR 430 (518)
T ss_pred cc---------------------------------------CcceEEeeCCCCHHHHHHHHHHHHCCCCCEEEEecHhhc
Confidence 11 123788999999999999999999999999999999999
Q ss_pred cCCCCCceEEeecCCCCCcccCcccccccccccCCCCCCCceEEEEEeChhhHHHHHh
Q 000107 882 GVNLPARRVIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKIMG 939 (2191)
Q Consensus 882 GVNLPav~VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~~~ 939 (2191)
|||+|++++||+++.+. +..+|+||+|||||.| ..|.+++|+++++...+.+
T Consensus 431 GiDip~v~~VI~~d~P~----s~~~yihRiGRaGR~g--~~G~ai~f~~~~~~~~~~~ 482 (518)
T PLN00206 431 GVDLLRVRQVIIFDMPN----TIKEYIHQIGRASRMG--EKGTAIVFVNEEDRNLFPE 482 (518)
T ss_pred cCCcccCCEEEEeCCCC----CHHHHHHhccccccCC--CCeEEEEEEchhHHHHHHH
Confidence 99999999999987765 8899999999999999 7899999999877554443
No 28
>PTZ00110 helicase; Provisional
Probab=100.00 E-value=7.5e-42 Score=445.75 Aligned_cols=334 Identities=18% Similarity=0.268 Sum_probs=265.1
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHh-------cCCEEEEEchhHH
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIS-------TGKMALLVLPYVS 581 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~-------~g~kaL~I~P~ra 581 (2191)
||+.+.+.+.+.||++|+|+|.++|+. ++.|+|+|++||||||||++|.+|++.++.. .++.+|||+||++
T Consensus 137 l~~~l~~~l~~~g~~~pt~iQ~~aip~--~l~G~dvI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~~gp~~LIL~PTre 214 (545)
T PTZ00110 137 FPDYILKSLKNAGFTEPTPIQVQGWPI--ALSGRDMIGIAETGSGKTLAFLLPAIVHINAQPLLRYGDGPIVLVLAPTRE 214 (545)
T ss_pred CCHHHHHHHHHCCCCCCCHHHHHHHHH--HhcCCCEEEEeCCCChHHHHHHHHHHHHHHhcccccCCCCcEEEEECChHH
Confidence 789999999999999999999999987 8999999999999999999999999988764 2568999999999
Q ss_pred HHHHHHHHHHHHhhccCCeEEEEeccCCCC----CCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEccccccccc
Q 000107 582 ICAEKAEHLEVLLEPLGRHVRSYYGNQGGG----SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQ 657 (2191)
Q Consensus 582 LA~q~~~~l~~l~~~lg~~V~~~~G~~~~~----~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~ 657 (2191)
||.|+.+.+..+....++++...+|+.... .+..+++|+|+||+++..++.+ ....+.++++|||||+|.+.+.
T Consensus 215 La~Qi~~~~~~~~~~~~i~~~~~~gg~~~~~q~~~l~~~~~IlVaTPgrL~d~l~~--~~~~l~~v~~lViDEAd~mld~ 292 (545)
T PTZ00110 215 LAEQIREQCNKFGASSKIRNTVAYGGVPKRGQIYALRRGVEILIACPGRLIDFLES--NVTNLRRVTYLVLDEADRMLDM 292 (545)
T ss_pred HHHHHHHHHHHHhcccCccEEEEeCCCCHHHHHHHHHcCCCEEEECHHHHHHHHHc--CCCChhhCcEEEeehHHhhhhc
Confidence 999999999998888888888888876432 2345689999999999888875 4457889999999999999998
Q ss_pred chhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC-HHHHHHHhhc-ccccccccccc---
Q 000107 658 NRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN-VAAVADWLQA-ALYETNFRPVP--- 732 (2191)
Q Consensus 658 ~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N-~~~la~wL~a-~l~~~~~Rpvp--- 732 (2191)
++...+..++..+ .+..|+|++|||++. ...++.++-. .........+.
T Consensus 293 gf~~~i~~il~~~--------------------------~~~~q~l~~SAT~p~~v~~l~~~l~~~~~v~i~vg~~~l~~ 346 (545)
T PTZ00110 293 GFEPQIRKIVSQI--------------------------RPDRQTLMWSATWPKEVQSLARDLCKEEPVHVNVGSLDLTA 346 (545)
T ss_pred chHHHHHHHHHhC--------------------------CCCCeEEEEEeCCCHHHHHHHHHHhccCCEEEEECCCcccc
Confidence 8888777776654 256799999999984 4555555432 11000000000
Q ss_pred ---ceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccc
Q 000107 733 ---LEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSIN 809 (2191)
Q Consensus 733 ---L~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~ 809 (2191)
+...+.. . . .......+..++......+.++||||++++.|+.++..|...
T Consensus 347 ~~~i~q~~~~----~-~--------------~~~k~~~L~~ll~~~~~~~~k~LIF~~t~~~a~~l~~~L~~~------- 400 (545)
T PTZ00110 347 CHNIKQEVFV----V-E--------------EHEKRGKLKMLLQRIMRDGDKILIFVETKKGADFLTKELRLD------- 400 (545)
T ss_pred CCCeeEEEEE----E-e--------------chhHHHHHHHHHHHhcccCCeEEEEecChHHHHHHHHHHHHc-------
Confidence 0001100 0 0 011223455566555556789999999999999988877431
Q ss_pred cCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCce
Q 000107 810 VHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARR 889 (2191)
Q Consensus 810 ~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~ 889 (2191)
.+.+..+||++++++|..+++.|++|.++|||||+++++|||+|+++
T Consensus 401 ---------------------------------g~~~~~ihg~~~~~eR~~il~~F~~G~~~ILVaTdv~~rGIDi~~v~ 447 (545)
T PTZ00110 401 ---------------------------------GWPALCIHGDKKQEERTWVLNEFKTGKSPIMIATDVASRGLDVKDVK 447 (545)
T ss_pred ---------------------------------CCcEEEEECCCcHHHHHHHHHHHhcCCCcEEEEcchhhcCCCcccCC
Confidence 12267899999999999999999999999999999999999999999
Q ss_pred EEeecCCCCCcccCcccccccccccCCCCCCCceEEEEEeChhhHHHH
Q 000107 890 VIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKI 937 (2191)
Q Consensus 890 VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~ 937 (2191)
+||+++.+. +..+|+||+||+||.| ..|.||+|+++++...+
T Consensus 448 ~VI~~d~P~----s~~~yvqRiGRtGR~G--~~G~ai~~~~~~~~~~~ 489 (545)
T PTZ00110 448 YVINFDFPN----QIEDYVHRIGRTGRAG--AKGASYTFLTPDKYRLA 489 (545)
T ss_pred EEEEeCCCC----CHHHHHHHhcccccCC--CCceEEEEECcchHHHH
Confidence 999988876 8899999999999999 78999999998765443
No 29
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=100.00 E-value=2.2e-41 Score=422.79 Aligned_cols=389 Identities=27% Similarity=0.433 Sum_probs=305.0
Q ss_pred cCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCC
Q 000107 520 RGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGR 599 (2191)
Q Consensus 520 ~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~ 599 (2191)
.+| +|-.+|++||.. +..|.+++|+|+|++|||++|+.+|.-.- ..+.+++|..|.++|.+|+++.|+..|+..|
T Consensus 294 ~pF-elD~FQk~Ai~~--lerg~SVFVAAHTSAGKTvVAEYAialaq-~h~TR~iYTSPIKALSNQKfRDFk~tF~Dvg- 368 (1248)
T KOG0947|consen 294 YPF-ELDTFQKEAIYH--LERGDSVFVAAHTSAGKTVVAEYAIALAQ-KHMTRTIYTSPIKALSNQKFRDFKETFGDVG- 368 (1248)
T ss_pred CCC-CccHHHHHHHHH--HHcCCeEEEEecCCCCcchHHHHHHHHHH-hhccceEecchhhhhccchHHHHHHhccccc-
Confidence 455 788999999987 88999999999999999999999886432 3688999999999999999999999887765
Q ss_pred eEEEEeccCCCCCCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHhhcCCCC
Q 000107 600 HVRSYYGNQGGGSLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAAGEGTS 679 (2191)
Q Consensus 600 ~V~~~~G~~~~~~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~~~ 679 (2191)
.++|+. .+.++..++|+|.|.+-+++-+ +...++++..||+||+|.+.|..||..+|.++..+
T Consensus 369 ---LlTGDv---qinPeAsCLIMTTEILRsMLYr--gadliRDvE~VIFDEVHYiND~eRGvVWEEViIMl--------- 431 (1248)
T KOG0947|consen 369 ---LLTGDV---QINPEASCLIMTTEILRSMLYR--GADLIRDVEFVIFDEVHYINDVERGVVWEEVIIML--------- 431 (1248)
T ss_pred ---eeecce---eeCCCcceEeehHHHHHHHHhc--ccchhhccceEEEeeeeecccccccccceeeeeec---------
Confidence 567765 4667889999999999888876 66678999999999999999999999999998776
Q ss_pred CCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhcc------ccccccccccceEEEEeccccc---cchhhH
Q 000107 680 DSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQAA------LYETNFRPVPLEEYIKVGNAIY---SKKMDV 750 (2191)
Q Consensus 680 ~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a~------l~~~~~RpvpL~e~i~~~~~~~---~~~~~~ 750 (2191)
+..+++|++|||+||..++++|+|.. +.++.-|||||+.++..+...+ +....+
T Consensus 432 -----------------P~HV~~IlLSATVPN~~EFA~WIGRtK~K~IyViST~kRPVPLEh~l~t~~~l~kiidq~g~f 494 (1248)
T KOG0947|consen 432 -----------------PRHVNFILLSATVPNTLEFADWIGRTKQKTIYVISTSKRPVPLEHYLYTKKSLFKIIDQNGIF 494 (1248)
T ss_pred -----------------cccceEEEEeccCCChHHHHHHhhhccCceEEEEecCCCccceEEEEEeccceehhhcccchh
Confidence 57899999999999999999999943 4577899999999998775544 111111
Q ss_pred HHH-HHHh--------------------------------hccC--------CCCh--hHHHHHHHHHHhcC-CcEEEEe
Q 000107 751 VRT-ILTA--------------------------------ANLG--------GKDP--DHIVELCDEVVQEG-HSVLIFC 786 (2191)
Q Consensus 751 ~r~-l~~~--------------------------------~~~~--------~~d~--d~l~~Ll~e~~~~g-~~vLVF~ 786 (2191)
+.. +... .... ..+. .....++..+.... -|++|||
T Consensus 495 l~~~~~~a~~~~~~~ak~~~~~~~~~~~~rgs~~~ggk~~~~~g~~r~~~~~~nrr~~~~~l~lin~L~k~~lLP~VvFv 574 (1248)
T KOG0947|consen 495 LLKGIKDAKDSLKKEAKFVDVEKSDARGGRGSQKRGGKTNYHNGGSRGSGIGKNRRKQPTWLDLINHLRKKNLLPVVVFV 574 (1248)
T ss_pred hhhcchhhhhhhcccccccccccccccccccccccCCcCCCCCCCcccccccccccccchHHHHHHHHhhcccCceEEEE
Confidence 110 0000 0000 0011 24667777766543 6999999
Q ss_pred CchhHHHHHHHHHHHHHhhcccccCCCCchhhh----hHHHHHHhhcCCCCCCh--hhhhhcCCcEEEEcCCCCHHHHHH
Q 000107 787 SSRKGCESTARHVSKFLKKFSINVHSSDSEFID----ITSAIDALRRCPAGLDP--VLEETLPSGVAYHHAGLTVEEREV 860 (2191)
Q Consensus 787 ~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~----~~~~~~~L~~~~~gld~--~L~~~l~~GVa~hHagLs~~eR~~ 860 (2191)
-||+.|+..|..|...- ... ..+..+ +.+....|+.....+.. .+.+++.+|++.||||+-+--++.
T Consensus 575 FSkkrCde~a~~L~~~n----L~~---~~EKseV~lfl~k~~~rLk~~DR~LPQvl~m~~ll~RGiaVHH~GlLPivKE~ 647 (1248)
T KOG0947|consen 575 FSKKRCDEYADYLTNLN----LTD---SKEKSEVHLFLSKAVARLKGEDRNLPQVLSMRSLLLRGIAVHHGGLLPIVKEV 647 (1248)
T ss_pred EccccHHHHHHHHhccC----ccc---chhHHHHHHHHHHHHHhcChhhccchHHHHHHHHHhhcchhhcccchHHHHHH
Confidence 99999999999986531 111 112222 23333444333222332 346788899999999999999999
Q ss_pred HHHHhhcCCceEEEecccccccCCCCCceEEeecCC--CCCc--ccCcccccccccccCCCCCCCceEEEEEeChh--hH
Q 000107 861 VETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPR--IGRD--FIDGTRYRQMAGRAGRTGIDTKGESMLICKPE--EV 934 (2191)
Q Consensus 861 Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~--~g~~--~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~--e~ 934 (2191)
||-.|..|.++||+||.|+|+|||.|++.|||++-+ .|++ .+.+-+|.||+|||||.|.|..|.+|++|... +.
T Consensus 648 VE~LFqrGlVKVLFATETFAMGVNMPARtvVF~Sl~KhDG~efR~L~PGEytQMAGRAGRRGlD~tGTVii~~~~~vp~~ 727 (1248)
T KOG0947|consen 648 VELLFQRGLVKVLFATETFAMGVNMPARTVVFSSLRKHDGNEFRELLPGEYTQMAGRAGRRGLDETGTVIIMCKDSVPSA 727 (1248)
T ss_pred HHHHHhcCceEEEeehhhhhhhcCCCceeEEeeehhhccCcceeecCChhHHhhhccccccccCcCceEEEEecCCCCCH
Confidence 999999999999999999999999999999998643 2333 47788999999999999999999999999874 56
Q ss_pred HHHHhhhccCCCCccccccc
Q 000107 935 KKIMGLLNESCPPLHSCLSE 954 (2191)
Q Consensus 935 ~~~~~ll~~~l~~l~S~L~~ 954 (2191)
..+.+++.+...++.|.+.-
T Consensus 728 a~l~~li~G~~~~L~SQFRl 747 (1248)
T KOG0947|consen 728 ATLKRLIMGGPTRLESQFRL 747 (1248)
T ss_pred HHHhhHhcCCCchhhhhhhh
Confidence 77888999888888888753
No 30
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=100.00 E-value=8e-41 Score=426.80 Aligned_cols=334 Identities=21% Similarity=0.283 Sum_probs=257.8
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHh---------cCCEEEEEchh
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIS---------TGKMALLVLPY 579 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~---------~g~kaL~I~P~ 579 (2191)
|++.+.+.+.+.||..|+|+|.+||+. ++.|+|++++||||||||++|+++++..+.. .+.++||++|+
T Consensus 15 l~~~l~~~l~~~g~~~pt~iQ~~aip~--il~g~dvi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~~~~lil~Pt 92 (423)
T PRK04837 15 LHPQVVEALEKKGFHNCTPIQALALPL--TLAGRDVAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQPRALIMAPT 92 (423)
T ss_pred CCHHHHHHHHHCCCCCCCHHHHHHHHH--HhCCCcEEEECCCCchHHHHHHHHHHHHHHhcccccccccCCceEEEECCc
Confidence 789999999999999999999999987 8999999999999999999999999988863 24589999999
Q ss_pred HHHHHHHHHHHHHHhhccCCeEEEEeccCCCC----CCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEccccccc
Q 000107 580 VSICAEKAEHLEVLLEPLGRHVRSYYGNQGGG----SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVA 655 (2191)
Q Consensus 580 raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~----~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~ 655 (2191)
++||.|+++.+..+....|+++..++|+.... .+..+++|+|+||+++..++++ ....++++++|||||+|++.
T Consensus 93 reLa~Qi~~~~~~l~~~~~~~v~~~~gg~~~~~~~~~l~~~~~IlV~TP~~l~~~l~~--~~~~l~~v~~lViDEad~l~ 170 (423)
T PRK04837 93 RELAVQIHADAEPLAQATGLKLGLAYGGDGYDKQLKVLESGVDILIGTTGRLIDYAKQ--NHINLGAIQVVVLDEADRMF 170 (423)
T ss_pred HHHHHHHHHHHHHHhccCCceEEEEECCCCHHHHHHHhcCCCCEEEECHHHHHHHHHc--CCcccccccEEEEecHHHHh
Confidence 99999999999999888899999998875421 2345689999999999888865 45578999999999999999
Q ss_pred ccchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC-HHHHH-HHhhcccccc---cc-c
Q 000107 656 DQNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN-VAAVA-DWLQAALYET---NF-R 729 (2191)
Q Consensus 656 d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N-~~~la-~wL~a~l~~~---~~-R 729 (2191)
+.++...++.++..+.. ....+.+++|||++. ...+. .+++...+.. .. .
T Consensus 171 ~~~f~~~i~~i~~~~~~------------------------~~~~~~~l~SAT~~~~~~~~~~~~~~~p~~i~v~~~~~~ 226 (423)
T PRK04837 171 DLGFIKDIRWLFRRMPP------------------------ANQRLNMLFSATLSYRVRELAFEHMNNPEYVEVEPEQKT 226 (423)
T ss_pred hcccHHHHHHHHHhCCC------------------------ccceeEEEEeccCCHHHHHHHHHHCCCCEEEEEcCCCcC
Confidence 98887777776655411 134578999999974 33332 2332211100 00 0
Q ss_pred cccceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccc
Q 000107 730 PVPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSIN 809 (2191)
Q Consensus 730 pvpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~ 809 (2191)
...+.+.+. +.... .....+..++.. ....++||||+++..|+.++..|...
T Consensus 227 ~~~i~~~~~-----~~~~~--------------~k~~~l~~ll~~--~~~~~~lVF~~t~~~~~~l~~~L~~~------- 278 (423)
T PRK04837 227 GHRIKEELF-----YPSNE--------------EKMRLLQTLIEE--EWPDRAIIFANTKHRCEEIWGHLAAD------- 278 (423)
T ss_pred CCceeEEEE-----eCCHH--------------HHHHHHHHHHHh--cCCCeEEEEECCHHHHHHHHHHHHhC-------
Confidence 000111000 00000 011122233222 13478999999999999888877431
Q ss_pred cCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCce
Q 000107 810 VHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARR 889 (2191)
Q Consensus 810 ~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~ 889 (2191)
.+.+.++||+|++++|..+++.|++|.++|||||+++++|||+|+++
T Consensus 279 ---------------------------------g~~v~~lhg~~~~~~R~~~l~~F~~g~~~vLVaTdv~~rGiDip~v~ 325 (423)
T PRK04837 279 ---------------------------------GHRVGLLTGDVAQKKRLRILEEFTRGDLDILVATDVAARGLHIPAVT 325 (423)
T ss_pred ---------------------------------CCcEEEecCCCChhHHHHHHHHHHcCCCcEEEEechhhcCCCccccC
Confidence 12389999999999999999999999999999999999999999999
Q ss_pred EEeecCCCCCcccCcccccccccccCCCCCCCceEEEEEeChhhHHHH
Q 000107 890 VIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKI 937 (2191)
Q Consensus 890 VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~ 937 (2191)
+||+++.+. +..+|+||+|||||.| ..|.|++|+.+.+...+
T Consensus 326 ~VI~~d~P~----s~~~yiqR~GR~gR~G--~~G~ai~~~~~~~~~~~ 367 (423)
T PRK04837 326 HVFNYDLPD----DCEDYVHRIGRTGRAG--ASGHSISLACEEYALNL 367 (423)
T ss_pred EEEEeCCCC----chhheEeccccccCCC--CCeeEEEEeCHHHHHHH
Confidence 999988765 8899999999999999 78999999998764443
No 31
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=100.00 E-value=1.8e-40 Score=426.66 Aligned_cols=329 Identities=23% Similarity=0.271 Sum_probs=258.7
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhc--------CCEEEEEchhH
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIST--------GKMALLVLPYV 580 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~--------g~kaL~I~P~r 580 (2191)
|++.+.+.+.+.||.+|+|+|.+||+. ++.++|+|++||||||||++|.++++..+... ..++|||+||+
T Consensus 8 l~~~l~~~l~~~g~~~pt~iQ~~ai~~--il~g~dvlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aLil~Ptr 85 (456)
T PRK10590 8 LSPDILRAVAEQGYREPTPIQQQAIPA--VLEGRDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALILTPTR 85 (456)
T ss_pred CCHHHHHHHHHCCCCCCCHHHHHHHHH--HhCCCCEEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEEEEeCcH
Confidence 678999999999999999999999987 89999999999999999999999999988642 23799999999
Q ss_pred HHHHHHHHHHHHHhhccCCeEEEEeccCCCC----CCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccc
Q 000107 581 SICAEKAEHLEVLLEPLGRHVRSYYGNQGGG----SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVAD 656 (2191)
Q Consensus 581 aLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~----~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d 656 (2191)
+||.|+++.+..+...+++++..++|+.... .+...++|+||||+++.+++.+ ....++++++|||||+|++.+
T Consensus 86 eLa~Qi~~~~~~~~~~~~~~~~~~~gg~~~~~~~~~l~~~~~IiV~TP~rL~~~~~~--~~~~l~~v~~lViDEah~ll~ 163 (456)
T PRK10590 86 ELAAQIGENVRDYSKYLNIRSLVVFGGVSINPQMMKLRGGVDVLVATPGRLLDLEHQ--NAVKLDQVEILVLDEADRMLD 163 (456)
T ss_pred HHHHHHHHHHHHHhccCCCEEEEEECCcCHHHHHHHHcCCCcEEEEChHHHHHHHHc--CCcccccceEEEeecHHHHhc
Confidence 9999999999999888889988888876432 2345689999999999888765 445689999999999999999
Q ss_pred cchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC-HHHHHHHhhcccc--cccccc---
Q 000107 657 QNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN-VAAVADWLQAALY--ETNFRP--- 730 (2191)
Q Consensus 657 ~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N-~~~la~wL~a~l~--~~~~Rp--- 730 (2191)
+++...+..++..+ +...|+++||||+++ ...++.++..... ....+.
T Consensus 164 ~~~~~~i~~il~~l--------------------------~~~~q~l~~SAT~~~~~~~l~~~~~~~~~~i~~~~~~~~~ 217 (456)
T PRK10590 164 MGFIHDIRRVLAKL--------------------------PAKRQNLLFSATFSDDIKALAEKLLHNPLEIEVARRNTAS 217 (456)
T ss_pred cccHHHHHHHHHhC--------------------------CccCeEEEEeCCCcHHHHHHHHHHcCCCeEEEEecccccc
Confidence 88777777766554 245799999999986 5566655543211 000011
Q ss_pred ccceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHh--cCCcEEEEeCchhHHHHHHHHHHHHHhhccc
Q 000107 731 VPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQ--EGHSVLIFCSSRKGCESTARHVSKFLKKFSI 808 (2191)
Q Consensus 731 vpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~--~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~ 808 (2191)
-.+..++... +......++..++. ...++||||+++..|+.++..|.+.
T Consensus 218 ~~i~~~~~~~-----------------------~~~~k~~~l~~l~~~~~~~~~lVF~~t~~~~~~l~~~L~~~------ 268 (456)
T PRK10590 218 EQVTQHVHFV-----------------------DKKRKRELLSQMIGKGNWQQVLVFTRTKHGANHLAEQLNKD------ 268 (456)
T ss_pred cceeEEEEEc-----------------------CHHHHHHHHHHHHHcCCCCcEEEEcCcHHHHHHHHHHHHHC------
Confidence 0111111100 00011122233332 2368999999999999888777431
Q ss_pred ccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCc
Q 000107 809 NVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPAR 888 (2191)
Q Consensus 809 ~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav 888 (2191)
...+..+||+|++.+|..+++.|++|.++|||||+++++|||+|++
T Consensus 269 ----------------------------------g~~~~~lhg~~~~~~R~~~l~~F~~g~~~iLVaTdv~~rGiDip~v 314 (456)
T PRK10590 269 ----------------------------------GIRSAAIHGNKSQGARTRALADFKSGDIRVLVATDIAARGLDIEEL 314 (456)
T ss_pred ----------------------------------CCCEEEEECCCCHHHHHHHHHHHHcCCCcEEEEccHHhcCCCcccC
Confidence 1237889999999999999999999999999999999999999999
Q ss_pred eEEeecCCCCCcccCcccccccccccCCCCCCCceEEEEEeChhhHHH
Q 000107 889 RVIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKK 936 (2191)
Q Consensus 889 ~VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~ 936 (2191)
++||++..+. +..+|+||+|||||.| ..|.+++|+..++...
T Consensus 315 ~~VI~~~~P~----~~~~yvqR~GRaGR~g--~~G~ai~l~~~~d~~~ 356 (456)
T PRK10590 315 PHVVNYELPN----VPEDYVHRIGRTGRAA--ATGEALSLVCVDEHKL 356 (456)
T ss_pred CEEEEeCCCC----CHHHhhhhccccccCC--CCeeEEEEecHHHHHH
Confidence 9999987765 7889999999999999 6899999998876443
No 32
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=100.00 E-value=2.2e-40 Score=427.06 Aligned_cols=332 Identities=21% Similarity=0.297 Sum_probs=260.1
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhc--CCEEEEEchhHHHHHHH
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIST--GKMALLVLPYVSICAEK 586 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~--g~kaL~I~P~raLA~q~ 586 (2191)
|++.+.+.+.+.||.+|+|+|.+|++. ++.|+|++++||||||||++|.++++..+... +.++||++||++||.|+
T Consensus 11 l~~~l~~~l~~~g~~~~t~iQ~~ai~~--~l~g~dvi~~a~TGsGKT~a~~lpil~~l~~~~~~~~~lil~PtreLa~Q~ 88 (460)
T PRK11776 11 LPPALLANLNELGYTEMTPIQAQSLPA--ILAGKDVIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQALVLCPTRELADQV 88 (460)
T ss_pred CCHHHHHHHHHCCCCCCCHHHHHHHHH--HhcCCCEEEECCCCCcHHHHHHHHHHHHhhhccCCceEEEEeCCHHHHHHH
Confidence 778999999999999999999999987 89999999999999999999999999987643 34799999999999999
Q ss_pred HHHHHHHhhcc-CCeEEEEeccCCCC----CCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhH
Q 000107 587 AEHLEVLLEPL-GRHVRSYYGNQGGG----SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGY 661 (2191)
Q Consensus 587 ~~~l~~l~~~l-g~~V~~~~G~~~~~----~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~ 661 (2191)
.+.++.+.... ++++..++|+.... .+..+++|+||||+++..++++ ....++++++||+||+|++.+.++..
T Consensus 89 ~~~~~~~~~~~~~~~v~~~~Gg~~~~~~~~~l~~~~~IvV~Tp~rl~~~l~~--~~~~l~~l~~lViDEad~~l~~g~~~ 166 (460)
T PRK11776 89 AKEIRRLARFIPNIKVLTLCGGVPMGPQIDSLEHGAHIIVGTPGRILDHLRK--GTLDLDALNTLVLDEADRMLDMGFQD 166 (460)
T ss_pred HHHHHHHHhhCCCcEEEEEECCCChHHHHHHhcCCCCEEEEChHHHHHHHHc--CCccHHHCCEEEEECHHHHhCcCcHH
Confidence 99998877654 68888899876432 2456789999999999988876 45568899999999999999988888
Q ss_pred HHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC-HHHHHHHhhcc-cc---ccccccccceEE
Q 000107 662 LLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN-VAAVADWLQAA-LY---ETNFRPVPLEEY 736 (2191)
Q Consensus 662 ~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N-~~~la~wL~a~-l~---~~~~RpvpL~e~ 736 (2191)
.++.++..+ +...|+++||||+++ ...++..+... .. ........++.+
T Consensus 167 ~l~~i~~~~--------------------------~~~~q~ll~SAT~~~~~~~l~~~~~~~~~~i~~~~~~~~~~i~~~ 220 (460)
T PRK11776 167 AIDAIIRQA--------------------------PARRQTLLFSATYPEGIAAISQRFQRDPVEVKVESTHDLPAIEQR 220 (460)
T ss_pred HHHHHHHhC--------------------------CcccEEEEEEecCcHHHHHHHHHhcCCCEEEEECcCCCCCCeeEE
Confidence 887776655 356799999999984 34444433211 10 011111111111
Q ss_pred EEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCch
Q 000107 737 IKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSE 816 (2191)
Q Consensus 737 i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~ 816 (2191)
+... .. ....+.+..++.. ....++||||+|++.|+.++..|...
T Consensus 221 ~~~~------~~-------------~~k~~~l~~ll~~--~~~~~~lVF~~t~~~~~~l~~~L~~~-------------- 265 (460)
T PRK11776 221 FYEV------SP-------------DERLPALQRLLLH--HQPESCVVFCNTKKECQEVADALNAQ-------------- 265 (460)
T ss_pred EEEe------Cc-------------HHHHHHHHHHHHh--cCCCceEEEECCHHHHHHHHHHHHhC--------------
Confidence 1100 00 0011223333322 13468999999999999999887541
Q ss_pred hhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecCC
Q 000107 817 FIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPR 896 (2191)
Q Consensus 817 ~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~ 896 (2191)
...+.++||+|++.+|+.+++.|++|.++|||||+++++|||+|++++||+++.
T Consensus 266 --------------------------~~~v~~~hg~~~~~eR~~~l~~F~~g~~~vLVaTdv~~rGiDi~~v~~VI~~d~ 319 (460)
T PRK11776 266 --------------------------GFSALALHGDLEQRDRDQVLVRFANRSCSVLVATDVAARGLDIKALEAVINYEL 319 (460)
T ss_pred --------------------------CCcEEEEeCCCCHHHHHHHHHHHHcCCCcEEEEecccccccchhcCCeEEEecC
Confidence 123889999999999999999999999999999999999999999999999887
Q ss_pred CCCcccCcccccccccccCCCCCCCceEEEEEeChhhHHHH
Q 000107 897 IGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKI 937 (2191)
Q Consensus 897 ~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~ 937 (2191)
+. +..+|+||+|||||.| ..|.||+++.+.+...+
T Consensus 320 p~----~~~~yiqR~GRtGR~g--~~G~ai~l~~~~e~~~~ 354 (460)
T PRK11776 320 AR----DPEVHVHRIGRTGRAG--SKGLALSLVAPEEMQRA 354 (460)
T ss_pred CC----CHhHhhhhcccccCCC--CcceEEEEEchhHHHHH
Confidence 66 7889999999999999 68999999998775543
No 33
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=100.00 E-value=3.6e-40 Score=431.22 Aligned_cols=334 Identities=19% Similarity=0.249 Sum_probs=258.3
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhc---------CCEEEEEchh
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIST---------GKMALLVLPY 579 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~---------g~kaL~I~P~ 579 (2191)
|++.+++.|.+.||..|||+|.+||+. ++.|+|+|++||||||||++|++++++.+... +.++|||+||
T Consensus 16 l~~~l~~~L~~~g~~~ptpiQ~~~ip~--~l~G~Dvi~~ApTGSGKTlafllpil~~l~~~~~~~~~~~~~~raLIl~PT 93 (572)
T PRK04537 16 LHPALLAGLESAGFTRCTPIQALTLPV--ALPGGDVAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDPRALILAPT 93 (572)
T ss_pred CCHHHHHHHHHCCCCCCCHHHHHHHHH--HhCCCCEEEEcCCCCcHHHHHHHHHHHHHHhcccccccccCCceEEEEeCc
Confidence 778999999999999999999999987 99999999999999999999999999988642 3689999999
Q ss_pred HHHHHHHHHHHHHHhhccCCeEEEEeccCCCC----CCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEccccccc
Q 000107 580 VSICAEKAEHLEVLLEPLGRHVRSYYGNQGGG----SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVA 655 (2191)
Q Consensus 580 raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~----~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~ 655 (2191)
++||.|+++.+..+...+++++..++|+.... .+..+++|+|+||+++..++.+. ....+..+++|||||+|++.
T Consensus 94 reLa~Qi~~~~~~l~~~~~i~v~~l~Gg~~~~~q~~~l~~~~dIiV~TP~rL~~~l~~~-~~~~l~~v~~lViDEAh~ll 172 (572)
T PRK04537 94 RELAIQIHKDAVKFGADLGLRFALVYGGVDYDKQRELLQQGVDVIIATPGRLIDYVKQH-KVVSLHACEICVLDEADRMF 172 (572)
T ss_pred HHHHHHHHHHHHHHhccCCceEEEEECCCCHHHHHHHHhCCCCEEEECHHHHHHHHHhc-cccchhheeeeEecCHHHHh
Confidence 99999999999999888999999999976432 13456899999999998887642 22457889999999999999
Q ss_pred ccchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC-HHH-HHHHhhccc---cccc-cc
Q 000107 656 DQNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN-VAA-VADWLQAAL---YETN-FR 729 (2191)
Q Consensus 656 d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N-~~~-la~wL~a~l---~~~~-~R 729 (2191)
+.++...++.++.++.. ....|+++||||+++ ... ...++.... +... ..
T Consensus 173 d~gf~~~i~~il~~lp~------------------------~~~~q~ll~SATl~~~v~~l~~~~l~~p~~i~v~~~~~~ 228 (572)
T PRK04537 173 DLGFIKDIRFLLRRMPE------------------------RGTRQTLLFSATLSHRVLELAYEHMNEPEKLVVETETIT 228 (572)
T ss_pred hcchHHHHHHHHHhccc------------------------ccCceEEEEeCCccHHHHHHHHHHhcCCcEEEecccccc
Confidence 98888888887766621 135799999999985 222 223333210 0000 00
Q ss_pred cccceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccc
Q 000107 730 PVPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSIN 809 (2191)
Q Consensus 730 pvpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~ 809 (2191)
...+...+... ... .....+..++.. ..+.++||||+|+..|+.++..|.+.
T Consensus 229 ~~~i~q~~~~~-----~~~--------------~k~~~L~~ll~~--~~~~k~LVF~nt~~~ae~l~~~L~~~------- 280 (572)
T PRK04537 229 AARVRQRIYFP-----ADE--------------EKQTLLLGLLSR--SEGARTMVFVNTKAFVERVARTLERH------- 280 (572)
T ss_pred ccceeEEEEec-----CHH--------------HHHHHHHHHHhc--ccCCcEEEEeCCHHHHHHHHHHHHHc-------
Confidence 00011111100 000 001122222221 24679999999999999988877431
Q ss_pred cCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCce
Q 000107 810 VHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARR 889 (2191)
Q Consensus 810 ~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~ 889 (2191)
.+.+.++||+|++.+|..+++.|++|.++|||||+++++|||+|+++
T Consensus 281 ---------------------------------g~~v~~lhg~l~~~eR~~il~~Fr~G~~~VLVaTdv~arGIDip~V~ 327 (572)
T PRK04537 281 ---------------------------------GYRVGVLSGDVPQKKRESLLNRFQKGQLEILVATDVAARGLHIDGVK 327 (572)
T ss_pred ---------------------------------CCCEEEEeCCCCHHHHHHHHHHHHcCCCeEEEEehhhhcCCCccCCC
Confidence 12389999999999999999999999999999999999999999999
Q ss_pred EEeecCCCCCcccCcccccccccccCCCCCCCceEEEEEeChhhHHH
Q 000107 890 VIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKK 936 (2191)
Q Consensus 890 VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~ 936 (2191)
+||+++.+. +..+|+||+|||||.| ..|.||+|+.+.+...
T Consensus 328 ~VInyd~P~----s~~~yvqRiGRaGR~G--~~G~ai~~~~~~~~~~ 368 (572)
T PRK04537 328 YVYNYDLPF----DAEDYVHRIGRTARLG--EEGDAISFACERYAMS 368 (572)
T ss_pred EEEEcCCCC----CHHHHhhhhcccccCC--CCceEEEEecHHHHHH
Confidence 999987654 8899999999999999 6899999998866443
No 34
>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]
Probab=100.00 E-value=2.1e-40 Score=405.43 Aligned_cols=390 Identities=29% Similarity=0.463 Sum_probs=302.0
Q ss_pred CCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEE
Q 000107 524 KLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRS 603 (2191)
Q Consensus 524 ~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~ 603 (2191)
+|-|+|.++|.. +-.+++++|+|.|++|||.+|+.+|...+. .+.++||..|.++|.+|+|++|..-|+.. +.
T Consensus 129 ~LDpFQ~~aI~C--idr~eSVLVSAHTSAGKTVVAeYAIA~sLr-~kQRVIYTSPIKALSNQKYREl~~EF~DV----GL 201 (1041)
T KOG0948|consen 129 TLDPFQSTAIKC--IDRGESVLVSAHTSAGKTVVAEYAIAMSLR-EKQRVIYTSPIKALSNQKYRELLEEFKDV----GL 201 (1041)
T ss_pred ccCchHhhhhhh--hcCCceEEEEeecCCCcchHHHHHHHHHHH-hcCeEEeeChhhhhcchhHHHHHHHhccc----ce
Confidence 688999999987 889999999999999999999999987765 58899999999999999999998777654 45
Q ss_pred EeccCCCCCCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHhhcCCCCCCCC
Q 000107 604 YYGNQGGGSLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAAGEGTSDSSS 683 (2191)
Q Consensus 604 ~~G~~~~~~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~~~~s~~ 683 (2191)
.+|+.+ +.++...+|+|.|.+-+++-+ +...++++..||+||+|.|-|..||..+|..|-.|
T Consensus 202 MTGDVT---InP~ASCLVMTTEILRsMLYR--GSEvmrEVaWVIFDEIHYMRDkERGVVWEETIIll------------- 263 (1041)
T KOG0948|consen 202 MTGDVT---INPDASCLVMTTEILRSMLYR--GSEVMREVAWVIFDEIHYMRDKERGVVWEETIILL------------- 263 (1041)
T ss_pred eeccee---eCCCCceeeeHHHHHHHHHhc--cchHhheeeeEEeeeehhccccccceeeeeeEEec-------------
Confidence 567653 456788999999998888876 56678999999999999999999999999877655
Q ss_pred CCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhh------ccccccccccccceEEEEe--cccccc---ch-----
Q 000107 684 GENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQ------AALYETNFRPVPLEEYIKV--GNAIYS---KK----- 747 (2191)
Q Consensus 684 ~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~------a~l~~~~~RpvpL~e~i~~--~~~~~~---~~----- 747 (2191)
+.+++.|++|||+||+.++|+|+- +.++-++|||.||+.|+.. ++.+|- .+
T Consensus 264 -------------P~~vr~VFLSATiPNA~qFAeWI~~ihkQPcHVVYTdyRPTPLQHyifP~ggdGlylvVDek~~Fre 330 (1041)
T KOG0948|consen 264 -------------PDNVRFVFLSATIPNARQFAEWICHIHKQPCHVVYTDYRPTPLQHYIFPAGGDGLYLVVDEKGKFRE 330 (1041)
T ss_pred -------------cccceEEEEeccCCCHHHHHHHHHHHhcCCceEEeecCCCCcceeeeecCCCCeeEEEEecccccch
Confidence 578999999999999999999996 4467899999999998765 333331 11
Q ss_pred hhHHH---HHHHhhcc-----------------CCCChhHHHHHHHHHHhc-CCcEEEEeCchhHHHHHHHHHHHHHhhc
Q 000107 748 MDVVR---TILTAANL-----------------GGKDPDHIVELCDEVVQE-GHSVLIFCSSRKGCESTARHVSKFLKKF 806 (2191)
Q Consensus 748 ~~~~r---~l~~~~~~-----------------~~~d~d~l~~Ll~e~~~~-g~~vLVF~~Sr~~~e~lA~~L~~~l~~~ 806 (2191)
..+.. .+...... .......+..++..+... ..+||||+-|+++||.+|..+.+.-
T Consensus 331 dnF~~am~~l~~~~~~~~~~~~~~k~~kG~~~~~~~~~s~i~kiVkmi~~~~~~PVIvFSFSkkeCE~~Alqm~kld--- 407 (1041)
T KOG0948|consen 331 DNFQKAMSVLRKAGESDGKKKANKKGRKGGTGGKGPGDSDIYKIVKMIMERNYLPVIVFSFSKKECEAYALQMSKLD--- 407 (1041)
T ss_pred HHHHHHHHHhhccCCCccccccccccccCCcCCCCCCcccHHHHHHHHHhhcCCceEEEEecHhHHHHHHHhhccCc---
Confidence 11111 11111000 011122455666666554 4799999999999999999886532
Q ss_pred ccccCCCCchhh--hhHHHHHHhhcCCCCCC--hhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEeccccccc
Q 000107 807 SINVHSSDSEFI--DITSAIDALRRCPAGLD--PVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAG 882 (2191)
Q Consensus 807 ~~~~~~~~~~~~--~~~~~~~~L~~~~~gld--~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~G 882 (2191)
.+.+.+ .+.. -+...++.|.....++. ....-++.+||+.||+||-+--++.||=.|..|.++||+||.|++.|
T Consensus 408 -fN~deE-k~~V~~iF~nAi~~LseeDr~LPqie~iLPLL~RGIGIHHsGLLPIlKE~IEILFqEGLvKvLFATETFsiG 485 (1041)
T KOG0948|consen 408 -FNTDEE-KELVETIFNNAIDQLSEEDRELPQIENILPLLRRGIGIHHSGLLPILKEVIEILFQEGLVKVLFATETFSIG 485 (1041)
T ss_pred -CCChhH-HHHHHHHHHHHHHhcChhhccchHHHHHHHHHHhccccccccchHHHHHHHHHHHhccHHHHHHhhhhhhhc
Confidence 111000 0111 13345555554433332 22345678999999999999999999999999999999999999999
Q ss_pred CCCCCceEEeecCC----CCCcccCcccccccccccCCCCCCCceEEEEEeChh-hHHHHHhhhccCCCCccccccccc
Q 000107 883 VNLPARRVIFRQPR----IGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPE-EVKKIMGLLNESCPPLHSCLSEDK 956 (2191)
Q Consensus 883 VNLPav~VVI~~p~----~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~-e~~~~~~ll~~~l~~l~S~L~~~~ 956 (2191)
+|.|+.+||+-..+ -...|++.-+|+||.|||||.|.|..|.||++.+.. +....+.++++...++.|.++-..
T Consensus 486 LNMPAkTVvFT~~rKfDG~~fRwissGEYIQMSGRAGRRG~DdrGivIlmiDekm~~~~ak~m~kG~aD~LnSaFhLtY 564 (1041)
T KOG0948|consen 486 LNMPAKTVVFTAVRKFDGKKFRWISSGEYIQMSGRAGRRGIDDRGIVILMIDEKMEPQVAKDMLKGSADPLNSAFHLTY 564 (1041)
T ss_pred cCCcceeEEEeeccccCCcceeeecccceEEecccccccCCCCCceEEEEecCcCCHHHHHHHhcCCCcchhhhhhhHH
Confidence 99999999986432 123589999999999999999999999999999874 455667899999999988876433
No 35
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=100.00 E-value=2.1e-39 Score=415.45 Aligned_cols=331 Identities=18% Similarity=0.242 Sum_probs=261.8
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHh------cCCEEEEEchhHHH
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIS------TGKMALLVLPYVSI 582 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~------~g~kaL~I~P~raL 582 (2191)
|++.+++.|.+.||.+|+++|.++++. ++.|+|++++||||+|||++|++++++.+.. .+.++||++|+++|
T Consensus 8 l~~~l~~~l~~~g~~~p~~iQ~~ai~~--~~~g~d~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~Pt~eL 85 (434)
T PRK11192 8 LDESLLEALQDKGYTRPTAIQAEAIPP--ALDGRDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILTPTREL 85 (434)
T ss_pred CCHHHHHHHHHCCCCCCCHHHHHHHHH--HhCCCCEEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEECCcHHH
Confidence 668999999999999999999999987 8899999999999999999999999998864 23589999999999
Q ss_pred HHHHHHHHHHHhhccCCeEEEEeccCCCC----CCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccc
Q 000107 583 CAEKAEHLEVLLEPLGRHVRSYYGNQGGG----SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQN 658 (2191)
Q Consensus 583 A~q~~~~l~~l~~~lg~~V~~~~G~~~~~----~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~ 658 (2191)
|.|+++.+..+...+++.+..++|+.... .+..+++|+|+||+++..++.+ ....+.++++|||||+|.+.+.+
T Consensus 86 a~Q~~~~~~~l~~~~~~~v~~~~gg~~~~~~~~~l~~~~~IlV~Tp~rl~~~~~~--~~~~~~~v~~lViDEah~~l~~~ 163 (434)
T PRK11192 86 AMQVADQARELAKHTHLDIATITGGVAYMNHAEVFSENQDIVVATPGRLLQYIKE--ENFDCRAVETLILDEADRMLDMG 163 (434)
T ss_pred HHHHHHHHHHHHccCCcEEEEEECCCCHHHHHHHhcCCCCEEEEChHHHHHHHHc--CCcCcccCCEEEEECHHHHhCCC
Confidence 99999999999888899999999876432 1345689999999999888765 44467899999999999999988
Q ss_pred hhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC--HHHHHHHhhcccccccccccc----
Q 000107 659 RGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN--VAAVADWLQAALYETNFRPVP---- 732 (2191)
Q Consensus 659 RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N--~~~la~wL~a~l~~~~~Rpvp---- 732 (2191)
++..++.+...+ +...|+++||||++. ..++..++..........+..
T Consensus 164 ~~~~~~~i~~~~--------------------------~~~~q~~~~SAT~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~ 217 (434)
T PRK11192 164 FAQDIETIAAET--------------------------RWRKQTLLFSATLEGDAVQDFAERLLNDPVEVEAEPSRRERK 217 (434)
T ss_pred cHHHHHHHHHhC--------------------------ccccEEEEEEeecCHHHHHHHHHHHccCCEEEEecCCccccc
Confidence 888887776544 234699999999963 566666664321111110100
Q ss_pred -ceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHh--cCCcEEEEeCchhHHHHHHHHHHHHHhhcccc
Q 000107 733 -LEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQ--EGHSVLIFCSSRKGCESTARHVSKFLKKFSIN 809 (2191)
Q Consensus 733 -L~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~--~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~ 809 (2191)
+..++. ..........++..++. ...++||||+++..|+.++..|...
T Consensus 218 ~i~~~~~----------------------~~~~~~~k~~~l~~l~~~~~~~~~lVF~~s~~~~~~l~~~L~~~------- 268 (434)
T PRK11192 218 KIHQWYY----------------------RADDLEHKTALLCHLLKQPEVTRSIVFVRTRERVHELAGWLRKA------- 268 (434)
T ss_pred CceEEEE----------------------EeCCHHHHHHHHHHHHhcCCCCeEEEEeCChHHHHHHHHHHHhC-------
Confidence 000000 00111222334444443 3578999999999999988887531
Q ss_pred cCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCce
Q 000107 810 VHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARR 889 (2191)
Q Consensus 810 ~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~ 889 (2191)
...+.++||+|++.+|..+++.|++|.++|||||+++++|||+|+++
T Consensus 269 ---------------------------------~~~~~~l~g~~~~~~R~~~l~~f~~G~~~vLVaTd~~~~GiDip~v~ 315 (434)
T PRK11192 269 ---------------------------------GINCCYLEGEMVQAKRNEAIKRLTDGRVNVLVATDVAARGIDIDDVS 315 (434)
T ss_pred ---------------------------------CCCEEEecCCCCHHHHHHHHHHHhCCCCcEEEEccccccCccCCCCC
Confidence 11388999999999999999999999999999999999999999999
Q ss_pred EEeecCCCCCcccCcccccccccccCCCCCCCceEEEEEeChhhHHHH
Q 000107 890 VIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKI 937 (2191)
Q Consensus 890 VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~ 937 (2191)
+||++..+. +...|+||+|||||.| ..|.++++++..+...+
T Consensus 316 ~VI~~d~p~----s~~~yiqr~GR~gR~g--~~g~ai~l~~~~d~~~~ 357 (434)
T PRK11192 316 HVINFDMPR----SADTYLHRIGRTGRAG--RKGTAISLVEAHDHLLL 357 (434)
T ss_pred EEEEECCCC----CHHHHhhcccccccCC--CCceEEEEecHHHHHHH
Confidence 999877654 7889999999999999 78999999988765443
No 36
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.2e-40 Score=426.67 Aligned_cols=339 Identities=26% Similarity=0.353 Sum_probs=265.3
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHh--cCC-E-EEEEchhHHHHH
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIS--TGK-M-ALLVLPYVSICA 584 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~--~g~-k-aL~I~P~raLA~ 584 (2191)
|++.+++.+.+.||..|+|+|.++||. ++.|+|+++.|+||+|||++|.+|+++.+.. ... . +|+++|||+||.
T Consensus 36 l~~~ll~~l~~~gf~~pt~IQ~~~IP~--~l~g~Dvi~~A~TGsGKT~Af~lP~l~~l~~~~~~~~~~aLil~PTRELA~ 113 (513)
T COG0513 36 LSPELLQALKDLGFEEPTPIQLAAIPL--ILAGRDVLGQAQTGTGKTAAFLLPLLQKILKSVERKYVSALILAPTRELAV 113 (513)
T ss_pred CCHHHHHHHHHcCCCCCCHHHHHHHHH--HhCCCCEEEECCCCChHHHHHHHHHHHHHhcccccCCCceEEECCCHHHHH
Confidence 678999999999999999999999987 9999999999999999999999999999763 222 2 999999999999
Q ss_pred HHHHHHHHHhhcc-CCeEEEEeccCCCC----CCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccch
Q 000107 585 EKAEHLEVLLEPL-GRHVRSYYGNQGGG----SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNR 659 (2191)
Q Consensus 585 q~~~~l~~l~~~l-g~~V~~~~G~~~~~----~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~R 659 (2191)
|+++.+..+.... ++++..++|+.... .+..+++|+|+||+++.+++.+ ....++.+.++|+||+++|.|.++
T Consensus 114 Qi~~~~~~~~~~~~~~~~~~i~GG~~~~~q~~~l~~~~~ivVaTPGRllD~i~~--~~l~l~~v~~lVlDEADrmLd~Gf 191 (513)
T COG0513 114 QIAEELRKLGKNLGGLRVAVVYGGVSIRKQIEALKRGVDIVVATPGRLLDLIKR--GKLDLSGVETLVLDEADRMLDMGF 191 (513)
T ss_pred HHHHHHHHHHhhcCCccEEEEECCCCHHHHHHHHhcCCCEEEECccHHHHHHHc--CCcchhhcCEEEeccHhhhhcCCC
Confidence 9999999998888 78999999987532 2344699999999999999987 467899999999999999999999
Q ss_pred hHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhccccccccccccceEEEEe
Q 000107 660 GYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQAALYETNFRPVPLEEYIKV 739 (2191)
Q Consensus 660 G~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a~l~~~~~RpvpL~e~i~~ 739 (2191)
...++.++..+ +.+.|++++|||+++ .+..|....+- .|+.+ .+..
T Consensus 192 ~~~i~~I~~~~--------------------------p~~~qtllfSAT~~~--~i~~l~~~~l~----~p~~i--~v~~ 237 (513)
T COG0513 192 IDDIEKILKAL--------------------------PPDRQTLLFSATMPD--DIRELARRYLN----DPVEI--EVSV 237 (513)
T ss_pred HHHHHHHHHhC--------------------------CcccEEEEEecCCCH--HHHHHHHHHcc----CCcEE--EEcc
Confidence 99999998877 346899999999986 46655544332 22211 1110
Q ss_pred ccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHh--cCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchh
Q 000107 740 GNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQ--EGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEF 817 (2191)
Q Consensus 740 ~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~--~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~ 817 (2191)
... ..... .+..... .....+.-..++..++. ...++||||+|+..|+.++..|...
T Consensus 238 ~~~--~~~~~---~i~q~~~-~v~~~~~k~~~L~~ll~~~~~~~~IVF~~tk~~~~~l~~~l~~~--------------- 296 (513)
T COG0513 238 EKL--ERTLK---KIKQFYL-EVESEEEKLELLLKLLKDEDEGRVIVFVRTKRLVEELAESLRKR--------------- 296 (513)
T ss_pred ccc--ccccc---CceEEEE-EeCCHHHHHHHHHHHHhcCCCCeEEEEeCcHHHHHHHHHHHHHC---------------
Confidence 000 00000 0000000 00111112223333333 2346999999999999988776441
Q ss_pred hhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecCCC
Q 000107 818 IDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRI 897 (2191)
Q Consensus 818 ~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~~ 897 (2191)
++.+..+||+|++++|..+++.|++|.++|||||+++++|||||++.+||+++.+
T Consensus 297 -------------------------g~~~~~lhG~l~q~~R~~~l~~F~~g~~~vLVaTDvaaRGiDi~~v~~VinyD~p 351 (513)
T COG0513 297 -------------------------GFKVAALHGDLPQEERDRALEKFKDGELRVLVATDVAARGLDIPDVSHVINYDLP 351 (513)
T ss_pred -------------------------CCeEEEecCCCCHHHHHHHHHHHHcCCCCEEEEechhhccCCccccceeEEccCC
Confidence 2238899999999999999999999999999999999999999999999999887
Q ss_pred CCcccCcccccccccccCCCCCCCceEEEEEeChh-hHHHH
Q 000107 898 GRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPE-EVKKI 937 (2191)
Q Consensus 898 g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~-e~~~~ 937 (2191)
. +...|+||+||+||+| ..|.++.|+.+. +...+
T Consensus 352 ~----~~e~yvHRiGRTgRaG--~~G~ai~fv~~~~e~~~l 386 (513)
T COG0513 352 L----DPEDYVHRIGRTGRAG--RKGVAISFVTEEEEVKKL 386 (513)
T ss_pred C----CHHHheeccCccccCC--CCCeEEEEeCcHHHHHHH
Confidence 5 8899999999999999 899999999874 54443
No 37
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=100.00 E-value=5.9e-39 Score=417.36 Aligned_cols=419 Identities=22% Similarity=0.266 Sum_probs=317.6
Q ss_pred CCcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcC-------CEEEEEchhH
Q 000107 508 WLPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTG-------KMALLVLPYV 580 (2191)
Q Consensus 508 ~Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g-------~kaL~I~P~r 580 (2191)
.|++.+.++|++. |.+|+|.|.++|+. +.+|+|++++||||||||++|.+|++..+...+ -.+|||.|.+
T Consensus 7 ~l~~~v~~~~~~~-~~~~t~~Q~~a~~~--i~~G~nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLk 83 (814)
T COG1201 7 ILDPRVREWFKRK-FTSLTPPQRYAIPE--IHSGENVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLK 83 (814)
T ss_pred hcCHHHHHHHHHh-cCCCCHHHHHHHHH--HhCCCceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHH
Confidence 4889999999988 99999999999987 999999999999999999999999999998762 4799999999
Q ss_pred HHHHHHHHHHHHHhhccCCeEEEEeccCCCC----CCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccc
Q 000107 581 SICAEKAEHLEVLLEPLGRHVRSYYGNQGGG----SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVAD 656 (2191)
Q Consensus 581 aLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~----~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d 656 (2191)
||.+.+..++...+..+|+.|...+|++... ...+.+||+|+|||.+..++..-.....|.++.+|||||+|.+.+
T Consensus 84 ALn~Di~~rL~~~~~~~G~~v~vRhGDT~~~er~r~~~~PPdILiTTPEsL~lll~~~~~r~~l~~vr~VIVDEiHel~~ 163 (814)
T COG1201 84 ALNNDIRRRLEEPLRELGIEVAVRHGDTPQSEKQKMLKNPPHILITTPESLAILLNSPKFRELLRDVRYVIVDEIHALAE 163 (814)
T ss_pred HHHHHHHHHHHHHHHHcCCccceecCCCChHHhhhccCCCCcEEEeChhHHHHHhcCHHHHHHhcCCcEEEeehhhhhhc
Confidence 9999999999999999999999999998653 244568999999999988876433445789999999999999999
Q ss_pred cchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhccccccccccccceEE
Q 000107 657 QNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQAALYETNFRPVPLEEY 736 (2191)
Q Consensus 657 ~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a~l~~~~~RpvpL~e~ 736 (2191)
..||..+-..|.+|+.+. .++|.||+|||+.+++++++||...-.....-.++....
T Consensus 164 sKRG~~Lsl~LeRL~~l~-----------------------~~~qRIGLSATV~~~~~varfL~g~~~~~~Iv~~~~~k~ 220 (814)
T COG1201 164 SKRGVQLALSLERLRELA-----------------------GDFQRIGLSATVGPPEEVAKFLVGFGDPCEIVDVSAAKK 220 (814)
T ss_pred cccchhhhhhHHHHHhhC-----------------------cccEEEeehhccCCHHHHHHHhcCCCCceEEEEcccCCc
Confidence 999999999999998874 268999999999999999999986421000001111111
Q ss_pred EEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCch
Q 000107 737 IKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSE 816 (2191)
Q Consensus 737 i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~ 816 (2191)
..+.-......... .+.....+...+.+.++...++|||+|||..+|.++..|.+...
T Consensus 221 ~~i~v~~p~~~~~~----------~~~~~~~~~~~i~~~v~~~~ttLIF~NTR~~aE~l~~~L~~~~~------------ 278 (814)
T COG1201 221 LEIKVISPVEDLIY----------DEELWAALYERIAELVKKHRTTLIFTNTRSGAERLAFRLKKLGP------------ 278 (814)
T ss_pred ceEEEEecCCcccc----------ccchhHHHHHHHHHHHhhcCcEEEEEeChHHHHHHHHHHHHhcC------------
Confidence 11000000000000 02233456677778888888999999999999999988866431
Q ss_pred hhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecCC
Q 000107 817 FIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPR 896 (2191)
Q Consensus 817 ~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~ 896 (2191)
..|+.|||.|+.+.|..+|++|++|.++++|||++++-|||+-++..||++..
T Consensus 279 ---------------------------~~i~~HHgSlSre~R~~vE~~lk~G~lravV~TSSLELGIDiG~vdlVIq~~S 331 (814)
T COG1201 279 ---------------------------DIIEVHHGSLSRELRLEVEERLKEGELKAVVATSSLELGIDIGDIDLVIQLGS 331 (814)
T ss_pred ---------------------------CceeeecccccHHHHHHHHHHHhcCCceEEEEccchhhccccCCceEEEEeCC
Confidence 23889999999999999999999999999999999999999999999987554
Q ss_pred CCCcccCcccccccccccCCCCCCCceEEEEEeChh-hH----HHHHhhhccCCC---CcccccccccchhhHHHHHHHh
Q 000107 897 IGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPE-EV----KKIMGLLNESCP---PLHSCLSEDKNGMTHAILEVVA 968 (2191)
Q Consensus 897 ~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~-e~----~~~~~ll~~~l~---~l~S~L~~~~~~l~~~iLeiia 968 (2191)
|. ++..++||+||+|+.- +.....++++... +. ........+.++ +..-+| .-+.+.++.++.
T Consensus 332 P~----sV~r~lQRiGRsgHr~-~~~Skg~ii~~~r~dllE~~vi~~~a~~g~le~~~i~~~~L----DVLaq~ivg~~~ 402 (814)
T COG1201 332 PK----SVNRFLQRIGRAGHRL-GEVSKGIIIAEDRDDLLECLVLADLALEGKLERIKIPKNPL----DVLAQQIVGMAL 402 (814)
T ss_pred cH----HHHHHhHhcccccccc-CCcccEEEEecCHHHHHHHHHHHHHHHhCCcccCCCCCcch----hHHHHHHHHHHh
Confidence 43 8899999999999643 2455667776652 21 112233333333 222222 234555666655
Q ss_pred cccccCHHHHHHHHHhhhcCCCCcchhHHHHHHHHHHHHHH--ccccee
Q 000107 969 GGIVQTAEDIHRYVRCTLLNSTKPFQDVVKSAQDSLRWLCH--RKFLEW 1015 (2191)
Q Consensus 969 ~gi~~t~~di~~~l~~tll~~~~~~~~~~~~~~~al~~L~~--~~~i~~ 1015 (2191)
.. .-+..++.+.+..++-+..-+ .+.....+++|.. ..++..
T Consensus 403 ~~-~~~~~~~y~~vrraypy~~L~----~e~f~~v~~~l~~~~~~~~~i 446 (814)
T COG1201 403 EK-VWEVEEAYRVVRRAYPYADLS----REDFRLVLRYLAGEKNVYAKI 446 (814)
T ss_pred hC-cCCHHHHHHHHHhccccccCC----HHHHHHHHHHHhhcccceeEE
Confidence 55 667888888888887666554 3445677888887 555543
No 38
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=100.00 E-value=3e-39 Score=417.76 Aligned_cols=333 Identities=19% Similarity=0.242 Sum_probs=254.4
Q ss_pred CCcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhc---------CCEEEEEch
Q 000107 508 WLPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIST---------GKMALLVLP 578 (2191)
Q Consensus 508 ~Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~---------g~kaL~I~P 578 (2191)
+|++.+.+.+.+.||.+||+||.+||+. ++.|+|+|+++|||||||++|.++++..+... +.++|||+|
T Consensus 93 ~l~~~l~~~l~~~g~~~~~~iQ~~ai~~--~~~G~dvi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~~aLil~P 170 (475)
T PRK01297 93 NLAPELMHAIHDLGFPYCTPIQAQVLGY--TLAGHDAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEPRALIIAP 170 (475)
T ss_pred CCCHHHHHHHHHCCCCCCCHHHHHHHHH--HhCCCCEEEECCCCChHHHHHHHHHHHHHHhcCcccccccCCceEEEEeC
Confidence 4789999999999999999999999987 99999999999999999999999999988753 468999999
Q ss_pred hHHHHHHHHHHHHHHhhccCCeEEEEeccCCCC----C-CCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEccccc
Q 000107 579 YVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGG----S-LPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHM 653 (2191)
Q Consensus 579 ~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~----~-l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~ 653 (2191)
|++||.|+++.++.+...+++.+..++|+.... . ....++|+|+||+++..++.+ ....++++++|||||+|.
T Consensus 171 treLa~Q~~~~~~~l~~~~~~~v~~~~gg~~~~~~~~~~~~~~~~Iiv~TP~~Ll~~~~~--~~~~l~~l~~lViDEah~ 248 (475)
T PRK01297 171 TRELVVQIAKDAAALTKYTGLNVMTFVGGMDFDKQLKQLEARFCDILVATPGRLLDFNQR--GEVHLDMVEVMVLDEADR 248 (475)
T ss_pred cHHHHHHHHHHHHHhhccCCCEEEEEEccCChHHHHHHHhCCCCCEEEECHHHHHHHHHc--CCcccccCceEEechHHH
Confidence 999999999999999888899999888875321 1 234579999999999887765 345789999999999999
Q ss_pred ccccchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC-HHHHHH-Hhhcccc-c--ccc
Q 000107 654 VADQNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN-VAAVAD-WLQAALY-E--TNF 728 (2191)
Q Consensus 654 l~d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N-~~~la~-wL~a~l~-~--~~~ 728 (2191)
+.+.++...+..++..+. .....|+|++|||+++ ...++. |+..... . ...
T Consensus 249 l~~~~~~~~l~~i~~~~~------------------------~~~~~q~i~~SAT~~~~~~~~~~~~~~~~~~v~~~~~~ 304 (475)
T PRK01297 249 MLDMGFIPQVRQIIRQTP------------------------RKEERQTLLFSATFTDDVMNLAKQWTTDPAIVEIEPEN 304 (475)
T ss_pred HHhcccHHHHHHHHHhCC------------------------CCCCceEEEEEeecCHHHHHHHHHhccCCEEEEeccCc
Confidence 988776665655554331 0134699999999874 444443 3322111 0 000
Q ss_pred -ccccceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcc
Q 000107 729 -RPVPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFS 807 (2191)
Q Consensus 729 -RpvpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~ 807 (2191)
..-.+..++... . .......+..++.. ....++||||++++.|+.++..|...
T Consensus 305 ~~~~~~~~~~~~~------~-------------~~~k~~~l~~ll~~--~~~~~~IVF~~s~~~~~~l~~~L~~~----- 358 (475)
T PRK01297 305 VASDTVEQHVYAV------A-------------GSDKYKLLYNLVTQ--NPWERVMVFANRKDEVRRIEERLVKD----- 358 (475)
T ss_pred CCCCcccEEEEEe------c-------------chhHHHHHHHHHHh--cCCCeEEEEeCCHHHHHHHHHHHHHc-----
Confidence 000011111000 0 00011122222221 12368999999999999888776331
Q ss_pred cccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCC
Q 000107 808 INVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPA 887 (2191)
Q Consensus 808 ~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPa 887 (2191)
...+..+||+|+.++|..+++.|++|.++|||||+++++|||+|+
T Consensus 359 -----------------------------------~~~~~~~~g~~~~~~R~~~~~~Fr~G~~~vLvaT~~l~~GIDi~~ 403 (475)
T PRK01297 359 -----------------------------------GINAAQLSGDVPQHKRIKTLEGFREGKIRVLVATDVAGRGIHIDG 403 (475)
T ss_pred -----------------------------------CCCEEEEECCCCHHHHHHHHHHHhCCCCcEEEEccccccCCcccC
Confidence 123788999999999999999999999999999999999999999
Q ss_pred ceEEeecCCCCCcccCcccccccccccCCCCCCCceEEEEEeChhhHH
Q 000107 888 RRVIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVK 935 (2191)
Q Consensus 888 v~VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~ 935 (2191)
+++||+++.++ +..+|+||+|||||.| ..|.+++|+.+++..
T Consensus 404 v~~VI~~~~P~----s~~~y~Qr~GRaGR~g--~~g~~i~~~~~~d~~ 445 (475)
T PRK01297 404 ISHVINFTLPE----DPDDYVHRIGRTGRAG--ASGVSISFAGEDDAF 445 (475)
T ss_pred CCEEEEeCCCC----CHHHHHHhhCccCCCC--CCceEEEEecHHHHH
Confidence 99999988876 8899999999999999 689999999887643
No 39
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=100.00 E-value=7e-39 Score=421.12 Aligned_cols=332 Identities=21% Similarity=0.311 Sum_probs=257.4
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHh--cCCEEEEEchhHHHHHHH
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIS--TGKMALLVLPYVSICAEK 586 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~--~g~kaL~I~P~raLA~q~ 586 (2191)
|++.+++.+.++||.+|+|+|.++|+. ++.++++|++||||+|||++|.++++..+.. .+.++||++||++||.|+
T Consensus 13 L~~~ll~al~~~G~~~ptpiQ~~ai~~--ll~g~dvl~~ApTGsGKT~af~lpll~~l~~~~~~~~~LIL~PTreLa~Qv 90 (629)
T PRK11634 13 LKAPILEALNDLGYEKPSPIQAECIPH--LLNGRDVLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILVLAPTRELAVQV 90 (629)
T ss_pred CCHHHHHHHHHCCCCCCCHHHHHHHHH--HHcCCCEEEEcCCCCcHHHHHHHHHHHHhhhccCCCeEEEEeCcHHHHHHH
Confidence 779999999999999999999999987 8999999999999999999999999988754 345899999999999999
Q ss_pred HHHHHHHhhcc-CCeEEEEeccCCCC----CCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhH
Q 000107 587 AEHLEVLLEPL-GRHVRSYYGNQGGG----SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGY 661 (2191)
Q Consensus 587 ~~~l~~l~~~l-g~~V~~~~G~~~~~----~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~ 661 (2191)
++.+..+...+ ++.+..++|+.... .+..+++|+|+||+++.+++.+ ....++++++|||||+|++.+.++..
T Consensus 91 ~~~l~~~~~~~~~i~v~~~~gG~~~~~q~~~l~~~~~IVVgTPgrl~d~l~r--~~l~l~~l~~lVlDEAd~ml~~gf~~ 168 (629)
T PRK11634 91 AEAMTDFSKHMRGVNVVALYGGQRYDVQLRALRQGPQIVVGTPGRLLDHLKR--GTLDLSKLSGLVLDEADEMLRMGFIE 168 (629)
T ss_pred HHHHHHHHhhcCCceEEEEECCcCHHHHHHHhcCCCCEEEECHHHHHHHHHc--CCcchhhceEEEeccHHHHhhcccHH
Confidence 99998887665 78888888876431 2345789999999999888765 44568999999999999999888877
Q ss_pred HHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC-HHHHHH-Hhhccc-c--cccccccc-ce-
Q 000107 662 LLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN-VAAVAD-WLQAAL-Y--ETNFRPVP-LE- 734 (2191)
Q Consensus 662 ~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N-~~~la~-wL~a~l-~--~~~~Rpvp-L~- 734 (2191)
.++.++..+ +...|+++||||+|+ ...+.. |+.... + .......+ +.
T Consensus 169 di~~Il~~l--------------------------p~~~q~llfSAT~p~~i~~i~~~~l~~~~~i~i~~~~~~~~~i~q 222 (629)
T PRK11634 169 DVETIMAQI--------------------------PEGHQTALFSATMPEAIRRITRRFMKEPQEVRIQSSVTTRPDISQ 222 (629)
T ss_pred HHHHHHHhC--------------------------CCCCeEEEEEccCChhHHHHHHHHcCCCeEEEccCccccCCceEE
Confidence 777776655 356799999999986 333433 332110 0 00000000 00
Q ss_pred EEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCC
Q 000107 735 EYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSD 814 (2191)
Q Consensus 735 e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~ 814 (2191)
.++.+. .....+.+..++.. ....++||||+|+..|+.++..|...
T Consensus 223 ~~~~v~--------------------~~~k~~~L~~~L~~--~~~~~~IVF~~tk~~a~~l~~~L~~~------------ 268 (629)
T PRK11634 223 SYWTVW--------------------GMRKNEALVRFLEA--EDFDAAIIFVRTKNATLEVAEALERN------------ 268 (629)
T ss_pred EEEEec--------------------hhhHHHHHHHHHHh--cCCCCEEEEeccHHHHHHHHHHHHhC------------
Confidence 011000 00011223333221 13468999999999999988877431
Q ss_pred chhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeec
Q 000107 815 SEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQ 894 (2191)
Q Consensus 815 ~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~ 894 (2191)
.+.+..+|++|++.+|..+++.|++|.++|||||+++++|||+|++.+||++
T Consensus 269 ----------------------------g~~~~~lhgd~~q~~R~~il~~Fr~G~~~ILVATdv~arGIDip~V~~VI~~ 320 (629)
T PRK11634 269 ----------------------------GYNSAALNGDMNQALREQTLERLKDGRLDILIATDVAARGLDVERISLVVNY 320 (629)
T ss_pred ----------------------------CCCEEEeeCCCCHHHHHHHHHHHhCCCCCEEEEcchHhcCCCcccCCEEEEe
Confidence 2347889999999999999999999999999999999999999999999998
Q ss_pred CCCCCcccCcccccccccccCCCCCCCceEEEEEeChhhHHHHH
Q 000107 895 PRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKIM 938 (2191)
Q Consensus 895 p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~~ 938 (2191)
+.+. +..+|+||+|||||.| ..|.+++++.+.+...+.
T Consensus 321 d~P~----~~e~yvqRiGRtGRaG--r~G~ai~~v~~~e~~~l~ 358 (629)
T PRK11634 321 DIPM----DSESYVHRIGRTGRAG--RAGRALLFVENRERRLLR 358 (629)
T ss_pred CCCC----CHHHHHHHhccccCCC--CcceEEEEechHHHHHHH
Confidence 7764 8899999999999999 789999999987654433
No 40
>PTZ00424 helicase 45; Provisional
Probab=100.00 E-value=7.1e-39 Score=406.73 Aligned_cols=340 Identities=18% Similarity=0.259 Sum_probs=249.6
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHh--cCCEEEEEchhHHHHHHH
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIS--TGKMALLVLPYVSICAEK 586 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~--~g~kaL~I~P~raLA~q~ 586 (2191)
|++.+.+.+.+.||.+|+|+|.+|++. ++.|+|++++||||||||++|++++++.+.. .+.++||++|+++|+.|+
T Consensus 35 l~~~~~~~l~~~~~~~~~~~Q~~ai~~--i~~~~d~ii~apTGsGKT~~~~l~~l~~~~~~~~~~~~lil~Pt~~L~~Q~ 112 (401)
T PTZ00424 35 LNEDLLRGIYSYGFEKPSAIQQRGIKP--ILDGYDTIGQAQSGTGKTATFVIAALQLIDYDLNACQALILAPTRELAQQI 112 (401)
T ss_pred CCHHHHHHHHHcCCCCCCHHHHHHHHH--HhCCCCEEEECCCCChHHHHHHHHHHHHhcCCCCCceEEEECCCHHHHHHH
Confidence 668888999999999999999999987 9999999999999999999999999987753 466899999999999999
Q ss_pred HHHHHHHhhccCCeEEEEeccCCC----CCCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHH
Q 000107 587 AEHLEVLLEPLGRHVRSYYGNQGG----GSLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYL 662 (2191)
Q Consensus 587 ~~~l~~l~~~lg~~V~~~~G~~~~----~~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~ 662 (2191)
.+.+..+....+..+...+|+... ..+..+.+|+|+||+++..++.+ ....++++++|||||+|++.+.+++..
T Consensus 113 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~Ivv~Tp~~l~~~l~~--~~~~l~~i~lvViDEah~~~~~~~~~~ 190 (401)
T PTZ00424 113 QKVVLALGDYLKVRCHACVGGTVVRDDINKLKAGVHMVVGTPGRVYDMIDK--RHLRVDDLKLFILDEADEMLSRGFKGQ 190 (401)
T ss_pred HHHHHHHhhhcCceEEEEECCcCHHHHHHHHcCCCCEEEECcHHHHHHHHh--CCcccccccEEEEecHHHHHhcchHHH
Confidence 999988887777787777776532 11334579999999998887765 445689999999999999988766555
Q ss_pred HHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhccccccccccccceEEEEeccc
Q 000107 663 LELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQAALYETNFRPVPLEEYIKVGNA 742 (2191)
Q Consensus 663 lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a~l~~~~~RpvpL~e~i~~~~~ 742 (2191)
+..++..+ ++.+|+|++|||+++ .+..+....+..+....++.......+..
T Consensus 191 ~~~i~~~~--------------------------~~~~~~i~~SAT~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 242 (401)
T PTZ00424 191 IYDVFKKL--------------------------PPDVQVALFSATMPN--EILELTTKFMRDPKRILVKKDELTLEGIR 242 (401)
T ss_pred HHHHHhhC--------------------------CCCcEEEEEEecCCH--HHHHHHHHHcCCCEEEEeCCCCcccCCce
Confidence 54444332 356899999999986 22222211111110000000000000000
Q ss_pred cccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHH
Q 000107 743 IYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITS 822 (2191)
Q Consensus 743 ~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~ 822 (2191)
.+....... ....+.+..++.. ....++||||+|++.|+.++..+...
T Consensus 243 ~~~~~~~~~----------~~~~~~l~~~~~~--~~~~~~ivF~~t~~~~~~l~~~l~~~-------------------- 290 (401)
T PTZ00424 243 QFYVAVEKE----------EWKFDTLCDLYET--LTITQAIIYCNTRRKVDYLTKKMHER-------------------- 290 (401)
T ss_pred EEEEecChH----------HHHHHHHHHHHHh--cCCCeEEEEecCcHHHHHHHHHHHHC--------------------
Confidence 000000000 0001122222221 13468999999999998888766431
Q ss_pred HHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecCCCCCccc
Q 000107 823 AIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRIGRDFI 902 (2191)
Q Consensus 823 ~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~~g~~~i 902 (2191)
..++.++||+|+.++|..+++.|++|.++|||||+++++|||+|++++||+++.+.
T Consensus 291 --------------------~~~~~~~h~~~~~~~R~~i~~~f~~g~~~vLvaT~~l~~GiDip~v~~VI~~~~p~---- 346 (401)
T PTZ00424 291 --------------------DFTVSCMHGDMDQKDRDLIMREFRSGSTRVLITTDLLARGIDVQQVSLVINYDLPA---- 346 (401)
T ss_pred --------------------CCcEEEEeCCCCHHHHHHHHHHHHcCCCCEEEEcccccCCcCcccCCEEEEECCCC----
Confidence 12489999999999999999999999999999999999999999999999876654
Q ss_pred CcccccccccccCCCCCCCceEEEEEeChhhHHHHH
Q 000107 903 DGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKIM 938 (2191)
Q Consensus 903 s~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~~ 938 (2191)
+..+|+||+|||||.| ..|.|++++++++...+.
T Consensus 347 s~~~y~qr~GRagR~g--~~G~~i~l~~~~~~~~~~ 380 (401)
T PTZ00424 347 SPENYIHRIGRSGRFG--RKGVAINFVTPDDIEQLK 380 (401)
T ss_pred CHHHEeecccccccCC--CCceEEEEEcHHHHHHHH
Confidence 8889999999999998 789999999987755544
No 41
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=100.00 E-value=3.6e-39 Score=384.19 Aligned_cols=357 Identities=22% Similarity=0.302 Sum_probs=276.5
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHh-----------cCCEEEEEc
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIS-----------TGKMALLVL 577 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~-----------~g~kaL~I~ 577 (2191)
+|.+++.++.+.||..|+|+|.++|+. .++++|+|..|.||||||++|++|++-.+.. .|+.+++++
T Consensus 252 ~P~e~l~~I~~~~y~eptpIqR~aipl--~lQ~rD~igvaETgsGktaaf~ipLl~~IsslP~~~~~en~~~gpyaiila 329 (673)
T KOG0333|consen 252 FPLELLSVIKKPGYKEPTPIQRQAIPL--GLQNRDPIGVAETGSGKTAAFLIPLLIWISSLPPMARLENNIEGPYAIILA 329 (673)
T ss_pred CCHHHHHHHHhcCCCCCchHHHhhccc--hhccCCeeeEEeccCCccccchhhHHHHHHcCCCcchhhhcccCceeeeec
Confidence 899999999999999999999999987 8999999999999999999999999876643 478999999
Q ss_pred hhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCC----CCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEccccc
Q 000107 578 PYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGG----SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHM 653 (2191)
Q Consensus 578 P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~----~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~ 653 (2191)
|||+||+|+.++-.+++..+|+++..+.|+.... .+..+++|+|+||+++.+.+.+ ...-+....+||+||++.
T Consensus 330 ptReLaqqIeeEt~kf~~~lg~r~vsvigg~s~EEq~fqls~gceiviatPgrLid~Len--r~lvl~qctyvvldeadr 407 (673)
T KOG0333|consen 330 PTRELAQQIEEETNKFGKPLGIRTVSVIGGLSFEEQGFQLSMGCEIVIATPGRLIDSLEN--RYLVLNQCTYVVLDEADR 407 (673)
T ss_pred hHHHHHHHHHHHHHHhcccccceEEEEecccchhhhhhhhhccceeeecCchHHHHHHHH--HHHHhccCceEeccchhh
Confidence 9999999999999999999999999999887532 3567899999999999887765 344678899999999999
Q ss_pred ccccchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC-HHHHH-HHhhcccc---cccc
Q 000107 654 VADQNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN-VAAVA-DWLQAALY---ETNF 728 (2191)
Q Consensus 654 l~d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N-~~~la-~wL~a~l~---~~~~ 728 (2191)
|.|.++.+.+..+|..+........++...++..-..+... ...-.|.++||||++. ++.++ .+|...++ ....
T Consensus 408 miDmgfE~dv~~iL~~mPssn~k~~tde~~~~~~~~~~~~~-~k~yrqT~mftatm~p~verlar~ylr~pv~vtig~~g 486 (673)
T KOG0333|consen 408 MIDMGFEPDVQKILEQMPSSNAKPDTDEKEGEERVRKNFSS-SKKYRQTVMFTATMPPAVERLARSYLRRPVVVTIGSAG 486 (673)
T ss_pred hhcccccHHHHHHHHhCCccccCCCccchhhHHHHHhhccc-ccceeEEEEEecCCChHHHHHHHHHhhCCeEEEeccCC
Confidence 99999999999999988433221111000000000001111 1134799999999986 55555 45543322 2334
Q ss_pred ccccceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhccc
Q 000107 729 RPVPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSI 808 (2191)
Q Consensus 729 RpvpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~ 808 (2191)
+|.|.-+...+--. ...+...+.+++... ...++|||+|+++.|+.+|+.|.+.
T Consensus 487 k~~~rveQ~v~m~~------------------ed~k~kkL~eil~~~--~~ppiIIFvN~kk~~d~lAk~LeK~------ 540 (673)
T KOG0333|consen 487 KPTPRVEQKVEMVS------------------EDEKRKKLIEILESN--FDPPIIIFVNTKKGADALAKILEKA------ 540 (673)
T ss_pred CCccchheEEEEec------------------chHHHHHHHHHHHhC--CCCCEEEEEechhhHHHHHHHHhhc------
Confidence 45443322211000 011123444444433 2469999999999999999888552
Q ss_pred ccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCc
Q 000107 809 NVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPAR 888 (2191)
Q Consensus 809 ~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav 888 (2191)
++.+..+|||-++++|+.++..|+.|...|||||+++++|||||+|
T Consensus 541 ----------------------------------g~~~~tlHg~k~qeQRe~aL~~fr~~t~dIlVaTDvAgRGIDIpnV 586 (673)
T KOG0333|consen 541 ----------------------------------GYKVTTLHGGKSQEQRENALADFREGTGDILVATDVAGRGIDIPNV 586 (673)
T ss_pred ----------------------------------cceEEEeeCCccHHHHHHHHHHHHhcCCCEEEEecccccCCCCCcc
Confidence 3448889999999999999999999999999999999999999999
Q ss_pred eEEeecCCCCCcccCcccccccccccCCCCCCCceEEEEEeChhhHHH
Q 000107 889 RVIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKK 936 (2191)
Q Consensus 889 ~VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~ 936 (2191)
.+||++++.. ++.+|.||+||+||+| ..|.++.|+++.+-.-
T Consensus 587 SlVinydmak----sieDYtHRIGRTgRAG--k~GtaiSflt~~dt~v 628 (673)
T KOG0333|consen 587 SLVINYDMAK----SIEDYTHRIGRTGRAG--KSGTAISFLTPADTAV 628 (673)
T ss_pred ceeeecchhh----hHHHHHHHhccccccc--cCceeEEEeccchhHH
Confidence 9999999876 8899999999999999 8999999999977443
No 42
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=2.2e-39 Score=384.11 Aligned_cols=346 Identities=18% Similarity=0.244 Sum_probs=275.7
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCC-----EEEEEchhHHHH
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGK-----MALLVLPYVSIC 583 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~-----kaL~I~P~raLA 583 (2191)
|+.+++.++...||..|+|+|..|||. .+-|++++.||.||||||.+|.+|+|.+++-+.+ ++||++|||+||
T Consensus 188 LSRPlLka~~~lGy~~PTpIQ~a~IPv--allgkDIca~A~TGsGKTAAF~lPiLERLlYrPk~~~~TRVLVL~PTRELa 265 (691)
T KOG0338|consen 188 LSRPLLKACSTLGYKKPTPIQVATIPV--ALLGKDICACAATGSGKTAAFALPILERLLYRPKKVAATRVLVLVPTRELA 265 (691)
T ss_pred cchHHHHHHHhcCCCCCCchhhhcccH--HhhcchhhheecccCCchhhhHHHHHHHHhcCcccCcceeEEEEeccHHHH
Confidence 778999999999999999999999987 7889999999999999999999999999886433 799999999999
Q ss_pred HHHHHHHHHHhhccCCeEEEEeccCCCC----CCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccch
Q 000107 584 AEKAEHLEVLLEPLGRHVRSYYGNQGGG----SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNR 659 (2191)
Q Consensus 584 ~q~~~~l~~l~~~lg~~V~~~~G~~~~~----~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~R 659 (2191)
.|++...+++.....+.|+...|+.... .+...+||+|+||+++.+++++. ....+++|.++|+||++.|.+.+|
T Consensus 266 iQv~sV~~qlaqFt~I~~~L~vGGL~lk~QE~~LRs~PDIVIATPGRlIDHlrNs-~sf~ldsiEVLvlDEADRMLeegF 344 (691)
T KOG0338|consen 266 IQVHSVTKQLAQFTDITVGLAVGGLDLKAQEAVLRSRPDIVIATPGRLIDHLRNS-PSFNLDSIEVLVLDEADRMLEEGF 344 (691)
T ss_pred HHHHHHHHHHHhhccceeeeeecCccHHHHHHHHhhCCCEEEecchhHHHHhccC-CCccccceeEEEechHHHHHHHHH
Confidence 9999999999888889999999987542 25677999999999998888762 345789999999999999999988
Q ss_pred hHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC-HHHHHHHhhccccccccccccceEEEE
Q 000107 660 GYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN-VAAVADWLQAALYETNFRPVPLEEYIK 738 (2191)
Q Consensus 660 G~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N-~~~la~wL~a~l~~~~~RpvpL~e~i~ 738 (2191)
...+..|+..+ +.+.|.++|||||+. +.+++..--. + |++.++.
T Consensus 345 ademnEii~lc--------------------------pk~RQTmLFSATMteeVkdL~slSL~-------k--Pvrifvd 389 (691)
T KOG0338|consen 345 ADEMNEIIRLC--------------------------PKNRQTMLFSATMTEEVKDLASLSLN-------K--PVRIFVD 389 (691)
T ss_pred HHHHHHHHHhc--------------------------cccccceeehhhhHHHHHHHHHhhcC-------C--CeEEEeC
Confidence 88888777554 467899999999974 5555553211 2 3344443
Q ss_pred eccccccc-hhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchh
Q 000107 739 VGNAIYSK-KMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEF 817 (2191)
Q Consensus 739 ~~~~~~~~-~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~ 817 (2191)
........ ..+++|.. .......+..+..|+..+. ...++||+.|++.|..+--.|-
T Consensus 390 ~~~~~a~~LtQEFiRIR---~~re~dRea~l~~l~~rtf--~~~~ivFv~tKk~AHRl~IllG----------------- 447 (691)
T KOG0338|consen 390 PNKDTAPKLTQEFIRIR---PKREGDREAMLASLITRTF--QDRTIVFVRTKKQAHRLRILLG----------------- 447 (691)
T ss_pred CccccchhhhHHHheec---cccccccHHHHHHHHHHhc--ccceEEEEehHHHHHHHHHHHH-----------------
Confidence 22111000 01111110 0111233455667777776 4589999999999887644331
Q ss_pred hhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecCCC
Q 000107 818 IDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRI 897 (2191)
Q Consensus 818 ~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~~ 897 (2191)
+++..++-+||.|++++|-..++.|+.+.+.|||||+++++|+||+++.+|||+.+|
T Consensus 448 -----------------------Llgl~agElHGsLtQ~QRlesL~kFk~~eidvLiaTDvAsRGLDI~gV~tVINy~mP 504 (691)
T KOG0338|consen 448 -----------------------LLGLKAGELHGSLTQEQRLESLEKFKKEEIDVLIATDVASRGLDIEGVQTVINYAMP 504 (691)
T ss_pred -----------------------HhhchhhhhcccccHHHHHHHHHHHHhccCCEEEEechhhccCCccceeEEEeccCc
Confidence 123336779999999999999999999999999999999999999999999999887
Q ss_pred CCcccCcccccccccccCCCCCCCceEEEEEeChhhHHHHHhhhcc
Q 000107 898 GRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKIMGLLNE 943 (2191)
Q Consensus 898 g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~~~ll~~ 943 (2191)
. +...|+||+||+.|+| ..|.++.|+..++.+.++..+..
T Consensus 505 ~----t~e~Y~HRVGRTARAG--RaGrsVtlvgE~dRkllK~iik~ 544 (691)
T KOG0338|consen 505 K----TIEHYLHRVGRTARAG--RAGRSVTLVGESDRKLLKEIIKS 544 (691)
T ss_pred h----hHHHHHHHhhhhhhcc--cCcceEEEeccccHHHHHHHHhh
Confidence 6 7889999999999999 89999999999887777776654
No 43
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=100.00 E-value=9.4e-38 Score=428.32 Aligned_cols=421 Identities=18% Similarity=0.201 Sum_probs=279.9
Q ss_pred EEcCCCCchhHHHHHHHHHHHHhc------------CCEEEEEchhHHHHHHHHHHHHHHhh------------ccCCeE
Q 000107 546 YCASTSAGKSFVAEILMLRRLIST------------GKMALLVLPYVSICAEKAEHLEVLLE------------PLGRHV 601 (2191)
Q Consensus 546 i~APTGSGKTlvael~iL~~ll~~------------g~kaL~I~P~raLA~q~~~~l~~l~~------------~lg~~V 601 (2191)
|+||||||||++|.+++|..+... +.++|||+|+++|+.|+.+.++..+. .++++|
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~~~~~~~~~~~~~~~~raLYISPLKALa~Dv~~~L~~pl~~i~~~~~~~g~~~~~i~V 80 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNLQIPLKGIADERRRRGETEVNLRV 80 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHhcccccccccccCCCCEEEEEeChHHHHHHHHHHHHHHHHhhhhhhhhcccccCceEE
Confidence 589999999999999999988742 46899999999999999998875322 247889
Q ss_pred EEEeccCCCCC----CCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHhhcCC
Q 000107 602 RSYYGNQGGGS----LPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAAGEG 677 (2191)
Q Consensus 602 ~~~~G~~~~~~----l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~ 677 (2191)
..++|+..... +.+.++|+|+|||++..++.+. ....++++++|||||+|.+.+..||..++.++.+|+.+.
T Consensus 81 ~vrtGDt~~~eR~rll~~ppdILVTTPEsL~~LLtsk-~r~~L~~Vr~VIVDE~H~L~g~kRG~~Lel~LeRL~~l~--- 156 (1490)
T PRK09751 81 GIRTGDTPAQERSKLTRNPPDILITTPESLYLMLTSR-ARETLRGVETVIIDEVHAVAGSKRGAHLALSLERLDALL--- 156 (1490)
T ss_pred EEEECCCCHHHHHHHhcCCCCEEEecHHHHHHHHhhh-hhhhhccCCEEEEecHHHhcccccccHHHHHHHHHHHhC---
Confidence 99999876422 3456899999999999887642 234789999999999999998889999999999998764
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhcc----cc-ccccccccceEEEEeccccccchhhHHH
Q 000107 678 TSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQAA----LY-ETNFRPVPLEEYIKVGNAIYSKKMDVVR 752 (2191)
Q Consensus 678 ~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a~----l~-~~~~RpvpL~e~i~~~~~~~~~~~~~~r 752 (2191)
+.++|+|++|||++|++++++||+.. ++ ....++++++.++..... ...... ..
T Consensus 157 -------------------~~~~QrIgLSATI~n~eevA~~L~g~~pv~Iv~~~~~r~~~l~v~vp~~d~-~~~~~~-~~ 215 (1490)
T PRK09751 157 -------------------HTSAQRIGLSATVRSASDVAAFLGGDRPVTVVNPPAMRHPQIRIVVPVANM-DDVSSV-AS 215 (1490)
T ss_pred -------------------CCCCeEEEEEeeCCCHHHHHHHhcCCCCEEEECCCCCcccceEEEEecCch-hhcccc-cc
Confidence 24689999999999999999999753 22 223455555433322110 000000 00
Q ss_pred HHHHh--hccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcC
Q 000107 753 TILTA--ANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRC 830 (2191)
Q Consensus 753 ~l~~~--~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~ 830 (2191)
..... ..........+...+...+..+.++|||||||+.|+.++..|.+........ . .. .......+...
T Consensus 216 ~~~~~~~~~r~~~i~~~v~~~il~~i~~~~stLVFvNSR~~AE~La~~L~~~~~~~~~~---~-~~---~~~~~~~~~~~ 288 (1490)
T PRK09751 216 GTGEDSHAGREGSIWPYIETGILDEVLRHRSTIVFTNSRGLAEKLTARLNELYAARLQR---S-PS---IAVDAAHFEST 288 (1490)
T ss_pred ccccccchhhhhhhhHHHHHHHHHHHhcCCCEEEECCCHHHHHHHHHHHHHhhhhhccc---c-cc---ccchhhhhhhc
Confidence 00000 0000000112222222334457899999999999999999997654211000 0 00 00000011000
Q ss_pred CCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecCCCCCcccCccccccc
Q 000107 831 PAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRIGRDFIDGTRYRQM 910 (2191)
Q Consensus 831 ~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~~g~~~is~~~y~Qm 910 (2191)
.......+.......+.+|||+|++++|..||+.|++|.++|||||+++++|||+|++++||++..+. ++.+|+||
T Consensus 289 ~~~~~~~~~~~~~~ia~~HHGsLSkeeR~~IE~~fK~G~LrvLVATssLELGIDIg~VDlVIq~gsP~----sVas~LQR 364 (1490)
T PRK09751 289 SGATSNRVQSSDVFIARSHHGSVSKEQRAITEQALKSGELRCVVATSSLELGIDMGAVDLVIQVATPL----SVASGLQR 364 (1490)
T ss_pred cccchhccccccceeeeeccccCCHHHHHHHHHHHHhCCceEEEeCcHHHccCCcccCCEEEEeCCCC----CHHHHHHH
Confidence 00000001111123478999999999999999999999999999999999999999999999866654 89999999
Q ss_pred ccccCCCCCCCceEEEEEeChh-hHH----HHHhhhccCCCCcccccccccchhhHHHHHHHhcccccCHHHHHHHHHhh
Q 000107 911 AGRAGRTGIDTKGESMLICKPE-EVK----KIMGLLNESCPPLHSCLSEDKNGMTHAILEVVAGGIVQTAEDIHRYVRCT 985 (2191)
Q Consensus 911 iGRAGR~G~d~~Ge~ill~~~~-e~~----~~~~ll~~~l~~l~S~L~~~~~~l~~~iLeiia~gi~~t~~di~~~l~~t 985 (2191)
+|||||. .+..+.++++.... +.- .+..++...++++..... ...-+.+.++.+++.+ --+.+++...+..+
T Consensus 365 iGRAGR~-~gg~s~gli~p~~r~dlle~~~~ve~~l~g~iE~~~~p~n-plDVLaqqiva~a~~~-~~~~d~l~~~vrra 441 (1490)
T PRK09751 365 IGRAGHQ-VGGVSKGLFFPRTRRDLVDSAVIVECMFAGRLENLTPPHN-PLDVLAQQTVAAAAMD-ALQVDEWYSRVRRA 441 (1490)
T ss_pred hCCCCCC-CCCccEEEEEeCcHHHHHhhHHHHHHHhcCCCCccCCCCC-hHHHHHHHHHHHHhcC-CCCHHHHHHHhhcc
Confidence 9999997 34567777666542 211 234566777766533321 1224556667666654 34567777777766
Q ss_pred hcCCCCcchhHHHHHHHHHHHHHH
Q 000107 986 LLNSTKPFQDVVKSAQDSLRWLCH 1009 (2191)
Q Consensus 986 ll~~~~~~~~~~~~~~~al~~L~~ 1009 (2191)
+-+..-+ .+..+..|++|..
T Consensus 442 ~pf~~L~----~~~f~~vl~~L~~ 461 (1490)
T PRK09751 442 APWKDLP----RRVFDATLDMLSG 461 (1490)
T ss_pred CCcccCC----HHHHHHHHHHHhc
Confidence 6555433 3456677888875
No 44
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=100.00 E-value=2e-38 Score=416.04 Aligned_cols=401 Identities=30% Similarity=0.479 Sum_probs=307.6
Q ss_pred HHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhcc
Q 000107 518 KKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPL 597 (2191)
Q Consensus 518 ~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~l 597 (2191)
...|| .|.+||++++.. +..|.++++|||||+|||++++.++...+. +|.+++|+.|.+||.+|++++|...++..
T Consensus 114 ~~~~F-~LD~fQ~~a~~~--Ler~esVlV~ApTssGKTvVaeyAi~~al~-~~qrviYTsPIKALsNQKyrdl~~~fgdv 189 (1041)
T COG4581 114 REYPF-ELDPFQQEAIAI--LERGESVLVCAPTSSGKTVVAEYAIALALR-DGQRVIYTSPIKALSNQKYRDLLAKFGDV 189 (1041)
T ss_pred HhCCC-CcCHHHHHHHHH--HhCCCcEEEEccCCCCcchHHHHHHHHHHH-cCCceEeccchhhhhhhHHHHHHHHhhhh
Confidence 45677 799999999976 889999999999999999999999887665 57779999999999999999998877655
Q ss_pred CCeEEEEeccCCCCCCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHhhcCC
Q 000107 598 GRHVRSYYGNQGGGSLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAAGEG 677 (2191)
Q Consensus 598 g~~V~~~~G~~~~~~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~ 677 (2191)
--.|+.++|+. ...+++.++|+|.|.+-+++.+ ....+.++..||+||+|.|+|..||..+|.++-.+
T Consensus 190 ~~~vGL~TGDv---~IN~~A~clvMTTEILRnMlyr--g~~~~~~i~~ViFDEvHyi~D~eRG~VWEE~Ii~l------- 257 (1041)
T COG4581 190 ADMVGLMTGDV---SINPDAPCLVMTTEILRNMLYR--GSESLRDIEWVVFDEVHYIGDRERGVVWEEVIILL------- 257 (1041)
T ss_pred hhhccceecce---eeCCCCceEEeeHHHHHHHhcc--CcccccccceEEEEeeeeccccccchhHHHHHHhc-------
Confidence 23356677765 3566789999999988888765 55689999999999999999999999999998776
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhc------cccccccccccceEEEEeccccccc---hh
Q 000107 678 TSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQA------ALYETNFRPVPLEEYIKVGNAIYSK---KM 748 (2191)
Q Consensus 678 ~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a------~l~~~~~RpvpL~e~i~~~~~~~~~---~~ 748 (2191)
+..+|+|+||||+||+.+++.|++. .++.+++||+||+.++..+..++.- ..
T Consensus 258 -------------------P~~v~~v~LSATv~N~~EF~~Wi~~~~~~~~~vv~t~~RpvPL~~~~~~~~~l~~lvde~~ 318 (1041)
T COG4581 258 -------------------PDHVRFVFLSATVPNAEEFAEWIQRVHSQPIHVVSTEHRPVPLEHFVYVGKGLFDLVDEKK 318 (1041)
T ss_pred -------------------CCCCcEEEEeCCCCCHHHHHHHHHhccCCCeEEEeecCCCCCeEEEEecCCceeeeecccc
Confidence 5678999999999999999999983 3668999999999998876444321 11
Q ss_pred h--------HHHHHHHhhcc-CC--------------------CChhHHHHHHHHHHh-cCCcEEEEeCchhHHHHHHHH
Q 000107 749 D--------VVRTILTAANL-GG--------------------KDPDHIVELCDEVVQ-EGHSVLIFCSSRKGCESTARH 798 (2191)
Q Consensus 749 ~--------~~r~l~~~~~~-~~--------------------~d~d~l~~Ll~e~~~-~g~~vLVF~~Sr~~~e~lA~~ 798 (2191)
. ..+.+...... .. ..+..-..++..+.. ..-++|+|+-+++.|+..+..
T Consensus 319 ~~~~~~~~~a~~~l~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~iv~~l~~~~~lP~I~F~FSr~~Ce~~a~~ 398 (1041)
T COG4581 319 KFNAENFPSANRSLSCFSEKVRETDDGDVGRYARRTKALRGSAKGPAGRPEIVNKLDKDNLLPAIVFSFSRRGCEEAAQI 398 (1041)
T ss_pred cchhhcchhhhhhhhccchhccccCccccccccccccccCCcccccccchHHHhhhhhhcCCceEEEEEchhhHHHHHHH
Confidence 1 11111100000 00 000111223333333 347999999999999999988
Q ss_pred HHHHHhhcccccCCCCch-hh-hhHHHHHHhhcCCCCCC---hhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEE
Q 000107 799 VSKFLKKFSINVHSSDSE-FI-DITSAIDALRRCPAGLD---PVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVL 873 (2191)
Q Consensus 799 L~~~l~~~~~~~~~~~~~-~~-~~~~~~~~L~~~~~gld---~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVL 873 (2191)
+...- ......... +. -+...+..|.....++. ..+..++.+|+++||+||-+..|..|+..|..|.++|+
T Consensus 399 ~~~ld----l~~~~~~e~~i~~ii~~~i~~L~~ed~~lp~~~~~~~~~L~RGiavHH~GlLP~~K~~vE~Lfq~GLvkvv 474 (1041)
T COG4581 399 LSTLD----LVLTEEKERAIREIIDHAIGDLAEEDRELPLQILEISALLLRGIAVHHAGLLPAIKELVEELFQEGLVKVV 474 (1041)
T ss_pred hcccc----cccCCcHHHHHHHHHHHHHhhcChhhhcCcccHHHHHHHHhhhhhhhccccchHHHHHHHHHHhccceeEE
Confidence 76421 111111111 11 13445556666666664 56678899999999999999999999999999999999
Q ss_pred EecccccccCCCCCceEEeec----CCCCCcccCcccccccccccCCCCCCCceEEEEEeCh--hhHHHHHhhhccCCCC
Q 000107 874 TATSTLAAGVNLPARRVIFRQ----PRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKP--EEVKKIMGLLNESCPP 947 (2191)
Q Consensus 874 VATstLa~GVNLPav~VVI~~----p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~--~e~~~~~~ll~~~l~~ 947 (2191)
+||.|++.|+|.|+.+||+.. +--+..+++..+|.||.|||||.|+|..|.+|++-.+ .+......+......+
T Consensus 475 FaTeT~s~GiNmPartvv~~~l~K~dG~~~r~L~~gEy~QmsGRAGRRGlD~~G~vI~~~~~~~~~~~e~~~l~~~~~~~ 554 (1041)
T COG4581 475 FATETFAIGINMPARTVVFTSLSKFDGNGHRWLSPGEYTQMSGRAGRRGLDVLGTVIVIEPPFESEPSEAAGLASGKLDP 554 (1041)
T ss_pred eehhhhhhhcCCcccceeeeeeEEecCCceeecChhHHHHhhhhhccccccccceEEEecCCCCCChHHHHHhhcCCCcc
Confidence 999999999999999999753 2223467999999999999999999999999999554 3356667788888889
Q ss_pred cccccccccc
Q 000107 948 LHSCLSEDKN 957 (2191)
Q Consensus 948 l~S~L~~~~~ 957 (2191)
+.|.+.-..+
T Consensus 555 L~s~f~~sy~ 564 (1041)
T COG4581 555 LRSQFRLSYN 564 (1041)
T ss_pred chhheecchh
Confidence 9888876554
No 45
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=100.00 E-value=1.8e-37 Score=415.31 Aligned_cols=397 Identities=19% Similarity=0.213 Sum_probs=289.1
Q ss_pred cccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHh-hccCCeEEEEeccCCCCCCCCC
Q 000107 538 VLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLL-EPLGRHVRSYYGNQGGGSLPKD 616 (2191)
Q Consensus 538 il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~-~~lg~~V~~~~G~~~~~~l~~~ 616 (2191)
+.+++++|++||||||||+++.+++++.... +++++|++|+|++|.|+++++...+ ...|..|+..++.. ......
T Consensus 17 l~~~~~vvv~A~TGSGKTt~~pl~lL~~~~~-~~~ilvlqPrR~aA~qia~rva~~l~~~~g~~VGy~vr~~--~~~~~~ 93 (812)
T PRK11664 17 LKTAPQVLLKAPTGAGKSTWLPLQLLQHGGI-NGKIIMLEPRRLAARNVAQRLAEQLGEKPGETVGYRMRAE--SKVGPN 93 (812)
T ss_pred HHhCCCEEEEcCCCCCHHHHHHHHHHHcCCc-CCeEEEECChHHHHHHHHHHHHHHhCcccCceEEEEecCc--cccCCC
Confidence 6678999999999999999999999976443 4589999999999999999986543 44677776555533 223456
Q ss_pred CceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCC
Q 000107 617 TSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADP 696 (2191)
Q Consensus 617 ~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~ 696 (2191)
++|+|+|++++..++. ....++++++|||||+|+ |+...+.++..++.+... .
T Consensus 94 t~I~v~T~G~Llr~l~---~d~~L~~v~~IIlDEaHE-----R~l~~Dl~L~ll~~i~~~-------------------l 146 (812)
T PRK11664 94 TRLEVVTEGILTRMIQ---RDPELSGVGLVILDEFHE-----RSLQADLALALLLDVQQG-------------------L 146 (812)
T ss_pred CcEEEEChhHHHHHHh---hCCCcCcCcEEEEcCCCc-----cccccchHHHHHHHHHHh-------------------C
Confidence 7899999999776654 456899999999999998 322223333322222110 1
Q ss_pred CCCceEEEEeccCCCHHHHHHHhh-ccccccccccccceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHH
Q 000107 697 AHGLQIVGMSATMPNVAAVADWLQ-AALYETNFRPVPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEV 775 (2191)
Q Consensus 697 ~~~iqII~mSATL~N~~~la~wL~-a~l~~~~~RpvpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~ 775 (2191)
++++|+|+||||++. ..+.++++ +..+....+..|++.++..... . .. ..+.+...+...
T Consensus 147 r~~lqlilmSATl~~-~~l~~~~~~~~~I~~~gr~~pV~~~y~~~~~----~-~~-------------~~~~v~~~l~~~ 207 (812)
T PRK11664 147 RDDLKLLIMSATLDN-DRLQQLLPDAPVIVSEGRSFPVERRYQPLPA----H-QR-------------FDEAVARATAEL 207 (812)
T ss_pred CccceEEEEecCCCH-HHHHHhcCCCCEEEecCccccceEEeccCch----h-hh-------------HHHHHHHHHHHH
Confidence 357899999999964 56778775 3444455566666554321110 0 00 011122223333
Q ss_pred Hh-cCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCC
Q 000107 776 VQ-EGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLT 854 (2191)
Q Consensus 776 ~~-~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs 854 (2191)
+. ..+++|||||++.+++.++..|.+.+.. ...|..+||+|+
T Consensus 208 l~~~~g~iLVFlpg~~ei~~l~~~L~~~~~~-------------------------------------~~~v~~Lhg~l~ 250 (812)
T PRK11664 208 LRQESGSLLLFLPGVGEIQRVQEQLASRVAS-------------------------------------DVLLCPLYGALS 250 (812)
T ss_pred HHhCCCCEEEEcCCHHHHHHHHHHHHHhccC-------------------------------------CceEEEeeCCCC
Confidence 33 3689999999999999999888653210 112888999999
Q ss_pred HHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecCCCC--------------CcccCcccccccccccCCCCCC
Q 000107 855 VEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRIG--------------RDFIDGTRYRQMAGRAGRTGID 920 (2191)
Q Consensus 855 ~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~~g--------------~~~is~~~y~QmiGRAGR~G~d 920 (2191)
.++|..++..|++|..+|||||+++++|||||++++|||++... ..++|.++|.||+|||||.+
T Consensus 251 ~~eq~~~~~~~~~G~rkVlvATnIAErsLtIp~V~~VID~Gl~r~~~yd~~~g~~~L~~~~iSkasa~QR~GRaGR~~-- 328 (812)
T PRK11664 251 LAEQQKAILPAPAGRRKVVLATNIAETSLTIEGIRLVVDSGLERVARFDPKTGLTRLVTQRISQASMTQRAGRAGRLE-- 328 (812)
T ss_pred HHHHHHHhccccCCCeEEEEecchHHhcccccCceEEEECCCcccccccccCCcceeEEEeechhhhhhhccccCCCC--
Confidence 99999999999999999999999999999999999999965432 13578889999999999997
Q ss_pred CceEEEEEeChhhHHHHHhhhccCCCCcccccccccchhhHHHHHHHhcccccCHHHHHHHHHhhhcCCCCcchhHHHHH
Q 000107 921 TKGESMLICKPEEVKKIMGLLNESCPPLHSCLSEDKNGMTHAILEVVAGGIVQTAEDIHRYVRCTLLNSTKPFQDVVKSA 1000 (2191)
Q Consensus 921 ~~Ge~ill~~~~e~~~~~~ll~~~l~~l~S~L~~~~~~l~~~iLeiia~gi~~t~~di~~~l~~tll~~~~~~~~~~~~~ 1000 (2191)
.|.||.++++.++.. +.....|.|..+ ++..++|++.+-|+. ++. ...|+.++.+ .++
T Consensus 329 -~G~cyrL~t~~~~~~---l~~~~~PEI~r~------dL~~~~L~l~~~g~~----~~~---~~~~ld~P~~-----~~~ 386 (812)
T PRK11664 329 -PGICLHLYSKEQAER---AAAQSEPEILHS------DLSGLLLELLQWGCH----DPA---QLSWLDQPPA-----AAL 386 (812)
T ss_pred -CcEEEEecCHHHHhh---CccCCCCceecc------chHHHHHHHHHcCCC----CHH---hCCCCCCCCH-----HHH
Confidence 999999999987654 444455655433 567788998888742 222 2356665543 678
Q ss_pred HHHHHHHHHcccceeccCCCccCCCHHHHHHHhcCCChhhHHHHHHHHh
Q 000107 1001 QDSLRWLCHRKFLEWNEDTKLYSTTPLGRAAFGSSLCPEESLIVLDDLS 1049 (2191)
Q Consensus 1001 ~~al~~L~~~~~i~~~~~~~~~~~T~LG~a~~~s~L~p~~a~~l~~~L~ 1049 (2191)
+.|+..|...|+++ +++ .+|++|+.++..+++|..|++++..-+
T Consensus 387 ~~A~~~L~~lgald--~~g---~lT~~G~~m~~lp~~Prla~~ll~a~~ 430 (812)
T PRK11664 387 AAAKRLLQQLGALD--GQG---RLTARGRKMAALGNDPRLAAMLVAAKE 430 (812)
T ss_pred HHHHHHHHHCCCCC--CCC---CcCHHHHHHHhcCCchHHHHHHHHHHh
Confidence 89999999999995 222 699999999999999999999888643
No 46
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1.6e-37 Score=367.43 Aligned_cols=356 Identities=20% Similarity=0.262 Sum_probs=267.9
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhc-----CC--EEEEEchhHH
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIST-----GK--MALLVLPYVS 581 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~-----g~--kaL~I~P~ra 581 (2191)
|.+.+++.+...||..+||+|..+||. ++.++++++-|+||||||++|++||++.+.++ ++ .+|||.|||+
T Consensus 13 L~~~l~~~l~~~GF~~mTpVQa~tIPl--ll~~KDVvveavTGSGKTlAFllP~le~i~rr~~~~~~~~vgalIIsPTRE 90 (567)
T KOG0345|consen 13 LSPWLLEALDESGFEKMTPVQAATIPL--LLKNKDVVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGALIISPTRE 90 (567)
T ss_pred ccHHHHHHHHhcCCcccCHHHHhhhHH--HhcCCceEEEcCCCCCchhhHHHHHHHHHHhhccCCCccceeEEEecCcHH
Confidence 678999999999999999999999987 99999999999999999999999999988542 22 6899999999
Q ss_pred HHHHHHHHHHHHhhc-cCCeEEEEeccCCCCC-----CCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEccccccc
Q 000107 582 ICAEKAEHLEVLLEP-LGRHVRSYYGNQGGGS-----LPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVA 655 (2191)
Q Consensus 582 LA~q~~~~l~~l~~~-lg~~V~~~~G~~~~~~-----l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~ 655 (2191)
||.|+.+.+..+... .++.+..+.|+..... ...++.|+||||+++.+++.+-.....+..+.++|+||||.+.
T Consensus 91 La~QI~~V~~~F~~~l~~l~~~l~vGG~~v~~Di~~fkee~~nIlVgTPGRL~di~~~~~~~l~~rsLe~LVLDEADrLl 170 (567)
T KOG0345|consen 91 LARQIREVAQPFLEHLPNLNCELLVGGRSVEEDIKTFKEEGPNILVGTPGRLLDILQREAEKLSFRSLEILVLDEADRLL 170 (567)
T ss_pred HHHHHHHHHHHHHHhhhccceEEEecCccHHHHHHHHHHhCCcEEEeCchhHHHHHhchhhhccccccceEEecchHhHh
Confidence 999999999888777 5677888889864321 2356889999999999999874455557799999999999999
Q ss_pred ccchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhccccccccccccceE
Q 000107 656 DQNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQAALYETNFRPVPLEE 735 (2191)
Q Consensus 656 d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a~l~~~~~RpvpL~e 735 (2191)
|.++...+..||+.| +...+.=++|||... .+.+...+.+-. |+.+
T Consensus 171 dmgFe~~~n~ILs~L--------------------------PKQRRTGLFSATq~~--~v~dL~raGLRN----pv~V-- 216 (567)
T KOG0345|consen 171 DMGFEASVNTILSFL--------------------------PKQRRTGLFSATQTQ--EVEDLARAGLRN----PVRV-- 216 (567)
T ss_pred cccHHHHHHHHHHhc--------------------------ccccccccccchhhH--HHHHHHHhhccC----ceee--
Confidence 999999999999988 456778899999763 333333333211 2221
Q ss_pred EEEeccccccchhhHHHHHHHhhccCCC---ChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCC
Q 000107 736 YIKVGNAIYSKKMDVVRTILTAANLGGK---DPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHS 812 (2191)
Q Consensus 736 ~i~~~~~~~~~~~~~~r~l~~~~~~~~~---d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~ 812 (2191)
.+......... .-+ ...+.... ....+++++.. ...+++|||.+|...++.....+...+..
T Consensus 217 ~V~~k~~~~tP--S~L----~~~Y~v~~a~eK~~~lv~~L~~--~~~kK~iVFF~TCasVeYf~~~~~~~l~~------- 281 (567)
T KOG0345|consen 217 SVKEKSKSATP--SSL----ALEYLVCEADEKLSQLVHLLNN--NKDKKCIVFFPTCASVEYFGKLFSRLLKK------- 281 (567)
T ss_pred eecccccccCc--hhh----cceeeEecHHHHHHHHHHHHhc--cccccEEEEecCcchHHHHHHHHHHHhCC-------
Confidence 11111000000 000 00000011 11233333333 13479999999999888877777654321
Q ss_pred CCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEe
Q 000107 813 SDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIF 892 (2191)
Q Consensus 813 ~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI 892 (2191)
..+..+||.|.+..|..+++.|+.-.-.||+||+++++|+|||++.+||
T Consensus 282 -------------------------------~~i~~iHGK~~q~~R~k~~~~F~~~~~~vl~~TDVaARGlDip~iD~Vv 330 (567)
T KOG0345|consen 282 -------------------------------REIFSIHGKMSQKARAKVLEAFRKLSNGVLFCTDVAARGLDIPGIDLVV 330 (567)
T ss_pred -------------------------------CcEEEecchhcchhHHHHHHHHHhccCceEEeehhhhccCCCCCceEEE
Confidence 2277799999999999999999998889999999999999999999999
Q ss_pred ecCCCCCcccCcccccccccccCCCCCCCceEEEEEeChhhHHHHHhhhccC-CCCcccccc
Q 000107 893 RQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKIMGLLNES-CPPLHSCLS 953 (2191)
Q Consensus 893 ~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~~~ll~~~-l~~l~S~L~ 953 (2191)
.++.|. +...|.||+||+||.| ..|.+++|..+.+.. |.+++.-. .+++++...
T Consensus 331 Q~DpP~----~~~~FvHR~GRTaR~g--r~G~Aivfl~p~E~a-YveFl~i~~~v~le~~~~ 385 (567)
T KOG0345|consen 331 QFDPPK----DPSSFVHRCGRTARAG--REGNAIVFLNPREEA-YVEFLRIKGKVELERIDT 385 (567)
T ss_pred ecCCCC----ChhHHHhhcchhhhcc--CccceEEEecccHHH-HHHHHHhcCccchhhhcc
Confidence 887765 7788999999999999 899999999985543 44555433 345544433
No 47
>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB. This model represents HrpB, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria, but also in a few species of other lineages. The member from Rhizobium meliloti has been designated HelO. HrpB is typically about 800 residues in length, while its paralog HrpA (TIGR01967), also uncharacterized, is about 1300 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=100.00 E-value=5.5e-37 Score=409.45 Aligned_cols=395 Identities=19% Similarity=0.233 Sum_probs=286.0
Q ss_pred cccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHh-hccCCeEEEEeccCCCCCCCCC
Q 000107 538 VLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLL-EPLGRHVRSYYGNQGGGSLPKD 616 (2191)
Q Consensus 538 il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~-~~lg~~V~~~~G~~~~~~l~~~ 616 (2191)
+..++++|++||||||||+++.+++++... .+.+++|+.|+|++|.++++++.+.+ ..+|..|+..++.. .....+
T Consensus 14 l~~~~~vIi~a~TGSGKTT~vpl~lL~~~~-~~~~ilvlqPrR~aA~qiA~rva~~~~~~~g~~VGy~vr~~--~~~s~~ 90 (819)
T TIGR01970 14 LAAHPQVVLEAPPGAGKSTAVPLALLDAPG-IGGKIIMLEPRRLAARSAAQRLASQLGEAVGQTVGYRVRGE--NKVSRR 90 (819)
T ss_pred HHcCCcEEEECCCCCCHHHHHHHHHHHhhc-cCCeEEEEeCcHHHHHHHHHHHHHHhCCCcCcEEEEEEccc--cccCCC
Confidence 667899999999999999999999998764 45699999999999999999986444 44566666544432 234556
Q ss_pred CceEEEchHHHHHHHHHhhhcCCCCccceEEEccccc-ccccchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCC
Q 000107 617 TSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHM-VADQNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKAD 695 (2191)
Q Consensus 617 ~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~-l~d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~ 695 (2191)
++|+|+|++++..++. ....++++++|||||+|+ ..+..++.. ++..+...
T Consensus 91 t~I~v~T~G~Llr~l~---~d~~L~~v~~VIiDEaHER~L~~Dl~L~---ll~~i~~~---------------------- 142 (819)
T TIGR01970 91 TRLEVVTEGILTRMIQ---DDPELDGVGALIFDEFHERSLDADLGLA---LALDVQSS---------------------- 142 (819)
T ss_pred CcEEEECCcHHHHHHh---hCcccccCCEEEEeccchhhhccchHHH---HHHHHHHh----------------------
Confidence 8999999999766554 456799999999999996 444323221 11122111
Q ss_pred CCCCceEEEEeccCCCHHHHHHHhh-ccccccccccccceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHH
Q 000107 696 PAHGLQIVGMSATMPNVAAVADWLQ-AALYETNFRPVPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDE 774 (2191)
Q Consensus 696 ~~~~iqII~mSATL~N~~~la~wL~-a~l~~~~~RpvpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e 774 (2191)
.+++.|+|+||||+++ ..+.++++ +.++....+..|++.++.... ..... .+.+...+..
T Consensus 143 lr~dlqlIlmSATl~~-~~l~~~l~~~~vI~~~gr~~pVe~~y~~~~----~~~~~--------------~~~v~~~l~~ 203 (819)
T TIGR01970 143 LREDLKILAMSATLDG-ERLSSLLPDAPVVESEGRSFPVEIRYLPLR----GDQRL--------------EDAVSRAVEH 203 (819)
T ss_pred cCCCceEEEEeCCCCH-HHHHHHcCCCcEEEecCcceeeeeEEeecc----hhhhH--------------HHHHHHHHHH
Confidence 1356899999999964 45778875 444555556666655432110 00000 0111122222
Q ss_pred HHh-cCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCC
Q 000107 775 VVQ-EGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGL 853 (2191)
Q Consensus 775 ~~~-~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagL 853 (2191)
.+. ..+++|||||++.+++.++..|.+.+. -...|..+||+|
T Consensus 204 ~l~~~~g~iLVFlpg~~eI~~l~~~L~~~~~-------------------------------------~~~~v~pLHg~L 246 (819)
T TIGR01970 204 ALASETGSILVFLPGQAEIRRVQEQLAERLD-------------------------------------SDVLICPLYGEL 246 (819)
T ss_pred HHHhcCCcEEEEECCHHHHHHHHHHHHhhcC-------------------------------------CCcEEEEecCCC
Confidence 222 357999999999999999888865321 012388999999
Q ss_pred CHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecCCCC--------------CcccCcccccccccccCCCCC
Q 000107 854 TVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRIG--------------RDFIDGTRYRQMAGRAGRTGI 919 (2191)
Q Consensus 854 s~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~~g--------------~~~is~~~y~QmiGRAGR~G~ 919 (2191)
++++|..+++.|++|..+|||||+++++|||||++++|||++... ..++|.++|.||+|||||.+
T Consensus 247 ~~~eq~~~~~~~~~G~rkVlVATnIAErgItIp~V~~VID~Gl~r~~~yd~~~g~~~L~~~~iSkasa~QR~GRAGR~~- 325 (819)
T TIGR01970 247 SLAAQDRAIKPDPQGRRKVVLATNIAETSLTIEGIRVVIDSGLARVARFDPKTGITRLETVRISQASATQRAGRAGRLE- 325 (819)
T ss_pred CHHHHHHHHhhcccCCeEEEEecchHhhcccccCceEEEEcCcccccccccccCCceeeEEEECHHHHHhhhhhcCCCC-
Confidence 999999999999999999999999999999999999999976532 13577888999999999996
Q ss_pred CCceEEEEEeChhhHHHHHhhhccCCCCcccccccccchhhHHHHHHHhcccccCHHHHHHHHHhhhcCCCCcchhHHHH
Q 000107 920 DTKGESMLICKPEEVKKIMGLLNESCPPLHSCLSEDKNGMTHAILEVVAGGIVQTAEDIHRYVRCTLLNSTKPFQDVVKS 999 (2191)
Q Consensus 920 d~~Ge~ill~~~~e~~~~~~ll~~~l~~l~S~L~~~~~~l~~~iLeiia~gi~~t~~di~~~l~~tll~~~~~~~~~~~~ 999 (2191)
+|.||.+++.+++..+.. ...|.|..+ .+...+|++.+-|+- ++. ...|+.++. ..+
T Consensus 326 --~G~cyrL~t~~~~~~l~~---~~~PEI~r~------~L~~~~L~l~~~g~~----~~~---~~~~l~~P~-----~~~ 382 (819)
T TIGR01970 326 --PGVCYRLWSEEQHQRLPA---QDEPEILQA------DLSGLALELAQWGAK----DPS---DLRWLDAPP-----SVA 382 (819)
T ss_pred --CCEEEEeCCHHHHHhhhc---CCCcceecc------CcHHHHHHHHHcCCC----Chh---hCCCCCCcC-----HHH
Confidence 999999999987655433 334555332 456678888887742 222 234555543 256
Q ss_pred HHHHHHHHHHcccceeccCCCccCCCHHHHHHHhcCCChhhHHHHHHHH
Q 000107 1000 AQDSLRWLCHRKFLEWNEDTKLYSTTPLGRAAFGSSLCPEESLIVLDDL 1048 (2191)
Q Consensus 1000 ~~~al~~L~~~~~i~~~~~~~~~~~T~LG~a~~~s~L~p~~a~~l~~~L 1048 (2191)
++.|++.|...|++. +++ .+|++|+.++..+++|..|++++...
T Consensus 383 i~~a~~~L~~lgald--~~~---~lT~~G~~~~~lp~~p~l~~~ll~~~ 426 (819)
T TIGR01970 383 LAAARQLLQRLGALD--AQG---RLTAHGKAMAALGCHPRLAAMLLSAH 426 (819)
T ss_pred HHHHHHHHHHCCCCC--CCC---CcCHHHHHHHhcCCCHHHHHHHHHhh
Confidence 788999999999995 232 59999999999999999999988764
No 48
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1.8e-38 Score=358.46 Aligned_cols=345 Identities=23% Similarity=0.309 Sum_probs=275.2
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhc--CCEEEEEchhHHHHHHH
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIST--GKMALLVLPYVSICAEK 586 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~--g~kaL~I~P~raLA~q~ 586 (2191)
|-.+++..+.+.||++|.|+|.++|+. .+.|+|++.-|..|+|||.+|.+|+|+.+... ...+++++|+|+||-|.
T Consensus 92 Lkr~LLmgIfe~G~ekPSPiQeesIPi--aLtGrdiLaRaKNGTGKT~a~~IP~Lekid~~~~~IQ~~ilVPtrelALQt 169 (459)
T KOG0326|consen 92 LKRELLMGIFEKGFEKPSPIQEESIPI--ALTGRDILARAKNGTGKTAAYCIPVLEKIDPKKNVIQAIILVPTRELALQT 169 (459)
T ss_pred hhHHHHHHHHHhccCCCCCccccccce--eecchhhhhhccCCCCCccceechhhhhcCccccceeEEEEeecchhhHHH
Confidence 678888888899999999999999987 89999999999999999999999999987643 34789999999999999
Q ss_pred HHHHHHHhhccCCeEEEEeccCCCCC----CCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHH
Q 000107 587 AEHLEVLLEPLGRHVRSYYGNQGGGS----LPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYL 662 (2191)
Q Consensus 587 ~~~l~~l~~~lg~~V~~~~G~~~~~~----l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~ 662 (2191)
.+.+.++.+.+|++|...+|++.... +....+++|+||+++.+|..+ .-..+++..++|+||++.+.+..++..
T Consensus 170 Sqvc~~lskh~~i~vmvttGGT~lrDDI~Rl~~~VH~~vgTPGRIlDL~~K--gVa~ls~c~~lV~DEADKlLs~~F~~~ 247 (459)
T KOG0326|consen 170 SQVCKELSKHLGIKVMVTTGGTSLRDDIMRLNQTVHLVVGTPGRILDLAKK--GVADLSDCVILVMDEADKLLSVDFQPI 247 (459)
T ss_pred HHHHHHHhcccCeEEEEecCCcccccceeeecCceEEEEcCChhHHHHHhc--ccccchhceEEEechhhhhhchhhhhH
Confidence 99999999999999999999875432 456689999999999999887 566899999999999999999999999
Q ss_pred HHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhccccc---c----ccccccceE
Q 000107 663 LELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQAALYE---T----NFRPVPLEE 735 (2191)
Q Consensus 663 lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a~l~~---~----~~RpvpL~e 735 (2191)
+|.++..| ++..|++++|||.|. .+..|+...+-. . ...+..+..
T Consensus 248 ~e~li~~l--------------------------P~~rQillySATFP~--tVk~Fm~~~l~kPy~INLM~eLtl~GvtQ 299 (459)
T KOG0326|consen 248 VEKLISFL--------------------------PKERQILLYSATFPL--TVKGFMDRHLKKPYEINLMEELTLKGVTQ 299 (459)
T ss_pred HHHHHHhC--------------------------CccceeeEEecccch--hHHHHHHHhccCcceeehhhhhhhcchhh
Confidence 99999887 567899999999985 334444332211 0 001111111
Q ss_pred EEEeccccccchhhHHHHHHHhhccCCCChhH-HHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCC
Q 000107 736 YIKVGNAIYSKKMDVVRTILTAANLGGKDPDH-IVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSD 814 (2191)
Q Consensus 736 ~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~-l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~ 814 (2191)
|+.+ ......-+ +..|... ++ -.++||||||.+.+|.+|+.|.+
T Consensus 300 yYaf--------------------V~e~qKvhCLntLfsk-Lq-INQsIIFCNS~~rVELLAkKITe------------- 344 (459)
T KOG0326|consen 300 YYAF--------------------VEERQKVHCLNTLFSK-LQ-INQSIIFCNSTNRVELLAKKITE------------- 344 (459)
T ss_pred heee--------------------echhhhhhhHHHHHHH-hc-ccceEEEeccchHhHHHHHHHHh-------------
Confidence 1110 00000111 1222222 22 25899999999999999998865
Q ss_pred chhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeec
Q 000107 815 SEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQ 894 (2191)
Q Consensus 815 ~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~ 894 (2191)
+++.+.|.|+.|.+++|..|+..|++|..+.||||+.+.+|||++++.|||++
T Consensus 345 ---------------------------lGyscyyiHakM~Q~hRNrVFHdFr~G~crnLVctDL~TRGIDiqavNvVINF 397 (459)
T KOG0326|consen 345 ---------------------------LGYSCYYIHAKMAQEHRNRVFHDFRNGKCRNLVCTDLFTRGIDIQAVNVVINF 397 (459)
T ss_pred ---------------------------ccchhhHHHHHHHHhhhhhhhhhhhccccceeeehhhhhcccccceeeEEEec
Confidence 34457889999999999999999999999999999999999999999999998
Q ss_pred CCCCCcccCcccccccccccCCCCCCCceEEEEEeChhh---HHHHHhhhccCCCCcccccc
Q 000107 895 PRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEE---VKKIMGLLNESCPPLHSCLS 953 (2191)
Q Consensus 895 p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e---~~~~~~ll~~~l~~l~S~L~ 953 (2191)
+.+. +.++|+||+||+||.| ..|.+|-+.+-++ ...+.+-|...+.|+.+.+.
T Consensus 398 Dfpk----~aEtYLHRIGRsGRFG--hlGlAInLityedrf~L~~IE~eLGtEI~pip~~iD 453 (459)
T KOG0326|consen 398 DFPK----NAETYLHRIGRSGRFG--HLGLAINLITYEDRFNLYRIEQELGTEIKPIPSNID 453 (459)
T ss_pred CCCC----CHHHHHHHccCCccCC--CcceEEEEEehhhhhhHHHHHHHhccccccCCCcCC
Confidence 8876 7889999999999999 8999998887654 34455667777777766543
No 49
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=6.5e-38 Score=349.32 Aligned_cols=341 Identities=19% Similarity=0.292 Sum_probs=271.9
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHh--cCCEEEEEchhHHHHHHH
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIS--TGKMALLVLPYVSICAEK 586 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~--~g~kaL~I~P~raLA~q~ 586 (2191)
|.++++......||++|..+|..|++. ++.|+|+|..|..|+|||..|-+.+++.+.- +..+++++.|||+||.|+
T Consensus 34 l~edlLrgiY~yGfekPS~IQqrAi~~--IlkGrdViaQaqSGTGKTa~~si~vlq~~d~~~r~tQ~lilsPTRELa~Qi 111 (400)
T KOG0328|consen 34 LKEDLLRGIYAYGFEKPSAIQQRAIPQ--ILKGRDVIAQAQSGTGKTATFSISVLQSLDISVRETQALILSPTRELAVQI 111 (400)
T ss_pred chHHHHHHHHHhccCCchHHHhhhhhh--hhcccceEEEecCCCCceEEEEeeeeeecccccceeeEEEecChHHHHHHH
Confidence 558888888899999999999999987 9999999999999999999998888876543 345899999999999999
Q ss_pred HHHHHHHhhccCCeEEEEeccCCCC----CCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHH
Q 000107 587 AEHLEVLLEPLGRHVRSYYGNQGGG----SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYL 662 (2191)
Q Consensus 587 ~~~l~~l~~~lg~~V~~~~G~~~~~----~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~ 662 (2191)
.+.+..+...+++.+....|+...+ .+.-+.+++.+||+++.+++++ ....-+.+.++|+||++.+.+.+++..
T Consensus 112 ~~vi~alg~~mnvq~hacigg~n~gedikkld~G~hvVsGtPGrv~dmikr--~~L~tr~vkmlVLDEaDemL~kgfk~Q 189 (400)
T KOG0328|consen 112 QKVILALGDYMNVQCHACIGGKNLGEDIKKLDYGQHVVSGTPGRVLDMIKR--RSLRTRAVKMLVLDEADEMLNKGFKEQ 189 (400)
T ss_pred HHHHHHhcccccceEEEEecCCccchhhhhhcccceEeeCCCchHHHHHHh--ccccccceeEEEeccHHHHHHhhHHHH
Confidence 9999999999999999888887632 2445789999999999999987 566778899999999999999888877
Q ss_pred HHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhccccccccccccceEEEEeccc
Q 000107 663 LELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQAALYETNFRPVPLEEYIKVGNA 742 (2191)
Q Consensus 663 lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a~l~~~~~RpvpL~e~i~~~~~ 742 (2191)
+..+...| ++..|+|++|||+|. ++.+... .|-+-|++.+++.+..
T Consensus 190 iydiyr~l--------------------------p~~~Qvv~~SATlp~--eilemt~------kfmtdpvrilvkrdel 235 (400)
T KOG0328|consen 190 IYDIYRYL--------------------------PPGAQVVLVSATLPH--EILEMTE------KFMTDPVRILVKRDEL 235 (400)
T ss_pred HHHHHHhC--------------------------CCCceEEEEeccCcH--HHHHHHH------HhcCCceeEEEecCCC
Confidence 77666554 578999999999983 3333221 2334466666553322
Q ss_pred cccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHH
Q 000107 743 IYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITS 822 (2191)
Q Consensus 743 ~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~ 822 (2191)
. .+-+..+.-..+....+.+.+..|-..+. -.+++|||||++.+.++.+.+.+.
T Consensus 236 t----lEgIKqf~v~ve~EewKfdtLcdLYd~Lt--ItQavIFcnTk~kVdwLtekm~~~-------------------- 289 (400)
T KOG0328|consen 236 T----LEGIKQFFVAVEKEEWKFDTLCDLYDTLT--ITQAVIFCNTKRKVDWLTEKMREA-------------------- 289 (400)
T ss_pred c----hhhhhhheeeechhhhhHhHHHHHhhhhe--hheEEEEecccchhhHHHHHHHhh--------------------
Confidence 1 11122222222222335566665543332 258999999999988887776542
Q ss_pred HHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecCCCCCccc
Q 000107 823 AIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRIGRDFI 902 (2191)
Q Consensus 823 ~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~~g~~~i 902 (2191)
.+-|...||+|.++||+.+...||+|.-+||++|++.++|+|+|.+..||+++.|.
T Consensus 290 --------------------nftVssmHGDm~qkERd~im~dFRsg~SrvLitTDVwaRGiDv~qVslviNYDLP~---- 345 (400)
T KOG0328|consen 290 --------------------NFTVSSMHGDMEQKERDKIMNDFRSGKSRVLITTDVWARGIDVQQVSLVINYDLPN---- 345 (400)
T ss_pred --------------------CceeeeccCCcchhHHHHHHHHhhcCCceEEEEechhhccCCcceeEEEEecCCCc----
Confidence 12388899999999999999999999999999999999999999999999999876
Q ss_pred CcccccccccccCCCCCCCceEEEEEeChhhHHHHHh
Q 000107 903 DGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKIMG 939 (2191)
Q Consensus 903 s~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~~~ 939 (2191)
....|+||+||.||.| +.|.+|-|++.++.+.+.+
T Consensus 346 nre~YIHRIGRSGRFG--RkGvainFVk~~d~~~lrd 380 (400)
T KOG0328|consen 346 NRELYIHRIGRSGRFG--RKGVAINFVKSDDLRILRD 380 (400)
T ss_pred cHHHHhhhhccccccC--CcceEEEEecHHHHHHHHH
Confidence 5678999999999999 8999999999988766543
No 50
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=100.00 E-value=1.4e-38 Score=405.38 Aligned_cols=523 Identities=20% Similarity=0.283 Sum_probs=389.8
Q ss_pred cccchhhhhccccCCCCCccceeccCCC-CcccccccCCCCCCccCCCCCCCCCCCcCCcCCCCcH------HHHHHHHH
Q 000107 447 EKDSVLIVHERKLDISSQGIDSITSDSP-TNVIKKPVGNEKSDEAGTPSSSGMLKDCLDLSSWLPS------EICSIYKK 519 (2191)
Q Consensus 447 d~e~~~~~~~~e~~~~~~y~i~v~Sd~w-~~e~~~pi~~~~~~e~~~P~~~~~~~e~l~L~~~Lp~------~l~~~l~~ 519 (2191)
+..--++++..+ .+++|||+++||+| ++++..|++|++ .++|.+++++++.+|+++. |- .....
T Consensus 1070 ~~~v~ft~~~~~--~pP~~fi~lvSd~wl~s~~~~Pvsfr~---l~lpek~p~pt~lld~~~~-~~~~l~N~~~~~l--- 1140 (1674)
T KOG0951|consen 1070 EHTVNFTVPLFE--PPPQYFIRLVSDRWLHSETVLPVSFRH---LILPEKYPPPTELLDLQPL-PVSALRNPSFETL--- 1140 (1674)
T ss_pred ceEEEEEeecCC--CCCceEEEEeeccccCCCcccccchhh---ccCcccCCCCchhhhcccc-chhccCCcchhhh---
Confidence 443334444444 48999999999999 999999999998 9999999999999999873 32 11222
Q ss_pred cCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhc-cC
Q 000107 520 RGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEP-LG 598 (2191)
Q Consensus 520 ~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~-lg 598 (2191)
|...+|+|.++++. ....++|+++++|+|||||.|+++++++ -....+++||.|.-+++..++..|.+.+.. .|
T Consensus 1141 --f~~~n~iqtqVf~~-~y~~nd~v~vga~~gsgkt~~ae~a~l~--~~~~~~~vyi~p~~~i~~~~~~~w~~~f~~~~G 1215 (1674)
T KOG0951|consen 1141 --FQDFNPIQTQVFTS-LYNTNDNVLVGAPNGSGKTACAELALLR--PDTIGRAVYIAPLEEIADEQYRDWEKKFSKLLG 1215 (1674)
T ss_pred --ccccCCceEEEEee-eecccceEEEecCCCCchhHHHHHHhcC--CccceEEEEecchHHHHHHHHHHHHHhhccccC
Confidence 33458999999985 2446899999999999999999999998 335669999999999999999999766654 67
Q ss_pred CeEEEEeccCCCCC-CCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHhhcCC
Q 000107 599 RHVRSYYGNQGGGS-LPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAAGEG 677 (2191)
Q Consensus 599 ~~V~~~~G~~~~~~-l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~ 677 (2191)
..+..+.|....+. +....+|+|+|||+|+.+ + ..+.+++.|+||+|++++ ..|+.+|.+++ +||++.+
T Consensus 1216 ~~~~~l~ge~s~~lkl~~~~~vii~tpe~~d~l-q------~iQ~v~l~i~d~lh~igg-~~g~v~evi~S-~r~ia~q- 1285 (1674)
T KOG0951|consen 1216 LRIVKLTGETSLDLKLLQKGQVIISTPEQWDLL-Q------SIQQVDLFIVDELHLIGG-VYGAVYEVICS-MRYIASQ- 1285 (1674)
T ss_pred ceEEecCCccccchHHhhhcceEEechhHHHHH-h------hhhhcceEeeehhhhhcc-cCCceEEEEee-HHHHHHH-
Confidence 88888877765432 334569999999999876 2 678899999999999995 48999999999 9999865
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhcc-----ccccccccccceEEEEeccccccchhhHHH
Q 000107 678 TSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQAA-----LYETNFRPVPLEEYIKVGNAIYSKKMDVVR 752 (2191)
Q Consensus 678 ~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a~-----l~~~~~RpvpL~e~i~~~~~~~~~~~~~~r 752 (2191)
..+++++|++|..+.|+.++ +++. -|.++.||+|++.+++.-...+..... .
T Consensus 1286 ------------------~~k~ir~v~ls~~lana~d~---ig~s~~~v~Nf~p~~R~~Pl~i~i~~~~~~~~~~~~--~ 1342 (1674)
T KOG0951|consen 1286 ------------------LEKKIRVVALSSSLANARDL---IGASSSGVFNFSPSVRPVPLEIHIQSVDISHFESRM--L 1342 (1674)
T ss_pred ------------------HHhheeEEEeehhhccchhh---ccccccceeecCcccCCCceeEEEEEeccchhHHHH--H
Confidence 45789999999999999988 5532 357899999999999854443322110 0
Q ss_pred HHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCC
Q 000107 753 TILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPA 832 (2191)
Q Consensus 753 ~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~ 832 (2191)
.+. +.....+.....++++.+||+|+|+.|..+|..+..+..... ..-+. .++ .
T Consensus 1343 am~----------~~~~~ai~~~a~~~k~~~vf~p~rk~~~~~a~~~~~~s~~~~---------~~~l~---~~~----e 1396 (1674)
T KOG0951|consen 1343 AMT----------KPTYTAIVRHAGNRKPAIVFLPTRKHARLVAVDLVTFSHADE---------PDYLL---SEL----E 1396 (1674)
T ss_pred Hhh----------hhHHHHHHHHhcCCCCeEEEeccchhhhhhhhccchhhccCc---------HHHHH---HHH----h
Confidence 111 112223333445678999999999999999988876553321 00011 111 1
Q ss_pred CCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecCCC--C----CcccCccc
Q 000107 833 GLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRI--G----RDFIDGTR 906 (2191)
Q Consensus 833 gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~~--g----~~~is~~~ 906 (2191)
+-|..|.+.+++||+ |.||+..+..+|-..|..|.|.|+|...- .+|+-..+.-||+..... | ...+++..
T Consensus 1397 ~~~~~l~e~l~~gvg--~e~~s~~d~~iv~~l~e~g~i~v~v~s~~-~~~~~~~~~lVvvmgt~~ydg~e~~~~~y~i~~ 1473 (1674)
T KOG0951|consen 1397 ECDETLRESLKHGVG--HEGLSSNDQEIVQQLFEAGAIQVCVMSRD-CYGTKLKAHLVVVMGTQYYDGKEHSYEDYPIAE 1473 (1674)
T ss_pred cchHhhhhccccccc--ccccCcchHHHHHHHHhcCcEEEEEEEcc-cccccccceEEEEecceeecccccccccCchhH
Confidence 247788999999999 99999999999999999999999999988 999999998888742211 1 13467778
Q ss_pred ccccccccCCCCCCCceEEEEEeChhhHHHHHhhhccCCCCcccccccccchhhHHHHHHHhcccccCHHHHHHHHHhhh
Q 000107 907 YRQMAGRAGRTGIDTKGESMLICKPEEVKKIMGLLNESCPPLHSCLSEDKNGMTHAILEVVAGGIVQTAEDIHRYVRCTL 986 (2191)
Q Consensus 907 y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~~~ll~~~l~~l~S~L~~~~~~l~~~iLeiia~gi~~t~~di~~~l~~tl 986 (2191)
..||+|+|.|+ |.|+++|......+|++++.+++| ++|.|.- -+.+...+.|..+
T Consensus 1474 ll~m~G~a~~~-----~k~vi~~~~~~k~yykkfl~e~lP-ves~lq~---~lhd~~n~ei~~~---------------- 1528 (1674)
T KOG0951|consen 1474 LLQMVGLASGA-----GKCVIMCHTPKKEYYKKFLYEPLP-VESHLQH---CLHDNFNAEIVTK---------------- 1528 (1674)
T ss_pred HHHHhhhhcCC-----ccEEEEecCchHHHHHHhccCcCc-hHHHHHH---HHHhhhhHHHHHH----------------
Confidence 89999999884 589999999999999999999995 4554421 0111111222221
Q ss_pred cCCCCcchhHHHHHHHHHHHHHHccccee-ccCCCcc---CCCHHHHHHHhcCCChhhHHHHHHHHhhhcccccccCccc
Q 000107 987 LNSTKPFQDVVKSAQDSLRWLCHRKFLEW-NEDTKLY---STTPLGRAAFGSSLCPEESLIVLDDLSRAREGFVLASDLH 1062 (2191)
Q Consensus 987 l~~~~~~~~~~~~~~~al~~L~~~~~i~~-~~~~~~~---~~T~LG~a~~~s~L~p~~a~~l~~~L~~a~~~~vl~~dlh 1062 (2191)
++++.|+|++||+|..+++. ..|+++| .+|+.+.+++.|+|... ++.+|..+++--|...|-
T Consensus 1529 ---------tienkqd~vd~lt~s~~yrr~~~np~yy~l~~v~~~~~S~~lS~lvet----~l~dl~~s~~i~v~dad~- 1594 (1674)
T KOG0951|consen 1529 ---------TIENKQDAVDYLTWSFMYRRLPQNPNYYNLQGVSHRHLSDFLSELVET----TLNDLEESKCIEVDDEDD- 1594 (1674)
T ss_pred ---------HHHhHHHHHHHHHHHHhhhccccCcceecccccchhhhhhHHHHHHHH----HHHHhhcCceEEeecccc-
Confidence 36788999999999999985 5677777 78999999999998877 889998888733332222
Q ss_pred eeeeeccCCCCCCCcHHHHHHHHHhhhhhhhh
Q 000107 1063 LVYLSTPINVEVEPDWELYYERFLELSALDQS 1094 (2191)
Q Consensus 1063 llylvtp~~~~~~~dw~~~~~~~~~l~~~~~~ 1094 (2191)
.+++++. +|+.-|.+++.+--+
T Consensus 1595 --------~l~~Ias--~y~i~y~ti~~f~~~ 1616 (1674)
T KOG0951|consen 1595 --------SLGMIAS--YYYISYITIERFSSS 1616 (1674)
T ss_pred --------ccchhhh--hceeeeEeeehhhhh
Confidence 1333444 555666666555433
No 51
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=7e-38 Score=359.74 Aligned_cols=350 Identities=23% Similarity=0.322 Sum_probs=270.0
Q ss_pred CCCCCcCCcCCCCcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHh--cCCEEE
Q 000107 497 GMLKDCLDLSSWLPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIS--TGKMAL 574 (2191)
Q Consensus 497 ~~~~e~l~L~~~Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~--~g~kaL 574 (2191)
..++..|++++| +.+-++.+|+.+++|+|..||+. |++|+|+|-+|.||||||++|.+|+|+++.. .|.-++
T Consensus 6 ~~~F~~LGl~~W----lve~l~~l~i~~pTpiQ~~cIpk--ILeGrdcig~AkTGsGKT~AFaLPil~rLsedP~giFal 79 (442)
T KOG0340|consen 6 AKPFSILGLSPW----LVEQLKALGIKKPTPIQQACIPK--ILEGRDCIGCAKTGSGKTAAFALPILNRLSEDPYGIFAL 79 (442)
T ss_pred cCchhhcCccHH----HHHHHHHhcCCCCCchHhhhhHH--HhcccccccccccCCCcchhhhHHHHHhhccCCCcceEE
Confidence 345566777766 45667788999999999999987 9999999999999999999999999999876 356899
Q ss_pred EEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCC----CCCCCCCceEEEchHHHHHHHHHhhhc--CCCCccceEEE
Q 000107 575 LVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGG----GSLPKDTSVAVCTIEKANSLVNRMLEE--GRLSEIGIIVI 648 (2191)
Q Consensus 575 ~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~----~~l~~~~~IiV~TpEkl~~Ll~~l~~~--~~L~~l~lVVI 648 (2191)
|+.|||+||.|+.+.|..+...+++++..++|+... ..++..+|++|+|||++..++..-... ..++++.++|+
T Consensus 80 vlTPTrELA~QiaEQF~alGk~l~lK~~vivGG~d~i~qa~~L~~rPHvVvatPGRlad~l~sn~~~~~~~~~rlkflVl 159 (442)
T KOG0340|consen 80 VLTPTRELALQIAEQFIALGKLLNLKVSVIVGGTDMIMQAAILSDRPHVVVATPGRLADHLSSNLGVCSWIFQRLKFLVL 159 (442)
T ss_pred EecchHHHHHHHHHHHHHhcccccceEEEEEccHHHhhhhhhcccCCCeEecCccccccccccCCccchhhhhceeeEEe
Confidence 999999999999999999999999999999998753 346778999999999998887652111 24788999999
Q ss_pred cccccccccchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhcccccccc
Q 000107 649 DELHMVADQNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQAALYETNF 728 (2191)
Q Consensus 649 DEaH~l~d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a~l~~~~~ 728 (2191)
||++.+.+..+...++-+...+ +...|.++||||+.+ .+....++..-.+
T Consensus 160 DEADrvL~~~f~d~L~~i~e~l--------------------------P~~RQtLlfSATitd--~i~ql~~~~i~k~-- 209 (442)
T KOG0340|consen 160 DEADRVLAGCFPDILEGIEECL--------------------------PKPRQTLLFSATITD--TIKQLFGCPITKS-- 209 (442)
T ss_pred cchhhhhccchhhHHhhhhccC--------------------------CCccceEEEEeehhh--HHHHhhcCCcccc--
Confidence 9999999988888888777655 455799999999974 3344444321110
Q ss_pred ccccceEEEEeccccccchhhHHHHHHHhhccC--CCChhHHHHHHHHHHh-cCCcEEEEeCchhHHHHHHHHHHHHHhh
Q 000107 729 RPVPLEEYIKVGNAIYSKKMDVVRTILTAANLG--GKDPDHIVELCDEVVQ-EGHSVLIFCSSRKGCESTARHVSKFLKK 805 (2191)
Q Consensus 729 RpvpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~--~~d~d~l~~Ll~e~~~-~g~~vLVF~~Sr~~~e~lA~~L~~~l~~ 805 (2191)
...+.... .+. .....+....-.. ....-.++.++...-. +.++++||+++...|+.++..|..
T Consensus 210 --~a~~~e~~-~~v------stvetL~q~yI~~~~~vkdaYLv~~Lr~~~~~~~~simIFvnttr~cQ~l~~~l~~---- 276 (442)
T KOG0340|consen 210 --IAFELEVI-DGV------STVETLYQGYILVSIDVKDAYLVHLLRDFENKENGSIMIFVNTTRECQLLSMTLKN---- 276 (442)
T ss_pred --cceEEecc-CCC------CchhhhhhheeecchhhhHHHHHHHHhhhhhccCceEEEEeehhHHHHHHHHHHhh----
Confidence 11000000 000 0111111111000 0112244555554433 468999999999999988877743
Q ss_pred cccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCC
Q 000107 806 FSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNL 885 (2191)
Q Consensus 806 ~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNL 885 (2191)
+...+..+|+-|++.+|-..+.+|+++.++|||||+++++|+||
T Consensus 277 ------------------------------------le~r~~~lHs~m~Q~eR~~aLsrFrs~~~~iliaTDVAsRGLDI 320 (442)
T KOG0340|consen 277 ------------------------------------LEVRVVSLHSQMPQKERLAALSRFRSNAARILIATDVASRGLDI 320 (442)
T ss_pred ------------------------------------hceeeeehhhcchHHHHHHHHHHHhhcCccEEEEechhhcCCCC
Confidence 11237889999999999999999999999999999999999999
Q ss_pred CCceEEeecCCCCCcccCcccccccccccCCCCCCCceEEEEEeChhhHHHH
Q 000107 886 PARRVIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKI 937 (2191)
Q Consensus 886 Pav~VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~ 937 (2191)
|.+..||++..+. ++.+|+||+||+.|+| ..|.++-|+++.+++.+
T Consensus 321 P~V~LVvN~diPr----~P~~yiHRvGRtARAG--R~G~aiSivt~rDv~l~ 366 (442)
T KOG0340|consen 321 PTVELVVNHDIPR----DPKDYIHRVGRTARAG--RKGMAISIVTQRDVELL 366 (442)
T ss_pred CceeEEEecCCCC----CHHHHHHhhcchhccc--CCcceEEEechhhHHHH
Confidence 9999999988776 8899999999999999 89999999998776643
No 52
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=100.00 E-value=7.5e-37 Score=402.87 Aligned_cols=332 Identities=20% Similarity=0.261 Sum_probs=242.9
Q ss_pred HHHHHHHHH-cCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHH
Q 000107 511 SEICSIYKK-RGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEH 589 (2191)
Q Consensus 511 ~~l~~~l~~-~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~ 589 (2191)
..+...+++ +|+..|+|+|.++|+. ++.|+|+|+++|||+|||++|.+|+|. .++.+|||+|+++|+.++...
T Consensus 446 ~~L~~~lk~~FG~~sFRp~Q~eaI~a--iL~GrDVLVimPTGSGKSLcYQLPAL~----~~GiTLVISPLiSLmqDQV~~ 519 (1195)
T PLN03137 446 KKLEVNNKKVFGNHSFRPNQREIINA--TMSGYDVFVLMPTGGGKSLTYQLPALI----CPGITLVISPLVSLIQDQIMN 519 (1195)
T ss_pred HHHHHHHHHHcCCCCCCHHHHHHHHH--HHcCCCEEEEcCCCccHHHHHHHHHHH----cCCcEEEEeCHHHHHHHHHHH
Confidence 345455544 7999999999999987 899999999999999999999999985 367899999999999977766
Q ss_pred HHHHhhccCCeEEEEeccCCCCC----------CCCCCceEEEchHHHH---HHHHHhhhcCCCCccceEEEcccccccc
Q 000107 590 LEVLLEPLGRHVRSYYGNQGGGS----------LPKDTSVAVCTIEKAN---SLVNRMLEEGRLSEIGIIVIDELHMVAD 656 (2191)
Q Consensus 590 l~~l~~~lg~~V~~~~G~~~~~~----------l~~~~~IiV~TpEkl~---~Ll~~l~~~~~L~~l~lVVIDEaH~l~d 656 (2191)
+.. .|+.+..+.|+..... .....+|+|+|||++. .+++.+........+.+|||||+|++.+
T Consensus 520 L~~----~GI~Aa~L~s~~s~~eq~~ilr~l~s~~g~~~ILyvTPERL~~~d~ll~~L~~L~~~~~LslIVIDEAHcVSq 595 (1195)
T PLN03137 520 LLQ----ANIPAASLSAGMEWAEQLEILQELSSEYSKYKLLYVTPEKVAKSDSLLRHLENLNSRGLLARFVIDEAHCVSQ 595 (1195)
T ss_pred HHh----CCCeEEEEECCCCHHHHHHHHHHHHhcCCCCCEEEEChHHhhcchHHHHHHHhhhhccccceeccCcchhhhh
Confidence 544 4788877777653211 1145799999999985 2344332222345589999999999999
Q ss_pred cc--hhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC--HHHHHHHhhcc---ccccccc
Q 000107 657 QN--RGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN--VAAVADWLQAA---LYETNFR 729 (2191)
Q Consensus 657 ~~--RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N--~~~la~wL~a~---l~~~~~R 729 (2191)
|+ +.+.+.. |..++.. .+.+++++||||++. .+++.+.|+.. ++...+.
T Consensus 596 WGhDFRpdYr~-L~~Lr~~-----------------------fp~vPilALTATAT~~V~eDI~~~L~l~~~~vfr~Sf~ 651 (1195)
T PLN03137 596 WGHDFRPDYQG-LGILKQK-----------------------FPNIPVLALTATATASVKEDVVQALGLVNCVVFRQSFN 651 (1195)
T ss_pred cccchHHHHHH-HHHHHHh-----------------------CCCCCeEEEEecCCHHHHHHHHHHcCCCCcEEeecccC
Confidence 86 3344433 2223221 246789999999874 44566666532 2222222
Q ss_pred cccceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccc
Q 000107 730 PVPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSIN 809 (2191)
Q Consensus 730 pvpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~ 809 (2191)
...+...+. . ... .....+..++... ..+.++||||.|++.|+.++..|...
T Consensus 652 RpNL~y~Vv-~-----k~k--------------k~le~L~~~I~~~-~~~esgIIYC~SRke~E~LAe~L~~~------- 703 (1195)
T PLN03137 652 RPNLWYSVV-P-----KTK--------------KCLEDIDKFIKEN-HFDECGIIYCLSRMDCEKVAERLQEF------- 703 (1195)
T ss_pred ccceEEEEe-c-----cch--------------hHHHHHHHHHHhc-ccCCCceeEeCchhHHHHHHHHHHHC-------
Confidence 111211111 0 000 0011223333221 12468999999999999999887531
Q ss_pred cCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCce
Q 000107 810 VHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARR 889 (2191)
Q Consensus 810 ~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~ 889 (2191)
+..+.+|||||++++|..+++.|+.|.++|||||+++++|||+|+++
T Consensus 704 ---------------------------------Gika~~YHAGLs~eeR~~vqe~F~~Gei~VLVATdAFGMGIDkPDVR 750 (1195)
T PLN03137 704 ---------------------------------GHKAAFYHGSMDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVR 750 (1195)
T ss_pred ---------------------------------CCCeeeeeCCCCHHHHHHHHHHHhcCCCcEEEEechhhcCCCccCCc
Confidence 12388999999999999999999999999999999999999999999
Q ss_pred EEeecCCCCCcccCcccccccccccCCCCCCCceEEEEEeChhhHHHHHhhhcc
Q 000107 890 VIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKIMGLLNE 943 (2191)
Q Consensus 890 VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~~~ll~~ 943 (2191)
+||++..+. +...|+||+|||||.| ..|.|++++...++..+..++..
T Consensus 751 ~VIHydlPk----SiEsYyQriGRAGRDG--~~g~cILlys~~D~~~~~~lI~~ 798 (1195)
T PLN03137 751 FVIHHSLPK----SIEGYHQECGRAGRDG--QRSSCVLYYSYSDYIRVKHMISQ 798 (1195)
T ss_pred EEEEcCCCC----CHHHHHhhhcccCCCC--CCceEEEEecHHHHHHHHHHHhc
Confidence 999988876 8899999999999999 78999999999888877777754
No 53
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=2.9e-37 Score=368.16 Aligned_cols=394 Identities=20% Similarity=0.267 Sum_probs=273.1
Q ss_pred CcHHHHHHHHH-cCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHh--------cCCEEEEEchh
Q 000107 509 LPSEICSIYKK-RGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIS--------TGKMALLVLPY 579 (2191)
Q Consensus 509 Lp~~l~~~l~~-~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~--------~g~kaL~I~P~ 579 (2191)
|.+.+...+.. ++|..|+.+|.+|||. +++|++++|-++||||||++|++|+++.+.. .|.-+|||+||
T Consensus 143 L~~~lv~~L~~~m~i~~pTsVQkq~IP~--lL~grD~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki~Rs~G~~ALVivPT 220 (708)
T KOG0348|consen 143 LHPHLVSHLNTKMKISAPTSVQKQAIPV--LLEGRDALVRAQTGSGKTLAYLLPIVQSLQAMEPKIQRSDGPYALVIVPT 220 (708)
T ss_pred CCHHHHHHHHHHhccCccchHhhcchhh--hhcCcceEEEcCCCCcccHHHHHHHHHHHHhcCccccccCCceEEEEech
Confidence 44566666654 7999999999999987 9999999999999999999999999999874 47789999999
Q ss_pred HHHHHHHHHHHHHHhhccCCeEE-EEeccCCCC----CCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccc
Q 000107 580 VSICAEKAEHLEVLLEPLGRHVR-SYYGNQGGG----SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMV 654 (2191)
Q Consensus 580 raLA~q~~~~l~~l~~~lg~~V~-~~~G~~~~~----~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l 654 (2191)
|+||.|+|+.+++++.++.+-|- .++|+.... .+.++.+|+|+||+++.+.+.+- ....++.+.+||+||+|.|
T Consensus 221 REL~~Q~y~~~qKLl~~~hWIVPg~lmGGEkkKSEKARLRKGiNILIgTPGRLvDHLknT-~~i~~s~LRwlVlDEaDrl 299 (708)
T KOG0348|consen 221 RELALQIYETVQKLLKPFHWIVPGVLMGGEKKKSEKARLRKGINILIGTPGRLVDHLKNT-KSIKFSRLRWLVLDEADRL 299 (708)
T ss_pred HHHHHHHHHHHHHHhcCceEEeeceeecccccccHHHHHhcCceEEEcCchHHHHHHhcc-chheeeeeeEEEecchhHH
Confidence 99999999999999998776653 456765432 36788999999999988887652 4446788999999999999
Q ss_pred cccchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC-HHHHHHHhh-cccccc-c---c
Q 000107 655 ADQNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN-VAAVADWLQ-AALYET-N---F 728 (2191)
Q Consensus 655 ~d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N-~~~la~wL~-a~l~~~-~---~ 728 (2191)
.|.+++..+..||..+-.... ........++..|-+++||||.+ +..+++.-- ..++.. + .
T Consensus 300 leLGfekdit~Il~~v~~~~~-------------~e~~~~~lp~q~q~mLlSATLtd~V~rLa~~sLkDpv~I~ld~s~~ 366 (708)
T KOG0348|consen 300 LELGFEKDITQILKAVHSIQN-------------AECKDPKLPHQLQNMLLSATLTDGVNRLADLSLKDPVYISLDKSHS 366 (708)
T ss_pred HhccchhhHHHHHHHHhhccc-------------hhcccccccHHHHhHhhhhhhHHHHHHHhhccccCceeeeccchhh
Confidence 999999999999988843211 01112224456889999999985 555554321 111110 0 0
Q ss_pred ccccce---EEEE---eccccccchhhHHHHHHHhhcc--CCCChhHHHHHHHHHHh--cCCcEEEEeCchhHHHHHHHH
Q 000107 729 RPVPLE---EYIK---VGNAIYSKKMDVVRTILTAANL--GGKDPDHIVELCDEVVQ--EGHSVLIFCSSRKGCESTARH 798 (2191)
Q Consensus 729 RpvpL~---e~i~---~~~~~~~~~~~~~r~l~~~~~~--~~~d~d~l~~Ll~e~~~--~g~~vLVF~~Sr~~~e~lA~~ 798 (2191)
-..|-. ..+. .++.+ . ....-..+...+.. ..-..-.+..++...++ ...++|||.++.+.++.-...
T Consensus 367 ~~~p~~~a~~ev~~~~~~~~l-~-~~~iPeqL~qry~vVPpKLRLV~Laa~L~~~~k~~~~qk~iVF~S~~d~VeFHy~l 444 (708)
T KOG0348|consen 367 QLNPKDKAVQEVDDGPAGDKL-D-SFAIPEQLLQRYTVVPPKLRLVALAALLLNKVKFEEKQKMIVFFSCSDSVEFHYSL 444 (708)
T ss_pred hcCcchhhhhhcCCccccccc-c-cccCcHHhhhceEecCCchhHHHHHHHHHHHhhhhhhceeEEEEechhHHHHHHHH
Confidence 000000 0000 00000 0 00000011111100 00111123333333332 345899999999999988888
Q ss_pred HHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEeccc
Q 000107 799 VSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATST 878 (2191)
Q Consensus 799 L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATst 878 (2191)
+...+.......... ....|+-+.+ +...+.-+||+|++++|..+++.|+...-.||+||++
T Consensus 445 f~~~l~~~~e~~s~~---------------~~s~g~~~l~---~~~k~~rLHGsm~QeeRts~f~~Fs~~~~~VLLcTDV 506 (708)
T KOG0348|consen 445 FSEALLSHLEGSSGA---------------PDSEGLPPLF---MDLKFYRLHGSMEQEERTSVFQEFSHSRRAVLLCTDV 506 (708)
T ss_pred HHhhhhcccccccCC---------------cccCCChhhh---hcceEEEecCchhHHHHHHHHHhhccccceEEEehhh
Confidence 776654320000000 0011111111 1223778999999999999999999998899999999
Q ss_pred ccccCCCCCceEEeecCCCCCcccCcccccccccccCCCCCCCceEEEEEeChhhHHHHHhhhccCC
Q 000107 879 LAAGVNLPARRVIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKIMGLLNESC 945 (2191)
Q Consensus 879 La~GVNLPav~VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~~~ll~~~l 945 (2191)
++||+|+|.++.||.|+.+. +..+|+||+||+.|.| ..|++++|..|.|.+ |.+++....
T Consensus 507 AaRGLDlP~V~~vVQYd~P~----s~adylHRvGRTARaG--~kG~alLfL~P~Eae-y~~~l~~~~ 566 (708)
T KOG0348|consen 507 AARGLDLPHVGLVVQYDPPF----STADYLHRVGRTARAG--EKGEALLFLLPSEAE-YVNYLKKHH 566 (708)
T ss_pred hhccCCCCCcCeEEEeCCCC----CHHHHHHHhhhhhhcc--CCCceEEEecccHHH-HHHHHHhhc
Confidence 99999999999999887776 8999999999999999 899999999998877 566665443
No 54
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=100.00 E-value=3.5e-37 Score=367.75 Aligned_cols=342 Identities=17% Similarity=0.205 Sum_probs=265.5
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHh------cCCEEEEEchhHHH
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIS------TGKMALLVLPYVSI 582 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~------~g~kaL~I~P~raL 582 (2191)
|++....+++++||+.|+++|...|+. ++.|+++++.|.||+|||++|++|+++.+.. .+..+|||+|||+|
T Consensus 89 LS~~t~kAi~~~GF~~MT~VQ~~ti~p--ll~gkDvl~~AKTGtGKTlAFLiPaie~l~k~~~~~r~~~~vlIi~PTREL 166 (543)
T KOG0342|consen 89 LSPLTLKAIKEMGFETMTPVQQKTIPP--LLEGKDVLAAAKTGTGKTLAFLLPAIELLRKLKFKPRNGTGVLIICPTREL 166 (543)
T ss_pred cCHHHHHHHHhcCccchhHHHHhhcCc--cCCCccceeeeccCCCceeeehhHHHHHHHhcccCCCCCeeEEEecccHHH
Confidence 668889999999999999999999987 9999999999999999999999999998875 35589999999999
Q ss_pred HHHHHHHHHHHhhcc-CCeEEEEeccCCCC----CCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEccccccccc
Q 000107 583 CAEKAEHLEVLLEPL-GRHVRSYYGNQGGG----SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQ 657 (2191)
Q Consensus 583 A~q~~~~l~~l~~~l-g~~V~~~~G~~~~~----~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~ 657 (2191)
|.|++.++++++... ++.|..+.|+.... .+.++++|+|+||+++.+++.+- .......+.++|+||+|++.|.
T Consensus 167 A~Q~~~eak~Ll~~h~~~~v~~viGG~~~~~e~~kl~k~~niliATPGRLlDHlqNt-~~f~~r~~k~lvlDEADrlLd~ 245 (543)
T KOG0342|consen 167 AMQIFAEAKELLKYHESITVGIVIGGNNFSVEADKLVKGCNILIATPGRLLDHLQNT-SGFLFRNLKCLVLDEADRLLDI 245 (543)
T ss_pred HHHHHHHHHHHHhhCCCcceEEEeCCccchHHHHHhhccccEEEeCCchHHhHhhcC-CcchhhccceeEeecchhhhhc
Confidence 999999999998877 88899999987542 34568999999999999988762 2234667899999999999999
Q ss_pred chhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC-HHHHHHHhhccccccccccccceEE
Q 000107 658 NRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN-VAAVADWLQAALYETNFRPVPLEEY 736 (2191)
Q Consensus 658 ~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N-~~~la~wL~a~l~~~~~RpvpL~e~ 736 (2191)
+|...++.|+..+ +...|..++|||++. +++++...-.. +|+ +
T Consensus 246 GF~~di~~Ii~~l--------------------------pk~rqt~LFSAT~~~kV~~l~~~~L~~------d~~----~ 289 (543)
T KOG0342|consen 246 GFEEDVEQIIKIL--------------------------PKQRQTLLFSATQPSKVKDLARGALKR------DPV----F 289 (543)
T ss_pred ccHHHHHHHHHhc--------------------------cccceeeEeeCCCcHHHHHHHHHhhcC------Cce----E
Confidence 9999999998877 457899999999884 66665543211 111 1
Q ss_pred EEeccccccchhhHHHHHHHhhccCC--CChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCC
Q 000107 737 IKVGNAIYSKKMDVVRTILTAANLGG--KDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSD 814 (2191)
Q Consensus 737 i~~~~~~~~~~~~~~r~l~~~~~~~~--~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~ 814 (2191)
+.+...- .......+.+..-... .....+..++.+... ..++||||+|...+..++..|..
T Consensus 290 v~~~d~~---~~~The~l~Qgyvv~~~~~~f~ll~~~LKk~~~-~~KiiVF~sT~~~vk~~~~lL~~------------- 352 (543)
T KOG0342|consen 290 VNVDDGG---ERETHERLEQGYVVAPSDSRFSLLYTFLKKNIK-RYKIIVFFSTCMSVKFHAELLNY------------- 352 (543)
T ss_pred eecCCCC---CcchhhcccceEEeccccchHHHHHHHHHHhcC-CceEEEEechhhHHHHHHHHHhh-------------
Confidence 1111000 0000000111000001 112233444444332 27999999999988877776642
Q ss_pred chhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeec
Q 000107 815 SEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQ 894 (2191)
Q Consensus 815 ~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~ 894 (2191)
+...|.-+||++++..|..+...|+...--|||||+++|||+|+|++..||.+
T Consensus 353 ---------------------------~dlpv~eiHgk~~Q~kRT~~~~~F~kaesgIL~cTDVaARGlD~P~V~~VvQ~ 405 (543)
T KOG0342|consen 353 ---------------------------IDLPVLEIHGKQKQNKRTSTFFEFCKAESGILVCTDVAARGLDIPDVDWVVQY 405 (543)
T ss_pred ---------------------------cCCchhhhhcCCcccccchHHHHHhhcccceEEecchhhccCCCCCceEEEEe
Confidence 11125668999999999999999999999999999999999999999999988
Q ss_pred CCCCCcccCcccccccccccCCCCCCCceEEEEEeChhhHHHHHh
Q 000107 895 PRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKIMG 939 (2191)
Q Consensus 895 p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~~~ 939 (2191)
+.+. +..+|+||+||+||.| ..|+++++..+.|...+..
T Consensus 406 ~~P~----d~~~YIHRvGRTaR~g--k~G~alL~l~p~El~Flr~ 444 (543)
T KOG0342|consen 406 DPPS----DPEQYIHRVGRTAREG--KEGKALLLLAPWELGFLRY 444 (543)
T ss_pred CCCC----CHHHHHHHhccccccC--CCceEEEEeChhHHHHHHH
Confidence 8776 8899999999999998 8999999999988665443
No 55
>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=100.00 E-value=2.5e-36 Score=389.54 Aligned_cols=321 Identities=23% Similarity=0.345 Sum_probs=237.9
Q ss_pred HcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccC
Q 000107 519 KRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLG 598 (2191)
Q Consensus 519 ~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg 598 (2191)
.+||+.|+|+|.++|+. ++.|+++++++|||+|||++|.+|++. .++.+|||+|+++|+.|++..+.. +|
T Consensus 6 ~~g~~~~r~~Q~~ai~~--~l~g~dvlv~apTGsGKTl~y~lp~l~----~~~~~lVi~P~~~L~~dq~~~l~~----~g 75 (470)
T TIGR00614 6 VFGLSSFRPVQLEVINA--VLLGRDCFVVMPTGGGKSLCYQLPALC----SDGITLVISPLISLMEDQVLQLKA----SG 75 (470)
T ss_pred hcCCCCCCHHHHHHHHH--HHcCCCEEEEcCCCCcHhHHHHHHHHH----cCCcEEEEecHHHHHHHHHHHHHH----cC
Confidence 37999999999999987 899999999999999999999999875 467899999999999999888764 47
Q ss_pred CeEEEEeccCCCC--------CCCCCCceEEEchHHHHH---HHHHhhhcCCCCccceEEEcccccccccchh--HHHHH
Q 000107 599 RHVRSYYGNQGGG--------SLPKDTSVAVCTIEKANS---LVNRMLEEGRLSEIGIIVIDELHMVADQNRG--YLLEL 665 (2191)
Q Consensus 599 ~~V~~~~G~~~~~--------~l~~~~~IiV~TpEkl~~---Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG--~~lE~ 665 (2191)
+.+..+.|+.... ......+|+++|||++.. ++..+ . ...++++|||||+|++++++.. ..+..
T Consensus 76 i~~~~l~~~~~~~~~~~i~~~~~~~~~~il~~TPe~l~~~~~~~~~l-~--~~~~i~~iViDEaH~i~~~g~~fr~~~~~ 152 (470)
T TIGR00614 76 IPATFLNSSQSKEQQKNVLTDLKDGKIKLLYVTPEKCSASNRLLQTL-E--ERKGITLIAVDEAHCISQWGHDFRPDYKA 152 (470)
T ss_pred CcEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECHHHHcCchhHHHHH-H--hcCCcCEEEEeCCcccCccccccHHHHHH
Confidence 7777666654321 022357899999999753 22221 1 5678999999999999987532 23322
Q ss_pred HHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC--HHHHHHHhhcc---ccccccccccceEEEEec
Q 000107 666 LLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN--VAAVADWLQAA---LYETNFRPVPLEEYIKVG 740 (2191)
Q Consensus 666 lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N--~~~la~wL~a~---l~~~~~RpvpL~e~i~~~ 740 (2191)
+ ..++.. .+++|+++||||+++ ..++.++++.. ++...+....+...+.
T Consensus 153 l-~~l~~~-----------------------~~~~~~l~lTAT~~~~~~~di~~~l~l~~~~~~~~s~~r~nl~~~v~-- 206 (470)
T TIGR00614 153 L-GSLKQK-----------------------FPNVPIMALTATASPSVREDILRQLNLKNPQIFCTSFDRPNLYYEVR-- 206 (470)
T ss_pred H-HHHHHH-----------------------cCCCceEEEecCCCHHHHHHHHHHcCCCCCcEEeCCCCCCCcEEEEE--
Confidence 2 223221 256789999999875 35677776532 2222221111111110
Q ss_pred cccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhh
Q 000107 741 NAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDI 820 (2191)
Q Consensus 741 ~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~ 820 (2191)
.. . ....+.+..++.. ...+.++||||+|++.|+.++..|.+.
T Consensus 207 ~~----~--------------~~~~~~l~~~l~~-~~~~~~~IIF~~s~~~~e~la~~L~~~------------------ 249 (470)
T TIGR00614 207 RK----T--------------PKILEDLLRFIRK-EFKGKSGIIYCPSRKKSEQVTASLQNL------------------ 249 (470)
T ss_pred eC----C--------------ccHHHHHHHHHHH-hcCCCceEEEECcHHHHHHHHHHHHhc------------------
Confidence 00 0 0011122333322 124567799999999999999887531
Q ss_pred HHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecCCCCCc
Q 000107 821 TSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRIGRD 900 (2191)
Q Consensus 821 ~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~~g~~ 900 (2191)
...++.+||+|++++|..+++.|++|.++|||||+++++|||+|++++||++..+.
T Consensus 250 ----------------------g~~~~~~H~~l~~~eR~~i~~~F~~g~~~vLVaT~~~~~GID~p~V~~VI~~~~P~-- 305 (470)
T TIGR00614 250 ----------------------GIAAGAYHAGLEISARDDVHHKFQRDEIQVVVATVAFGMGINKPDVRFVIHYSLPK-- 305 (470)
T ss_pred ----------------------CCCeeEeeCCCCHHHHHHHHHHHHcCCCcEEEEechhhccCCcccceEEEEeCCCC--
Confidence 12378899999999999999999999999999999999999999999999987765
Q ss_pred ccCcccccccccccCCCCCCCceEEEEEeChhhHHHHHhhhcc
Q 000107 901 FIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKIMGLLNE 943 (2191)
Q Consensus 901 ~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~~~ll~~ 943 (2191)
+...|+||+|||||.| ..|.|++++.+.+...+..++..
T Consensus 306 --s~~~y~Qr~GRaGR~G--~~~~~~~~~~~~d~~~~~~~~~~ 344 (470)
T TIGR00614 306 --SMESYYQESGRAGRDG--LPSECHLFYAPADINRLRRLLME 344 (470)
T ss_pred --CHHHHHhhhcCcCCCC--CCceEEEEechhHHHHHHHHHhc
Confidence 8899999999999999 78999999999988877777654
No 56
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=100.00 E-value=2.7e-36 Score=360.55 Aligned_cols=340 Identities=19% Similarity=0.221 Sum_probs=268.7
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHh------cCCEEEEEchhHHH
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIS------TGKMALLVLPYVSI 582 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~------~g~kaL~I~P~raL 582 (2191)
|+....+.|++.+|..++.+|.++|+. .++|+++|.+|.||||||++|++|+|+.+.+ .|--+|||.|||+|
T Consensus 76 ls~~t~kgLke~~fv~~teiQ~~~Ip~--aL~G~DvlGAAkTGSGKTLAFlvPvlE~L~r~kWs~~DGlGalIISPTREL 153 (758)
T KOG0343|consen 76 LSQKTLKGLKEAKFVKMTEIQRDTIPM--ALQGHDVLGAAKTGSGKTLAFLVPVLEALYRLKWSPTDGLGALIISPTREL 153 (758)
T ss_pred CchHHHHhHhhcCCccHHHHHHhhcch--hccCcccccccccCCCceeeehHHHHHHHHHcCCCCCCCceeEEecchHHH
Confidence 457888999999999999999999987 8999999999999999999999999999886 46689999999999
Q ss_pred HHHHHHHHHHHhhccCCeEEEEeccCCCCC---CCCCCceEEEchHHHHHHHHHhhhcC--CCCccceEEEccccccccc
Q 000107 583 CAEKAEHLEVLLEPLGRHVRSYYGNQGGGS---LPKDTSVAVCTIEKANSLVNRMLEEG--RLSEIGIIVIDELHMVADQ 657 (2191)
Q Consensus 583 A~q~~~~l~~l~~~lg~~V~~~~G~~~~~~---l~~~~~IiV~TpEkl~~Ll~~l~~~~--~L~~l~lVVIDEaH~l~d~ 657 (2191)
|.|+++.+.++....++..+.+.|+..... --...+|+||||++++.++.. .. .-.++.++|+||++.+.|.
T Consensus 154 A~QtFevL~kvgk~h~fSaGLiiGG~~~k~E~eRi~~mNILVCTPGRLLQHmde---~~~f~t~~lQmLvLDEADR~LDM 230 (758)
T KOG0343|consen 154 ALQTFEVLNKVGKHHDFSAGLIIGGKDVKFELERISQMNILVCTPGRLLQHMDE---NPNFSTSNLQMLVLDEADRMLDM 230 (758)
T ss_pred HHHHHHHHHHHhhccccccceeecCchhHHHHHhhhcCCeEEechHHHHHHhhh---cCCCCCCcceEEEeccHHHHHHH
Confidence 999999999998888889988889874311 124578999999997666653 44 3467999999999999999
Q ss_pred chhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCC-CHHHHHHHh-hcccccc------ccc
Q 000107 658 NRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMP-NVAAVADWL-QAALYET------NFR 729 (2191)
Q Consensus 658 ~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~-N~~~la~wL-~a~l~~~------~~R 729 (2191)
+|..+++.|+..| ++..|.+++|||-. ++.++++.- ....|.. .-.
T Consensus 231 GFk~tL~~Ii~~l--------------------------P~~RQTLLFSATqt~svkdLaRLsL~dP~~vsvhe~a~~at 284 (758)
T KOG0343|consen 231 GFKKTLNAIIENL--------------------------PKKRQTLLFSATQTKSVKDLARLSLKDPVYVSVHENAVAAT 284 (758)
T ss_pred hHHHHHHHHHHhC--------------------------ChhheeeeeecccchhHHHHHHhhcCCCcEEEEeccccccC
Confidence 9999999999887 56789999999976 377777652 1111100 011
Q ss_pred cccceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccc
Q 000107 730 PVPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSIN 809 (2191)
Q Consensus 730 pvpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~ 809 (2191)
|..|++++.+ .. .....+.+...+...+ ..+.|||++|.+++..++..+++.-+.
T Consensus 285 P~~L~Q~y~~------------------v~-l~~Ki~~L~sFI~shl--k~K~iVF~SscKqvkf~~e~F~rlrpg---- 339 (758)
T KOG0343|consen 285 PSNLQQSYVI------------------VP-LEDKIDMLWSFIKSHL--KKKSIVFLSSCKQVKFLYEAFCRLRPG---- 339 (758)
T ss_pred hhhhhheEEE------------------Ee-hhhHHHHHHHHHHhcc--ccceEEEEehhhHHHHHHHHHHhcCCC----
Confidence 1112211110 00 0112233344443332 468999999999998888777653211
Q ss_pred cCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCce
Q 000107 810 VHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARR 889 (2191)
Q Consensus 810 ~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~ 889 (2191)
..+..+||+|++..|..|...|-...--||+||++++||+|+|++.
T Consensus 340 ----------------------------------~~l~~L~G~~~Q~~R~ev~~~F~~~~~~vLF~TDv~aRGLDFpaVd 385 (758)
T KOG0343|consen 340 ----------------------------------IPLLALHGTMSQKKRIEVYKKFVRKRAVVLFCTDVAARGLDFPAVD 385 (758)
T ss_pred ----------------------------------CceeeeccchhHHHHHHHHHHHHHhcceEEEeehhhhccCCCcccc
Confidence 1266789999999999999999998899999999999999999999
Q ss_pred EEeecCCCCCcccCcccccccccccCCCCCCCceEEEEEeChhhHHHHHhhhccC
Q 000107 890 VIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKIMGLLNES 944 (2191)
Q Consensus 890 VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~~~ll~~~ 944 (2191)
+||..+.|. ++.+|+||+||+.|.+ +.|+|+++..+.+.+.+...|+..
T Consensus 386 wViQ~DCPe----dv~tYIHRvGRtAR~~--~~G~sll~L~psEeE~~l~~Lq~k 434 (758)
T KOG0343|consen 386 WVIQVDCPE----DVDTYIHRVGRTARYK--ERGESLLMLTPSEEEAMLKKLQKK 434 (758)
T ss_pred eEEEecCch----hHHHHHHHhhhhhccc--CCCceEEEEcchhHHHHHHHHHHc
Confidence 999877765 8999999999999988 899999999999877777666655
No 57
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1.9e-36 Score=369.35 Aligned_cols=339 Identities=21% Similarity=0.278 Sum_probs=261.2
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhc------------CCEEEEE
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIST------------GKMALLV 576 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~------------g~kaL~I 576 (2191)
++..+....+..|+..|+|+|+-+|+. +..|++++.||+||||||.+|++|++..++.. .+.+|++
T Consensus 81 l~~~l~~ni~~~~~~~ptpvQk~sip~--i~~Grdl~acAqTGsGKT~aFLiPii~~~~~~~~~~~~~~~~~~~P~~lIl 158 (482)
T KOG0335|consen 81 LGEALAGNIKRSGYTKPTPVQKYSIPI--ISGGRDLMACAQTGSGKTAAFLIPIISYLLDEGPEDRGESGGGVYPRALIL 158 (482)
T ss_pred hhHHHhhccccccccCCCcceeeccce--eecCCceEEEccCCCcchHHHHHHHHHHHHhcCcccCcccCCCCCCceEEE
Confidence 778888888899999999999999987 99999999999999999999999999998863 3689999
Q ss_pred chhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCC----CCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccc
Q 000107 577 LPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGG----SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELH 652 (2191)
Q Consensus 577 ~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~----~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH 652 (2191)
+|||+||.|++.+.+++....+.++...||+...+ ...++++|+||||+++.+++.+ ....|++++++|+||++
T Consensus 159 apTReL~~Qi~nea~k~~~~s~~~~~~~ygg~~~~~q~~~~~~gcdIlvaTpGrL~d~~e~--g~i~l~~~k~~vLDEAD 236 (482)
T KOG0335|consen 159 APTRELVDQIYNEARKFSYLSGMKSVVVYGGTDLGAQLRFIKRGCDILVATPGRLKDLIER--GKISLDNCKFLVLDEAD 236 (482)
T ss_pred eCcHHHhhHHHHHHHhhcccccceeeeeeCCcchhhhhhhhccCccEEEecCchhhhhhhc--ceeehhhCcEEEecchH
Confidence 99999999999999999888889999999986432 2456799999999999999987 67789999999999999
Q ss_pred cccc-cchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC-HHHHHHHhhcccccccccc
Q 000107 653 MVAD-QNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN-VAAVADWLQAALYETNFRP 730 (2191)
Q Consensus 653 ~l~d-~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N-~~~la~wL~a~l~~~~~Rp 730 (2191)
.|.| .+|++.++.|+..+... .....|.++||||.|. +..++..+-... +.-
T Consensus 237 rMlD~mgF~p~Ir~iv~~~~~~----------------------~~~~~qt~mFSAtfp~~iq~l~~~fl~~~----yi~ 290 (482)
T KOG0335|consen 237 RMLDEMGFEPQIRKIVEQLGMP----------------------PKNNRQTLLFSATFPKEIQRLAADFLKDN----YIF 290 (482)
T ss_pred HhhhhccccccHHHHhcccCCC----------------------CccceeEEEEeccCChhhhhhHHHHhhcc----ceE
Confidence 9999 89999999988776221 2356899999999873 333332221110 000
Q ss_pred ccceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhc--C-----CcEEEEeCchhHHHHHHHHHHHHH
Q 000107 731 VPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQE--G-----HSVLIFCSSRKGCESTARHVSKFL 803 (2191)
Q Consensus 731 vpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~--g-----~~vLVF~~Sr~~~e~lA~~L~~~l 803 (2191)
+. .. .++...-+ ..+.+... ......+.+++++...... . ..++|||.|++.|..++..|....
T Consensus 291 la--V~-rvg~~~~n----i~q~i~~V--~~~~kr~~Lldll~~~~~~~~~~~~~~e~tlvFvEt~~~~d~l~~~l~~~~ 361 (482)
T KOG0335|consen 291 LA--VG-RVGSTSEN----ITQKILFV--NEMEKRSKLLDLLNKDDGPPSDGEPKWEKTLVFVETKRGADELAAFLSSNG 361 (482)
T ss_pred EE--Ee-eecccccc----ceeEeeee--cchhhHHHHHHHhhcccCCcccCCcccceEEEEeeccchhhHHHHHHhcCC
Confidence 00 00 00100000 00000000 0011223344444332211 1 379999999999998888875421
Q ss_pred hhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccC
Q 000107 804 KKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGV 883 (2191)
Q Consensus 804 ~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GV 883 (2191)
+....+|+..++.+|...++.|++|.+.|||||++++||+
T Consensus 362 ----------------------------------------~~~~sIhg~~tq~er~~al~~Fr~g~~pvlVaT~VaaRGl 401 (482)
T KOG0335|consen 362 ----------------------------------------YPAKSIHGDRTQIEREQALNDFRNGKAPVLVATNVAARGL 401 (482)
T ss_pred ----------------------------------------CCceeecchhhhhHHHHHHHHhhcCCcceEEEehhhhcCC
Confidence 1245589999999999999999999999999999999999
Q ss_pred CCCCceEEeecCCCCCcccCcccccccccccCCCCCCCceEEEEEeChh
Q 000107 884 NLPARRVIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPE 932 (2191)
Q Consensus 884 NLPav~VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~ 932 (2191)
|+|+|++||+++.+. +..+|+||+||+||.| ..|.++.|++..
T Consensus 402 Di~~V~hVInyDmP~----d~d~YvHRIGRTGR~G--n~G~atsf~n~~ 444 (482)
T KOG0335|consen 402 DIPNVKHVINYDMPA----DIDDYVHRIGRTGRVG--NGGRATSFFNEK 444 (482)
T ss_pred CCCCCceeEEeecCc----chhhHHHhccccccCC--CCceeEEEeccc
Confidence 999999999999987 6889999999999999 899999999853
No 58
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=100.00 E-value=5.2e-35 Score=394.86 Aligned_cols=401 Identities=19% Similarity=0.244 Sum_probs=273.4
Q ss_pred cccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhh-ccCCeEEEEeccCCCCCCCCC
Q 000107 538 VLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLE-PLGRHVRSYYGNQGGGSLPKD 616 (2191)
Q Consensus 538 il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~-~lg~~V~~~~G~~~~~~l~~~ 616 (2191)
+..++.+||+|+||||||+.....++..-....+++++..|.|-.|.+.+.++...+. .+|..|+. +.........+
T Consensus 86 i~~~~VviI~GeTGSGKTTqlPq~lle~g~g~~g~I~~TQPRRlAArsLA~RVA~El~~~lG~~VGY--~vrf~~~~s~~ 163 (1294)
T PRK11131 86 IRDHQVVIVAGETGSGKTTQLPKICLELGRGVKGLIGHTQPRRLAARTVANRIAEELETELGGCVGY--KVRFNDQVSDN 163 (1294)
T ss_pred HHhCCeEEEECCCCCCHHHHHHHHHHHcCCCCCCceeeCCCcHHHHHHHHHHHHHHHhhhhcceece--eecCccccCCC
Confidence 6778899999999999999755444432111124677788977666666555544333 24444431 22222334567
Q ss_pred CceEEEchHHHHHHHHHhhhcCCCCccceEEEccccc-ccccchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCC
Q 000107 617 TSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHM-VADQNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKAD 695 (2191)
Q Consensus 617 ~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~-l~d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~ 695 (2191)
++|+||||+++...+. ....++++++|||||+|+ ..+ ++.++..++.+...
T Consensus 164 t~I~v~TpG~LL~~l~---~d~~Ls~~~~IIIDEAHERsLn------~DfLLg~Lk~lL~~------------------- 215 (1294)
T PRK11131 164 TMVKLMTDGILLAEIQ---QDRLLMQYDTIIIDEAHERSLN------IDFILGYLKELLPR------------------- 215 (1294)
T ss_pred CCEEEEChHHHHHHHh---cCCccccCcEEEecCccccccc------cchHHHHHHHhhhc-------------------
Confidence 8999999999776664 456799999999999996 333 33344444433211
Q ss_pred CCCCceEEEEeccCCCHHHHHHHhh-ccccccccccccceEEEEeccccccchhhHHHHHHHhhccCCCChh---HHHHH
Q 000107 696 PAHGLQIVGMSATMPNVAAVADWLQ-AALYETNFRPVPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPD---HIVEL 771 (2191)
Q Consensus 696 ~~~~iqII~mSATL~N~~~la~wL~-a~l~~~~~RpvpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d---~l~~L 771 (2191)
.++.|+|+||||+ +.+.++++++ +.++....|..|++.++..... ... ..+.+ .+...
T Consensus 216 -rpdlKvILmSATi-d~e~fs~~F~~apvI~V~Gr~~pVei~y~p~~~--~~~--------------~~~~d~l~~ll~~ 277 (1294)
T PRK11131 216 -RPDLKVIITSATI-DPERFSRHFNNAPIIEVSGRTYPVEVRYRPIVE--EAD--------------DTERDQLQAIFDA 277 (1294)
T ss_pred -CCCceEEEeeCCC-CHHHHHHHcCCCCEEEEcCccccceEEEeeccc--ccc--------------hhhHHHHHHHHHH
Confidence 2568999999999 5677887775 3344444555555544332110 000 00111 22222
Q ss_pred HHHHH-hcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEc
Q 000107 772 CDEVV-QEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHH 850 (2191)
Q Consensus 772 l~e~~-~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hH 850 (2191)
+.++. ...+.+||||+++.+++.++..|.+.. .. ...|..+|
T Consensus 278 V~~l~~~~~GdILVFLpg~~EIe~lae~L~~~~----~~---------------------------------~~~VlpLh 320 (1294)
T PRK11131 278 VDELGREGPGDILIFMSGEREIRDTADALNKLN----LR---------------------------------HTEILPLY 320 (1294)
T ss_pred HHHHhcCCCCCEEEEcCCHHHHHHHHHHHHhcC----CC---------------------------------cceEeecc
Confidence 22222 235789999999999999998885421 00 01277899
Q ss_pred CCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecCC--------------CCCcccCcccccccccccCC
Q 000107 851 AGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPR--------------IGRDFIDGTRYRQMAGRAGR 916 (2191)
Q Consensus 851 agLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~--------------~g~~~is~~~y~QmiGRAGR 916 (2191)
|+|++++|..+++. .|..+|||||+++++|||||++++|||++. ....++|..+|.||+|||||
T Consensus 321 g~Ls~~eQ~~Vf~~--~g~rkIIVATNIAEtSITIpgI~yVID~Gl~k~~~Yd~~~~~~~Lp~~~iSkasa~QRaGRAGR 398 (1294)
T PRK11131 321 ARLSNSEQNRVFQS--HSGRRIVLATNVAETSLTVPGIKYVIDPGTARISRYSYRTKVQRLPIEPISQASANQRKGRCGR 398 (1294)
T ss_pred cCCCHHHHHHHhcc--cCCeeEEEeccHHhhccccCcceEEEECCCccccccccccCcccCCeeecCHhhHhhhccccCC
Confidence 99999999999986 578999999999999999999999999752 12346788899999999999
Q ss_pred CCCCCceEEEEEeChhhHHHHHhhhccCCCCcccccccccchhhHHHHHHHhcccccCHHHHHHHHHhhhcCCCCcchhH
Q 000107 917 TGIDTKGESMLICKPEEVKKIMGLLNESCPPLHSCLSEDKNGMTHAILEVVAGGIVQTAEDIHRYVRCTLLNSTKPFQDV 996 (2191)
Q Consensus 917 ~G~d~~Ge~ill~~~~e~~~~~~ll~~~l~~l~S~L~~~~~~l~~~iLeiia~gi~~t~~di~~~l~~tll~~~~~~~~~ 996 (2191)
.+ .|.||.+++++++..+.++ ..|.|..+ .+...+|.+.+.|+ .++..| .|+.++.
T Consensus 399 ~~---~G~c~rLyte~d~~~~~~~---~~PEIlR~------~L~~viL~lk~lgl----~di~~F---~fldpP~----- 454 (1294)
T PRK11131 399 VS---EGICIRLYSEDDFLSRPEF---TDPEILRT------NLASVILQMTALGL----GDIAAF---PFVEAPD----- 454 (1294)
T ss_pred CC---CcEEEEeCCHHHHHhhhcc---cCCccccC------CHHHHHHHHHHcCC----CCccee---eCCCCCC-----
Confidence 97 8999999999876554332 33444322 46677888887773 334333 4555543
Q ss_pred HHHHHHHHHHHHHcccceeccCCCccCCCHHHHHHHhcCCChhhHHHHHHHHh
Q 000107 997 VKSAQDSLRWLCHRKFLEWNEDTKLYSTTPLGRAAFGSSLCPEESLIVLDDLS 1049 (2191)
Q Consensus 997 ~~~~~~al~~L~~~~~i~~~~~~~~~~~T~LG~a~~~s~L~p~~a~~l~~~L~ 1049 (2191)
.++++++++.|...|+|..+.++....+|++|+.++..|++|..|++++....
T Consensus 455 ~~~i~~al~~L~~LgAld~~~~~~~~~LT~lG~~la~LPldPrlakmLl~a~~ 507 (1294)
T PRK11131 455 KRNIQDGVRLLEELGAITTDEQASAYKLTPLGRQLAQLPVDPRLARMVLEAQK 507 (1294)
T ss_pred HHHHHHHHHHHHHCCCCCccccCCCccCcHHHHHHHhCCCChHHHHHHHHhhh
Confidence 36788999999999999743322235799999999999999999999998764
No 59
>TIGR01389 recQ ATP-dependent DNA helicase RecQ. The ATP-dependent DNA helicase RecQ of E. coli is about 600 residues long. This model represents bacterial proteins with a high degree of similarity in domain architecture and in primary sequence to E. coli RecQ. The model excludes eukaryotic and archaeal proteins with RecQ-like regions, as well as more distantly related bacterial helicases related to RecQ.
Probab=100.00 E-value=8.1e-35 Score=385.67 Aligned_cols=326 Identities=21% Similarity=0.281 Sum_probs=240.9
Q ss_pred HHHH-cCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHh
Q 000107 516 IYKK-RGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLL 594 (2191)
Q Consensus 516 ~l~~-~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~ 594 (2191)
.+++ +||++|+|+|.++|+. ++.|+|+++++|||+|||++|.+|++. .++.++||+|+++|+.+++..++.+
T Consensus 4 ~l~~~fg~~~fr~~Q~~~i~~--il~g~dvlv~~PTG~GKTl~y~lpal~----~~g~~lVisPl~sL~~dq~~~l~~~- 76 (591)
T TIGR01389 4 VLKRTFGYDDFRPGQEEIISH--VLDGRDVLVVMPTGGGKSLCYQVPALL----LKGLTVVISPLISLMKDQVDQLRAA- 76 (591)
T ss_pred HHHHhcCCCCCCHHHHHHHHH--HHcCCCEEEEcCCCccHhHHHHHHHHH----cCCcEEEEcCCHHHHHHHHHHHHHc-
Confidence 3444 8999999999999987 999999999999999999999999874 3667899999999999999887763
Q ss_pred hccCCeEEEEeccCCCCC--------CCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccc--hhHHHH
Q 000107 595 EPLGRHVRSYYGNQGGGS--------LPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQN--RGYLLE 664 (2191)
Q Consensus 595 ~~lg~~V~~~~G~~~~~~--------l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~--RG~~lE 664 (2191)
|+.+..+.++..... .....+|+++|||++.... +.......++++|||||+|++.+++ +.+.+.
T Consensus 77 ---gi~~~~~~s~~~~~~~~~~~~~l~~~~~~il~~tpe~l~~~~--~~~~l~~~~l~~iViDEaH~i~~~g~~frp~y~ 151 (591)
T TIGR01389 77 ---GVAAAYLNSTLSAKEQQDIEKALVNGELKLLYVAPERLEQDY--FLNMLQRIPIALVAVDEAHCVSQWGHDFRPEYQ 151 (591)
T ss_pred ---CCcEEEEeCCCCHHHHHHHHHHHhCCCCCEEEEChhHhcChH--HHHHHhcCCCCEEEEeCCcccccccCccHHHHH
Confidence 777777776653211 2345799999999975321 1122345689999999999999764 233333
Q ss_pred HHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC--HHHHHHHhhcc---ccccccccccceEEEEe
Q 000107 665 LLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN--VAAVADWLQAA---LYETNFRPVPLEEYIKV 739 (2191)
Q Consensus 665 ~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N--~~~la~wL~a~---l~~~~~RpvpL~e~i~~ 739 (2191)
.+...... -+..++|++|||.+. ..++..|++.. .+...+....+...+..
T Consensus 152 ~l~~l~~~------------------------~~~~~vi~lTAT~~~~~~~~i~~~l~~~~~~~~~~~~~r~nl~~~v~~ 207 (591)
T TIGR01389 152 RLGSLAER------------------------FPQVPRIALTATADAETRQDIRELLRLADANEFITSFDRPNLRFSVVK 207 (591)
T ss_pred HHHHHHHh------------------------CCCCCEEEEEeCCCHHHHHHHHHHcCCCCCCeEecCCCCCCcEEEEEe
Confidence 32222111 134569999999874 45678887632 22222211111111110
Q ss_pred ccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhh
Q 000107 740 GNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFID 819 (2191)
Q Consensus 740 ~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~ 819 (2191)
. ....+.+..++... .+.++||||+|++.|+.++..|...
T Consensus 208 ~---------------------~~~~~~l~~~l~~~--~~~~~IIf~~sr~~~e~la~~L~~~----------------- 247 (591)
T TIGR01389 208 K---------------------NNKQKFLLDYLKKH--RGQSGIIYASSRKKVEELAERLESQ----------------- 247 (591)
T ss_pred C---------------------CCHHHHHHHHHHhc--CCCCEEEEECcHHHHHHHHHHHHhC-----------------
Confidence 0 01112233333321 2578999999999999998877431
Q ss_pred hHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecCCCCC
Q 000107 820 ITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRIGR 899 (2191)
Q Consensus 820 ~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~~g~ 899 (2191)
...+.++||+|+.++|..+++.|++|.++|||||+++++|||+|++++||++..+.
T Consensus 248 -----------------------g~~~~~~H~~l~~~~R~~i~~~F~~g~~~vlVaT~a~~~GID~p~v~~VI~~~~p~- 303 (591)
T TIGR01389 248 -----------------------GISALAYHAGLSNKVRAENQEDFLYDDVKVMVATNAFGMGIDKPNVRFVIHYDMPG- 303 (591)
T ss_pred -----------------------CCCEEEEECCCCHHHHHHHHHHHHcCCCcEEEEechhhccCcCCCCCEEEEcCCCC-
Confidence 12378899999999999999999999999999999999999999999999987765
Q ss_pred cccCcccccccccccCCCCCCCceEEEEEeChhhHHHHHhhhccCCC
Q 000107 900 DFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKIMGLLNESCP 946 (2191)
Q Consensus 900 ~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~~~ll~~~l~ 946 (2191)
+...|.||+|||||.| ..|.|++++++.+...+..++....+
T Consensus 304 ---s~~~y~Q~~GRaGR~G--~~~~~il~~~~~d~~~~~~~i~~~~~ 345 (591)
T TIGR01389 304 ---NLESYYQEAGRAGRDG--LPAEAILLYSPADIALLKRRIEQSEA 345 (591)
T ss_pred ---CHHHHhhhhccccCCC--CCceEEEecCHHHHHHHHHHHhccCC
Confidence 8899999999999999 78999999999998888877766543
No 60
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=100.00 E-value=1.5e-34 Score=382.04 Aligned_cols=327 Identities=23% Similarity=0.312 Sum_probs=238.4
Q ss_pred HHHHHHH-cCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHH
Q 000107 513 ICSIYKK-RGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLE 591 (2191)
Q Consensus 513 l~~~l~~-~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~ 591 (2191)
..+.+++ +||..|+|+|.++++. ++.|+|+++++|||+|||++|.+|++. .++.+|||+|+++|+.|+...+.
T Consensus 13 ~~~~l~~~fG~~~~r~~Q~~ai~~--il~g~dvlv~apTGsGKTl~y~lpal~----~~g~tlVisPl~sL~~dqv~~l~ 86 (607)
T PRK11057 13 AKQVLQETFGYQQFRPGQQEIIDA--VLSGRDCLVVMPTGGGKSLCYQIPALV----LDGLTLVVSPLISLMKDQVDQLL 86 (607)
T ss_pred HHHHHHHHcCCCCCCHHHHHHHHH--HHcCCCEEEEcCCCchHHHHHHHHHHH----cCCCEEEEecHHHHHHHHHHHHH
Confidence 3444544 7999999999999987 899999999999999999999999875 35679999999999999998876
Q ss_pred HHhhccCCeEEEEeccCCCCC--------CCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccch--hH
Q 000107 592 VLLEPLGRHVRSYYGNQGGGS--------LPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNR--GY 661 (2191)
Q Consensus 592 ~l~~~lg~~V~~~~G~~~~~~--------l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~R--G~ 661 (2191)
.+ |+.+..+.+...... .....+|+++|||++... .+.......++++|||||+|++.+++. .+
T Consensus 87 ~~----gi~~~~~~s~~~~~~~~~~~~~~~~g~~~il~~tPe~l~~~--~~~~~l~~~~l~~iVIDEaH~i~~~G~~fr~ 160 (607)
T PRK11057 87 AN----GVAAACLNSTQTREQQLEVMAGCRTGQIKLLYIAPERLMMD--NFLEHLAHWNPALLAVDEAHCISQWGHDFRP 160 (607)
T ss_pred Hc----CCcEEEEcCCCCHHHHHHHHHHHhCCCCcEEEEChHHhcCh--HHHHHHhhCCCCEEEEeCccccccccCcccH
Confidence 53 666665555432211 123578999999997521 111222345789999999999998753 23
Q ss_pred HHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCH--HHHHHHhhcc---cccccc-ccccceE
Q 000107 662 LLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNV--AAVADWLQAA---LYETNF-RPVPLEE 735 (2191)
Q Consensus 662 ~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~--~~la~wL~a~---l~~~~~-RpvpL~e 735 (2191)
.+.. +..++.. .+++++++||||+++. .++..+++.. .+...+ ||. +..
T Consensus 161 ~y~~-L~~l~~~-----------------------~p~~~~v~lTAT~~~~~~~di~~~l~l~~~~~~~~~~~r~n-l~~ 215 (607)
T PRK11057 161 EYAA-LGQLRQR-----------------------FPTLPFMALTATADDTTRQDIVRLLGLNDPLIQISSFDRPN-IRY 215 (607)
T ss_pred HHHH-HHHHHHh-----------------------CCCCcEEEEecCCChhHHHHHHHHhCCCCeEEEECCCCCCc-cee
Confidence 3322 3333322 2468899999998753 3455555421 111111 110 000
Q ss_pred EEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCc
Q 000107 736 YIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDS 815 (2191)
Q Consensus 736 ~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~ 815 (2191)
.+. . .......+..++.. ..++++||||+|++.|+.++..|.+.
T Consensus 216 ~v~------~---------------~~~~~~~l~~~l~~--~~~~~~IIFc~tr~~~e~la~~L~~~------------- 259 (607)
T PRK11057 216 TLV------E---------------KFKPLDQLMRYVQE--QRGKSGIIYCNSRAKVEDTAARLQSR------------- 259 (607)
T ss_pred eee------e---------------ccchHHHHHHHHHh--cCCCCEEEEECcHHHHHHHHHHHHhC-------------
Confidence 000 0 00111223333322 24679999999999999999887541
Q ss_pred hhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecC
Q 000107 816 EFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQP 895 (2191)
Q Consensus 816 ~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p 895 (2191)
...+.++||+|+.++|..+++.|+.|.++|||||+++++|||+|++++||+++
T Consensus 260 ---------------------------g~~v~~~Ha~l~~~~R~~i~~~F~~g~~~VLVaT~a~~~GIDip~V~~VI~~d 312 (607)
T PRK11057 260 ---------------------------GISAAAYHAGLDNDVRADVQEAFQRDDLQIVVATVAFGMGINKPNVRFVVHFD 312 (607)
T ss_pred ---------------------------CCCEEEecCCCCHHHHHHHHHHHHCCCCCEEEEechhhccCCCCCcCEEEEeC
Confidence 12388999999999999999999999999999999999999999999999987
Q ss_pred CCCCcccCcccccccccccCCCCCCCceEEEEEeChhhHHHHHhhhccCC
Q 000107 896 RIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKIMGLLNESC 945 (2191)
Q Consensus 896 ~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~~~ll~~~l 945 (2191)
.+. +..+|+||+|||||.| ..|.|++++++.+...+..++....
T Consensus 313 ~P~----s~~~y~Qr~GRaGR~G--~~~~~ill~~~~d~~~~~~~~~~~~ 356 (607)
T PRK11057 313 IPR----NIESYYQETGRAGRDG--LPAEAMLFYDPADMAWLRRCLEEKP 356 (607)
T ss_pred CCC----CHHHHHHHhhhccCCC--CCceEEEEeCHHHHHHHHHHHhcCC
Confidence 765 8899999999999999 6899999999999888877776544
No 61
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1.7e-34 Score=357.69 Aligned_cols=407 Identities=21% Similarity=0.253 Sum_probs=318.9
Q ss_pred HHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHH-HhhccCCeEEEEecc
Q 000107 529 QVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEV-LLEPLGRHVRSYYGN 607 (2191)
Q Consensus 529 Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~-l~~~lg~~V~~~~G~ 607 (2191)
-.+.+.. +.+++.+||.|+||||||+.....+.+.-....+++.+..|+|-.|..+++++.. ....+|-.|+ |..
T Consensus 56 r~~il~~--ve~nqvlIviGeTGsGKSTQipQyL~eaG~~~~g~I~~TQPRRVAavslA~RVAeE~~~~lG~~VG--Y~I 131 (674)
T KOG0922|consen 56 RDQILYA--VEDNQVLIVIGETGSGKSTQIPQYLAEAGFASSGKIACTQPRRVAAVSLAKRVAEEMGCQLGEEVG--YTI 131 (674)
T ss_pred HHHHHHH--HHHCCEEEEEcCCCCCccccHhHHHHhcccccCCcEEeecCchHHHHHHHHHHHHHhCCCcCceee--eEE
Confidence 3445554 6789999999999999999999988887666666799999999999999887744 3344565554 223
Q ss_pred CCCCCCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHhhcCCCCCCCCCCCC
Q 000107 608 QGGGSLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAAGEGTSDSSSGENS 687 (2191)
Q Consensus 608 ~~~~~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~ 687 (2191)
+.+....+.+.|.+.|.+. |+|..+.++.|.++++|||||||+ |.-..+.++..|+.+..+
T Consensus 132 RFed~ts~~TrikymTDG~---LLRE~l~Dp~LskYsvIIlDEAHE-----Rsl~TDiLlGlLKki~~~----------- 192 (674)
T KOG0922|consen 132 RFEDSTSKDTRIKYMTDGM---LLREILKDPLLSKYSVIILDEAHE-----RSLHTDILLGLLKKILKK----------- 192 (674)
T ss_pred EecccCCCceeEEEecchH---HHHHHhcCCccccccEEEEechhh-----hhhHHHHHHHHHHHHHhc-----------
Confidence 3333455678999999998 788888899999999999999999 999999999999988654
Q ss_pred CCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhc-cccccccccccceEEEEeccccccchhhHHHHHHHhhccCCCChh
Q 000107 688 GTSSGKADPAHGLQIVGMSATMPNVAAVADWLQA-ALYETNFRPVPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPD 766 (2191)
Q Consensus 688 ~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a-~l~~~~~RpvpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d 766 (2191)
++++++|.||||+ |++.+.+|++. .++....|..|++.++..... .+.+.
T Consensus 193 ---------R~~LklIimSATl-da~kfS~yF~~a~i~~i~GR~fPVei~y~~~p~-----~dYv~-------------- 243 (674)
T KOG0922|consen 193 ---------RPDLKLIIMSATL-DAEKFSEYFNNAPILTIPGRTFPVEILYLKEPT-----ADYVD-------------- 243 (674)
T ss_pred ---------CCCceEEEEeeee-cHHHHHHHhcCCceEeecCCCCceeEEeccCCc-----hhhHH--------------
Confidence 4678999999998 89999999875 778889999999877653211 11110
Q ss_pred HHHHHHHHHH--hcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCC
Q 000107 767 HIVELCDEVV--QEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPS 844 (2191)
Q Consensus 767 ~l~~Ll~e~~--~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~ 844 (2191)
..+..+.++. .+.+.+|||.+++++.+.++..|.+........ .+.
T Consensus 244 a~~~tv~~Ih~~E~~GDILvFLtGqeEIe~~~~~l~e~~~~~~~~--------------------------------~~~ 291 (674)
T KOG0922|consen 244 AALITVIQIHLTEPPGDILVFLTGQEEIEAACELLRERAKSLPED--------------------------------CPE 291 (674)
T ss_pred HHHHHHHHHHccCCCCCEEEEeCCHHHHHHHHHHHHHHhhhcccc--------------------------------Ccc
Confidence 1111111121 345799999999999999999998765443211 001
Q ss_pred cEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecCC---------CCCc-----ccCccccccc
Q 000107 845 GVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPR---------IGRD-----FIDGTRYRQM 910 (2191)
Q Consensus 845 GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~---------~g~~-----~is~~~y~Qm 910 (2191)
-+..+||.|+.+++..|+..-..|..+|++||++++++|+||++++|||.++ .|.+ ++|.++..||
T Consensus 292 ~~lply~aL~~e~Q~rvF~p~p~g~RKvIlsTNIAETSlTI~GI~YVVDsG~vK~~~y~p~~g~~~L~v~~ISkasA~QR 371 (674)
T KOG0922|consen 292 LILPLYGALPSEEQSRVFDPAPPGKRKVILSTNIAETSLTIDGIRYVVDSGFVKQKKYNPRTGLDSLIVVPISKASANQR 371 (674)
T ss_pred eeeeecccCCHHHhhccccCCCCCcceEEEEcceeeeeEEecceEEEEcCCceEEEeeccccCccceeEEechHHHHhhh
Confidence 2678999999999999999999999999999999999999999999999643 3332 6888899999
Q ss_pred ccccCCCCCCCceEEEEEeChhhHHHHHhhhccCCCCcccccccccchhhHHHHHHHhcccccCHHHHHHHHHhhhcCCC
Q 000107 911 AGRAGRTGIDTKGESMLICKPEEVKKIMGLLNESCPPLHSCLSEDKNGMTHAILEVVAGGIVQTAEDIHRYVRCTLLNST 990 (2191)
Q Consensus 911 iGRAGR~G~d~~Ge~ill~~~~e~~~~~~ll~~~l~~l~S~L~~~~~~l~~~iLeiia~gi~~t~~di~~~l~~tll~~~ 990 (2191)
+|||||.| +|.||.+|+.+++. ++.....|.+..+ ++..++|.+.+.|+ .+.+.+.|+.++
T Consensus 372 aGRAGRt~---pGkcyRLYte~~~~---~~~~~~~PEI~R~------~Ls~~vL~Lkalgi-------~d~l~F~f~d~P 432 (674)
T KOG0922|consen 372 AGRAGRTG---PGKCYRLYTESAYD---KMPLQTVPEIQRV------NLSSAVLQLKALGI-------NDPLRFPFIDPP 432 (674)
T ss_pred cccCCCCC---CceEEEeeeHHHHh---hcccCCCCceeee------chHHHHHHHHhcCC-------CCcccCCCCCCC
Confidence 99999999 99999999998764 4677777777655 67788999999883 344566777776
Q ss_pred CcchhHHHHHHHHHHHHHHcccceeccCCCccCCCH-HHHHHHhcCCChhhHHHHHHHH
Q 000107 991 KPFQDVVKSAQDSLRWLCHRKFLEWNEDTKLYSTTP-LGRAAFGSSLCPEESLIVLDDL 1048 (2191)
Q Consensus 991 ~~~~~~~~~~~~al~~L~~~~~i~~~~~~~~~~~T~-LG~a~~~s~L~p~~a~~l~~~L 1048 (2191)
.+ +++..||+.|...|.|+. ++ .+|. +|+.++..||+|..+++++..-
T Consensus 433 ~~-----~~l~~AL~~L~~lgald~--~g---~lt~p~G~~ma~~Pl~p~lsk~ll~s~ 481 (674)
T KOG0922|consen 433 PP-----EALEEALEELYSLGALDD--RG---KLTSPLGRQMAELPLEPHLSKMLLKSS 481 (674)
T ss_pred Ch-----HHHHHHHHHHHhcCcccC--cC---CcCchHHhhhhhcCCCcchhhhhhhcc
Confidence 54 677889999999999962 22 3555 9999999999999998877654
No 62
>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA. This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=100.00 E-value=1.8e-34 Score=391.49 Aligned_cols=403 Identities=19% Similarity=0.198 Sum_probs=283.8
Q ss_pred cccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhh-ccCCeEEEEeccCCCCCCCCC
Q 000107 538 VLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLE-PLGRHVRSYYGNQGGGSLPKD 616 (2191)
Q Consensus 538 il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~-~lg~~V~~~~G~~~~~~l~~~ 616 (2191)
+..++.+||+|+||||||+.....++..-....++++++.|+|..|...+.++.+.++ .+|..|+. +.........+
T Consensus 79 l~~~~vvii~g~TGSGKTTqlPq~lle~~~~~~~~I~~tQPRRlAA~svA~RvA~elg~~lG~~VGY--~vR~~~~~s~~ 156 (1283)
T TIGR01967 79 IAENQVVIIAGETGSGKTTQLPKICLELGRGSHGLIGHTQPRRLAARTVAQRIAEELGTPLGEKVGY--KVRFHDQVSSN 156 (1283)
T ss_pred HHhCceEEEeCCCCCCcHHHHHHHHHHcCCCCCceEecCCccHHHHHHHHHHHHHHhCCCcceEEee--EEcCCcccCCC
Confidence 6678899999999999999877666553222234788899999999999988765442 23433331 22333445667
Q ss_pred CceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCC
Q 000107 617 TSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADP 696 (2191)
Q Consensus 617 ~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~ 696 (2191)
+.|.|+|++.+...+ ..+..+.++++|||||+|+ |....+.++..++.+...
T Consensus 157 T~I~~~TdGiLLr~l---~~d~~L~~~~~IIIDEaHE-----RsL~~D~LL~lLk~il~~-------------------- 208 (1283)
T TIGR01967 157 TLVKLMTDGILLAET---QQDRFLSRYDTIIIDEAHE-----RSLNIDFLLGYLKQLLPR-------------------- 208 (1283)
T ss_pred ceeeeccccHHHHHh---hhCcccccCcEEEEcCcch-----hhccchhHHHHHHHHHhh--------------------
Confidence 899999999965544 3566799999999999996 444455555555544321
Q ss_pred CCCceEEEEeccCCCHHHHHHHhh-ccccccccccccceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHH
Q 000107 697 AHGLQIVGMSATMPNVAAVADWLQ-AALYETNFRPVPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEV 775 (2191)
Q Consensus 697 ~~~iqII~mSATL~N~~~la~wL~-a~l~~~~~RpvpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~ 775 (2191)
.+++|+|+||||+ +.+.++++++ +.++....|..|++.++...... .... . ....+.+...+.++
T Consensus 209 rpdLKlIlmSATl-d~~~fa~~F~~apvI~V~Gr~~PVev~Y~~~~~~--~~~~-~----------~~~~~~i~~~I~~l 274 (1283)
T TIGR01967 209 RPDLKIIITSATI-DPERFSRHFNNAPIIEVSGRTYPVEVRYRPLVEE--QEDD-D----------LDQLEAILDAVDEL 274 (1283)
T ss_pred CCCCeEEEEeCCc-CHHHHHHHhcCCCEEEECCCcccceeEEeccccc--ccch-h----------hhHHHHHHHHHHHH
Confidence 3578999999998 5678888886 44455555666665543311100 0000 0 00112333444444
Q ss_pred Hh-cCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCC
Q 000107 776 VQ-EGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLT 854 (2191)
Q Consensus 776 ~~-~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs 854 (2191)
.. ..+.+|||+|++.+++.++..|.+.... ..-|..+||+|+
T Consensus 275 ~~~~~GdILVFLpg~~EI~~l~~~L~~~~~~-------------------------------------~~~VlpLhg~Ls 317 (1283)
T TIGR01967 275 FAEGPGDILIFLPGEREIRDAAEILRKRNLR-------------------------------------HTEILPLYARLS 317 (1283)
T ss_pred HhhCCCCEEEeCCCHHHHHHHHHHHHhcCCC-------------------------------------CcEEEeccCCCC
Confidence 33 3479999999999999998888642100 112788999999
Q ss_pred HHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecCCC--------------CCcccCcccccccccccCCCCCC
Q 000107 855 VEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRI--------------GRDFIDGTRYRQMAGRAGRTGID 920 (2191)
Q Consensus 855 ~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~~--------------g~~~is~~~y~QmiGRAGR~G~d 920 (2191)
.++|..+++.+ +..+|||||+++++|||||++++|||++.. ...++|.++|.||+|||||.|
T Consensus 318 ~~eQ~~vf~~~--~~rkIVLATNIAEtSLTIpgV~yVIDsGl~r~~~yd~~~~~~~L~~~~ISkasa~QRaGRAGR~~-- 393 (1283)
T TIGR01967 318 NKEQQRVFQPH--SGRRIVLATNVAETSLTVPGIHYVIDTGTARISRYSYRTKVQRLPIEPISQASANQRKGRCGRVA-- 393 (1283)
T ss_pred HHHHHHHhCCC--CCceEEEeccHHHhccccCCeeEEEeCCCccccccccccCccccCCccCCHHHHHHHhhhhCCCC--
Confidence 99999997654 347999999999999999999999997632 235678899999999999998
Q ss_pred CceEEEEEeChhhHHHHHhhhccCCCCcccccccccchhhHHHHHHHhcccccCHHHHHHHHHhhhcCCCCcchhHHHHH
Q 000107 921 TKGESMLICKPEEVKKIMGLLNESCPPLHSCLSEDKNGMTHAILEVVAGGIVQTAEDIHRYVRCTLLNSTKPFQDVVKSA 1000 (2191)
Q Consensus 921 ~~Ge~ill~~~~e~~~~~~ll~~~l~~l~S~L~~~~~~l~~~iLeiia~gi~~t~~di~~~l~~tll~~~~~~~~~~~~~ 1000 (2191)
.|.||.+++.+++..+.. ...|.|... ++..++|.+.+.|+ .++.. +.|+.++. .+++
T Consensus 394 -~G~cyRLyte~~~~~~~~---~~~PEIlR~------~L~~viL~l~~lg~----~di~~---f~fldpP~-----~~~i 451 (1283)
T TIGR01967 394 -PGICIRLYSEEDFNSRPE---FTDPEILRT------NLASVILQMLALRL----GDIAA---FPFIEAPD-----PRAI 451 (1283)
T ss_pred -CceEEEecCHHHHHhhhh---ccCcccccc------cHHHHHHHHHhcCC----CCccc---ccCCCCCC-----HHHH
Confidence 999999999887655332 234444322 46677888888774 23333 34555544 3678
Q ss_pred HHHHHHHHHcccceeccCCCccCCCHHHHHHHhcCCChhhHHHHHHHHh
Q 000107 1001 QDSLRWLCHRKFLEWNEDTKLYSTTPLGRAAFGSSLCPEESLIVLDDLS 1049 (2191)
Q Consensus 1001 ~~al~~L~~~~~i~~~~~~~~~~~T~LG~a~~~s~L~p~~a~~l~~~L~ 1049 (2191)
.+|+..|...|+|.. +++.+.+|++|+.++.+|++|..|++++....
T Consensus 452 ~~A~~~L~~LGAld~--~~~~~~LT~lGr~ma~LPldPrlarmLl~a~~ 498 (1283)
T TIGR01967 452 RDGFRLLEELGALDD--DEAEPQLTPIGRQLAQLPVDPRLARMLLEAHR 498 (1283)
T ss_pred HHHHHHHHHCCCCCC--CCCCccccHHHHHHhhcCCChHHHHHHHHhhh
Confidence 899999999999963 22235799999999999999999999998764
No 63
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=3.2e-35 Score=340.10 Aligned_cols=332 Identities=22% Similarity=0.295 Sum_probs=252.0
Q ss_pred HHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHh--------cCCEEEEEchhHHH
Q 000107 511 SEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIS--------TGKMALLVLPYVSI 582 (2191)
Q Consensus 511 ~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~--------~g~kaL~I~P~raL 582 (2191)
+++.+.+++.||.+|+|+|.|++|. +++|.+++..|.||+|||++|+++-+-++.. .+..+|+++||++|
T Consensus 229 pevmenIkK~GFqKPtPIqSQaWPI--~LQG~DliGVAQTgtgKtL~~L~pg~ihi~aqp~~~~qr~~p~~lvl~ptreL 306 (629)
T KOG0336|consen 229 PEVMENIKKTGFQKPTPIQSQAWPI--LLQGIDLIGVAQTGTGKTLAFLLPGFIHIDAQPKRREQRNGPGVLVLTPTREL 306 (629)
T ss_pred HHHHHHHHhccCCCCCcchhcccce--eecCcceEEEEecCCCcCHHHhccceeeeeccchhhhccCCCceEEEeccHHH
Confidence 6788888999999999999999988 9999999999999999999999987655542 45689999999999
Q ss_pred HHHHHHHHHHHhhccCCeEEEEeccCCCC----CCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccc
Q 000107 583 CAEKAEHLEVLLEPLGRHVRSYYGNQGGG----SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQN 658 (2191)
Q Consensus 583 A~q~~~~l~~l~~~lg~~V~~~~G~~~~~----~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~ 658 (2191)
|.|+.-+..++ ..-|.+..++||+.... .+.++.+|++|||+++++|... ....+..|.++|+||++.|.|.+
T Consensus 307 alqie~e~~ky-syng~ksvc~ygggnR~eqie~lkrgveiiiatPgrlndL~~~--n~i~l~siTYlVlDEADrMLDMg 383 (629)
T KOG0336|consen 307 ALQIEGEVKKY-SYNGLKSVCVYGGGNRNEQIEDLKRGVEIIIATPGRLNDLQMD--NVINLASITYLVLDEADRMLDMG 383 (629)
T ss_pred HHHHHhHHhHh-hhcCcceEEEecCCCchhHHHHHhcCceEEeeCCchHhhhhhc--CeeeeeeeEEEEecchhhhhccc
Confidence 99988776654 33467777778765432 3567899999999999999865 56689999999999999999999
Q ss_pred hhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC-HHHHH-HHhhccc--cccccccccc-
Q 000107 659 RGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN-VAAVA-DWLQAAL--YETNFRPVPL- 733 (2191)
Q Consensus 659 RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N-~~~la-~wL~a~l--~~~~~RpvpL- 733 (2191)
+.+.+..+|--+ .++.|.|+.|||.|. +..++ .|+...+ |.....-+..
T Consensus 384 FEpqIrkilldi--------------------------RPDRqtvmTSATWP~~VrrLa~sY~Kep~~v~vGsLdL~a~~ 437 (629)
T KOG0336|consen 384 FEPQIRKILLDI--------------------------RPDRQTVMTSATWPEGVRRLAQSYLKEPMIVYVGSLDLVAVK 437 (629)
T ss_pred ccHHHHHHhhhc--------------------------CCcceeeeecccCchHHHHHHHHhhhCceEEEecccceeeee
Confidence 999888776554 478899999999986 55555 3444321 1111111111
Q ss_pred --eEEEEeccccccchhhHHHHHHHhhccCCCChhH--HHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccc
Q 000107 734 --EEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDH--IVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSIN 809 (2191)
Q Consensus 734 --~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~--l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~ 809 (2191)
++.+. . ..+.+. +............++||||..+..+. +|+..+.-.++
T Consensus 438 sVkQ~i~-----v-----------------~~d~~k~~~~~~f~~~ms~ndKvIiFv~~K~~AD----~LSSd~~l~gi- 490 (629)
T KOG0336|consen 438 SVKQNII-----V-----------------TTDSEKLEIVQFFVANMSSNDKVIIFVSRKVMAD----HLSSDFCLKGI- 490 (629)
T ss_pred eeeeeEE-----e-----------------cccHHHHHHHHHHHHhcCCCceEEEEEechhhhh----hccchhhhccc-
Confidence 01110 0 011111 12222223345679999999877544 44332211111
Q ss_pred cCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCce
Q 000107 810 VHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARR 889 (2191)
Q Consensus 810 ~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~ 889 (2191)
....+||+-.+.+|+..++.|++|.++|||||+++++|+|+|+++
T Consensus 491 -----------------------------------~~q~lHG~r~Q~DrE~al~~~ksG~vrILvaTDlaSRGlDv~DiT 535 (629)
T KOG0336|consen 491 -----------------------------------SSQSLHGNREQSDREMALEDFKSGEVRILVATDLASRGLDVPDIT 535 (629)
T ss_pred -----------------------------------chhhccCChhhhhHHHHHHhhhcCceEEEEEechhhcCCCchhcc
Confidence 133489999999999999999999999999999999999999999
Q ss_pred EEeecCCCCCcccCcccccccccccCCCCCCCceEEEEEeChhhHHHHHhhh
Q 000107 890 VIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKIMGLL 941 (2191)
Q Consensus 890 VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~~~ll 941 (2191)
+|++++++. ++.+|.||+||+||+| ..|.++.+.+..+...+.+++
T Consensus 536 HV~NyDFP~----nIeeYVHRvGrtGRaG--r~G~sis~lt~~D~~~a~eLI 581 (629)
T KOG0336|consen 536 HVYNYDFPR----NIEEYVHRVGRTGRAG--RTGTSISFLTRNDWSMAEELI 581 (629)
T ss_pred eeeccCCCc----cHHHHHHHhcccccCC--CCcceEEEEehhhHHHHHHHH
Confidence 999998876 8999999999999999 799999999988766655544
No 64
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=100.00 E-value=2e-35 Score=353.45 Aligned_cols=361 Identities=21% Similarity=0.276 Sum_probs=261.8
Q ss_pred cCCcCCC----CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHh---------
Q 000107 502 CLDLSSW----LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIS--------- 568 (2191)
Q Consensus 502 ~l~L~~~----Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~--------- 568 (2191)
..|++.| ||.+++.+|...||.+|+++|.-+|+. ++....+++..|.||||||++|-+||+..+..
T Consensus 177 ~~DvsAW~~l~lp~~iL~aL~~~gFs~Pt~IQsl~lp~-ai~gk~DIlGaAeTGSGKTLAFGIPiv~~l~~~s~~s~e~~ 255 (731)
T KOG0347|consen 177 KVDVSAWKNLFLPMEILRALSNLGFSRPTEIQSLVLPA-AIRGKVDILGAAETGSGKTLAFGIPIVERLLESSDDSQELS 255 (731)
T ss_pred ccChHHHhcCCCCHHHHHHHHhcCCCCCccchhhcccH-hhccchhcccccccCCCceeeecchhhhhhhhccchHhhhh
Confidence 3456666 899999999999999999999999986 34444999999999999999999999995543
Q ss_pred ----cCCE--EEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCC----CCCCCCCceEEEchHHHHHHHHHhh-hc
Q 000107 569 ----TGKM--ALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGG----GSLPKDTSVAVCTIEKANSLVNRML-EE 637 (2191)
Q Consensus 569 ----~g~k--aL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~----~~l~~~~~IiV~TpEkl~~Ll~~l~-~~ 637 (2191)
.+.+ +||+.|||+||.|+.+++..+....+++|..++|+... ..+...++|+|+||+++..++..-- ..
T Consensus 256 ~~~~k~~k~~~LV~tPTRELa~QV~~Hl~ai~~~t~i~v~si~GGLavqKQqRlL~~~p~IVVATPGRlweli~e~n~~l 335 (731)
T KOG0347|consen 256 NTSAKYVKPIALVVTPTRELAHQVKQHLKAIAEKTQIRVASITGGLAVQKQQRLLNQRPDIVVATPGRLWELIEEDNTHL 335 (731)
T ss_pred hHHhccCcceeEEecChHHHHHHHHHHHHHhccccCeEEEEeechhHHHHHHHHHhcCCCEEEecchHHHHHHHhhhhhh
Confidence 2344 99999999999999999999999999999999998753 2245578999999999999987522 23
Q ss_pred CCCCccceEEEcccccccccchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHH--HH
Q 000107 638 GRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVA--AV 715 (2191)
Q Consensus 638 ~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~--~l 715 (2191)
..+.++.|+||||+++|.+.+.-..+..||..|..- +.....|.+.+|||+.-.. .+
T Consensus 336 ~~~k~vkcLVlDEaDRmvekghF~Els~lL~~L~e~---------------------~~~~qrQTlVFSATlt~~~~~~~ 394 (731)
T KOG0347|consen 336 GNFKKVKCLVLDEADRMVEKGHFEELSKLLKHLNEE---------------------QKNRQRQTLVFSATLTLVLQQPL 394 (731)
T ss_pred hhhhhceEEEEccHHHHhhhccHHHHHHHHHHhhhh---------------------hcccccceEEEEEEeehhhcChh
Confidence 468899999999999999988878888888888421 1245679999999986210 00
Q ss_pred HHHh---------hcc----ccccccccccceEEEEeccccccchhhHHHHHHHhhccCCC--ChhHHHHHHHHHHhcCC
Q 000107 716 ADWL---------QAA----LYETNFRPVPLEEYIKVGNAIYSKKMDVVRTILTAANLGGK--DPDHIVELCDEVVQEGH 780 (2191)
Q Consensus 716 a~wL---------~a~----l~~~~~RpvpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~--d~d~l~~Ll~e~~~~g~ 780 (2191)
..-- ++. +-...+|.-| ..+... ........+....-.+.. ..-+++.++ ..-.+
T Consensus 395 ~~~~k~~~k~~~~~~kiq~Lmk~ig~~~kp--kiiD~t-----~q~~ta~~l~Es~I~C~~~eKD~ylyYfl---~ryPG 464 (731)
T KOG0347|consen 395 SSSRKKKDKEDELNAKIQHLMKKIGFRGKP--KIIDLT-----PQSATASTLTESLIECPPLEKDLYLYYFL---TRYPG 464 (731)
T ss_pred HHhhhccchhhhhhHHHHHHHHHhCccCCC--eeEecC-----cchhHHHHHHHHhhcCCccccceeEEEEE---eecCC
Confidence 0000 000 0011222222 111111 111111111111000000 000111111 11247
Q ss_pred cEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHH
Q 000107 781 SVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREV 860 (2191)
Q Consensus 781 ~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~ 860 (2191)
.+|||||+...+..++-.|. ..++. -..+|+.|.+..|-.
T Consensus 465 rTlVF~NsId~vKRLt~~L~----~L~i~------------------------------------p~~LHA~M~QKqRLk 504 (731)
T KOG0347|consen 465 RTLVFCNSIDCVKRLTVLLN----NLDIP------------------------------------PLPLHASMIQKQRLK 504 (731)
T ss_pred ceEEEechHHHHHHHHHHHh----hcCCC------------------------------------CchhhHHHHHHHHHH
Confidence 89999999987766665553 22211 234899999999999
Q ss_pred HHHHhhcCCceEEEecccccccCCCCCceEEeecCCCCCcccCcccccccccccCCCCCCCceEEEEEeChhhHHHHHhh
Q 000107 861 VETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKIMGL 940 (2191)
Q Consensus 861 Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~~~l 940 (2191)
-++.|++..-.||+||+++|||+|||.+.+||+|-.+. +..-|+||.||+.|++ ..|.++++|.|.+...|.++
T Consensus 505 nLEkF~~~~~~VLiaTDVAARGLDIp~V~HVIHYqVPr----tseiYVHRSGRTARA~--~~Gvsvml~~P~e~~~~~KL 578 (731)
T KOG0347|consen 505 NLEKFKQSPSGVLIATDVAARGLDIPGVQHVIHYQVPR----TSEIYVHRSGRTARAN--SEGVSVMLCGPQEVGPLKKL 578 (731)
T ss_pred hHHHHhcCCCeEEEeehhhhccCCCCCcceEEEeecCC----ccceeEeccccccccc--CCCeEEEEeChHHhHHHHHH
Confidence 99999999999999999999999999999999997776 5566999999999999 89999999999887666554
No 65
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=100.00 E-value=8.6e-34 Score=372.23 Aligned_cols=400 Identities=22% Similarity=0.235 Sum_probs=313.3
Q ss_pred cccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhh-ccCCeEEEEeccCCCCCCCCC
Q 000107 538 VLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLE-PLGRHVRSYYGNQGGGSLPKD 616 (2191)
Q Consensus 538 il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~-~lg~~V~~~~G~~~~~~l~~~ 616 (2191)
+.+++.+||+||||||||+...+.++......++++.++.|+|--|..+++++.+.++ .+|-.|+ |....+.....+
T Consensus 62 i~~~~vvii~getGsGKTTqlP~~lle~g~~~~g~I~~tQPRRlAArsvA~RvAeel~~~~G~~VG--Y~iRfe~~~s~~ 139 (845)
T COG1643 62 IEQNQVVIIVGETGSGKTTQLPQFLLEEGLGIAGKIGCTQPRRLAARSVAERVAEELGEKLGETVG--YSIRFESKVSPR 139 (845)
T ss_pred HHhCCEEEEeCCCCCChHHHHHHHHHhhhcccCCeEEecCchHHHHHHHHHHHHHHhCCCcCceee--EEEEeeccCCCC
Confidence 7789999999999999999999999988776677999999999999999988865443 3454444 233344456678
Q ss_pred CceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCC
Q 000107 617 TSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADP 696 (2191)
Q Consensus 617 ~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~ 696 (2191)
+.|-++|.+.+ ++.+..+..|+.+++|||||+|+ |....+.+|..++.+..+ .
T Consensus 140 Trik~mTdGiL---lrei~~D~~Ls~ys~vIiDEaHE-----RSl~tDilLgllk~~~~~-------------------r 192 (845)
T COG1643 140 TRIKVMTDGIL---LREIQNDPLLSGYSVVIIDEAHE-----RSLNTDILLGLLKDLLAR-------------------R 192 (845)
T ss_pred ceeEEeccHHH---HHHHhhCcccccCCEEEEcchhh-----hhHHHHHHHHHHHHHHhh-------------------c
Confidence 99999999994 55555688899999999999999 999999999999886543 2
Q ss_pred CCCceEEEEeccCCCHHHHHHHhh-ccccccccccccceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHH
Q 000107 697 AHGLQIVGMSATMPNVAAVADWLQ-AALYETNFRPVPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEV 775 (2191)
Q Consensus 697 ~~~iqII~mSATL~N~~~la~wL~-a~l~~~~~RpvpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~ 775 (2191)
++++++|.||||+ |.+.++.+|+ +.++....|..|++.++..... .+.. -.+.+...+...
T Consensus 193 r~DLKiIimSATl-d~~rfs~~f~~apvi~i~GR~fPVei~Y~~~~~-~d~~----------------l~~ai~~~v~~~ 254 (845)
T COG1643 193 RDDLKLIIMSATL-DAERFSAYFGNAPVIEIEGRTYPVEIRYLPEAE-ADYI----------------LLDAIVAAVDIH 254 (845)
T ss_pred CCCceEEEEeccc-CHHHHHHHcCCCCEEEecCCccceEEEecCCCC-cchh----------------HHHHHHHHHHHh
Confidence 3469999999998 7899999998 8889999999999887642211 0000 112333444444
Q ss_pred Hh-cCCcEEEEeCchhHHHHHHHHHHH-HHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCC
Q 000107 776 VQ-EGHSVLIFCSSRKGCESTARHVSK-FLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGL 853 (2191)
Q Consensus 776 ~~-~g~~vLVF~~Sr~~~e~lA~~L~~-~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagL 853 (2191)
.. ..+.+|||.|...+.+.++..|.+ .+.. ..-|.++||.|
T Consensus 255 ~~~~~GdILvFLpG~~EI~~~~~~L~~~~l~~-------------------------------------~~~i~PLy~~L 297 (845)
T COG1643 255 LREGSGSILVFLPGQREIERTAEWLEKAELGD-------------------------------------DLEILPLYGAL 297 (845)
T ss_pred ccCCCCCEEEECCcHHHHHHHHHHHHhccccC-------------------------------------CcEEeeccccC
Confidence 43 358999999999999999998876 1110 01288999999
Q ss_pred CHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecCC---------CC-----CcccCcccccccccccCCCCC
Q 000107 854 TVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPR---------IG-----RDFIDGTRYRQMAGRAGRTGI 919 (2191)
Q Consensus 854 s~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~---------~g-----~~~is~~~y~QmiGRAGR~G~ 919 (2191)
+.+++..|++-...|..+|++||++++++|+||++++|||+.. .| ..++|.++..||.|||||.+
T Consensus 298 ~~~eQ~rvF~p~~~~~RKVVlATNIAETSLTI~gIr~VIDsG~ak~~~y~~~~g~~~L~~~~ISqAsA~QRaGRAGR~~- 376 (845)
T COG1643 298 SAEEQVRVFEPAPGGKRKVVLATNIAETSLTIPGIRYVIDSGLAKEKRYDPRTGLTRLETEPISKASADQRAGRAGRTG- 376 (845)
T ss_pred CHHHHHhhcCCCCCCcceEEEEccccccceeeCCeEEEecCCcccccccccccCceeeeEEEechhhhhhhccccccCC-
Confidence 9999999999999998999999999999999999999999643 22 34788999999999999998
Q ss_pred CCceEEEEEeChhhHHHHHhhhccCCCCcccccccccchhhHHHHHHHhcccccCHHHHHHHHHhhhcCCCCcchhHHHH
Q 000107 920 DTKGESMLICKPEEVKKIMGLLNESCPPLHSCLSEDKNGMTHAILEVVAGGIVQTAEDIHRYVRCTLLNSTKPFQDVVKS 999 (2191)
Q Consensus 920 d~~Ge~ill~~~~e~~~~~~ll~~~l~~l~S~L~~~~~~l~~~iLeiia~gi~~t~~di~~~l~~tll~~~~~~~~~~~~ 999 (2191)
+|.||.+++.+++. .+.....|.|... ++...+|++.+-|+- .+...+.|+.++.. .+
T Consensus 377 --pGicyRLyse~~~~---~~~~~t~PEIlrt------dLs~~vL~l~~~G~~------~d~~~f~fld~P~~-----~~ 434 (845)
T COG1643 377 --PGICYRLYSEEDFL---AFPEFTLPEILRT------DLSGLVLQLKSLGIG------QDIAPFPFLDPPPE-----AA 434 (845)
T ss_pred --CceEEEecCHHHHH---hcccCCChhhhhc------chHHHHHHHHhcCCC------CCcccCccCCCCCh-----HH
Confidence 99999999997655 4566666665332 466778999888842 23445667766543 67
Q ss_pred HHHHHHHHHHcccceeccCCCccCCCHHHHHHHhcCCChhhHHHHHHHHh
Q 000107 1000 AQDSLRWLCHRKFLEWNEDTKLYSTTPLGRAAFGSSLCPEESLIVLDDLS 1049 (2191)
Q Consensus 1000 ~~~al~~L~~~~~i~~~~~~~~~~~T~LG~a~~~s~L~p~~a~~l~~~L~ 1049 (2191)
+++|+..|...|++... + .+|++|+.++..+++|..|.+++..-.
T Consensus 435 i~~A~~~L~~LGAld~~--g---~LT~lG~~ms~lpldprLA~mLl~a~~ 479 (845)
T COG1643 435 IQAALTLLQELGALDDS--G---KLTPLGKQMSLLPLDPRLARMLLTAPE 479 (845)
T ss_pred HHHHHHHHHHcCCcCCC--C---CCCHHHHHHHhCCCChHHHHHHHhccc
Confidence 88999999999999632 2 399999999999999999999887654
No 66
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=7.3e-34 Score=336.44 Aligned_cols=340 Identities=21% Similarity=0.274 Sum_probs=273.2
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHh-------cCCEEEEEchhHH
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIS-------TGKMALLVLPYVS 581 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~-------~g~kaL~I~P~ra 581 (2191)
+.+.+....++.-|.++||+|.++++. .+.|++++-.|-||||||.+|..+++-++.. .|+..||++|||+
T Consensus 230 fDkqLm~airk~Ey~kptpiq~qalpt--alsgrdvigIAktgSgktaAfi~pm~~himdq~eL~~g~gPi~vilvPTre 307 (731)
T KOG0339|consen 230 FDKQLMTAIRKSEYEKPTPIQCQALPT--ALSGRDVIGIAKTGSGKTAAFIWPMIVHIMDQPELKPGEGPIGVILVPTRE 307 (731)
T ss_pred chHHHHHHHhhhhcccCCccccccccc--ccccccchheeeccCcchhHHHHHHHHHhcchhhhcCCCCCeEEEEeccHH
Confidence 567888888888999999999999987 8999999999999999999999999988875 4678999999999
Q ss_pred HHHHHHHHHHHHhhccCCeEEEEeccCCCC----CCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEccccccccc
Q 000107 582 ICAEKAEHLEVLLEPLGRHVRSYYGNQGGG----SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQ 657 (2191)
Q Consensus 582 LA~q~~~~l~~l~~~lg~~V~~~~G~~~~~----~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~ 657 (2191)
||.|++.+++++.+.+|+++..+||+-... .+..++.|+|||||++.+++.. ....+.+++++|+||++.|.+.
T Consensus 308 la~Qi~~eaKkf~K~ygl~~v~~ygGgsk~eQ~k~Lk~g~EivVaTPgRlid~Vkm--Katn~~rvS~LV~DEadrmfdm 385 (731)
T KOG0339|consen 308 LASQIFSEAKKFGKAYGLRVVAVYGGGSKWEQSKELKEGAEIVVATPGRLIDMVKM--KATNLSRVSYLVLDEADRMFDM 385 (731)
T ss_pred HHHHHHHHHHHhhhhccceEEEeecCCcHHHHHHhhhcCCeEEEechHHHHHHHHh--hcccceeeeEEEEechhhhhcc
Confidence 999999999999999999999999986542 2456799999999999999875 6678999999999999999999
Q ss_pred chhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC-HHHHHH-HhhccccccccccccceE
Q 000107 658 NRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN-VAAVAD-WLQAALYETNFRPVPLEE 735 (2191)
Q Consensus 658 ~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N-~~~la~-wL~a~l~~~~~RpvpL~e 735 (2191)
++-+.+..|...+ .++.|.++||||++- ++.+++ +|.. ..|-|..
T Consensus 386 Gfe~qVrSI~~hi--------------------------rpdrQtllFsaTf~~kIe~lard~L~d-----pVrvVqg-- 432 (731)
T KOG0339|consen 386 GFEPQVRSIKQHI--------------------------RPDRQTLLFSATFKKKIEKLARDILSD-----PVRVVQG-- 432 (731)
T ss_pred ccHHHHHHHHhhc--------------------------CCcceEEEeeccchHHHHHHHHHHhcC-----CeeEEEe--
Confidence 9999988888777 377899999999873 444443 3332 1222211
Q ss_pred EEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHh--cCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCC
Q 000107 736 YIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQ--EGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSS 813 (2191)
Q Consensus 736 ~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~--~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~ 813 (2191)
.++.. . ..+.+...........+..|+..+.. ..+++|||+.-+..++.++..|.-
T Consensus 433 --~vgea----n----~dITQ~V~V~~s~~~Kl~wl~~~L~~f~S~gkvlifVTKk~~~e~i~a~Lkl------------ 490 (731)
T KOG0339|consen 433 --EVGEA----N----EDITQTVSVCPSEEKKLNWLLRHLVEFSSEGKVLIFVTKKADAEEIAANLKL------------ 490 (731)
T ss_pred --ehhcc----c----cchhheeeeccCcHHHHHHHHHHhhhhccCCcEEEEEeccCCHHHHHHHhcc------------
Confidence 11100 0 01122222333444555556665554 346999999999888887766521
Q ss_pred CchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEee
Q 000107 814 DSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFR 893 (2191)
Q Consensus 814 ~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~ 893 (2191)
-.+.|..+|+++.+.+|..++..|+.+...|||||+++++|+|||..+-||+
T Consensus 491 ----------------------------k~~~v~llhgdkdqa~rn~~ls~fKkk~~~VlvatDvaargldI~~ikTVvn 542 (731)
T KOG0339|consen 491 ----------------------------KGFNVSLLHGDKDQAERNEVLSKFKKKRKPVLVATDVAARGLDIPSIKTVVN 542 (731)
T ss_pred ----------------------------ccceeeeecCchhhHHHHHHHHHHhhcCCceEEEeeHhhcCCCccccceeec
Confidence 1234899999999999999999999999999999999999999999999999
Q ss_pred cCCCCCcccCcccccccccccCCCCCCCceEEEEEeChhhHHHHHhhh
Q 000107 894 QPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKIMGLL 941 (2191)
Q Consensus 894 ~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~~~ll 941 (2191)
++... ++..|.||+||+||+| ..|.+|.++++.+.+..-.|+
T Consensus 543 yD~ar----dIdththrigrtgRag--~kGvayTlvTeKDa~fAG~LV 584 (731)
T KOG0339|consen 543 YDFAR----DIDTHTHRIGRTGRAG--EKGVAYTLVTEKDAEFAGHLV 584 (731)
T ss_pred ccccc----hhHHHHHHhhhccccc--ccceeeEEechhhHHHhhHHH
Confidence 88765 8889999999999999 789999999998876543333
No 67
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=3.6e-34 Score=340.61 Aligned_cols=378 Identities=20% Similarity=0.215 Sum_probs=268.7
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhh-------cccccCCeEEEEcCCCCchhHHHHHHHHHHHHhc---CCEEEEEch
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHV-------DGVLQRRNLVYCASTSAGKSFVAEILMLRRLIST---GKMALLVLP 578 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~-------~~il~gknlIi~APTGSGKTlvael~iL~~ll~~---g~kaL~I~P 578 (2191)
|...+.+.+.+++|++++|+|..+++. +....++++.|.||||||||++|.+||++.+..+ .-++|||+|
T Consensus 144 lea~~~q~l~k~~is~~FPVQ~aVlp~ll~~~~~p~~~r~rDIcV~ApTGSGKTLaY~iPIVQ~L~~R~v~~LRavVivP 223 (620)
T KOG0350|consen 144 LEATIDQLLVKMAISRLFPVQYAVLPSLLEEIRSPPPSRPRDICVNAPTGSGKTLAYVIPIVQLLSSRPVKRLRAVVIVP 223 (620)
T ss_pred HHHHHHHHHHHhhcccccchHHHHHHHHHHhhcCCCCCCCCceEEecCCCCCceeeehhHHHHHHccCCccceEEEEEee
Confidence 445566778899999999999999875 1122468999999999999999999999988754 348999999
Q ss_pred hHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCC-------CCC--CCceEEEchHHHHHHHHHhhhcCCCCccceEEEc
Q 000107 579 YVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGS-------LPK--DTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVID 649 (2191)
Q Consensus 579 ~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~-------l~~--~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVID 649 (2191)
++.|+.|++..|.++....|+.|..+.|...-.. .++ ..||+|+||+++.++++. .....|+++.++|||
T Consensus 224 tr~L~~QV~~~f~~~~~~tgL~V~~~sgq~sl~~E~~qL~~~~~~~~~DIlVaTPGRLVDHl~~-~k~f~Lk~LrfLVID 302 (620)
T KOG0350|consen 224 TRELALQVYDTFKRLNSGTGLAVCSLSGQNSLEDEARQLASDPPECRIDILVATPGRLVDHLNN-TKSFDLKHLRFLVID 302 (620)
T ss_pred HHHHHHHHHHHHHHhccCCceEEEecccccchHHHHHHHhcCCCccccceEEcCchHHHHhccC-CCCcchhhceEEEec
Confidence 9999999999999999999999988887653211 111 359999999999999886 355689999999999
Q ss_pred ccccccccchhHHHHHHHHHHHHhhcCCCCCCCC--CC----CC--CCCCCCCCCCCCceEEEEeccCC-CHHHHHHHhh
Q 000107 650 ELHMVADQNRGYLLELLLTKLRYAAGEGTSDSSS--GE----NS--GTSSGKADPAHGLQIVGMSATMP-NVAAVADWLQ 720 (2191)
Q Consensus 650 EaH~l~d~~RG~~lE~lL~kLr~~~~~~~~~s~~--~~----~~--~~~~~~~~~~~~iqII~mSATL~-N~~~la~wL~ 720 (2191)
|+|+|++..|..++..++..++....-....+-- .. .. ..-.....+.++.+.+.+|||+. ++..+.++--
T Consensus 303 EADRll~qsfQ~Wl~~v~~~~~~~k~~~~~~nii~~~~~~~pt~~~e~~t~~~~~~~~l~kL~~satLsqdP~Kl~~l~l 382 (620)
T KOG0350|consen 303 EADRLLDQSFQEWLDTVMSLCKTMKRVACLDNIIRQRQAPQPTVLSELLTKLGKLYPPLWKLVFSATLSQDPSKLKDLTL 382 (620)
T ss_pred hHHHHHHHHHHHHHHHHHHHhCCchhhcChhhhhhhcccCCchhhHHHHhhcCCcCchhHhhhcchhhhcChHHHhhhhc
Confidence 9999999988888888777664331000000000 00 00 00011134456677889999986 4566655421
Q ss_pred -cc-ccccccccccceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHH
Q 000107 721 -AA-LYETNFRPVPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARH 798 (2191)
Q Consensus 721 -a~-l~~~~~RpvpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~ 798 (2191)
.. ++... .| +- ..|.-.. .+....-... ....+-.+..++.. .+..++|+|+++...+..++..
T Consensus 383 ~~Prl~~v~-~~--~~-------~ryslp~-~l~~~~vv~~-~~~kpl~~~~lI~~--~k~~r~lcf~~S~~sa~Rl~~~ 448 (620)
T KOG0350|consen 383 HIPRLFHVS-KP--LI-------GRYSLPS-SLSHRLVVTE-PKFKPLAVYALITS--NKLNRTLCFVNSVSSANRLAHV 448 (620)
T ss_pred CCCceEEee-cc--cc-------eeeecCh-hhhhceeecc-cccchHhHHHHHHH--hhcceEEEEecchHHHHHHHHH
Confidence 11 11100 00 00 0010000 0000000000 01223344455443 2457999999999999999888
Q ss_pred HHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEeccc
Q 000107 799 VSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATST 878 (2191)
Q Consensus 799 L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATst 878 (2191)
|.-.+..... .+..+.|+|+...|...++.|..|.++|||||++
T Consensus 449 L~v~~~~~~~------------------------------------~~s~~t~~l~~k~r~k~l~~f~~g~i~vLIcSD~ 492 (620)
T KOG0350|consen 449 LKVEFCSDNF------------------------------------KVSEFTGQLNGKRRYKMLEKFAKGDINVLICSDA 492 (620)
T ss_pred HHHHhccccc------------------------------------hhhhhhhhhhHHHHHHHHHHHhcCCceEEEehhh
Confidence 8644432211 1445789999999999999999999999999999
Q ss_pred ccccCCCCCceEEeecCCCCCcccCcccccccccccCCCCCCCceEEEEEeChhhHHHHHhhhcc
Q 000107 879 LAAGVNLPARRVIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKIMGLLNE 943 (2191)
Q Consensus 879 La~GVNLPav~VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~~~ll~~ 943 (2191)
++||+|+.++.+||+|+.+. +..+|+||+||++|+| ..|.||.+....+...|.++++.
T Consensus 493 laRGiDv~~v~~VINYd~P~----~~ktyVHR~GRTARAg--q~G~a~tll~~~~~r~F~klL~~ 551 (620)
T KOG0350|consen 493 LARGIDVNDVDNVINYDPPA----SDKTYVHRAGRTARAG--QDGYAITLLDKHEKRLFSKLLKK 551 (620)
T ss_pred hhcCCcccccceEeecCCCc----hhhHHHHhhccccccc--CCceEEEeeccccchHHHHHHHH
Confidence 99999999999999988765 8889999999999999 78999999999887777777654
No 68
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=2.2e-33 Score=341.02 Aligned_cols=413 Identities=20% Similarity=0.251 Sum_probs=320.9
Q ss_pred CCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCC-EEEEEchhHHHHHHHHHHHH-HHhhccCC
Q 000107 522 ISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGK-MALLVLPYVSICAEKAEHLE-VLLEPLGR 599 (2191)
Q Consensus 522 i~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~-kaL~I~P~raLA~q~~~~l~-~l~~~lg~ 599 (2191)
.--.|++-.+.+.. +.+++.+||.|.||||||+.....+...-...++ ++-+..|+|-.|..++.++. ++...+|.
T Consensus 263 sLPVy~ykdell~a--v~e~QVLiI~GeTGSGKTTQiPQyL~EaGytk~gk~IgcTQPRRVAAmSVAaRVA~EMgvkLG~ 340 (902)
T KOG0923|consen 263 SLPVYPYKDELLKA--VKEHQVLIIVGETGSGKTTQIPQYLYEAGYTKGGKKIGCTQPRRVAAMSVAARVAEEMGVKLGH 340 (902)
T ss_pred cCCchhhHHHHHHH--HHhCcEEEEEcCCCCCccccccHHHHhcccccCCceEeecCcchHHHHHHHHHHHHHhCccccc
Confidence 33557777788866 8899999999999999999998888776555444 58899999999999987764 33334444
Q ss_pred eEEEEeccCCCCCCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHhhcCCCC
Q 000107 600 HVRSYYGNQGGGSLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAAGEGTS 679 (2191)
Q Consensus 600 ~V~~~~G~~~~~~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~~~ 679 (2191)
.|+ |....+......+-|-++|.++ |++.++..+.|..+++|||||+|+ |.-..+.++..++.++..
T Consensus 341 eVG--YsIRFEdcTSekTvlKYMTDGm---LlREfL~epdLasYSViiiDEAHE-----RTL~TDILfgLvKDIar~--- 407 (902)
T KOG0923|consen 341 EVG--YSIRFEDCTSEKTVLKYMTDGM---LLREFLSEPDLASYSVIIVDEAHE-----RTLHTDILFGLVKDIARF--- 407 (902)
T ss_pred ccc--eEEEeccccCcceeeeeecchh---HHHHHhccccccceeEEEeehhhh-----hhhhhhHHHHHHHHHHhh---
Confidence 443 2333333344567899999999 778888899999999999999998 888999999999988753
Q ss_pred CCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhh-ccccccccccccceEEEEeccccccchhhHHHHHHHhh
Q 000107 680 DSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQ-AALYETNFRPVPLEEYIKVGNAIYSKKMDVVRTILTAA 758 (2191)
Q Consensus 680 ~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~-a~l~~~~~RpvpL~e~i~~~~~~~~~~~~~~r~l~~~~ 758 (2191)
+++++++.+|||+ |++.+..|++ +.+|....|..|+..++....
T Consensus 408 -----------------RpdLKllIsSAT~-DAekFS~fFDdapIF~iPGRRyPVdi~Yt~~P----------------- 452 (902)
T KOG0923|consen 408 -----------------RPDLKLLISSATM-DAEKFSAFFDDAPIFRIPGRRYPVDIFYTKAP----------------- 452 (902)
T ss_pred -----------------CCcceEEeecccc-CHHHHHHhccCCcEEeccCcccceeeecccCC-----------------
Confidence 5889999999997 8999999997 668888888888887654211
Q ss_pred ccCCCChhHHHHHHHHHH-----hcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCC
Q 000107 759 NLGGKDPDHIVELCDEVV-----QEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAG 833 (2191)
Q Consensus 759 ~~~~~d~d~l~~Ll~e~~-----~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~g 833 (2191)
..+.+-..+..++ ++.+.+|||.....+.+.+...|...+...+...
T Consensus 453 -----EAdYldAai~tVlqIH~tqp~GDILVFltGQeEIEt~~e~l~~~~~~LGski----------------------- 504 (902)
T KOG0923|consen 453 -----EADYLDAAIVTVLQIHLTQPLGDILVFLTGQEEIETVKENLKERCRRLGSKI----------------------- 504 (902)
T ss_pred -----chhHHHHHHhhheeeEeccCCccEEEEeccHHHHHHHHHHHHHHHHHhcccc-----------------------
Confidence 1122222222222 3458999999999999988888877665543321
Q ss_pred CChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecC---------CCCC-----
Q 000107 834 LDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQP---------RIGR----- 899 (2191)
Q Consensus 834 ld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p---------~~g~----- 899 (2191)
.+++ |.++|+.|+.+.+..|++--..|..+|++||++++++++|+++.+|||.+ +.|.
T Consensus 505 -----~eli---v~PiYaNLPselQakIFePtP~gaRKVVLATNIAETSlTIdgI~yViDpGf~K~nsynprtGmesL~v 576 (902)
T KOG0923|consen 505 -----RELI---VLPIYANLPSELQAKIFEPTPPGARKVVLATNIAETSLTIDGIKYVIDPGFVKQNSYNPRTGMESLLV 576 (902)
T ss_pred -----ceEE---EeeccccCChHHHHhhcCCCCCCceeEEEeecchhhceeecCeEEEecCccccccCcCCCcCceeEEE
Confidence 1122 88999999999999999999999999999999999999999999999853 3333
Q ss_pred cccCcccccccccccCCCCCCCceEEEEEeChhhHHHHHhhhccCCCCcccccccccchhhHHHHHHHhcccccCHHHHH
Q 000107 900 DFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKIMGLLNESCPPLHSCLSEDKNGMTHAILEVVAGGIVQTAEDIH 979 (2191)
Q Consensus 900 ~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~~~ll~~~l~~l~S~L~~~~~~l~~~iLeiia~gi~~t~~di~ 979 (2191)
.++|.++..||+|||||.| +|.||.+|+...+... +-....|.|.. .++...+|.+.+.| |.
T Consensus 577 ~piSKAsA~QRaGRAGRtg---PGKCfRLYt~~aY~~e--LE~~t~PEIqR------tnL~nvVL~LkSLG-------I~ 638 (902)
T KOG0923|consen 577 TPISKASANQRAGRAGRTG---PGKCFRLYTAWAYEHE--LEEMTVPEIQR------TNLGNVVLLLKSLG-------IH 638 (902)
T ss_pred eeechhhhhhhccccCCCC---CCceEEeechhhhhhh--hccCCCcceee------ccchhHHHHHHhcC-------cc
Confidence 3688889999999999999 9999999997543332 22223455532 24667789898998 57
Q ss_pred HHHHhhhcCCCCcchhHHHHHHHHHHHHHHcccceeccCCCccCCCHHHHHHHhcCCChhhHHHHHHHH
Q 000107 980 RYVRCTLLNSTKPFQDVVKSAQDSLRWLCHRKFLEWNEDTKLYSTTPLGRAAFGSSLCPEESLIVLDDL 1048 (2191)
Q Consensus 980 ~~l~~tll~~~~~~~~~~~~~~~al~~L~~~~~i~~~~~~~~~~~T~LG~a~~~s~L~p~~a~~l~~~L 1048 (2191)
+.+.+.|+.++.. +++..||+.|--.|++.. .-.+|.+|+.|+.+|++|..++++++.=
T Consensus 639 Dl~~FdFmDpPp~-----etL~~aLE~LyaLGALn~-----~GeLTk~GrrMaEfP~dPmlsKmi~as~ 697 (902)
T KOG0923|consen 639 DLIHFDFLDPPPT-----ETLLKALEQLYALGALNH-----LGELTKLGRRMAEFPVDPMLSKMIVASE 697 (902)
T ss_pred hhcccccCCCCCh-----HHHHHHHHHHHHhhcccc-----ccchhhhhhhhhhcCCCHHHHhHHhhhc
Confidence 7788889888764 667788999999999842 2379999999999999999999988743
No 69
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=100.00 E-value=2.8e-34 Score=330.28 Aligned_cols=332 Identities=21% Similarity=0.313 Sum_probs=256.3
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHh----------cCCEEEEEch
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIS----------TGKMALLVLP 578 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~----------~g~kaL~I~P 578 (2191)
+|..+++.++++||.+|+|+|.+-|+. ++.|+++|-.|-||||||++|.+|++-..+. .|+-.|+|+|
T Consensus 177 FP~~~L~~lk~KGI~~PTpIQvQGlPv--vLsGRDmIGIAfTGSGKTlvFvLP~imf~LeqE~~lPf~~~EGP~gLiicP 254 (610)
T KOG0341|consen 177 FPKPLLRGLKKKGIVHPTPIQVQGLPV--VLSGRDMIGIAFTGSGKTLVFVLPVIMFALEQEMMLPFARGEGPYGLIICP 254 (610)
T ss_pred CCHHHHHHHHhcCCCCCCceeecCcce--EeecCceeeEEeecCCceEEEeHHHHHHHHHHHhcCccccCCCCeeEEEcC
Confidence 799999999999999999999999987 9999999999999999999999998755442 5788999999
Q ss_pred hHHHHHHHHHHHHHHhhcc---C---CeEEEEeccCCCC----CCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEE
Q 000107 579 YVSICAEKAEHLEVLLEPL---G---RHVRSYYGNQGGG----SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVI 648 (2191)
Q Consensus 579 ~raLA~q~~~~l~~l~~~l---g---~~V~~~~G~~~~~----~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVI 648 (2191)
.|+||.|.++-+..++..+ | ++.....|+...+ ....+.+|+|+||+++.+++.+ ....|+-..++++
T Consensus 255 SRELArQt~~iie~~~~~L~e~g~P~lRs~LciGG~~v~eql~~v~~GvHivVATPGRL~DmL~K--K~~sLd~CRyL~l 332 (610)
T KOG0341|consen 255 SRELARQTHDIIEQYVAALQEAGYPELRSLLCIGGVPVREQLDVVRRGVHIVVATPGRLMDMLAK--KIMSLDACRYLTL 332 (610)
T ss_pred cHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhhcCccHHHHHHHHhcCeeEEEcCcchHHHHHHH--hhccHHHHHHhhh
Confidence 9999999998887776543 2 2334445554332 2456899999999999999987 4456777899999
Q ss_pred cccccccccchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhcccccccc
Q 000107 649 DELHMVADQNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQAALYETNF 728 (2191)
Q Consensus 649 DEaH~l~d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a~l~~~~~ 728 (2191)
||++.+.|.+|...+..++..++ ...|.+++|||+| ..+..|-...++
T Consensus 333 DEADRmiDmGFEddir~iF~~FK--------------------------~QRQTLLFSATMP--~KIQ~FAkSALV---- 380 (610)
T KOG0341|consen 333 DEADRMIDMGFEDDIRTIFSFFK--------------------------GQRQTLLFSATMP--KKIQNFAKSALV---- 380 (610)
T ss_pred hhHHHHhhccchhhHHHHHHHHh--------------------------hhhheeeeecccc--HHHHHHHHhhcc----
Confidence 99999999999999999888874 3468999999998 455555443332
Q ss_pred ccccceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhccc
Q 000107 729 RPVPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSI 808 (2191)
Q Consensus 729 RpvpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~ 808 (2191)
.||.+ .+ +.. -....+++..+.... ....++.++.-+-+...++||||..+..+..+...|.- .+
T Consensus 381 KPvtv--NV--GRA-GAAsldViQevEyVk-----qEaKiVylLeCLQKT~PpVLIFaEkK~DVD~IhEYLLl----KG- 445 (610)
T KOG0341|consen 381 KPVTV--NV--GRA-GAASLDVIQEVEYVK-----QEAKIVYLLECLQKTSPPVLIFAEKKADVDDIHEYLLL----KG- 445 (610)
T ss_pred cceEE--ec--ccc-cccchhHHHHHHHHH-----hhhhhhhHHHHhccCCCceEEEeccccChHHHHHHHHH----cc-
Confidence 23322 11 111 011122222221111 12344555554445568999999998887766655521 11
Q ss_pred ccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCc
Q 000107 809 NVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPAR 888 (2191)
Q Consensus 809 ~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav 888 (2191)
.-+..+|||-.+++|...+++|+.|+-.|||||++++.|+|+|++
T Consensus 446 -----------------------------------VEavaIHGGKDQedR~~ai~afr~gkKDVLVATDVASKGLDFp~i 490 (610)
T KOG0341|consen 446 -----------------------------------VEAVAIHGGKDQEDRHYAIEAFRAGKKDVLVATDVASKGLDFPDI 490 (610)
T ss_pred -----------------------------------ceeEEeecCcchhHHHHHHHHHhcCCCceEEEecchhccCCCccc
Confidence 116678999999999999999999999999999999999999999
Q ss_pred eEEeecCCCCCcccCcccccccccccCCCCCCCceEEEEEeChh
Q 000107 889 RVIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPE 932 (2191)
Q Consensus 889 ~VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~ 932 (2191)
.+||+++++. .+..|.||+||+||.| +.|.+..|.+..
T Consensus 491 qHVINyDMP~----eIENYVHRIGRTGRsg--~~GiATTfINK~ 528 (610)
T KOG0341|consen 491 QHVINYDMPE----EIENYVHRIGRTGRSG--KTGIATTFINKN 528 (610)
T ss_pred hhhccCCChH----HHHHHHHHhcccCCCC--Ccceeeeeeccc
Confidence 9999999987 8899999999999999 899999988763
No 70
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=6.5e-33 Score=320.30 Aligned_cols=352 Identities=18% Similarity=0.183 Sum_probs=247.7
Q ss_pred CCCCCCCCCCcCCcCCCCcHHHHHHHHHcCCCCCCHHHHHhhhhccccc--CCeEEEEcCCCCchhHHHHHHHHHHHHh-
Q 000107 492 TPSSSGMLKDCLDLSSWLPSEICSIYKKRGISKLYPWQVECLHVDGVLQ--RRNLVYCASTSAGKSFVAEILMLRRLIS- 568 (2191)
Q Consensus 492 ~P~~~~~~~e~l~L~~~Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~--gknlIi~APTGSGKTlvael~iL~~ll~- 568 (2191)
.|..+...++.|.|. +++++.+..++|.+|..+|..++|. ++. .+|+|..+..|+|||.+|.+.||.++.-
T Consensus 84 sPlyS~ksFeeL~Lk----Pellkgly~M~F~kPskIQe~aLPl--ll~~Pp~nlIaQsqsGtGKTaaFvL~MLsrvd~~ 157 (477)
T KOG0332|consen 84 SPLYSAKSFEELRLK----PELLKGLYAMKFQKPSKIQETALPL--LLAEPPQNLIAQSQSGTGKTAAFVLTMLSRVDPD 157 (477)
T ss_pred CCccccccHHhhCCC----HHHHhHHHHhccCCcchHHHhhcch--hhcCCchhhhhhhcCCCchhHHHHHHHHHhcCcc
Confidence 344455555555555 6788877789999999999999987 554 6999999999999999999999988754
Q ss_pred -cCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccC-CCCCCCCCCceEEEchHHHHHHHHHhhhcCCCCccceE
Q 000107 569 -TGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQ-GGGSLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGII 646 (2191)
Q Consensus 569 -~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~-~~~~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lV 646 (2191)
.-+.+++|+|+|+||.|..+.+.+.....++++....-+. ...-..-..+|+|+||+.+.++..++ ....+..+.++
T Consensus 158 ~~~PQ~iCLaPtrELA~Q~~eVv~eMGKf~~ita~yair~sk~~rG~~i~eqIviGTPGtv~Dlm~kl-k~id~~kikvf 236 (477)
T KOG0332|consen 158 VVVPQCICLAPTRELAPQTGEVVEEMGKFTELTASYAIRGSKAKRGNKLTEQIVIGTPGTVLDLMLKL-KCIDLEKIKVF 236 (477)
T ss_pred ccCCCceeeCchHHHHHHHHHHHHHhcCceeeeEEEEecCcccccCCcchhheeeCCCccHHHHHHHH-HhhChhhceEE
Confidence 3568999999999999999999888766655544332222 11111113589999999999988764 44568889999
Q ss_pred EEccccccccc-chhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhccccc
Q 000107 647 VIDELHMVADQ-NRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQAALYE 725 (2191)
Q Consensus 647 VIDEaH~l~d~-~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a~l~~ 725 (2191)
|+||++.+.+. +++..--.|. . ..+++.|+|++|||.. +.++.|...-+
T Consensus 237 VlDEAD~Mi~tqG~~D~S~rI~----~----------------------~lP~~~QllLFSATf~--e~V~~Fa~kiv-- 286 (477)
T KOG0332|consen 237 VLDEADVMIDTQGFQDQSIRIM----R----------------------SLPRNQQLLLFSATFV--EKVAAFALKIV-- 286 (477)
T ss_pred Eecchhhhhhcccccccchhhh----h----------------------hcCCcceEEeeechhH--HHHHHHHHHhc--
Confidence 99999988875 2332221111 1 1246899999999975 34444432111
Q ss_pred cccccccceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHh--cCCcEEEEeCchhHHHHHHHHHHHHH
Q 000107 726 TNFRPVPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQ--EGHSVLIFCSSRKGCESTARHVSKFL 803 (2191)
Q Consensus 726 ~~~RpvpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~--~g~~vLVF~~Sr~~~e~lA~~L~~~l 803 (2191)
++-.++ .++.... ....++.++ +.+...+.-.+.+.++.. .-++.||||.|++.+.+++..+...
T Consensus 287 pn~n~i----~Lk~eel----~L~~IkQly----v~C~~~~~K~~~l~~lyg~~tigqsiIFc~tk~ta~~l~~~m~~~- 353 (477)
T KOG0332|consen 287 PNANVI----ILKREEL----ALDNIKQLY----VLCACRDDKYQALVNLYGLLTIGQSIIFCHTKATAMWLYEEMRAE- 353 (477)
T ss_pred CCCcee----eeehhhc----cccchhhhe----eeccchhhHHHHHHHHHhhhhhhheEEEEeehhhHHHHHHHHHhc-
Confidence 111111 1111000 000111111 111112222222222322 2268999999999999888877542
Q ss_pred hhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccC
Q 000107 804 KKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGV 883 (2191)
Q Consensus 804 ~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GV 883 (2191)
++.|..+||+|+.++|..+.+.||.|.-+|||+|++++|||
T Consensus 354 ---------------------------------------Gh~V~~l~G~l~~~~R~~ii~~Fr~g~~kVLitTnV~ARGi 394 (477)
T KOG0332|consen 354 ---------------------------------------GHQVSLLHGDLTVEQRAAIIDRFREGKEKVLITTNVCARGI 394 (477)
T ss_pred ---------------------------------------CceeEEeeccchhHHHHHHHHHHhcCcceEEEEechhhccc
Confidence 23489999999999999999999999999999999999999
Q ss_pred CCCCceEEeecCCCC--CcccCcccccccccccCCCCCCCceEEEEEeChhhH
Q 000107 884 NLPARRVIFRQPRIG--RDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEV 934 (2191)
Q Consensus 884 NLPav~VVI~~p~~g--~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~ 934 (2191)
|++.+.+||+++.+- ....+...|+||+||+||.| +.|.+|-++...+.
T Consensus 395 Dv~qVs~VvNydlP~~~~~~pD~etYlHRiGRtGRFG--kkG~a~n~v~~~~s 445 (477)
T KOG0332|consen 395 DVAQVSVVVNYDLPVKYTGEPDYETYLHRIGRTGRFG--KKGLAINLVDDKDS 445 (477)
T ss_pred ccceEEEEEecCCccccCCCCCHHHHHHHhccccccc--ccceEEEeecccCc
Confidence 999999999987652 23357889999999999999 89999999887543
No 71
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1.4e-33 Score=363.58 Aligned_cols=338 Identities=24% Similarity=0.374 Sum_probs=268.3
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHh-------cCCEEEEEchhHH
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIS-------TGKMALLVLPYVS 581 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~-------~g~kaL~I~P~ra 581 (2191)
+...++..+++.||.+++|+|.+|||. |..|+++|..|-||||||+.|.+||++++.. +|+.+||++|||+
T Consensus 372 l~~~il~tlkkl~y~k~~~IQ~qAiP~--ImsGrdvIgvakTgSGKT~af~LPmirhi~dQr~~~~gdGPi~li~aPtre 449 (997)
T KOG0334|consen 372 LSSKILETLKKLGYEKPTPIQAQAIPA--IMSGRDVIGVAKTGSGKTLAFLLPMIRHIKDQRPLEEGDGPIALILAPTRE 449 (997)
T ss_pred chHHHHHHHHHhcCCCCcchhhhhcch--hccCcceEEeeccCCccchhhhcchhhhhhcCCChhhCCCceEEEEcCCHH
Confidence 668888888999999999999999987 9999999999999999999999999988874 4789999999999
Q ss_pred HHHHHHHHHHHHhhccCCeEEEEeccCCCC----CCCCCCceEEEchHHHHHHHHHhhhcC---CCCccceEEEcccccc
Q 000107 582 ICAEKAEHLEVLLEPLGRHVRSYYGNQGGG----SLPKDTSVAVCTIEKANSLVNRMLEEG---RLSEIGIIVIDELHMV 654 (2191)
Q Consensus 582 LA~q~~~~l~~l~~~lg~~V~~~~G~~~~~----~l~~~~~IiV~TpEkl~~Ll~~l~~~~---~L~~l~lVVIDEaH~l 654 (2191)
||.|+.+++..+...+++++...||+.... .+.+++.|+||||+++.+++-. ..+ .+.++.+||+||+|.|
T Consensus 450 la~QI~r~~~kf~k~l~ir~v~vygg~~~~~qiaelkRg~eIvV~tpGRmiD~l~~--n~grvtnlrR~t~lv~deaDrm 527 (997)
T KOG0334|consen 450 LAMQIHREVRKFLKLLGIRVVCVYGGSGISQQIAELKRGAEIVVCTPGRMIDILCA--NSGRVTNLRRVTYLVLDEADRM 527 (997)
T ss_pred HHHHHHHHHHHHHhhcCceEEEecCCccHHHHHHHHhcCCceEEeccchhhhhHhh--cCCccccccccceeeechhhhh
Confidence 999999999999999999999999987643 2556799999999999887653 333 4666679999999999
Q ss_pred cccchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC-HHHHHHHhhccccccccccccc
Q 000107 655 ADQNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN-VAAVADWLQAALYETNFRPVPL 733 (2191)
Q Consensus 655 ~d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N-~~~la~wL~a~l~~~~~RpvpL 733 (2191)
.|.++.++...||..+ ++..|.|++|||++. +..++.-+.. . |+
T Consensus 528 fdmgfePq~~~Ii~nl--------------------------rpdrQtvlfSatfpr~m~~la~~vl~-------~--Pv 572 (997)
T KOG0334|consen 528 FDMGFEPQITRILQNL--------------------------RPDRQTVLFSATFPRSMEALARKVLK-------K--PV 572 (997)
T ss_pred heeccCcccchHHhhc--------------------------chhhhhhhhhhhhhHHHHHHHHHhhc-------C--Ce
Confidence 9999999888888777 367899999999985 4444433221 2 33
Q ss_pred eEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCC
Q 000107 734 EEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSS 813 (2191)
Q Consensus 734 ~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~ 813 (2191)
+..+.....++......++ .......+..++.+|+.+... ..++||||.....|..+.+.|.+.
T Consensus 573 eiiv~~~svV~k~V~q~v~----V~~~e~eKf~kL~eLl~e~~e-~~~tiiFv~~qe~~d~l~~~L~~a----------- 636 (997)
T KOG0334|consen 573 EIIVGGRSVVCKEVTQVVR----VCAIENEKFLKLLELLGERYE-DGKTIIFVDKQEKADALLRDLQKA----------- 636 (997)
T ss_pred eEEEccceeEeccceEEEE----EecCchHHHHHHHHHHHHHhh-cCCEEEEEcCchHHHHHHHHHHhc-----------
Confidence 3322211111111110000 001112345567777776654 679999999999999888877531
Q ss_pred CchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEee
Q 000107 814 DSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFR 893 (2191)
Q Consensus 814 ~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~ 893 (2191)
++.+..+|||.++.+|..+++.|++|.+.+||||+++++|+|++...+||+
T Consensus 637 -----------------------------g~~~~slHGgv~q~dR~sti~dfK~~~~~LLvaTsvvarGLdv~~l~Lvvn 687 (997)
T KOG0334|consen 637 -----------------------------GYNCDSLHGGVDQHDRSSTIEDFKNGVVNLLVATSVVARGLDVKELILVVN 687 (997)
T ss_pred -----------------------------CcchhhhcCCCchHHHHhHHHHHhccCceEEEehhhhhcccccccceEEEE
Confidence 112334899999999999999999999999999999999999999999999
Q ss_pred cCCCCCcccCcccccccccccCCCCCCCceEEEEEeChhhHHH
Q 000107 894 QPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKK 936 (2191)
Q Consensus 894 ~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~ 936 (2191)
+..+. ...+|.||+||+||+| ..|.|+.|.++++.++
T Consensus 688 yd~pn----h~edyvhR~gRTgrag--rkg~AvtFi~p~q~~~ 724 (997)
T KOG0334|consen 688 YDFPN----HYEDYVHRVGRTGRAG--RKGAAVTFITPDQLKY 724 (997)
T ss_pred cccch----hHHHHHHHhcccccCC--ccceeEEEeChHHhhh
Confidence 98876 5567999999999999 8999999999965443
No 72
>PHA02653 RNA helicase NPH-II; Provisional
Probab=100.00 E-value=5.4e-32 Score=354.12 Aligned_cols=390 Identities=17% Similarity=0.204 Sum_probs=259.9
Q ss_pred HHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHH---------HHHHH----h-cCCEEEEEchhHHHHHHHHHHHHH
Q 000107 527 PWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILM---------LRRLI----S-TGKMALLVLPYVSICAEKAEHLEV 592 (2191)
Q Consensus 527 p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~i---------L~~ll----~-~g~kaL~I~P~raLA~q~~~~l~~ 592 (2191)
.+|.++++. +++|+++|+.|+||||||++....+ +..+. . .++++++++|+|+||.|+..++.+
T Consensus 167 ~iQ~qil~~--i~~gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~PrreLa~qi~~~i~~ 244 (675)
T PHA02653 167 DVQLKIFEA--WISRKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPRVALVRLHSITLLK 244 (675)
T ss_pred HHHHHHHHH--HHhCCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCcEEEEECcHHHHHHHHHHHHHH
Confidence 479999987 8999999999999999999854333 22221 1 356899999999999999988876
Q ss_pred Hhhc---cCCeEEEEeccCCCC---CCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHH
Q 000107 593 LLEP---LGRHVRSYYGNQGGG---SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELL 666 (2191)
Q Consensus 593 l~~~---lg~~V~~~~G~~~~~---~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~l 666 (2191)
..+. .|..|...+|+.... ...+..+|+|+|+.. ....+.++++|||||+|++... + +.+
T Consensus 245 ~vg~~~~~g~~v~v~~Gg~~~~~~~t~~k~~~Ilv~T~~L---------~l~~L~~v~~VVIDEaHEr~~~--~---Dll 310 (675)
T PHA02653 245 SLGFDEIDGSPISLKYGSIPDELINTNPKPYGLVFSTHKL---------TLNKLFDYGTVIIDEVHEHDQI--G---DII 310 (675)
T ss_pred HhCccccCCceEEEEECCcchHHhhcccCCCCEEEEeCcc---------cccccccCCEEEccccccCccc--h---hHH
Confidence 5543 256677888887532 122356899999652 2235788999999999998664 3 334
Q ss_pred HHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCC-CHHHHHHHhhcc-cccccccc-ccceEEEEecccc
Q 000107 667 LTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMP-NVAAVADWLQAA-LYETNFRP-VPLEEYIKVGNAI 743 (2191)
Q Consensus 667 L~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~-N~~~la~wL~a~-l~~~~~Rp-vpL~e~i~~~~~~ 743 (2191)
+..++... ....|+++||||++ +.+.+.+|++.. .+....+. .|+++++......
T Consensus 311 L~llk~~~----------------------~~~rq~ILmSATl~~dv~~l~~~~~~p~~I~I~grt~~pV~~~yi~~~~~ 368 (675)
T PHA02653 311 IAVARKHI----------------------DKIRSLFLMTATLEDDRDRIKEFFPNPAFVHIPGGTLFPISEVYVKNKYN 368 (675)
T ss_pred HHHHHHhh----------------------hhcCEEEEEccCCcHhHHHHHHHhcCCcEEEeCCCcCCCeEEEEeecCcc
Confidence 44443321 12248999999997 467788888632 23333332 4555443211110
Q ss_pred ccchhhHHHHHHHhhccCCCChhHHHHHHHHHH-hcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHH
Q 000107 744 YSKKMDVVRTILTAANLGGKDPDHIVELCDEVV-QEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITS 822 (2191)
Q Consensus 744 ~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~-~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~ 822 (2191)
......... .....+...+.... ..++++||||+++.+|+.++..|.+..+
T Consensus 369 ~~~~~~y~~----------~~k~~~l~~L~~~~~~~~g~iLVFlpg~~ei~~l~~~L~~~~~------------------ 420 (675)
T PHA02653 369 PKNKRAYIE----------EEKKNIVTALKKYTPPKGSSGIVFVASVSQCEEYKKYLEKRLP------------------ 420 (675)
T ss_pred cccchhhhH----------HHHHHHHHHHHHhhcccCCcEEEEECcHHHHHHHHHHHHhhcC------------------
Confidence 000000000 01112233333222 2357999999999999999888864320
Q ss_pred HHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHh-hcCCceEEEecccccccCCCCCceEEeecCC---C-
Q 000107 823 AIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCY-RKGLVRVLTATSTLAAGVNLPARRVIFRQPR---I- 897 (2191)
Q Consensus 823 ~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~F-r~G~ikVLVATstLa~GVNLPav~VVI~~p~---~- 897 (2191)
...+..+||+|++. +.+++.| ++|..+|||||+++++|||||++++|||++. +
T Consensus 421 --------------------~~~v~~LHG~Lsq~--eq~l~~ff~~gk~kILVATdIAERGIDIp~V~~VID~G~~k~p~ 478 (675)
T PHA02653 421 --------------------IYDFYIIHGKVPNI--DEILEKVYSSKNPSIIISTPYLESSVTIRNATHVYDTGRVYVPE 478 (675)
T ss_pred --------------------CceEEeccCCcCHH--HHHHHHHhccCceeEEeccChhhccccccCeeEEEECCCccCCC
Confidence 12288899999975 3555666 7899999999999999999999999999862 1
Q ss_pred ---C-CcccCcccccccccccCCCCCCCceEEEEEeChhhHHHHHhhhccCCCCcccccccccchhhHHHHHHHhccccc
Q 000107 898 ---G-RDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKIMGLLNESCPPLHSCLSEDKNGMTHAILEVVAGGIVQ 973 (2191)
Q Consensus 898 ---g-~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~~~ll~~~l~~l~S~L~~~~~~l~~~iLeiia~gi~~ 973 (2191)
+ ..++|.++|.||+|||||.+ +|.||.++++++... +... +...+...+|++.+-|+ .
T Consensus 479 ~~~g~~~~iSkasa~QRaGRAGR~~---~G~c~rLyt~~~~~p-----------I~ri---~~~~L~~~vL~lk~~g~-~ 540 (675)
T PHA02653 479 PFGGKEMFISKSMRTQRKGRVGRVS---PGTYVYFYDLDLLKP-----------IKRI---DSEFLHNYILYAKYFNL-T 540 (675)
T ss_pred cccCcccccCHHHHHHhccCcCCCC---CCeEEEEECHHHhHH-----------HHHH---hHHHHHHHHHHHHHcCC-C
Confidence 1 23678999999999999996 899999999876421 2111 11246677888888885 2
Q ss_pred CHHHHHHHHHhhhcCCCCcchhHHHHHHHHHHHHHHcccceeccCCCccCCCHH--HHHHHhcCCChhhHHHHH
Q 000107 974 TAEDIHRYVRCTLLNSTKPFQDVVKSAQDSLRWLCHRKFLEWNEDTKLYSTTPL--GRAAFGSSLCPEESLIVL 1045 (2191)
Q Consensus 974 t~~di~~~l~~tll~~~~~~~~~~~~~~~al~~L~~~~~i~~~~~~~~~~~T~L--G~a~~~s~L~p~~a~~l~ 1045 (2191)
..++ + |+.++. .+++..|++.|...|+.. + .+|.| |+-++.. +.|+.++
T Consensus 541 ~~~~----~---~ldpP~-----~~~l~~A~~~L~~lga~~---~----~l~~l~~~~~~~~~----~~~k~~~ 591 (675)
T PHA02653 541 LPED----L---FVIPSN-----LDRLRKTEEYIDSFNISI---E----KWYEILSNYYVNML----EYAKIYV 591 (675)
T ss_pred Cccc----c---cCCCCC-----HHHHHHHHHHHHHcCCCc---h----hhhhhhccccHHHH----HHhHHHh
Confidence 2211 1 455443 367788999999999763 1 47888 7766544 4555443
No 73
>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=7.9e-32 Score=326.96 Aligned_cols=413 Identities=20% Similarity=0.259 Sum_probs=319.1
Q ss_pred CCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHH-HhhccCCeE
Q 000107 523 SKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEV-LLEPLGRHV 601 (2191)
Q Consensus 523 ~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~-l~~~lg~~V 601 (2191)
--.+..+.+.+.. +..++.+||.+.||||||+.....++..-....+.+-+..|+|..|..+++++.. +...+|-.|
T Consensus 355 LPvf~~R~~ll~~--ir~n~vvvivgETGSGKTTQl~QyL~edGY~~~GmIGcTQPRRvAAiSVAkrVa~EM~~~lG~~V 432 (1042)
T KOG0924|consen 355 LPVFACRDQLLSV--IRENQVVVIVGETGSGKTTQLAQYLYEDGYADNGMIGCTQPRRVAAISVAKRVAEEMGVTLGDTV 432 (1042)
T ss_pred cchHHHHHHHHHH--HhhCcEEEEEecCCCCchhhhHHHHHhcccccCCeeeecCchHHHHHHHHHHHHHHhCCcccccc
Confidence 3456677787776 7889999999999999999988888776666677899999999999999988754 333455555
Q ss_pred EEEeccCCCCCCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHhhcCCCCCC
Q 000107 602 RSYYGNQGGGSLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAAGEGTSDS 681 (2191)
Q Consensus 602 ~~~~G~~~~~~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~~~~s 681 (2191)
+ |....+.-...++.|-++|.+. |++..+.+..|..+++||+||+|+ |..+.+.++..++....+
T Consensus 433 G--YsIRFEdvT~~~T~IkymTDGi---LLrEsL~d~~L~kYSviImDEAHE-----RslNtDilfGllk~~lar----- 497 (1042)
T KOG0924|consen 433 G--YSIRFEDVTSEDTKIKYMTDGI---LLRESLKDRDLDKYSVIIMDEAHE-----RSLNTDILFGLLKKVLAR----- 497 (1042)
T ss_pred c--eEEEeeecCCCceeEEEeccch---HHHHHhhhhhhhheeEEEechhhh-----cccchHHHHHHHHHHHHh-----
Confidence 4 2222333344678899999998 677777888999999999999998 888889998888877543
Q ss_pred CCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhh-ccccccccccccceEEEEeccccccchhhHHHHHHHhhcc
Q 000107 682 SSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQ-AALYETNFRPVPLEEYIKVGNAIYSKKMDVVRTILTAANL 760 (2191)
Q Consensus 682 ~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~-a~l~~~~~RpvpL~e~i~~~~~~~~~~~~~~r~l~~~~~~ 760 (2191)
+.++++|.+|||+ |++.++.|+| +..|....|..|++..+.-..
T Consensus 498 ---------------RrdlKliVtSATm-~a~kf~nfFgn~p~f~IpGRTyPV~~~~~k~p------------------- 542 (1042)
T KOG0924|consen 498 ---------------RRDLKLIVTSATM-DAQKFSNFFGNCPQFTIPGRTYPVEIMYTKTP------------------- 542 (1042)
T ss_pred ---------------hccceEEEeeccc-cHHHHHHHhCCCceeeecCCccceEEEeccCc-------------------
Confidence 4589999999998 8999999999 888889999999876543111
Q ss_pred CCCChhHHHHHHHHHH-----hcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCC
Q 000107 761 GGKDPDHIVELCDEVV-----QEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLD 835 (2191)
Q Consensus 761 ~~~d~d~l~~Ll~e~~-----~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld 835 (2191)
..|.+...+...+ ...+.+|||.+....++.++..|...+...... +.
T Consensus 543 ---~eDYVeaavkq~v~Ihl~~~~GdilIfmtGqediE~t~~~i~~~l~ql~~~---------------------~~--- 595 (1042)
T KOG0924|consen 543 ---VEDYVEAAVKQAVQIHLSGPPGDILIFMTGQEDIECTCDIIKEKLEQLDSA---------------------PT--- 595 (1042)
T ss_pred ---hHHHHHHHHhhheEeeccCCCCCEEEecCCCcchhHHHHHHHHHHHhhhcC---------------------CC---
Confidence 1112222222221 123789999999999999888887765432111 00
Q ss_pred hhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecC---------CCCCc-----c
Q 000107 836 PVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQP---------RIGRD-----F 901 (2191)
Q Consensus 836 ~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p---------~~g~~-----~ 901 (2191)
-...|..+|+.|+.+-+..|++.-..|..+|||||++++.++++|++++||+.+ ..|.+ +
T Consensus 596 ------~~L~vlpiYSQLp~dlQ~kiFq~a~~~vRK~IvATNIAETSLTi~gI~yVID~Gy~K~kvyn~~~G~D~L~~~p 669 (1042)
T KOG0924|consen 596 ------TDLAVLPIYSQLPADLQAKIFQKAEGGVRKCIVATNIAETSLTIPGIRYVIDTGYCKLKVYNPRIGMDALQIVP 669 (1042)
T ss_pred ------CceEEEeehhhCchhhhhhhcccCCCCceeEEEeccchhhceeecceEEEEecCceeeeecccccccceeEEEe
Confidence 112388999999999999999999999999999999999999999999999953 44533 6
Q ss_pred cCcccccccccccCCCCCCCceEEEEEeChhhHHHHHhhhccCCCCcccccccccchhhHHHHHHHhcccccCHHHHHHH
Q 000107 902 IDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKIMGLLNESCPPLHSCLSEDKNGMTHAILEVVAGGIVQTAEDIHRY 981 (2191)
Q Consensus 902 is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~~~ll~~~l~~l~S~L~~~~~~l~~~iLeiia~gi~~t~~di~~~ 981 (2191)
||.+...||+|||||.| +|.||.+|+.+.+ ..+++...+|.|... ++...+|-+.+.| +.+.
T Consensus 670 IS~AnA~QRaGRAGRt~---pG~cYRlYTe~ay--~~eml~stvPEIqRT------Nl~nvVLlLkslg-------V~dl 731 (1042)
T KOG0924|consen 670 ISQANADQRAGRAGRTG---PGTCYRLYTEDAY--KNEMLPSTVPEIQRT------NLSNVVLLLKSLG-------VDDL 731 (1042)
T ss_pred chhccchhhccccCCCC---CcceeeehhhhHH--HhhcccCCCchhhhc------chhhHHHHHHhcC-------hhhh
Confidence 78889999999999999 9999999998543 346788888877433 4667788888887 4555
Q ss_pred HHhhhcCCCCcchhHHHHHHHHHHHHHHcccceeccCCCccCCCHHHHHHHhcCCChhhHHHHHHHH
Q 000107 982 VRCTLLNSTKPFQDVVKSAQDSLRWLCHRKFLEWNEDTKLYSTTPLGRAAFGSSLCPEESLIVLDDL 1048 (2191)
Q Consensus 982 l~~tll~~~~~~~~~~~~~~~al~~L~~~~~i~~~~~~~~~~~T~LG~a~~~s~L~p~~a~~l~~~L 1048 (2191)
+.+.|+.++. .+.+..++-.|--.|+|.- . -.+|++|+.|+.++|+|..+++++-..
T Consensus 732 l~FdFmD~Pp-----ed~~~~sly~Lw~LGAl~~--~---g~LT~lG~~MvefpLDP~lsKmll~a~ 788 (1042)
T KOG0924|consen 732 LKFDFMDPPP-----EDNLLNSLYQLWTLGALDN--T---GQLTPLGRKMVEFPLDPPLSKMLLMAA 788 (1042)
T ss_pred hCCCcCCCCH-----HHHHHHHHHHHHHhhcccc--C---CccchhhHHhhhCCCCchHHHHHHHHh
Confidence 6667777654 3567788888888999852 1 259999999999999999999987654
No 74
>TIGR00580 mfd transcription-repair coupling factor (mfd). All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transacribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families.
Probab=100.00 E-value=1.6e-31 Score=360.45 Aligned_cols=313 Identities=17% Similarity=0.256 Sum_probs=226.8
Q ss_pred HHHHHHHH-HcCCCCCCHHHHHhhhhcccccC------CeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHH
Q 000107 511 SEICSIYK-KRGISKLYPWQVECLHVDGVLQR------RNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSIC 583 (2191)
Q Consensus 511 ~~l~~~l~-~~Gi~~l~p~Q~eal~~~~il~g------knlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA 583 (2191)
..+.+.+. ..+| +|++.|.+||+. ++.+ +|.+++||||+|||.+|.++++..+. .+++++|++||++||
T Consensus 438 ~~~~~~~~~~~~f-~~T~~Q~~aI~~--I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~-~g~qvlvLvPT~~LA 513 (926)
T TIGR00580 438 LEWQQEFEDSFPF-EETPDQLKAIEE--IKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVL-DGKQVAVLVPTTLLA 513 (926)
T ss_pred HHHHHHHHHhCCC-CCCHHHHHHHHH--HHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHH-hCCeEEEEeCcHHHH
Confidence 34444444 4688 599999999986 6653 79999999999999999999998775 578999999999999
Q ss_pred HHHHHHHHHHhhccCCeEEEEeccCCCCC-------C-CCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEccccccc
Q 000107 584 AEKAEHLEVLLEPLGRHVRSYYGNQGGGS-------L-PKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVA 655 (2191)
Q Consensus 584 ~q~~~~l~~l~~~lg~~V~~~~G~~~~~~-------l-~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~ 655 (2191)
.|+++.|++++..+++++..++|...... + ...++|+|+||. ++. ....++++++|||||+|+++
T Consensus 514 ~Q~~~~f~~~~~~~~i~v~~Lsg~~~~~e~~~~~~~l~~g~~dIVIGTp~----ll~---~~v~f~~L~llVIDEahrfg 586 (926)
T TIGR00580 514 QQHFETFKERFANFPVTIELLSRFRSAKEQNEILKELASGKIDILIGTHK----LLQ---KDVKFKDLGLLIIDEEQRFG 586 (926)
T ss_pred HHHHHHHHHHhccCCcEEEEEeccccHHHHHHHHHHHHcCCceEEEchHH----Hhh---CCCCcccCCEEEeecccccc
Confidence 99999999999988999988887654211 1 235899999994 332 34468899999999999964
Q ss_pred ccchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhcc----cc-cccccc
Q 000107 656 DQNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQAA----LY-ETNFRP 730 (2191)
Q Consensus 656 d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a~----l~-~~~~Rp 730 (2191)
. .....+..+ ..++|+++||||+ .+..+...+... ++ ......
T Consensus 587 v-----~~~~~L~~~--------------------------~~~~~vL~~SATp-iprtl~~~l~g~~d~s~I~~~p~~R 634 (926)
T TIGR00580 587 V-----KQKEKLKEL--------------------------RTSVDVLTLSATP-IPRTLHMSMSGIRDLSIIATPPEDR 634 (926)
T ss_pred h-----hHHHHHHhc--------------------------CCCCCEEEEecCC-CHHHHHHHHhcCCCcEEEecCCCCc
Confidence 3 222222222 2468999999995 344444332211 11 001111
Q ss_pred ccceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhccccc
Q 000107 731 VPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINV 810 (2191)
Q Consensus 731 vpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~ 810 (2191)
.|++.++.. .+...+...+...+..+++++||||+++.++.++..|.+.++
T Consensus 635 ~~V~t~v~~-----------------------~~~~~i~~~i~~el~~g~qv~if~n~i~~~e~l~~~L~~~~p------ 685 (926)
T TIGR00580 635 LPVRTFVME-----------------------YDPELVREAIRRELLRGGQVFYVHNRIESIEKLATQLRELVP------ 685 (926)
T ss_pred cceEEEEEe-----------------------cCHHHHHHHHHHHHHcCCeEEEEECCcHHHHHHHHHHHHhCC------
Confidence 122222210 011122233333445678999999999999988887765321
Q ss_pred CCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceE
Q 000107 811 HSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRV 890 (2191)
Q Consensus 811 ~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~V 890 (2191)
...|+.+||+|++++|+.+++.|++|+++|||||+++++|||+|++++
T Consensus 686 --------------------------------~~~v~~lHG~m~~~eRe~im~~F~~Gk~~ILVaT~iie~GIDIp~v~~ 733 (926)
T TIGR00580 686 --------------------------------EARIAIAHGQMTENELEEVMLEFYKGEFQVLVCTTIIETGIDIPNANT 733 (926)
T ss_pred --------------------------------CCeEEEecCCCCHHHHHHHHHHHHcCCCCEEEECChhhcccccccCCE
Confidence 123889999999999999999999999999999999999999999988
Q ss_pred EeecCCCCCcccCcccccccccccCCCCCCCceEEEEEeChh
Q 000107 891 IFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPE 932 (2191)
Q Consensus 891 VI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~ 932 (2191)
||..... .....+|.||+||+||.| ..|.||+++.+.
T Consensus 734 VIi~~a~---~~gls~l~Qr~GRvGR~g--~~g~aill~~~~ 770 (926)
T TIGR00580 734 IIIERAD---KFGLAQLYQLRGRVGRSK--KKAYAYLLYPHQ 770 (926)
T ss_pred EEEecCC---CCCHHHHHHHhcCCCCCC--CCeEEEEEECCc
Confidence 8743221 124568999999999998 799999998653
No 75
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=100.00 E-value=2.2e-31 Score=353.58 Aligned_cols=323 Identities=21% Similarity=0.281 Sum_probs=225.9
Q ss_pred HHHHHHHHHcCCCCCCHHHHHhhhhcccccC------CeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHH
Q 000107 511 SEICSIYKKRGISKLYPWQVECLHVDGVLQR------RNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICA 584 (2191)
Q Consensus 511 ~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~g------knlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~ 584 (2191)
..+.+.+...+| +|++.|.+|++. ++.+ .|.+++||||||||++|.++++..+. .|.+++|++||++||.
T Consensus 223 ~~~~~~~~~lpf-~lt~~Q~~ai~~--I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~-~g~qvlilaPT~~LA~ 298 (630)
T TIGR00643 223 ELLTKFLASLPF-KLTRAQKRVVKE--ILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIE-AGYQVALMAPTEILAE 298 (630)
T ss_pred HHHHHHHHhCCC-CCCHHHHHHHHH--HHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHH-cCCcEEEECCHHHHHH
Confidence 334566777899 799999999986 6654 47899999999999999999988765 5889999999999999
Q ss_pred HHHHHHHHHhhccCCeEEEEeccCCCCC--------CCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccc
Q 000107 585 EKAEHLEVLLEPLGRHVRSYYGNQGGGS--------LPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVAD 656 (2191)
Q Consensus 585 q~~~~l~~l~~~lg~~V~~~~G~~~~~~--------l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d 656 (2191)
|+++.+++++..+|+++..++|+..... ....++|+|+||+.+. ....+.++++|||||+|+++.
T Consensus 299 Q~~~~~~~l~~~~gi~v~lltg~~~~~~r~~~~~~i~~g~~~IiVgT~~ll~-------~~~~~~~l~lvVIDEaH~fg~ 371 (630)
T TIGR00643 299 QHYNSLRNLLAPLGIEVALLTGSLKGKRRKELLETIASGQIHLVVGTHALIQ-------EKVEFKRLALVIIDEQHRFGV 371 (630)
T ss_pred HHHHHHHHHhcccCcEEEEEecCCCHHHHHHHHHHHhCCCCCEEEecHHHHh-------ccccccccceEEEechhhccH
Confidence 9999999999999999999999865321 1235799999998643 234578899999999999765
Q ss_pred cchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhcccccccccc-----c
Q 000107 657 QNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQAALYETNFRP-----V 731 (2191)
Q Consensus 657 ~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a~l~~~~~Rp-----v 731 (2191)
..|.. +..+.. ....+++++||||.. +..++..+...+.....+. .
T Consensus 372 ~qr~~----l~~~~~------------------------~~~~~~~l~~SATp~-prtl~l~~~~~l~~~~i~~~p~~r~ 422 (630)
T TIGR00643 372 EQRKK----LREKGQ------------------------GGFTPHVLVMSATPI-PRTLALTVYGDLDTSIIDELPPGRK 422 (630)
T ss_pred HHHHH----HHHhcc------------------------cCCCCCEEEEeCCCC-cHHHHHHhcCCcceeeeccCCCCCC
Confidence 43322 111110 012568999999953 3333322211111111111 1
Q ss_pred cceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccC
Q 000107 732 PLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVH 811 (2191)
Q Consensus 732 pL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~ 811 (2191)
|+..++. .....+.+...+.+.+..+++++|||+.....+.+...-
T Consensus 423 ~i~~~~~----------------------~~~~~~~~~~~i~~~l~~g~q~~v~~~~i~~s~~~~~~~------------ 468 (630)
T TIGR00643 423 PITTVLI----------------------KHDEKDIVYEFIEEEIAKGRQAYVVYPLIEESEKLDLKA------------ 468 (630)
T ss_pred ceEEEEe----------------------CcchHHHHHHHHHHHHHhCCcEEEEEccccccccchHHH------------
Confidence 2211111 001123445555566667899999999876544321000
Q ss_pred CCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEE
Q 000107 812 SSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVI 891 (2191)
Q Consensus 812 ~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VV 891 (2191)
.....+.+.. ..-...|+.+||+|++++|+.+++.|++|.++|||||+++++|||+|++++|
T Consensus 469 --------a~~~~~~L~~----------~~~~~~v~~lHG~m~~~eR~~i~~~F~~g~~~ILVaT~vie~GvDiP~v~~V 530 (630)
T TIGR00643 469 --------AEALYERLKK----------AFPKYNVGLLHGRMKSDEKEAVMEEFREGEVDILVATTVIEVGVDVPNATVM 530 (630)
T ss_pred --------HHHHHHHHHh----------hCCCCcEEEEeCCCCHHHHHHHHHHHHcCCCCEEEECceeecCcccCCCcEE
Confidence 0001111110 0013459999999999999999999999999999999999999999999988
Q ss_pred eecCCCCCcccCcccccccccccCCCCCCCceEEEEEeC
Q 000107 892 FRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICK 930 (2191)
Q Consensus 892 I~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~ 930 (2191)
|.+..+ ......|.||+||+||.| ..|.||+++.
T Consensus 531 Ii~~~~---r~gls~lhQ~~GRvGR~g--~~g~~il~~~ 564 (630)
T TIGR00643 531 VIEDAE---RFGLSQLHQLRGRVGRGD--HQSYCLLVYK 564 (630)
T ss_pred EEeCCC---cCCHHHHHHHhhhcccCC--CCcEEEEEEC
Confidence 764432 235678999999999998 7899999983
No 76
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=99.98 E-value=1.7e-31 Score=313.48 Aligned_cols=331 Identities=20% Similarity=0.221 Sum_probs=246.1
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHh--------cCCEEEEEchhH
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIS--------TGKMALLVLPYV 580 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~--------~g~kaL~I~P~r 580 (2191)
|++.+++++.+.||.+|+-+|..+|+. +++|+|++..|.||||||.+|++|+++.++. .+..+++++||+
T Consensus 26 LD~RllkAi~~lG~ekpTlIQs~aIpl--aLEgKDvvarArTGSGKT~AYliPllqkll~~k~t~~~e~~~sa~iLvPTk 103 (569)
T KOG0346|consen 26 LDSRLLKAITKLGWEKPTLIQSSAIPL--ALEGKDVVARARTGSGKTAAYLIPLLQKLLAEKKTNDGEQGPSAVILVPTK 103 (569)
T ss_pred CCHHHHHHHHHhCcCCcchhhhcccch--hhcCcceeeeeccCCCchHHHHHHHHHHHHHhhhcccccccceeEEEechH
Confidence 678999999999999999999999987 8999999999999999999999999999885 356899999999
Q ss_pred HHHHHHHHHHHHHhhccC--CeEEEEeccCCC----CCCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccc
Q 000107 581 SICAEKAEHLEVLLEPLG--RHVRSYYGNQGG----GSLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMV 654 (2191)
Q Consensus 581 aLA~q~~~~l~~l~~~lg--~~V~~~~G~~~~----~~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l 654 (2191)
+||+|++..+.++....+ +++.-+..+..+ ..+...++|+|+||+++..++..-. ...+..+.++|+||+|++
T Consensus 104 EL~qQvy~viekL~~~c~k~lr~~nl~s~~sdsv~~~~L~d~pdIvV~TP~~ll~~~~~~~-~~~~~~l~~LVvDEADLl 182 (569)
T KOG0346|consen 104 ELAQQVYKVIEKLVEYCSKDLRAINLASSMSDSVNSVALMDLPDIVVATPAKLLRHLAAGV-LEYLDSLSFLVVDEADLL 182 (569)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhhcccchHHHHHHHccCCCeEEeChHHHHHHHhhcc-chhhhheeeEEechhhhh
Confidence 999999999988766544 233322322222 1244568999999999888776411 146788999999999999
Q ss_pred cccchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC-HHHHHHHhhcccc----cccc-
Q 000107 655 ADQNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN-VAAVADWLQAALY----ETNF- 728 (2191)
Q Consensus 655 ~d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N-~~~la~wL~a~l~----~~~~- 728 (2191)
...++...+..+...| ++..|-++||||+.+ +..+...+-...+ ....
T Consensus 183 lsfGYeedlk~l~~~L--------------------------Pr~~Q~~LmSATl~dDv~~LKkL~l~nPviLkl~e~el 236 (569)
T KOG0346|consen 183 LSFGYEEDLKKLRSHL--------------------------PRIYQCFLMSATLSDDVQALKKLFLHNPVILKLTEGEL 236 (569)
T ss_pred hhcccHHHHHHHHHhC--------------------------CchhhheeehhhhhhHHHHHHHHhccCCeEEEeccccC
Confidence 8765555555555554 467899999999973 5555554332211 1111
Q ss_pred -ccccceEEEE-eccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhc
Q 000107 729 -RPVPLEEYIK-VGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKF 806 (2191)
Q Consensus 729 -RpvpL~e~i~-~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~ 806 (2191)
.|-.+..|.. ++ ..+.+-.++.++. +---.+++|||+||.+.|..+--.|..+.
T Consensus 237 ~~~dqL~Qy~v~cs--------------------e~DKflllyallK-L~LI~gKsliFVNtIdr~YrLkLfLeqFG--- 292 (569)
T KOG0346|consen 237 PNPDQLTQYQVKCS--------------------EEDKFLLLYALLK-LRLIRGKSLIFVNTIDRCYRLKLFLEQFG--- 292 (569)
T ss_pred CCcccceEEEEEec--------------------cchhHHHHHHHHH-HHHhcCceEEEEechhhhHHHHHHHHHhC---
Confidence 1112222211 11 0111222333332 22235799999999999998876665432
Q ss_pred ccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecc---------
Q 000107 807 SINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATS--------- 877 (2191)
Q Consensus 807 ~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATs--------- 877 (2191)
+. .+.+.|.|+..-|--|++.|..|..++||||+
T Consensus 293 -ik------------------------------------sciLNseLP~NSR~Hii~QFNkG~YdivIAtD~s~~~~~~e 335 (569)
T KOG0346|consen 293 -IK------------------------------------SCILNSELPANSRCHIIEQFNKGLYDIVIATDDSADGDKLE 335 (569)
T ss_pred -cH------------------------------------hhhhcccccccchhhHHHHhhCcceeEEEEccCccchhhhh
Confidence 11 23378899999999999999999999999999
Q ss_pred --------------------------cccccCCCCCceEEeecCCCCCcccCcccccccccccCCCCCCCceEEEEEeCh
Q 000107 878 --------------------------TLAAGVNLPARRVIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKP 931 (2191)
Q Consensus 878 --------------------------tLa~GVNLPav~VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~ 931 (2191)
-.+||||+..+..||+++++. +...|+||+||++|.+ ++|.++.|+.+
T Consensus 336 ee~kgk~~e~~~kndkkskkK~D~E~GVsRGIDF~~V~~VlNFD~P~----t~~sYIHRvGRTaRg~--n~GtalSfv~P 409 (569)
T KOG0346|consen 336 EEVKGKSDEKNPKNDKKSKKKLDKESGVSRGIDFHHVSNVLNFDFPE----TVTSYIHRVGRTARGN--NKGTALSFVSP 409 (569)
T ss_pred ccccccccccCCCCccccccccCchhchhccccchheeeeeecCCCC----chHHHHHhccccccCC--CCCceEEEecc
Confidence 247899999999999988876 8889999999999999 89999999998
Q ss_pred hhHH
Q 000107 932 EEVK 935 (2191)
Q Consensus 932 ~e~~ 935 (2191)
.+..
T Consensus 410 ~e~~ 413 (569)
T KOG0346|consen 410 KEEF 413 (569)
T ss_pred hHHh
Confidence 6543
No 77
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=99.98 E-value=5.2e-31 Score=352.00 Aligned_cols=317 Identities=21% Similarity=0.315 Sum_probs=223.6
Q ss_pred HHHHHHHcCCCCCCHHHHHhhhhcccccC------CeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHH
Q 000107 513 ICSIYKKRGISKLYPWQVECLHVDGVLQR------RNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEK 586 (2191)
Q Consensus 513 l~~~l~~~Gi~~l~p~Q~eal~~~~il~g------knlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~ 586 (2191)
+.+.....+| +|++.|.+|++. +..+ .|.+++||||||||++|.++++..+. .|.+++|++||++||.|+
T Consensus 251 ~~~~~~~l~f-~lt~~Q~~ai~~--I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~-~g~q~lilaPT~~LA~Q~ 326 (681)
T PRK10917 251 LKKFLASLPF-ELTGAQKRVVAE--ILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIE-AGYQAALMAPTEILAEQH 326 (681)
T ss_pred HHHHHHhCCC-CCCHHHHHHHHH--HHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHH-cCCeEEEEeccHHHHHHH
Confidence 3444556788 699999999986 6654 58999999999999999999998765 588999999999999999
Q ss_pred HHHHHHHhhccCCeEEEEeccCCCC-------CC-CCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccc
Q 000107 587 AEHLEVLLEPLGRHVRSYYGNQGGG-------SL-PKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQN 658 (2191)
Q Consensus 587 ~~~l~~l~~~lg~~V~~~~G~~~~~-------~l-~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~ 658 (2191)
++.+++++..+|++|..++|+.... .+ ...++|+|+||+.+.. ...+.++++|||||+|.++...
T Consensus 327 ~~~l~~l~~~~~i~v~ll~G~~~~~~r~~~~~~l~~g~~~IvVgT~~ll~~-------~v~~~~l~lvVIDE~Hrfg~~q 399 (681)
T PRK10917 327 YENLKKLLEPLGIRVALLTGSLKGKERREILEAIASGEADIVIGTHALIQD-------DVEFHNLGLVIIDEQHRFGVEQ 399 (681)
T ss_pred HHHHHHHHhhcCcEEEEEcCCCCHHHHHHHHHHHhCCCCCEEEchHHHhcc-------cchhcccceEEEechhhhhHHH
Confidence 9999999999999999999987521 11 2358999999986532 2357889999999999975432
Q ss_pred hhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhcccccc--cccc---ccc
Q 000107 659 RGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQAALYET--NFRP---VPL 733 (2191)
Q Consensus 659 RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a~l~~~--~~Rp---vpL 733 (2191)
|. .++.. ...+++++||||. .+..++-.+...+... ...| .|+
T Consensus 400 r~--------~l~~~-----------------------~~~~~iL~~SATp-~prtl~~~~~g~~~~s~i~~~p~~r~~i 447 (681)
T PRK10917 400 RL--------ALREK-----------------------GENPHVLVMTATP-IPRTLAMTAYGDLDVSVIDELPPGRKPI 447 (681)
T ss_pred HH--------HHHhc-----------------------CCCCCEEEEeCCC-CHHHHHHHHcCCCceEEEecCCCCCCCc
Confidence 22 12111 1347899999995 3344432221111100 0011 111
Q ss_pred eEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCC
Q 000107 734 EEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSS 813 (2191)
Q Consensus 734 ~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~ 813 (2191)
..++. .....+.+...+.+.+..+++++|||+..+.++.+...
T Consensus 448 ~~~~~----------------------~~~~~~~~~~~i~~~~~~g~q~~v~~~~ie~s~~l~~~--------------- 490 (681)
T PRK10917 448 TTVVI----------------------PDSRRDEVYERIREEIAKGRQAYVVCPLIEESEKLDLQ--------------- 490 (681)
T ss_pred EEEEe----------------------CcccHHHHHHHHHHHHHcCCcEEEEEcccccccchhHH---------------
Confidence 11111 01122344555666667789999999976654422000
Q ss_pred CchhhhhHHHHHHhhcCCCCCChhhhhhc-CCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEe
Q 000107 814 DSEFIDITSAIDALRRCPAGLDPVLEETL-PSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIF 892 (2191)
Q Consensus 814 ~~~~~~~~~~~~~L~~~~~gld~~L~~~l-~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI 892 (2191)
......+.|. +.+ ...|+.+||+|++++|+.+++.|++|.++|||||+++++|||+|++++||
T Consensus 491 -----~~~~~~~~L~-----------~~~~~~~v~~lHG~m~~~eR~~i~~~F~~g~~~ILVaT~vie~GiDip~v~~VI 554 (681)
T PRK10917 491 -----SAEETYEELQ-----------EAFPELRVGLLHGRMKPAEKDAVMAAFKAGEIDILVATTVIEVGVDVPNATVMV 554 (681)
T ss_pred -----HHHHHHHHHH-----------HHCCCCcEEEEeCCCCHHHHHHHHHHHHcCCCCEEEECcceeeCcccCCCcEEE
Confidence 0000111111 111 14599999999999999999999999999999999999999999999988
Q ss_pred ecCCCCCcccCcccccccccccCCCCCCCceEEEEEeC
Q 000107 893 RQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICK 930 (2191)
Q Consensus 893 ~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~ 930 (2191)
.+..+ ....++|.||+||+||.| ..|.||++++
T Consensus 555 i~~~~---r~gls~lhQ~~GRvGR~g--~~g~~ill~~ 587 (681)
T PRK10917 555 IENAE---RFGLAQLHQLRGRVGRGA--AQSYCVLLYK 587 (681)
T ss_pred EeCCC---CCCHHHHHHHhhcccCCC--CceEEEEEEC
Confidence 65432 124567899999999998 7899999995
No 78
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.97 E-value=1.7e-31 Score=326.76 Aligned_cols=340 Identities=19% Similarity=0.274 Sum_probs=251.7
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhc-------CCEEEEEchhHH
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIST-------GKMALLVLPYVS 581 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~-------g~kaL~I~P~ra 581 (2191)
....+++.+...||..|+|+|.+|++. ++.+++++.|||||+|||++|.+|++.++... |-+++|+.|+++
T Consensus 143 ~~~~ll~nl~~~~F~~Pt~iq~~aipv--fl~~r~~lAcapTGsgKtlaf~~Pil~~L~~~~~~~~~~gl~a~Il~ptre 220 (593)
T KOG0344|consen 143 MNKRLLENLQELGFDEPTPIQKQAIPV--FLEKRDVLACAPTGSGKTLAFNLPILQHLKDLSQEKHKVGLRALILSPTRE 220 (593)
T ss_pred hcHHHHHhHhhCCCCCCCcccchhhhh--hhcccceEEeccCCCcchhhhhhHHHHHHHHhhcccCccceEEEEecchHH
Confidence 567889999999999999999999987 89999999999999999999999999988753 458999999999
Q ss_pred HHHHHHHHHHHHh--hccCCeEEEEeccCCCCC-----CCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccc
Q 000107 582 ICAEKAEHLEVLL--EPLGRHVRSYYGNQGGGS-----LPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMV 654 (2191)
Q Consensus 582 LA~q~~~~l~~l~--~~lg~~V~~~~G~~~~~~-----l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l 654 (2191)
||.|++.++.++. ...+.++..+........ ....++|+|.||-++..++..-.-...+..|.++|+||++++
T Consensus 221 La~Qi~re~~k~~~~~~t~~~a~~~~~~~~~~qk~a~~~~~k~dili~TP~ri~~~~~~~~~~idl~~V~~lV~dEaD~l 300 (593)
T KOG0344|consen 221 LAAQIYREMRKYSIDEGTSLRAAQFSKPAYPSQKPAFLSDEKYDILISTPMRIVGLLGLGKLNIDLSKVEWLVVDEADLL 300 (593)
T ss_pred HHHHHHHHHHhcCCCCCCchhhhhcccccchhhccchhHHHHHHHHhcCHHHHHHHhcCCCccchhheeeeEeechHHhh
Confidence 9999999999887 555555544433321111 112379999999997766653111236889999999999999
Q ss_pred ccc-chhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhccccccccccccc
Q 000107 655 ADQ-NRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQAALYETNFRPVPL 733 (2191)
Q Consensus 655 ~d~-~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a~l~~~~~RpvpL 733 (2191)
.+. .+-.++..|+..+ ..+.+++=+||||++ ..+.+|.....-.....+|.+
T Consensus 301 fe~~~f~~Qla~I~sac-------------------------~s~~i~~a~FSat~~--~~VEE~~~~i~~~~~~vivg~ 353 (593)
T KOG0344|consen 301 FEPEFFVEQLADIYSAC-------------------------QSPDIRVALFSATIS--VYVEEWAELIKSDLKRVIVGL 353 (593)
T ss_pred hChhhHHHHHHHHHHHh-------------------------cCcchhhhhhhcccc--HHHHHHHHHhhccceeEEEec
Confidence 987 4444555555443 137889999999976 566777653321111111111
Q ss_pred eEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcC--CcEEEEeCchhHHHHHHHHHHHHHhhcccccC
Q 000107 734 EEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEG--HSVLIFCSSRKGCESTARHVSKFLKKFSINVH 811 (2191)
Q Consensus 734 ~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g--~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~ 811 (2191)
. + .....+.+..-..+.....++ .+++++..| .++|||+.+.+.|..+...|.. +
T Consensus 354 ~------~-------sa~~~V~QelvF~gse~~K~l-A~rq~v~~g~~PP~lIfVQs~eRak~L~~~L~~-~-------- 410 (593)
T KOG0344|consen 354 R------N-------SANETVDQELVFCGSEKGKLL-ALRQLVASGFKPPVLIFVQSKERAKQLFEELEI-Y-------- 410 (593)
T ss_pred c------h-------hHhhhhhhhheeeecchhHHH-HHHHHHhccCCCCeEEEEecHHHHHHHHHHhhh-c--------
Confidence 1 0 001111111111222222332 234445444 6999999999999888777641 0
Q ss_pred CCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEE
Q 000107 812 SSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVI 891 (2191)
Q Consensus 812 ~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VV 891 (2191)
+. -.|.+.||..++.+|+.+.++||.|+|.||+||+++++|+|+.+++.|
T Consensus 411 -------------~~-----------------i~v~vIh~e~~~~qrde~~~~FR~g~IwvLicTdll~RGiDf~gvn~V 460 (593)
T KOG0344|consen 411 -------------DN-----------------INVDVIHGERSQKQRDETMERFRIGKIWVLICTDLLARGIDFKGVNLV 460 (593)
T ss_pred -------------cC-----------------cceeeEecccchhHHHHHHHHHhccCeeEEEehhhhhccccccCcceE
Confidence 00 128899999999999999999999999999999999999999999999
Q ss_pred eecCCCCCcccCcccccccccccCCCCCCCceEEEEEeChhhHHH
Q 000107 892 FRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKK 936 (2191)
Q Consensus 892 I~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~ 936 (2191)
|+++.+. +..+|+||+||+||+| ..|.+|+||+..+...
T Consensus 461 InyD~p~----s~~syihrIGRtgRag--~~g~Aitfytd~d~~~ 499 (593)
T KOG0344|consen 461 INYDFPQ----SDLSYIHRIGRTGRAG--RSGKAITFYTDQDMPR 499 (593)
T ss_pred EecCCCc----hhHHHHHHhhccCCCC--CCcceEEEeccccchh
Confidence 9999887 7789999999999999 8999999999865443
No 79
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=99.97 E-value=1.5e-30 Score=329.03 Aligned_cols=326 Identities=24% Similarity=0.330 Sum_probs=244.4
Q ss_pred HHHHH-cCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHH
Q 000107 515 SIYKK-RGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVL 593 (2191)
Q Consensus 515 ~~l~~-~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l 593 (2191)
..|++ +||..+++-|.++|.. ++.|+|+++..|||+||++||.+|.+-. .+-+|+|.|..+|...+++.++..
T Consensus 7 ~~L~~~fGy~~FR~gQ~evI~~--~l~g~d~lvvmPTGgGKSlCyQiPAll~----~G~TLVVSPLiSLM~DQV~~l~~~ 80 (590)
T COG0514 7 QVLKQVFGYASFRPGQQEIIDA--LLSGKDTLVVMPTGGGKSLCYQIPALLL----EGLTLVVSPLISLMKDQVDQLEAA 80 (590)
T ss_pred HHHHHHhCccccCCCHHHHHHH--HHcCCcEEEEccCCCCcchHhhhHHHhc----CCCEEEECchHHHHHHHHHHHHHc
Confidence 44544 7999999999999987 9999999999999999999999998643 558999999999999999888764
Q ss_pred hhccCCeEEEEeccCCCCC--------CCCCCceEEEchHHHHHH-HHHhhhcCCCCccceEEEcccccccccc--hhHH
Q 000107 594 LEPLGRHVRSYYGNQGGGS--------LPKDTSVAVCTIEKANSL-VNRMLEEGRLSEIGIIVIDELHMVADQN--RGYL 662 (2191)
Q Consensus 594 ~~~lg~~V~~~~G~~~~~~--------l~~~~~IiV~TpEkl~~L-l~~l~~~~~L~~l~lVVIDEaH~l~d~~--RG~~ 662 (2191)
|+.+..+.+...... .....++++-+||++..- +...+. -..+.++||||+|++++|+ |.+.
T Consensus 81 ----Gi~A~~lnS~l~~~e~~~v~~~l~~g~~klLyisPErl~~~~f~~~L~---~~~i~l~vIDEAHCiSqWGhdFRP~ 153 (590)
T COG0514 81 ----GIRAAYLNSTLSREERQQVLNQLKSGQLKLLYISPERLMSPRFLELLK---RLPISLVAIDEAHCISQWGHDFRPD 153 (590)
T ss_pred ----CceeehhhcccCHHHHHHHHHHHhcCceeEEEECchhhcChHHHHHHH---hCCCceEEechHHHHhhcCCccCHh
Confidence 777766555432211 223479999999997432 222222 4568999999999999996 6666
Q ss_pred HHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC--HHHHHHHhhcc---ccccc-cccccceEE
Q 000107 663 LELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN--VAAVADWLQAA---LYETN-FRPVPLEEY 736 (2191)
Q Consensus 663 lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N--~~~la~wL~a~---l~~~~-~RpvpL~e~ 736 (2191)
+..+-..... -+++.++++|||-+. ..++.+-|+.. +|... .||-
T Consensus 154 Y~~lg~l~~~------------------------~~~~p~~AlTATA~~~v~~DI~~~L~l~~~~~~~~sfdRpN----- 204 (590)
T COG0514 154 YRRLGRLRAG------------------------LPNPPVLALTATATPRVRDDIREQLGLQDANIFRGSFDRPN----- 204 (590)
T ss_pred HHHHHHHHhh------------------------CCCCCEEEEeCCCChHHHHHHHHHhcCCCcceEEecCCCch-----
Confidence 6655444322 247899999999754 45666666533 22111 1221
Q ss_pred EEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHH-HHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCc
Q 000107 737 IKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDE-VVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDS 815 (2191)
Q Consensus 737 i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e-~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~ 815 (2191)
. ...+. . .....+.+. .+.+ ....+++.||||.||+.||.+|..|...
T Consensus 205 -----i----~~~v~----~----~~~~~~q~~-fi~~~~~~~~~~GIIYc~sRk~~E~ia~~L~~~------------- 253 (590)
T COG0514 205 -----L----ALKVV----E----KGEPSDQLA-FLATVLPQLSKSGIIYCLTRKKVEELAEWLRKN------------- 253 (590)
T ss_pred -----h----hhhhh----h----cccHHHHHH-HHHhhccccCCCeEEEEeeHHhHHHHHHHHHHC-------------
Confidence 0 00000 0 001112222 2332 1234577999999999999999998652
Q ss_pred hhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecC
Q 000107 816 EFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQP 895 (2191)
Q Consensus 816 ~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p 895 (2191)
+..++++||||+.++|..++++|..+.++|+|||..+.+|||-|++|+||++.
T Consensus 254 ---------------------------g~~a~~YHaGl~~~eR~~~q~~f~~~~~~iiVAT~AFGMGIdKpdVRfViH~~ 306 (590)
T COG0514 254 ---------------------------GISAGAYHAGLSNEERERVQQAFLNDEIKVMVATNAFGMGIDKPDVRFVIHYD 306 (590)
T ss_pred ---------------------------CCceEEecCCCCHHHHHHHHHHHhcCCCcEEEEeccccCccCCCCceEEEEec
Confidence 12388999999999999999999999999999999999999999999999999
Q ss_pred CCCCcccCcccccccccccCCCCCCCceEEEEEeChhhHHHHHhhhccCCC
Q 000107 896 RIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKIMGLLNESCP 946 (2191)
Q Consensus 896 ~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~~~ll~~~l~ 946 (2191)
.|+ +.+.|.|-+|||||.| .+.+|++++.+.+......++...-|
T Consensus 307 lP~----s~EsYyQE~GRAGRDG--~~a~aill~~~~D~~~~~~~i~~~~~ 351 (590)
T COG0514 307 LPG----SIESYYQETGRAGRDG--LPAEAILLYSPEDIRWQRYLIEQSKP 351 (590)
T ss_pred CCC----CHHHHHHHHhhccCCC--CcceEEEeeccccHHHHHHHHHhhcc
Confidence 887 9999999999999999 79999999999988777777766544
No 80
>KOG4284 consensus DEAD box protein [Transcription]
Probab=99.97 E-value=2.3e-31 Score=321.68 Aligned_cols=333 Identities=20% Similarity=0.292 Sum_probs=260.7
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHh--cCCEEEEEchhHHHHHHH
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIS--TGKMALLVLPYVSICAEK 586 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~--~g~kaL~I~P~raLA~q~ 586 (2191)
|-.+++..|++.||..|+++|..|||. ++.+-++||.|..|+|||++|.++.++.+.. ....++||+|||+||.|+
T Consensus 32 l~r~vl~glrrn~f~~ptkiQaaAIP~--~~~kmDliVQaKSGTGKTlVfsv~av~sl~~~~~~~q~~Iv~PTREiaVQI 109 (980)
T KOG4284|consen 32 LWREVLLGLRRNAFALPTKIQAAAIPA--IFSKMDLIVQAKSGTGKTLVFSVLAVESLDSRSSHIQKVIVTPTREIAVQI 109 (980)
T ss_pred HHHHHHHHHHhhcccCCCchhhhhhhh--hhcccceEEEecCCCCceEEEEeeeehhcCcccCcceeEEEecchhhhhHH
Confidence 457899999999999999999999987 8999999999999999999999988887654 345899999999999999
Q ss_pred HHHHHHHhhc-cCCeEEEEeccCCCCC---CCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccc-cchhH
Q 000107 587 AEHLEVLLEP-LGRHVRSYYGNQGGGS---LPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVAD-QNRGY 661 (2191)
Q Consensus 587 ~~~l~~l~~~-lg~~V~~~~G~~~~~~---l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d-~~RG~ 661 (2191)
.+.+.+++.. .|+++.++.|++.-.. -.+.++|+|+||+++..|+.. ....++.|+++|+||++.|.+ ..+..
T Consensus 110 ~~tv~~v~~sf~g~~csvfIGGT~~~~d~~rlk~~rIvIGtPGRi~qL~el--~~~n~s~vrlfVLDEADkL~~t~sfq~ 187 (980)
T KOG4284|consen 110 KETVRKVAPSFTGARCSVFIGGTAHKLDLIRLKQTRIVIGTPGRIAQLVEL--GAMNMSHVRLFVLDEADKLMDTESFQD 187 (980)
T ss_pred HHHHHHhcccccCcceEEEecCchhhhhhhhhhhceEEecCchHHHHHHHh--cCCCccceeEEEeccHHhhhchhhHHH
Confidence 9999988764 4889999999875322 224588999999999988865 666789999999999999998 46778
Q ss_pred HHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCC-C-HHHHHHHhhcccc-cccccc---ccceE
Q 000107 662 LLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMP-N-VAAVADWLQAALY-ETNFRP---VPLEE 735 (2191)
Q Consensus 662 ~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~-N-~~~la~wL~a~l~-~~~~Rp---vpL~e 735 (2191)
.+..|+..| +...|++++|||.| | ...+++++....+ ..+-+. +.++.
T Consensus 188 ~In~ii~sl--------------------------P~~rQv~a~SATYp~nLdn~Lsk~mrdp~lVr~n~~d~~L~GikQ 241 (980)
T KOG4284|consen 188 DINIIINSL--------------------------PQIRQVAAFSATYPRNLDNLLSKFMRDPALVRFNADDVQLFGIKQ 241 (980)
T ss_pred HHHHHHHhc--------------------------chhheeeEEeccCchhHHHHHHHHhcccceeecccCCceeechhh
Confidence 888888777 45679999999987 3 3456777775433 333333 33455
Q ss_pred EEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHh--cCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCC
Q 000107 736 YIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQ--EGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSS 813 (2191)
Q Consensus 736 ~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~--~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~ 813 (2191)
|+..-.. ++.....++. .++.+.+++. +-.++||||+....|+.+|..|.. .+
T Consensus 242 yv~~~~s-~nnsveemrl--------------klq~L~~vf~~ipy~QAlVF~~~~sra~~~a~~L~s----sG------ 296 (980)
T KOG4284|consen 242 YVVAKCS-PNNSVEEMRL--------------KLQKLTHVFKSIPYVQALVFCDQISRAEPIATHLKS----SG------ 296 (980)
T ss_pred eeeeccC-CcchHHHHHH--------------HHHHHHHHHhhCchHHHHhhhhhhhhhhHHHHHhhc----cC------
Confidence 5543222 1111111111 1122222332 235899999999999888877743 11
Q ss_pred CchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEee
Q 000107 814 DSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFR 893 (2191)
Q Consensus 814 ~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~ 893 (2191)
+| |.++.|.|++.+|..+++.+|.-..+|||+|+..++|||-|.+.+||+
T Consensus 297 --------------------~d----------~~~ISgaM~Q~~Rl~a~~~lr~f~~rILVsTDLtaRGIDa~~vNLVVN 346 (980)
T KOG4284|consen 297 --------------------LD----------VTFISGAMSQKDRLLAVDQLRAFRVRILVSTDLTARGIDADNVNLVVN 346 (980)
T ss_pred --------------------CC----------eEEeccccchhHHHHHHHHhhhceEEEEEecchhhccCCccccceEEe
Confidence 12 788999999999999999999999999999999999999999999998
Q ss_pred cCCCCCcccCcccccccccccCCCCCCCceEEEEEeChh
Q 000107 894 QPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPE 932 (2191)
Q Consensus 894 ~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~ 932 (2191)
.+.+. +-.+|.||+|||||.| ..|.++.+|...
T Consensus 347 iD~p~----d~eTY~HRIGRAgRFG--~~G~aVT~~~~~ 379 (980)
T KOG4284|consen 347 IDAPA----DEETYFHRIGRAGRFG--AHGAAVTLLEDE 379 (980)
T ss_pred cCCCc----chHHHHHHhhhccccc--ccceeEEEeccc
Confidence 66654 7789999999999999 899999888764
No 81
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=99.97 E-value=1.8e-30 Score=348.40 Aligned_cols=357 Identities=24% Similarity=0.317 Sum_probs=274.3
Q ss_pred CCCCcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcC-CEEEEEchhHHHHH
Q 000107 506 SSWLPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTG-KMALLVLPYVSICA 584 (2191)
Q Consensus 506 ~~~Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g-~kaL~I~P~raLA~ 584 (2191)
..+.+..+...+.+.|+..||.+|.+|+.. +.+|+|+||+.|||||||.+|.+||+.+++... .++|||.||+|||+
T Consensus 52 ~~~~~~~l~~~l~~~g~~~lY~HQ~~A~~~--~~~G~~vvVtTgTgSGKTe~FllPIld~~l~~~~a~AL~lYPtnALa~ 129 (851)
T COG1205 52 PELRDESLKSALVKAGIERLYSHQVDALRL--IREGRNVVVTTGTGSGKTESFLLPILDHLLRDPSARALLLYPTNALAN 129 (851)
T ss_pred hhhhhhHHHHHHHHhccccccHHHHHHHHH--HHCCCCEEEECCCCCchhHHHHHHHHHHHhhCcCccEEEEechhhhHh
Confidence 334556678888899999999999999987 899999999999999999999999999998743 47899999999999
Q ss_pred HHHHHHHHHhhccC--CeEEEEeccCCCCC----CCCCCceEEEchHHHHHHHHHhhhc-C-CCCccceEEEcccccccc
Q 000107 585 EKAEHLEVLLEPLG--RHVRSYYGNQGGGS----LPKDTSVAVCTIEKANSLVNRMLEE-G-RLSEIGIIVIDELHMVAD 656 (2191)
Q Consensus 585 q~~~~l~~l~~~lg--~~V~~~~G~~~~~~----l~~~~~IiV~TpEkl~~Ll~~l~~~-~-~L~~l~lVVIDEaH~l~d 656 (2191)
.+.++|.++...++ +.+..|.|+..... ....++|+++||.+++.++.+.... . .+.++++|||||+|-...
T Consensus 130 DQ~~rl~~~~~~~~~~v~~~~y~Gdt~~~~r~~~~~~pp~IllTNpdMLh~~llr~~~~~~~~~~~Lk~lVvDElHtYrG 209 (851)
T COG1205 130 DQAERLRELISDLPGKVTFGRYTGDTPPEERRAIIRNPPDILLTNPDMLHYLLLRNHDAWLWLLRNLKYLVVDELHTYRG 209 (851)
T ss_pred hHHHHHHHHHHhCCCcceeeeecCCCChHHHHHHHhCCCCEEEeCHHHHHHHhccCcchHHHHHhcCcEEEEecceeccc
Confidence 99999999998887 77888889886543 3567899999999999854332111 1 357799999999999765
Q ss_pred cchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhcccc----cccccccc
Q 000107 657 QNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQAALY----ETNFRPVP 732 (2191)
Q Consensus 657 ~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a~l~----~~~~Rpvp 732 (2191)
.+|..+-.++.+|+.+... .+.++|+|++|||+.|+.+++.-+....| ..+..|-.
T Consensus 210 -v~GS~vA~llRRL~~~~~~-------------------~~~~~q~i~~SAT~~np~e~~~~l~~~~f~~~v~~~g~~~~ 269 (851)
T COG1205 210 -VQGSEVALLLRRLLRRLRR-------------------YGSPLQIICTSATLANPGEFAEELFGRDFEVPVDEDGSPRG 269 (851)
T ss_pred -cchhHHHHHHHHHHHHHhc-------------------cCCCceEEEEeccccChHHHHHHhcCCcceeeccCCCCCCC
Confidence 4899999999999988653 24678999999999998887765544333 23334444
Q ss_pred ceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCC
Q 000107 733 LEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHS 812 (2191)
Q Consensus 733 L~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~ 812 (2191)
...++.....++..... ........+..++...+.++-++|+|+.+++.++.+.......+...+.
T Consensus 270 ~~~~~~~~p~~~~~~~~----------~r~s~~~~~~~~~~~~~~~~~~tL~F~~sr~~~e~~~~~~~~~~~~~~~---- 335 (851)
T COG1205 270 LRYFVRREPPIRELAES----------IRRSALAELATLAALLVRNGIQTLVFFRSRKQVELLYLSPRRRLVREGG---- 335 (851)
T ss_pred ceEEEEeCCcchhhhhh----------cccchHHHHHHHHHHHHHcCceEEEEEehhhhhhhhhhchhHHHhhcch----
Confidence 44444333222211111 0112233445566667788999999999999999887555443322110
Q ss_pred CCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEe
Q 000107 813 SDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIF 892 (2191)
Q Consensus 813 ~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI 892 (2191)
-+..-|..|||+|..++|..++..|+.|.+.++++|++++.||||-++..||
T Consensus 336 ----------------------------~l~~~v~~~~~~~~~~er~~ie~~~~~g~~~~~~st~AlelgidiG~ldavi 387 (851)
T COG1205 336 ----------------------------KLLDAVSTYRAGLHREERRRIEAEFKEGELLGVIATNALELGIDIGSLDAVI 387 (851)
T ss_pred ----------------------------hhhhheeeccccCCHHHHHHHHHHHhcCCccEEecchhhhhceeehhhhhHh
Confidence 0122388899999999999999999999999999999999999999999999
Q ss_pred ecCCCCCcccCcccccccccccCCCCCCCceEEEEEeCh
Q 000107 893 RQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKP 931 (2191)
Q Consensus 893 ~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~ 931 (2191)
....++. +..+++||+|||||.+ ..+..+.+...
T Consensus 388 ~~g~P~~---s~~~~~Q~~GRaGR~~--~~~l~~~v~~~ 421 (851)
T COG1205 388 AYGYPGV---SVLSFRQRAGRAGRRG--QESLVLVVLRS 421 (851)
T ss_pred hcCCCCc---hHHHHHHhhhhccCCC--CCceEEEEeCC
Confidence 8777652 5678999999999998 56666666654
No 82
>PRK10689 transcription-repair coupling factor; Provisional
Probab=99.97 E-value=3.9e-30 Score=353.62 Aligned_cols=310 Identities=14% Similarity=0.242 Sum_probs=220.5
Q ss_pred HHHHHHcCCCCCCHHHHHhhhhcccccC------CeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHH
Q 000107 514 CSIYKKRGISKLYPWQVECLHVDGVLQR------RNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKA 587 (2191)
Q Consensus 514 ~~~l~~~Gi~~l~p~Q~eal~~~~il~g------knlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~ 587 (2191)
.+.....+| ++++.|.+||+. ++.+ +|++++||||+|||.+|..+++..+ ..+++++|++||++||.|++
T Consensus 591 ~~~~~~~~~-~~T~~Q~~aI~~--il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~-~~g~qvlvLvPT~eLA~Q~~ 666 (1147)
T PRK10689 591 QLFCDSFPF-ETTPDQAQAINA--VLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAV-ENHKQVAVLVPTTLLAQQHY 666 (1147)
T ss_pred HHHHHhCCC-CCCHHHHHHHHH--HHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHH-HcCCeEEEEeCcHHHHHHHH
Confidence 344455777 799999999986 6665 8999999999999999988877655 46889999999999999999
Q ss_pred HHHHHHhhccCCeEEEEeccCCCCC-------C-CCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccch
Q 000107 588 EHLEVLLEPLGRHVRSYYGNQGGGS-------L-PKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNR 659 (2191)
Q Consensus 588 ~~l~~l~~~lg~~V~~~~G~~~~~~-------l-~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~R 659 (2191)
+.|.+++..+++++..+.|..+... + ...++|+|+||+. ++ ....+.++++|||||+|+++..
T Consensus 667 ~~f~~~~~~~~v~i~~l~g~~s~~e~~~il~~l~~g~~dIVVgTp~l----L~---~~v~~~~L~lLVIDEahrfG~~-- 737 (1147)
T PRK10689 667 DNFRDRFANWPVRIEMLSRFRSAKEQTQILAEAAEGKIDILIGTHKL----LQ---SDVKWKDLGLLIVDEEHRFGVR-- 737 (1147)
T ss_pred HHHHHhhccCCceEEEEECCCCHHHHHHHHHHHHhCCCCEEEECHHH----Hh---CCCCHhhCCEEEEechhhcchh--
Confidence 9999988888888888877654311 1 2357999999963 22 2335788999999999997421
Q ss_pred hHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCC-CHHHHHHH-hh-ccccc-cccccccceE
Q 000107 660 GYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMP-NVAAVADW-LQ-AALYE-TNFRPVPLEE 735 (2191)
Q Consensus 660 G~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~-N~~~la~w-L~-a~l~~-~~~RpvpL~e 735 (2191)
.. .+++.+ ..++|+++||||+. ....++.. +. ...+. ......+++.
T Consensus 738 ---~~---e~lk~l-----------------------~~~~qvLl~SATpiprtl~l~~~gl~d~~~I~~~p~~r~~v~~ 788 (1147)
T PRK10689 738 ---HK---ERIKAM-----------------------RADVDILTLTATPIPRTLNMAMSGMRDLSIIATPPARRLAVKT 788 (1147)
T ss_pred ---HH---HHHHhc-----------------------CCCCcEEEEcCCCCHHHHHHHHhhCCCcEEEecCCCCCCCceE
Confidence 11 222221 35689999999953 22222211 11 11111 0111112222
Q ss_pred EEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCc
Q 000107 736 YIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDS 815 (2191)
Q Consensus 736 ~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~ 815 (2191)
++.. +. .......++.++ ..+++++||||++..++.++..|.+.++.
T Consensus 789 ~~~~----~~------------------~~~~k~~il~el-~r~gqv~vf~n~i~~ie~la~~L~~~~p~---------- 835 (1147)
T PRK10689 789 FVRE----YD------------------SLVVREAILREI-LRGGQVYYLYNDVENIQKAAERLAELVPE---------- 835 (1147)
T ss_pred EEEe----cC------------------cHHHHHHHHHHH-hcCCeEEEEECCHHHHHHHHHHHHHhCCC----------
Confidence 2110 00 000111222333 35789999999999999998888654321
Q ss_pred hhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecC
Q 000107 816 EFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQP 895 (2191)
Q Consensus 816 ~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p 895 (2191)
.+|+.+||+|++++|..++..|++|+++|||||+++++|||+|++++||-.
T Consensus 836 ----------------------------~~v~~lHG~m~q~eRe~im~~Fr~Gk~~VLVaTdIierGIDIP~v~~VIi~- 886 (1147)
T PRK10689 836 ----------------------------ARIAIGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIE- 886 (1147)
T ss_pred ----------------------------CcEEEEeCCCCHHHHHHHHHHHHhcCCCEEEECchhhcccccccCCEEEEe-
Confidence 248889999999999999999999999999999999999999999988721
Q ss_pred CCCCcccCcccccccccccCCCCCCCceEEEEEeCh
Q 000107 896 RIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKP 931 (2191)
Q Consensus 896 ~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~ 931 (2191)
..+.++..+|.||+||+||.| ..|.||+++.+
T Consensus 887 --~ad~fglaq~~Qr~GRvGR~g--~~g~a~ll~~~ 918 (1147)
T PRK10689 887 --RADHFGLAQLHQLRGRVGRSH--HQAYAWLLTPH 918 (1147)
T ss_pred --cCCCCCHHHHHHHhhccCCCC--CceEEEEEeCC
Confidence 111235678999999999999 79999999865
No 83
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=99.97 E-value=3.4e-30 Score=336.07 Aligned_cols=427 Identities=20% Similarity=0.220 Sum_probs=305.1
Q ss_pred CCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCC--EEEEEchhHHHHHHHHHHHH-HHhhccCCeE
Q 000107 525 LYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGK--MALLVLPYVSICAEKAEHLE-VLLEPLGRHV 601 (2191)
Q Consensus 525 l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~--kaL~I~P~raLA~q~~~~l~-~l~~~lg~~V 601 (2191)
.+..+.+.+.. +.++++++|+|.||+|||+.....+|......|+ ++++..|+|--|..+++++. +.....|-.|
T Consensus 174 a~~~r~~Il~~--i~~~qVvvIsGeTGcGKTTQvpQfiLd~~~~~~~~~~IicTQPRRIsAIsvAeRVa~ER~~~~g~~V 251 (924)
T KOG0920|consen 174 AYKMRDTILDA--IEENQVVVISGETGCGKTTQVPQFILDEAIESGAACNIICTQPRRISAISVAERVAKERGESLGEEV 251 (924)
T ss_pred cHHHHHHHHHH--HHhCceEEEeCCCCCCchhhhhHHHHHHHHhcCCCCeEEecCCchHHHHHHHHHHHHHhccccCCee
Confidence 35567777765 8899999999999999999999999998766544 78999999999999998874 4444455444
Q ss_pred EEEeccCCCCCCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHhhcCCCCCC
Q 000107 602 RSYYGNQGGGSLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAAGEGTSDS 681 (2191)
Q Consensus 602 ~~~~G~~~~~~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~~~~s 681 (2191)
+.-.+ -.......+.+.+||.+. |++++.....+..+++||+||+|+ |+...+.+|..++....+
T Consensus 252 GYqvr--l~~~~s~~t~L~fcTtGv---LLr~L~~~~~l~~vthiivDEVHE-----R~i~~DflLi~lk~lL~~----- 316 (924)
T KOG0920|consen 252 GYQVR--LESKRSRETRLLFCTTGV---LLRRLQSDPTLSGVTHIIVDEVHE-----RSINTDFLLILLKDLLPR----- 316 (924)
T ss_pred eEEEe--eecccCCceeEEEecHHH---HHHHhccCcccccCceeeeeeEEE-----ccCCcccHHHHHHHHhhh-----
Confidence 42222 222344458999999999 566666678899999999999999 666677777777665432
Q ss_pred CCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhc-cccccccccccceEEEEec---cccccch--hhH---HH
Q 000107 682 SSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQA-ALYETNFRPVPLEEYIKVG---NAIYSKK--MDV---VR 752 (2191)
Q Consensus 682 ~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a-~l~~~~~RpvpL~e~i~~~---~~~~~~~--~~~---~r 752 (2191)
++++++|+||||+ |++.+.+|++. .+.....|..|+.+++.-+ ...|... ... .+
T Consensus 317 ---------------~p~LkvILMSAT~-dae~fs~YF~~~pvi~i~grtfpV~~~fLEDil~~~~~~~~~~~~~~~~~~ 380 (924)
T KOG0920|consen 317 ---------------NPDLKVILMSATL-DAELFSDYFGGCPVITIPGRTFPVKEYFLEDILSKTGYVSEDDSARSGPER 380 (924)
T ss_pred ---------------CCCceEEEeeeec-chHHHHHHhCCCceEeecCCCcchHHHHHHHHHHHhccccccccccccccc
Confidence 4889999999998 68999998874 4455566666665443200 0000000 000 00
Q ss_pred H----H-HHhhccCCCChhHHHHHHHHHHhc--CCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHH
Q 000107 753 T----I-LTAANLGGKDPDHIVELCDEVVQE--GHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAID 825 (2191)
Q Consensus 753 ~----l-~~~~~~~~~d~d~l~~Ll~e~~~~--g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~ 825 (2191)
. . .... ....+.+.+..++..+... .+.+|||.|+..++..+...|.........
T Consensus 381 ~~~~~~~~~~~-~~~id~~Li~~li~~I~~~~~~GaILVFLPG~~eI~~~~~~L~~~~~f~~~----------------- 442 (924)
T KOG0920|consen 381 SQLRLARLKLW-EPEIDYDLIEDLIEYIDEREFEGAILVFLPGWEEILQLKELLEVNLPFADS----------------- 442 (924)
T ss_pred Cccccccchhc-cccccHHHHHHHHHhcccCCCCceEEEEcCCHHHHHHHHHHhhhccccccc-----------------
Confidence 0 0 0000 0123455666666665543 489999999999998888877543211100
Q ss_pred HhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecCCC--------
Q 000107 826 ALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRI-------- 897 (2191)
Q Consensus 826 ~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~~-------- 897 (2191)
..+-|..+|+.|+..|++.|+.....|..+||+||++++++|+||++.+|||+...
T Consensus 443 ----------------~~~~ilplHs~~~s~eQ~~VF~~pp~g~RKIIlaTNIAETSITIdDVvyVIDsG~~Ke~~yD~~ 506 (924)
T KOG0920|consen 443 ----------------LKFAILPLHSSIPSEEQQAVFKRPPKGTRKIILATNIAETSITIDDVVYVIDSGLVKEKSYDPE 506 (924)
T ss_pred ----------------cceEEEeccccCChHHHHHhcCCCCCCcchhhhhhhhHhhcccccCeEEEEecCeeeeeeeccc
Confidence 12238889999999999999999999999999999999999999999999996542
Q ss_pred ------CCcccCcccccccccccCCCCCCCceEEEEEeChhhHHHHHhhhc-cCCCCcccccccccchhhHHHHHHHhcc
Q 000107 898 ------GRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKIMGLLN-ESCPPLHSCLSEDKNGMTHAILEVVAGG 970 (2191)
Q Consensus 898 ------g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~~~ll~-~~l~~l~S~L~~~~~~l~~~iLeiia~g 970 (2191)
-..|++.+...||.|||||.. .|.||.+++...+.. ++. .++|.+ .+..|+-++..
T Consensus 507 ~~~s~l~~~wvSkAna~QR~GRAGRv~---~G~cy~L~~~~~~~~---~~~~~q~PEi-----------lR~pL~~l~L~ 569 (924)
T KOG0920|consen 507 RKVSCLLLSWVSKANAKQRRGRAGRVR---PGICYHLYTRSRYEK---LMLAYQLPEI-----------LRTPLEELCLH 569 (924)
T ss_pred CCcchhheeeccccchHHhcccccCcc---CCeeEEeechhhhhh---cccccCChHH-----------HhChHHHhhhe
Confidence 124788889999999999997 999999999865544 333 344433 22334333333
Q ss_pred c-ccCHHHHHHHHHhhhcCCCCcchhHHHHHHHHHHHHHHcccceeccCCCccCCCHHHHHHHhcCCChhhHHHHHH
Q 000107 971 I-VQTAEDIHRYVRCTLLNSTKPFQDVVKSAQDSLRWLCHRKFLEWNEDTKLYSTTPLGRAAFGSSLCPEESLIVLD 1046 (2191)
Q Consensus 971 i-~~t~~di~~~l~~tll~~~~~~~~~~~~~~~al~~L~~~~~i~~~~~~~~~~~T~LG~a~~~s~L~p~~a~~l~~ 1046 (2191)
+ +....++..|++..+-.+.. .++..|+..|.+.|++..++ ++|+||+.++..|++|..+++++-
T Consensus 570 iK~l~~~~~~~fLskaldpP~~------~~v~~a~~~L~~igaL~~~e-----~LT~LG~~la~lPvd~~igK~ll~ 635 (924)
T KOG0920|consen 570 IKVLEQGSIKAFLSKALDPPPA------DAVDLAIERLKQIGALDESE-----ELTPLGLHLASLPVDVRIGKLLLF 635 (924)
T ss_pred eeeccCCCHHHHHHHhcCCCCh------HHHHHHHHHHHHhccccCcc-----cchHHHHHHHhCCCccccchhhee
Confidence 2 34556777888766655542 57789999999999997544 699999999999999998887543
No 84
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=99.97 E-value=2.3e-30 Score=303.75 Aligned_cols=346 Identities=20% Similarity=0.285 Sum_probs=265.0
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHh--cCCEEEEEchhHHHHHHH
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIS--TGKMALLVLPYVSICAEK 586 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~--~g~kaL~I~P~raLA~q~ 586 (2191)
|++.++..+...||++|+.+|+.||.+ +..|.|+++.+++|+|||.+|.+++++.+-. ....+++++|+++||.|.
T Consensus 33 L~e~LLrgiy~yGFekPSaIQqraI~p--~i~G~dv~~qaqsgTgKt~af~i~iLq~iD~~~ke~qalilaPtreLa~qi 110 (397)
T KOG0327|consen 33 LKESLLRGIYAYGFEKPSAIQQRAILP--CIKGHDVIAQAQSGTGKTAAFLISILQQIDMSVKETQALILAPTRELAQQI 110 (397)
T ss_pred CCHHHHhHHHhhccCCchHHHhccccc--cccCCceeEeeeccccchhhhHHHHHhhcCcchHHHHHHHhcchHHHHHHH
Confidence 678999999999999999999999987 8999999999999999999999999987643 234789999999999999
Q ss_pred HHHHHHHhhccCCeEEEEeccCCCC-----CCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhH
Q 000107 587 AEHLEVLLEPLGRHVRSYYGNQGGG-----SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGY 661 (2191)
Q Consensus 587 ~~~l~~l~~~lg~~V~~~~G~~~~~-----~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~ 661 (2191)
......++...+.+|....|+.... .....++|+|+||+++..++++ .....+.+.++|+||++++...++-.
T Consensus 111 ~~v~~~lg~~~~~~v~~~igg~~~~~~~~~i~~~~~hivvGTpgrV~dml~~--~~l~~~~iKmfvlDEaDEmLs~gfkd 188 (397)
T KOG0327|consen 111 QKVVRALGDHMDVSVHACIGGTNVRREDQALLKDKPHIVVGTPGRVFDMLNR--GSLSTDGIKMFVLDEADEMLSRGFKD 188 (397)
T ss_pred HHHHHhhhcccceeeeeecCcccchhhhhhhhccCceeecCCchhHHHhhcc--ccccccceeEEeecchHhhhccchHH
Confidence 9988988888888988877765432 1334589999999999999886 45567789999999999999888888
Q ss_pred HHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC-HHHHHHHhhccccccccccccceEEEEec
Q 000107 662 LLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN-VAAVADWLQAALYETNFRPVPLEEYIKVG 740 (2191)
Q Consensus 662 ~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N-~~~la~wL~a~l~~~~~RpvpL~e~i~~~ 740 (2191)
.++.++..+ +.+.|++++|||+|. +..+.+-+... |....++..
T Consensus 189 qI~~if~~l--------------------------p~~vQv~l~SAT~p~~vl~vt~~f~~~---------pv~i~vkk~ 233 (397)
T KOG0327|consen 189 QIYDIFQEL--------------------------PSDVQVVLLSATMPSDVLEVTKKFMRE---------PVRILVKKD 233 (397)
T ss_pred HHHHHHHHc--------------------------CcchhheeecccCcHHHHHHHHHhccC---------ceEEEecch
Confidence 888887776 567899999999984 44444322211 111222211
Q ss_pred cccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhh
Q 000107 741 NAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDI 820 (2191)
Q Consensus 741 ~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~ 820 (2191)
.. ..+-++.++.... ...+.+.+..+.. .-.+.+|||||++.+..+...|..
T Consensus 234 ~l----tl~gikq~~i~v~-k~~k~~~l~dl~~----~~~q~~if~nt~r~v~~l~~~L~~------------------- 285 (397)
T KOG0327|consen 234 EL----TLEGIKQFYINVE-KEEKLDTLCDLYR----RVTQAVIFCNTRRKVDNLTDKLRA------------------- 285 (397)
T ss_pred hh----hhhheeeeeeecc-ccccccHHHHHHH----hhhcceEEecchhhHHHHHHHHhh-------------------
Confidence 10 0000001110000 1113333444333 456899999999998888777732
Q ss_pred HHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecCCCCCc
Q 000107 821 TSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRIGRD 900 (2191)
Q Consensus 821 ~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~~g~~ 900 (2191)
.++-+...|+.|.+.+|+.+...|+.|..+|||.|..+++|+|+-.+..||++..|.
T Consensus 286 ---------------------~~~~~s~~~~d~~q~~R~~~~~ef~~gssrvlIttdl~argidv~~~slvinydlP~-- 342 (397)
T KOG0327|consen 286 ---------------------HGFTVSAIHGDMEQNERDTLMREFRSGSSRVLITTDLLARGIDVQQVSLVVNYDLPA-- 342 (397)
T ss_pred ---------------------CCceEEEeecccchhhhhHHHHHhhcCCceEEeeccccccccchhhcceeeeecccc--
Confidence 123388899999999999999999999999999999999999999999999988876
Q ss_pred ccCcccccccccccCCCCCCCceEEEEEeChhhHHHH---HhhhccCCCCc
Q 000107 901 FIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKI---MGLLNESCPPL 948 (2191)
Q Consensus 901 ~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~---~~ll~~~l~~l 948 (2191)
...+|.||+||+||.| .+|.++.+++..+...+ .++.+-+++.+
T Consensus 343 --~~~~yihR~gr~gr~g--rkg~~in~v~~~d~~~lk~ie~~y~~~i~e~ 389 (397)
T KOG0327|consen 343 --RKENYIHRIGRAGRFG--RKGVAINFVTEEDVRDLKDIEKFYNTPIEEL 389 (397)
T ss_pred --chhhhhhhcccccccC--CCceeeeeehHhhHHHHHhHHHhcCCcceec
Confidence 7889999999999999 89999999998665443 44555444433
No 85
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.97 E-value=2.6e-30 Score=302.70 Aligned_cols=341 Identities=18% Similarity=0.238 Sum_probs=265.1
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHh---cCCEEEEEchhHHHHHH
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIS---TGKMALLVLPYVSICAE 585 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~---~g~kaL~I~P~raLA~q 585 (2191)
|...+..++.+.||+.|+|+|++.+|. ++++++++-.|-||||||.+|.+||++.+.. .|.+++++.|+++||.|
T Consensus 28 L~~~v~raI~kkg~~~ptpiqRKTipl--iLe~~dvv~martgsgktaaf~ipm~e~Lk~~s~~g~RalilsptreLa~q 105 (529)
T KOG0337|consen 28 LDYKVLRAIHKKGFNTPTPIQRKTIPL--ILEGRDVVGMARTGSGKTAAFLIPMIEKLKSHSQTGLRALILSPTRELALQ 105 (529)
T ss_pred CCHHHHHHHHHhhcCCCCchhcccccc--eeeccccceeeecCCcchhhHHHHHHHHHhhccccccceeeccCcHHHHHH
Confidence 668899999999999999999999988 9999999999999999999999999998875 45799999999999999
Q ss_pred HHHHHHHHhhccCCeEEEEeccCCCC----CCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhH
Q 000107 586 KAEHLEVLLEPLGRHVRSYYGNQGGG----SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGY 661 (2191)
Q Consensus 586 ~~~~l~~l~~~lg~~V~~~~G~~~~~----~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~ 661 (2191)
..+.++.+....+++...++|+.... .+..++|||++||+++..+.-.+ ...|+.+.+||+||++.|.+.++..
T Consensus 106 tlkvvkdlgrgt~lr~s~~~ggD~~eeqf~~l~~npDii~ATpgr~~h~~vem--~l~l~sveyVVfdEadrlfemgfqe 183 (529)
T KOG0337|consen 106 TLKVVKDLGRGTKLRQSLLVGGDSIEEQFILLNENPDIIIATPGRLLHLGVEM--TLTLSSVEYVVFDEADRLFEMGFQE 183 (529)
T ss_pred HHHHHHHhccccchhhhhhcccchHHHHHHHhccCCCEEEecCceeeeeehhe--eccccceeeeeehhhhHHHhhhhHH
Confidence 99999999888888888777765332 25567899999999987665542 2578999999999999999998988
Q ss_pred HHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhccccccccccccceEEEEecc
Q 000107 662 LLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQAALYETNFRPVPLEEYIKVGN 741 (2191)
Q Consensus 662 ~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a~l~~~~~RpvpL~e~i~~~~ 741 (2191)
.+..+++++ +...|.++||||+|+ ++.+|-.+.+..+.. ..+.++.
T Consensus 184 ql~e~l~rl--------------------------~~~~QTllfSatlp~--~lv~fakaGl~~p~l------VRldvet 229 (529)
T KOG0337|consen 184 QLHEILSRL--------------------------PESRQTLLFSATLPR--DLVDFAKAGLVPPVL------VRLDVET 229 (529)
T ss_pred HHHHHHHhC--------------------------CCcceEEEEeccCch--hhHHHHHccCCCCce------EEeehhh
Confidence 898888887 345599999999984 666676666543221 1122222
Q ss_pred ccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhH
Q 000107 742 AIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDIT 821 (2191)
Q Consensus 742 ~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~ 821 (2191)
.+-. .+.. .............+..++..... ..+++|||+|+..+|.+...+..
T Consensus 230 kise----~lk~-~f~~~~~a~K~aaLl~il~~~~~-~~~t~vf~~tk~hve~~~~ll~~-------------------- 283 (529)
T KOG0337|consen 230 KISE----LLKV-RFFRVRKAEKEAALLSILGGRIK-DKQTIVFVATKHHVEYVRGLLRD-------------------- 283 (529)
T ss_pred hcch----hhhh-heeeeccHHHHHHHHHHHhcccc-ccceeEEecccchHHHHHHHHHh--------------------
Confidence 1111 0000 00000001122233334433332 35899999999998876655533
Q ss_pred HHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecCCCCCcc
Q 000107 822 SAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRIGRDF 901 (2191)
Q Consensus 822 ~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~~g~~~ 901 (2191)
.++++..++|.|.+..|..-...|+.++..+||.|+++++|+|+|-..-||+++.+.
T Consensus 284 --------------------~g~~~s~iysslD~~aRk~~~~~F~~~k~~~lvvTdvaaRG~diplldnvinyd~p~--- 340 (529)
T KOG0337|consen 284 --------------------FGGEGSDIYSSLDQEARKINGRDFRGRKTSILVVTDVAARGLDIPLLDNVINYDFPP--- 340 (529)
T ss_pred --------------------cCCCccccccccChHhhhhccccccCCccceEEEehhhhccCCCccccccccccCCC---
Confidence 233477799999999999999999999999999999999999999999999988876
Q ss_pred cCcccccccccccCCCCCCCceEEEEEeChhhHHHHHh
Q 000107 902 IDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKIMG 939 (2191)
Q Consensus 902 is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~~~ 939 (2191)
+..-|.||+||+.|+| ..|.+|-++.+++..++.+
T Consensus 341 -~~klFvhRVgr~arag--rtg~aYs~V~~~~~~yl~D 375 (529)
T KOG0337|consen 341 -DDKLFVHRVGRVARAG--RTGRAYSLVASTDDPYLLD 375 (529)
T ss_pred -CCceEEEEecchhhcc--ccceEEEEEecccchhhhh
Confidence 5566999999999999 7999999998887666554
No 86
>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype. This model describes a CRISPR-associated putative DEAH-box helicase, or Cas3, of a subtype found in Actinomyces naeslundii MG1, Geobacter sulfurreducens PCA, Gemmata obscuriglobus UQM 2246, and Desulfotalea psychrophila. This protein includes both DEAH and HD motifs.
Probab=99.97 E-value=2.3e-29 Score=329.96 Aligned_cols=321 Identities=20% Similarity=0.245 Sum_probs=210.0
Q ss_pred HHHHHHH-cCCCCCCHHHHHhhhhcccccCC-eEEEEcCCCCchhHHHHHHHHHHHHh-c-CCEEEEEchhHHHHHHHHH
Q 000107 513 ICSIYKK-RGISKLYPWQVECLHVDGVLQRR-NLVYCASTSAGKSFVAEILMLRRLIS-T-GKMALLVLPYVSICAEKAE 588 (2191)
Q Consensus 513 l~~~l~~-~Gi~~l~p~Q~eal~~~~il~gk-nlIi~APTGSGKTlvael~iL~~ll~-~-g~kaL~I~P~raLA~q~~~ 588 (2191)
+.+.|+. .||+ |||||.++++. ++.|+ ++++.+|||||||.++.++++..... . ..+.||++|+|+||.|+++
T Consensus 4 f~~ff~~~~G~~-PtpiQ~~~i~~--il~G~~~v~~~apTGSGKTaa~aafll~~~~~~~~~~rLv~~vPtReLa~Qi~~ 80 (844)
T TIGR02621 4 FDEWYQGLHGYS-PFPWQLSLAER--FVAGQPPESCSTPTGLGKTSIIAAWLLAVEIGAKVPRRLVYVVNRRTVVDQVTE 80 (844)
T ss_pred HHHHHHHHhCCC-CCHHHHHHHHH--HHcCCCcceEecCCCCcccHHHHHhhccccccccccceEEEeCchHHHHHHHHH
Confidence 4455655 6997 99999999987 88887 67778999999999765544422111 1 2356678899999999999
Q ss_pred HHHHHhhcc-----------------------CCeEEEEeccCCCC----CCCCCCceEEEchHHHHHHHHHhh------
Q 000107 589 HLEVLLEPL-----------------------GRHVRSYYGNQGGG----SLPKDTSVAVCTIEKANSLVNRML------ 635 (2191)
Q Consensus 589 ~l~~l~~~l-----------------------g~~V~~~~G~~~~~----~l~~~~~IiV~TpEkl~~Ll~~l~------ 635 (2191)
.+.++...+ ++++..++|+.... .++.+++|+|+|++.+. ++.+
T Consensus 81 ~~~~~~k~l~~~~~~~~~~~~~~~~~~~~~~~~l~v~~l~GG~~~~~q~~~l~~~p~IIVgT~D~i~---sr~L~~gYg~ 157 (844)
T TIGR02621 81 EAEKIGERLPDVPEVEAALWALCSTRPEKKDRPLAISTLRGQFADNDEWMLDPHRPAVIVGTVDMIG---SRLLFSGYGC 157 (844)
T ss_pred HHHHHHHHhcccchhhhhhhhhhccccccccCCeEEEEEECCCChHHHHHhcCCCCcEEEECHHHHc---CCcccccccc
Confidence 999887654 47788889987542 25567899999965432 2221
Q ss_pred -------hcCCCCccceEEEcccccccccchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEecc
Q 000107 636 -------EEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSAT 708 (2191)
Q Consensus 636 -------~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSAT 708 (2191)
..+.+.++.+||+||+| .+.++...++.|+..+... . ...+.|+++||||
T Consensus 158 ~~~~~pi~ag~L~~v~~LVLDEAD--Ld~gF~~~l~~Il~~l~rp-~--------------------~~rprQtLLFSAT 214 (844)
T TIGR02621 158 GFKSRPLHAGFLGQDALIVHDEAH--LEPAFQELLKQIMNEQQRP-P--------------------DFLPLRVVELTAT 214 (844)
T ss_pred ccccccchhhhhccceEEEEehhh--hccccHHHHHHHHHhcccC-c--------------------ccccceEEEEecC
Confidence 11236889999999999 3556777777777654100 0 0124799999999
Q ss_pred CCC-HHHHHHHhhccccc-cccc-cccceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHH-HHhcCCcEEE
Q 000107 709 MPN-VAAVADWLQAALYE-TNFR-PVPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDE-VVQEGHSVLI 784 (2191)
Q Consensus 709 L~N-~~~la~wL~a~l~~-~~~R-pvpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e-~~~~g~~vLV 784 (2191)
++. ..++...+....+. ...+ .+.......+ +..... ...+.+...+.. ....++++||
T Consensus 215 ~p~ei~~l~~~~~~~p~~i~V~~~~l~a~ki~q~----v~v~~e-------------~Kl~~lv~~L~~ll~e~g~~vLV 277 (844)
T TIGR02621 215 SRTDGPDRTTLLSAEDYKHPVLKKRLAAKKIVKL----VPPSDE-------------KFLSTMVKELNLLMKDSGGAILV 277 (844)
T ss_pred CCccHHHHHHHHccCCceeecccccccccceEEE----EecChH-------------HHHHHHHHHHHHHHhhCCCcEEE
Confidence 974 44444443321110 0000 0000000000 000000 001111111111 2235689999
Q ss_pred EeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHH-----
Q 000107 785 FCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEERE----- 859 (2191)
Q Consensus 785 F~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~----- 859 (2191)
||||++.|+.++..|.+. |+..+||+|++.+|+
T Consensus 278 F~NTv~~Aq~L~~~L~~~------------------------------------------g~~lLHG~m~q~dR~~~~~~ 315 (844)
T TIGR02621 278 FCRTVKHVRKVFAKLPKE------------------------------------------KFELLTGTLRGAERDDLVKK 315 (844)
T ss_pred EECCHHHHHHHHHHHHhc------------------------------------------CCeEeeCCCCHHHHhhHHHH
Confidence 999999999999887431 136799999999999
Q ss_pred HHHHHhhc----CC-------ceEEEecccccccCCCCCceEEeecCCCCCcccCcccccccccccCCCCCCCceEEEEE
Q 000107 860 VVETCYRK----GL-------VRVLTATSTLAAGVNLPARRVIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLI 928 (2191)
Q Consensus 860 ~Ve~~Fr~----G~-------ikVLVATstLa~GVNLPav~VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill 928 (2191)
.+++.|++ |. .+|||||+++++||||+.. +||+... +..+|+||+||+||.|....+.++++
T Consensus 316 ~il~~Fk~~~~~g~~~~~~~g~~ILVATdVaerGLDId~d-~VI~d~a------P~esyIQRiGRtgR~G~~~~~~i~vv 388 (844)
T TIGR02621 316 EIFNRFLPQMLSGSRARPQQGTVYLVCTSAGEVGVNISAD-HLVCDLA------PFESMQQRFGRVNRFGELQACQIAVV 388 (844)
T ss_pred HHHHHHhccccccccccccccceEEeccchhhhcccCCcc-eEEECCC------CHHHHHHHhcccCCCCCCCCceEEEE
Confidence 78899987 54 6899999999999999984 5554332 46899999999999994333333333
No 87
>TIGR01587 cas3_core CRISPR-associated helicase Cas3. This model represents the highly conserved core region of an alignment of Cas3, a protein found in association with CRISPR repeat elements in a broad range of bacteria and archaea. Cas3 appears to be a helicase, with regions found by pfam00270 (DEAD/DEAH box helicase) and pfam00271 (Helicase conserved C-terminal domain). Some but not all members have an N-terminal HD domain region (pfam01966) that is not included within this model.
Probab=99.97 E-value=4.2e-29 Score=312.78 Aligned_cols=303 Identities=18% Similarity=0.210 Sum_probs=198.7
Q ss_pred eEEEEcCCCCchhHHHHHHHHHHHHh-cCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCC------C----
Q 000107 543 NLVYCASTSAGKSFVAEILMLRRLIS-TGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGG------G---- 611 (2191)
Q Consensus 543 nlIi~APTGSGKTlvael~iL~~ll~-~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~------~---- 611 (2191)
+++++||||||||++|++++++.+.. .+.+++|++|+++|+.|+++++..+++. .+..++|.... .
T Consensus 1 ~vvi~apTGsGKT~~~~~~~l~~~~~~~~~~ii~v~P~~~L~~q~~~~l~~~f~~---~~~~~~~~~~~~~~~~~~~~~~ 77 (358)
T TIGR01587 1 LLVIEAPTGYGKTEAALLWALHSIKSQKADRVIIALPTRATINAMYRRAKELFGS---NLGLLHSSSSFKRIKEMGDSEE 77 (358)
T ss_pred CEEEEeCCCCCHHHHHHHHHHHHHhhCCCCeEEEEeehHHHHHHHHHHHHHHhCc---ccEEeeccHHHHHHhccCCchh
Confidence 47999999999999999999987654 4579999999999999999999987643 33333332210 0
Q ss_pred ----------C--CCCCCceEEEchHHHHHHHHHhhhc--CCCC--ccceEEEcccccccccchhHHHHHHHHHHHHhhc
Q 000107 612 ----------S--LPKDTSVAVCTIEKANSLVNRMLEE--GRLS--EIGIIVIDELHMVADQNRGYLLELLLTKLRYAAG 675 (2191)
Q Consensus 612 ----------~--l~~~~~IiV~TpEkl~~Ll~~l~~~--~~L~--~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~ 675 (2191)
. .....+|+|+||+++...+.+.... ..+. ..++|||||+|.+.+..++. +..++..++
T Consensus 78 ~~~~~~~~~~~~~~~~~~~I~v~T~~~l~~~~~~~~~~~~~~~~~~~~~~iViDE~h~~~~~~~~~-l~~~l~~l~---- 152 (358)
T TIGR01587 78 FEHLFPLYIHSNDKLFLDPITVCTIDQVLKSVFGEFGHYEFTLASIANSLLIFDEVHFYDEYTLAL-ILAVLEVLK---- 152 (358)
T ss_pred HHHHHHHHhhchhhhhhCCeeeCCHHHHHHHHhcccchHHHHHHHhcCCEEEEeCCCCCCHHHHHH-HHHHHHHHH----
Confidence 0 0013579999999987655431111 0111 23899999999998765554 444444442
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhccccccccccccceEEEEeccccccchhhHHHHHH
Q 000107 676 EGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQAALYETNFRPVPLEEYIKVGNAIYSKKMDVVRTIL 755 (2191)
Q Consensus 676 ~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a~l~~~~~RpvpL~e~i~~~~~~~~~~~~~~r~l~ 755 (2191)
..+.|+|+||||+| +.+.+|+............+.......... . +.
T Consensus 153 ---------------------~~~~~~i~~SATlp--~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~----~------~~ 199 (358)
T TIGR01587 153 ---------------------DNDVPILLMSATLP--KFLKEYAEKIGYVEFNEPLDLKEERRFERH----R------FI 199 (358)
T ss_pred ---------------------HcCCCEEEEecCch--HHHHHHHhcCCCcccccCCCCccccccccc----c------ce
Confidence 13578999999997 456666643322111111111000000000 0 00
Q ss_pred HhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCC
Q 000107 756 TAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLD 835 (2191)
Q Consensus 756 ~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld 835 (2191)
........+...+..++. ....++++||||+|++.|+.++..|.+...
T Consensus 200 ~~~~~~~~~~~~l~~l~~-~~~~~~~~lVf~~t~~~~~~~~~~L~~~~~------------------------------- 247 (358)
T TIGR01587 200 KIESDKVGEISSLERLLE-FIKKGGKIAIIVNTVDRAQEFYQQLKENAP------------------------------- 247 (358)
T ss_pred eeccccccCHHHHHHHHH-HhhCCCeEEEEECCHHHHHHHHHHHHhhcC-------------------------------
Confidence 000000112333444443 334578999999999999999888865321
Q ss_pred hhhhhhcCCcEEEEcCCCCHHHHHHH----HHHhhcCCceEEEecccccccCCCCCceEEeecCCCCCcccCcccccccc
Q 000107 836 PVLEETLPSGVAYHHAGLTVEEREVV----ETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRIGRDFIDGTRYRQMA 911 (2191)
Q Consensus 836 ~~L~~~l~~GVa~hHagLs~~eR~~V----e~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~~g~~~is~~~y~Qmi 911 (2191)
...+..+||+|++.+|..+ ++.|++|..+|||||+++++|||+|. .+||+.+. +..+|+||+
T Consensus 248 -------~~~~~~~h~~~~~~~r~~~~~~~~~~f~~~~~~ilvaT~~~~~GiDi~~-~~vi~~~~------~~~~~iqr~ 313 (358)
T TIGR01587 248 -------EEEIMLLHSRFTEKDRAKKEAELLEEMKKNEKFVIVATQVIEASLDISA-DVMITELA------PIDSLIQRL 313 (358)
T ss_pred -------CCeEEEEECCCCHHHHHHHHHHHHHHhcCCCCeEEEECcchhceeccCC-CEEEEcCC------CHHHHHHHh
Confidence 1138899999999999764 78899999999999999999999985 45554433 567899999
Q ss_pred cccCCCCCC--CceEEEEEeChh
Q 000107 912 GRAGRTGID--TKGESMLICKPE 932 (2191)
Q Consensus 912 GRAGR~G~d--~~Ge~ill~~~~ 932 (2191)
||+||.|.. ..|.+|++....
T Consensus 314 GR~gR~g~~~~~~~~~~v~~~~~ 336 (358)
T TIGR01587 314 GRLHRYGRKNGENFEVYIITIAP 336 (358)
T ss_pred ccccCCCCCCCCCCeEEEEeecC
Confidence 999999854 235888887654
No 88
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.96 E-value=2.9e-28 Score=300.58 Aligned_cols=440 Identities=20% Similarity=0.225 Sum_probs=285.4
Q ss_pred ccccCCeEEEEcCCCCchhHHHHHHHHHHHHh-----cCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCC
Q 000107 537 GVLQRRNLVYCASTSAGKSFVAEILMLRRLIS-----TGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGG 611 (2191)
Q Consensus 537 ~il~gknlIi~APTGSGKTlvael~iL~~ll~-----~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~ 611 (2191)
+|..+..+||||.||||||+.....+...-.. .++.+-|..|+|-.|..++++...-+..+|-.|. |..+.++
T Consensus 267 aIn~n~vvIIcGeTGsGKTTQvPQFLYEAGf~s~~~~~~gmIGITqPRRVAaiamAkRVa~EL~~~~~eVs--YqIRfd~ 344 (1172)
T KOG0926|consen 267 AINENPVVIICGETGSGKTTQVPQFLYEAGFASEQSSSPGMIGITQPRRVAAIAMAKRVAFELGVLGSEVS--YQIRFDG 344 (1172)
T ss_pred HhhcCCeEEEecCCCCCccccchHHHHHcccCCccCCCCCeeeecCchHHHHHHHHHHHHHHhccCcccee--EEEEecc
Confidence 37788999999999999999988888765432 2457888999999999988887655555665554 3334445
Q ss_pred CCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCC
Q 000107 612 SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSS 691 (2191)
Q Consensus 612 ~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~ 691 (2191)
....++.|.++|.+. |++.+..+..|..++.|||||+|+ |....+.++..|-++..-+..- +
T Consensus 345 ti~e~T~IkFMTDGV---LLrEi~~DflL~kYSvIIlDEAHE-----RSvnTDILiGmLSRiV~LR~k~---~------- 406 (1172)
T KOG0926|consen 345 TIGEDTSIKFMTDGV---LLREIENDFLLTKYSVIILDEAHE-----RSVNTDILIGMLSRIVPLRQKY---Y------- 406 (1172)
T ss_pred ccCCCceeEEecchH---HHHHHHHhHhhhhceeEEechhhh-----ccchHHHHHHHHHHHHHHHHHH---h-------
Confidence 566789999999998 566666778899999999999998 6666777666554332110000 0
Q ss_pred CCCCCCCCceEEEEeccCCCHHHHHHHh-hccc-------cccccccccceEEEEeccccccchhhHHHHHHHhhccCCC
Q 000107 692 GKADPAHGLQIVGMSATMPNVAAVADWL-QAAL-------YETNFRPVPLEEYIKVGNAIYSKKMDVVRTILTAANLGGK 763 (2191)
Q Consensus 692 ~~~~~~~~iqII~mSATL~N~~~la~wL-~a~l-------~~~~~RpvpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~ 763 (2191)
.....-.++++|+|||||. +.+|- +..+ ...+-|..|+.+++.-..
T Consensus 407 ke~~~~kpLKLIIMSATLR----VsDFtenk~LFpi~pPlikVdARQfPVsIHF~krT---------------------- 460 (1172)
T KOG0926|consen 407 KEQCQIKPLKLIIMSATLR----VSDFTENKRLFPIPPPLIKVDARQFPVSIHFNKRT---------------------- 460 (1172)
T ss_pred hhhcccCceeEEEEeeeEE----ecccccCceecCCCCceeeeecccCceEEEeccCC----------------------
Confidence 0001235789999999983 33333 2222 234455555555443111
Q ss_pred ChhHHHHHHHHHH-----hcCCcEEEEeCchhHHHHHHHHHHHHHhhcc--------ccc----CC---------CCchh
Q 000107 764 DPDHIVELCDEVV-----QEGHSVLIFCSSRKGCESTARHVSKFLKKFS--------INV----HS---------SDSEF 817 (2191)
Q Consensus 764 d~d~l~~Ll~e~~-----~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~--------~~~----~~---------~~~~~ 817 (2191)
..|.+.+..+.+. -+.+.+|||+....++..++..|.+.++..- ... .. +...+
T Consensus 461 ~~DYi~eAfrKtc~IH~kLP~G~ILVFvTGQqEV~qL~~kLRK~~p~~f~~~k~~k~~k~~~e~k~~~s~~~~~~k~~df 540 (1172)
T KOG0926|consen 461 PDDYIAEAFRKTCKIHKKLPPGGILVFVTGQQEVDQLCEKLRKRFPESFGGVKMKKNVKAFKELKENPSDIGDSNKTDDF 540 (1172)
T ss_pred CchHHHHHHHHHHHHhhcCCCCcEEEEEeChHHHHHHHHHHHhhCccccccchhhhhhhhccccccchhhhccCcccccc
Confidence 1122222222211 1457999999999999999999998754110 000 00 00000
Q ss_pred h--h-------hHH------------HHHHhhc---CCCCCC-hhhh-------------hhcCCcEEEEcCCCCHHHHH
Q 000107 818 I--D-------ITS------------AIDALRR---CPAGLD-PVLE-------------ETLPSGVAYHHAGLTVEERE 859 (2191)
Q Consensus 818 ~--~-------~~~------------~~~~L~~---~~~gld-~~L~-------------~~l~~GVa~hHagLs~~eR~ 859 (2191)
. + +.. ....+.. ...|.+ .... .+-+.-|.++|+=|+.+++.
T Consensus 541 e~Ed~~~~~ed~d~~~~~~~~~~~raa~~~~~De~~~~nge~e~d~~e~~~E~~~~~~~~~~~pLyvLPLYSLLs~~~Q~ 620 (1172)
T KOG0926|consen 541 EEEDMYESDEDIDQELVDSGFASLRAAFNALADENGSVNGEPEKDESEEGQEAEQGKGKFSPGPLYVLPLYSLLSTEKQM 620 (1172)
T ss_pred hhcccccchhhhhhhhhcccchhhhhhhhccccccccccCCcccchhhhchhhhhccCCCCCCceEEeehhhhcCHHHhh
Confidence 0 0 000 0000000 000110 0010 11123488999999999999
Q ss_pred HHHHHhhcCCceEEEecccccccCCCCCceEEeecCCCC--------------CcccCcccccccccccCCCCCCCceEE
Q 000107 860 VVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRIG--------------RDFIDGTRYRQMAGRAGRTGIDTKGES 925 (2191)
Q Consensus 860 ~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~~g--------------~~~is~~~y~QmiGRAGR~G~d~~Ge~ 925 (2191)
.|+..-..|..-++|||++++++++||++++||+.++.. -.|+|.++.-||+|||||.| .|.|
T Consensus 621 RVF~~~p~g~RLcVVaTNVAETSLTIPgIkYVVD~Gr~K~R~Yd~~TGV~~FeV~wiSkASadQRAGRAGRtg---pGHc 697 (1172)
T KOG0926|consen 621 RVFDEVPKGERLCVVATNVAETSLTIPGIKYVVDCGRVKERLYDSKTGVSSFEVDWISKASADQRAGRAGRTG---PGHC 697 (1172)
T ss_pred hhccCCCCCceEEEEeccchhcccccCCeeEEEeccchhhhccccccCceeEEEEeeeccccchhccccCCCC---CCce
Confidence 999999999999999999999999999999999976421 24889999999999999999 9999
Q ss_pred EEEeChhhHHHHHhhhccCCCCcccccccccchhhHHHHHHHhcccccCHHHHHHHHHhhhcCCCCcchhHHHHHHHHHH
Q 000107 926 MLICKPEEVKKIMGLLNESCPPLHSCLSEDKNGMTHAILEVVAGGIVQTAEDIHRYVRCTLLNSTKPFQDVVKSAQDSLR 1005 (2191)
Q Consensus 926 ill~~~~e~~~~~~ll~~~l~~l~S~L~~~~~~l~~~iLeiia~gi~~t~~di~~~l~~tll~~~~~~~~~~~~~~~al~ 1005 (2191)
|.+|+..-+.. .|-.-..|.|.+. -...++|.+-+-+ |.....+.|-. .|. ...++.|.+
T Consensus 698 YRLYSSAVf~~--~Fe~fS~PEIlk~------Pve~lvLqMKsMn-------I~kVvnFPFPt--pPd---~~~L~~Aer 757 (1172)
T KOG0926|consen 698 YRLYSSAVFSN--DFEEFSLPEILKK------PVESLVLQMKSMN-------IDKVVNFPFPT--PPD---RSALEKAER 757 (1172)
T ss_pred eehhhhHHhhc--chhhhccHHHhhC------cHHHHHHHHHhcC-------ccceecCCCCC--Ccc---HHHHHHHHH
Confidence 99999854331 1222234444332 1223456555444 23333333322 222 356788999
Q ss_pred HHHHcccceeccCCCccCCCHHHHHHHhcCCChhhHHHHHHHHhh
Q 000107 1006 WLCHRKFLEWNEDTKLYSTTPLGRAAFGSSLCPEESLIVLDDLSR 1050 (2191)
Q Consensus 1006 ~L~~~~~i~~~~~~~~~~~T~LG~a~~~s~L~p~~a~~l~~~L~~ 1050 (2191)
.|+..|++.. ++ .+|+||++++.+||+|..+++++-.-+.
T Consensus 758 ~L~~LgALd~--~g---~lT~lGk~mS~FPlsPrfsKmL~~~~Q~ 797 (1172)
T KOG0926|consen 758 RLKALGALDS--NG---GLTKLGKAMSLFPLSPRFSKMLATSDQH 797 (1172)
T ss_pred HHHHhccccc--cC---CcccccchhcccccChhHHHHHHHHHhh
Confidence 9999999963 32 6999999999999999999987765543
No 89
>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]
Probab=99.96 E-value=1.3e-27 Score=300.23 Aligned_cols=392 Identities=25% Similarity=0.366 Sum_probs=260.7
Q ss_pred CCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHh-cCCEEEEEchhHHHHHHHHHHHHHHhhccC-CeE
Q 000107 524 KLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIS-TGKMALLVLPYVSICAEKAEHLEVLLEPLG-RHV 601 (2191)
Q Consensus 524 ~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~-~g~kaL~I~P~raLA~q~~~~l~~l~~~lg-~~V 601 (2191)
.|..||.+.+.. +-.++.++|+|||++|||++...+|=+.+.. +.+.+||++|+++|++|....+...+.... .+.
T Consensus 511 ~Pd~WQ~elLDs--vDr~eSavIVAPTSaGKTfisfY~iEKVLResD~~VVIyvaPtKaLVnQvsa~VyaRF~~~t~~rg 588 (1330)
T KOG0949|consen 511 CPDEWQRELLDS--VDRNESAVIVAPTSAGKTFISFYAIEKVLRESDSDVVIYVAPTKALVNQVSANVYARFDTKTFLRG 588 (1330)
T ss_pred CCcHHHHHHhhh--hhcccceEEEeeccCCceeccHHHHHHHHhhcCCCEEEEecchHHHhhhhhHHHHHhhccCccccc
Confidence 577899999976 7789999999999999999987766554443 567899999999999999988877663221 122
Q ss_pred EEEeccCCCC--CCCCCCceEEEchHHHHHHHHH-hhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHhhcCCC
Q 000107 602 RSYYGNQGGG--SLPKDTSVAVCTIEKANSLVNR-MLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAAGEGT 678 (2191)
Q Consensus 602 ~~~~G~~~~~--~l~~~~~IiV~TpEkl~~Ll~~-l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~~ 678 (2191)
..+.|..... ..+-+++|+|+-||-+.+++.. -....+..++++||+||+|.+|...-|..+|.++-.+
T Consensus 589 ~sl~g~ltqEYsinp~nCQVLITvPecleslLlspp~~q~~cerIRyiIfDEVH~iG~~ed~l~~Eqll~li-------- 660 (1330)
T KOG0949|consen 589 VSLLGDLTQEYSINPWNCQVLITVPECLESLLLSPPHHQKFCERIRYIIFDEVHLIGNEEDGLLWEQLLLLI-------- 660 (1330)
T ss_pred hhhHhhhhHHhcCCchhceEEEEchHHHHHHhcCchhhhhhhhcceEEEechhhhccccccchHHHHHHHhc--------
Confidence 2233443221 1234689999999999998764 2244588999999999999999887788888777554
Q ss_pred CCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhcc---------ccccccc----------------cccc
Q 000107 679 SDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQAA---------LYETNFR----------------PVPL 733 (2191)
Q Consensus 679 ~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a~---------l~~~~~R----------------pvpL 733 (2191)
+..++++|||++|+..+..|++.. +.....| .+++
T Consensus 661 --------------------~CP~L~LSATigN~~l~qkWlnq~~R~~sr~~eli~~~erySel~l~v~n~~~e~n~~yl 720 (1330)
T KOG0949|consen 661 --------------------PCPFLVLSATIGNPNLFQKWLNQRGRAMSRNAELIDYGERYSELGLVVYNRMNEGNAYYL 720 (1330)
T ss_pred --------------------CCCeeEEecccCCHHHHHHHHHHHHhhcCCCeeeeehhhhhhhhcceeeccCCCCcchHH
Confidence 467999999999999999999821 1000000 0000
Q ss_pred eEEEEec------------------------------------------cccccc--------hhhHHHH---HHHh---
Q 000107 734 EEYIKVG------------------------------------------NAIYSK--------KMDVVRT---ILTA--- 757 (2191)
Q Consensus 734 ~e~i~~~------------------------------------------~~~~~~--------~~~~~r~---l~~~--- 757 (2191)
......+ ...|.. .....+. +...
T Consensus 721 ~~~falgerai~~~~~~~~~s~dd~~~lafe~~~~l~~~k~~kl~~k~~p~~~fe~~~~~~k~~~e~~r~~~~l~~~f~e 800 (1330)
T KOG0949|consen 721 LKLFALGERAIIVSLRELSESEDDNVVLAFEPLSCLTLRKLNKLLIKITPENFFESNIVTKKEVGEYGRHLLELFQGFIE 800 (1330)
T ss_pred HHHHhhchhhccchhhccccCCCCceEeeccchhHHHHHHHHHHHhhcCHHHhhhhhhheechHHHHHHHHHHHHHHhhh
Confidence 0000000 000000 0000000 0000
Q ss_pred ----------------------hcc-CC----CChhHHHHHHHHHHhcC-CcEEEEeCchhHHHHHHHHHHHHHhhcccc
Q 000107 758 ----------------------ANL-GG----KDPDHIVELCDEVVQEG-HSVLIFCSSRKGCESTARHVSKFLKKFSIN 809 (2191)
Q Consensus 758 ----------------------~~~-~~----~d~d~l~~Ll~e~~~~g-~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~ 809 (2191)
... .. .-...++.++.++...+ -++|+|-..|..|+.+|..+...+......
T Consensus 801 ~s~~q~kik~~~ki~~k~Vnkqle~~~~ys~e~i~~nil~ll~dLkEK~~lpaicfn~dr~fcekla~kv~~~Le~~e~E 880 (1330)
T KOG0949|consen 801 DSLTQKQIKYVYKLQTKEVNKQLESVVDYSSEYILENILDLLMDLKEKNMLPAICFNTDRDFCEKLALKVHRQLESMEME 880 (1330)
T ss_pred cChHHHHHHHHHHhhhhhhhhHhhhcccCcHHHHHHHHHHHHHHHHhccccchhcccchHHHHHHHHHHHHHHHHHHHHh
Confidence 000 00 00122455555555544 799999999999999988876554321111
Q ss_pred cCCCCchhh-----------hhHH---------------------------------------HHHHhhcCCCCCChhhh
Q 000107 810 VHSSDSEFI-----------DITS---------------------------------------AIDALRRCPAGLDPVLE 839 (2191)
Q Consensus 810 ~~~~~~~~~-----------~~~~---------------------------------------~~~~L~~~~~gld~~L~ 839 (2191)
. .. .+.. +... ..+.-.+.....+..+.
T Consensus 881 e-~k-~k~m~k~kk~~~~a~~r~Kt~e~~~k~~~~~ek~~~~k~d~~~~~~~f~dp~~~~~~~~f~~~~~~~g~~~~~~i 958 (1330)
T KOG0949|consen 881 E-KK-DKLMEKMKKEAKRARDREKTKESWIKESIAAEKSFQMKNDKKNIKYTFLDPLTKLTDYEFEEETKFIGNTDFEFI 958 (1330)
T ss_pred h-HH-HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccceEEecCcccccchhhhhhhccccCCCcHHHH
Confidence 0 00 0000 0000 00000111112466777
Q ss_pred hhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecCCCCCcccCcccccccccccCCCCC
Q 000107 840 ETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRIGRDFIDGTRYRQMAGRAGRTGI 919 (2191)
Q Consensus 840 ~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~~g~~~is~~~y~QmiGRAGR~G~ 919 (2191)
+++-+||++||+||+..+|..||-.||.|.+.||+||.||+-|||.|.++||+-.+.. .+++..|.||+|||||.|+
T Consensus 959 d~lyRGiG~HHaglNr~yR~~VEvLFR~g~L~VlfaT~TLsLGiNMPCrTVvF~gDsL---QL~plny~QmaGRAGRRGF 1035 (1330)
T KOG0949|consen 959 DMLYRGIGVHHAGLNRKYRSLVEVLFRQGHLQVLFATETLSLGINMPCRTVVFAGDSL---QLDPLNYKQMAGRAGRRGF 1035 (1330)
T ss_pred HHHHhcccccccccchHHHHHHHHHhhcCceEEEEEeeehhcccCCCceeEEEecccc---ccCchhHHhhhcccccccc
Confidence 8888999999999999999999999999999999999999999999999999843332 2677899999999999999
Q ss_pred CCceEEEEEeChhhHHHHHhhhccCCCCccccc
Q 000107 920 DTKGESMLICKPEEVKKIMGLLNESCPPLHSCL 952 (2191)
Q Consensus 920 d~~Ge~ill~~~~e~~~~~~ll~~~l~~l~S~L 952 (2191)
|..|.++.+--|. .++.+++...+|.+.-..
T Consensus 1036 D~lGnV~FmgiP~--~kv~rLlts~L~diqG~~ 1066 (1330)
T KOG0949|consen 1036 DTLGNVVFMGIPR--QKVQRLLTSLLPDIQGAY 1066 (1330)
T ss_pred ccccceEEEeCcH--HHHHHHHHHhhhcccCCC
Confidence 9999999887664 456667777776665443
No 90
>PHA02558 uvsW UvsW helicase; Provisional
Probab=99.96 E-value=3.2e-27 Score=306.63 Aligned_cols=311 Identities=14% Similarity=0.167 Sum_probs=205.1
Q ss_pred CCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCC-EEEEEchhHHHHHHHHHHHHHHhhccCCeE
Q 000107 523 SKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGK-MALLVLPYVSICAEKAEHLEVLLEPLGRHV 601 (2191)
Q Consensus 523 ~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~-kaL~I~P~raLA~q~~~~l~~l~~~lg~~V 601 (2191)
..|+++|.++++. ++.+++.++++|||+|||+++... .+.+...++ ++||++|+++|+.|+.+++++++......+
T Consensus 113 ~~~r~~Q~~av~~--~l~~~~~il~apTGsGKT~i~~~l-~~~~~~~~~~~vLilvpt~eL~~Q~~~~l~~~~~~~~~~~ 189 (501)
T PHA02558 113 IEPHWYQYDAVYE--GLKNNRRLLNLPTSAGKSLIQYLL-SRYYLENYEGKVLIIVPTTSLVTQMIDDFVDYRLFPREAM 189 (501)
T ss_pred CCCCHHHHHHHHH--HHhcCceEEEeCCCCCHHHHHHHH-HHHHHhcCCCeEEEEECcHHHHHHHHHHHHHhccccccce
Confidence 4899999999976 788889999999999999987653 333333444 999999999999999999988654323334
Q ss_pred EEEeccCCCCCCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHhhcCCCCCC
Q 000107 602 RSYYGNQGGGSLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAAGEGTSDS 681 (2191)
Q Consensus 602 ~~~~G~~~~~~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~~~~s 681 (2191)
..++|+... ..+.+|+|+||+++.... ..+++++++|||||+|++.. ..++.++..+
T Consensus 190 ~~i~~g~~~---~~~~~I~VaT~qsl~~~~-----~~~~~~~~~iIvDEaH~~~~----~~~~~il~~~----------- 246 (501)
T PHA02558 190 HKIYSGTAK---DTDAPIVVSTWQSAVKQP-----KEWFDQFGMVIVDECHLFTG----KSLTSIITKL----------- 246 (501)
T ss_pred eEEecCccc---CCCCCEEEeeHHHHhhch-----hhhccccCEEEEEchhcccc----hhHHHHHHhh-----------
Confidence 444444321 235789999999865432 23578899999999999864 3355555444
Q ss_pred CCCCCCCCCCCCCCCCCCceEEEEeccCCCHH----HHHHHhhcccccccc-------ccccceEE-EEeccccccch--
Q 000107 682 SSGENSGTSSGKADPAHGLQIVGMSATMPNVA----AVADWLQAALYETNF-------RPVPLEEY-IKVGNAIYSKK-- 747 (2191)
Q Consensus 682 ~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~----~la~wL~a~l~~~~~-------RpvpL~e~-i~~~~~~~~~~-- 747 (2191)
+...+++|||||+.+.. .+..++|...+.... ..++++.. +..........
T Consensus 247 ---------------~~~~~~lGLTATp~~~~~~~~~~~~~fG~i~~~v~~~~li~~g~l~~~~~~~v~~~~~~~~~~~~ 311 (501)
T PHA02558 247 ---------------DNCKFKFGLTGSLRDGKANILQYVGLFGDIFKPVTTSQLMEEGQVTDLKINSIFLRYPDEDRVKL 311 (501)
T ss_pred ---------------hccceEEEEeccCCCccccHHHHHHhhCCceEEecHHHHHhCCCcCCceEEEEeccCCHHHhhhh
Confidence 12357999999986422 123344422211100 00111110 01110000000
Q ss_pred -hhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHH
Q 000107 748 -MDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDA 826 (2191)
Q Consensus 748 -~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~ 826 (2191)
....................+..++......+.++||||.+.+.|+.++..|.+. +
T Consensus 312 ~~~~~~~~~~~l~~~~~Rn~~I~~~~~~~~~~~~~~lV~~~~~~h~~~L~~~L~~~----g------------------- 368 (501)
T PHA02558 312 KGEDYQEEIKYITSHTKRNKWIANLALKLAKKGENTFVMFKYVEHGKPLYEMLKKV----Y------------------- 368 (501)
T ss_pred cccchHHHHHHHhccHHHHHHHHHHHHHHHhcCCCEEEEEEEHHHHHHHHHHHHHc----C-------------------
Confidence 0000000000000011223445555555566789999999999888887777541 1
Q ss_pred hhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEec-ccccccCCCCCceEEeecCCCCCcccCcc
Q 000107 827 LRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTAT-STLAAGVNLPARRVIFRQPRIGRDFIDGT 905 (2191)
Q Consensus 827 L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVAT-stLa~GVNLPav~VVI~~p~~g~~~is~~ 905 (2191)
..+..+||+++.++|..+++.|+.|...||||| +++++|+|+|.+.+||....+. +..
T Consensus 369 -----------------~~v~~i~G~~~~~eR~~i~~~~~~~~~~vLvaT~~~l~eG~Dip~ld~vIl~~p~~----s~~ 427 (501)
T PHA02558 369 -----------------DKVYYVSGEVDTEDRNEMKKIAEGGKGIIIVASYGVFSTGISIKNLHHVIFAHPSK----SKI 427 (501)
T ss_pred -----------------CCEEEEeCCCCHHHHHHHHHHHhCCCCeEEEEEcceeccccccccccEEEEecCCc----chh
Confidence 128889999999999999999999999999998 8999999999999888543322 667
Q ss_pred cccccccccCCCC
Q 000107 906 RYRQMAGRAGRTG 918 (2191)
Q Consensus 906 ~y~QmiGRAGR~G 918 (2191)
.|+||+||++|.+
T Consensus 428 ~~~QriGR~~R~~ 440 (501)
T PHA02558 428 IVLQSIGRVLRKH 440 (501)
T ss_pred hhhhhhhccccCC
Confidence 8999999999998
No 91
>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=99.95 E-value=8.8e-27 Score=290.39 Aligned_cols=291 Identities=18% Similarity=0.178 Sum_probs=191.5
Q ss_pred HHHHhhhhcccccCC--eEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhcc----CCeE
Q 000107 528 WQVECLHVDGVLQRR--NLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPL----GRHV 601 (2191)
Q Consensus 528 ~Q~eal~~~~il~gk--nlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~l----g~~V 601 (2191)
+|.++++. +.+++ +++++||||||||++|.++++. .+.+++|++|+++|+.++++.+..++..+ +..+
T Consensus 1 hQ~~~~~~--~~~~~~~~~~i~apTGsGKT~~~~~~~l~----~~~~~~~~~P~~aL~~~~~~~~~~~~~~~~~~~~~~v 74 (357)
T TIGR03158 1 HQVATFEA--LQSKDADIIFNTAPTGAGKTLAWLTPLLH----GENDTIALYPTNALIEDQTEAIKEFVDVFKPERDVNL 74 (357)
T ss_pred CHHHHHHH--HHcCCCCEEEEECCCCCCHHHHHHHHHHH----cCCCEEEEeChHHHHHHHHHHHHHHHHhcCCCCCceE
Confidence 59999986 77665 5899999999999999999885 35678999999999999999999887543 5566
Q ss_pred EEEeccCCCC--------------C----------CCCCCceEEEchHHHHHHHHHhhhcC------CCCccceEEEccc
Q 000107 602 RSYYGNQGGG--------------S----------LPKDTSVAVCTIEKANSLVNRMLEEG------RLSEIGIIVIDEL 651 (2191)
Q Consensus 602 ~~~~G~~~~~--------------~----------l~~~~~IiV~TpEkl~~Ll~~l~~~~------~L~~l~lVVIDEa 651 (2191)
..+.|..... . ....+.|+++||+.+..+++++.... .+..+++||+||+
T Consensus 75 ~~~~g~~~~d~~~~~~~~~~~~~g~~~~~~~r~~~~~~~p~illT~p~~l~~llr~~~~~~~~~~~~~~~~~~~iV~DE~ 154 (357)
T TIGR03158 75 LHVSKATLKDIKEYANDKVGSSKGEKLYNLLRNPIGTSTPIILLTNPDIFVYLTRFAYIDRGDIAAGFYTKFSTVIFDEF 154 (357)
T ss_pred EEecCCchHHHHHhhhhhcccCccchhhhhHHHHHhcCCCCEEEecHHHHHHHHhhhccCcccchhhhhcCCCEEEEecc
Confidence 6666652110 0 01246889999999998887653332 2578999999999
Q ss_pred ccccccchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhc------ccc-
Q 000107 652 HMVADQNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQA------ALY- 724 (2191)
Q Consensus 652 H~l~d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a------~l~- 724 (2191)
|.+.... ...+...+..+..+... ....++|+||||++. .+.++|.. .+.
T Consensus 155 H~~~~~~-~~~~~~~l~~~~~~~~~--------------------~~~~~~i~lSAT~~~--~~~~~l~~~~~~~~~~~~ 211 (357)
T TIGR03158 155 HLYDAKQ-LVGMLFLLAYMQLIRFF--------------------ECRRKFVFLSATPDP--ALILRLQNAKQAGVKIAP 211 (357)
T ss_pred cccCccc-chhhhhhhHHHHHHHhh--------------------hcCCcEEEEecCCCH--HHHHHHHhccccCceeee
Confidence 9987543 22222222222222110 124699999999864 33333321 110
Q ss_pred --cc-----------------ccccc--cceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHH--hcCCc
Q 000107 725 --ET-----------------NFRPV--PLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVV--QEGHS 781 (2191)
Q Consensus 725 --~~-----------------~~Rpv--pL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~--~~g~~ 781 (2191)
.. .+||+ +++..+..... .... ....+.+.+.+.+ ..+++
T Consensus 212 v~g~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~---~~~~--------------~l~~l~~~i~~~~~~~~~~k 274 (357)
T TIGR03158 212 IDGEKYQFPDNPELEADNKTQSFRPVLPPVELELIPAPD---FKEE--------------ELSELAEEVIERFRQLPGER 274 (357)
T ss_pred ecCcccccCCChhhhccccccccceeccceEEEEEeCCc---hhHH--------------HHHHHHHHHHHHHhccCCCe
Confidence 00 12222 11111110000 0000 0111223333333 24679
Q ss_pred EEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHH
Q 000107 782 VLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVV 861 (2191)
Q Consensus 782 vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~V 861 (2191)
+||||+|++.|+.++..|.+.. ....+..+||.+++.+|..+
T Consensus 275 ~LIf~nt~~~~~~l~~~L~~~~--------------------------------------~~~~~~~l~g~~~~~~R~~~ 316 (357)
T TIGR03158 275 GAIILDSLDEVNRLSDLLQQQG--------------------------------------LGDDIGRITGFAPKKDRERA 316 (357)
T ss_pred EEEEECCHHHHHHHHHHHhhhC--------------------------------------CCceEEeeecCCCHHHHHHh
Confidence 9999999999999998885421 11237789999999998654
Q ss_pred HHHhhcCCceEEEecccccccCCCCCceEEeecCCCCCcccCcccccccccccC
Q 000107 862 ETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRIGRDFIDGTRYRQMAGRAG 915 (2191)
Q Consensus 862 e~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~~g~~~is~~~y~QmiGRAG 915 (2191)
+..+|||||+++++|||+|.+.||++ |. +..+|+||+||+|
T Consensus 317 ------~~~~iLVaTdv~~rGiDi~~~~vi~~-p~------~~~~yiqR~GR~g 357 (357)
T TIGR03158 317 ------MQFDILLGTSTVDVGVDFKRDWLIFS-AR------DAAAFWQRLGRLG 357 (357)
T ss_pred ------ccCCEEEEecHHhcccCCCCceEEEC-CC------CHHHHhhhcccCC
Confidence 47899999999999999999866652 32 7789999999997
No 92
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=99.95 E-value=1.8e-26 Score=278.92 Aligned_cols=340 Identities=20% Similarity=0.286 Sum_probs=229.0
Q ss_pred CCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEE
Q 000107 523 SKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVR 602 (2191)
Q Consensus 523 ~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~ 602 (2191)
-+++.+|...... .+. +|.+++.|||-|||++|.+.|...+...++++|+++||+-|+.|.+..+.+.+.-..-.+.
T Consensus 14 ie~R~YQ~~i~a~--al~-~NtLvvlPTGLGKT~IA~~V~~~~l~~~~~kvlfLAPTKPLV~Qh~~~~~~v~~ip~~~i~ 90 (542)
T COG1111 14 IEPRLYQLNIAAK--ALF-KNTLVVLPTGLGKTFIAAMVIANRLRWFGGKVLFLAPTKPLVLQHAEFCRKVTGIPEDEIA 90 (542)
T ss_pred ccHHHHHHHHHHH--Hhh-cCeEEEecCCccHHHHHHHHHHHHHHhcCCeEEEecCCchHHHHHHHHHHHHhCCChhhee
Confidence 3677788877654 333 4999999999999999999999888877779999999999999999999888754445677
Q ss_pred EEeccCCCCC---CCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHH-HHHhhcCCC
Q 000107 603 SYYGNQGGGS---LPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTK-LRYAAGEGT 678 (2191)
Q Consensus 603 ~~~G~~~~~~---l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~k-Lr~~~~~~~ 678 (2191)
.++|...... .....+|+|+||..+..=+.. +...+.++.|+|+||||+--.. +.+-.+... +++
T Consensus 91 ~ltGev~p~~R~~~w~~~kVfvaTPQvveNDl~~--Grid~~dv~~lifDEAHRAvGn---yAYv~Va~~y~~~------ 159 (542)
T COG1111 91 ALTGEVRPEEREELWAKKKVFVATPQVVENDLKA--GRIDLDDVSLLIFDEAHRAVGN---YAYVFVAKEYLRS------ 159 (542)
T ss_pred eecCCCChHHHHHHHhhCCEEEeccHHHHhHHhc--CccChHHceEEEechhhhccCc---chHHHHHHHHHHh------
Confidence 8888764321 234578999999986333322 4557889999999999995432 223223322 222
Q ss_pred CCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC-HHH---HHHHhhcccc------cccccc-----------ccceE--
Q 000107 679 SDSSSGENSGTSSGKADPAHGLQIVGMSATMPN-VAA---VADWLQAALY------ETNFRP-----------VPLEE-- 735 (2191)
Q Consensus 679 ~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N-~~~---la~wL~a~l~------~~~~Rp-----------vpL~e-- 735 (2191)
..++.|+|||||.++ .+. +.+-|+..-+ ..+.+| |++..
T Consensus 160 ------------------~k~~~ilgLTASPGs~~ekI~eV~~nLgIe~vevrTE~d~DV~~Yv~~~kve~ikV~lp~e~ 221 (542)
T COG1111 160 ------------------AKNPLILGLTASPGSDLEKIQEVVENLGIEKVEVRTEEDPDVRPYVKKIKVEWIKVDLPEEI 221 (542)
T ss_pred ------------------ccCceEEEEecCCCCCHHHHHHHHHhCCcceEEEecCCCccHHHhhccceeEEEeccCcHHH
Confidence 357899999999874 444 4444442210 112222 11100
Q ss_pred ----------------------EEEeccccccch-------------------hhH------------------------
Q 000107 736 ----------------------YIKVGNAIYSKK-------------------MDV------------------------ 750 (2191)
Q Consensus 736 ----------------------~i~~~~~~~~~~-------------------~~~------------------------ 750 (2191)
++.....+.... ...
T Consensus 222 ~~ir~~l~~~l~~~Lk~L~~~g~~~~~~~~~~kdl~~~~~~~~~~a~~~~~~~~~~l~~~a~~~kl~~a~elletqGi~~ 301 (542)
T COG1111 222 KEIRDLLRDALKPRLKPLKELGVIESSSPVSKKDLLELRQIRLIMAKNEDSDKFRLLSVLAEAIKLAHALELLETQGIRP 301 (542)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCceeccCcccHhHHHHHHHHHHHhccCccHHHHHHHHHHHHHHHHHHHHHHHHhhChHH
Confidence 000000000000 000
Q ss_pred ----HHHHHH------------------------------hhccCCCChhHHHHHHHHHHh--cCCcEEEEeCchhHHHH
Q 000107 751 ----VRTILT------------------------------AANLGGKDPDHIVELCDEVVQ--EGHSVLIFCSSRKGCES 794 (2191)
Q Consensus 751 ----~r~l~~------------------------------~~~~~~~d~d~l~~Ll~e~~~--~g~~vLVF~~Sr~~~e~ 794 (2191)
+..+.. .......+.+++..++.+.+. .+..+|||++.|..++.
T Consensus 302 ~~~Yl~~l~e~~~~~~sk~a~~l~~d~~~~~al~~~~~~~~~~v~HPKl~~l~eilke~~~k~~~~RvIVFT~yRdTae~ 381 (542)
T COG1111 302 FYQYLEKLEEEATKGGSKAAKSLLADPYFKRALRLLIRADESGVEHPKLEKLREILKEQLEKNGDSRVIVFTEYRDTAEE 381 (542)
T ss_pred HHHHHHHHHHHhcccchHHHHHHhcChhhHHHHHHHHHhccccCCCccHHHHHHHHHHHHhcCCCceEEEEehhHhHHHH
Confidence 000000 001112345567777777773 44799999999999998
Q ss_pred HHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEE
Q 000107 795 TARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLT 874 (2191)
Q Consensus 795 lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLV 874 (2191)
++..|.+...... ..+++.+-.-+-.||++.++..+++.|+.|..+|||
T Consensus 382 i~~~L~~~~~~~~-------------------------------~rFiGQa~r~~~~GMsQkeQ~eiI~~Fr~Ge~nVLV 430 (542)
T COG1111 382 IVNFLKKIGIKAR-------------------------------VRFIGQASREGDKGMSQKEQKEIIDQFRKGEYNVLV 430 (542)
T ss_pred HHHHHHhcCCcce-------------------------------eEEeeccccccccccCHHHHHHHHHHHhcCCceEEE
Confidence 8888765432211 112333333456899999999999999999999999
Q ss_pred ecccccccCCCCCceEEeecCCCCCcccCcccccccccccCCCCCCCceEEEEEeChh
Q 000107 875 ATSTLAAGVNLPARRVIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPE 932 (2191)
Q Consensus 875 ATstLa~GVNLPav~VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~ 932 (2191)
|||+.+.|+|||.+.+||-+.... |.-.++||.||+||.. .|.+++++...
T Consensus 431 aTSVgEEGLDIp~vDlVifYEpvp----SeIR~IQR~GRTGR~r---~Grv~vLvt~g 481 (542)
T COG1111 431 ATSVGEEGLDIPEVDLVIFYEPVP----SEIRSIQRKGRTGRKR---KGRVVVLVTEG 481 (542)
T ss_pred EcccccccCCCCcccEEEEecCCc----HHHHHHHhhCccccCC---CCeEEEEEecC
Confidence 999999999999999998665433 6668999999999985 89999988775
No 93
>PRK09401 reverse gyrase; Reviewed
Probab=99.95 E-value=5.1e-26 Score=313.82 Aligned_cols=306 Identities=21% Similarity=0.222 Sum_probs=194.8
Q ss_pred HHHHHHHHH-cCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHH
Q 000107 511 SEICSIYKK-RGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEH 589 (2191)
Q Consensus 511 ~~l~~~l~~-~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~ 589 (2191)
.++.+.|++ .|+ +|+++|.++++. ++.|+|++++||||+|||+.+ ++++..+...+.+++||+||++||.|+++.
T Consensus 67 ~~~~~~f~~~~G~-~pt~iQ~~~i~~--il~g~dv~i~ApTGsGKT~f~-l~~~~~l~~~g~~alIL~PTreLa~Qi~~~ 142 (1176)
T PRK09401 67 KEFEKFFKKKTGS-KPWSLQRTWAKR--LLLGESFAIIAPTGVGKTTFG-LVMSLYLAKKGKKSYIIFPTRLLVEQVVEK 142 (1176)
T ss_pred HHHHHHHHHhcCC-CCcHHHHHHHHH--HHCCCcEEEEcCCCCCHHHHH-HHHHHHHHhcCCeEEEEeccHHHHHHHHHH
Confidence 345556655 477 899999999987 899999999999999999744 455555555788999999999999999999
Q ss_pred HHHHhhccCCeEEEEeccCCC-----C----C-CCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccch
Q 000107 590 LEVLLEPLGRHVRSYYGNQGG-----G----S-LPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNR 659 (2191)
Q Consensus 590 l~~l~~~lg~~V~~~~G~~~~-----~----~-l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~R 659 (2191)
++.++...++.+..++|+... . . ...+++|+|+||+++..++.. .....+++|||||+|.+.++++
T Consensus 143 l~~l~~~~~~~~~~~~g~~~~~~~ek~~~~~~l~~~~~~IlV~Tp~rL~~~~~~----l~~~~~~~lVvDEaD~~L~~~k 218 (1176)
T PRK09401 143 LEKFGEKVGCGVKILYYHSSLKKKEKEEFLERLKEGDFDILVTTSQFLSKNFDE----LPKKKFDFVFVDDVDAVLKSSK 218 (1176)
T ss_pred HHHHhhhcCceEEEEEccCCcchhHHHHHHHHHhcCCCCEEEECHHHHHHHHHh----ccccccCEEEEEChHHhhhccc
Confidence 999988888887777665421 0 0 124589999999998776542 2345699999999999987433
Q ss_pred h------------HHHHHHHHHHHHhhcCCCCCCCCCCC-CC-CCCCCCCCCCCceEEEEeccCCC--HHH--HHHHhhc
Q 000107 660 G------------YLLELLLTKLRYAAGEGTSDSSSGEN-SG-TSSGKADPAHGLQIVGMSATMPN--VAA--VADWLQA 721 (2191)
Q Consensus 660 G------------~~lE~lL~kLr~~~~~~~~~s~~~~~-~~-~~~~~~~~~~~iqII~mSATL~N--~~~--la~wL~a 721 (2191)
+ ..++.++..++.-... ...++. .. ............|++++|||++. ... +.+.++
T Consensus 219 ~id~~l~~lGF~~~~i~~i~~~i~~~~~~----~~~~~~i~~l~~~i~~~~~~~~q~ilfSAT~~~~~~~~~l~~~ll~- 293 (1176)
T PRK09401 219 NIDKLLYLLGFSEEDIEKAMELIRLKRKY----EEIYEKIRELEEKIAELKDKKGVLVVSSATGRPRGNRVKLFRELLG- 293 (1176)
T ss_pred chhhHHHhCCCCHHHHHHHHHhccccccc----chhhhHHHHHHHhhhhcccCCceEEEEeCCCCccchHHHHhhccce-
Confidence 2 3455555444210000 000000 00 00000000126799999999863 111 112111
Q ss_pred cccccccccccceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhH---HHHHHHH
Q 000107 722 ALYETNFRPVPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKG---CESTARH 798 (2191)
Q Consensus 722 ~l~~~~~RpvpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~---~e~lA~~ 798 (2191)
|........+.. +.............+..++.. .+.++||||++++. |+.++..
T Consensus 294 --~~v~~~~~~~rn------------------I~~~yi~~~~k~~~L~~ll~~---l~~~~LIFv~t~~~~~~ae~l~~~ 350 (1176)
T PRK09401 294 --FEVGSPVFYLRN------------------IVDSYIVDEDSVEKLVELVKR---LGDGGLIFVPSDKGKEYAEELAEY 350 (1176)
T ss_pred --EEecCcccccCC------------------ceEEEEEcccHHHHHHHHHHh---cCCCEEEEEecccChHHHHHHHHH
Confidence 110000000000 000000000112234444432 24689999999887 7777766
Q ss_pred HHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEe---
Q 000107 799 VSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTA--- 875 (2191)
Q Consensus 799 L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVA--- 875 (2191)
|... + ..+..+||+| +| . ++.|++|.++||||
T Consensus 351 L~~~----g------------------------------------i~v~~~hg~l---~~-~-l~~F~~G~~~VLVatas 385 (1176)
T PRK09401 351 LEDL----G------------------------------------INAELAISGF---ER-K-FEKFEEGEVDVLVGVAS 385 (1176)
T ss_pred HHHC----C------------------------------------CcEEEEeCcH---HH-H-HHHHHCCCCCEEEEecC
Confidence 6431 1 2378899999 23 3 49999999999999
Q ss_pred -cccccccCCCCC-ceEEeecCCC
Q 000107 876 -TSTLAAGVNLPA-RRVIFRQPRI 897 (2191)
Q Consensus 876 -TstLa~GVNLPa-v~VVI~~p~~ 897 (2191)
|++++||||+|+ +++||+++.|
T Consensus 386 ~tdv~aRGIDiP~~IryVI~y~vP 409 (1176)
T PRK09401 386 YYGVLVRGIDLPERIRYAIFYGVP 409 (1176)
T ss_pred CCCceeecCCCCcceeEEEEeCCC
Confidence 689999999999 7999886443
No 94
>KOG0925 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.95 E-value=4.3e-26 Score=270.10 Aligned_cols=417 Identities=20% Similarity=0.279 Sum_probs=289.5
Q ss_pred HHHHHHHHHcCCCCCCHHHH-HhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHH
Q 000107 511 SEICSIYKKRGISKLYPWQV-ECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEH 589 (2191)
Q Consensus 511 ~~l~~~l~~~Gi~~l~p~Q~-eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~ 589 (2191)
....++|+++- .|--|+. +-+- ..+..++.++++|.||||||+......+...+.....+.+..|.|.-|.+++.+
T Consensus 34 ~rY~~ilk~R~--~LPvw~~k~~F~-~~l~~nQ~~v~vGetgsGKttQiPq~~~~~~~~~~~~v~CTQprrvaamsva~R 110 (699)
T KOG0925|consen 34 QRYYDILKKRR--ELPVWEQKEEFL-KLLLNNQIIVLVGETGSGKTTQIPQFVLEYELSHLTGVACTQPRRVAAMSVAQR 110 (699)
T ss_pred HHHHHHHHHHh--cCchHHhHHHHH-HHHhcCceEEEEecCCCCccccCcHHHHHHHHhhccceeecCchHHHHHHHHHH
Confidence 66777877652 3444433 3332 236789999999999999999988888887777678899999999999999877
Q ss_pred HHHHhh-ccCCeEEEEeccCCCCCCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHH
Q 000107 590 LEVLLE-PLGRHVRSYYGNQGGGSLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLT 668 (2191)
Q Consensus 590 l~~l~~-~lg~~V~~~~G~~~~~~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~ 668 (2191)
...-.. .+|..|+ |....+.-...++-+-+||.+. |++..+....+..+++||+||+|+ |....+.++.
T Consensus 111 VadEMDv~lG~EVG--ysIrfEdC~~~~T~Lky~tDgm---LlrEams~p~l~~y~viiLDeahE-----RtlATDiLmG 180 (699)
T KOG0925|consen 111 VADEMDVTLGEEVG--YSIRFEDCTSPNTLLKYCTDGM---LLREAMSDPLLGRYGVIILDEAHE-----RTLATDILMG 180 (699)
T ss_pred HHHHhccccchhcc--ccccccccCChhHHHHHhcchH---HHHHHhhCcccccccEEEechhhh-----hhHHHHHHHH
Confidence 654322 2333332 2222222233445567888887 677888889999999999999998 8888889988
Q ss_pred HHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhc-cccccccccccceEEEEeccccccch
Q 000107 669 KLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQA-ALYETNFRPVPLEEYIKVGNAIYSKK 747 (2191)
Q Consensus 669 kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a-~l~~~~~RpvpL~e~i~~~~~~~~~~ 747 (2191)
.|+.+..+ .+++++|.||||+ +...+..|++. .+..... ..|++.++...
T Consensus 181 llk~v~~~--------------------rpdLk~vvmSatl-~a~Kfq~yf~n~Pll~vpg-~~PvEi~Yt~e------- 231 (699)
T KOG0925|consen 181 LLKEVVRN--------------------RPDLKLVVMSATL-DAEKFQRYFGNAPLLAVPG-THPVEIFYTPE------- 231 (699)
T ss_pred HHHHHHhh--------------------CCCceEEEeeccc-chHHHHHHhCCCCeeecCC-CCceEEEecCC-------
Confidence 88887643 4689999999997 67778777764 4443322 33444433211
Q ss_pred hhHHHHHHHhhccCCCChhHHHHHHHHH---H--hcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHH
Q 000107 748 MDVVRTILTAANLGGKDPDHIVELCDEV---V--QEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITS 822 (2191)
Q Consensus 748 ~~~~r~l~~~~~~~~~d~d~l~~Ll~e~---~--~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~ 822 (2191)
...|.+...++.+ . .+.+.+|||.++..+.+..++.|.......+..
T Consensus 232 ---------------~erDylEaairtV~qih~~ee~GDilvFLtgeeeIe~aC~~i~re~~~L~~~------------- 283 (699)
T KOG0925|consen 232 ---------------PERDYLEAAIRTVLQIHMCEEPGDILVFLTGEEEIEDACRKISREVDNLGPQ------------- 283 (699)
T ss_pred ---------------CChhHHHHHHHHHHHHHhccCCCCEEEEecCHHHHHHHHHHHHHHHHhhccc-------------
Confidence 1112222222222 1 235899999999999999999987654333211
Q ss_pred HHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhh---cC--CceEEEecccccccCCCCCceEEeecC--
Q 000107 823 AIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYR---KG--LVRVLTATSTLAAGVNLPARRVIFRQP-- 895 (2191)
Q Consensus 823 ~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr---~G--~ikVLVATstLa~GVNLPav~VVI~~p-- 895 (2191)
.-+-.|.++| +.++..|++... +| ..+|+|+|++++..+.++++.+||+.+
T Consensus 284 ------------------~g~l~v~PLy----P~~qq~iFep~p~~~~~~~~RkvVvstniaetsltidgiv~VIDpGf~ 341 (699)
T KOG0925|consen 284 ------------------VGPLKVVPLY----PAQQQRIFEPAPEKRNGAYGRKVVVSTNIAETSLTIDGIVFVIDPGFS 341 (699)
T ss_pred ------------------cCCceEEecC----chhhccccCCCCcccCCCccceEEEEecchheeeeeccEEEEecCchh
Confidence 1122377777 445555554443 23 359999999999999999999999843
Q ss_pred -------CCC-----CcccCcccccccccccCCCCCCCceEEEEEeChhhHHHHHhhhccCCCCc-ccccccccchhhHH
Q 000107 896 -------RIG-----RDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKIMGLLNESCPPL-HSCLSEDKNGMTHA 962 (2191)
Q Consensus 896 -------~~g-----~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~~~ll~~~l~~l-~S~L~~~~~~l~~~ 962 (2191)
++. ..+||..+..||+|||||.. +|.|+.+|+.+-+.+ ++.....|.+ +| ++...
T Consensus 342 kqkVYNPRIRvesllv~PISkasA~qR~gragrt~---pGkcfrLYte~~~~~--em~~~typeilrs-------NL~s~ 409 (699)
T KOG0925|consen 342 KQKVYNPRIRVESLLVSPISKASAQQRAGRAGRTR---PGKCFRLYTEEAFEK--EMQPQTYPEILRS-------NLSST 409 (699)
T ss_pred hhcccCcceeeeeeeeccchHhHHHHHhhhccCCC---CCceEEeecHHhhhh--cCCCCCcHHHHHH-------hhHHH
Confidence 322 23688889999999999986 999999999864332 2222222322 22 34455
Q ss_pred HHHHHhcccccCHHHHHHHHHhhhcCCCCcchhHHHHHHHHHHHHHHcccceeccCCCccCCCHHHHHHHhcCCChhhHH
Q 000107 963 ILEVVAGGIVQTAEDIHRYVRCTLLNSTKPFQDVVKSAQDSLRWLCHRKFLEWNEDTKLYSTTPLGRAAFGSSLCPEESL 1042 (2191)
Q Consensus 963 iLeiia~gi~~t~~di~~~l~~tll~~~~~~~~~~~~~~~al~~L~~~~~i~~~~~~~~~~~T~LG~a~~~s~L~p~~a~ 1042 (2191)
+|.+--.| |.+...|.|++++.| +.+..||+.|....++. .++ .+|++|+.++.+||+|..|+
T Consensus 410 VL~LKklg-------I~dlvhfdfmDpPAP-----EtLMrALE~LnYLaaLd--DdG---nLT~lG~imSEFPLdPqLAk 472 (699)
T KOG0925|consen 410 VLQLKKLG-------IDDLVHFDFMDPPAP-----ETLMRALEVLNYLAALD--DDG---NLTSLGEIMSEFPLDPQLAK 472 (699)
T ss_pred HHHHHhcC-------cccccCCcCCCCCCh-----HHHHHHHHHhhhhhhhC--CCc---ccchhhhhhhcCCCChHHHH
Confidence 67665555 456677889988887 67778888888888884 333 59999999999999999999
Q ss_pred HHHHHH
Q 000107 1043 IVLDDL 1048 (2191)
Q Consensus 1043 ~l~~~L 1048 (2191)
+++...
T Consensus 473 mLi~S~ 478 (699)
T KOG0925|consen 473 MLIGSC 478 (699)
T ss_pred HHhhcC
Confidence 988754
No 95
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=99.95 E-value=1.1e-26 Score=309.12 Aligned_cols=335 Identities=23% Similarity=0.312 Sum_probs=252.1
Q ss_pred CCcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHH
Q 000107 508 WLPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKA 587 (2191)
Q Consensus 508 ~Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~ 587 (2191)
|-.+.+..+...+|...++|-|.++|.. ++.|++.++.+|||+||++||.+|++- .++..|+|.|.++|...+.
T Consensus 248 ~t~~~~~~l~~~Fg~~~FR~~Q~eaI~~--~l~Gkd~fvlmpTG~GKSLCYQlPA~l----~~gitvVISPL~SLm~DQv 321 (941)
T KOG0351|consen 248 ETKELELLLKEVFGHKGFRPNQLEAINA--TLSGKDCFVLMPTGGGKSLCYQLPALL----LGGVTVVISPLISLMQDQV 321 (941)
T ss_pred cchHHHHHHHHHhccccCChhHHHHHHH--HHcCCceEEEeecCCceeeEeeccccc----cCCceEEeccHHHHHHHHH
Confidence 3334444444568999999999999986 999999999999999999999999864 3668999999999999988
Q ss_pred HHHHHHhhccCCeEEEEeccCCCCC-------C---CCCCceEEEchHHHHHHHHHhhhcCCCCc---cceEEEcccccc
Q 000107 588 EHLEVLLEPLGRHVRSYYGNQGGGS-------L---PKDTSVAVCTIEKANSLVNRMLEEGRLSE---IGIIVIDELHMV 654 (2191)
Q Consensus 588 ~~l~~l~~~lg~~V~~~~G~~~~~~-------l---~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~---l~lVVIDEaH~l 654 (2191)
..+. ..++....+.++..... + ....+|+..|||++...-+-......+.. +.++||||||++
T Consensus 322 ~~L~----~~~I~a~~L~s~q~~~~~~~i~q~l~~~~~~ikilYvtPE~v~~~~~l~~~~~~L~~~~~lal~vIDEAHCV 397 (941)
T KOG0351|consen 322 THLS----KKGIPACFLSSIQTAAERLAILQKLANGNPIIKILYVTPEKVVASEGLLESLADLYARGLLALFVIDEAHCV 397 (941)
T ss_pred Hhhh----hcCcceeeccccccHHHHHHHHHHHhCCCCeEEEEEeCHHHhhcccchhhHHHhccCCCeeEEEEecHHHHh
Confidence 7663 34777777777665421 1 12579999999997543211111223334 899999999999
Q ss_pred cccc--hhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC--HHHHHHHhhc---cccccc
Q 000107 655 ADQN--RGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN--VAAVADWLQA---ALYETN 727 (2191)
Q Consensus 655 ~d~~--RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N--~~~la~wL~a---~l~~~~ 727 (2191)
..|+ |.+.+..+- .++.. .+.+.+|+||||.+- .+++.+-|+- .++...
T Consensus 398 SqWgHdFRp~Yk~l~-~l~~~-----------------------~~~vP~iALTATAT~~v~~DIi~~L~l~~~~~~~~s 453 (941)
T KOG0351|consen 398 SQWGHDFRPSYKRLG-LLRIR-----------------------FPGVPFIALTATATERVREDVIRSLGLRNPELFKSS 453 (941)
T ss_pred hhhcccccHHHHHHH-HHHhh-----------------------CCCCCeEEeehhccHHHHHHHHHHhCCCCcceeccc
Confidence 9885 344443332 22211 244899999999752 5677777763 356666
Q ss_pred cccccceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHH--HHhcCCcEEEEeCchhHHHHHHHHHHHHHhh
Q 000107 728 FRPVPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDE--VVQEGHSVLIFCSSRKGCESTARHVSKFLKK 805 (2191)
Q Consensus 728 ~RpvpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e--~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~ 805 (2191)
|.+..+...|..... .+.+..++.. ....+.+.||||.+|++|+.++..|.+..
T Consensus 454 fnR~NL~yeV~~k~~----------------------~~~~~~~~~~~~~~~~~~s~IIYC~sr~~ce~vs~~L~~~~-- 509 (941)
T KOG0351|consen 454 FNRPNLKYEVSPKTD----------------------KDALLDILEESKLRHPDQSGIIYCLSRKECEQVSAVLRSLG-- 509 (941)
T ss_pred CCCCCceEEEEeccC----------------------ccchHHHHHHhhhcCCCCCeEEEeCCcchHHHHHHHHHHhc--
Confidence 666665555443221 1111111111 12356899999999999999999887633
Q ss_pred cccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCC
Q 000107 806 FSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNL 885 (2191)
Q Consensus 806 ~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNL 885 (2191)
...++||+||+..+|..|..+|-.++++|+|||=.+.+|||.
T Consensus 510 --------------------------------------~~a~~YHAGl~~~~R~~Vq~~w~~~~~~VivATVAFGMGIdK 551 (941)
T KOG0351|consen 510 --------------------------------------KSAAFYHAGLPPKERETVQKAWMSDKIRVIVATVAFGMGIDK 551 (941)
T ss_pred --------------------------------------hhhHhhhcCCCHHHHHHHHHHHhcCCCeEEEEEeeccCCCCC
Confidence 126789999999999999999999999999999999999999
Q ss_pred CCceEEeecCCCCCcccCcccccccccccCCCCCCCceEEEEEeChhhHHHHHhhhccC
Q 000107 886 PARRVIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKIMGLLNES 944 (2191)
Q Consensus 886 Pav~VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~~~ll~~~ 944 (2191)
|+||.||++..+. +.+.|.|-+|||||.| ....|++++...+...+..++...
T Consensus 552 ~DVR~ViH~~lPk----s~E~YYQE~GRAGRDG--~~s~C~l~y~~~D~~~l~~ll~s~ 604 (941)
T KOG0351|consen 552 PDVRFVIHYSLPK----SFEGYYQEAGRAGRDG--LPSSCVLLYGYADISELRRLLTSG 604 (941)
T ss_pred CceeEEEECCCch----hHHHHHHhccccCcCC--CcceeEEecchhHHHHHHHHHHcc
Confidence 9999999998887 8999999999999999 689999999999988888888766
No 96
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=99.94 E-value=1.8e-25 Score=284.93 Aligned_cols=343 Identities=20% Similarity=0.300 Sum_probs=224.5
Q ss_pred CCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHh-cCCEEEEEchhHHHHHHHHHHHHHHhhccCCeE
Q 000107 523 SKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIS-TGKMALLVLPYVSICAEKAEHLEVLLEPLGRHV 601 (2191)
Q Consensus 523 ~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~-~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V 601 (2191)
-.|+.+|.+.+.. .+ |+|+||++|||+|||++|...|++++.. .+.++|+++|++-|+.|+...+..++.+ ..+
T Consensus 61 ~~lR~YQ~eivq~--AL-gkNtii~lPTG~GKTfIAa~Vm~nh~rw~p~~KiVF~aP~~pLv~QQ~a~~~~~~~~--~~~ 135 (746)
T KOG0354|consen 61 LELRNYQEELVQP--AL-GKNTIIALPTGSGKTFIAAVIMKNHFEWRPKGKVVFLAPTRPLVNQQIACFSIYLIP--YSV 135 (746)
T ss_pred ccccHHHHHHhHH--hh-cCCeEEEeecCCCccchHHHHHHHHHhcCCcceEEEeeCCchHHHHHHHHHhhccCc--ccc
Confidence 4789999999986 55 9999999999999999999999988764 5679999999999999999777776654 455
Q ss_pred EEEeccCCCC----CCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHhhcCC
Q 000107 602 RSYYGNQGGG----SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAAGEG 677 (2191)
Q Consensus 602 ~~~~G~~~~~----~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~ 677 (2191)
.+..|+.... .+....+|+|+||..+..-+.+.... .|+.+.++||||+|.-.. .+.+-.++..+.+..
T Consensus 136 T~~l~~~~~~~~r~~i~~s~~vff~TpQil~ndL~~~~~~-~ls~fs~iv~DE~Hra~k---n~~Y~~Vmr~~l~~k--- 208 (746)
T KOG0354|consen 136 TGQLGDTVPRSNRGEIVASKRVFFRTPQILENDLKSGLHD-ELSDFSLIVFDECHRTSK---NHPYNNIMREYLDLK--- 208 (746)
T ss_pred eeeccCccCCCchhhhhcccceEEeChHhhhhhccccccc-ccceEEEEEEcccccccc---cccHHHHHHHHHHhh---
Confidence 5555554221 23346899999999976655543222 278899999999999653 233445554444332
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC-HHHHHHHhhc---cc---------------cccccccccceEEE-
Q 000107 678 TSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN-VAAVADWLQA---AL---------------YETNFRPVPLEEYI- 737 (2191)
Q Consensus 678 ~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N-~~~la~wL~a---~l---------------~~~~~RpvpL~e~i- 737 (2191)
....||||||||+++ .+.+...+.. .+ -.....|+++....
T Consensus 209 -------------------~~~~qILgLTASpG~~~~~v~~~I~~L~asldvr~~ssi~~~y~~lr~~~~i~v~~~~~~~ 269 (746)
T KOG0354|consen 209 -------------------NQGNQILGLTASPGSKLEQVQNVIDNLCASLDVRTESSIKSNYEELREHVQIPVDLSLCER 269 (746)
T ss_pred -------------------hccccEEEEecCCCccHHHHHHHHHhhheecccchhhhhhhhHHHHhccCcccCcHHHhhh
Confidence 123499999999884 4444444431 10 01111122211000
Q ss_pred -----------------------Ee--cccccc-----------------ch--hh---------------HHH---HHH
Q 000107 738 -----------------------KV--GNAIYS-----------------KK--MD---------------VVR---TIL 755 (2191)
Q Consensus 738 -----------------------~~--~~~~~~-----------------~~--~~---------------~~r---~l~ 755 (2191)
.. ....|. .. .. .++ .+.
T Consensus 270 ~~~~~f~~~i~p~l~~l~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~f~~~~~~~~~~~ll~~~gir~~~~l~ 349 (746)
T KOG0354|consen 270 DIEDPFGMIIEPLLQQLQEEGLIEISDKSTSYEQWVVQAEKAAAPNGPENQRNCFYALHLRKYNLALLISDGIRFVDALD 349 (746)
T ss_pred hhhhhHHHHHHHHHHHHHhcCccccccccccccchhhhhhhhhccCCCccchhhHHHHHHHHHHHHHHhhcchhhHHHHh
Confidence 00 000000 00 00 000 000
Q ss_pred ------------H----h----------------------hccCCCChhHHHHHHHHHHh--cCCcEEEEeCchhHHHHH
Q 000107 756 ------------T----A----------------------ANLGGKDPDHIVELCDEVVQ--EGHSVLIFCSSRKGCEST 795 (2191)
Q Consensus 756 ------------~----~----------------------~~~~~~d~d~l~~Ll~e~~~--~g~~vLVF~~Sr~~~e~l 795 (2191)
+ . ..........+.+.+.+... ....+||||.+|..+..+
T Consensus 350 ~~~~f~~e~~~~k~~~~~~e~~~~~~~~~~m~~~~~l~~~~~~~npkle~l~~~l~e~f~~~~dsR~IIFve~R~sa~~l 429 (746)
T KOG0354|consen 350 YLEDFYEEVALKKYLKLELEARLIRNFTENMNELEHLSLDPPKENPKLEKLVEILVEQFEQNPDSRTIIFVETRESALAL 429 (746)
T ss_pred hhhhhccccchhHHHHHHhcchhhHHHHHHHHhhhhhhcCCCccChhHHHHHHHHHHHhhcCCCccEEEEEehHHHHHHH
Confidence 0 0 00001122233344444333 236899999999999888
Q ss_pred HHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEe
Q 000107 796 ARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTA 875 (2191)
Q Consensus 796 A~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVA 875 (2191)
...|.+ +...+... ..+++.|-.---.||++.++..+++.|+.|.++||||
T Consensus 430 ~~~l~~-~~~~~ir~----------------------------~~fiGq~~s~~~~gmtqk~Q~evl~~Fr~G~~NvLVA 480 (746)
T KOG0354|consen 430 KKWLLQ-LHELGIKA----------------------------EIFIGQGKSTQSTGMTQKEQKEVLDKFRDGEINVLVA 480 (746)
T ss_pred HHHHHh-hhhccccc----------------------------ceeeeccccccccccCHHHHHHHHHHHhCCCccEEEE
Confidence 888765 22221111 0123333333337999999999999999999999999
Q ss_pred cccccccCCCCCceEEeecCCCCCcccCcccccccccccCCCCCCCceEEEEEeChhh
Q 000107 876 TSTLAAGVNLPARRVIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEE 933 (2191)
Q Consensus 876 TstLa~GVNLPav~VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e 933 (2191)
|++++.|+||+.+.+||.++... +....+||.|| ||+. .|+|+++++..+
T Consensus 481 TSV~EEGLDI~ec~lVIcYd~~s----npIrmIQrrGR-gRa~---ns~~vll~t~~~ 530 (746)
T KOG0354|consen 481 TSVAEEGLDIGECNLVICYDYSS----NPIRMVQRRGR-GRAR---NSKCVLLTTGSE 530 (746)
T ss_pred ecchhccCCcccccEEEEecCCc----cHHHHHHHhcc-cccc---CCeEEEEEcchh
Confidence 99999999999999999988866 56688999999 9986 899999998643
No 97
>PRK14701 reverse gyrase; Provisional
Probab=99.94 E-value=1.8e-25 Score=313.61 Aligned_cols=356 Identities=17% Similarity=0.180 Sum_probs=222.1
Q ss_pred HHHHHHHHH-cCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHH
Q 000107 511 SEICSIYKK-RGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEH 589 (2191)
Q Consensus 511 ~~l~~~l~~-~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~ 589 (2191)
.++.+.|++ .|| +|+++|.++++. ++.|++++++||||+|||+++.++.+.. ...|.++|||+||++|+.|+++.
T Consensus 66 ~~~~~~f~~~~G~-~pt~iQ~~~i~~--il~G~d~li~APTGsGKTl~~~~~al~~-~~~g~~aLVl~PTreLa~Qi~~~ 141 (1638)
T PRK14701 66 EEFEEFFEKITGF-EFWSIQKTWAKR--ILRGKSFSIVAPTGMGKSTFGAFIALFL-ALKGKKCYIILPTTLLVKQTVEK 141 (1638)
T ss_pred HHHHHHHHHhhCC-CCCHHHHHHHHH--HHcCCCEEEEEcCCCCHHHHHHHHHHHH-HhcCCeEEEEECHHHHHHHHHHH
Confidence 456667776 899 699999999987 9999999999999999999766555433 33678999999999999999999
Q ss_pred HHHHhhccC--CeEEEEeccCCCCC-------C-CCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEccccccccc--
Q 000107 590 LEVLLEPLG--RHVRSYYGNQGGGS-------L-PKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQ-- 657 (2191)
Q Consensus 590 l~~l~~~lg--~~V~~~~G~~~~~~-------l-~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~-- 657 (2191)
++.++..++ +++..++|+..... + ..+++|+|+||+++...+..+. ..++++|||||+|+|.++
T Consensus 142 l~~l~~~~~~~v~v~~~~g~~s~~e~~~~~~~l~~g~~dILV~TPgrL~~~~~~l~----~~~i~~iVVDEAD~ml~~~k 217 (1638)
T PRK14701 142 IESFCEKANLDVRLVYYHSNLRKKEKEEFLERIENGDFDILVTTAQFLARNFPEMK----HLKFDFIFVDDVDAFLKASK 217 (1638)
T ss_pred HHHHHhhcCCceeEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECCchhHHhHHHHh----hCCCCEEEEECceecccccc
Confidence 999887654 56666777764321 1 2358999999998776655421 267999999999999874
Q ss_pred ---------chhHHHHH-HHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCce-EEEEeccCCCHHHHHHHhhccc-cc
Q 000107 658 ---------NRGYLLEL-LLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQ-IVGMSATMPNVAAVADWLQAAL-YE 725 (2191)
Q Consensus 658 ---------~RG~~lE~-lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iq-II~mSATL~N~~~la~wL~a~l-~~ 725 (2191)
++.+.+.. ++..++.. ..........+...-+......+...| ++.+|||++.-.+...++...+ |.
T Consensus 218 nid~~L~llGF~~e~~~~~~~il~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~~ll~~SAT~~~r~~~~~l~~~~l~f~ 296 (1638)
T PRK14701 218 NIDRSLQLLGFYEEIIEKAWKIIYLK-KQGNIEDAMEKREILNKEIEKIGNKIGCLIVASATGKAKGDRVKLYRELLGFE 296 (1638)
T ss_pred ccchhhhcCCChHHHHHHHHHhhhcc-cccccchhhhhhhhhhhhhhhcCCCccEEEEEecCCCchhHHHHHhhcCeEEE
Confidence 33333321 11111100 000000000000000000001122334 6789999875344445443211 11
Q ss_pred cccccccceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHH---HHHHHHHHHH
Q 000107 726 TNFRPVPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGC---ESTARHVSKF 802 (2191)
Q Consensus 726 ~~~RpvpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~---e~lA~~L~~~ 802 (2191)
.......+...+.. |... .......+..++.. .+.++||||+|++.+ +.++..|..
T Consensus 297 v~~~~~~lr~i~~~----yi~~-------------~~~~k~~L~~ll~~---~g~~gIVF~~t~~~~e~ae~la~~L~~- 355 (1638)
T PRK14701 297 VGSGRSALRNIVDV----YLNP-------------EKIIKEHVRELLKK---LGKGGLIFVPIDEGAEKAEEIEKYLLE- 355 (1638)
T ss_pred ecCCCCCCCCcEEE----EEEC-------------CHHHHHHHHHHHHh---CCCCeEEEEeccccchHHHHHHHHHHH-
Confidence 11111111100000 0000 00001234444433 256899999998864 566665543
Q ss_pred HhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEec----cc
Q 000107 803 LKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTAT----ST 878 (2191)
Q Consensus 803 l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVAT----st 878 (2191)
.+ ..+..+||+ |..+++.|++|.++||||| ++
T Consensus 356 ---~G------------------------------------i~a~~~h~~-----R~~~l~~F~~G~~~VLVaT~s~~gv 391 (1638)
T PRK14701 356 ---DG------------------------------------FKIELVSAK-----NKKGFDLFEEGEIDYLIGVATYYGT 391 (1638)
T ss_pred ---CC------------------------------------CeEEEecch-----HHHHHHHHHcCCCCEEEEecCCCCe
Confidence 11 237889985 8899999999999999999 48
Q ss_pred ccccCCCCC-ceEEeecCCCCCcccCccccc-------------ccccccCCCCCCCceEEEEEeChhhHHHHHhhhcc
Q 000107 879 LAAGVNLPA-RRVIFRQPRIGRDFIDGTRYR-------------QMAGRAGRTGIDTKGESMLICKPEEVKKIMGLLNE 943 (2191)
Q Consensus 879 La~GVNLPa-v~VVI~~p~~g~~~is~~~y~-------------QmiGRAGR~G~d~~Ge~ill~~~~e~~~~~~ll~~ 943 (2191)
++||||+|+ +++||+++.|... ++...|. +|.|||||.| ..+++++.+-..+...+.+++..
T Consensus 392 aaRGIDiP~~Vryvi~~~~Pk~~-~~~e~~~~~~~~~~~~~~~~~~~~~a~~~g--~~~~~~~~~~~~~~~~~~~~l~~ 467 (1638)
T PRK14701 392 LVRGLDLPERIRFAVFYGVPKFR-FRVDLEDPTIYRILGLLSEILKIEEELKEG--IPIEGVLDVFPEDVEFLRSILKD 467 (1638)
T ss_pred eEecCccCCccCEEEEeCCCCCC-cchhhcccchhhhhcchHHHHHhhhhcccC--CcchhHHHhHHHHHHHHHHHhcc
Confidence 999999999 8999998776532 3344343 4559999999 57777755555656665555543
No 98
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=99.94 E-value=1.1e-25 Score=262.98 Aligned_cols=334 Identities=22% Similarity=0.290 Sum_probs=232.2
Q ss_pred HHHHHHHHH-cCCCCC-CHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHH
Q 000107 511 SEICSIYKK-RGISKL-YPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAE 588 (2191)
Q Consensus 511 ~~l~~~l~~-~Gi~~l-~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~ 588 (2191)
..+.+.|++ +|+.++ ++.|.+++.. .+...+++.|++|||+||++||.||.|-. ++..|++.|..+|...+.+
T Consensus 5 r~VreaLKK~FGh~kFKs~LQE~A~~c-~VK~k~DVyVsMPTGaGKSLCyQLPaL~~----~gITIV~SPLiALIkDQiD 79 (641)
T KOG0352|consen 5 RKVREALKKLFGHKKFKSRLQEQAINC-IVKRKCDVYVSMPTGAGKSLCYQLPALVH----GGITIVISPLIALIKDQID 79 (641)
T ss_pred HHHHHHHHHHhCchhhcChHHHHHHHH-HHhccCcEEEeccCCCchhhhhhchHHHh----CCeEEEehHHHHHHHHHHH
Confidence 356677766 788776 6899999986 35667999999999999999999998753 5589999999999999999
Q ss_pred HHHHHhhccCCeEEEEeccCCC----------CCCCCCCceEEEchHHH-----HHHHHHhhhcCCCCccceEEEccccc
Q 000107 589 HLEVLLEPLGRHVRSYYGNQGG----------GSLPKDTSVAVCTIEKA-----NSLVNRMLEEGRLSEIGIIVIDELHM 653 (2191)
Q Consensus 589 ~l~~l~~~lg~~V~~~~G~~~~----------~~l~~~~~IiV~TpEkl-----~~Ll~~l~~~~~L~~l~lVVIDEaH~ 653 (2191)
+|..+ .+.+..+.+..+. ....+...+++.|||.+ ..+++.+.. -..+.++||||+|+
T Consensus 80 HL~~L----KVp~~SLNSKlSt~ER~ri~~DL~~ekp~~K~LYITPE~AAt~~FQ~lLn~L~~---r~~L~Y~vVDEAHC 152 (641)
T KOG0352|consen 80 HLKRL----KVPCESLNSKLSTVERSRIMGDLAKEKPTIKMLYITPEGAATDGFQKLLNGLAN---RDVLRYIVVDEAHC 152 (641)
T ss_pred HHHhc----CCchhHhcchhhHHHHHHHHHHHHhcCCceeEEEEchhhhhhhhHHHHHHHHhh---hceeeeEEechhhh
Confidence 88765 2333222221110 11334678999999985 344554322 24478999999999
Q ss_pred ccccch--hHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC--HHHHHHHhhcc----cc-
Q 000107 654 VADQNR--GYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN--VAAVADWLQAA----LY- 724 (2191)
Q Consensus 654 l~d~~R--G~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N--~~~la~wL~a~----l~- 724 (2191)
++.|+. .+.+ +-|..||.. -+.+.-|+++||.+. -+++..-|.-. .|
T Consensus 153 VSQWGHDFRPDY-L~LG~LRS~-----------------------~~~vpwvALTATA~~~VqEDi~~qL~L~~PVAiFk 208 (641)
T KOG0352|consen 153 VSQWGHDFRPDY-LTLGSLRSV-----------------------CPGVPWVALTATANAKVQEDIAFQLKLRNPVAIFK 208 (641)
T ss_pred HhhhccccCcch-hhhhhHHhh-----------------------CCCCceEEeecccChhHHHHHHHHHhhcCcHHhcc
Confidence 998863 3332 234445433 256788999999642 33444444321 11
Q ss_pred ccccccccceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHh-----------cCCcEEEEeCchhHHH
Q 000107 725 ETNFRPVPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQ-----------EGHSVLIFCSSRKGCE 793 (2191)
Q Consensus 725 ~~~~RpvpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~-----------~g~~vLVF~~Sr~~~e 793 (2191)
.+.||.- -.|+..+ .. ...++..++.+.+...+- ..+..||||.||++||
T Consensus 209 TP~FR~N----------LFYD~~~------K~---~I~D~~~~LaDF~~~~LG~~~~~~~~~K~~~GCGIVYCRTR~~cE 269 (641)
T KOG0352|consen 209 TPTFRDN----------LFYDNHM------KS---FITDCLTVLADFSSSNLGKHEKASQNKKTFTGCGIVYCRTRNECE 269 (641)
T ss_pred Ccchhhh----------hhHHHHH------HH---HhhhHhHhHHHHHHHhcCChhhhhcCCCCcCcceEEEeccHHHHH
Confidence 2222221 1111110 00 011233445555544332 1267899999999999
Q ss_pred HHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEE
Q 000107 794 STARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVL 873 (2191)
Q Consensus 794 ~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVL 873 (2191)
.+|-.|... +-|...+|+||...||.+|.+++-+|.+-||
T Consensus 270 q~AI~l~~~----------------------------------------Gi~A~AYHAGLK~~ERTeVQe~WM~~~~PvI 309 (641)
T KOG0352|consen 270 QVAIMLEIA----------------------------------------GIPAMAYHAGLKKKERTEVQEKWMNNEIPVI 309 (641)
T ss_pred HHHHHhhhc----------------------------------------CcchHHHhcccccchhHHHHHHHhcCCCCEE
Confidence 999877431 1123448999999999999999999999999
Q ss_pred EecccccccCCCCCceEEeecCCCCCcccCcccccccccccCCCCCCCceEEEEEeChhhHHHHHhhhccCC
Q 000107 874 TATSTLAAGVNLPARRVIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKIMGLLNESC 945 (2191)
Q Consensus 874 VATstLa~GVNLPav~VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~~~ll~~~l 945 (2191)
+||..+.+|||-|++|+||+-.... +..-|.|-.|||||.| ....|=++|..++...+.=++...+
T Consensus 310 ~AT~SFGMGVDKp~VRFViHW~~~q----n~AgYYQESGRAGRDG--k~SyCRLYYsR~D~~~i~FLi~~e~ 375 (641)
T KOG0352|consen 310 AATVSFGMGVDKPDVRFVIHWSPSQ----NLAGYYQESGRAGRDG--KRSYCRLYYSRQDKNALNFLVSGEL 375 (641)
T ss_pred EEEeccccccCCcceeEEEecCchh----hhHHHHHhccccccCC--CccceeeeecccchHHHHHHHhhHH
Confidence 9999999999999999999754443 7788999999999999 7889999999988776655655444
No 99
>TIGR01054 rgy reverse gyrase. Generally, these gyrases are encoded as a single polypeptide. An exception was found in Methanopyrus kandleri, where enzyme is split within the topoisomerase domain, yielding a heterodimer of gene products designated RgyB and RgyA.
Probab=99.94 E-value=6.3e-25 Score=303.60 Aligned_cols=305 Identities=17% Similarity=0.160 Sum_probs=190.6
Q ss_pred HHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHH
Q 000107 511 SEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHL 590 (2191)
Q Consensus 511 ~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l 590 (2191)
.++.+.+.+....+|+++|.++++. ++.|++++++||||+|||+ |.++++..+...+++++||+||++||.|+++.+
T Consensus 65 ~~f~~~f~~~~g~~p~~iQ~~~i~~--il~G~d~vi~ApTGsGKT~-f~l~~~~~l~~~g~~vLIL~PTreLa~Qi~~~l 141 (1171)
T TIGR01054 65 KEFEEFFKKAVGSEPWSIQKMWAKR--VLRGDSFAIIAPTGVGKTT-FGLAMSLFLAKKGKRCYIILPTTLLVIQVAEKI 141 (1171)
T ss_pred HHHHHHHHHhcCCCCcHHHHHHHHH--HhCCCeEEEECCCCCCHHH-HHHHHHHHHHhcCCeEEEEeCHHHHHHHHHHHH
Confidence 4566677664455899999999987 9999999999999999997 556666666667889999999999999999999
Q ss_pred HHHhhccCCeEE---EEeccCCCCC-------C-CCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccch
Q 000107 591 EVLLEPLGRHVR---SYYGNQGGGS-------L-PKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNR 659 (2191)
Q Consensus 591 ~~l~~~lg~~V~---~~~G~~~~~~-------l-~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~R 659 (2191)
..++..+|+.+. .++|+..... + ..+++|+|+||+++...+.++. .++++|||||+|.|.+.++
T Consensus 142 ~~l~~~~~i~~~~i~~~~Gg~~~~e~~~~~~~l~~~~~dIlV~Tp~rL~~~~~~l~-----~~~~~iVvDEaD~~L~~~k 216 (1171)
T TIGR01054 142 SSLAEKAGVGTVNIGAYHSRLPTKEKKEFMERIENGDFDILITTTMFLSKNYDELG-----PKFDFIFVDDVDALLKASK 216 (1171)
T ss_pred HHHHHhcCCceeeeeeecCCCCHHHHHHHHHHHhcCCCCEEEECHHHHHHHHHHhc-----CCCCEEEEeChHhhhhccc
Confidence 999887776543 4567653211 1 2358999999999877665421 1899999999999998543
Q ss_pred h-----------H-HHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCC--ceEEEEeccC-CCHHHHH-HHhhccc
Q 000107 660 G-----------Y-LLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHG--LQIVGMSATM-PNVAAVA-DWLQAAL 723 (2191)
Q Consensus 660 G-----------~-~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~--iqII~mSATL-~N~~~la-~wL~a~l 723 (2191)
+ . .++.++..++.-... .-..+...-.......+.. .+++++|||. |.. +. .++...+
T Consensus 217 ~vd~il~llGF~~e~i~~il~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~q~~li~~SAT~~p~~--~~~~l~r~ll 290 (1171)
T TIGR01054 217 NVDKLLKLLGFSEELIEKAWKLIRLRLKL----YRALHAKKRLELLEAIPGKKRGCLIVSSATGRPRG--KRAKLFRELL 290 (1171)
T ss_pred cHHHHHHHcCCCHHHHHHHHHHhhhcccc----chHHHHHHHHHHHHhhhhccCcEEEEEeCCCCccc--cHHHHccccc
Confidence 2 2 234433322100000 0000000000000000122 3477899994 421 11 1111110
Q ss_pred -cccccccccceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCch---hHHHHHHHHH
Q 000107 724 -YETNFRPVPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSR---KGCESTARHV 799 (2191)
Q Consensus 724 -~~~~~RpvpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr---~~~e~lA~~L 799 (2191)
+........++.... ...........+..++.. .+.++||||+++ +.|+.++..|
T Consensus 291 ~~~v~~~~~~~r~I~~------------------~~~~~~~~~~~L~~ll~~---l~~~~IVFv~t~~~~~~a~~l~~~L 349 (1171)
T TIGR01054 291 GFEVGGGSDTLRNVVD------------------VYVEDEDLKETLLEIVKK---LGTGGIVYVSIDYGKEKAEEIAEFL 349 (1171)
T ss_pred ceEecCccccccceEE------------------EEEecccHHHHHHHHHHH---cCCCEEEEEeccccHHHHHHHHHHH
Confidence 000000000000000 000000002234444433 256899999999 8888887776
Q ss_pred HHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEe----
Q 000107 800 SKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTA---- 875 (2191)
Q Consensus 800 ~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVA---- 875 (2191)
.+. +..+..+||+++. .+++.|++|.++||||
T Consensus 350 ~~~----------------------------------------g~~a~~lhg~~~~----~~l~~Fr~G~~~vLVata~~ 385 (1171)
T TIGR01054 350 ENH----------------------------------------GVKAVAYHATKPK----EDYEKFAEGEIDVLIGVASY 385 (1171)
T ss_pred HhC----------------------------------------CceEEEEeCCCCH----HHHHHHHcCCCCEEEEeccc
Confidence 431 1237889999973 6889999999999999
Q ss_pred cccccccCCCCC-ceEEeec
Q 000107 876 TSTLAAGVNLPA-RRVIFRQ 894 (2191)
Q Consensus 876 TstLa~GVNLPa-v~VVI~~ 894 (2191)
|++++||||+|+ +++||++
T Consensus 386 tdv~aRGIDip~~V~~vI~~ 405 (1171)
T TIGR01054 386 YGTLVRGLDLPERVRYAVFL 405 (1171)
T ss_pred cCcccccCCCCccccEEEEE
Confidence 489999999999 7988874
No 100
>PRK13766 Hef nuclease; Provisional
Probab=99.93 E-value=3.1e-24 Score=294.04 Aligned_cols=340 Identities=17% Similarity=0.258 Sum_probs=219.6
Q ss_pred CCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEE
Q 000107 523 SKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVR 602 (2191)
Q Consensus 523 ~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~ 602 (2191)
-+++++|.+++.. ++.+ |+++++|||+|||++|.+++...+...++++|||+|+++|+.|+.+.++.++...+..+.
T Consensus 14 ~~~r~yQ~~~~~~--~l~~-n~lv~~ptG~GKT~~a~~~i~~~l~~~~~~vLvl~Pt~~L~~Q~~~~~~~~~~~~~~~v~ 90 (773)
T PRK13766 14 IEARLYQQLLAAT--ALKK-NTLVVLPTGLGKTAIALLVIAERLHKKGGKVLILAPTKPLVEQHAEFFRKFLNIPEEKIV 90 (773)
T ss_pred CCccHHHHHHHHH--HhcC-CeEEEcCCCccHHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHHHHHHHHHHhCCCCceEE
Confidence 4789999998875 5555 999999999999999999888877667889999999999999999999887654455777
Q ss_pred EEeccCCCCC---CCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHhhcCCCC
Q 000107 603 SYYGNQGGGS---LPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAAGEGTS 679 (2191)
Q Consensus 603 ~~~G~~~~~~---l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~~~ 679 (2191)
.+.|+..... ...+.+|+|+||+.+...+.. ....+.++++|||||+|++.... ....++.+++..
T Consensus 91 ~~~g~~~~~~r~~~~~~~~iiv~T~~~l~~~l~~--~~~~~~~~~liVvDEaH~~~~~~---~~~~i~~~~~~~------ 159 (773)
T PRK13766 91 VFTGEVSPEKRAELWEKAKVIVATPQVIENDLIA--GRISLEDVSLLIFDEAHRAVGNY---AYVYIAERYHED------ 159 (773)
T ss_pred EEeCCCCHHHHHHHHhCCCEEEECHHHHHHHHHc--CCCChhhCcEEEEECCccccccc---cHHHHHHHHHhc------
Confidence 7887654311 223578999999987554422 34467889999999999986431 122333333221
Q ss_pred CCCCCCCCCCCCCCCCCCCCceEEEEeccCC-CHHHH---HHHhhcccc--cccc----ccc---cceEEEEe--ccc--
Q 000107 680 DSSSGENSGTSSGKADPAHGLQIVGMSATMP-NVAAV---ADWLQAALY--ETNF----RPV---PLEEYIKV--GNA-- 742 (2191)
Q Consensus 680 ~s~~~~~~~~~~~~~~~~~~iqII~mSATL~-N~~~l---a~wL~a~l~--~~~~----Rpv---pL~e~i~~--~~~-- 742 (2191)
....++++||||.. +...+ ...|+...+ .+.+ .+. +-.+++.+ ...
T Consensus 160 -----------------~~~~~il~lTaTP~~~~~~i~~~~~~L~i~~v~~~~~~~~~v~~~~~~~~v~~~~v~l~~~~~ 222 (773)
T PRK13766 160 -----------------AKNPLVLGLTASPGSDEEKIKEVCENLGIEHVEVRTEDDPDVKPYVHKVKIEWVRVELPEELK 222 (773)
T ss_pred -----------------CCCCEEEEEEcCCCCCHHHHHHHHHhCCceEEEEcCCCChhHHhhhccceeEEEEeCCcHHHH
Confidence 24568999999964 33333 333321110 0000 000 00000000 000
Q ss_pred ----------------------cc--c---chhh------HHH-------------------------------------
Q 000107 743 ----------------------IY--S---KKMD------VVR------------------------------------- 752 (2191)
Q Consensus 743 ----------------------~~--~---~~~~------~~r------------------------------------- 752 (2191)
.. . .... .++
T Consensus 223 ~i~~~l~~~~~~~l~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~ 302 (773)
T PRK13766 223 EIRDLLNEALKDRLKKLKELGVIVSISPDVSKKELLGLQKKLQQEIANDDSEGYEAISILAEAMKLRHAVELLETQGVEA 302 (773)
T ss_pred HHHHHHHHHHHHHHHHHHHCCCcccCCCCcCHHHHHHHHHHHHHHhhcCchHHHHHHHHHHHHHHHHHHHHHHHHhCHHH
Confidence 00 0 0000 000
Q ss_pred ------HHHHh----------------------------hccCCCChhHHHHHHHHHH--hcCCcEEEEeCchhHHHHHH
Q 000107 753 ------TILTA----------------------------ANLGGKDPDHIVELCDEVV--QEGHSVLIFCSSRKGCESTA 796 (2191)
Q Consensus 753 ------~l~~~----------------------------~~~~~~d~d~l~~Ll~e~~--~~g~~vLVF~~Sr~~~e~lA 796 (2191)
.+... ......+.+.+..++.+.. ..+.++||||++++.|+.++
T Consensus 303 ~~~y~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~pK~~~L~~il~~~~~~~~~~kvlIF~~~~~t~~~L~ 382 (773)
T PRK13766 303 LRRYLERLREEARSSGGSKASKRLVEDPRFRKAVRKAKELDIEHPKLEKLREIVKEQLGKNPDSRIIVFTQYRDTAEKIV 382 (773)
T ss_pred HHHHHHHHHhhccccCCcHHHHHHHhCHHHHHHHHHHHhcccCChHHHHHHHHHHHHHhcCCCCeEEEEeCcHHHHHHHH
Confidence 00000 0000112233445555544 35689999999999999988
Q ss_pred HHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEec
Q 000107 797 RHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTAT 876 (2191)
Q Consensus 797 ~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVAT 876 (2191)
..|... +.... ...+.+...-|++|++.+|..+++.|++|.++|||||
T Consensus 383 ~~L~~~----~~~~~----------------------------~~~g~~~~~~~~~~~~~~r~~~~~~F~~g~~~vLvaT 430 (773)
T PRK13766 383 DLLEKE----GIKAV----------------------------RFVGQASKDGDKGMSQKEQIEILDKFRAGEFNVLVST 430 (773)
T ss_pred HHHHhC----CCceE----------------------------EEEccccccccCCCCHHHHHHHHHHHHcCCCCEEEEC
Confidence 887431 11000 0000000002557999999999999999999999999
Q ss_pred ccccccCCCCCceEEeecCCCCCcccCcccccccccccCCCCCCCceEEEEEeChh
Q 000107 877 STLAAGVNLPARRVIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPE 932 (2191)
Q Consensus 877 stLa~GVNLPav~VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~ 932 (2191)
+++++|+|+|.+++||.++.+. +..+|+||+||+||.| .|.+|+++...
T Consensus 431 ~~~~eGldi~~~~~VI~yd~~~----s~~r~iQR~GR~gR~~---~~~v~~l~~~~ 479 (773)
T PRK13766 431 SVAEEGLDIPSVDLVIFYEPVP----SEIRSIQRKGRTGRQE---EGRVVVLIAKG 479 (773)
T ss_pred ChhhcCCCcccCCEEEEeCCCC----CHHHHHHHhcccCcCC---CCEEEEEEeCC
Confidence 9999999999999999876543 7778999999999988 68898888653
No 101
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=99.92 E-value=5.4e-24 Score=274.84 Aligned_cols=344 Identities=19% Similarity=0.201 Sum_probs=224.0
Q ss_pred HcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccC
Q 000107 519 KRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLG 598 (2191)
Q Consensus 519 ~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg 598 (2191)
..|. .|||+|..+++. ++.|+ |..+.||+|||++|.+|++...+ .|+.++||+|+++||.|.++.+..++..+|
T Consensus 99 ~lg~-~p~~VQ~~~~~~--ll~G~--Iae~~TGeGKTla~~lp~~~~al-~G~~v~VvTptreLA~qdae~~~~l~~~lG 172 (656)
T PRK12898 99 VLGQ-RHFDVQLMGGLA--LLSGR--LAEMQTGEGKTLTATLPAGTAAL-AGLPVHVITVNDYLAERDAELMRPLYEALG 172 (656)
T ss_pred HhCC-CCChHHHHHHHH--HhCCC--eeeeeCCCCcHHHHHHHHHHHhh-cCCeEEEEcCcHHHHHHHHHHHHHHHhhcC
Confidence 3676 799999999987 88888 99999999999999999998765 588999999999999999999999999999
Q ss_pred CeEEEEeccCCCC--CCCCCCceEEEchHHH-HHHHHHhhh-----------------------cCCCCccceEEEcccc
Q 000107 599 RHVRSYYGNQGGG--SLPKDTSVAVCTIEKA-NSLVNRMLE-----------------------EGRLSEIGIIVIDELH 652 (2191)
Q Consensus 599 ~~V~~~~G~~~~~--~l~~~~~IiV~TpEkl-~~Ll~~l~~-----------------------~~~L~~l~lVVIDEaH 652 (2191)
++|..++|+.... ....+++|+|+|...+ .+.++..+. ......+.+.||||+|
T Consensus 173 lsv~~i~gg~~~~~r~~~y~~dIvygT~~e~~FDyLrd~~~~~~~~~~~~~~~~~l~~~~~~~~~~v~r~~~~aIvDEvD 252 (656)
T PRK12898 173 LTVGCVVEDQSPDERRAAYGADITYCTNKELVFDYLRDRLALGQRASDARLALESLHGRSSRSTQLLLRGLHFAIVDEAD 252 (656)
T ss_pred CEEEEEeCCCCHHHHHHHcCCCEEEECCCchhhhhccccccccccccchhhhhhhhccccCchhhhcccccceeEeeccc
Confidence 9999999976421 1234689999998876 333332111 1124567899999999
Q ss_pred ccc-ccchh--------------HHHHHHHHHHHHhhcCC-------------------------CCCCCCC--------
Q 000107 653 MVA-DQNRG--------------YLLELLLTKLRYAAGEG-------------------------TSDSSSG-------- 684 (2191)
Q Consensus 653 ~l~-d~~RG--------------~~lE~lL~kLr~~~~~~-------------------------~~~s~~~-------- 684 (2191)
-+. |..|. ..+..+....+.+.... ..-.+.+
T Consensus 253 SiLiDeartpliis~~~~~~~~~~~y~~~~~~~~~l~~~~~y~~d~~~~~v~lt~~g~~~~e~~~~~l~~~~~~~~~~~~ 332 (656)
T PRK12898 253 SVLIDEARTPLIISAPAKEADEAEVYRQALELAAQLKEGEDYTIDAAEKRIELTEAGRARIAELAESLPPAWRGAVRREE 332 (656)
T ss_pred ceeeccCCCceEEECCCCCCchhHHHHHHHHHHHhcCCCCceEEECCCCeEEEcHHHHHHHHHHhCcchhhcccchHHHH
Confidence 664 22111 11111111111110000 0000000
Q ss_pred -----------------------------CCCCC----CC---C-----------CCCC--------------CCCceEE
Q 000107 685 -----------------------------ENSGT----SS---G-----------KADP--------------AHGLQIV 703 (2191)
Q Consensus 685 -----------------------------~~~~~----~~---~-----------~~~~--------------~~~iqII 703 (2191)
+..+. +. + .-.. ..-.++.
T Consensus 333 ~i~~Al~A~~l~~~d~dYiV~d~~V~ivD~~TGR~~~gr~w~~GLhQaieaKE~v~i~~e~~t~a~It~q~~Fr~Y~kl~ 412 (656)
T PRK12898 333 LVRQALSALHLFRRDEHYIVRDGKVVIVDEFTGRVMPDRSWEDGLHQMIEAKEGCELTDPRETLARITYQRFFRRYLRLA 412 (656)
T ss_pred HHHHHHHHHHHHhcCCceEEECCeEEEEECCCCeECCCCCcChHHHHHHHHhcCCCCCcCceeeeeehHHHHHHhhHHHh
Confidence 00000 00 0 0000 0011577
Q ss_pred EEeccCCC-HHHHHHHhhcccc-ccccccccceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCc
Q 000107 704 GMSATMPN-VAAVADWLQAALY-ETNFRPVPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHS 781 (2191)
Q Consensus 704 ~mSATL~N-~~~la~wL~a~l~-~~~~RpvpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~ 781 (2191)
|||||.+. .+++.++.+..++ .+..+|..... ....++.... .+...+..++......+.+
T Consensus 413 GmTGTa~~~~~El~~~y~l~vv~IPt~kp~~r~~---~~~~v~~t~~--------------~K~~aL~~~i~~~~~~~~p 475 (656)
T PRK12898 413 GMTGTAREVAGELWSVYGLPVVRIPTNRPSQRRH---LPDEVFLTAA--------------AKWAAVAARVRELHAQGRP 475 (656)
T ss_pred cccCcChHHHHHHHHHHCCCeEEeCCCCCcccee---cCCEEEeCHH--------------HHHHHHHHHHHHHHhcCCC
Confidence 89999875 4456666554422 23333331110 0111111110 1123445555554445789
Q ss_pred EEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHH
Q 000107 782 VLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVV 861 (2191)
Q Consensus 782 vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~V 861 (2191)
+||||+|++.++.++..|.+. + ..+..+||.+...++..+
T Consensus 476 vLIft~t~~~se~L~~~L~~~----g------------------------------------i~~~~Lhg~~~~rE~~ii 515 (656)
T PRK12898 476 VLVGTRSVAASERLSALLREA----G------------------------------------LPHQVLNAKQDAEEAAIV 515 (656)
T ss_pred EEEEeCcHHHHHHHHHHHHHC----C------------------------------------CCEEEeeCCcHHHHHHHH
Confidence 999999999999998888541 1 126779999877776666
Q ss_pred HHHhhcCCceEEEecccccccCCCC---Cce-----EEeecCCCCCcccCcccccccccccCCCCCCCceEEEEEeChhh
Q 000107 862 ETCYRKGLVRVLTATSTLAAGVNLP---ARR-----VIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEE 933 (2191)
Q Consensus 862 e~~Fr~G~ikVLVATstLa~GVNLP---av~-----VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e 933 (2191)
..+++.| .|+|||++++||+||+ .+. +||++..+. +...|.||+||+||.| .+|.|+.|++.+|
T Consensus 516 ~~ag~~g--~VlVATdmAgRGtDI~l~~~V~~~GGLhVI~~d~P~----s~r~y~hr~GRTGRqG--~~G~s~~~is~eD 587 (656)
T PRK12898 516 ARAGQRG--RITVATNMAGRGTDIKLEPGVAARGGLHVILTERHD----SARIDRQLAGRCGRQG--DPGSYEAILSLED 587 (656)
T ss_pred HHcCCCC--cEEEEccchhcccCcCCccchhhcCCCEEEEcCCCC----CHHHHHHhcccccCCC--CCeEEEEEechhH
Confidence 6555554 6999999999999999 665 899887776 7778999999999999 7999999998754
No 102
>TIGR00603 rad25 DNA repair helicase rad25. All proteins in this family for which functions are known are DNA-DNA helicases used for the initiation of nucleotide excision repair and transacription as part of the TFIIH complex.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.92 E-value=4.1e-24 Score=278.67 Aligned_cols=322 Identities=16% Similarity=0.224 Sum_probs=205.6
Q ss_pred CCCCHHHHHhhhhcccc-cC--CeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCC
Q 000107 523 SKLYPWQVECLHVDGVL-QR--RNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGR 599 (2191)
Q Consensus 523 ~~l~p~Q~eal~~~~il-~g--knlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~ 599 (2191)
..|+|+|.+++.. ++ .| ++.++++|||+|||+++..++.+ + ++++|||+|+..|+.|+.++|.+++.-...
T Consensus 254 ~~LRpYQ~eAl~~--~~~~gr~r~GIIvLPtGaGKTlvai~aa~~-l---~k~tLILvps~~Lv~QW~~ef~~~~~l~~~ 327 (732)
T TIGR00603 254 TQIRPYQEKSLSK--MFGNGRARSGIIVLPCGAGKSLVGVTAACT-V---KKSCLVLCTSAVSVEQWKQQFKMWSTIDDS 327 (732)
T ss_pred CCcCHHHHHHHHH--HHhcCCCCCcEEEeCCCCChHHHHHHHHHH-h---CCCEEEEeCcHHHHHHHHHHHHHhcCCCCc
Confidence 3789999999975 44 34 47899999999999999765543 2 578999999999999999999887543345
Q ss_pred eEEEEeccCCCCCCCCCCceEEEchHHHHHHHHH------hhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHh
Q 000107 600 HVRSYYGNQGGGSLPKDTSVAVCTIEKANSLVNR------MLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYA 673 (2191)
Q Consensus 600 ~V~~~~G~~~~~~l~~~~~IiV~TpEkl~~Ll~~------l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~ 673 (2191)
.+..++|+.... ......|+|+|+..+....++ .+....-..+++||+||+|++.. ..+..++..+
T Consensus 328 ~I~~~tg~~k~~-~~~~~~VvVtTYq~l~~~~~r~~~~~~~l~~l~~~~~gLII~DEvH~lpA----~~fr~il~~l--- 399 (732)
T TIGR00603 328 QICRFTSDAKER-FHGEAGVVVSTYSMVAHTGKRSYESEKVMEWLTNREWGLILLDEVHVVPA----AMFRRVLTIV--- 399 (732)
T ss_pred eEEEEecCcccc-cccCCcEEEEEHHHhhcccccchhhhHHHHHhccccCCEEEEEccccccH----HHHHHHHHhc---
Confidence 566676654322 223468999999876432111 11111124689999999999853 3333344433
Q ss_pred hcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC----HHHHHHHhhccccccccccc-------cce---EEEEe
Q 000107 674 AGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN----VAAVADWLQAALYETNFRPV-------PLE---EYIKV 739 (2191)
Q Consensus 674 ~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N----~~~la~wL~a~l~~~~~Rpv-------pL~---e~i~~ 739 (2191)
.....+|||||+.. ..++...+|..+|..++... +.+ ..+..
T Consensus 400 ------------------------~a~~RLGLTATP~ReD~~~~~L~~LiGP~vye~~~~eLi~~G~LA~~~~~ev~v~~ 455 (732)
T TIGR00603 400 ------------------------QAHCKLGLTATLVREDDKITDLNFLIGPKLYEANWMELQKKGFIANVQCAEVWCPM 455 (732)
T ss_pred ------------------------CcCcEEEEeecCcccCCchhhhhhhcCCeeeecCHHHHHhCCccccceEEEEEecC
Confidence 12357999999752 33444455655554433211 111 01111
Q ss_pred ccccccchhh---HHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCch
Q 000107 740 GNAIYSKKMD---VVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSE 816 (2191)
Q Consensus 740 ~~~~~~~~~~---~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~ 816 (2191)
....+..... ..+... ......+...+..++...-..+.++||||.+...++.++..|
T Consensus 456 t~~~~~~yl~~~~~~k~~l--~~~np~K~~~~~~Li~~he~~g~kiLVF~~~~~~l~~~a~~L----------------- 516 (732)
T TIGR00603 456 TPEFYREYLRENSRKRMLL--YVMNPNKFRACQFLIRFHEQRGDKIIVFSDNVFALKEYAIKL----------------- 516 (732)
T ss_pred CHHHHHHHHHhcchhhhHH--hhhChHHHHHHHHHHHHHhhcCCeEEEEeCCHHHHHHHHHHc-----------------
Confidence 1111100000 000000 011111222333344433346789999999987766555433
Q ss_pred hhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcC-CceEEEecccccccCCCCCceEEeecC
Q 000107 817 FIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKG-LVRVLTATSTLAAGVNLPARRVIFRQP 895 (2191)
Q Consensus 817 ~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G-~ikVLVATstLa~GVNLPav~VVI~~p 895 (2191)
|+.++||+++..+|..+++.|+.| .+++||+|.++.+|||+|.+.+||...
T Consensus 517 ----------------------------~~~~I~G~ts~~ER~~il~~Fr~~~~i~vLv~SkVgdeGIDlP~a~vvI~~s 568 (732)
T TIGR00603 517 ----------------------------GKPFIYGPTSQQERMQILQNFQHNPKVNTIFLSKVGDTSIDLPEANVLIQIS 568 (732)
T ss_pred ----------------------------CCceEECCCCHHHHHHHHHHHHhCCCccEEEEecccccccCCCCCCEEEEeC
Confidence 145689999999999999999975 889999999999999999999998754
Q ss_pred C-CCCcccCcccccccccccCCCCCCCc-----eEEEEEeChhh
Q 000107 896 R-IGRDFIDGTRYRQMAGRAGRTGIDTK-----GESMLICKPEE 933 (2191)
Q Consensus 896 ~-~g~~~is~~~y~QmiGRAGR~G~d~~-----Ge~ill~~~~e 933 (2191)
. .+ +..+|.||+||++|++.+.. ...|.|++.+.
T Consensus 569 ~~~g----S~~q~iQRlGRilR~~~~~~~~~~~A~fY~lVs~dT 608 (732)
T TIGR00603 569 SHYG----SRRQEAQRLGRILRAKKGSDAEEYNAFFYSLVSKDT 608 (732)
T ss_pred CCCC----CHHHHHHHhcccccCCCCCccccccceEEEEecCCc
Confidence 3 24 78899999999999984322 22366776643
No 103
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]
Probab=99.92 E-value=2.7e-24 Score=246.79 Aligned_cols=333 Identities=23% Similarity=0.333 Sum_probs=236.0
Q ss_pred HHHHHHHHH-cCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHH
Q 000107 511 SEICSIYKK-RGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEH 589 (2191)
Q Consensus 511 ~~l~~~l~~-~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~ 589 (2191)
.++.++|++ +..++++|.|.++|+. ...|+++++..|||+||++||.+|.|- ..+-+|+|+|..+|...+.-.
T Consensus 80 ~e~~~ilk~~f~lekfrplq~~ain~--~ma~ed~~lil~tgggkslcyqlpal~----adg~alvi~plislmedqil~ 153 (695)
T KOG0353|consen 80 DEAKDILKEQFHLEKFRPLQLAAINA--TMAGEDAFLILPTGGGKSLCYQLPALC----ADGFALVICPLISLMEDQILQ 153 (695)
T ss_pred hHHHHHHHHHhhHHhcChhHHHHhhh--hhccCceEEEEeCCCccchhhhhhHHh----cCCceEeechhHHHHHHHHHH
Confidence 455666654 5678999999999987 889999999999999999999999875 477899999999999988877
Q ss_pred HHHHhhccCCeEEEEeccCCCC----------CCCCCCceEEEchHHHHH---HHHHhhhcCCCCccceEEEcccccccc
Q 000107 590 LEVLLEPLGRHVRSYYGNQGGG----------SLPKDTSVAVCTIEKANS---LVNRMLEEGRLSEIGIIVIDELHMVAD 656 (2191)
Q Consensus 590 l~~l~~~lg~~V~~~~G~~~~~----------~l~~~~~IiV~TpEkl~~---Ll~~l~~~~~L~~l~lVVIDEaH~l~d 656 (2191)
++.+ |+....+..+.... .......+++.|||++.. +++++-.......+.+|-|||+|+-..
T Consensus 154 lkql----gi~as~lnansske~~k~v~~~i~nkdse~kliyvtpekiaksk~~mnkleka~~~~~~~~iaidevhccsq 229 (695)
T KOG0353|consen 154 LKQL----GIDASMLNANSSKEEAKRVEAAITNKDSEFKLIYVTPEKIAKSKKFMNKLEKALEAGFFKLIAIDEVHCCSQ 229 (695)
T ss_pred HHHh----CcchhhccCcccHHHHHHHHHHHcCCCceeEEEEecHHHHHHHHHHHHHHHHHhhcceeEEEeecceeehhh
Confidence 7664 55544333332211 112346899999999743 344443334456689999999999998
Q ss_pred cch--hHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC--HHHHHHHhh---ccccccccc
Q 000107 657 QNR--GYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN--VAAVADWLQ---AALYETNFR 729 (2191)
Q Consensus 657 ~~R--G~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N--~~~la~wL~---a~l~~~~~R 729 (2191)
|+. .+.+.. |..|++- -++..|||++||..| +.+..+.|. +..|...|.
T Consensus 230 wghdfr~dy~~-l~ilkrq-----------------------f~~~~iigltatatn~vl~d~k~il~ie~~~tf~a~fn 285 (695)
T KOG0353|consen 230 WGHDFRPDYKA-LGILKRQ-----------------------FKGAPIIGLTATATNHVLDDAKDILCIEAAFTFRAGFN 285 (695)
T ss_pred hCcccCcchHH-HHHHHHh-----------------------CCCCceeeeehhhhcchhhHHHHHHhHHhhheeecccC
Confidence 753 333432 3333321 367889999999776 556666665 334555554
Q ss_pred cccceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccc
Q 000107 730 PVPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSIN 809 (2191)
Q Consensus 730 pvpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~ 809 (2191)
...|...+.-... ...+. .+.+..++..-. .|.+.||||-+++.||.++..|..+. +
T Consensus 286 r~nl~yev~qkp~---n~dd~--------------~edi~k~i~~~f-~gqsgiiyc~sq~d~ekva~alkn~g----i- 342 (695)
T KOG0353|consen 286 RPNLKYEVRQKPG---NEDDC--------------IEDIAKLIKGDF-AGQSGIIYCFSQKDCEKVAKALKNHG----I- 342 (695)
T ss_pred CCCceeEeeeCCC---ChHHH--------------HHHHHHHhcccc-CCCcceEEEeccccHHHHHHHHHhcC----c-
Confidence 4344332221100 00000 111222222111 36789999999999999998885421 1
Q ss_pred cCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCce
Q 000107 810 VHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARR 889 (2191)
Q Consensus 810 ~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~ 889 (2191)
....+|+.|.+++|.-+-+.+..|.|.|+|||-.+.+|||-|++|
T Consensus 343 -----------------------------------~a~~yha~lep~dks~~hq~w~a~eiqvivatvafgmgidkpdvr 387 (695)
T KOG0353|consen 343 -----------------------------------HAGAYHANLEPEDKSGAHQGWIAGEIQVIVATVAFGMGIDKPDVR 387 (695)
T ss_pred -----------------------------------cccccccccCccccccccccccccceEEEEEEeeecccCCCCCee
Confidence 145589999999999999999999999999999999999999999
Q ss_pred EEeecCCCCCcccCcccccc-------------------------------------------cccccCCCCCCCceEEE
Q 000107 890 VIFRQPRIGRDFIDGTRYRQ-------------------------------------------MAGRAGRTGIDTKGESM 926 (2191)
Q Consensus 890 VVI~~p~~g~~~is~~~y~Q-------------------------------------------miGRAGR~G~d~~Ge~i 926 (2191)
+||+...+. +...|.| -.|||||.+ -+..||
T Consensus 388 fvihhsl~k----sienyyqasarillrmtkqknksdtggstqinilevctnfkiffavfsekesgragrd~--~~a~ci 461 (695)
T KOG0353|consen 388 FVIHHSLPK----SIENYYQASARILLRMTKQKNKSDTGGSTQINILEVCTNFKIFFAVFSEKESGRAGRDD--MKADCI 461 (695)
T ss_pred EEEecccch----hHHHHHHHHHHHHHHHhhhcccccCCCcceeehhhhhccceeeeeeecchhccccccCC--CcccEE
Confidence 999977655 6777777 679999998 688999
Q ss_pred EEeChhhHHHHHhhh
Q 000107 927 LICKPEEVKKIMGLL 941 (2191)
Q Consensus 927 ll~~~~e~~~~~~ll 941 (2191)
++|.-.+.-++..++
T Consensus 462 lyy~~~difk~ssmv 476 (695)
T KOG0353|consen 462 LYYGFADIFKISSMV 476 (695)
T ss_pred EEechHHHHhHHHHH
Confidence 999877655544444
No 104
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=99.92 E-value=1.6e-23 Score=263.82 Aligned_cols=320 Identities=22% Similarity=0.321 Sum_probs=228.9
Q ss_pred HHHHHHHcCCCCCCHHHHHhhhhccccc------CCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHH
Q 000107 513 ICSIYKKRGISKLYPWQVECLHVDGVLQ------RRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEK 586 (2191)
Q Consensus 513 l~~~l~~~Gi~~l~p~Q~eal~~~~il~------gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~ 586 (2191)
+.+.+....| +||.-|.+++.. |.. ..|=++.|.-|||||+|+.++|+..+. .|.++.+++||--||.|.
T Consensus 252 ~~~~~~~LPF-~LT~aQ~~vi~E--I~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~-~G~Q~ALMAPTEILA~QH 327 (677)
T COG1200 252 LAKFLAALPF-KLTNAQKRVIKE--ILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIE-AGYQAALMAPTEILAEQH 327 (677)
T ss_pred HHHHHHhCCC-CccHHHHHHHHH--HHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHH-cCCeeEEeccHHHHHHHH
Confidence 4445566788 799999999975 553 367899999999999999999997664 689999999999999999
Q ss_pred HHHHHHHhhccCCeEEEEeccCCCCC--------CCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccc
Q 000107 587 AEHLEVLLEPLGRHVRSYYGNQGGGS--------LPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQN 658 (2191)
Q Consensus 587 ~~~l~~l~~~lg~~V~~~~G~~~~~~--------l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~ 658 (2191)
+..+.+++.++|++|..++|....+. .....+|+|+|-. |+. ....++++++|||||=|+.|-.
T Consensus 328 ~~~~~~~l~~~~i~V~lLtG~~kgk~r~~~l~~l~~G~~~ivVGTHA----LiQ---d~V~F~~LgLVIiDEQHRFGV~- 399 (677)
T COG1200 328 YESLRKWLEPLGIRVALLTGSLKGKARKEILEQLASGEIDIVVGTHA----LIQ---DKVEFHNLGLVIIDEQHRFGVH- 399 (677)
T ss_pred HHHHHHHhhhcCCeEEEeecccchhHHHHHHHHHhCCCCCEEEEcch----hhh---cceeecceeEEEEeccccccHH-
Confidence 99999999999999999999876532 3345899999964 332 3457899999999999995533
Q ss_pred hhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCC-CceEEEEeccCCCHHHHHHHhhcccccc--cccc---cc
Q 000107 659 RGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAH-GLQIVGMSATMPNVAAVADWLQAALYET--NFRP---VP 732 (2191)
Q Consensus 659 RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~-~iqII~mSATL~N~~~la~wL~a~l~~~--~~Rp---vp 732 (2191)
-...|..- .. .+.++.|||| |=+..++=-.-+.+-.+ +.-| .|
T Consensus 400 ----QR~~L~~K--------------------------G~~~Ph~LvMTAT-PIPRTLAlt~fgDldvS~IdElP~GRkp 448 (677)
T COG1200 400 ----QRLALREK--------------------------GEQNPHVLVMTAT-PIPRTLALTAFGDLDVSIIDELPPGRKP 448 (677)
T ss_pred ----HHHHHHHh--------------------------CCCCCcEEEEeCC-CchHHHHHHHhccccchhhccCCCCCCc
Confidence 22222111 12 5789999999 33344432222221111 1111 12
Q ss_pred ceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCC
Q 000107 733 LEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHS 812 (2191)
Q Consensus 733 L~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~ 812 (2191)
+..++. .....+.+++.+.+.+..|+++.|-||-..+.|.+--.-+.
T Consensus 449 I~T~~i----------------------~~~~~~~v~e~i~~ei~~GrQaY~VcPLIeESE~l~l~~a~----------- 495 (677)
T COG1200 449 ITTVVI----------------------PHERRPEVYERIREEIAKGRQAYVVCPLIEESEKLELQAAE----------- 495 (677)
T ss_pred eEEEEe----------------------ccccHHHHHHHHHHHHHcCCEEEEEeccccccccchhhhHH-----------
Confidence 222111 12344566777777788999999999988876633211100
Q ss_pred CCchhhhhHHHHHHhhcCCCCCChhhhhhc-CCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEE
Q 000107 813 SDSEFIDITSAIDALRRCPAGLDPVLEETL-PSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVI 891 (2191)
Q Consensus 813 ~~~~~~~~~~~~~~L~~~~~gld~~L~~~l-~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VV 891 (2191)
+..+ .|.... .+.|+.+||.|..+|++.|.++|++|.++|||||++.+.|||+|+.++.
T Consensus 496 ---------~~~~-----------~L~~~~~~~~vgL~HGrm~~~eKd~vM~~Fk~~e~~ILVaTTVIEVGVdVPnATvM 555 (677)
T COG1200 496 ---------ELYE-----------ELKSFLPELKVGLVHGRMKPAEKDAVMEAFKEGEIDILVATTVIEVGVDVPNATVM 555 (677)
T ss_pred ---------HHHH-----------HHHHHcccceeEEEecCCChHHHHHHHHHHHcCCCcEEEEeeEEEecccCCCCeEE
Confidence 0001 111111 2349999999999999999999999999999999999999999998864
Q ss_pred eecCCCCCcccCcccccccccccCCCCCCCceEEEEEeChhh
Q 000107 892 FRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEE 933 (2191)
Q Consensus 892 I~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e 933 (2191)
|- ...+.+-.++..|-.||.||.+ ..+.|++++.+..
T Consensus 556 VI---e~AERFGLaQLHQLRGRVGRG~--~qSyC~Ll~~~~~ 592 (677)
T COG1200 556 VI---ENAERFGLAQLHQLRGRVGRGD--LQSYCVLLYKPPL 592 (677)
T ss_pred EE---echhhhhHHHHHHhccccCCCC--cceEEEEEeCCCC
Confidence 31 1223335678999999999988 7899999998743
No 105
>TIGR03714 secA2 accessory Sec system translocase SecA2. Members of this protein family are homologous to SecA and part of the accessory Sec system. This system, including both five core proteins for export and a variable number of proteins for glycosylation, operates in certain Gram-positive pathogens for the maturation and delivery of serine-rich glycoproteins such as the cell surface glycoprotein GspB in Streptococcus gordonii.
Probab=99.92 E-value=2e-23 Score=272.14 Aligned_cols=340 Identities=20% Similarity=0.191 Sum_probs=211.8
Q ss_pred CCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEE
Q 000107 525 LYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSY 604 (2191)
Q Consensus 525 l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~ 604 (2191)
++|+|.|++....+..| .|+.++||+|||++|.+|++...+ .|+.++||+|+++||.+.++++..++..+|+.|...
T Consensus 69 lrpydVQlig~l~l~~G--~Iaem~TGeGKTLta~Lpa~l~aL-~g~~V~VVTpn~yLA~Rdae~m~~l~~~LGLsv~~~ 145 (762)
T TIGR03714 69 MFPYDVQVLGAIVLHQG--NIAEMKTGEGKTLTATMPLYLNAL-TGKGAMLVTTNDYLAKRDAEEMGPVYEWLGLTVSLG 145 (762)
T ss_pred CCccHHHHHHHHHhcCC--ceeEecCCcchHHHHHHHHHHHhh-cCCceEEeCCCHHHHHHHHHHHHHHHhhcCCcEEEE
Confidence 45555555544223344 699999999999999999877665 477899999999999999999999999999999887
Q ss_pred eccCCCCC-------CCCCCceEEEchHHH-HHHHHHhh----hcCCCCccceEEEccccccc-ccchhHH---------
Q 000107 605 YGNQGGGS-------LPKDTSVAVCTIEKA-NSLVNRML----EEGRLSEIGIIVIDELHMVA-DQNRGYL--------- 662 (2191)
Q Consensus 605 ~G~~~~~~-------l~~~~~IiV~TpEkl-~~Ll~~l~----~~~~L~~l~lVVIDEaH~l~-d~~RG~~--------- 662 (2191)
+++..... ...+++|+++||+++ .++++..+ ....+..+.++||||+|.|. |..|.+.
T Consensus 146 ~~~s~~~~~~~~~rr~~y~~dIvygTp~~LgfDyLrD~l~~~~~~~~~r~l~~~IVDEaDsILiDeartpliisg~~~~~ 225 (762)
T TIGR03714 146 VVDDPDEEYDANEKRKIYNSDIVYTTNSALGFDYLIDNLASNKEGKFLRPFNYVIVDEVDSVLLDSAQTPLVISGAPRVQ 225 (762)
T ss_pred ECCCCccccCHHHHHHhCCCCEEEECchhhhhhHHHHHhhcchhhcccccCcEEEEecHhhHhhccCcCCeeeeCCCccc
Confidence 76522111 123689999999998 45453321 12346789999999999884 3222211
Q ss_pred ---HHHHHHHHHHhhcCCC------CC------------------CCCC-------------------------------
Q 000107 663 ---LELLLTKLRYAAGEGT------SD------------------SSSG------------------------------- 684 (2191)
Q Consensus 663 ---lE~lL~kLr~~~~~~~------~~------------------s~~~------------------------------- 684 (2191)
+..+...++.+..... .. .+.+
T Consensus 226 ~~~y~~~~~~v~~l~~~~dy~~d~~~~~v~lt~~G~~~~e~~~~~~~l~~~~~~~~~~~i~~al~A~~~~~~d~dYiV~~ 305 (762)
T TIGR03714 226 SNLYHIADTFVRTLKEDVDYIFKKDKKEVWLTDKGIEKAEQYFKIDNLYSEEYFELVRHINLALRAHYLFKRNKDYVVTN 305 (762)
T ss_pred hHHHHHHHHHHHhcCCCCCeEEEcCCCeeeecHhHHHHHHHHcCCCccCChhhHHHHHHHHHHHHHHHHHhcCCceEEEC
Confidence 1111111111110000 00 0000
Q ss_pred -------CCCCC----C---CC-----------C-CC-------------CCCCceEEEEeccCCC-HHHHHHHhhccc-
Q 000107 685 -------ENSGT----S---SG-----------K-AD-------------PAHGLQIVGMSATMPN-VAAVADWLQAAL- 723 (2191)
Q Consensus 685 -------~~~~~----~---~~-----------~-~~-------------~~~~iqII~mSATL~N-~~~la~wL~a~l- 723 (2191)
+..+. + .+ . .. ...-.++.|||.|... ..++.+..+-.+
T Consensus 306 ~~v~ivD~~TGr~~~gr~~~~GLhQaieaKE~v~i~~e~~t~a~It~qn~Fr~Y~kl~GmTGTa~~~~~Ef~~iY~l~v~ 385 (762)
T TIGR03714 306 GEVVLLDRITGRLLEGTKLQSGIHQAIEAKEHVELSKETRAMASITYQNLFKMFNKLSGMTGTGKVAEKEFIETYSLSVV 385 (762)
T ss_pred CEEEEEECCCCcCCCCCCcchHHHHHHHhhcCCCCCCCceeeeeeeHHHHHhhCchhcccCCCChhHHHHHHHHhCCCEE
Confidence 00000 0 00 0 00 0000145566666421 222222222111
Q ss_pred cccccccccceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHH
Q 000107 724 YETNFRPVPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFL 803 (2191)
Q Consensus 724 ~~~~~RpvpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l 803 (2191)
..+..+|+.... ....+|.... .+...+...+.+....+.++||||+|+..++.++..|.+.
T Consensus 386 ~IPt~kp~~r~d---~~d~i~~~~~--------------~K~~ai~~~i~~~~~~~~pvLIft~s~~~se~ls~~L~~~- 447 (762)
T TIGR03714 386 KIPTNKPIIRID---YPDKIYATLP--------------EKLMATLEDVKEYHETGQPVLLITGSVEMSEIYSELLLRE- 447 (762)
T ss_pred EcCCCCCeeeee---CCCeEEECHH--------------HHHHHHHHHHHHHhhCCCCEEEEECcHHHHHHHHHHHHHC-
Confidence 122333322111 1112222111 1123455556565667899999999999998888777541
Q ss_pred hhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccC
Q 000107 804 KKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGV 883 (2191)
Q Consensus 804 ~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GV 883 (2191)
+ ..+..+||.+.+.+|..+..+++.| +|+|||++++||+
T Consensus 448 ---g------------------------------------i~~~~L~a~~~~~E~~ii~~ag~~g--~VlIATdmAgRGt 486 (762)
T TIGR03714 448 ---G------------------------------------IPHNLLNAQNAAKEAQIIAEAGQKG--AVTVATSMAGRGT 486 (762)
T ss_pred ---C------------------------------------CCEEEecCCChHHHHHHHHHcCCCC--eEEEEcccccccc
Confidence 1 1266789999999999999988888 7999999999999
Q ss_pred CCC---------CceEEeecCCCCCcccCcccccccccccCCCCCCCceEEEEEeChhh
Q 000107 884 NLP---------ARRVIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEE 933 (2191)
Q Consensus 884 NLP---------av~VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e 933 (2191)
||| ++.||+++..+. .....||+|||||.| .+|.++.|++.++
T Consensus 487 DI~l~~~v~~~GGL~vIit~~~ps-----~rid~qr~GRtGRqG--~~G~s~~~is~eD 538 (762)
T TIGR03714 487 DIKLGKGVAELGGLAVIGTERMEN-----SRVDLQLRGRSGRQG--DPGSSQFFVSLED 538 (762)
T ss_pred CCCCCccccccCCeEEEEecCCCC-----cHHHHHhhhcccCCC--CceeEEEEEccch
Confidence 999 889999866653 234489999999999 8999999998754
No 106
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=99.92 E-value=2e-23 Score=274.81 Aligned_cols=338 Identities=17% Similarity=0.206 Sum_probs=218.3
Q ss_pred cCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCC
Q 000107 520 RGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGR 599 (2191)
Q Consensus 520 ~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~ 599 (2191)
.|+ .||++|..+... +++|+ |..+.||+|||++|.+|++...+ .|+.+++++|++.||.|.++++..++..+|+
T Consensus 75 ~g~-~p~~vQl~~~~~--l~~G~--Iaem~TGeGKTL~a~lp~~l~al-~G~~v~VvTpt~~LA~qd~e~~~~l~~~lGl 148 (790)
T PRK09200 75 LGM-RPYDVQLIGALV--LHEGN--IAEMQTGEGKTLTATMPLYLNAL-EGKGVHLITVNDYLAKRDAEEMGQVYEFLGL 148 (790)
T ss_pred hCC-CCchHHHHhHHH--HcCCc--eeeecCCCcchHHHHHHHHHHHH-cCCCeEEEeCCHHHHHHHHHHHHHHHhhcCC
Confidence 576 789999888765 66676 99999999999999999986665 5889999999999999999999999999999
Q ss_pred eEEEEeccCC-CC--CCCCCCceEEEchHHH-HHHHHH-hh---hcCCCCccceEEEccccccc-ccchhHH--------
Q 000107 600 HVRSYYGNQG-GG--SLPKDTSVAVCTIEKA-NSLVNR-ML---EEGRLSEIGIIVIDELHMVA-DQNRGYL-------- 662 (2191)
Q Consensus 600 ~V~~~~G~~~-~~--~l~~~~~IiV~TpEkl-~~Ll~~-l~---~~~~L~~l~lVVIDEaH~l~-d~~RG~~-------- 662 (2191)
+|+.+.|+.. .. ....+++|+++||+.+ .++++. +. ....++.+.++||||+|.|. |..|.+.
T Consensus 149 ~v~~i~g~~~~~~~r~~~y~~dIvygT~~~l~fDyLrd~~~~~~~~~~~r~~~~~IvDEaDsiLiDea~tpliisg~~~~ 228 (790)
T PRK09200 149 TVGLNFSDIDDASEKKAIYEADIIYTTNSELGFDYLRDNLADSKEDKVQRPLNYAIIDEIDSILLDEAQTPLIISGKPRV 228 (790)
T ss_pred eEEEEeCCCCcHHHHHHhcCCCEEEECCccccchhHHhccccchhhhcccccceEEEeccccceeccCCCceeeeCCCcc
Confidence 9999998765 21 1223589999999998 343432 21 12356789999999999775 4323221
Q ss_pred ---HHHHHHHH-HHhhcCCCCCCCCCCCCC-------CCC----------------------------------------
Q 000107 663 ---LELLLTKL-RYAAGEGTSDSSSGENSG-------TSS---------------------------------------- 691 (2191)
Q Consensus 663 ---lE~lL~kL-r~~~~~~~~~s~~~~~~~-------~~~---------------------------------------- 691 (2191)
+..+...+ +.+... -+++... +..
T Consensus 229 ~~~~y~~~~~~~~~l~~~-----~dy~~d~~~~~~~lt~~g~~~~e~~~~i~~l~~~~~~~~~~~i~~Al~A~~~~~~d~ 303 (790)
T PRK09200 229 QSNLYHIAAKFVKTLEED-----VDYEFDEEKKEVWLTDQGIEKAESYFGIDNLYSLEHQVLYRHIILALRAHVLFKRDV 303 (790)
T ss_pred ccHHHHHHHHHHHhcccC-----CCeEEecCCCeEEecHhHHHHHHHhcCCccccChhhhHHHHHHHHHHHHHHHhhcCC
Confidence 11111111 111000 0000000 000
Q ss_pred --------------CCC------CCC--------------------------------CCceEEEEeccCCC-HHHHHHH
Q 000107 692 --------------GKA------DPA--------------------------------HGLQIVGMSATMPN-VAAVADW 718 (2191)
Q Consensus 692 --------------~~~------~~~--------------------------------~~iqII~mSATL~N-~~~la~w 718 (2191)
..+ ... .-.++.|||.|... .+++.+.
T Consensus 304 dYiV~~~~v~ivD~~TGr~~~gr~~s~GlhQaieaKe~v~i~~e~~t~a~It~q~~fr~Y~kl~GmTGTa~t~~~e~~~~ 383 (790)
T PRK09200 304 DYIVYDGEIVLVDRFTGRVLPGRKLQDGLHQAIEAKEGVEITEENRTMASITIQNLFRMFPKLSGMTGTAKTEEKEFFEV 383 (790)
T ss_pred cEEEECCEEEEEECCCCcCCCCCccChHHHHHHHHhcCCCcCCCceehhhhhHHHHHHHhHHHhccCCCChHHHHHHHHH
Confidence 000 000 00023344444321 1111111
Q ss_pred hhccc-cccccccccceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHH
Q 000107 719 LQAAL-YETNFRPVPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTAR 797 (2191)
Q Consensus 719 L~a~l-~~~~~RpvpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~ 797 (2191)
.+-.+ ..+.++|+-... ....++... ......+..++......+.++||||+|++.++.++.
T Consensus 384 Y~l~v~~IPt~kp~~r~d---~~~~i~~~~--------------~~K~~al~~~i~~~~~~~~pvLIf~~t~~~se~l~~ 446 (790)
T PRK09200 384 YNMEVVQIPTNRPIIRID---YPDKVFVTL--------------DEKYKAVIEEVKERHETGRPVLIGTGSIEQSETFSK 446 (790)
T ss_pred hCCcEEECCCCCCccccc---CCCeEEcCH--------------HHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHH
Confidence 11110 011122211100 000111000 011223444554444568899999999999998888
Q ss_pred HHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecc
Q 000107 798 HVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATS 877 (2191)
Q Consensus 798 ~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATs 877 (2191)
.|.+. +..+..+||.+...++..+..+++.| +|+|||+
T Consensus 447 ~L~~~----------------------------------------gi~~~~L~~~~~~~e~~~i~~ag~~g--~VlIATd 484 (790)
T PRK09200 447 LLDEA----------------------------------------GIPHNLLNAKNAAKEAQIIAEAGQKG--AVTVATN 484 (790)
T ss_pred HHHHC----------------------------------------CCCEEEecCCccHHHHHHHHHcCCCC--eEEEEcc
Confidence 87541 11267799999999999999998887 7999999
Q ss_pred cccccCCC---CCce-----EEeecCCCCCcccCcccccccccccCCCCCCCceEEEEEeChhh
Q 000107 878 TLAAGVNL---PARR-----VIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEE 933 (2191)
Q Consensus 878 tLa~GVNL---Pav~-----VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e 933 (2191)
+++||+|| |.+. +||++..+. +...|.||+|||||.| .+|.++.|++.++
T Consensus 485 mAgRG~DI~l~~~V~~~GGL~VI~~d~p~----s~r~y~qr~GRtGR~G--~~G~s~~~is~eD 542 (790)
T PRK09200 485 MAGRGTDIKLGEGVHELGGLAVIGTERME----SRRVDLQLRGRSGRQG--DPGSSQFFISLED 542 (790)
T ss_pred chhcCcCCCcccccccccCcEEEeccCCC----CHHHHHHhhccccCCC--CCeeEEEEEcchH
Confidence 99999999 6888 999888776 7788999999999999 8999999988754
No 107
>PRK09694 helicase Cas3; Provisional
Probab=99.92 E-value=1.6e-23 Score=280.47 Aligned_cols=325 Identities=19% Similarity=0.170 Sum_probs=195.2
Q ss_pred CCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhc-CCEEEEEchhHHHHHHHHHHHHHHhhcc--C
Q 000107 522 ISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIST-GKMALLVLPYVSICAEKAEHLEVLLEPL--G 598 (2191)
Q Consensus 522 i~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~-g~kaL~I~P~raLA~q~~~~l~~l~~~l--g 598 (2191)
..+|+|.|..+... ...+..+|+.||||+|||.++++++.+.+... ..+++|.+||+++++++++++.+++..+ .
T Consensus 284 ~~~p~p~Q~~~~~~--~~~pgl~ileApTGsGKTEAAL~~A~~l~~~~~~~gi~~aLPT~Atan~m~~Rl~~~~~~~f~~ 361 (878)
T PRK09694 284 GYQPRQLQTLVDAL--PLQPGLTIIEAPTGSGKTEAALAYAWRLIDQGLADSIIFALPTQATANAMLSRLEALASKLFPS 361 (878)
T ss_pred CCCChHHHHHHHhh--ccCCCeEEEEeCCCCCHHHHHHHHHHHHHHhCCCCeEEEECcHHHHHHHHHHHHHHHHHHhcCC
Confidence 34899999988643 34577899999999999999977766433322 3589999999999999999988654432 2
Q ss_pred CeEEEEeccCCCCC-------------------------C---CC---CCceEEEchHHHHHHHHHhhhcCCCCcc----
Q 000107 599 RHVRSYYGNQGGGS-------------------------L---PK---DTSVAVCTIEKANSLVNRMLEEGRLSEI---- 643 (2191)
Q Consensus 599 ~~V~~~~G~~~~~~-------------------------l---~~---~~~IiV~TpEkl~~Ll~~l~~~~~L~~l---- 643 (2191)
..|...+|...... + .+ -..|+|||+.++..-+-.. ....++.+
T Consensus 362 ~~v~L~Hg~a~l~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~kr~llapi~V~TiDQlL~a~l~~-kh~~lR~~~La~ 440 (878)
T PRK09694 362 PNLILAHGNSRFNHLFQSLKSRAATEQGQEEAWVQCCEWLSQSNKRVFLGQIGVCTIDQVLISVLPV-KHRFIRGFGLGR 440 (878)
T ss_pred CceEeecCcchhhhhhhhhhcccccccccchhhhHHHHHHhhhhhhhhcCCEEEcCHHHHHHHHHcc-chHHHHHHhhcc
Confidence 35666666532100 0 01 1589999999875322110 00112222
Q ss_pred ceEEEcccccccccchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCH--HHHHHHhhc
Q 000107 644 GIIVIDELHMVADQNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNV--AAVADWLQA 721 (2191)
Q Consensus 644 ~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~--~~la~wL~a 721 (2191)
++|||||+|.+. ......++.++..+.. ...++|+||||+|.. +.+.+-++.
T Consensus 441 svvIiDEVHAyD-~ym~~lL~~~L~~l~~-------------------------~g~~vIllSATLP~~~r~~L~~a~~~ 494 (878)
T PRK09694 441 SVLIVDEVHAYD-AYMYGLLEAVLKAQAQ-------------------------AGGSVILLSATLPATLKQKLLDTYGG 494 (878)
T ss_pred CeEEEechhhCC-HHHHHHHHHHHHHHHh-------------------------cCCcEEEEeCCCCHHHHHHHHHHhcc
Confidence 589999999973 2233444444444321 245699999999851 222221121
Q ss_pred cccccccccccceEEEEeccc----cccchh--hHHHHHH-HhhccC-CCChhHHHHHHHHHHhcCCcEEEEeCchhHHH
Q 000107 722 ALYETNFRPVPLEEYIKVGNA----IYSKKM--DVVRTIL-TAANLG-GKDPDHIVELCDEVVQEGHSVLIFCSSRKGCE 793 (2191)
Q Consensus 722 ~l~~~~~RpvpL~e~i~~~~~----~~~~~~--~~~r~l~-~~~~~~-~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e 793 (2191)
..-.....++|+-........ ...... ...+.+. ...... ....+.+.+.+.+....++++||||||++.|+
T Consensus 495 ~~~~~~~~~YPlvt~~~~~~~~~~~~~~~~~~~~~~~~v~v~~~~~~~~~~~~~~l~~i~~~~~~g~~vLVf~NTV~~Aq 574 (878)
T PRK09694 495 HDPVELSSAYPLITWRGVNGAQRFDLSAHPEQLPARFTIQLEPICLADMLPDLTLLQRMIAAANAGAQVCLICNLVDDAQ 574 (878)
T ss_pred ccccccccccccccccccccceeeeccccccccCcceEEEEEeeccccccCHHHHHHHHHHHHhcCCEEEEEECCHHHHH
Confidence 100000011222110000000 000000 0000000 000000 01223455555555667899999999999999
Q ss_pred HHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHH----HHHHHh-hcC
Q 000107 794 STARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEERE----VVETCY-RKG 868 (2191)
Q Consensus 794 ~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~----~Ve~~F-r~G 868 (2191)
.+++.|.+.... ...|..+||.++..+|. .+++.| ++|
T Consensus 575 ~ly~~L~~~~~~-------------------------------------~~~v~llHsrf~~~dR~~~E~~vl~~fgk~g 617 (878)
T PRK09694 575 KLYQRLKELNNT-------------------------------------QVDIDLFHARFTLNDRREKEQRVIENFGKNG 617 (878)
T ss_pred HHHHHHHhhCCC-------------------------------------CceEEEEeCCCCHHHHHHHHHHHHHHHHhcC
Confidence 999888642210 01288999999999994 456677 666
Q ss_pred C---ceEEEecccccccCCCCCceEEeecCCCCCcccCcccccccccccCCCCC
Q 000107 869 L---VRVLTATSTLAAGVNLPARRVIFRQPRIGRDFIDGTRYRQMAGRAGRTGI 919 (2191)
Q Consensus 869 ~---ikVLVATstLa~GVNLPav~VVI~~p~~g~~~is~~~y~QmiGRAGR~G~ 919 (2191)
. .+|||||+++++||||+. .++|.... +...|+||+||+||.+.
T Consensus 618 ~r~~~~ILVaTQViE~GLDId~-DvlItdla------PidsLiQRaGR~~R~~~ 664 (878)
T PRK09694 618 KRNQGRILVATQVVEQSLDLDF-DWLITQLC------PVDLLFQRLGRLHRHHR 664 (878)
T ss_pred CcCCCeEEEECcchhheeecCC-CeEEECCC------CHHHHHHHHhccCCCCC
Confidence 6 479999999999999965 66664322 56789999999999985
No 108
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.91 E-value=2.8e-24 Score=237.42 Aligned_cols=308 Identities=19% Similarity=0.268 Sum_probs=217.0
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCC--EEEEEchhHHHHHHH
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGK--MALLVLPYVSICAEK 586 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~--kaL~I~P~raLA~q~ 586 (2191)
|.++++.++-..||++|..+|.+|||. ..-|.+++..|.+|.|||.+|.++.|+.+..-.+ .+++++-||+||-|+
T Consensus 49 lkpellraivdcgfehpsevqhecipq--ailgmdvlcqaksgmgktavfvl~tlqqiepv~g~vsvlvmchtrelafqi 126 (387)
T KOG0329|consen 49 LKPELLRAIVDCGFEHPSEVQHECIPQ--AILGMDVLCQAKSGMGKTAVFVLATLQQIEPVDGQVSVLVMCHTRELAFQI 126 (387)
T ss_pred cCHHHHHHHHhccCCCchHhhhhhhhH--HhhcchhheecccCCCceeeeehhhhhhcCCCCCeEEEEEEeccHHHHHHH
Confidence 668899999999999999999999986 5679999999999999999999999998865333 678999999999999
Q ss_pred HHHHHHHhhcc-CCeEEEEeccCCCCC----CCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhH
Q 000107 587 AEHLEVLLEPL-GRHVRSYYGNQGGGS----LPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGY 661 (2191)
Q Consensus 587 ~~~l~~l~~~l-g~~V~~~~G~~~~~~----l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~ 661 (2191)
.+++.++...+ +++|.++||+..... +...++|+|+||+++..|++. ....++++.++|+||++.+.++ .
T Consensus 127 ~~ey~rfskymP~vkvaVFfGG~~Ikkdee~lk~~PhivVgTPGrilALvr~--k~l~lk~vkhFvlDEcdkmle~---l 201 (387)
T KOG0329|consen 127 SKEYERFSKYMPSVKVSVFFGGLFIKKDEELLKNCPHIVVGTPGRILALVRN--RSLNLKNVKHFVLDECDKMLEQ---L 201 (387)
T ss_pred HHHHHHHHhhCCCceEEEEEcceeccccHHHHhCCCeEEEcCcHHHHHHHHh--ccCchhhcceeehhhHHHHHHH---H
Confidence 98877665443 689999999875432 344689999999999999987 6678999999999999987653 1
Q ss_pred HHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC-HHHHHHHhhccccccccccccceEEEEec
Q 000107 662 LLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN-VAAVADWLQAALYETNFRPVPLEEYIKVG 740 (2191)
Q Consensus 662 ~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N-~~~la~wL~a~l~~~~~RpvpL~e~i~~~ 740 (2191)
.+..=+..+-++ .+..-|+..+|||+++ ..-+.+ .|-.-|++.|+.-.
T Consensus 202 DMrRDvQEifr~----------------------tp~~KQvmmfsatlskeiRpvC~---------kFmQdPmEi~vDdE 250 (387)
T KOG0329|consen 202 DMRRDVQEIFRM----------------------TPHEKQVMMFSATLSKEIRPVCH---------KFMQDPMEIFVDDE 250 (387)
T ss_pred HHHHHHHHHhhc----------------------CcccceeeeeeeecchhhHHHHH---------hhhcCchhhhccch
Confidence 111111112111 2567899999999974 222221 11223445444322
Q ss_pred cccccchhhHHHHHH-HhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhh
Q 000107 741 NAIYSKKMDVVRTIL-TAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFID 819 (2191)
Q Consensus 741 ~~~~~~~~~~~r~l~-~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~ 819 (2191)
....-.. +...+ +.. ...+...+.+|+..+ +-.+++||+.|... |
T Consensus 251 ~KLtLHG---LqQ~YvkLk--e~eKNrkl~dLLd~L--eFNQVvIFvKsv~R-------l-------------------- 296 (387)
T KOG0329|consen 251 AKLTLHG---LQQYYVKLK--ENEKNRKLNDLLDVL--EFNQVVIFVKSVQR-------L-------------------- 296 (387)
T ss_pred hhhhhhh---HHHHHHhhh--hhhhhhhhhhhhhhh--hhcceeEeeehhhh-------h--------------------
Confidence 1110000 00000 000 011223344444322 23588888876442 0
Q ss_pred hHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecCCCCC
Q 000107 820 ITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRIGR 899 (2191)
Q Consensus 820 ~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~~g~ 899 (2191)
+ | ..+ ||||+.+.+|+||-.+.+||+++.+.
T Consensus 297 ----------------------------------~----------f---~kr-~vat~lfgrgmdiervNi~~NYdmp~- 327 (387)
T KOG0329|consen 297 ----------------------------------S----------F---QKR-LVATDLFGRGMDIERVNIVFNYDMPE- 327 (387)
T ss_pred ----------------------------------h----------h---hhh-hHHhhhhccccCcccceeeeccCCCC-
Confidence 0 2 113 89999999999999999999999987
Q ss_pred cccCcccccccccccCCCCCCCceEEEEEeChhhHHHHHhhhc
Q 000107 900 DFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKIMGLLN 942 (2191)
Q Consensus 900 ~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~~~ll~ 942 (2191)
+..+|+||+|||||.| +.|.+|.++...+..++.+-++
T Consensus 328 ---~~DtYlHrv~rAgrfG--tkglaitfvs~e~da~iLn~vq 365 (387)
T KOG0329|consen 328 ---DSDTYLHRVARAGRFG--TKGLAITFVSDENDAKILNPVQ 365 (387)
T ss_pred ---CchHHHHHhhhhhccc--cccceeehhcchhhHHHhchhh
Confidence 7889999999999999 8999999998866555443333
No 109
>PRK05580 primosome assembly protein PriA; Validated
Probab=99.91 E-value=4.4e-23 Score=275.11 Aligned_cols=354 Identities=19% Similarity=0.227 Sum_probs=216.7
Q ss_pred CCCHHHHHhhhhccccc---CCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCe
Q 000107 524 KLYPWQVECLHVDGVLQ---RRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRH 600 (2191)
Q Consensus 524 ~l~p~Q~eal~~~~il~---gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~ 600 (2191)
.|++.|.+++.. +.. ++++++.||||||||.+|..++...+ ..|+++||++|+++|+.|+++.|++.+ |.+
T Consensus 144 ~Lt~~Q~~ai~~--i~~~~~~~~~Ll~~~TGSGKT~v~l~~i~~~l-~~g~~vLvLvPt~~L~~Q~~~~l~~~f---g~~ 217 (679)
T PRK05580 144 TLNPEQAAAVEA--IRAAAGFSPFLLDGVTGSGKTEVYLQAIAEVL-AQGKQALVLVPEIALTPQMLARFRARF---GAP 217 (679)
T ss_pred CCCHHHHHHHHH--HHhccCCCcEEEECCCCChHHHHHHHHHHHHH-HcCCeEEEEeCcHHHHHHHHHHHHHHh---CCC
Confidence 689999999986 665 48899999999999999987766544 468899999999999999999998765 577
Q ss_pred EEEEeccCCCCC--------CCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccc-hhHH--HHHHHHH
Q 000107 601 VRSYYGNQGGGS--------LPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQN-RGYL--LELLLTK 669 (2191)
Q Consensus 601 V~~~~G~~~~~~--------l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~-RG~~--lE~lL~k 669 (2191)
+..++|+.+... .....+|+|+|+..+. ..+.++++|||||+|..+..+ .++. ...+. .
T Consensus 218 v~~~~s~~s~~~r~~~~~~~~~g~~~IVVgTrsal~---------~p~~~l~liVvDEeh~~s~~~~~~p~y~~r~va-~ 287 (679)
T PRK05580 218 VAVLHSGLSDGERLDEWRKAKRGEAKVVIGARSALF---------LPFKNLGLIIVDEEHDSSYKQQEGPRYHARDLA-V 287 (679)
T ss_pred EEEEECCCCHHHHHHHHHHHHcCCCCEEEeccHHhc---------ccccCCCEEEEECCCccccccCcCCCCcHHHHH-H
Confidence 888888765321 2245799999997642 257889999999999876432 2221 12221 1
Q ss_pred HHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhcc--ccccccc----cccceEEEEecccc
Q 000107 670 LRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQAA--LYETNFR----PVPLEEYIKVGNAI 743 (2191)
Q Consensus 670 Lr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a~--l~~~~~R----pvpL~e~i~~~~~~ 743 (2191)
++.. ..+.++|++|||. ..+.+....... ++....| +.|--+.+....
T Consensus 288 ~ra~-----------------------~~~~~~il~SATp-s~~s~~~~~~g~~~~~~l~~r~~~~~~p~v~~id~~~-- 341 (679)
T PRK05580 288 VRAK-----------------------LENIPVVLGSATP-SLESLANAQQGRYRLLRLTKRAGGARLPEVEIIDMRE-- 341 (679)
T ss_pred HHhh-----------------------ccCCCEEEEcCCC-CHHHHHHHhccceeEEEeccccccCCCCeEEEEechh--
Confidence 2111 2468999999994 555444332211 1111112 122111221100
Q ss_pred ccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHh---hcc-----------cc
Q 000107 744 YSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLK---KFS-----------IN 809 (2191)
Q Consensus 744 ~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~---~~~-----------~~ 809 (2191)
.... .....-...+...+.+.+..+.++|||+|.+..+-.+...-+.... ..+ ..
T Consensus 342 ---------~~~~--~~~~~ls~~l~~~i~~~l~~g~qvll~~nrrGy~~~~~C~~Cg~~~~C~~C~~~l~~h~~~~~l~ 410 (679)
T PRK05580 342 ---------LLRG--ENGSFLSPPLLEAIKQRLERGEQVLLFLNRRGYAPFLLCRDCGWVAECPHCDASLTLHRFQRRLR 410 (679)
T ss_pred ---------hhhh--cccCCCCHHHHHHHHHHHHcCCeEEEEEcCCCCCCceEhhhCcCccCCCCCCCceeEECCCCeEE
Confidence 0000 0001234566777888888889999999987643222211111100 000 00
Q ss_pred cCCC--Cchhhhh-HHH-HHHhhcCCCC---CChhhhhhc-CCcEEEEcCCCC--HHHHHHHHHHhhcCCceEEEecccc
Q 000107 810 VHSS--DSEFIDI-TSA-IDALRRCPAG---LDPVLEETL-PSGVAYHHAGLT--VEEREVVETCYRKGLVRVLTATSTL 879 (2191)
Q Consensus 810 ~~~~--~~~~~~~-~~~-~~~L~~~~~g---ld~~L~~~l-~~GVa~hHagLs--~~eR~~Ve~~Fr~G~ikVLVATstL 879 (2191)
++.. ....... -.. -..+.....| +.+.|.+.+ ...|...|++++ .++++.+++.|++|+++|||+|+++
T Consensus 411 Ch~Cg~~~~~~~~Cp~Cg~~~l~~~g~G~e~~~e~l~~~fp~~~v~~~~~d~~~~~~~~~~~l~~f~~g~~~ILVgT~~i 490 (679)
T PRK05580 411 CHHCGYQEPIPKACPECGSTDLVPVGPGTERLEEELAELFPEARILRIDRDTTRRKGALEQLLAQFARGEADILIGTQML 490 (679)
T ss_pred CCCCcCCCCCCCCCCCCcCCeeEEeeccHHHHHHHHHHhCCCCcEEEEeccccccchhHHHHHHHHhcCCCCEEEEChhh
Confidence 0000 0000000 000 0000000001 112333333 246899999997 4679999999999999999999999
Q ss_pred cccCCCCCceEE--eecCCCC--Ccc----cCcccccccccccCCCCCCCceEEEEEeChh
Q 000107 880 AAGVNLPARRVI--FRQPRIG--RDF----IDGTRYRQMAGRAGRTGIDTKGESMLICKPE 932 (2191)
Q Consensus 880 a~GVNLPav~VV--I~~p~~g--~~~----is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~ 932 (2191)
++|+|+|++.+| ++.+..- .++ -....|.|++|||||.+ ..|.+++.+...
T Consensus 491 akG~d~p~v~lV~il~aD~~l~~pdfra~Er~~~~l~q~~GRagR~~--~~g~viiqT~~p 549 (679)
T PRK05580 491 AKGHDFPNVTLVGVLDADLGLFSPDFRASERTFQLLTQVAGRAGRAE--KPGEVLIQTYHP 549 (679)
T ss_pred ccCCCCCCcCEEEEEcCchhccCCccchHHHHHHHHHHHHhhccCCC--CCCEEEEEeCCC
Confidence 999999999866 4433221 011 11346899999999987 789999887653
No 110
>TIGR00963 secA preprotein translocase, SecA subunit. The proteins SecA-F and SecY, not all of which are necessary, comprise the standard prokaryotic protein translocation apparatus. Other, specialized translocation systems also exist but are not as broadly distributed. This model describes SecA, an essential member of the apparatus.
Probab=99.91 E-value=1.1e-22 Score=263.46 Aligned_cols=339 Identities=17% Similarity=0.143 Sum_probs=221.1
Q ss_pred cCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCC
Q 000107 520 RGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGR 599 (2191)
Q Consensus 520 ~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~ 599 (2191)
.|. +||+.|..+... +..|+ |..++||+|||++|.+|++-..+ .|+.+.+++|++.||.|.++++..++..+|+
T Consensus 53 lg~-~p~~vQlig~~~--l~~G~--Iaem~TGeGKTLva~lpa~l~aL-~G~~V~VvTpt~~LA~qdae~~~~l~~~LGL 126 (745)
T TIGR00963 53 LGM-RPFDVQLIGGIA--LHKGK--IAEMKTGEGKTLTATLPAYLNAL-TGKGVHVVTVNDYLAQRDAEWMGQVYRFLGL 126 (745)
T ss_pred hCC-CccchHHhhhhh--hcCCc--eeeecCCCccHHHHHHHHHHHHH-hCCCEEEEcCCHHHHHHHHHHHHHHhccCCC
Confidence 565 788888887754 56665 99999999999999999964444 3778999999999999999999999999999
Q ss_pred eEEEEeccCCCCC--CCCCCceEEEchHHH-HHHHHHhh----hcCCCCccceEEEcccccccc-cchhHHH--------
Q 000107 600 HVRSYYGNQGGGS--LPKDTSVAVCTIEKA-NSLVNRML----EEGRLSEIGIIVIDELHMVAD-QNRGYLL-------- 663 (2191)
Q Consensus 600 ~V~~~~G~~~~~~--l~~~~~IiV~TpEkl-~~Ll~~l~----~~~~L~~l~lVVIDEaH~l~d-~~RG~~l-------- 663 (2191)
+|..++|+..... ..-.++|+|+||.++ .++++.-+ ....++.++++||||+|.++- ..|.+.+
T Consensus 127 sv~~i~g~~~~~~r~~~y~~dIvyGT~~rlgfDyLrd~~~~~~~~~~~r~l~~aIIDEaDs~LIDeaRtpLiisg~~~~~ 206 (745)
T TIGR00963 127 SVGLILSGMSPEERREAYACDITYGTNNELGFDYLRDNMAHSKEEKVQRPFHFAIIDEVDSILIDEARTPLIISGPAEKS 206 (745)
T ss_pred eEEEEeCCCCHHHHHHhcCCCEEEECCCchhhHHHhcccccchhhhhccccceeEeecHHHHhHHhhhhHHhhcCCCCCc
Confidence 9999998754311 112479999999998 77776421 123578899999999998763 3333221
Q ss_pred ---HHHHHHHHHhhcCCCCCCCCCCCCCCC--------------------------------------------------
Q 000107 664 ---ELLLTKLRYAAGEGTSDSSSGENSGTS-------------------------------------------------- 690 (2191)
Q Consensus 664 ---E~lL~kLr~~~~~~~~~s~~~~~~~~~-------------------------------------------------- 690 (2191)
-.....+-..... ..++......
T Consensus 207 ~~ly~~a~~i~r~L~~----~~dy~~de~~k~v~Lt~~G~~~~e~~~~~~~ly~~~~~~~~~~i~~Al~A~~l~~~d~dY 282 (745)
T TIGR00963 207 TELYLQANRFAKALEK----EVHYEVDEKNRAVLLTEKGIKKAEDLLGVDNLYDLENSPLIHYINNALKAKELFEKDVDY 282 (745)
T ss_pred hHHHHHHHHHHHhhcc----CCCeEEecCCCceeECHHHHHHHHHHcCCccccChhhhHHHHHHHHHHHHHHHHhcCCcE
Confidence 1111111100000 0000000000
Q ss_pred -----------CC------CCCC--------------------------------CCCceEEEEeccCCC-HHHHHHHhh
Q 000107 691 -----------SG------KADP--------------------------------AHGLQIVGMSATMPN-VAAVADWLQ 720 (2191)
Q Consensus 691 -----------~~------~~~~--------------------------------~~~iqII~mSATL~N-~~~la~wL~ 720 (2191)
.. .+.. ..-.++.|||.|... ..++.+..+
T Consensus 283 iV~d~~V~ivD~~TGR~~~gr~ws~GLhQaiEaKE~v~i~~e~~t~a~It~qn~Fr~Y~kl~GmTGTa~te~~E~~~iY~ 362 (745)
T TIGR00963 283 IVRDGEVVIVDEFTGRIMEGRRWSDGLHQAIEAKEGVEIQNENQTLATITYQNFFRLYEKLSGMTGTAKTEEEEFEKIYN 362 (745)
T ss_pred EEECCEEEEEECCCCcCCCCCccchHHHHHHHHhcCCCcCCCceeeeeeeHHHHHhhCchhhccCCCcHHHHHHHHHHhC
Confidence 00 0000 000134455555432 122222222
Q ss_pred ccc-cccccccccceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHH
Q 000107 721 AAL-YETNFRPVPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHV 799 (2191)
Q Consensus 721 a~l-~~~~~RpvpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L 799 (2191)
-.+ ..+.++|+... .....+|.... .....+...+.+....+.++||||+|+..++.++..|
T Consensus 363 l~vv~IPtnkp~~R~---d~~d~i~~t~~--------------~k~~ai~~~i~~~~~~grpvLV~t~si~~se~ls~~L 425 (745)
T TIGR00963 363 LEVVVVPTNRPVIRK---DLSDLVYKTEE--------------EKWKAVVDEIKERHAKGQPVLVGTTSVEKSELLSNLL 425 (745)
T ss_pred CCEEEeCCCCCeeee---eCCCeEEcCHH--------------HHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHH
Confidence 111 12222332111 11111121111 1123444555555678999999999999999988887
Q ss_pred HHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccc
Q 000107 800 SKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTL 879 (2191)
Q Consensus 800 ~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstL 879 (2191)
.+. +. ....+||. +.+|+..+.+|+.+...|+|||+++
T Consensus 426 ~~~----gi------------------------------------~~~~Lna~--q~~rEa~ii~~ag~~g~VtIATnmA 463 (745)
T TIGR00963 426 KER----GI------------------------------------PHNVLNAK--NHEREAEIIAQAGRKGAVTIATNMA 463 (745)
T ss_pred HHc----CC------------------------------------CeEEeeCC--hHHHHHHHHHhcCCCceEEEEeccc
Confidence 552 11 15568988 7899999999999999999999999
Q ss_pred cccCCCCC-------ceEEeecCCCCCcccCcccccccccccCCCCCCCceEEEEEeChhh
Q 000107 880 AAGVNLPA-------RRVIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEE 933 (2191)
Q Consensus 880 a~GVNLPa-------v~VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e 933 (2191)
+||+||+. ..+||++..+. +...|.|++||+||.| .+|.+..+++.++
T Consensus 464 gRGtDI~l~~V~~~GGl~VI~t~~p~----s~ri~~q~~GRtGRqG--~~G~s~~~ls~eD 518 (745)
T TIGR00963 464 GRGTDIKLEEVKELGGLYVIGTERHE----SRRIDNQLRGRSGRQG--DPGSSRFFLSLED 518 (745)
T ss_pred cCCcCCCccchhhcCCcEEEecCCCC----cHHHHHHHhccccCCC--CCcceEEEEeccH
Confidence 99999998 45899877765 7788999999999999 7999999987654
No 111
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.90 E-value=2.6e-22 Score=259.14 Aligned_cols=320 Identities=16% Similarity=0.201 Sum_probs=199.6
Q ss_pred EEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCC--------CCCC
Q 000107 545 VYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGS--------LPKD 616 (2191)
Q Consensus 545 Ii~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~--------l~~~ 616 (2191)
++.||||||||.+|..+ +..++..|+++||++|+++|+.|++++|++.+ |..+..++|+.+... ....
T Consensus 1 LL~g~TGsGKT~v~l~~-i~~~l~~g~~vLvlvP~i~L~~Q~~~~l~~~f---~~~v~vlhs~~~~~er~~~~~~~~~g~ 76 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQA-IEKVLALGKSVLVLVPEIALTPQMIQRFKYRF---GSQVAVLHSGLSDSEKLQAWRKVKNGE 76 (505)
T ss_pred CccCCCCCCHHHHHHHH-HHHHHHcCCeEEEEeCcHHHHHHHHHHHHHHh---CCcEEEEECCCCHHHHHHHHHHHHcCC
Confidence 46899999999999655 44556678899999999999999999998765 567888888764321 2235
Q ss_pred CceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccc-hhHHH--HHHHHHHHHhhcCCCCCCCCCCCCCCCCCC
Q 000107 617 TSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQN-RGYLL--ELLLTKLRYAAGEGTSDSSSGENSGTSSGK 693 (2191)
Q Consensus 617 ~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~-RG~~l--E~lL~kLr~~~~~~~~~s~~~~~~~~~~~~ 693 (2191)
.+|+|+|+..+. ..+.++++|||||.|.....+ .++.+ ..+ ..++..
T Consensus 77 ~~IVVGTrsalf---------~p~~~l~lIIVDEeh~~sykq~~~p~y~ar~~-a~~ra~-------------------- 126 (505)
T TIGR00595 77 ILVVIGTRSALF---------LPFKNLGLIIVDEEHDSSYKQEEGPRYHARDV-AVYRAK-------------------- 126 (505)
T ss_pred CCEEECChHHHc---------CcccCCCEEEEECCCccccccccCCCCcHHHH-HHHHHH--------------------
Confidence 789999987531 257889999999999977432 12221 111 111111
Q ss_pred CCCCCCceEEEEeccCCCHHHHHHHhhccc--ccc----ccccccceEEEEeccccccchhhHHHHHHHhhccCCCChhH
Q 000107 694 ADPAHGLQIVGMSATMPNVAAVADWLQAAL--YET----NFRPVPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDH 767 (2191)
Q Consensus 694 ~~~~~~iqII~mSATL~N~~~la~wL~a~l--~~~----~~RpvpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~ 767 (2191)
..+.++|++||| |.++.+.......+ ... ..++.|....+..... . ....-.+.
T Consensus 127 ---~~~~~vil~SAT-Psles~~~~~~g~~~~~~l~~r~~~~~~p~v~vid~~~~-----~-----------~~~~ls~~ 186 (505)
T TIGR00595 127 ---KFNCPVVLGSAT-PSLESYHNAKQKAYRLLVLTRRVSGRKPPEVKLIDMRKE-----P-----------RQSFLSPE 186 (505)
T ss_pred ---hcCCCEEEEeCC-CCHHHHHHHhcCCeEEeechhhhcCCCCCeEEEEecccc-----c-----------ccCCccHH
Confidence 146789999999 66666665543321 111 1122222222211100 0 00123456
Q ss_pred HHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHH---Hhhc------------------ccc------cCCCCc-hhh-
Q 000107 768 IVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKF---LKKF------------------SIN------VHSSDS-EFI- 818 (2191)
Q Consensus 768 l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~---l~~~------------------~~~------~~~~~~-~~~- 818 (2191)
+.+.+.+.++.++++|||+|++..+-.+...=+.. ++.. +.. .....+ .+.
T Consensus 187 l~~~i~~~l~~g~qvLvflnrrGya~~~~C~~Cg~~~~C~~C~~~l~~h~~~~~l~Ch~Cg~~~~~~~~Cp~C~s~~l~~ 266 (505)
T TIGR00595 187 LITAIEQTLAAGEQSILFLNRRGYSKNLLCRSCGYILCCPNCDVSLTYHKKEGKLRCHYCGYQEPIPKTCPQCGSEDLVY 266 (505)
T ss_pred HHHHHHHHHHcCCcEEEEEeCCcCCCeeEhhhCcCccCCCCCCCceEEecCCCeEEcCCCcCcCCCCCCCCCCCCCeeEe
Confidence 77788888888999999999987532111110000 0000 000 000000 000
Q ss_pred ---hhHHHHHHhhcCCCCCChhhhhhc-CCcEEEEcCCCCHHHH--HHHHHHhhcCCceEEEecccccccCCCCCceEE-
Q 000107 819 ---DITSAIDALRRCPAGLDPVLEETL-PSGVAYHHAGLTVEER--EVVETCYRKGLVRVLTATSTLAAGVNLPARRVI- 891 (2191)
Q Consensus 819 ---~~~~~~~~L~~~~~gld~~L~~~l-~~GVa~hHagLs~~eR--~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VV- 891 (2191)
..+... +.|.+.+ ...|..+|++++...+ +.+++.|++|.++|||+|+++++|+|+|++.+|
T Consensus 267 ~g~Gte~~~-----------e~l~~~fp~~~v~~~d~d~~~~~~~~~~~l~~f~~g~~~ILVgT~~i~kG~d~~~v~lV~ 335 (505)
T TIGR00595 267 KGYGTEQVE-----------EELAKLFPGARIARIDSDTTSRKGAHEALLNQFANGKADILIGTQMIAKGHHFPNVTLVG 335 (505)
T ss_pred ecccHHHHH-----------HHHHhhCCCCcEEEEecccccCccHHHHHHHHHhcCCCCEEEeCcccccCCCCCcccEEE
Confidence 011111 2333333 2469999999988766 899999999999999999999999999998855
Q ss_pred -eecCCCC--Cc----ccCcccccccccccCCCCCCCceEEEEEeCh
Q 000107 892 -FRQPRIG--RD----FIDGTRYRQMAGRAGRTGIDTKGESMLICKP 931 (2191)
Q Consensus 892 -I~~p~~g--~~----~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~ 931 (2191)
++.+..- .+ .-....|.|++|||||.+ ..|++++.+..
T Consensus 336 vl~aD~~l~~pd~ra~E~~~~ll~q~~GRagR~~--~~g~viiqt~~ 380 (505)
T TIGR00595 336 VLDADSGLHSPDFRAAERGFQLLTQVAGRAGRAE--DPGQVIIQTYN 380 (505)
T ss_pred EEcCcccccCcccchHHHHHHHHHHHHhccCCCC--CCCEEEEEeCC
Confidence 4544311 11 112346899999999988 68999976643
No 112
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=99.88 E-value=8e-24 Score=270.09 Aligned_cols=364 Identities=23% Similarity=0.330 Sum_probs=274.6
Q ss_pred hhhccccCCCCCccceeccCCC-CcccccccCCCCCCccCCCCCCCCCCCcCCcCCCCcHHHHHHHHHcCCCCCCHHHHH
Q 000107 453 IVHERKLDISSQGIDSITSDSP-TNVIKKPVGNEKSDEAGTPSSSGMLKDCLDLSSWLPSEICSIYKKRGISKLYPWQVE 531 (2191)
Q Consensus 453 ~~~~~e~~~~~~y~i~v~Sd~w-~~e~~~pi~~~~~~e~~~P~~~~~~~e~l~L~~~Lp~~l~~~l~~~Gi~~l~p~Q~e 531 (2191)
..+..+ ++++++.++..+++| ..+...|++++. .+.|....+.++.+++.+.-...+....-..-+..+.|.|.+
T Consensus 859 ~ipis~-pLps~~~~~~~s~~~l~~e~~~~~s~~~---~il~~~~~~~t~ll~l~plp~~~L~~~~~e~~~~~fn~~q~~ 934 (1230)
T KOG0952|consen 859 TIPISD-PLPSQIRHRAVSDNWLGAETVYPLSFQH---LILPDNEPPLTELLDLRPLPSSALKNVVFEALYKYFNPIQTQ 934 (1230)
T ss_pred Eeeccc-CCccceEEeeecccccCCceeccccccc---eeccccccccccccccCCCcchhhccccHHHhhcccCCccce
Confidence 344444 688999999999999 999999999998 999999999999999988422222221111113367789999
Q ss_pred hhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHh-cCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCC
Q 000107 532 CLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIS-TGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGG 610 (2191)
Q Consensus 532 al~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~-~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~ 610 (2191)
.|.. .+....|+++.+|||+|||++|++++.+.+.. .+.+++||.|.++|+.+...+|......-|+++....|+...
T Consensus 935 if~~-~y~td~~~~~g~ptgsgkt~~ae~a~~~~~~~~p~~kvvyIap~kalvker~~Dw~~r~~~~g~k~ie~tgd~~p 1013 (1230)
T KOG0952|consen 935 IFHC-LYHTDLNFLLGAPTGSGKTVVAELAIFRALSYYPGSKVVYIAPDKALVKERSDDWSKRDELPGIKVIELTGDVTP 1013 (1230)
T ss_pred EEEE-EeecchhhhhcCCccCcchhHHHHHHHHHhccCCCccEEEEcCCchhhcccccchhhhcccCCceeEeccCccCC
Confidence 8875 24468999999999999999999999987765 467999999999999999999988776669999999888755
Q ss_pred C-CCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCC
Q 000107 611 G-SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAAGEGTSDSSSGENSGT 689 (2191)
Q Consensus 611 ~-~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~ 689 (2191)
. .-..+.+|+|+||++++.+.+.|-....+++++++|+||+|++++. ||+.+|.+..+..++..
T Consensus 1014 d~~~v~~~~~~ittpek~dgi~Rsw~~r~~v~~v~~iv~de~hllg~~-rgPVle~ivsr~n~~s~-------------- 1078 (1230)
T KOG0952|consen 1014 DVKAVREADIVITTPEKWDGISRSWQTRKYVQSVSLIVLDEIHLLGED-RGPVLEVIVSRMNYISS-------------- 1078 (1230)
T ss_pred ChhheecCceEEcccccccCccccccchhhhccccceeecccccccCC-CcceEEEEeeccccCcc--------------
Confidence 4 2234689999999999999999988899999999999999999985 99999999888865432
Q ss_pred CCCCCCCCCCceEEEEeccCCCHHHHHHHhhcc-c--cccccccccceEEEEecccc-ccchhhHHHHHHHhhccCCCCh
Q 000107 690 SSGKADPAHGLQIVGMSATMPNVAAVADWLQAA-L--YETNFRPVPLEEYIKVGNAI-YSKKMDVVRTILTAANLGGKDP 765 (2191)
Q Consensus 690 ~~~~~~~~~~iqII~mSATL~N~~~la~wL~a~-l--~~~~~RpvpL~e~i~~~~~~-~~~~~~~~r~l~~~~~~~~~d~ 765 (2191)
.....+|++++|--+.|..++++||+.. . |.+..||+|++.++...... |...+..+ .+
T Consensus 1079 -----~t~~~vr~~glsta~~na~dla~wl~~~~~~nf~~svrpvp~~~~i~gfp~~~~cprm~sm---nk--------- 1141 (1230)
T KOG0952|consen 1079 -----QTEEPVRYLGLSTALANANDLADWLNIKDMYNFRPSVRPVPLEVHIDGFPGQHYCPRMMSM---NK--------- 1141 (1230)
T ss_pred -----ccCcchhhhhHhhhhhccHHHHHHhCCCCcCCCCcccccCCceEeecCCCchhcchhhhhc---cc---------
Confidence 2357899999999999999999999965 3 56788999999998743332 22221110 00
Q ss_pred hHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCc
Q 000107 766 DHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSG 845 (2191)
Q Consensus 766 d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~G 845 (2191)
...+.+ ....+..++|||+.++++....|..|...+.......+.......+++-.+...+ |..|+.++++|
T Consensus 1142 -pa~qai-k~~sp~~p~lifv~srrqtrlta~~li~~~~~~~~p~~fl~~de~e~e~~~~~~~------d~~Lk~tl~Fg 1213 (1230)
T KOG0952|consen 1142 -PAFQAI-KTHSPIKPVLIFVSSRRQTRLTALDLIASCATEDNPKQFLNMDELELEIIMSKVR------DTNLKLTLPFG 1213 (1230)
T ss_pred -HHHHHH-hcCCCCCceEEEeecccccccchHhHHhhccCCCCchhccCCCHHHHHHHHHHhc------ccchhhhhhhh
Confidence 111111 2345668999999999999888888877654322111111111223333333333 88999999999
Q ss_pred EEEEcCCCCHHHHHHH
Q 000107 846 VAYHHAGLTVEEREVV 861 (2191)
Q Consensus 846 Va~hHagLs~~eR~~V 861 (2191)
++.||+||...+|..+
T Consensus 1214 i~lhhagl~~~dr~~~ 1229 (1230)
T KOG0952|consen 1214 IGLHHAGLIENDRKIV 1229 (1230)
T ss_pred hhhhhhhccccccccC
Confidence 9999999999888654
No 113
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=99.87 E-value=1.9e-20 Score=216.11 Aligned_cols=307 Identities=21% Similarity=0.321 Sum_probs=218.1
Q ss_pred CCCHHHHHhhhh--cccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeE
Q 000107 524 KLYPWQVECLHV--DGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHV 601 (2191)
Q Consensus 524 ~l~p~Q~eal~~--~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V 601 (2191)
+|++.|+.+-+. ..+.+.++.++.|-||+|||... ...+...++.|.++.+..|++..|.|.+.+++..|. +..+
T Consensus 97 ~Ls~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTEMi-f~~i~~al~~G~~vciASPRvDVclEl~~Rlk~aF~--~~~I 173 (441)
T COG4098 97 TLSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEMI-FQGIEQALNQGGRVCIASPRVDVCLELYPRLKQAFS--NCDI 173 (441)
T ss_pred ccChhHHHHHHHHHHHHHhcCcEEEEEecCCCchhhh-HHHHHHHHhcCCeEEEecCcccchHHHHHHHHHhhc--cCCe
Confidence 788888876543 11446799999999999999775 345566777899999999999999999999998776 4556
Q ss_pred EEEeccCCCCCCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHhhcCCCCCC
Q 000107 602 RSYYGNQGGGSLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAAGEGTSDS 681 (2191)
Q Consensus 602 ~~~~G~~~~~~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~~~~s 681 (2191)
..+||+... ... ..++|||...+..+- +.++++||||+|-.--. -...+...+.+-+.
T Consensus 174 ~~Lyg~S~~--~fr-~plvVaTtHQLlrFk---------~aFD~liIDEVDAFP~~-~d~~L~~Av~~ark--------- 231 (441)
T COG4098 174 DLLYGDSDS--YFR-APLVVATTHQLLRFK---------QAFDLLIIDEVDAFPFS-DDQSLQYAVKKARK--------- 231 (441)
T ss_pred eeEecCCch--hcc-ccEEEEehHHHHHHH---------hhccEEEEecccccccc-CCHHHHHHHHHhhc---------
Confidence 778887643 222 689999988854432 34799999999986421 23445554444432
Q ss_pred CCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHH-HHhhcccc------ccccccccceEEEEeccccccchhhHHHHH
Q 000107 682 SSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVA-DWLQAALY------ETNFRPVPLEEYIKVGNAIYSKKMDVVRTI 754 (2191)
Q Consensus 682 ~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la-~wL~a~l~------~~~~RpvpL~e~i~~~~~~~~~~~~~~r~l 754 (2191)
..--+|.||||.++ .+. +.+...+. ..-.+|.|+..++..++- .+ .+
T Consensus 232 ----------------~~g~~IylTATp~k--~l~r~~~~g~~~~~klp~RfH~~pLpvPkf~w~~~~--~k------~l 285 (441)
T COG4098 232 ----------------KEGATIYLTATPTK--KLERKILKGNLRILKLPARFHGKPLPVPKFVWIGNW--NK------KL 285 (441)
T ss_pred ----------------ccCceEEEecCChH--HHHHHhhhCCeeEeecchhhcCCCCCCCceEEeccH--HH------Hh
Confidence 22347999999663 222 22222221 122345555555554421 11 11
Q ss_pred HHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCC
Q 000107 755 LTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGL 834 (2191)
Q Consensus 755 ~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gl 834 (2191)
. ...-+..+...+......+.++|||+|+....+.+|..|.+.++..
T Consensus 286 ~-----r~kl~~kl~~~lekq~~~~~P~liF~p~I~~~eq~a~~lk~~~~~~---------------------------- 332 (441)
T COG4098 286 Q-----RNKLPLKLKRWLEKQRKTGRPVLIFFPEIETMEQVAAALKKKLPKE---------------------------- 332 (441)
T ss_pred h-----hccCCHHHHHHHHHHHhcCCcEEEEecchHHHHHHHHHHHhhCCcc----------------------------
Confidence 1 1223446777888888889999999999999999998886544221
Q ss_pred ChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecCCCCCc--ccCccccccccc
Q 000107 835 DPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRIGRD--FIDGTRYRQMAG 912 (2191)
Q Consensus 835 d~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~~g~~--~is~~~y~QmiG 912 (2191)
.+++.|+. ...|.+..++||+|.+++|++|++|+|||++|.+.|.+ .|.+ .++.+..+|++|
T Consensus 333 ----------~i~~Vhs~--d~~R~EkV~~fR~G~~~lLiTTTILERGVTfp~vdV~V----lgaeh~vfTesaLVQIaG 396 (441)
T COG4098 333 ----------TIASVHSE--DQHRKEKVEAFRDGKITLLITTTILERGVTFPNVDVFV----LGAEHRVFTESALVQIAG 396 (441)
T ss_pred ----------ceeeeecc--CccHHHHHHHHHcCceEEEEEeehhhcccccccceEEE----ecCCcccccHHHHHHHhh
Confidence 16778875 46789999999999999999999999999999999876 4433 367888999999
Q ss_pred ccCCCCCCCceEEEEEeC
Q 000107 913 RAGRTGIDTKGESMLICK 930 (2191)
Q Consensus 913 RAGR~G~d~~Ge~ill~~ 930 (2191)
|+||.--...|.++.|-.
T Consensus 397 RvGRs~~~PtGdv~FFH~ 414 (441)
T COG4098 397 RVGRSLERPTGDVLFFHY 414 (441)
T ss_pred hccCCCcCCCCcEEEEec
Confidence 999987667788776643
No 114
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=99.87 E-value=2.1e-20 Score=246.96 Aligned_cols=301 Identities=17% Similarity=0.281 Sum_probs=226.0
Q ss_pred cCCCCCCHHHHHhhhhccccc------CCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHH
Q 000107 520 RGISKLYPWQVECLHVDGVLQ------RRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVL 593 (2191)
Q Consensus 520 ~Gi~~l~p~Q~eal~~~~il~------gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l 593 (2191)
++| .-||=|..||.. +.. -.+=+|||.-|-|||-||+=++...+. .|+++.+++||.-||+|.++.|++.
T Consensus 591 FPy-eET~DQl~AI~e--Vk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV~-~GKQVAvLVPTTlLA~QHy~tFkeR 666 (1139)
T COG1197 591 FPY-EETPDQLKAIEE--VKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAVM-DGKQVAVLVPTTLLAQQHYETFKER 666 (1139)
T ss_pred CCC-cCCHHHHHHHHH--HHHHhccCCcchheeecCcCCcHHHHHHHHHHHHhc-CCCeEEEEcccHHhHHHHHHHHHHH
Confidence 444 456778888864 442 268899999999999999999888776 5899999999999999999999999
Q ss_pred hhccCCeEEEEeccCCCCC--------CCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHH
Q 000107 594 LEPLGRHVRSYYGNQGGGS--------LPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLEL 665 (2191)
Q Consensus 594 ~~~lg~~V~~~~G~~~~~~--------l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~ 665 (2191)
|..++++|..+.--.+... .....||+|+|-- |+. ....+.+++++||||-|+ ||..-..
T Consensus 667 F~~fPV~I~~LSRF~s~kE~~~il~~la~G~vDIvIGTHr----LL~---kdv~FkdLGLlIIDEEqR-----FGVk~KE 734 (1139)
T COG1197 667 FAGFPVRIEVLSRFRSAKEQKEILKGLAEGKVDIVIGTHR----LLS---KDVKFKDLGLLIIDEEQR-----FGVKHKE 734 (1139)
T ss_pred hcCCCeeEEEecccCCHHHHHHHHHHHhcCCccEEEechH----hhC---CCcEEecCCeEEEechhh-----cCccHHH
Confidence 9999999887643322111 2345899999953 333 455789999999999999 4544455
Q ss_pred HHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEecc-CCCHHHHH-HHhhcc----ccccccccccceEEEEe
Q 000107 666 LLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSAT-MPNVAAVA-DWLQAA----LYETNFRPVPLEEYIKV 739 (2191)
Q Consensus 666 lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSAT-L~N~~~la-~wL~a~----l~~~~~RpvpL~e~i~~ 739 (2191)
-|..|+ .++.++-|||| +|. .+. ...|.. +-.+.-+..|++.|+..
T Consensus 735 kLK~Lr--------------------------~~VDvLTLSATPIPR--TL~Msm~GiRdlSvI~TPP~~R~pV~T~V~~ 786 (1139)
T COG1197 735 KLKELR--------------------------ANVDVLTLSATPIPR--TLNMSLSGIRDLSVIATPPEDRLPVKTFVSE 786 (1139)
T ss_pred HHHHHh--------------------------ccCcEEEeeCCCCcc--hHHHHHhcchhhhhccCCCCCCcceEEEEec
Confidence 455553 56889999999 332 221 222221 11333444555555541
Q ss_pred ccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhh
Q 000107 740 GNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFID 819 (2191)
Q Consensus 740 ~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~ 819 (2191)
.++..+.+.+...+..|+++-.-+|.....+.++..|.+..+..
T Consensus 787 -----------------------~d~~~ireAI~REl~RgGQvfYv~NrV~~Ie~~~~~L~~LVPEa------------- 830 (1139)
T COG1197 787 -----------------------YDDLLIREAILRELLRGGQVFYVHNRVESIEKKAERLRELVPEA------------- 830 (1139)
T ss_pred -----------------------CChHHHHHHHHHHHhcCCEEEEEecchhhHHHHHHHHHHhCCce-------------
Confidence 23334444555555678999999999999999999998766431
Q ss_pred hHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEE-ee-cCCC
Q 000107 820 ITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVI-FR-QPRI 897 (2191)
Q Consensus 820 ~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VV-I~-~p~~ 897 (2191)
.|++-||.|+..+-+.|...|-+|..+|||||.+.+.|||||+.+-+ |+ .+++
T Consensus 831 -------------------------rI~vaHGQM~e~eLE~vM~~F~~g~~dVLv~TTIIEtGIDIPnANTiIIe~AD~f 885 (1139)
T COG1197 831 -------------------------RIAVAHGQMRERELEEVMLDFYNGEYDVLVCTTIIETGIDIPNANTIIIERADKF 885 (1139)
T ss_pred -------------------------EEEEeecCCCHHHHHHHHHHHHcCCCCEEEEeeeeecCcCCCCCceEEEeccccc
Confidence 28899999999999999999999999999999999999999997654 43 3444
Q ss_pred CCcccCcccccccccccCCCCCCCceEEEEEeChh
Q 000107 898 GRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPE 932 (2191)
Q Consensus 898 g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~ 932 (2191)
-.++..|..||.||.. ..|.||+++.+.
T Consensus 886 -----GLsQLyQLRGRVGRS~--~~AYAYfl~p~~ 913 (1139)
T COG1197 886 -----GLAQLYQLRGRVGRSN--KQAYAYFLYPPQ 913 (1139)
T ss_pred -----cHHHHHHhccccCCcc--ceEEEEEeecCc
Confidence 4678899999999998 799999999863
No 115
>KOG0349 consensus Putative DEAD-box RNA helicase DDX1 [RNA processing and modification]
Probab=99.86 E-value=2e-21 Score=226.99 Aligned_cols=293 Identities=16% Similarity=0.229 Sum_probs=191.3
Q ss_pred EEEEEchhHHHHHHHHHHHHHHhhcc---CCeEEEEeccCCC----CCCCCCCceEEEchHHHHHHHHHhhhcCCCCccc
Q 000107 572 MALLVLPYVSICAEKAEHLEVLLEPL---GRHVRSYYGNQGG----GSLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIG 644 (2191)
Q Consensus 572 kaL~I~P~raLA~q~~~~l~~l~~~l---g~~V~~~~G~~~~----~~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~ 644 (2191)
.+||+-|.|+|+.|.+..++++-..+ .++-..+.|+... ..+..+++|+|+||+++..+++. ....+..+.
T Consensus 288 ~avivepsrelaEqt~N~i~~Fk~h~~np~~r~lLmiggv~~r~Q~~ql~~g~~ivvGtpgRl~~~is~--g~~~lt~cr 365 (725)
T KOG0349|consen 288 EAVIVEPSRELAEQTHNQIEEFKMHTSNPEVRSLLMIGGVLKRTQCKQLKDGTHIVVGTPGRLLQPISK--GLVTLTHCR 365 (725)
T ss_pred ceeEecCcHHHHHHHHhhHHHHHhhcCChhhhhhhhhhhHHhHHHHHHhhcCceeeecCchhhhhhhhc--cceeeeeeE
Confidence 68999999999999999776653322 2222233443211 23556799999999999999886 555788899
Q ss_pred eEEEcccccccccchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC--HHHHHH-----
Q 000107 645 IIVIDELHMVADQNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN--VAAVAD----- 717 (2191)
Q Consensus 645 lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N--~~~la~----- 717 (2191)
++|+||++.+...+....+..+...++.+... ...+|.+..|||+.- +..+++
T Consensus 366 FlvlDead~lL~qgy~d~I~r~h~qip~~tsd--------------------g~rlq~~vCsatlh~feVkk~~ervmhf 425 (725)
T KOG0349|consen 366 FLVLDEADLLLGQGYDDKIYRFHGQIPHMTSD--------------------GFRLQSPVCSATLHIFEVKKVGERVMHF 425 (725)
T ss_pred EEEecchhhhhhcccHHHHHHHhccchhhhcC--------------------CcccccceeeeEEeEEEeeehhhhhccC
Confidence 99999999998776666677777777666421 356899999999852 333332
Q ss_pred --HhhccccccccccccceEEEEeccccccchhhHHHHHHHhh-----------ccCCCChhHHHHHHHH-----HHh--
Q 000107 718 --WLQAALYETNFRPVPLEEYIKVGNAIYSKKMDVVRTILTAA-----------NLGGKDPDHIVELCDE-----VVQ-- 777 (2191)
Q Consensus 718 --wL~a~l~~~~~RpvpL~e~i~~~~~~~~~~~~~~r~l~~~~-----------~~~~~d~d~l~~Ll~e-----~~~-- 777 (2191)
|.+- -..+.-|-.....+..-..........++...... ......+.....++.- .++
T Consensus 426 ptwVdL--kgeD~vpetvHhvv~lv~p~~d~sw~~lr~~i~td~vh~kdn~~pg~~Spe~~s~a~kilkgEy~v~ai~~h 503 (725)
T KOG0349|consen 426 PTWVDL--KGEDLVPETVHHVVKLVCPSVDGSWCDLRQFIETDKVHTKDNLLPGQVSPENPSSATKILKGEYGVVAIRRH 503 (725)
T ss_pred ceeEec--ccccccchhhccceeecCCccCccHHHHhhhhccCCcccccccccccCCCCChhhhhHHhcCchhhhhhhhh
Confidence 2211 01111111111111111111111111111111100 0011111111111110 011
Q ss_pred cCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHH
Q 000107 778 EGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEE 857 (2191)
Q Consensus 778 ~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~e 857 (2191)
.-.++||||.|+..|..+-+.+.+... -.+.+..+|++..+.|
T Consensus 504 ~mdkaiifcrtk~dcDnLer~~~qkgg-------------------------------------~~~scvclhgDrkP~E 546 (725)
T KOG0349|consen 504 AMDKAIIFCRTKQDCDNLERMMNQKGG-------------------------------------KHYSCVCLHGDRKPDE 546 (725)
T ss_pred ccCceEEEEeccccchHHHHHHHHcCC-------------------------------------ccceeEEEecCCChhH
Confidence 125899999999999988877754221 1234788999999999
Q ss_pred HHHHHHHhhcCCceEEEecccccccCCCCCceEEeecCCCCCcccCcccccccccccCCCCCCCceEEEEEeCh
Q 000107 858 REVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKP 931 (2191)
Q Consensus 858 R~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~ 931 (2191)
|+.-++.|+.+.++.||||+++++|+||.++-++|+...+. +...|.||+||.||+- +.|.+|.++..
T Consensus 547 rk~nle~Fkk~dvkflictdvaargldi~g~p~~invtlpd----~k~nyvhrigrvgrae--rmglaislvat 614 (725)
T KOG0349|consen 547 RKANLESFKKFDVKFLICTDVAARGLDITGLPFMINVTLPD----DKTNYVHRIGRVGRAE--RMGLAISLVAT 614 (725)
T ss_pred HHHHHHhhhhcCeEEEEEehhhhccccccCCceEEEEecCc----ccchhhhhhhccchhh--hcceeEEEeec
Confidence 99999999999999999999999999999999999977766 7889999999999987 68888876543
No 116
>cd00268 DEADc DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.
Probab=99.85 E-value=1.1e-20 Score=217.68 Aligned_cols=173 Identities=25% Similarity=0.284 Sum_probs=148.5
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhc----CCEEEEEchhHHHHH
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIST----GKMALLVLPYVSICA 584 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~----g~kaL~I~P~raLA~ 584 (2191)
+++.+.+.+.+.|++.|+++|.++++. +..|+|+++++|||+|||++|.++++..+... +.++||++|+++|+.
T Consensus 6 ~~~~i~~~l~~~~~~~~~~~Q~~~~~~--~~~~~~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~~~L~~ 83 (203)
T cd00268 6 LSPELLRGIYALGFEKPTPIQARAIPP--LLSGRDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPTRELAL 83 (203)
T ss_pred CCHHHHHHHHHcCCCCCCHHHHHHHHH--HhcCCcEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCCHHHHH
Confidence 778899999999999999999999987 88899999999999999999999999988764 568999999999999
Q ss_pred HHHHHHHHHhhccCCeEEEEeccCCCC----CCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchh
Q 000107 585 EKAEHLEVLLEPLGRHVRSYYGNQGGG----SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRG 660 (2191)
Q Consensus 585 q~~~~l~~l~~~lg~~V~~~~G~~~~~----~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG 660 (2191)
|+...+..+....++.+..++|+.... ....+.+|+||||+++..++.+ ....+.+++++|+||+|.+.+.+++
T Consensus 84 q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~l~~--~~~~~~~l~~lIvDE~h~~~~~~~~ 161 (203)
T cd00268 84 QIAEVARKLGKHTNLKVVVIYGGTSIDKQIRKLKRGPHIVVATPGRLLDLLER--GKLDLSKVKYLVLDEADRMLDMGFE 161 (203)
T ss_pred HHHHHHHHHhccCCceEEEEECCCCHHHHHHHhcCCCCEEEEChHHHHHHHHc--CCCChhhCCEEEEeChHHhhccChH
Confidence 999999988777788888888876431 1334689999999999888876 3467889999999999999887778
Q ss_pred HHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC
Q 000107 661 YLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN 711 (2191)
Q Consensus 661 ~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N 711 (2191)
..+..++..+ ..+.|++++|||+++
T Consensus 162 ~~~~~~~~~l--------------------------~~~~~~~~~SAT~~~ 186 (203)
T cd00268 162 DQIREILKLL--------------------------PKDRQTLLFSATMPK 186 (203)
T ss_pred HHHHHHHHhC--------------------------CcccEEEEEeccCCH
Confidence 7777776655 246899999999984
No 117
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=99.85 E-value=7.3e-20 Score=233.90 Aligned_cols=306 Identities=25% Similarity=0.320 Sum_probs=193.2
Q ss_pred CCCCHHHHHhhhhccccc----CCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccC
Q 000107 523 SKLYPWQVECLHVDGVLQ----RRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLG 598 (2191)
Q Consensus 523 ~~l~p~Q~eal~~~~il~----gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg 598 (2191)
..|+++|.+++.. +.. ++..++++|||+|||.++...+-.. +.++|||+|+.+|+.|..+.+...+.. +
T Consensus 35 ~~lr~yQ~~al~a--~~~~~~~~~~gvivlpTGaGKT~va~~~~~~~----~~~~Lvlv~~~~L~~Qw~~~~~~~~~~-~ 107 (442)
T COG1061 35 FELRPYQEEALDA--LVKNRRTERRGVIVLPTGAGKTVVAAEAIAEL----KRSTLVLVPTKELLDQWAEALKKFLLL-N 107 (442)
T ss_pred CCCcHHHHHHHHH--HHhhcccCCceEEEeCCCCCHHHHHHHHHHHh----cCCEEEEECcHHHHHHHHHHHHHhcCC-c
Confidence 3699999999986 666 8999999999999999987665432 445999999999999998777665432 1
Q ss_pred CeEEEEeccCCCCCCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHhhcCCC
Q 000107 599 RHVRSYYGNQGGGSLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAAGEGT 678 (2191)
Q Consensus 599 ~~V~~~~G~~~~~~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~~ 678 (2191)
..++.+.|+... ... ..|.|+|...+...- .+......++++||+||+|+++... ...++..+.
T Consensus 108 ~~~g~~~~~~~~--~~~-~~i~vat~qtl~~~~--~l~~~~~~~~~liI~DE~Hh~~a~~----~~~~~~~~~------- 171 (442)
T COG1061 108 DEIGIYGGGEKE--LEP-AKVTVATVQTLARRQ--LLDEFLGNEFGLIIFDEVHHLPAPS----YRRILELLS------- 171 (442)
T ss_pred cccceecCceec--cCC-CcEEEEEhHHHhhhh--hhhhhcccccCEEEEEccccCCcHH----HHHHHHhhh-------
Confidence 133333333211 111 479999988754421 1222334479999999999987542 233333331
Q ss_pred CCCCCCCCCCCCCCCCCCCCCce-EEEEeccCC-----CHHHHHHHhhccccccccc-------cccceEEE-Eecccc-
Q 000107 679 SDSSSGENSGTSSGKADPAHGLQ-IVGMSATMP-----NVAAVADWLQAALYETNFR-------PVPLEEYI-KVGNAI- 743 (2191)
Q Consensus 679 ~~s~~~~~~~~~~~~~~~~~~iq-II~mSATL~-----N~~~la~wL~a~l~~~~~R-------pvpL~e~i-~~~~~~- 743 (2191)
... ++|||||++ +..++...++...|...+. -.|...+. ......
T Consensus 172 --------------------~~~~~LGLTATp~R~D~~~~~~l~~~~g~~vy~~~~~~li~~g~Lap~~~~~i~~~~t~~ 231 (442)
T COG1061 172 --------------------AAYPRLGLTATPEREDGGRIGDLFDLIGPIVYEVSLKELIDEGYLAPYKYVEIKVTLTED 231 (442)
T ss_pred --------------------cccceeeeccCceeecCCchhHHHHhcCCeEeecCHHHHHhCCCccceEEEEEEeccchH
Confidence 122 899999965 2445555555333322211 11211111 110000
Q ss_pred ----ccchhhHHHH-------------HHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhc
Q 000107 744 ----YSKKMDVVRT-------------ILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKF 806 (2191)
Q Consensus 744 ----~~~~~~~~r~-------------l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~ 806 (2191)
+......... ..............+..++.... .+.+++|||.++..+..++..+..
T Consensus 232 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~lif~~~~~~a~~i~~~~~~----- 305 (442)
T COG1061 232 EEREYAKESARFRELLRARGTLRAENEARRIAIASERKIAAVRGLLLKHA-RGDKTLIFASDVEHAYEIAKLFLA----- 305 (442)
T ss_pred HHHHhhhhhhhhhhhhhhhhhhhHHHHHHHHhhccHHHHHHHHHHHHHhc-CCCcEEEEeccHHHHHHHHHHhcC-----
Confidence 0000000000 00000000111112222222222 467999999999998887766622
Q ss_pred ccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCC
Q 000107 807 SINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLP 886 (2191)
Q Consensus 807 ~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLP 886 (2191)
+-++..+.+..+..||..+++.|+.|.+++||++.++..|+|+|
T Consensus 306 ------------------------------------~~~~~~it~~t~~~eR~~il~~fr~g~~~~lv~~~vl~EGvDiP 349 (442)
T COG1061 306 ------------------------------------PGIVEAITGETPKEEREAILERFRTGGIKVLVTVKVLDEGVDIP 349 (442)
T ss_pred ------------------------------------CCceEEEECCCCHHHHHHHHHHHHcCCCCEEEEeeeccceecCC
Confidence 01167789999999999999999999999999999999999999
Q ss_pred CceEEeecCCCCCcccCcccccccccccCCC
Q 000107 887 ARRVIFRQPRIGRDFIDGTRYRQMAGRAGRT 917 (2191)
Q Consensus 887 av~VVI~~p~~g~~~is~~~y~QmiGRAGR~ 917 (2191)
++.++|-....+ |...|.||+||.-|.
T Consensus 350 ~~~~~i~~~~t~----S~~~~~Q~lGR~LR~ 376 (442)
T COG1061 350 DADVLIILRPTG----SRRLFIQRLGRGLRP 376 (442)
T ss_pred CCcEEEEeCCCC----cHHHHHHHhhhhccC
Confidence 999877433344 788999999999995
No 118
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=99.81 E-value=1.2e-18 Score=240.07 Aligned_cols=332 Identities=16% Similarity=0.194 Sum_probs=187.3
Q ss_pred CCCHHHHHhhhhcccc----c-CCeEEEEcCCCCchhHHHHHHHHHHHHh--cCCEEEEEchhHHHHHHHHHHHHHHhhc
Q 000107 524 KLYPWQVECLHVDGVL----Q-RRNLVYCASTSAGKSFVAEILMLRRLIS--TGKMALLVLPYVSICAEKAEHLEVLLEP 596 (2191)
Q Consensus 524 ~l~p~Q~eal~~~~il----~-gknlIi~APTGSGKTlvael~iL~~ll~--~g~kaL~I~P~raLA~q~~~~l~~l~~~ 596 (2191)
.++++|.+||.. +. . .++.++++|||||||.++...+ ..++. ..+++||++|+++|+.|..+.|..+...
T Consensus 413 ~lR~YQ~~AI~a--i~~a~~~g~r~~Ll~maTGSGKT~tai~li-~~L~~~~~~~rVLfLvDR~~L~~Qa~~~F~~~~~~ 489 (1123)
T PRK11448 413 GLRYYQEDAIQA--VEKAIVEGQREILLAMATGTGKTRTAIALM-YRLLKAKRFRRILFLVDRSALGEQAEDAFKDTKIE 489 (1123)
T ss_pred CCCHHHHHHHHH--HHHHHHhccCCeEEEeCCCCCHHHHHHHHH-HHHHhcCccCeEEEEecHHHHHHHHHHHHHhcccc
Confidence 589999999965 33 2 4789999999999999865444 44443 3469999999999999999988875322
Q ss_pred cCCeEEEEeccCC--CCCCCCCCceEEEchHHHHHHHHHhh---hcCCCCccceEEEcccccccc-------cchh-HHH
Q 000107 597 LGRHVRSYYGNQG--GGSLPKDTSVAVCTIEKANSLVNRML---EEGRLSEIGIIVIDELHMVAD-------QNRG-YLL 663 (2191)
Q Consensus 597 lg~~V~~~~G~~~--~~~l~~~~~IiV~TpEkl~~Ll~~l~---~~~~L~~l~lVVIDEaH~l~d-------~~RG-~~l 663 (2191)
.+..+...++... ......+..|+|||+.++...+.... ....+..+++|||||+|+-.. ...+ ...
T Consensus 490 ~~~~~~~i~~i~~L~~~~~~~~~~I~iaTiQtl~~~~~~~~~~~~~~~~~~fdlIIiDEaHRs~~~d~~~~~~~~~~~~~ 569 (1123)
T PRK11448 490 GDQTFASIYDIKGLEDKFPEDETKVHVATVQGMVKRILYSDDPMDKPPVDQYDCIIVDEAHRGYTLDKEMSEGELQFRDQ 569 (1123)
T ss_pred cccchhhhhchhhhhhhcccCCCCEEEEEHHHHHHhhhccccccccCCCCcccEEEEECCCCCCccccccccchhccchh
Confidence 2211111222111 11123457899999998655432110 113567889999999998421 0000 000
Q ss_pred HHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhcccccccc-------ccc----c
Q 000107 664 ELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQAALYETNF-------RPV----P 732 (2191)
Q Consensus 664 E~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a~l~~~~~-------Rpv----p 732 (2191)
.....+.+.+.. ..+..+||||||.. ..-..++|..++..++ --+ |
T Consensus 570 ~~~~~~yr~iL~---------------------yFdA~~IGLTATP~--r~t~~~FG~pv~~Ysl~eAI~DG~Lv~~~~p 626 (1123)
T PRK11448 570 LDYVSKYRRVLD---------------------YFDAVKIGLTATPA--LHTTEIFGEPVYTYSYREAVIDGYLIDHEPP 626 (1123)
T ss_pred hhHHHHHHHHHh---------------------hcCccEEEEecCCc--cchhHHhCCeeEEeeHHHHHhcCCcccCcCC
Confidence 001112222111 01245799999953 2334455543321111 011 2
Q ss_pred ceEEEEec--ccc---------ccchhhHHH--HHHHhhccCC-------CChh---HHHHHHHHHHh--cCCcEEEEeC
Q 000107 733 LEEYIKVG--NAI---------YSKKMDVVR--TILTAANLGG-------KDPD---HIVELCDEVVQ--EGHSVLIFCS 787 (2191)
Q Consensus 733 L~e~i~~~--~~~---------~~~~~~~~r--~l~~~~~~~~-------~d~d---~l~~Ll~e~~~--~g~~vLVF~~ 787 (2191)
........ +.. +......+. .+........ ...+ .+..-+.+.+. .++++||||.
T Consensus 627 ~~i~t~~~~~gi~~~~~e~~~~~~~~~~~i~~~~l~d~~~~~~~~~~~~vi~~~~~~~i~~~l~~~l~~~~~~KtiIF~~ 706 (1123)
T PRK11448 627 IRIETRLSQEGIHFEKGEEVEVINTQTGEIDLATLEDEVDFEVEDFNRRVITESFNRVVCEELAKYLDPTGEGKTLIFAA 706 (1123)
T ss_pred EEEEEEeccccccccccchhhhcchhhhhhhhccCcHHHhhhHHHHHHHHhhHHHHHHHHHHHHHHHhccCCCcEEEEEc
Confidence 22111100 000 000000000 0000000000 0011 11111112222 2379999999
Q ss_pred chhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhc
Q 000107 788 SRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRK 867 (2191)
Q Consensus 788 Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~ 867 (2191)
++..|+.++..|.+.+....... -...|..+||+.+ ++..+++.|++
T Consensus 707 s~~HA~~i~~~L~~~f~~~~~~~-------------------------------~~~~v~~itg~~~--~~~~li~~Fk~ 753 (1123)
T PRK11448 707 TDAHADMVVRLLKEAFKKKYGQV-------------------------------EDDAVIKITGSID--KPDQLIRRFKN 753 (1123)
T ss_pred CHHHHHHHHHHHHHHHHhhcCCc-------------------------------CccceEEEeCCcc--chHHHHHHHhC
Confidence 99999999988876542210000 0112555788774 56789999999
Q ss_pred CCc-eEEEecccccccCCCCCceEEeecCCCCCcccCcccccccccccCCCC
Q 000107 868 GLV-RVLTATSTLAAGVNLPARRVIFRQPRIGRDFIDGTRYRQMAGRAGRTG 918 (2191)
Q Consensus 868 G~i-kVLVATstLa~GVNLPav~VVI~~p~~g~~~is~~~y~QmiGRAGR~G 918 (2191)
+.. +|+|+++++.+|+|+|.+.+||-...+. |...|+||+||+.|..
T Consensus 754 ~~~p~IlVsvdmL~TG~DvP~v~~vVf~rpvk----S~~lf~QmIGRgtR~~ 801 (1123)
T PRK11448 754 ERLPNIVVTVDLLTTGIDVPSICNLVFLRRVR----SRILYEQMLGRATRLC 801 (1123)
T ss_pred CCCCeEEEEecccccCCCcccccEEEEecCCC----CHHHHHHHHhhhccCC
Confidence 987 7999999999999999988776433333 7888999999999986
No 119
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=99.81 E-value=1.5e-18 Score=227.83 Aligned_cols=130 Identities=15% Similarity=0.167 Sum_probs=99.7
Q ss_pred cCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCC
Q 000107 520 RGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGR 599 (2191)
Q Consensus 520 ~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~ 599 (2191)
.|. .+|+.|.-.- +.-.+--|..++||+|||++|.+|++..++ .|+.+++|+|++.||.|.++++..++..+|+
T Consensus 79 lg~-~~ydvQliGg----~~Lh~G~Iaem~TGeGKTL~a~Lpa~~~al-~G~~V~VvTpn~yLA~qd~e~m~~l~~~lGL 152 (896)
T PRK13104 79 LGL-RHFDVQLIGG----MVLHEGNIAEMRTGEGKTLVATLPAYLNAI-SGRGVHIVTVNDYLAKRDSQWMKPIYEFLGL 152 (896)
T ss_pred cCC-CcchHHHhhh----hhhccCccccccCCCCchHHHHHHHHHHHh-cCCCEEEEcCCHHHHHHHHHHHHHHhcccCc
Confidence 554 6777776542 222334478999999999999999997776 4677999999999999999999999999999
Q ss_pred eEEEEeccCCCCC--CCCCCceEEEchHHH-HHHHHHhhhc----CCCCccceEEEccccccc
Q 000107 600 HVRSYYGNQGGGS--LPKDTSVAVCTIEKA-NSLVNRMLEE----GRLSEIGIIVIDELHMVA 655 (2191)
Q Consensus 600 ~V~~~~G~~~~~~--l~~~~~IiV~TpEkl-~~Ll~~l~~~----~~L~~l~lVVIDEaH~l~ 655 (2191)
+|..++|+..... ..-.++|+|+||+++ .++++.-+.. .....+.++||||+|.|.
T Consensus 153 tv~~i~gg~~~~~r~~~y~~dIvygT~grlgfDyLrd~~~~~~~~~v~r~l~~~IvDEaDsiL 215 (896)
T PRK13104 153 TVGVIYPDMSHKEKQEAYKADIVYGTNNEYGFDYLRDNMAFSLTDKVQRELNFAIVDEVDSIL 215 (896)
T ss_pred eEEEEeCCCCHHHHHHHhCCCEEEECChhhhHHHHhcCCccchHhhhccccceEEeccHhhhh
Confidence 9999998754311 112479999999998 7777642111 122579999999999775
No 120
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=99.81 E-value=6.5e-18 Score=228.15 Aligned_cols=125 Identities=14% Similarity=0.148 Sum_probs=97.5
Q ss_pred CCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHH
Q 000107 779 GHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEER 858 (2191)
Q Consensus 779 g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR 858 (2191)
+.++||||+++..+..++..|... .++.++.+||+|+..+|
T Consensus 493 ~~KvLVF~~~~~t~~~L~~~L~~~---------------------------------------~Gi~~~~ihG~~s~~eR 533 (956)
T PRK04914 493 SEKVLVICAKAATALQLEQALRER---------------------------------------EGIRAAVFHEGMSIIER 533 (956)
T ss_pred CCeEEEEeCcHHHHHHHHHHHhhc---------------------------------------cCeeEEEEECCCCHHHH
Confidence 579999999999998888777431 11237789999999999
Q ss_pred HHHHHHhhcC--CceEEEecccccccCCCCCceEEeecCCCCCcccCcccccccccccCCCCCCCceEEEEEeChh-hHH
Q 000107 859 EVVETCYRKG--LVRVLTATSTLAAGVNLPARRVIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPE-EVK 935 (2191)
Q Consensus 859 ~~Ve~~Fr~G--~ikVLVATstLa~GVNLPav~VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~-e~~ 935 (2191)
+.+.+.|+++ ..+|||||.++++|+|++.+.+||+++.+. ++..|.||+||+||.|....-.+++++... ..+
T Consensus 534 ~~~~~~F~~~~~~~~VLIsTdvgseGlNlq~a~~VInfDlP~----nP~~~eQRIGR~~RiGQ~~~V~i~~~~~~~t~~e 609 (956)
T PRK04914 534 DRAAAYFADEEDGAQVLLCSEIGSEGRNFQFASHLVLFDLPF----NPDLLEQRIGRLDRIGQKHDIQIHVPYLEGTAQE 609 (956)
T ss_pred HHHHHHHhcCCCCccEEEechhhccCCCcccccEEEEecCCC----CHHHHHHHhcccccCCCCceEEEEEccCCCCHHH
Confidence 9999999974 699999999999999999999999887765 889999999999999955444444444432 234
Q ss_pred HHHhhhccCCC
Q 000107 936 KIMGLLNESCP 946 (2191)
Q Consensus 936 ~~~~ll~~~l~ 946 (2191)
.+.+++...+.
T Consensus 610 ~i~~~~~~~l~ 620 (956)
T PRK04914 610 RLFRWYHEGLN 620 (956)
T ss_pred HHHHHHhhhcC
Confidence 44455555443
No 121
>PF00270 DEAD: DEAD/DEAH box helicase; InterPro: IPR011545 Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0008026 ATP-dependent helicase activity; PDB: 3RRM_A 3RRN_A 3PEW_A 2KBE_A 3PEY_A 3FHO_A 2ZJA_A 2ZJ8_A 2ZJ5_A 2ZJ2_A ....
Probab=99.81 E-value=1.9e-19 Score=200.85 Aligned_cols=157 Identities=25% Similarity=0.395 Sum_probs=130.7
Q ss_pred CHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhc-CCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEE
Q 000107 526 YPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIST-GKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSY 604 (2191)
Q Consensus 526 ~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~-g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~ 604 (2191)
||+|.++++. +.+|+++++.||||+|||+++.++++..+.+. ..+++|++|+++|+.|+++++..++...+.++..+
T Consensus 1 t~~Q~~~~~~--i~~~~~~li~aptGsGKT~~~~~~~l~~~~~~~~~~~lii~P~~~l~~q~~~~~~~~~~~~~~~~~~~ 78 (169)
T PF00270_consen 1 TPLQQEAIEA--IISGKNVLISAPTGSGKTLAYILPALNRLQEGKDARVLIIVPTRALAEQQFERLRKFFSNTNVRVVLL 78 (169)
T ss_dssp -HHHHHHHHH--HHTTSEEEEECSTTSSHHHHHHHHHHHHHHTTSSSEEEEEESSHHHHHHHHHHHHHHTTTTTSSEEEE
T ss_pred CHHHHHHHHH--HHcCCCEEEECCCCCccHHHHHHHHHhhhccCCCceEEEEeecccccccccccccccccccccccccc
Confidence 6899999987 77999999999999999999999999988775 34999999999999999999999988878888888
Q ss_pred eccCCCC-----CCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHhhcCCCC
Q 000107 605 YGNQGGG-----SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAAGEGTS 679 (2191)
Q Consensus 605 ~G~~~~~-----~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~~~ 679 (2191)
+|+.... .+..+++|+|+||+++..+++. ....+.++++|||||+|.+.+..++..+..++..++..
T Consensus 79 ~~~~~~~~~~~~~~~~~~~ilv~T~~~l~~~~~~--~~~~~~~~~~iViDE~h~l~~~~~~~~~~~i~~~~~~~------ 150 (169)
T PF00270_consen 79 HGGQSISEDQREVLSNQADILVTTPEQLLDLISN--GKINISRLSLIVIDEAHHLSDETFRAMLKSILRRLKRF------ 150 (169)
T ss_dssp STTSCHHHHHHHHHHTTSSEEEEEHHHHHHHHHT--TSSTGTTESEEEEETHHHHHHTTHHHHHHHHHHHSHTT------
T ss_pred cccccccccccccccccccccccCcchhhccccc--cccccccceeeccCcccccccccHHHHHHHHHHHhcCC------
Confidence 8876421 1224689999999999988876 22356679999999999999877777777777765321
Q ss_pred CCCCCCCCCCCCCCCCCCCCceEEEEeccCC
Q 000107 680 DSSSGENSGTSSGKADPAHGLQIVGMSATMP 710 (2191)
Q Consensus 680 ~s~~~~~~~~~~~~~~~~~~iqII~mSATL~ 710 (2191)
.+.|+|+||||++
T Consensus 151 ------------------~~~~~i~~SAT~~ 163 (169)
T PF00270_consen 151 ------------------KNIQIILLSATLP 163 (169)
T ss_dssp ------------------TTSEEEEEESSST
T ss_pred ------------------CCCcEEEEeeCCC
Confidence 3589999999987
No 122
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=99.78 E-value=4.8e-18 Score=222.59 Aligned_cols=355 Identities=17% Similarity=0.208 Sum_probs=208.7
Q ss_pred cCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCC
Q 000107 520 RGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGR 599 (2191)
Q Consensus 520 ~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~ 599 (2191)
.|. .+|+.|.-.--. +.+|+ |.-..||+|||+++.++++...+ .|..+-+++|+-.||.+-++++..++..+|+
T Consensus 77 ~g~-~~~dvQlig~l~--l~~G~--iaEm~TGEGKTLvA~l~a~l~al-~G~~v~vvT~neyLA~Rd~e~~~~~~~~LGl 150 (796)
T PRK12906 77 LGL-RPFDVQIIGGIV--LHEGN--IAEMKTGEGKTLTATLPVYLNAL-TGKGVHVVTVNEYLSSRDATEMGELYRWLGL 150 (796)
T ss_pred hCC-CCchhHHHHHHH--HhcCC--cccccCCCCCcHHHHHHHHHHHH-cCCCeEEEeccHHHHHhhHHHHHHHHHhcCC
Confidence 565 788888766433 45565 88999999999999999987776 5888999999999999999999999999999
Q ss_pred eEEEEeccCCCCC--CCCCCceEEEchHHHH-HHHH-Hhh---hcCCCCccceEEEccccccc-ccchhH----------
Q 000107 600 HVRSYYGNQGGGS--LPKDTSVAVCTIEKAN-SLVN-RML---EEGRLSEIGIIVIDELHMVA-DQNRGY---------- 661 (2191)
Q Consensus 600 ~V~~~~G~~~~~~--l~~~~~IiV~TpEkl~-~Ll~-~l~---~~~~L~~l~lVVIDEaH~l~-d~~RG~---------- 661 (2191)
+|+...|+..... ..-.++|+++|...+- +.++ ++. +......+.+.||||+|-+. |..|.+
T Consensus 151 ~vg~i~~~~~~~~r~~~y~~dI~Y~t~~e~gfDyLRD~m~~~~~~~v~r~~~~aIvDEvDSiLiDeartPLiisg~~~~~ 230 (796)
T PRK12906 151 TVGLNLNSMSPDEKRAAYNCDITYSTNSELGFDYLRDNMVVYKEQMVQRPLNYAIVDEVDSILIDEARTPLIISGQAEKA 230 (796)
T ss_pred eEEEeCCCCCHHHHHHHhcCCCeecCCccccccchhhccccchhhhhccCcceeeeccchheeeccCCCceecCCCCCcc
Confidence 9998887643211 1125799999987652 2333 211 12234567899999999664 322221
Q ss_pred --HHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEec----------cCCC---H--HHHHHHhhcc--
Q 000107 662 --LLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSA----------TMPN---V--AAVADWLQAA-- 722 (2191)
Q Consensus 662 --~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSA----------TL~N---~--~~la~wL~a~-- 722 (2191)
.+..+...++.+...... .+...+...+. .....-+.|.++. .++| . ..+..|+...
T Consensus 231 ~~~y~~~~~~v~~l~~~~~~---~~~~~~~~~dy-~id~~~k~v~lte~G~~~~e~~~~i~~l~~~~~~~~~~~i~~Al~ 306 (796)
T PRK12906 231 TDLYIRADRFVKTLIKDEAE---DGDDDEDTGDY-KIDEKTKTISLTEQGIRKAEKLFGLDNLYDSENTALAHHIDQALR 306 (796)
T ss_pred hHHHHHHHHHHHHHHhhhhc---cccccCCCCce-EEEcccCceeecHHHHHHHHHHcCCccccCchhhhHHHHHHHHHH
Confidence 111111111111110000 00000000000 0000001111110 0111 0 0122332200
Q ss_pred ---cc-----------------cccccccc-------------------ce----------------EEEE---eccccc
Q 000107 723 ---LY-----------------ETNFRPVP-------------------LE----------------EYIK---VGNAIY 744 (2191)
Q Consensus 723 ---l~-----------------~~~~Rpvp-------------------L~----------------e~i~---~~~~~~ 744 (2191)
+| ....|..| ++ .|-+ ..++.-
T Consensus 307 A~~l~~~d~dYiV~d~~V~ivD~~TGR~~~gr~ws~GLHQaieaKe~v~i~~e~~t~a~It~qnfFr~Y~kl~GmTGTa~ 386 (796)
T PRK12906 307 ANYIMLKDIDYVVQDGEVLIVDEFTGRVMEGRRYSDGLHQAIEAKEGVKIQEENQTLATITYQNFFRMYKKLSGMTGTAK 386 (796)
T ss_pred HHHHHhcCCcEEEECCEEEEEeCCCCCcCCCCccChHHHHHHHHhcCCCcCCCceeeeeehHHHHHHhcchhhccCCCCH
Confidence 00 00111110 00 0000 001100
Q ss_pred cchhhHHHHHHHh-------------------hc-cCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHh
Q 000107 745 SKKMDVVRTILTA-------------------AN-LGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLK 804 (2191)
Q Consensus 745 ~~~~~~~r~l~~~-------------------~~-~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~ 804 (2191)
... .....++.. .. ........+...+.+....+.++||||+|+..++.++..|.+.
T Consensus 387 ~e~-~Ef~~iY~l~vv~IPtnkp~~r~d~~d~i~~t~~~K~~al~~~i~~~~~~g~pvLI~t~si~~se~ls~~L~~~-- 463 (796)
T PRK12906 387 TEE-EEFREIYNMEVITIPTNRPVIRKDSPDLLYPTLDSKFNAVVKEIKERHAKGQPVLVGTVAIESSERLSHLLDEA-- 463 (796)
T ss_pred HHH-HHHHHHhCCCEEEcCCCCCeeeeeCCCeEEcCHHHHHHHHHHHHHHHHhCCCCEEEEeCcHHHHHHHHHHHHHC--
Confidence 000 000111000 00 0001223455555555667899999999999999888887552
Q ss_pred hcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCC
Q 000107 805 KFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVN 884 (2191)
Q Consensus 805 ~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVN 884 (2191)
+. ....+||.+...|+..|..+++.|. |+|||++++||+|
T Consensus 464 --gi------------------------------------~~~~Lna~~~~~Ea~ii~~ag~~g~--VtIATnmAGRGtD 503 (796)
T PRK12906 464 --GI------------------------------------PHAVLNAKNHAKEAEIIMNAGQRGA--VTIATNMAGRGTD 503 (796)
T ss_pred --CC------------------------------------CeeEecCCcHHHHHHHHHhcCCCce--EEEEeccccCCCC
Confidence 11 1567999999999999999999996 9999999999999
Q ss_pred CC---Cce-----EEeecCCCCCcccCcccccccccccCCCCCCCceEEEEEeChhh
Q 000107 885 LP---ARR-----VIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEE 933 (2191)
Q Consensus 885 LP---av~-----VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e 933 (2191)
|+ .+. +||.+.++. +...|.|++|||||.| .+|.+..+++.+|
T Consensus 504 I~l~~~V~~~GGLhVI~te~pe----s~ri~~Ql~GRtGRqG--~~G~s~~~~sleD 554 (796)
T PRK12906 504 IKLGPGVKELGGLAVIGTERHE----SRRIDNQLRGRSGRQG--DPGSSRFYLSLED 554 (796)
T ss_pred CCCCcchhhhCCcEEEeeecCC----cHHHHHHHhhhhccCC--CCcceEEEEeccc
Confidence 95 788 899877765 7778999999999999 8999999987653
No 123
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=99.77 E-value=2.8e-17 Score=216.20 Aligned_cols=130 Identities=18% Similarity=0.163 Sum_probs=100.3
Q ss_pred cCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCC
Q 000107 520 RGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGR 599 (2191)
Q Consensus 520 ~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~ 599 (2191)
.|. ++|+.|.-.--. +.+|+ |..++||+|||++|.+|++-..+ .|+.+-+++|+..||.+.++++..++..+|+
T Consensus 78 lg~-~~~dvQlig~l~--L~~G~--Iaem~TGeGKTLva~lpa~l~aL-~G~~V~IvTpn~yLA~rd~e~~~~l~~~LGl 151 (830)
T PRK12904 78 LGM-RHFDVQLIGGMV--LHEGK--IAEMKTGEGKTLVATLPAYLNAL-TGKGVHVVTVNDYLAKRDAEWMGPLYEFLGL 151 (830)
T ss_pred hCC-CCCccHHHhhHH--hcCCc--hhhhhcCCCcHHHHHHHHHHHHH-cCCCEEEEecCHHHHHHHHHHHHHHHhhcCC
Confidence 565 788888765432 44554 88999999999999999964444 3667889999999999999999999999999
Q ss_pred eEEEEeccCCCCC--CCCCCceEEEchHHH-HHHHHHhhh----cCCCCccceEEEccccccc
Q 000107 600 HVRSYYGNQGGGS--LPKDTSVAVCTIEKA-NSLVNRMLE----EGRLSEIGIIVIDELHMVA 655 (2191)
Q Consensus 600 ~V~~~~G~~~~~~--l~~~~~IiV~TpEkl-~~Ll~~l~~----~~~L~~l~lVVIDEaH~l~ 655 (2191)
+|+...|+..... ..-.++|+++|+..+ .++++..+. ...+..+.++||||+|.|.
T Consensus 152 sv~~i~~~~~~~er~~~y~~dI~ygT~~elgfDyLrd~~~~~~~~~~~r~~~~aIvDEaDsiL 214 (830)
T PRK12904 152 SVGVILSGMSPEERREAYAADITYGTNNEFGFDYLRDNMVFSLEERVQRGLNYAIVDEVDSIL 214 (830)
T ss_pred eEEEEcCCCCHHHHHHhcCCCeEEECCcchhhhhhhcccccchhhhcccccceEEEechhhhe
Confidence 9999988754321 112479999999998 777764321 1236778999999999764
No 124
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=99.76 E-value=1.2e-17 Score=225.42 Aligned_cols=322 Identities=23% Similarity=0.254 Sum_probs=199.7
Q ss_pred CCCHHHHHhhhhcccc---cCC-eEEEEcCCCCchhHHHHHHHHHHHHh---cCCEEEEEchhHHHHHHHHHHHHHHhhc
Q 000107 524 KLYPWQVECLHVDGVL---QRR-NLVYCASTSAGKSFVAEILMLRRLIS---TGKMALLVLPYVSICAEKAEHLEVLLEP 596 (2191)
Q Consensus 524 ~l~p~Q~eal~~~~il---~gk-nlIi~APTGSGKTlvael~iL~~ll~---~g~kaL~I~P~raLA~q~~~~l~~l~~~ 596 (2191)
..+++|..++.. +. ... .+++.||||+|||++++.+++..... ...+++++.|+++++.++++++...+..
T Consensus 195 ~~~~~~~~~~~~--~~~~~~~~~~~vl~aPTG~GKT~asl~~a~~~~~~~~~~~~r~i~vlP~~t~ie~~~~r~~~~~~~ 272 (733)
T COG1203 195 EGYELQEKALEL--ILRLEKRSLLVVLEAPTGYGKTEASLILALALLDEKIKLKSRVIYVLPFRTIIEDMYRRAKEIFGL 272 (733)
T ss_pred hhhHHHHHHHHH--HHhcccccccEEEEeCCCCChHHHHHHHHHHHhhccccccceEEEEccHHHHHHHHHHHHHhhhcc
Confidence 348899999875 33 234 89999999999999999988877666 3679999999999999999999887654
Q ss_pred cCCeEEEEeccCCCCCC--C----------------CCCceEEEchHHHHHHHHHhhhcCCC--CccceEEEcccccccc
Q 000107 597 LGRHVRSYYGNQGGGSL--P----------------KDTSVAVCTIEKANSLVNRMLEEGRL--SEIGIIVIDELHMVAD 656 (2191)
Q Consensus 597 lg~~V~~~~G~~~~~~l--~----------------~~~~IiV~TpEkl~~Ll~~l~~~~~L--~~l~lVVIDEaH~l~d 656 (2191)
.+.....++|....... + .-..+.++||-......-.......+ -..+++|+||+|++.+
T Consensus 273 ~~~~~~~~h~~~~~~~~~~~~~~~~~~~~~~ds~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~S~vIlDE~h~~~~ 352 (733)
T COG1203 273 FSVIGKSLHSSSKEPLLLEPDQDILLTLTTNDSYKKLLLALIVVTPIQILIFSVKGFKFEFLALLLTSLVILDEVHLYAD 352 (733)
T ss_pred cccccccccccccchhhhccccccceeEEecccccceeccccccCHhHhhhhhccccchHHHHHHHhhchhhccHHhhcc
Confidence 43322212333221000 0 01345555555433211100000001 1247999999999987
Q ss_pred cchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC--HHHHHHHhhccccc-cccccccc
Q 000107 657 QNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN--VAAVADWLQAALYE-TNFRPVPL 733 (2191)
Q Consensus 657 ~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N--~~~la~wL~a~l~~-~~~RpvpL 733 (2191)
...-..+..++..+.. .+..+|+||||+|. .+.+...++..... ......+.
T Consensus 353 ~~~~~~l~~~i~~l~~-------------------------~g~~ill~SATlP~~~~~~l~~~~~~~~~~~~~~~~~~~ 407 (733)
T COG1203 353 ETMLAALLALLEALAE-------------------------AGVPVLLMSATLPPFLKEKLKKALGKGREVVENAKFCPK 407 (733)
T ss_pred cchHHHHHHHHHHHHh-------------------------CCCCEEEEecCCCHHHHHHHHHHHhcccceecccccccc
Confidence 6322223333333322 35689999999985 22233333221100 00000000
Q ss_pred eEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCC
Q 000107 734 EEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSS 813 (2191)
Q Consensus 734 ~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~ 813 (2191)
......... ...... .. ........+.+.+..+++++|-|||++.|..+...|.....
T Consensus 408 ~~e~~~~~~---~~~~~~----~~------~~~~~~~~~~~~~~~~~kvlvI~NTV~~Aie~Y~~Lk~~~~--------- 465 (733)
T COG1203 408 EDEPGLKRK---ERVDVE----DG------PQEELIELISEEVKEGKKVLVIVNTVDRAIELYEKLKEKGP--------- 465 (733)
T ss_pred ccccccccc---cchhhh----hh------hhHhhhhcchhhhccCCcEEEEEecHHHHHHHHHHHHhcCC---------
Confidence 000000000 000000 00 00123344455667889999999999999988888754211
Q ss_pred CchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhh----cCCceEEEecccccccCCCCCce
Q 000107 814 DSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYR----KGLVRVLTATSTLAAGVNLPARR 889 (2191)
Q Consensus 814 ~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr----~G~ikVLVATstLa~GVNLPav~ 889 (2191)
.+..+||.++..+|...++.++ .+...|+|||++.+.|||+...
T Consensus 466 -------------------------------~v~LlHSRf~~~dR~~ke~~l~~~~~~~~~~IvVaTQVIEagvDidfd- 513 (733)
T COG1203 466 -------------------------------KVLLLHSRFTLKDREEKERELKKLFKQNEGFIVVATQVIEAGVDIDFD- 513 (733)
T ss_pred -------------------------------CEEEEecccchhhHHHHHHHHHHHHhccCCeEEEEeeEEEEEeccccC-
Confidence 2888999999999998888654 5678999999999999999844
Q ss_pred EEeecCCCCCcccCcccccccccccCCCCCCCceEEEEEeChh
Q 000107 890 VIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPE 932 (2191)
Q Consensus 890 VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~ 932 (2191)
++|. +.-++.+.+||+||++|.|.+..|..+++....
T Consensus 514 ~mIT------e~aPidSLIQR~GRv~R~g~~~~~~~~v~~~~~ 550 (733)
T COG1203 514 VLIT------ELAPIDSLIQRAGRVNRHGKKENGKIYVYNDEE 550 (733)
T ss_pred eeee------cCCCHHHHHHHHHHHhhcccccCCceeEeeccc
Confidence 4442 233667899999999999987788888876553
No 125
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=99.74 E-value=7.3e-17 Score=211.40 Aligned_cols=142 Identities=15% Similarity=0.168 Sum_probs=115.3
Q ss_pred CcHHHHHHHH-----HcCCCCC---CHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhH
Q 000107 509 LPSEICSIYK-----KRGISKL---YPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYV 580 (2191)
Q Consensus 509 Lp~~l~~~l~-----~~Gi~~l---~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~r 580 (2191)
+..++...+. ..||..| +|+|.++++. +..++++|..++||+|||++|.+|++..++. +..+++|+|++
T Consensus 69 l~re~~~r~lg~~~~~~G~~~p~~~tp~qvQ~I~~--i~l~~gvIAeaqTGeGKTLAf~LP~l~~aL~-g~~v~IVTpTr 145 (970)
T PRK12899 69 VVKNVCRRLAGTPVEVSGYHQQWDMVPYDVQILGA--IAMHKGFITEMQTGEGKTLTAVMPLYLNALT-GKPVHLVTVND 145 (970)
T ss_pred CCHHHHHHHhccccccccccCCCCCChHHHHHhhh--hhcCCCeEEEeCCCCChHHHHHHHHHHHHhh-cCCeEEEeCCH
Confidence 4455555544 5788888 9999999976 8889999999999999999999999988774 45689999999
Q ss_pred HHHHHHHHHHHHHhhccCCeEEEEeccCCCCC--CCCCCceEEEchHHH-HHHHHHhhhcCCC-------CccceEEEcc
Q 000107 581 SICAEKAEHLEVLLEPLGRHVRSYYGNQGGGS--LPKDTSVAVCTIEKA-NSLVNRMLEEGRL-------SEIGIIVIDE 650 (2191)
Q Consensus 581 aLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~--l~~~~~IiV~TpEkl-~~Ll~~l~~~~~L-------~~l~lVVIDE 650 (2191)
+||.|.++.+..++..+|++|..++|+..... ..-.++|+|+||+++ .++++.- ...+ ..+.++||||
T Consensus 146 ELA~Qdae~m~~L~k~lGLsV~~i~GG~~~~eq~~~y~~DIVygTPgRLgfDyLrd~--~~~~~~~~~vqr~~~~~IIDE 223 (970)
T PRK12899 146 YLAQRDCEWVGSVLRWLGLTTGVLVSGSPLEKRKEIYQCDVVYGTASEFGFDYLRDN--SIATRKEEQVGRGFYFAIIDE 223 (970)
T ss_pred HHHHHHHHHHHHHHhhcCCeEEEEeCCCCHHHHHHHcCCCEEEECCChhHHHHhhCC--CCCcCHHHhhcccccEEEEec
Confidence 99999999999999999999999998765321 011489999999999 8888752 1222 3568999999
Q ss_pred ccccc
Q 000107 651 LHMVA 655 (2191)
Q Consensus 651 aH~l~ 655 (2191)
+|.|.
T Consensus 224 ADsmL 228 (970)
T PRK12899 224 VDSIL 228 (970)
T ss_pred hhhhh
Confidence 99775
No 126
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=99.73 E-value=1.2e-16 Score=209.52 Aligned_cols=130 Identities=18% Similarity=0.168 Sum_probs=99.6
Q ss_pred cCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCC
Q 000107 520 RGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGR 599 (2191)
Q Consensus 520 ~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~ 599 (2191)
.|. .+|+.|.-. ++.-.+.-|..++||.|||++|.+|++...+ .|+.+.||+|+..||.+-++++..++..+|+
T Consensus 79 lgm-~~ydVQliG----gl~L~~G~IaEm~TGEGKTL~a~lp~~l~al-~g~~VhIvT~ndyLA~RD~e~m~~l~~~lGl 152 (908)
T PRK13107 79 FEM-RHFDVQLLG----GMVLDSNRIAEMRTGEGKTLTATLPAYLNAL-TGKGVHVITVNDYLARRDAENNRPLFEFLGL 152 (908)
T ss_pred hCC-CcCchHHhc----chHhcCCccccccCCCCchHHHHHHHHHHHh-cCCCEEEEeCCHHHHHHHHHHHHHHHHhcCC
Confidence 455 678888643 2333445588999999999999999987766 4677999999999999999999999999999
Q ss_pred eEEEEeccCCCCC-CC-CCCceEEEchHHH-HHHHHHhhh----cCCCCccceEEEccccccc
Q 000107 600 HVRSYYGNQGGGS-LP-KDTSVAVCTIEKA-NSLVNRMLE----EGRLSEIGIIVIDELHMVA 655 (2191)
Q Consensus 600 ~V~~~~G~~~~~~-l~-~~~~IiV~TpEkl-~~Ll~~l~~----~~~L~~l~lVVIDEaH~l~ 655 (2191)
+|....++..... .. -.++|+++|+..+ .++++.-+. ......+.++||||+|.+.
T Consensus 153 sv~~i~~~~~~~~r~~~Y~~dI~YgT~~e~gfDyLrdnm~~~~~~~vqr~~~~aIvDEvDsiL 215 (908)
T PRK13107 153 TVGINVAGLGQQEKKAAYNADITYGTNNEFGFDYLRDNMAFSPQERVQRPLHYALIDEVDSIL 215 (908)
T ss_pred eEEEecCCCCHHHHHhcCCCCeEEeCCCcccchhhhccCccchhhhhccccceeeecchhhhc
Confidence 9998888654311 11 1579999999998 666664221 1123678999999999765
No 127
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=99.66 E-value=1.9e-15 Score=197.73 Aligned_cols=354 Identities=18% Similarity=0.246 Sum_probs=212.2
Q ss_pred CCCCHHHHHhhhhcccccC----CeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccC
Q 000107 523 SKLYPWQVECLHVDGVLQR----RNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLG 598 (2191)
Q Consensus 523 ~~l~p~Q~eal~~~~il~g----knlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg 598 (2191)
..+++-|..++.. +... ...++.+.||||||.+|+-++- ..+..|+.+|+++|-.+|..|+..+|+..| |
T Consensus 197 ~~Ln~~Q~~a~~~--i~~~~~~~~~~Ll~GvTGSGKTEvYl~~i~-~~L~~GkqvLvLVPEI~Ltpq~~~rf~~rF---g 270 (730)
T COG1198 197 LALNQEQQAAVEA--ILSSLGGFAPFLLDGVTGSGKTEVYLEAIA-KVLAQGKQVLVLVPEIALTPQLLARFKARF---G 270 (730)
T ss_pred cccCHHHHHHHHH--HHHhcccccceeEeCCCCCcHHHHHHHHHH-HHHHcCCEEEEEeccccchHHHHHHHHHHh---C
Confidence 3678889998875 5433 7899999999999999976554 556689999999999999999999998877 4
Q ss_pred CeEEEEeccCCCCC--------CCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEccccccccc----chhHHHHHH
Q 000107 599 RHVRSYYGNQGGGS--------LPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQ----NRGYLLELL 666 (2191)
Q Consensus 599 ~~V~~~~G~~~~~~--------l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~----~RG~~lE~l 666 (2191)
.+|.+++++.+.+. ......|+|+|--.+ ...+.++++|||||=|.-.-. -|...-+..
T Consensus 271 ~~v~vlHS~Ls~~er~~~W~~~~~G~~~vVIGtRSAl---------F~Pf~~LGLIIvDEEHD~sYKq~~~prYhARdvA 341 (730)
T COG1198 271 AKVAVLHSGLSPGERYRVWRRARRGEARVVIGTRSAL---------FLPFKNLGLIIVDEEHDSSYKQEDGPRYHARDVA 341 (730)
T ss_pred CChhhhcccCChHHHHHHHHHHhcCCceEEEEechhh---------cCchhhccEEEEeccccccccCCcCCCcCHHHHH
Confidence 77888888765532 335689999995432 225789999999999986521 133333443
Q ss_pred HHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHHHHHhhcc--cccccc---cc-ccceEEEEec
Q 000107 667 LTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAVADWLQAA--LYETNF---RP-VPLEEYIKVG 740 (2191)
Q Consensus 667 L~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~la~wL~a~--l~~~~~---Rp-vpL~e~i~~~ 740 (2191)
+-+-+. .++++|+-||| |.++.+..-.... .+.-.. +. .|-...+...
T Consensus 342 ~~Ra~~-------------------------~~~pvvLgSAT-PSLES~~~~~~g~y~~~~L~~R~~~a~~p~v~iiDmr 395 (730)
T COG1198 342 VLRAKK-------------------------ENAPVVLGSAT-PSLESYANAESGKYKLLRLTNRAGRARLPRVEIIDMR 395 (730)
T ss_pred HHHHHH-------------------------hCCCEEEecCC-CCHHHHHhhhcCceEEEEccccccccCCCcceEEecc
Confidence 333321 46789999999 4555544443221 111011 11 1111112111
Q ss_pred cccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhc--------------
Q 000107 741 NAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKF-------------- 806 (2191)
Q Consensus 741 ~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~-------------- 806 (2191)
...... +..-...+.+.+.+.+..+.++|+|+|.|.-+-.+...=+.+....
T Consensus 396 ~e~~~~--------------~~~lS~~Ll~~i~~~l~~geQ~llflnRRGys~~l~C~~Cg~v~~Cp~Cd~~lt~H~~~~ 461 (730)
T COG1198 396 KEPLET--------------GRSLSPALLEAIRKTLERGEQVLLFLNRRGYAPLLLCRDCGYIAECPNCDSPLTLHKATG 461 (730)
T ss_pred cccccc--------------CccCCHHHHHHHHHHHhcCCeEEEEEccCCccceeecccCCCcccCCCCCcceEEecCCC
Confidence 110000 0002345677788888889999999999875432222111111000
Q ss_pred ccccCCCC-c-hhh-hhHHHH-HHhhcCCCC---CChhhhhhc-CCcEEEEcCCCCHHH--HHHHHHHhhcCCceEEEec
Q 000107 807 SINVHSSD-S-EFI-DITSAI-DALRRCPAG---LDPVLEETL-PSGVAYHHAGLTVEE--REVVETCYRKGLVRVLTAT 876 (2191)
Q Consensus 807 ~~~~~~~~-~-~~~-~~~~~~-~~L~~~~~g---ld~~L~~~l-~~GVa~hHagLs~~e--R~~Ve~~Fr~G~ikVLVAT 876 (2191)
...++-.. . ... ..-+.- ..|+....| +.+.|...+ ...|+.+-++.+... -+..+..|.+|+.+|||.|
T Consensus 462 ~L~CH~Cg~~~~~p~~Cp~Cgs~~L~~~G~GterieeeL~~~FP~~rv~r~d~Dtt~~k~~~~~~l~~~~~ge~dILiGT 541 (730)
T COG1198 462 QLRCHYCGYQEPIPQSCPECGSEHLRAVGPGTERIEEELKRLFPGARIIRIDSDTTRRKGALEDLLDQFANGEADILIGT 541 (730)
T ss_pred eeEeCCCCCCCCCCCCCCCCCCCeeEEecccHHHHHHHHHHHCCCCcEEEEccccccchhhHHHHHHHHhCCCCCeeecc
Confidence 00000000 0 000 000000 001111111 122333444 345777777776543 3567889999999999999
Q ss_pred ccccccCCCCCceEE--eecCC--CCCcccC----cccccccccccCCCCCCCceEEEEEeChhh
Q 000107 877 STLAAGVNLPARRVI--FRQPR--IGRDFID----GTRYRQMAGRAGRTGIDTKGESMLICKPEE 933 (2191)
Q Consensus 877 stLa~GVNLPav~VV--I~~p~--~g~~~is----~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e 933 (2191)
.+++.|.|+|+++.| ++.+. ...++-. ...+.|-+|||||.+ ..|++++-+...+
T Consensus 542 QmiaKG~~fp~vtLVgvl~aD~~L~~~DfRA~Er~fqll~QvaGRAgR~~--~~G~VvIQT~~P~ 604 (730)
T COG1198 542 QMIAKGHDFPNVTLVGVLDADTGLGSPDFRASERTFQLLMQVAGRAGRAG--KPGEVVIQTYNPD 604 (730)
T ss_pred hhhhcCCCcccceEEEEEechhhhcCCCcchHHHHHHHHHHHHhhhccCC--CCCeEEEEeCCCC
Confidence 999999999998865 44321 1112212 235689999999997 6899998876544
No 128
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=99.64 E-value=2.1e-14 Score=195.02 Aligned_cols=326 Identities=17% Similarity=0.189 Sum_probs=197.0
Q ss_pred CCCHHHHHhhhhcccc----cCCeEEEEcCCCCchhHHHHHHHHHHHHh---cCCEEEEEchhHHHHHHHHHHHHHHhhc
Q 000107 524 KLYPWQVECLHVDGVL----QRRNLVYCASTSAGKSFVAEILMLRRLIS---TGKMALLVLPYVSICAEKAEHLEVLLEP 596 (2191)
Q Consensus 524 ~l~p~Q~eal~~~~il----~gknlIi~APTGSGKTlvael~iL~~ll~---~g~kaL~I~P~raLA~q~~~~l~~l~~~ 596 (2191)
+|+++|.+.+.. +. .|.+.|++-..|.|||+.+...+ ..+.. ..+.+|||+|. ++..+..+++.+++.
T Consensus 169 ~Lr~YQleGlnW--Li~l~~~g~gGILADEMGLGKTlQaIalL-~~L~~~~~~~gp~LIVvP~-SlL~nW~~Ei~kw~p- 243 (1033)
T PLN03142 169 KMRDYQLAGLNW--LIRLYENGINGILADEMGLGKTLQTISLL-GYLHEYRGITGPHMVVAPK-STLGNWMNEIRRFCP- 243 (1033)
T ss_pred chHHHHHHHHHH--HHHHHhcCCCEEEEeCCCccHHHHHHHHH-HHHHHhcCCCCCEEEEeCh-HHHHHHHHHHHHHCC-
Confidence 789999999976 32 57889999999999999875433 33332 23578999996 666788888888764
Q ss_pred cCCeEEEEeccCCCC-------CCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHH
Q 000107 597 LGRHVRSYYGNQGGG-------SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTK 669 (2191)
Q Consensus 597 lg~~V~~~~G~~~~~-------~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~k 669 (2191)
.+++..++|..... ......+|+|+|++.+..-...+. --..++|||||+|.|-.. ...+-..+..
T Consensus 244 -~l~v~~~~G~~~eR~~~~~~~~~~~~~dVvITSYe~l~~e~~~L~----k~~W~~VIvDEAHrIKN~--~Sklskalr~ 316 (1033)
T PLN03142 244 -VLRAVKFHGNPEERAHQREELLVAGKFDVCVTSFEMAIKEKTALK----RFSWRYIIIDEAHRIKNE--NSLLSKTMRL 316 (1033)
T ss_pred -CCceEEEeCCHHHHHHHHHHHhcccCCCcceecHHHHHHHHHHhc----cCCCCEEEEcCccccCCH--HHHHHHHHHH
Confidence 35667777764321 123457899999998654332221 124689999999998753 2222233333
Q ss_pred HHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccC-C-CHHHHHHH---hhcccccc------------------
Q 000107 670 LRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATM-P-NVAAVADW---LQAALYET------------------ 726 (2191)
Q Consensus 670 Lr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL-~-N~~~la~w---L~a~l~~~------------------ 726 (2191)
++ ....++||+|. . |+.++... |...+|..
T Consensus 317 L~---------------------------a~~RLLLTGTPlqNnl~ELwsLL~FL~P~~f~s~~~F~~~f~~~~~~~~~e 369 (1033)
T PLN03142 317 FS---------------------------TNYRLLITGTPLQNNLHELWALLNFLLPEIFSSAETFDEWFQISGENDQQE 369 (1033)
T ss_pred hh---------------------------cCcEEEEecCCCCCCHHHHHHHHhcCCCCcCCCHHHHHHHHccccccchHH
Confidence 31 12458899994 2 35554433 32221110
Q ss_pred -------cccc-------------cc--ceEEEEecccc-----ccch--------------h---hHHHHHHHhhc---
Q 000107 727 -------NFRP-------------VP--LEEYIKVGNAI-----YSKK--------------M---DVVRTILTAAN--- 759 (2191)
Q Consensus 727 -------~~Rp-------------vp--L~e~i~~~~~~-----~~~~--------------~---~~~r~l~~~~~--- 759 (2191)
..+| .| .+..+.+.... |... . ..+..+.....
T Consensus 370 ~i~~L~~~L~pf~LRR~KsdV~~~LPpK~e~iv~v~LS~~Qk~lY~~ll~k~~~~l~~g~~~~~LlnilmqLRk~cnHP~ 449 (1033)
T PLN03142 370 VVQQLHKVLRPFLLRRLKSDVEKGLPPKKETILKVGMSQMQKQYYKALLQKDLDVVNAGGERKRLLNIAMQLRKCCNHPY 449 (1033)
T ss_pred HHHHHHHHhhHHHhhhhHHHHhhhCCCceeEEEeeCCCHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhCCHH
Confidence 0001 11 11111111110 0000 0 00000000000
Q ss_pred c------------------CCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhH
Q 000107 760 L------------------GGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDIT 821 (2191)
Q Consensus 760 ~------------------~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~ 821 (2191)
+ .......+..++..+...+.+||||+........+. .++..
T Consensus 450 L~~~~ep~~~~~~~e~lie~SgKl~lLdkLL~~Lk~~g~KVLIFSQft~~LdiLe----d~L~~---------------- 509 (1033)
T PLN03142 450 LFQGAEPGPPYTTGEHLVENSGKMVLLDKLLPKLKERDSRVLIFSQMTRLLDILE----DYLMY---------------- 509 (1033)
T ss_pred hhhcccccCcccchhHHhhhhhHHHHHHHHHHHHHhcCCeEEeehhHHHHHHHHH----HHHHH----------------
Confidence 0 001111233444445556778888887554333222 22211
Q ss_pred HHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhc---CCceEEEecccccccCCCCCceEEeecCCCC
Q 000107 822 SAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRK---GLVRVLTATSTLAAGVNLPARRVIFRQPRIG 898 (2191)
Q Consensus 822 ~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~---G~ikVLVATstLa~GVNLPav~VVI~~p~~g 898 (2191)
..++...+||+++..+|..+++.|.. +..-+|++|...+.||||...++||.++..
T Consensus 510 --------------------~g~~y~rIdGsts~~eRq~~Id~Fn~~~s~~~VfLLSTrAGGlGINLt~Ad~VIiyD~d- 568 (1033)
T PLN03142 510 --------------------RGYQYCRIDGNTGGEDRDASIDAFNKPGSEKFVFLLSTRAGGLGINLATADIVILYDSD- 568 (1033)
T ss_pred --------------------cCCcEEEECCCCCHHHHHHHHHHhccccCCceEEEEeccccccCCchhhCCEEEEeCCC-
Confidence 23447779999999999999999975 334678999999999999998888865543
Q ss_pred CcccCcccccccccccCCCCCCCceEEEEEeChh
Q 000107 899 RDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPE 932 (2191)
Q Consensus 899 ~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~ 932 (2191)
.++....|++||+-|.|....-.+|.|+...
T Consensus 569 ---WNP~~d~QAidRaHRIGQkk~V~VyRLIt~g 599 (1033)
T PLN03142 569 ---WNPQVDLQAQDRAHRIGQKKEVQVFRFCTEY 599 (1033)
T ss_pred ---CChHHHHHHHHHhhhcCCCceEEEEEEEeCC
Confidence 4888999999999999988777778777764
No 129
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative. This model represents a family of proteins in Gram-positive bacteria. The N-terminal region of about 200 amino acids resembles the epsilon subunit of E. coli DNA polymerase III and the homologous region of the Gram-positive type DNA polymerase III alpha subunit. The epsilon subunit contains an exonuclease domain. The remainder of this protein family resembles a predicted ATP-dependent helicase, the DNA damage-inducible protein DinG of E. coli.
Probab=99.60 E-value=1.6e-13 Score=189.23 Aligned_cols=95 Identities=19% Similarity=0.152 Sum_probs=70.3
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhh--cccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHH
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHV--DGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEK 586 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~--~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~ 586 (2191)
+.+.+...+...||+ ++|.|.+.+.. ..+.+++++++.||||+|||++|++|++.... .++++||.+||++|..|.
T Consensus 231 ~~~~~~~~~~~~~~~-~r~~Q~~~~~~i~~~~~~~~~~~~eA~TG~GKT~ayLlp~~~~~~-~~~~vvi~t~t~~Lq~Ql 308 (850)
T TIGR01407 231 LSSLFSKNIDRLGLE-YRPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLGYLLPALYYAI-TEKPVVISTNTKVLQSQL 308 (850)
T ss_pred ccHHHHHhhhhcCCc-cCHHHHHHHHHHHHHhccCCcEEEECCCCCchhHHHHHHHHHHhc-CCCeEEEEeCcHHHHHHH
Confidence 334566677778885 88999975541 23567899999999999999999999987665 678999999999999998
Q ss_pred HH-HHHHHhhccC--CeEEEEe
Q 000107 587 AE-HLEVLLEPLG--RHVRSYY 605 (2191)
Q Consensus 587 ~~-~l~~l~~~lg--~~V~~~~ 605 (2191)
+. .+..+...++ +++..+.
T Consensus 309 ~~~~~~~l~~~~~~~~~~~~~k 330 (850)
T TIGR01407 309 LEKDIPLLNEILNFKINAALIK 330 (850)
T ss_pred HHHHHHHHHHHcCCCceEEEEE
Confidence 65 4544433333 4444333
No 130
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=99.59 E-value=2e-14 Score=181.25 Aligned_cols=415 Identities=18% Similarity=0.212 Sum_probs=249.2
Q ss_pred cccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCC----EEEEEchhHHHHHHHHHHH-HHHhhccCCeEEEEeccCCCCC
Q 000107 538 VLQRRNLVYCASTSAGKSFVAEILMLRRLISTGK----MALLVLPYVSICAEKAEHL-EVLLEPLGRHVRSYYGNQGGGS 612 (2191)
Q Consensus 538 il~gknlIi~APTGSGKTlvael~iL~~ll~~g~----kaL~I~P~raLA~q~~~~l-~~l~~~lg~~V~~~~G~~~~~~ 612 (2191)
+.++..++|-+.||+|||..++..||..++..+. .+++..|++..+..+++++ ++.....|-.|+ |..+....
T Consensus 390 v~dn~v~~I~getgcgk~tq~aq~iLe~~~~ns~g~~~na~v~qprrisaisiaerva~er~e~~g~tvg--y~vRf~Sa 467 (1282)
T KOG0921|consen 390 VAENRVVIIKGETGCGKSTQVAQFLLESFLENSNGASFNAVVSQPRRISAISLAERVANERGEEVGETCG--YNVRFDSA 467 (1282)
T ss_pred HhcCceeeEeecccccchhHHHHHHHHHHhhccccccccceeccccccchHHHHHHHHHhhHHhhccccc--cccccccc
Confidence 6678999999999999999999999999987542 5777889999998888877 334444443332 22222222
Q ss_pred CC-CCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCC
Q 000107 613 LP-KDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSS 691 (2191)
Q Consensus 613 l~-~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~ 691 (2191)
.+ +.-.|.+||-|-+.+... .-+..+.++|+||+|+ |...-+.++..++.+..
T Consensus 468 ~prpyg~i~fctvgvllr~~e-----~glrg~sh~i~deihe-----rdv~~dfll~~lr~m~~---------------- 521 (1282)
T KOG0921|consen 468 TPRPYGSIMFCTVGVLLRMME-----NGLRGISHVIIDEIHE-----RDVDTDFVLIVLREMIS---------------- 521 (1282)
T ss_pred ccccccceeeeccchhhhhhh-----hcccccccccchhhhh-----hccchHHHHHHHHhhhc----------------
Confidence 22 234799999998655443 2567889999999999 55555666666665542
Q ss_pred CCCCCCCCceEEEEeccCCCHHHHHHHhhcccc-cccc----------------------ccccceEEEEeccccc--cc
Q 000107 692 GKADPAHGLQIVGMSATMPNVAAVADWLQAALY-ETNF----------------------RPVPLEEYIKVGNAIY--SK 746 (2191)
Q Consensus 692 ~~~~~~~~iqII~mSATL~N~~~la~wL~a~l~-~~~~----------------------RpvpL~e~i~~~~~~~--~~ 746 (2191)
..+.+++++||||+ |.+.+..+++.-.. .... ++.+.+.+........ +.
T Consensus 522 ----ty~dl~v~lmsatI-dTd~f~~~f~~~p~~~~~grt~pvq~F~led~~~~~~~vp~~~~~~k~k~~~~~~~~~~dd 596 (1282)
T KOG0921|consen 522 ----TYRDLRVVLMSATI-DTDLFTNFFSSIPDVTVHGRTFPVQSFFLEDIIQMTQFVPSEPSQKKRKKDDDEEDEEVDD 596 (1282)
T ss_pred ----cchhhhhhhhhccc-chhhhhhhhccccceeeccccccHHHHHHHHhhhhhhccCCCcCccchhhcccccCchhhh
Confidence 24678899999998 55666666652110 0011 1111111110000000 00
Q ss_pred h---hhHH-----HHHHHhhccCCCCh----hHHHHHHHHHHhc--CCcEEEEeCchhHHHHHHHHHHHHHhhcccccCC
Q 000107 747 K---MDVV-----RTILTAANLGGKDP----DHIVELCDEVVQE--GHSVLIFCSSRKGCESTARHVSKFLKKFSINVHS 812 (2191)
Q Consensus 747 ~---~~~~-----r~l~~~~~~~~~d~----d~l~~Ll~e~~~~--g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~ 812 (2191)
+ ...+ .............. ..+..++.....+ .+-++||.+.-.....+...+..+-.
T Consensus 597 K~~n~n~~~dd~~~~~~~~am~~~se~d~~f~l~Eal~~~i~s~~i~gailvflpgwa~i~~L~~~ll~~~~-------- 668 (1282)
T KOG0921|consen 597 KGRNMNILCDPSYNESTRTAMSRLSEKDIPFGLIEALLNDIASRNIDGAVLVFLPGWAEIMTLCNRLLEHQE-------- 668 (1282)
T ss_pred cccccccccChhhcchhhhhhhcchhhcchhHHHHHHHhhhcccCCccceeeecCchHHhhhhhhhhhhhhh--------
Confidence 0 0000 00000000000111 1122222222222 26799999987666555555533211
Q ss_pred CCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEe
Q 000107 813 SDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIF 892 (2191)
Q Consensus 813 ~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI 892 (2191)
...+-.+-+...|+-++..++..|++....|..++|+.|.+++..+.+.++++||
T Consensus 669 -------------------------fg~~~~y~ilp~Hsq~~~~eqrkvf~~~p~gv~kii~stniaetsiTidd~v~vi 723 (1282)
T KOG0921|consen 669 -------------------------FGQANKYEILPLHSQLTSQEQRKVFEPVPEGVTKIILSTNIAETSITIDDVVYVI 723 (1282)
T ss_pred -------------------------hccchhcccccchhhcccHhhhhccCcccccccccccccceeeEeeeecceeEEE
Confidence 1112234477789999999999999999999999999999999999999988887
Q ss_pred ecCC--------------CCCcccCcccccccccccCCCCCCCceEEEEEeChhhHHHHHhhhccCCCCcccccccccch
Q 000107 893 RQPR--------------IGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEEVKKIMGLLNESCPPLHSCLSEDKNG 958 (2191)
Q Consensus 893 ~~p~--------------~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~~~ll~~~l~~l~S~L~~~~~~ 958 (2191)
+... ..+.|.+.....||.||+||.. +|.|+.+|....+..+.+-..+.+... -|+ .
T Consensus 724 d~cka~~~~~~s~nn~~~~Atvw~sktn~eqr~gr~grvR---~G~~f~lcs~arF~~l~~~~t~em~r~--plh----e 794 (1282)
T KOG0921|consen 724 DSCKAKEKLFTSHNNMTHYATVWASKTNLEQRKGRAGRVR---PGFCFHLCSRARFEALEDHGTAEMFRT--PLH----E 794 (1282)
T ss_pred eeeeeeeeeeccccceeeeeeecccccchHhhcccCceec---ccccccccHHHHHHHHHhcCcHhhhcC--ccH----H
Confidence 6432 2234677788899999999986 899999999876666554433332211 111 1
Q ss_pred hhHHHHHHHhcccccCHHHHHHHHHhhhcCCCCcchhHHHHHHHHHHHHHHcccceeccCCCccCCCHHHHHHHhcCCCh
Q 000107 959 MTHAILEVVAGGIVQTAEDIHRYVRCTLLNSTKPFQDVVKSAQDSLRWLCHRKFLEWNEDTKLYSTTPLGRAAFGSSLCP 1038 (2191)
Q Consensus 959 l~~~iLeiia~gi~~t~~di~~~l~~tll~~~~~~~~~~~~~~~al~~L~~~~~i~~~~~~~~~~~T~LG~a~~~s~L~p 1038 (2191)
|...++-++++ .|..|+...+-.++ .+.+.++=..|...+.+..+ -..|+||+..++.++-|
T Consensus 795 malTikll~l~-------SI~~fl~kal~~~p------~dav~e~e~~l~~m~~ld~n-----~elt~lg~~la~l~iep 856 (1282)
T KOG0921|consen 795 IALTIKLLRLG-------SIGEFLGKALQPPP------YDAVIEAEAVLREMGALDAN-----DELTPLGRMLARLPIEP 856 (1282)
T ss_pred HHhhHHHHHhh-------hHHHHHhhccCCCc------hhhccCchHHHHHhhhhhcc-----CcccchhhhhhhccCcc
Confidence 22222222222 35555544432221 12233333345555665433 25899999999999999
Q ss_pred hhHHHHH
Q 000107 1039 EESLIVL 1045 (2191)
Q Consensus 1039 ~~a~~l~ 1045 (2191)
..+++++
T Consensus 857 ~~~k~~~ 863 (1282)
T KOG0921|consen 857 RIGKMMI 863 (1282)
T ss_pred cccceee
Confidence 8666543
No 131
>KOG0953 consensus Mitochondrial RNA helicase SUV3, DEAD-box superfamily [RNA processing and modification]
Probab=99.59 E-value=1.2e-14 Score=177.18 Aligned_cols=293 Identities=23% Similarity=0.316 Sum_probs=195.5
Q ss_pred cCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCC--CCC
Q 000107 540 QRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLP--KDT 617 (2191)
Q Consensus 540 ~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~--~~~ 617 (2191)
..+-++-+|||.||||.-|+ +++. .-++.+|.-|.|.||.|+++++.+. |+.+..++|........ ..+
T Consensus 190 ~RkIi~H~GPTNSGKTy~AL----qrl~-~aksGvycGPLrLLA~EV~~r~na~----gipCdL~TGeE~~~~~~~~~~a 260 (700)
T KOG0953|consen 190 RRKIIMHVGPTNSGKTYRAL----QRLK-SAKSGVYCGPLRLLAHEVYDRLNAL----GIPCDLLTGEERRFVLDNGNPA 260 (700)
T ss_pred hheEEEEeCCCCCchhHHHH----HHHh-hhccceecchHHHHHHHHHHHhhhc----CCCccccccceeeecCCCCCcc
Confidence 45677889999999997764 4443 3667899999999999999888765 77777777764322221 236
Q ss_pred ceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCC
Q 000107 618 SVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPA 697 (2191)
Q Consensus 618 ~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~ 697 (2191)
..+=||-|++.- -..+++.||||++||.|..||..+...|--+. .
T Consensus 261 ~hvScTVEM~sv----------~~~yeVAViDEIQmm~Dp~RGwAWTrALLGl~-------------------------A 305 (700)
T KOG0953|consen 261 QHVSCTVEMVSV----------NTPYEVAVIDEIQMMRDPSRGWAWTRALLGLA-------------------------A 305 (700)
T ss_pred cceEEEEEEeec----------CCceEEEEehhHHhhcCcccchHHHHHHHhhh-------------------------h
Confidence 788899887421 12468999999999999999988876554331 1
Q ss_pred CCceEEEEeccCCCHHHHHHHhhccccccc-cccccceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHH
Q 000107 698 HGLQIVGMSATMPNVAAVADWLQAALYETN-FRPVPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVV 776 (2191)
Q Consensus 698 ~~iqII~mSATL~N~~~la~wL~a~l~~~~-~RpvpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~ 776 (2191)
..+.+.|==|-++=++++.+-.|..+-... .|-.||.. .+.+..-+.. +
T Consensus 306 dEiHLCGepsvldlV~~i~k~TGd~vev~~YeRl~pL~v-----------------------------~~~~~~sl~n-l 355 (700)
T KOG0953|consen 306 DEIHLCGEPSVLDLVRKILKMTGDDVEVREYERLSPLVV-----------------------------EETALGSLSN-L 355 (700)
T ss_pred hhhhccCCchHHHHHHHHHhhcCCeeEEEeecccCccee-----------------------------hhhhhhhhcc-C
Confidence 234555544444334444444433221100 11111100 0011111111 1
Q ss_pred hcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHH
Q 000107 777 QEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVE 856 (2191)
Q Consensus 777 ~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~ 856 (2191)
. .+.|+| |-||+..-.+...|.+... ..++.+||+|+++
T Consensus 356 k-~GDCvV-~FSkk~I~~~k~kIE~~g~---------------------------------------~k~aVIYGsLPPe 394 (700)
T KOG0953|consen 356 K-PGDCVV-AFSKKDIFTVKKKIEKAGN---------------------------------------HKCAVIYGSLPPE 394 (700)
T ss_pred C-CCCeEE-EeehhhHHHHHHHHHHhcC---------------------------------------cceEEEecCCCCc
Confidence 2 345655 5677877777766654321 1288899999999
Q ss_pred HHHHHHHHhhc--CCceEEEecccccccCCCCCceEEeecCC----CCCcccCcccccccccccCCCCCC-CceEEEEEe
Q 000107 857 EREVVETCYRK--GLVRVLTATSTLAAGVNLPARRVIFRQPR----IGRDFIDGTRYRQMAGRAGRTGID-TKGESMLIC 929 (2191)
Q Consensus 857 eR~~Ve~~Fr~--G~ikVLVATstLa~GVNLPav~VVI~~p~----~g~~~is~~~y~QmiGRAGR~G~d-~~Ge~ill~ 929 (2191)
.|..--..|.+ +..+|||||+...+|+|+.-+|||+.+-. .....++..+.+|.+|||||.|-. ..|++..+.
T Consensus 395 Tr~aQA~~FNd~~~e~dvlVAsDAIGMGLNL~IrRiiF~sl~Kysg~e~~~it~sqikQIAGRAGRf~s~~~~G~vTtl~ 474 (700)
T KOG0953|consen 395 TRLAQAALFNDPSNECDVLVASDAIGMGLNLNIRRIIFYSLIKYSGRETEDITVSQIKQIAGRAGRFGSKYPQGEVTTLH 474 (700)
T ss_pred hhHHHHHHhCCCCCccceEEeecccccccccceeEEEEeecccCCcccceeccHHHHHHHhhcccccccCCcCceEEEee
Confidence 99999999987 89999999999999999999999986432 223467888999999999998732 467766664
Q ss_pred ChhhHHHHHhhhccCCCCc
Q 000107 930 KPEEVKKIMGLLNESCPPL 948 (2191)
Q Consensus 930 ~~~e~~~~~~ll~~~l~~l 948 (2191)
.+++..+.+.|+.+.+|+
T Consensus 475 -~eDL~~L~~~l~~p~epi 492 (700)
T KOG0953|consen 475 -SEDLKLLKRILKRPVEPI 492 (700)
T ss_pred -HhhHHHHHHHHhCCchHH
Confidence 456777788888776654
No 132
>KOG4150 consensus Predicted ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.59 E-value=5.8e-15 Score=177.78 Aligned_cols=354 Identities=16% Similarity=0.078 Sum_probs=233.5
Q ss_pred HHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHh-cCCEEEEEchhHHHHHHHHHHH
Q 000107 512 EICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIS-TGKMALLVLPYVSICAEKAEHL 590 (2191)
Q Consensus 512 ~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~-~g~kaL~I~P~raLA~q~~~~l 590 (2191)
.+.+.|..+--+..+.+|.++|.. +.+|+++++.-.|.+||++++.++....... .....+|+.|++++++...+.+
T Consensus 274 ~~~~~~~~~~~E~~~~~~~~~~~~--~~~G~~~~~~~~~~~GK~~~~~~~s~~~~~~~~~s~~~~~~~~~~~~~~~~~~~ 351 (1034)
T KOG4150|consen 274 SIRSLLNKNTGESGIAISLELLKF--ASEGRADGGNEARQAGKGTCPTSGSRKFQTLCHATNSLLPSEMVEHLRNGSKGQ 351 (1034)
T ss_pred HHHHHHhcccccchhhhhHHHHhh--hhhcccccccchhhcCCccCcccchhhhhhcCcccceecchhHHHHhhccCCce
Confidence 344566666667889999999987 7899999999999999999999887765543 4557899999999988754322
Q ss_pred HHHhhc---cC-CeEEEEeccCCCC---CCCCCCceEEEchHHHHHHH--HHhhhcCCCCccceEEEcccccccccchhH
Q 000107 591 EVLLEP---LG-RHVRSYYGNQGGG---SLPKDTSVAVCTIEKANSLV--NRMLEEGRLSEIGIIVIDELHMVADQNRGY 661 (2191)
Q Consensus 591 ~~l~~~---lg-~~V~~~~G~~~~~---~l~~~~~IiV~TpEkl~~Ll--~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~ 661 (2191)
.-.+.. .. --|..+-|..... ....+.+++++.|..+..-+ +++--...+-+..++++||+|..... +|.
T Consensus 352 ~V~~~~I~~~K~A~V~~~D~~sE~~~~A~~R~~~~~~~s~~~~~~s~~L~~~~~~~~~~~~~~~~~~~~~~~Y~~~-~~~ 430 (1034)
T KOG4150|consen 352 VVHVEVIKARKSAYVEMSDKLSETTKSALKRIGLNTLYSHQAEAISAALAKSLCYNVPVFEELCKDTNSCALYLFP-TKA 430 (1034)
T ss_pred EEEEEehhhhhcceeecccCCCchhHHHHHhcCcceeecCHHHHHHHHhhhccccccHHHHHHHhcccceeeeecc-hhh
Confidence 111110 11 1122222222111 13346789999998865432 21111123456789999999997754 676
Q ss_pred HHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHH-HHHhh---ccccccccccccceEEE
Q 000107 662 LLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAV-ADWLQ---AALYETNFRPVPLEEYI 737 (2191)
Q Consensus 662 ~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~l-a~wL~---a~l~~~~~RpvpL~e~i 737 (2191)
.....+.+|..+... ++ .+.++|++-.|||+.+.-.+ .+..+ ..++..+.-|..-+.++
T Consensus 431 ~~~~~~R~L~~L~~~-------F~----------~~~~~~~~~~~~~~K~~~~~~~~~~~~~E~~Li~~DGSPs~~K~~V 493 (1034)
T KOG4150|consen 431 LAQDQLRALSDLIKG-------FE----------ASINMGVYDGDTPYKDRTRLRSELANLSELELVTIDGSPSSEKLFV 493 (1034)
T ss_pred HHHHHHHHHHHHHHH-------HH----------hhcCcceEeCCCCcCCHHHHHHHhcCCcceEEEEecCCCCccceEE
Confidence 666666666544321 00 13578999999999864333 33333 23455566666555554
Q ss_pred EeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchh
Q 000107 738 KVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEF 817 (2191)
Q Consensus 738 ~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~ 817 (2191)
.............. .........++.+.+..+-.+|.||++|+-||.+.....+.+...+.
T Consensus 494 ~WNP~~~P~~~~~~----------~~~i~E~s~~~~~~i~~~~R~IAFC~~R~~CEL~~~~~R~I~~ET~~--------- 554 (1034)
T KOG4150|consen 494 LWNPSAPPTSKSEK----------SSKVVEVSHLFAEMVQHGLRCIAFCPSRKLCELVLCLTREILAETAP--------- 554 (1034)
T ss_pred EeCCCCCCcchhhh----------hhHHHHHHHHHHHHHHcCCcEEEeccHHHHHHHHHHHHHHHHHHhhH---------
Confidence 43333222111100 01111234566677778899999999999999888777665532211
Q ss_pred hhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecCCC
Q 000107 818 IDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRI 897 (2191)
Q Consensus 818 ~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~~ 897 (2191)
.++.+ |..+.||-..++|+.||...-.|++.-+|||+.|+-||||....-|+..+++
T Consensus 555 ----~LV~~-------------------i~SYRGGY~A~DRRKIE~~~F~G~L~giIaTNALELGIDIG~LDAVl~~GFP 611 (1034)
T KOG4150|consen 555 ----HLVEA-------------------ITSYRGGYIAEDRRKIESDLFGGKLCGIIATNALELGIDIGHLDAVLHLGFP 611 (1034)
T ss_pred ----HHHHH-------------------HHhhcCccchhhHHHHHHHhhCCeeeEEEecchhhhccccccceeEEEccCc
Confidence 11111 3347899999999999999999999999999999999999999999987776
Q ss_pred CCcccCcccccccccccCCCCCCCceEEEEEeCh
Q 000107 898 GRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKP 931 (2191)
Q Consensus 898 g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~ 931 (2191)
+ |.+.+.|..|||||...+.....+....+
T Consensus 612 ~----S~aNl~QQ~GRAGRRNk~SLavyva~~~P 641 (1034)
T KOG4150|consen 612 G----SIANLWQQAGRAGRRNKPSLAVYVAFLGP 641 (1034)
T ss_pred h----hHHHHHHHhccccccCCCceEEEEEeccc
Confidence 6 99999999999999984444333333334
No 133
>cd06140 DNA_polA_I_Bacillus_like_exo inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases. Bacillus stearothermophilus-like Polymerase I (Pol I), a subgroup of the family-A DNA polymerases, contains an inactive DnaQ-like 3'-5' exonuclease domain in the same polypeptide chain as the polymerase region. The exonuclease-like domain of these proteins possess the same fold as the Klenow fragment (KF) of Escherichia coli Pol I, but does not contain the four critical metal-binding residues necessary for activity. The function of this domain is unknown. It might act as a spacer between the polymerase and the 5'-3' exonuclease domains. Some members of this subgroup, such as those from Bacillus sphaericus and Thermus aquaticus, are thermostable DNA polymerases.
Probab=99.57 E-value=4.9e-14 Score=159.55 Aligned_cols=170 Identities=21% Similarity=0.276 Sum_probs=124.4
Q ss_pred CeEEEEeeccCCcccCCCccceEEEEEEEEeCCcEEEEeCCCCcccccccccchhccCCCCCCCCChhhHHHHHHHHHHH
Q 000107 1509 HEFYFDIHYDKHSEANSGVLFEIHGLAVCWENSPVYYVNLPKDLWSDHRRKDRFLIYGSSDKNVLTPEHQLEMIKQRWKR 1588 (2191)
Q Consensus 1509 ~~~afD~e~~~~~~~~s~~~~~i~Gia~~~~~~~ayYi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1588 (2191)
...++++++.+.. ...-.+.|++++.++ .+||+++.+.. ..+..
T Consensus 4 ~~~~~~~~~~~~~----~~~~~l~~i~l~~~~-~~~~i~~~~~~-------------------------------~~~~~ 47 (178)
T cd06140 4 DEVALYVELLGEN----YHTADIIGLALANGG-GAYYIPLELAL-------------------------------LDLAA 47 (178)
T ss_pred CceEEEEEEcCCC----cceeeEEEEEEEeCC-cEEEEeccchH-------------------------------HHHHH
Confidence 4567888876431 222368999999765 68898854210 02345
Q ss_pred HHHhhccCCccEEEechHHHHHHHHhcCcccccccCccccccccccccccccccccccCCCCccchHHHHHHhcCCCCCC
Q 000107 1589 IGEIMEKRDVRKFTWNMKVQIQVLKHAAVSIQRFGGLNLVGTSLGLENVGSSFLLLSPVHLKDGIDMCIVSWILWPDDER 1668 (2191)
Q Consensus 1589 L~~lLe~~~v~kv~hNlK~dl~vL~~~gi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~lAawLL~P~~~~ 1668 (2191)
++++|+++++.|++||+|++++.|.++|+.+++. .||||||+|||+|+..+
T Consensus 48 l~~~l~~~~~~ki~~d~K~~~~~l~~~gi~~~~~-----------------------------~fDt~laaYLL~p~~~~ 98 (178)
T cd06140 48 LKEWLEDEKIPKVGHDAKRAYVALKRHGIELAGV-----------------------------AFDTMLAAYLLDPTRSS 98 (178)
T ss_pred HHHHHhCCCCceeccchhHHHHHHHHCCCcCCCc-----------------------------chhHHHHHHHcCCCCCC
Confidence 7889999999999999999999999988876642 59999999999998655
Q ss_pred CCchhHHHHHHHhhChHH---HHHhhccCc-hhhhhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHH
Q 000107 1669 SSNPNLEKEVKKRLSSEA---AAAANRSGR-WKNQMRRAAHNGCCRRVAQTRALCSVLWKLLVSEELIEALLNIEIPLVN 1744 (2191)
Q Consensus 1669 ~~l~~L~~~~~~~l~~e~---~~~~~~~g~-~~~~~~~~~~~ya~~Da~~t~~L~~~L~~~L~~~~L~~l~~~iEmpl~~ 1744 (2191)
++ +..++.++++.+. ....++ |+ +..........|++.++.++++|+..|+++|+++++.++|.+||||+++
T Consensus 99 ~~---l~~l~~~yl~~~~~~~~~~~~~-~~~~~~~~~~~~~~y~~~~a~~l~~l~~~l~~~L~~~~l~~L~~~iE~PL~~ 174 (178)
T cd06140 99 YD---LADLAKRYLGRELPSDEEVYGK-GAKFAVPDEEVLAEHLARKAAAIARLAPKLEEELEENEQLELYYEVELPLAE 174 (178)
T ss_pred CC---HHHHHHHHcCCCCcchHHhcCC-CCCcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHhhHHH
Confidence 65 5555666665442 112211 11 1111123356699999999999999999999999999999999999999
Q ss_pred HHH
Q 000107 1745 VLA 1747 (2191)
Q Consensus 1745 vLa 1747 (2191)
||+
T Consensus 175 VL~ 177 (178)
T cd06140 175 VLA 177 (178)
T ss_pred Hhc
Confidence 996
No 134
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=99.57 E-value=1.3e-13 Score=176.56 Aligned_cols=319 Identities=13% Similarity=0.140 Sum_probs=188.5
Q ss_pred CCCCHHHHHhhhh--cccccC-CeEEEEcCCCCchhHHHHHHHHHHHHhc--CCEEEEEchhHHHHHHHHHHHHHHhhcc
Q 000107 523 SKLYPWQVECLHV--DGVLQR-RNLVYCASTSAGKSFVAEILMLRRLIST--GKMALLVLPYVSICAEKAEHLEVLLEPL 597 (2191)
Q Consensus 523 ~~l~p~Q~eal~~--~~il~g-knlIi~APTGSGKTlvael~iL~~ll~~--g~kaL~I~P~raLA~q~~~~l~~l~~~l 597 (2191)
..++.+|..||.. .++.+| +.+++++.||+|||.+|.. |+.++++. -+++|+++-+++|+.|.+..+..++..
T Consensus 164 i~~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTAia-ii~rL~r~~~~KRVLFLaDR~~Lv~QA~~af~~~~P~- 241 (875)
T COG4096 164 IGPRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTAIA-IIDRLIKSGWVKRVLFLADRNALVDQAYGAFEDFLPF- 241 (875)
T ss_pred ccchHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeHHH-HHHHHHhcchhheeeEEechHHHHHHHHHHHHHhCCC-
Confidence 3678899999874 123333 5699999999999999854 45555543 469999999999999999888776543
Q ss_pred CCeEEEEeccCCCCCCCCCCceEEEchHHHHHHHHHh-hhc--CCCCccceEEEcccccccccchhHHHHHHHHHHHHhh
Q 000107 598 GRHVRSYYGNQGGGSLPKDTSVAVCTIEKANSLVNRM-LEE--GRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAA 674 (2191)
Q Consensus 598 g~~V~~~~G~~~~~~l~~~~~IiV~TpEkl~~Ll~~l-~~~--~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~ 674 (2191)
+-.+....+.. ....++|.|+|+..+...+..- -.. .....+++|||||+|.= .-.....++.-+--
T Consensus 242 ~~~~n~i~~~~----~~~s~~i~lsTyqt~~~~~~~~~~~~~~f~~g~FDlIvIDEaHRg----i~~~~~~I~dYFdA-- 311 (875)
T COG4096 242 GTKMNKIEDKK----GDTSSEIYLSTYQTMTGRIEQKEDEYRRFGPGFFDLIVIDEAHRG----IYSEWSSILDYFDA-- 311 (875)
T ss_pred ccceeeeeccc----CCcceeEEEeehHHHHhhhhccccccccCCCCceeEEEechhhhh----HHhhhHHHHHHHHH--
Confidence 43443333322 2236799999999987776542 111 22455899999999972 22334455555522
Q ss_pred cCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCCHHHH--HHHh-hcccc------------ccccccccceEEEEe
Q 000107 675 GEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPNVAAV--ADWL-QAALY------------ETNFRPVPLEEYIKV 739 (2191)
Q Consensus 675 ~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N~~~l--a~wL-~a~l~------------~~~~RpvpL~e~i~~ 739 (2191)
-+++++||+.+..+. ..++ |...+ -..++++.+...+..
T Consensus 312 --------------------------~~~gLTATP~~~~d~~T~~~F~g~Pt~~YsleeAV~DGfLvpy~vi~i~~~~~~ 365 (875)
T COG4096 312 --------------------------ATQGLTATPKETIDRSTYGFFNGEPTYAYSLEEAVEDGFLVPYKVIRIDTDFDL 365 (875)
T ss_pred --------------------------HHHhhccCcccccccccccccCCCcceeecHHHHhhccccCCCCceEEeeeccc
Confidence 235569997542222 2333 32211 112333333333322
Q ss_pred ccccccchhhHHHHHHHhh---------------ccCCCChhHHHHHHHHHHhc------CCcEEEEeCchhHHHHHHHH
Q 000107 740 GNAIYSKKMDVVRTILTAA---------------NLGGKDPDHIVELCDEVVQE------GHSVLIFCSSRKGCESTARH 798 (2191)
Q Consensus 740 ~~~~~~~~~~~~r~l~~~~---------------~~~~~d~d~l~~Ll~e~~~~------g~~vLVF~~Sr~~~e~lA~~ 798 (2191)
++..+....+.....-+.. .......+.+...+.+.+.. -+++||||.+...|+.+...
T Consensus 366 ~G~~~~~~serek~~g~~i~~dd~~~~~~d~dr~~v~~~~~~~V~r~~~~~l~~~~~g~~~~KTIvFa~n~dHAe~i~~~ 445 (875)
T COG4096 366 DGWKPDAGSEREKLQGEAIDEDDQNFEARDFDRTLVIPFRTETVARELTEYLKRGATGDEIGKTIVFAKNHDHAERIREA 445 (875)
T ss_pred cCcCcCccchhhhhhccccCcccccccccccchhccccchHHHHHHHHHHHhccccCCCccCceEEEeeCcHHHHHHHHH
Confidence 2222221110000000000 00012234555556666555 26899999999999999988
Q ss_pred HHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhh-cCCceEEEecc
Q 000107 799 VSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYR-KGLVRVLTATS 877 (2191)
Q Consensus 799 L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr-~G~ikVLVATs 877 (2191)
+.+..+..+... +..+.+.- ...+..|-..+. +.--+|.|+.+
T Consensus 446 ~~~~ype~~~~~-----------------------------------a~~IT~d~-~~~q~~Id~f~~ke~~P~Iaitvd 489 (875)
T COG4096 446 LVNEYPEYNGRY-----------------------------------AMKITGDA-EQAQALIDNFIDKEKYPRIAITVD 489 (875)
T ss_pred HHHhCccccCce-----------------------------------EEEEeccc-hhhHHHHHHHHhcCCCCceEEehh
Confidence 877554321110 22233322 233344444444 34458999999
Q ss_pred cccccCCCCCceEEeecCCCCCcccCcccccccccccCCCCC
Q 000107 878 TLAAGVNLPARRVIFRQPRIGRDFIDGTRYRQMAGRAGRTGI 919 (2191)
Q Consensus 878 tLa~GVNLPav~VVI~~p~~g~~~is~~~y~QmiGRAGR~G~ 919 (2191)
++.+|||+|.+..++ +-...-|...|.||+||+-|.-.
T Consensus 490 lL~TGiDvpev~nlV----F~r~VrSktkF~QMvGRGTRl~~ 527 (875)
T COG4096 490 LLTTGVDVPEVVNLV----FDRKVRSKTKFKQMVGRGTRLCP 527 (875)
T ss_pred hhhcCCCchheeeee----ehhhhhhHHHHHHHhcCccccCc
Confidence 999999999977654 22223388899999999999753
No 135
>TIGR00348 hsdR type I site-specific deoxyribonuclease, HsdR family. Members of this family are assumed to differ from each other in DNA site specificity.
Probab=99.54 E-value=2.1e-13 Score=182.79 Aligned_cols=127 Identities=13% Similarity=0.130 Sum_probs=80.9
Q ss_pred CCHHHHHhhhh--ccccc------CCeEEEEcCCCCchhHHHHHHHHHHHH-hcCCEEEEEchhHHHHHHHHHHHHHHhh
Q 000107 525 LYPWQVECLHV--DGVLQ------RRNLVYCASTSAGKSFVAEILMLRRLI-STGKMALLVLPYVSICAEKAEHLEVLLE 595 (2191)
Q Consensus 525 l~p~Q~eal~~--~~il~------gknlIi~APTGSGKTlvael~iL~~ll-~~g~kaL~I~P~raLA~q~~~~l~~l~~ 595 (2191)
+.+.|.+|+.. ..+.. .+..++..|||||||+++...+...+. ....++|+|+|+.+|..|..+.|..+..
T Consensus 239 ~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~~~~~~vl~lvdR~~L~~Q~~~~f~~~~~ 318 (667)
T TIGR00348 239 QRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALELLKNPKVFFVVDRRELDYQLMKEFQSLQK 318 (667)
T ss_pred hHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHhhcCCCeEEEEECcHHHHHHHHHHHHhhCC
Confidence 56689888864 11222 368999999999999998665543322 2456899999999999999999887643
Q ss_pred ccCCeEEEEeccCCC--CCC-CCCCceEEEchHHHHHHHHHhhhcCCCCcc-ceEEEccccccc
Q 000107 596 PLGRHVRSYYGNQGG--GSL-PKDTSVAVCTIEKANSLVNRMLEEGRLSEI-GIIVIDELHMVA 655 (2191)
Q Consensus 596 ~lg~~V~~~~G~~~~--~~l-~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l-~lVVIDEaH~l~ 655 (2191)
.. +. ..++... +.+ ..+..|+|+|+.++...+...........- .+||+||+|+..
T Consensus 319 ~~---~~-~~~s~~~L~~~l~~~~~~iivtTiQk~~~~~~~~~~~~~~~~~~~lvIvDEaHrs~ 378 (667)
T TIGR00348 319 DC---AE-RIESIAELKRLLEKDDGGIIITTIQKFDKKLKEEEEKFPVDRKEVVVIFDEAHRSQ 378 (667)
T ss_pred CC---Cc-ccCCHHHHHHHHhCCCCCEEEEEhHHhhhhHhhhhhccCCCCCCEEEEEEcCcccc
Confidence 10 10 0011000 011 224689999999987654433222211111 289999999854
No 136
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=99.49 E-value=2.9e-13 Score=153.30 Aligned_cols=163 Identities=31% Similarity=0.423 Sum_probs=121.8
Q ss_pred HcCCCCCCHHHHHhhhhcccccC-CeEEEEcCCCCchhHHHHHHHHHHHHhc-CCEEEEEchhHHHHHHHHHHHHHHhhc
Q 000107 519 KRGISKLYPWQVECLHVDGVLQR-RNLVYCASTSAGKSFVAEILMLRRLIST-GKMALLVLPYVSICAEKAEHLEVLLEP 596 (2191)
Q Consensus 519 ~~Gi~~l~p~Q~eal~~~~il~g-knlIi~APTGSGKTlvael~iL~~ll~~-g~kaL~I~P~raLA~q~~~~l~~l~~~ 596 (2191)
..++..++++|.+++.. +... +++++++|||+|||.++..++++.+... ..+++|++|+++++.|....+...+..
T Consensus 3 ~~~~~~~~~~Q~~~~~~--~~~~~~~~~i~~~~GsGKT~~~~~~~~~~~~~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~ 80 (201)
T smart00487 3 KFGFEPLRPYQKEAIEA--LLSGLRDVILAAPTGSGKTLAALLPALEALKRGKGKRVLVLVPTRELAEQWAEELKKLGPS 80 (201)
T ss_pred ccCCCCCCHHHHHHHHH--HHcCCCcEEEECCCCCchhHHHHHHHHHHhcccCCCcEEEEeCCHHHHHHHHHHHHHHhcc
Confidence 35678999999999986 7777 9999999999999999999888877653 468999999999999999999887755
Q ss_pred cC-CeEEEEeccCCCC---CCCCC-CceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHH
Q 000107 597 LG-RHVRSYYGNQGGG---SLPKD-TSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLR 671 (2191)
Q Consensus 597 lg-~~V~~~~G~~~~~---~l~~~-~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr 671 (2191)
.. ..+..+.+..... ....+ .+|+++|++.+...+... ......++++||||+|++....+...+..++..+
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~t~~~l~~~~~~~--~~~~~~~~~iIiDE~h~~~~~~~~~~~~~~~~~~- 157 (201)
T smart00487 81 LGLKVVGLYGGDSKREQLRKLESGKTDILVTTPGRLLDLLEND--LLELSNVDLVILDEAHRLLDGGFGDQLEKLLKLL- 157 (201)
T ss_pred CCeEEEEEeCCcchHHHHHHHhcCCCCEEEeChHHHHHHHHcC--CcCHhHCCEEEEECHHHHhcCCcHHHHHHHHHhC-
Confidence 43 2333333322110 02223 399999999988877652 2456778999999999998644555565555443
Q ss_pred HhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC
Q 000107 672 YAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN 711 (2191)
Q Consensus 672 ~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N 711 (2191)
....++++||||+++
T Consensus 158 -------------------------~~~~~~v~~saT~~~ 172 (201)
T smart00487 158 -------------------------PKNVQLLLLSATPPE 172 (201)
T ss_pred -------------------------CccceEEEEecCCch
Confidence 246789999999874
No 137
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=99.47 E-value=7.7e-12 Score=162.18 Aligned_cols=306 Identities=19% Similarity=0.222 Sum_probs=180.4
Q ss_pred HHHHHHHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHH
Q 000107 511 SEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHL 590 (2191)
Q Consensus 511 ~~l~~~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l 590 (2191)
+.+.+.|++..-.+|+..|+--... ++.|++.-+.||||.|||+-..+..+ .+...|++++||+||..|+.|.++.+
T Consensus 69 e~~~~fF~k~~G~~~ws~QR~WakR--~~rg~SFaiiAPTGvGKTTfg~~~sl-~~a~kgkr~yii~PT~~Lv~Q~~~kl 145 (1187)
T COG1110 69 EEFEEFFKKATGFRPWSAQRVWAKR--LVRGKSFAIIAPTGVGKTTFGLLMSL-YLAKKGKRVYIIVPTTTLVRQVYERL 145 (1187)
T ss_pred HHHHHHHHHhhCCCchHHHHHHHHH--HHcCCceEEEcCCCCchhHHHHHHHH-HHHhcCCeEEEEecCHHHHHHHHHHH
Confidence 4566677664333888888865554 88999999999999999987655443 34457899999999999999999999
Q ss_pred HHHhhccC-CeEEE-EeccCCCCC--------CCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchh
Q 000107 591 EVLLEPLG-RHVRS-YYGNQGGGS--------LPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRG 660 (2191)
Q Consensus 591 ~~l~~~lg-~~V~~-~~G~~~~~~--------l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG 660 (2191)
+++....| ..+.. +++...... ...+.||+|+|..-+..-...+. --++++|+||.+|-+.-.+
T Consensus 146 ~~~~e~~~~~~~~~~yh~~l~~~ekee~le~i~~gdfdIlitTs~FL~k~~e~L~----~~kFdfifVDDVDA~Lkas-- 219 (1187)
T COG1110 146 KKFAEDAGSLDVLVVYHSALPTKEKEEALERIESGDFDILITTSQFLSKRFEELS----KLKFDFIFVDDVDAILKAS-- 219 (1187)
T ss_pred HHHHhhcCCcceeeeeccccchHHHHHHHHHHhcCCccEEEEeHHHHHhhHHHhc----ccCCCEEEEccHHHHHhcc--
Confidence 99987665 44444 555432211 23479999999865433333221 1368999999999887533
Q ss_pred HHHHHHHHHH----------------HHhhcCCCCCCCCCCCCCC-----CCCCCCCCCCceEEEEeccCCC----HHHH
Q 000107 661 YLLELLLTKL----------------RYAAGEGTSDSSSGENSGT-----SSGKADPAHGLQIVGMSATMPN----VAAV 715 (2191)
Q Consensus 661 ~~lE~lL~kL----------------r~~~~~~~~~s~~~~~~~~-----~~~~~~~~~~iqII~mSATL~N----~~~l 715 (2191)
.+++.+|..+ +....+ +........- ..-.......-++|.+|||... ...+
T Consensus 220 kNvDriL~LlGf~eE~i~~a~~~~~lr~~~~~---~~~~~~~~e~~~~~e~~~~~~r~k~g~LvvsSATg~~rg~R~~Lf 296 (1187)
T COG1110 220 KNVDRLLRLLGFSEEVIESAYELIKLRRKLYG---EKRAERVREELREVEREREKKRRKLGILVVSSATGKPRGSRLKLF 296 (1187)
T ss_pred ccHHHHHHHcCCCHHHHHHHHHHHHHHHHhhh---hhhHHHHHHHHHHHHHHHHHhccCCceEEEeeccCCCCCchHHHH
Confidence 2222222211 111000 0000000000 0000011245689999999752 2334
Q ss_pred HHHhhccccccccccccceEEEEeccccccchhhHHHHHHHhhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHH
Q 000107 716 ADWLQAALYETNFRPVPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCEST 795 (2191)
Q Consensus 716 a~wL~a~l~~~~~RpvpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~l 795 (2191)
.+.||- .......-+...+. .... ......+.+++..+ |...|||++.... ...
T Consensus 297 ReLlgF---evG~~~~~LRNIvD------------------~y~~-~~~~e~~~elvk~l---G~GgLIfV~~d~G-~e~ 350 (1187)
T COG1110 297 RELLGF---EVGSGGEGLRNIVD------------------IYVE-SESLEKVVELVKKL---GDGGLIFVPIDYG-REK 350 (1187)
T ss_pred HHHhCC---ccCccchhhhheee------------------eecc-CccHHHHHHHHHHh---CCCeEEEEEcHHh-HHH
Confidence 444431 11111112221111 1110 12234455555543 6679999999442 223
Q ss_pred HHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEe
Q 000107 796 ARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTA 875 (2191)
Q Consensus 796 A~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVA 875 (2191)
|+.|.+++...+++ +...|++ +...++.|..|.++|||.
T Consensus 351 aeel~e~Lr~~Gi~------------------------------------a~~~~a~-----~~~~le~F~~GeidvLVG 389 (1187)
T COG1110 351 AEELAEYLRSHGIN------------------------------------AELIHAE-----KEEALEDFEEGEVDVLVG 389 (1187)
T ss_pred HHHHHHHHHhcCce------------------------------------EEEeecc-----chhhhhhhccCceeEEEE
Confidence 44444444443332 5556763 367789999999999997
Q ss_pred cc----cccccCCCCC-ceEEeecC
Q 000107 876 TS----TLAAGVNLPA-RRVIFRQP 895 (2191)
Q Consensus 876 Ts----tLa~GVNLPa-v~VVI~~p 895 (2191)
.. ++-+|+|+|. ++++|-++
T Consensus 390 vAsyYG~lVRGlDLP~rirYaIF~G 414 (1187)
T COG1110 390 VASYYGVLVRGLDLPHRIRYAVFYG 414 (1187)
T ss_pred ecccccceeecCCchhheeEEEEec
Confidence 64 7899999998 56666443
No 138
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=99.47 E-value=1.2e-12 Score=172.67 Aligned_cols=120 Identities=27% Similarity=0.304 Sum_probs=96.4
Q ss_pred hHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCc
Q 000107 766 DHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSG 845 (2191)
Q Consensus 766 d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~G 845 (2191)
..+...+.+....+.++||||+|+..++.++..|... ++ +
T Consensus 585 ~Ali~~I~~~~~~grpVLIft~Sve~sE~Ls~~L~~~----gI----------------------------------~-- 624 (1025)
T PRK12900 585 NAIVLKVEELQKKGQPVLVGTASVEVSETLSRMLRAK----RI----------------------------------A-- 624 (1025)
T ss_pred HHHHHHHHHHhhCCCCEEEEeCcHHHHHHHHHHHHHc----CC----------------------------------C--
Confidence 3455566555667899999999999999888877542 11 1
Q ss_pred EEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCC---Cce-----EEeecCCCCCcccCcccccccccccCCC
Q 000107 846 VAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLP---ARR-----VIFRQPRIGRDFIDGTRYRQMAGRAGRT 917 (2191)
Q Consensus 846 Va~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLP---av~-----VVI~~p~~g~~~is~~~y~QmiGRAGR~ 917 (2191)
+..+|+ .+.+|+..+.+|+.+...|+|||++++||+||+ .+. +||.++++. +...|.|++|||||.
T Consensus 625 h~vLna--kq~~REa~Iia~AG~~g~VtIATNMAGRGtDIkl~~~V~~vGGL~VIgterhe----s~Rid~Ql~GRtGRq 698 (1025)
T PRK12900 625 HNVLNA--KQHDREAEIVAEAGQKGAVTIATNMAGRGTDIKLGEGVRELGGLFILGSERHE----SRRIDRQLRGRAGRQ 698 (1025)
T ss_pred ceeecC--CHHHhHHHHHHhcCCCCeEEEeccCcCCCCCcCCccchhhhCCceeeCCCCCc----hHHHHHHHhhhhhcC
Confidence 345776 578999999999999999999999999999999 443 457666654 667799999999999
Q ss_pred CCCCceEEEEEeChhh
Q 000107 918 GIDTKGESMLICKPEE 933 (2191)
Q Consensus 918 G~d~~Ge~ill~~~~e 933 (2191)
| .+|.++.|++.++
T Consensus 699 G--dpGsS~ffvSleD 712 (1025)
T PRK12900 699 G--DPGESVFYVSLED 712 (1025)
T ss_pred C--CCcceEEEechhH
Confidence 9 8999999998754
No 139
>cd06139 DNA_polA_I_Ecoli_like_exo DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases. Escherichia coli-like Polymerase I (Pol I), a subgroup of family-A DNA polymerases, contains a DEDDy-type DnaQ-like 3'-5' exonuclease domain in the same polypeptide chain as the polymerase domain. The exonuclease domain contains three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. The 3'-5' exonuclease domain of DNA polymerases has a fundamental role in reducing polymerase errors and is involved in proofreading activity. E. coli DNA Pol I is involved in genome replication but is not the main replicating enzyme. It is also implicated in DNA repair.
Probab=99.46 E-value=1.4e-12 Score=149.31 Aligned_cols=182 Identities=21% Similarity=0.315 Sum_probs=126.6
Q ss_pred hCCeEEEEeeccCCcccCCCccceEEEEEEEEeCCcEEEEeCCCCcccccccccchhccCCCCCCCCChhhHHHHHHHHH
Q 000107 1507 ATHEFYFDIHYDKHSEANSGVLFEIHGLAVCWENSPVYYVNLPKDLWSDHRRKDRFLIYGSSDKNVLTPEHQLEMIKQRW 1586 (2191)
Q Consensus 1507 ~~~~~afD~e~~~~~~~~s~~~~~i~Gia~~~~~~~ayYi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1586 (2191)
+.+.++||+++.+. ......+.|+++|+.+++.+|+++.+.... + . ++ ....+
T Consensus 4 ~~~~~a~d~e~~~~----~~~~~~i~~l~~~~~~~~~~~~~~~~~~~~-~-~--------------~~-------~~~~~ 56 (193)
T cd06139 4 KAKVFAFDTETTSL----DPMQAELVGISFAVEPGEAYYIPLGHDYGG-E-Q--------------LP-------REEVL 56 (193)
T ss_pred cCCeEEEEeecCCC----CcCCCeEEEEEEEcCCCCEEEEecCCCccc-c-C--------------CC-------HHHHH
Confidence 35668899876432 111236899999988777899987532100 0 0 00 12355
Q ss_pred HHHHHhhccCCccEEEechHHHHHHHHhcCcccccccCccccccccccccccccccccccCCCCccchHHHHHHhcCCCC
Q 000107 1587 KRIGEIMEKRDVRKFTWNMKVQIQVLKHAAVSIQRFGGLNLVGTSLGLENVGSSFLLLSPVHLKDGIDMCIVSWILWPDD 1666 (2191)
Q Consensus 1587 ~~L~~lLe~~~v~kv~hNlK~dl~vL~~~gi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~lAawLL~P~~ 1666 (2191)
..++++|++..+.+++||+|||+++|+++|+.+.+ .++||++++|+++|+.
T Consensus 57 ~~l~~~l~~~~~~~v~hn~k~d~~~l~~~gi~~~~-----------------------------~~~Dt~l~a~ll~p~~ 107 (193)
T cd06139 57 AALKPLLEDPSIKKVGQNLKFDLHVLANHGIELRG-----------------------------PAFDTMLASYLLNPGR 107 (193)
T ss_pred HHHHHHHhCCCCcEEeeccHHHHHHHHHCCCCCCC-----------------------------CcccHHHHHHHhCCCC
Confidence 67888999887899999999999999988876543 2589999999999976
Q ss_pred CCCCchhHHHHHHHhhChH---HHHHhhcc---CchhhhhHHHHhhhHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHhhh
Q 000107 1667 ERSSNPNLEKEVKKRLSSE---AAAAANRS---GRWKNQMRRAAHNGCCRRVAQTRALCSVLWKLLVS-EELIEALLNIE 1739 (2191)
Q Consensus 1667 ~~~~l~~L~~~~~~~l~~e---~~~~~~~~---g~~~~~~~~~~~~ya~~Da~~t~~L~~~L~~~L~~-~~L~~l~~~iE 1739 (2191)
..++ |..++.++++.+ .....++. ..|..........|++.|+..+++|+..|.++|.+ .++.++|.++|
T Consensus 108 ~~~~---l~~l~~~~l~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~ya~~d~~~~~~l~~~l~~~l~~~~~~~~l~~~iE 184 (193)
T cd06139 108 RRHG---LDDLAERYLGHKTISFEDLVGKGKKQITFDQVPLEKAAEYAAEDADITLRLYELLKPKLKEEPGLLELYEEIE 184 (193)
T ss_pred CCCC---HHHHHHHHhCCCCccHHHHcCCCcCcCCccccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHh
Confidence 3454 555555555432 11122211 01111001235669999999999999999999998 89999999999
Q ss_pred hhHHHHHH
Q 000107 1740 IPLVNVLA 1747 (2191)
Q Consensus 1740 mpl~~vLa 1747 (2191)
||+++||+
T Consensus 185 ~Pl~~vL~ 192 (193)
T cd06139 185 MPLIPVLA 192 (193)
T ss_pred ccHHHHhc
Confidence 99999996
No 140
>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair]
Probab=99.45 E-value=5.8e-13 Score=159.82 Aligned_cols=309 Identities=16% Similarity=0.220 Sum_probs=197.6
Q ss_pred CCCCHHHHHhhhhccccc-C--CeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCC
Q 000107 523 SKLYPWQVECLHVDGVLQ-R--RNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGR 599 (2191)
Q Consensus 523 ~~l~p~Q~eal~~~~il~-g--knlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~ 599 (2191)
+.++|+|..++.. ++. | ++-||..|.|+|||++..-++.. -++.+|+++..-.-+.|+...|..+..--.-
T Consensus 301 t~iRpYQEksL~K--MFGNgRARSGiIVLPCGAGKtLVGvTAa~t----ikK~clvLcts~VSVeQWkqQfk~wsti~d~ 374 (776)
T KOG1123|consen 301 TQIRPYQEKSLSK--MFGNGRARSGIIVLPCGAGKTLVGVTAACT----IKKSCLVLCTSAVSVEQWKQQFKQWSTIQDD 374 (776)
T ss_pred cccCchHHHHHHH--HhCCCcccCceEEEecCCCCceeeeeeeee----ecccEEEEecCccCHHHHHHHHHhhcccCcc
Confidence 5789999999986 443 3 78899999999999998655432 3678999988877777777777654332234
Q ss_pred eEEEEeccCCCCCCCCCCceEEEchHHHHHHHH------HhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHh
Q 000107 600 HVRSYYGNQGGGSLPKDTSVAVCTIEKANSLVN------RMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYA 673 (2191)
Q Consensus 600 ~V~~~~G~~~~~~l~~~~~IiV~TpEkl~~Ll~------~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~ 673 (2191)
.+..++.+..+ ..+.++.|+|+|+.++..--+ +.+....-++.+++|+||+|.+-.. ....+++.+..-
T Consensus 375 ~i~rFTsd~Ke-~~~~~~gvvvsTYsMva~t~kRS~eaek~m~~l~~~EWGllllDEVHvvPA~----MFRRVlsiv~aH 449 (776)
T KOG1123|consen 375 QICRFTSDAKE-RFPSGAGVVVTTYSMVAYTGKRSHEAEKIMDFLRGREWGLLLLDEVHVVPAK----MFRRVLSIVQAH 449 (776)
T ss_pred ceEEeeccccc-cCCCCCcEEEEeeehhhhcccccHHHHHHHHHHhcCeeeeEEeehhccchHH----HHHHHHHHHHHH
Confidence 56666665543 356678999999876422111 1111122356899999999997543 334444444322
Q ss_pred hcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCCC----HHHHHHHhhccccccccccccceEEEEe--ccccccch
Q 000107 674 AGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMPN----VAAVADWLQAALYETNFRPVPLEEYIKV--GNAIYSKK 747 (2191)
Q Consensus 674 ~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~N----~~~la~wL~a~l~~~~~RpvpL~e~i~~--~~~~~~~~ 747 (2191)
+ -+|++|||-. +.++.-.+|.++|..+|-...-.-+|-. --.++...
T Consensus 450 c---------------------------KLGLTATLvREDdKI~DLNFLIGPKlYEAnWmdL~~kGhIA~VqCaEVWCpM 502 (776)
T KOG1123|consen 450 C---------------------------KLGLTATLVREDDKITDLNFLIGPKLYEANWMDLQKKGHIAKVQCAEVWCPM 502 (776)
T ss_pred h---------------------------hccceeEEeeccccccccceeecchhhhccHHHHHhCCceeEEeeeeeecCC
Confidence 1 3899999742 4455556677777777765443333320 00112211
Q ss_pred -hhHHHHHHH--------hhccCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhh
Q 000107 748 -MDVVRTILT--------AANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFI 818 (2191)
Q Consensus 748 -~~~~r~l~~--------~~~~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~ 818 (2191)
.++.+.... ..-+...+.....-|+...-+.|.++|||..+.-.....|..|
T Consensus 503 t~eFy~eYL~~~t~kr~lLyvMNP~KFraCqfLI~~HE~RgDKiIVFsDnvfALk~YAikl------------------- 563 (776)
T KOG1123|consen 503 TPEFYREYLRENTRKRMLLYVMNPNKFRACQFLIKFHERRGDKIIVFSDNVFALKEYAIKL------------------- 563 (776)
T ss_pred CHHHHHHHHhhhhhhhheeeecCcchhHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHc-------------------
Confidence 111111110 0111223333334455555567889999988765444433332
Q ss_pred hhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhc-CCceEEEecccccccCCCCCceEEeecCC-
Q 000107 819 DITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRK-GLVRVLTATSTLAAGVNLPARRVIFRQPR- 896 (2191)
Q Consensus 819 ~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~-G~ikVLVATstLa~GVNLPav~VVI~~p~- 896 (2191)
|=-|++|..++.||..|++.|+- ..++.|+-+-+.-.++|||...|+|.-..
T Consensus 564 --------------------------~KpfIYG~Tsq~ERm~ILqnFq~n~~vNTIFlSKVgDtSiDLPEAnvLIQISSH 617 (776)
T KOG1123|consen 564 --------------------------GKPFIYGPTSQNERMKILQNFQTNPKVNTIFLSKVGDTSIDLPEANVLIQISSH 617 (776)
T ss_pred --------------------------CCceEECCCchhHHHHHHHhcccCCccceEEEeeccCccccCCcccEEEEEccc
Confidence 23468999999999999999984 57888999999999999999999986332
Q ss_pred CCCcccCcccccccccccCCCC
Q 000107 897 IGRDFIDGTRYRQMAGRAGRTG 918 (2191)
Q Consensus 897 ~g~~~is~~~y~QmiGRAGR~G 918 (2191)
.| |..+-.||.||.-|+.
T Consensus 618 ~G----SRRQEAQRLGRILRAK 635 (776)
T KOG1123|consen 618 GG----SRRQEAQRLGRILRAK 635 (776)
T ss_pred cc----chHHHHHHHHHHHHHh
Confidence 23 6667789999988874
No 141
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=99.40 E-value=1.3e-11 Score=159.39 Aligned_cols=130 Identities=16% Similarity=0.179 Sum_probs=97.6
Q ss_pred cCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCC
Q 000107 520 RGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGR 599 (2191)
Q Consensus 520 ~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~ 599 (2191)
.|+ .+|+.|.-..-. +++|+ |.-..||.|||+++.++++...+ .|+.+-+++|+-.||.+-++++..++..+|+
T Consensus 75 lg~-r~ydvQlig~l~--Ll~G~--VaEM~TGEGKTLvA~l~a~l~AL-~G~~VhvvT~NdyLA~RDae~m~~ly~~LGL 148 (764)
T PRK12326 75 LGL-RPFDVQLLGALR--LLAGD--VIEMATGEGKTLAGAIAAAGYAL-QGRRVHVITVNDYLARRDAEWMGPLYEALGL 148 (764)
T ss_pred cCC-CcchHHHHHHHH--HhCCC--cccccCCCCHHHHHHHHHHHHHH-cCCCeEEEcCCHHHHHHHHHHHHHHHHhcCC
Confidence 565 788888876644 56664 66999999999999999887665 5888999999999999999999999999999
Q ss_pred eEEEEeccCCCCC--CCCCCceEEEchHHH-HHHHH-Hhh---hcCCCCccceEEEccccccc
Q 000107 600 HVRSYYGNQGGGS--LPKDTSVAVCTIEKA-NSLVN-RML---EEGRLSEIGIIVIDELHMVA 655 (2191)
Q Consensus 600 ~V~~~~G~~~~~~--l~~~~~IiV~TpEkl-~~Ll~-~l~---~~~~L~~l~lVVIDEaH~l~ 655 (2191)
+|+...++..... ..-.+||+++|...+ .+.++ ++. .......+.+.||||+|-+.
T Consensus 149 svg~i~~~~~~~err~aY~~DItYgTn~e~gFDyLRDnm~~~~~~~v~R~~~faIVDEvDSiL 211 (764)
T PRK12326 149 TVGWITEESTPEERRAAYACDVTYASVNEIGFDVLRDQLVTDVADLVSPNPDVAIIDEADSVL 211 (764)
T ss_pred EEEEECCCCCHHHHHHHHcCCCEEcCCcccccccchhhhccChHhhcCCccceeeecchhhhe
Confidence 9998877643211 112479999998764 22232 221 12234568899999999764
No 142
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=99.38 E-value=3.7e-12 Score=169.08 Aligned_cols=124 Identities=21% Similarity=0.270 Sum_probs=100.8
Q ss_pred hHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCc
Q 000107 766 DHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSG 845 (2191)
Q Consensus 766 d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~G 845 (2191)
+.+...+......+.++||||+|++.++.++..|.+. + ..
T Consensus 429 ~~Ll~eI~~~~~~g~~vLIf~~tk~~ae~L~~~L~~~----g------------------------------------i~ 468 (655)
T TIGR00631 429 DDLLSEIRQRVARNERVLVTTLTKKMAEDLTDYLKEL----G------------------------------------IK 468 (655)
T ss_pred HHHHHHHHHHHcCCCEEEEEECCHHHHHHHHHHHhhh----c------------------------------------cc
Confidence 3455555666677899999999999999988887542 1 12
Q ss_pred EEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecC--CCCCcccCcccccccccccCCCCCCCce
Q 000107 846 VAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQP--RIGRDFIDGTRYRQMAGRAGRTGIDTKG 923 (2191)
Q Consensus 846 Va~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p--~~g~~~is~~~y~QmiGRAGR~G~d~~G 923 (2191)
+.++|++++..+|..++..|+.|.+.|||||+.+++|+|+|.+.+||.+. ..| -+-+..+|+||+|||||.. .|
T Consensus 469 ~~~lh~~~~~~eR~~~l~~fr~G~i~VLV~t~~L~rGfDiP~v~lVvi~DadifG-~p~~~~~~iqriGRagR~~---~G 544 (655)
T TIGR00631 469 VRYLHSEIDTLERVEIIRDLRLGEFDVLVGINLLREGLDLPEVSLVAILDADKEG-FLRSERSLIQTIGRAARNV---NG 544 (655)
T ss_pred eeeeeCCCCHHHHHHHHHHHhcCCceEEEEcChhcCCeeeCCCcEEEEeCccccc-CCCCHHHHHHHhcCCCCCC---CC
Confidence 78899999999999999999999999999999999999999999776543 222 1226679999999999985 79
Q ss_pred EEEEEeChhh
Q 000107 924 ESMLICKPEE 933 (2191)
Q Consensus 924 e~ill~~~~e 933 (2191)
.++++++..+
T Consensus 545 ~vi~~~~~~~ 554 (655)
T TIGR00631 545 KVIMYADKIT 554 (655)
T ss_pred EEEEEEcCCC
Confidence 9999988643
No 143
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=99.35 E-value=5.6e-11 Score=145.47 Aligned_cols=122 Identities=22% Similarity=0.315 Sum_probs=99.4
Q ss_pred hHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCc
Q 000107 766 DHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSG 845 (2191)
Q Consensus 766 d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~G 845 (2191)
+.++.-+...+..+..+||-+-|++.+|.+...|.+. + -.
T Consensus 433 dDL~~EI~~r~~~~eRvLVTtLTKkmAEdLT~Yl~e~----g------------------------------------ik 472 (663)
T COG0556 433 DDLLSEIRKRVAKNERVLVTTLTKKMAEDLTEYLKEL----G------------------------------------IK 472 (663)
T ss_pred HHHHHHHHHHHhcCCeEEEEeehHHHHHHHHHHHHhc----C------------------------------------ce
Confidence 4455556666777899999999999988887777542 1 22
Q ss_pred EEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEE--eecCCCCCcccCcccccccccccCCCCCCCce
Q 000107 846 VAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVI--FRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKG 923 (2191)
Q Consensus 846 Va~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VV--I~~p~~g~~~is~~~y~QmiGRAGR~G~d~~G 923 (2191)
|.|+|+++..-||..|+..+|.|.+.|||.-+.|-.|+|+|.+..| .+.+..|- .-|-.+.+|-+|||.|.- .|
T Consensus 473 v~YlHSdidTlER~eIirdLR~G~~DvLVGINLLREGLDiPEVsLVAIlDADKeGF-LRse~SLIQtIGRAARN~---~G 548 (663)
T COG0556 473 VRYLHSDIDTLERVEIIRDLRLGEFDVLVGINLLREGLDLPEVSLVAILDADKEGF-LRSERSLIQTIGRAARNV---NG 548 (663)
T ss_pred EEeeeccchHHHHHHHHHHHhcCCccEEEeehhhhccCCCcceeEEEEeecCcccc-ccccchHHHHHHHHhhcc---CC
Confidence 9999999999999999999999999999999999999999999876 44444331 125568999999999986 89
Q ss_pred EEEEEeCh
Q 000107 924 ESMLICKP 931 (2191)
Q Consensus 924 e~ill~~~ 931 (2191)
.+|++++.
T Consensus 549 kvIlYAD~ 556 (663)
T COG0556 549 KVILYADK 556 (663)
T ss_pred eEEEEchh
Confidence 99998765
No 144
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=99.33 E-value=1.5e-10 Score=157.97 Aligned_cols=82 Identities=15% Similarity=0.151 Sum_probs=63.4
Q ss_pred cCCCCCCHHHHH---hhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHH-HHHHHHhh
Q 000107 520 RGISKLYPWQVE---CLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKA-EHLEVLLE 595 (2191)
Q Consensus 520 ~Gi~~l~p~Q~e---al~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~-~~l~~l~~ 595 (2191)
.|| +.++-|.+ ++. .++.+++.+++.|+||+|||++|++|++... .+.++||.+||++|+.|.. +.+..+..
T Consensus 242 ~~~-e~R~~Q~~ma~~V~-~~l~~~~~~~~eA~tGtGKT~ayllp~l~~~--~~~~vvI~t~T~~Lq~Ql~~~~i~~l~~ 317 (820)
T PRK07246 242 LGL-EERPKQESFAKLVG-EDFHDGPASFIEAQTGIGKTYGYLLPLLAQS--DQRQIIVSVPTKILQDQIMAEEVKAIQE 317 (820)
T ss_pred CCC-ccCHHHHHHHHHHH-HHHhCCCcEEEECCCCCcHHHHHHHHHHHhc--CCCcEEEEeCcHHHHHHHHHHHHHHHHH
Confidence 455 68888988 443 2356789999999999999999999988753 5789999999999999995 56666555
Q ss_pred ccCCeEEEEe
Q 000107 596 PLGRHVRSYY 605 (2191)
Q Consensus 596 ~lg~~V~~~~ 605 (2191)
.+++++..+.
T Consensus 318 ~~~~~~~~~k 327 (820)
T PRK07246 318 VFHIDCHSLK 327 (820)
T ss_pred hcCCcEEEEE
Confidence 5666555444
No 145
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=99.32 E-value=2e-11 Score=161.26 Aligned_cols=130 Identities=18% Similarity=0.174 Sum_probs=95.9
Q ss_pred cCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCC
Q 000107 520 RGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGR 599 (2191)
Q Consensus 520 ~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~ 599 (2191)
.|. .+|+.|.-.- +.-.+--|.-..||.|||+++.++++-..+ .|+.+-+++|+..||.+-++++..++..+|+
T Consensus 79 lGm-~~ydVQliGg----~~Lh~G~iaEM~TGEGKTLvA~l~a~l~al-~G~~VhvvT~ndyLA~RD~e~m~~l~~~lGl 152 (913)
T PRK13103 79 MGM-RHFDVQLIGG----MTLHEGKIAEMRTGEGKTLVGTLAVYLNAL-SGKGVHVVTVNDYLARRDANWMRPLYEFLGL 152 (913)
T ss_pred hCC-CcchhHHHhh----hHhccCccccccCCCCChHHHHHHHHHHHH-cCCCEEEEeCCHHHHHHHHHHHHHHhcccCC
Confidence 564 6788886442 322445577999999999999999987665 5888999999999999999999999999999
Q ss_pred eEEEEeccCCCCC--CCCCCceEEEchHHH-HHHHH-Hh---hhcCCCCccceEEEccccccc
Q 000107 600 HVRSYYGNQGGGS--LPKDTSVAVCTIEKA-NSLVN-RM---LEEGRLSEIGIIVIDELHMVA 655 (2191)
Q Consensus 600 ~V~~~~G~~~~~~--l~~~~~IiV~TpEkl-~~Ll~-~l---~~~~~L~~l~lVVIDEaH~l~ 655 (2191)
+|+.+.++..... ..-.++|+++|..-+ .+.++ ++ ........++++||||+|.+.
T Consensus 153 ~v~~i~~~~~~~err~~Y~~dI~YGT~~e~gFDYLrD~~~~~~~~~vqr~l~~aIVDEvDsiL 215 (913)
T PRK13103 153 SVGIVTPFQPPEEKRAAYAADITYGTNNEFGFDYLRDNMAFSLDDKFQRELNFAVIDEVDSIL 215 (913)
T ss_pred EEEEECCCCCHHHHHHHhcCCEEEEcccccccchhhccceechhhhcccccceeEechhhhee
Confidence 9998877653211 111379999998764 12222 11 112234779999999999764
No 146
>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=99.31 E-value=2e-11 Score=130.12 Aligned_cols=114 Identities=25% Similarity=0.360 Sum_probs=88.0
Q ss_pred CeEEEEcCCCCchhHHHHHHHHHHHHh-cCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCC----CCCC
Q 000107 542 RNLVYCASTSAGKSFVAEILMLRRLIS-TGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGS----LPKD 616 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael~iL~~ll~-~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~----l~~~ 616 (2191)
+++++.+|||+|||+++..++.+.... ..++++|++|++.++.+..+.+...... +..+..+.+...... ....
T Consensus 1 ~~~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p~~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~ 79 (144)
T cd00046 1 RDVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKELFGE-GIKVGYLIGGTSIKQQEKLLSGK 79 (144)
T ss_pred CCEEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEcCcHHHHHHHHHHHHHHhhC-CcEEEEEecCcchhHHHHHhcCC
Confidence 478999999999999999888876654 5679999999999999999988887654 566666666543321 2456
Q ss_pred CceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccc
Q 000107 617 TSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQN 658 (2191)
Q Consensus 617 ~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~ 658 (2191)
.+|+++|++.+...... .......+++|||||+|.+....
T Consensus 80 ~~i~i~t~~~~~~~~~~--~~~~~~~~~~iiiDE~h~~~~~~ 119 (144)
T cd00046 80 TDIVVGTPGRLLDELER--LKLSLKKLDLLILDEAHRLLNQG 119 (144)
T ss_pred CCEEEECcHHHHHHHHc--CCcchhcCCEEEEeCHHHHhhcc
Confidence 89999999987665543 22345678999999999987653
No 147
>PF01612 DNA_pol_A_exo1: 3'-5' exonuclease; InterPro: IPR002562 This domain is responsible for the 3'-5' exonuclease proofreading activity of Escherichia coli DNA polymerase I (polI) and other enzymes, it catalyses the hydrolysis of unpaired or mismatched nucleotides. This domain consists of the amino-terminal half of the Klenow fragment in E. coli polI it is also found in the Werner syndrome helicase (WRN), focus forming activity 1 protein (FFA-1) and ribonuclease D (RNase D) [].; GO: 0003676 nucleic acid binding, 0008408 3'-5' exonuclease activity, 0006139 nucleobase-containing compound metabolic process, 0005622 intracellular; PDB: 2HBK_A 2HBJ_A 2HBM_A 2HBL_A 2FC0_A 2FBY_A 2FBX_A 2FBT_A 2FBV_A 1YT3_A ....
Probab=99.29 E-value=3.7e-11 Score=135.19 Aligned_cols=171 Identities=14% Similarity=0.181 Sum_probs=123.7
Q ss_pred eeccCcccHHHHHHHHhhCCeEEEEeeccCCcccCCCccceEEEEEEEEeCCcEEEEeCCCCcccccccccchhccCCCC
Q 000107 1490 NAINASGGFDCFLDRWEATHEFYFDIHYDKHSEANSGVLFEIHGLAVCWENSPVYYVNLPKDLWSDHRRKDRFLIYGSSD 1569 (2191)
Q Consensus 1490 ~~v~~~~~~~~~l~~~~~~~~~afD~e~~~~~~~~s~~~~~i~Gia~~~~~~~ayYi~l~~~~~~~~~~~~~~~~~~~~~ 1569 (2191)
.++++...+..+++.+...+.++||+|+.+... . .....+.++++|+. ..+|+........
T Consensus 2 ~~v~~~~~l~~~~~~l~~~~~~a~D~E~~~~~~-~-~~~~~~~~iq~~~~--~~~~i~~~~~~~~--------------- 62 (176)
T PF01612_consen 2 QIVDTEEELEEAIKKLKNAKVLAFDTETTGLDP-Y-SYNPKIALIQLATG--EGCYIIDPIDLGD--------------- 62 (176)
T ss_dssp EEEHSHHHHHHHHHHHTTTSEEEEEEEEETSTS-T-TSSEEEEEEEEEES--CEEEEECGTTSTT---------------
T ss_pred EecCCHHHHHHHHHHHcCCCeEEEEEEECCCCc-c-ccCCeEEEEEEecC--CCceeeeeccccc---------------
Confidence 467788999999999999999999999875421 0 11234666677655 5666655432100
Q ss_pred CCCCChhhHHHHHHHHHHHHHHhhccCCccEEEechHHHHHHHHh-cCcccccccCccccccccccccccccccccccCC
Q 000107 1570 KNVLTPEHQLEMIKQRWKRIGEIMEKRDVRKFTWNMKVQIQVLKH-AAVSIQRFGGLNLVGTSLGLENVGSSFLLLSPVH 1648 (2191)
Q Consensus 1570 ~~~~~~~~~~~~~~~~~~~L~~lLe~~~v~kv~hNlK~dl~vL~~-~gi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1648 (2191)
...+..|+++|+++.+.|++||+|+|+.+|++ +|+.+.+
T Consensus 63 -------------~~~~~~l~~ll~~~~i~kv~~n~~~D~~~L~~~~~i~~~~--------------------------- 102 (176)
T PF01612_consen 63 -------------NWILDALKELLEDPNIIKVGHNAKFDLKWLYRSFGIDLKN--------------------------- 102 (176)
T ss_dssp -------------TTHHHHHHHHHTTTTSEEEESSHHHHHHHHHHHHTS--SS---------------------------
T ss_pred -------------cchHHHHHHHHhCCCccEEEEEEechHHHHHHHhccccCC---------------------------
Confidence 00356789999999999999999999999988 6776654
Q ss_pred CCccchHHHHHHhcCCCCCCCCchhHHHHHHHhhC-hHHHHHhhccCchh--hhhHHHHhhhHHHHHHHHHHHHHHHHHH
Q 000107 1649 LKDGIDMCIVSWILWPDDERSSNPNLEKEVKKRLS-SEAAAAANRSGRWK--NQMRRAAHNGCCRRVAQTRALCSVLWKL 1725 (2191)
Q Consensus 1649 ~~~~~Dt~lAawLL~P~~~~~~l~~L~~~~~~~l~-~e~~~~~~~~g~~~--~~~~~~~~~ya~~Da~~t~~L~~~L~~~ 1725 (2191)
++|||+|+|+++|... ++ |..++.++++ .... .....++|. ..+.+.+..||+.|+..+++||..|+++
T Consensus 103 ---~~D~~l~~~~l~~~~~-~~---L~~L~~~~l~~~~~~-~~~~~~~~~~~~~l~~~~~~YAa~D~~~~~~l~~~l~~~ 174 (176)
T PF01612_consen 103 ---VFDTMLAAYLLDPTRS-YS---LKDLAEEYLGNIDLD-KKEQMSDWRKARPLSEEQIEYAAQDAVVTFRLYEKLKPQ 174 (176)
T ss_dssp ---EEEHHHHHHHTTTSTT-SS---HHHHHHHHHSEEE-G-HCCTTSSTTTSSS-HHHHHHHHHHHHHTHHHHHHHHHHH
T ss_pred ---ccchhhhhhccccccc-cc---HHHHHHHHhhhccCc-HHHhhccCCcCCCChHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4899999999999754 54 6666777777 3332 233456666 4566667899999999999999999988
Q ss_pred HH
Q 000107 1726 LV 1727 (2191)
Q Consensus 1726 L~ 1727 (2191)
|+
T Consensus 175 l~ 176 (176)
T PF01612_consen 175 LE 176 (176)
T ss_dssp HC
T ss_pred hC
Confidence 74
No 148
>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=99.28 E-value=1.7e-11 Score=130.50 Aligned_cols=116 Identities=37% Similarity=0.521 Sum_probs=94.1
Q ss_pred HHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcE
Q 000107 767 HIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGV 846 (2191)
Q Consensus 767 ~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GV 846 (2191)
.+..++......++++||||+++..++.++..|.+ ...++
T Consensus 16 ~i~~~i~~~~~~~~~~lvf~~~~~~~~~~~~~l~~----------------------------------------~~~~~ 55 (131)
T cd00079 16 ALLELLKEHLKKGGKVLIFCPSKKMLDELAELLRK----------------------------------------PGIKV 55 (131)
T ss_pred HHHHHHHhcccCCCcEEEEeCcHHHHHHHHHHHHh----------------------------------------cCCcE
Confidence 34444544444578999999999999888877743 12348
Q ss_pred EEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecCCCCCcccCcccccccccccCCCCCCCceEEE
Q 000107 847 AYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESM 926 (2191)
Q Consensus 847 a~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~i 926 (2191)
.++|++++..+|..+.+.|++|..+||++|+.+++|+|+|...+||.... +.+...|.||+||+||.| ..|.++
T Consensus 56 ~~~~~~~~~~~~~~~~~~f~~~~~~ili~t~~~~~G~d~~~~~~vi~~~~----~~~~~~~~Q~~GR~~R~~--~~~~~~ 129 (131)
T cd00079 56 AALHGDGSQEEREEVLKDFREGEIVVLVATDVIARGIDLPNVSVVINYDL----PWSPSSYLQRIGRAGRAG--QKGTAI 129 (131)
T ss_pred EEEECCCCHHHHHHHHHHHHcCCCcEEEEcChhhcCcChhhCCEEEEeCC----CCCHHHheecccccccCC--CCceEE
Confidence 89999999999999999999999999999999999999998876663333 347889999999999999 478877
Q ss_pred EE
Q 000107 927 LI 928 (2191)
Q Consensus 927 ll 928 (2191)
++
T Consensus 130 ~~ 131 (131)
T cd00079 130 LL 131 (131)
T ss_pred eC
Confidence 64
No 149
>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3.1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....
Probab=99.26 E-value=2.6e-11 Score=136.82 Aligned_cols=126 Identities=20% Similarity=0.252 Sum_probs=85.2
Q ss_pred CCCHHHHHhhhhcccc-------cCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhc
Q 000107 524 KLYPWQVECLHVDGVL-------QRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEP 596 (2191)
Q Consensus 524 ~l~p~Q~eal~~~~il-------~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~ 596 (2191)
+|+++|.+++.. +. ..+++++.+|||||||.++...+.+.. . ++++++|+..|+.|....+..+...
T Consensus 3 ~lr~~Q~~ai~~--i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~-~---~~l~~~p~~~l~~Q~~~~~~~~~~~ 76 (184)
T PF04851_consen 3 KLRPYQQEAIAR--IINSLENKKEERRVLLNAPTGSGKTIIALALILELA-R---KVLIVAPNISLLEQWYDEFDDFGSE 76 (184)
T ss_dssp EE-HHHHHHHHH--HHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHH-C---EEEEEESSHHHHHHHHHHHHHHSTT
T ss_pred CCCHHHHHHHHH--HHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhccc-c---ceeEecCHHHHHHHHHHHHHHhhhh
Confidence 589999999975 55 269999999999999999876555543 2 9999999999999999998655432
Q ss_pred cCCeEEE-Ee---------ccCCC------CCCCCCCceEEEchHHHHHHHHHhh---------hcCCCCccceEEEccc
Q 000107 597 LGRHVRS-YY---------GNQGG------GSLPKDTSVAVCTIEKANSLVNRML---------EEGRLSEIGIIVIDEL 651 (2191)
Q Consensus 597 lg~~V~~-~~---------G~~~~------~~l~~~~~IiV~TpEkl~~Ll~~l~---------~~~~L~~l~lVVIDEa 651 (2191)
. ..+.. .. ..... .....+.+++++|..++........ ........++||+||+
T Consensus 77 ~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~vI~DEa 155 (184)
T PF04851_consen 77 K-YNFFEKSIKPAYDSKEFISIQDDISDKSESDNNDKDIILTTYQSLQSDIKEEKKIDESARRSYKLLKNKFDLVIIDEA 155 (184)
T ss_dssp S-EEEEE--GGGCCE-SEEETTTTEEEHHHHHCBSS-SEEEEEHHHHHHHHHH---------GCHHGGGGSESEEEEETG
T ss_pred h-hhhcccccccccccccccccccccccccccccccccchhhHHHHHHhhcccccccccchhhhhhhccccCCEEEEehh
Confidence 1 11110 00 00000 0012357899999999887765311 1123456799999999
Q ss_pred ccccc
Q 000107 652 HMVAD 656 (2191)
Q Consensus 652 H~l~d 656 (2191)
|++..
T Consensus 156 H~~~~ 160 (184)
T PF04851_consen 156 HHYPS 160 (184)
T ss_dssp GCTHH
T ss_pred hhcCC
Confidence 99764
No 150
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=99.21 E-value=1e-09 Score=143.81 Aligned_cols=130 Identities=17% Similarity=0.125 Sum_probs=92.6
Q ss_pred cCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCC
Q 000107 520 RGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGR 599 (2191)
Q Consensus 520 ~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~ 599 (2191)
.|. ++|+.|.-.--. +..| -|.-..||=|||+++.+|+.-..+ .|+.|-+|...-.||..=++++..++..+|+
T Consensus 75 lG~-r~ydVQliGglv--Lh~G--~IAEMkTGEGKTLvAtLpayLnAL-~GkgVhVVTvNdYLA~RDae~mg~vy~fLGL 148 (925)
T PRK12903 75 LGK-RPYDVQIIGGII--LDLG--SVAEMKTGEGKTITSIAPVYLNAL-TGKGVIVSTVNEYLAERDAEEMGKVFNFLGL 148 (925)
T ss_pred hCC-CcCchHHHHHHH--HhcC--CeeeecCCCCccHHHHHHHHHHHh-cCCceEEEecchhhhhhhHHHHHHHHHHhCC
Confidence 566 788888765432 4444 368999999999999998865544 5777888888889999999999999999999
Q ss_pred eEEEEeccCCCCC--CCCCCceEEEchHHH-HHHHH-Hh---hhcCCCCccceEEEccccccc
Q 000107 600 HVRSYYGNQGGGS--LPKDTSVAVCTIEKA-NSLVN-RM---LEEGRLSEIGIIVIDELHMVA 655 (2191)
Q Consensus 600 ~V~~~~G~~~~~~--l~~~~~IiV~TpEkl-~~Ll~-~l---~~~~~L~~l~lVVIDEaH~l~ 655 (2191)
.|+....+..... ..-.+||.++|..-+ .+.++ ++ ........+.+.||||+|-+.
T Consensus 149 svG~i~~~~~~~~rr~aY~~DItYgTn~E~gFDYLRDnm~~~~~~~vqR~~~faIVDEVDSIL 211 (925)
T PRK12903 149 SVGINKANMDPNLKREAYACDITYSVHSELGFDYLRDNMVSSKEEKVQRGLNFCLIDEVDSIL 211 (925)
T ss_pred ceeeeCCCCChHHHHHhccCCCeeecCcccchhhhhhcccccHHHhcCcccceeeeccchhee
Confidence 9987665432211 112479999998764 22333 21 122234668899999999764
No 151
>TIGR02562 cas3_yersinia CRISPR-associated helicase Cas3. The helicase in many CRISPR-associated (cas) gene clusters is designated Cas3, and most Cas3 proteins are described by model TIGR01587. Members of this family are considerably larger, show a number of motifs in common with TIGR01587 sequences, and replace Cas3 in some CRISPR/cas loci in a number of Proteobacteria, including Yersinia pestis, Chromobacterium violaceum, Erwinia carotovora subsp. atroseptica SCRI1043, Photorhabdus luminescens subsp. laumondii TTO1, Legionella pneumophila, etc.
Probab=99.20 E-value=9.7e-10 Score=146.30 Aligned_cols=72 Identities=18% Similarity=0.142 Sum_probs=55.6
Q ss_pred EEEEcCCCCHHHHHHHHHHh----------------------hc----CCceEEEecccccccCCCCCceEEeecCCCCC
Q 000107 846 VAYHHAGLTVEEREVVETCY----------------------RK----GLVRVLTATSTLAAGVNLPARRVIFRQPRIGR 899 (2191)
Q Consensus 846 Va~hHagLs~~eR~~Ve~~F----------------------r~----G~ikVLVATstLa~GVNLPav~VVI~~p~~g~ 899 (2191)
+..+|+..+...|..+|+.. ++ +...|+|+|++.+.|+|+...-+|..
T Consensus 789 ~~~yHSr~~l~~Rs~~E~~Ld~~L~R~~~~~~~~~~~i~~~l~~~~~~~~~~i~v~Tqv~E~g~D~dfd~~~~~------ 862 (1110)
T TIGR02562 789 LCCYHAQDPLLLRSYIERRLDQLLTRHKPEQLFQDDEIIDLMQNSPALNHLFIVLATPVEEVGRDHDYDWAIAD------ 862 (1110)
T ss_pred EEEecccChHHHHHHHHHHHHHHhcccChhhhhchHHHHHHHhcccccCCCeEEEEeeeEEEEecccCCeeeec------
Confidence 67789999888888888664 12 56799999999999999987666642
Q ss_pred cccCcccccccccccCCCCCCCceE
Q 000107 900 DFIDGTRYRQMAGRAGRTGIDTKGE 924 (2191)
Q Consensus 900 ~~is~~~y~QmiGRAGR~G~d~~Ge 924 (2191)
.-+..+.+|++||..|.|....+.
T Consensus 863 -~~~~~sliQ~aGR~~R~~~~~~~~ 886 (1110)
T TIGR02562 863 -PSSMRSIIQLAGRVNRHRLEKVQQ 886 (1110)
T ss_pred -cCcHHHHHHHhhcccccccCCCCC
Confidence 225678999999999988655443
No 152
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=99.20 E-value=2.6e-09 Score=135.26 Aligned_cols=330 Identities=18% Similarity=0.179 Sum_probs=197.9
Q ss_pred CCCHHHHHhhhhc--ccccCCeEEEEcCCCCchhHHHH--HHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCC
Q 000107 524 KLYPWQVECLHVD--GVLQRRNLVYCASTSAGKSFVAE--ILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGR 599 (2191)
Q Consensus 524 ~l~p~Q~eal~~~--~il~gknlIi~APTGSGKTlvae--l~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~ 599 (2191)
.|.++|.+-++.. ....|-|.|+.-.-|-|||+... +..|+....-.+.-||++|.-.|. ..+.+++++.. ++
T Consensus 167 ~lr~YQveGlnWLi~l~engingILaDEMGLGKTlQtIs~l~yl~~~~~~~GPfLVi~P~StL~-NW~~Ef~rf~P--~l 243 (971)
T KOG0385|consen 167 ELRDYQLEGLNWLISLYENGINGILADEMGLGKTLQTISLLGYLKGRKGIPGPFLVIAPKSTLD-NWMNEFKRFTP--SL 243 (971)
T ss_pred ccchhhhccHHHHHHHHhcCcccEeehhcccchHHHHHHHHHHHHHhcCCCCCeEEEeeHhhHH-HHHHHHHHhCC--Cc
Confidence 6899999988751 12358899999999999997653 344444444456789999986664 45667777655 57
Q ss_pred eEEEEeccCCCC-------CCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHH
Q 000107 600 HVRSYYGNQGGG-------SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRY 672 (2191)
Q Consensus 600 ~V~~~~G~~~~~-------~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~ 672 (2191)
.+..++|+.... ..+...+|+|+|+|.+..--+-+.. -...++||||+|.|-.. ...+-.++..+
T Consensus 244 ~~~~~~Gdk~eR~~~~r~~~~~~~fdV~iTsYEi~i~dk~~lk~----~~W~ylvIDEaHRiKN~--~s~L~~~lr~f-- 315 (971)
T KOG0385|consen 244 NVVVYHGDKEERAALRRDIMLPGRFDVCITSYEIAIKDKSFLKK----FNWRYLVIDEAHRIKNE--KSKLSKILREF-- 315 (971)
T ss_pred ceEEEeCCHHHHHHHHHHhhccCCCceEeehHHHHHhhHHHHhc----CCceEEEechhhhhcch--hhHHHHHHHHh--
Confidence 888999987432 1344689999999986432111111 23589999999999764 22232333333
Q ss_pred hhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccC-C-CHH------------------HHHHHhhccc---------
Q 000107 673 AAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATM-P-NVA------------------AVADWLQAAL--------- 723 (2191)
Q Consensus 673 ~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL-~-N~~------------------~la~wL~a~l--------- 723 (2191)
. ....++++.|. . |+. ++.+|+....
T Consensus 316 -~------------------------~~nrLLlTGTPLQNNL~ELWaLLnFllPdiF~~~e~F~swF~~~~~~~~~e~v~ 370 (971)
T KOG0385|consen 316 -K------------------------TDNRLLLTGTPLQNNLHELWALLNFLLPDIFNSAEDFDSWFDFTNCEGDQELVS 370 (971)
T ss_pred -c------------------------ccceeEeeCCcccccHHHHHHHHHhhchhhccCHHHHHHHHcccccccCHHHHH
Confidence 1 12346777773 2 333 3444544210
Q ss_pred -cccccccc--------------cceEE-EEecccccc---------------------chh---hHHHHHHHhhc----
Q 000107 724 -YETNFRPV--------------PLEEY-IKVGNAIYS---------------------KKM---DVVRTILTAAN---- 759 (2191)
Q Consensus 724 -~~~~~Rpv--------------pL~e~-i~~~~~~~~---------------------~~~---~~~r~l~~~~~---- 759 (2191)
.+...+|. |..+. +.++-.... .+. .++-.+.+..+
T Consensus 371 ~Lh~vL~pFlLRR~K~dVe~sLppKkE~~iyvgms~mQkk~Y~~iL~kdl~~~n~~~~~~k~kL~NI~mQLRKccnHPYL 450 (971)
T KOG0385|consen 371 RLHKVLRPFLLRRIKSDVEKSLPPKKELIIYVGMSSMQKKWYKAILMKDLDALNGEGKGEKTKLQNIMMQLRKCCNHPYL 450 (971)
T ss_pred HHHhhhhHHHHHHHHHhHhhcCCCcceeeEeccchHHHHHHHHHHHHhcchhhcccccchhhHHHHHHHHHHHhcCCccc
Confidence 01111111 11111 111111000 000 11111111100
Q ss_pred cC-----------------CCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHH
Q 000107 760 LG-----------------GKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITS 822 (2191)
Q Consensus 760 ~~-----------------~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~ 822 (2191)
.. ..+.-.+-.|+..+...|++||||..-.+ +-..|..++.
T Consensus 451 F~g~ePg~pyttdehLv~nSGKm~vLDkLL~~Lk~~GhRVLIFSQmt~----mLDILeDyc~------------------ 508 (971)
T KOG0385|consen 451 FDGAEPGPPYTTDEHLVTNSGKMLVLDKLLPKLKEQGHRVLIFSQMTR----MLDILEDYCM------------------ 508 (971)
T ss_pred cCCCCCCCCCCcchHHHhcCcceehHHHHHHHHHhCCCeEEEeHHHHH----HHHHHHHHHH------------------
Confidence 00 01112334566677778899999964322 2223333322
Q ss_pred HHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcC---CceEEEecccccccCCCCCceEEeecCCCCC
Q 000107 823 AIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKG---LVRVLTATSTLAAGVNLPARRVIFRQPRIGR 899 (2191)
Q Consensus 823 ~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G---~ikVLVATstLa~GVNLPav~VVI~~p~~g~ 899 (2191)
...|...-+-|.++.++|...++.|... ..-.|++|....-||||-+..+||-++.-
T Consensus 509 ------------------~R~y~ycRiDGSt~~eeR~~aI~~fn~~~s~~FiFlLSTRAGGLGINL~aADtVIlyDSD-- 568 (971)
T KOG0385|consen 509 ------------------LRGYEYCRLDGSTSHEEREDAIEAFNAPPSEKFIFLLSTRAGGLGINLTAADTVILYDSD-- 568 (971)
T ss_pred ------------------hcCceeEeecCCCCcHHHHHHHHhcCCCCcceEEEEEeccccccccccccccEEEEecCC--
Confidence 1234466688999999999999999854 34578899999999999998877644332
Q ss_pred cccCcccccccccccCCCCCCCceEEEEEeChhh
Q 000107 900 DFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEE 933 (2191)
Q Consensus 900 ~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e 933 (2191)
.++..=+|..-||-|-|+...-.+|.+++..-
T Consensus 569 --WNPQ~DLQAmDRaHRIGQ~K~V~V~RLitent 600 (971)
T KOG0385|consen 569 --WNPQVDLQAMDRAHRIGQKKPVVVYRLITENT 600 (971)
T ss_pred --CCchhhhHHHHHHHhhCCcCceEEEEEeccch
Confidence 25566679999999999888999999998754
No 153
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=99.19 E-value=2.7e-09 Score=148.45 Aligned_cols=68 Identities=12% Similarity=0.010 Sum_probs=56.3
Q ss_pred cCCCCCCHHHHHhhhh--cccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHH
Q 000107 520 RGISKLYPWQVECLHV--DGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAE 588 (2191)
Q Consensus 520 ~Gi~~l~p~Q~eal~~--~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~ 588 (2191)
.|| +++|-|.+-... ..+.+++.+++-||||+|||++|++|++......++++||-++|++|-.|...
T Consensus 254 ~~~-e~R~~Q~~m~~~v~~~l~~~~~~~iEA~TGtGKTlaYLlpa~~~a~~~~~~vvIsT~T~~LQ~Ql~~ 323 (928)
T PRK08074 254 PKY-EKREGQQEMMKEVYTALRDSEHALIEAGTGTGKSLAYLLPAAYFAKKKEEPVVISTYTIQLQQQLLE 323 (928)
T ss_pred CCC-cCCHHHHHHHHHHHHHHhcCCCEEEECCCCCchhHHHHHHHHHHhhccCCeEEEEcCCHHHHHHHHH
Confidence 355 789999884332 23557899999999999999999999987766678999999999999999875
No 154
>PF00271 Helicase_C: Helicase conserved C-terminal domain; InterPro: IPR001650 The domain, which defines this group of proteins is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase. The eukaryotic translation initiation factor 4A (eIF4A) is a member of the DEA(D/H)-box RNA helicase family This is a diverse group of proteins that couples an ATPase activity to RNA binding and unwinding. The structure of the carboxyl-terminal domain of eIF4A has been determined to 1.75 A resolution; it has a parallel alpha-beta topology that superimposes, with minor variations, on the structures and conserved motifs of the equivalent domain in other, distantly related helicases [].; GO: 0003676 nucleic acid binding, 0004386 helicase activity, 0005524 ATP binding; PDB: 2Z83_A 2JGN_C 2I4I_A 2BMF_A 2BHR_B 1WP9_E 2WAX_C 2WAY_C 3JUX_A 3DIN_B ....
Probab=99.17 E-value=3.4e-11 Score=117.41 Aligned_cols=73 Identities=32% Similarity=0.436 Sum_probs=66.9
Q ss_pred cCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecCCCCCcccCcccccccccccCCCC
Q 000107 842 LPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRIGRDFIDGTRYRQMAGRAGRTG 918 (2191)
Q Consensus 842 l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~~g~~~is~~~y~QmiGRAGR~G 918 (2191)
....+..+||+++..+|..+++.|++|..+|||||+++++|||+|.+++||.+..+ .+...|.|++||+||.|
T Consensus 6 ~~~~~~~i~~~~~~~~r~~~~~~f~~~~~~vli~t~~~~~Gid~~~~~~vi~~~~~----~~~~~~~Q~~GR~~R~g 78 (78)
T PF00271_consen 6 KGIKVAIIHGDMSQKERQEILKKFNSGEIRVLIATDILGEGIDLPDASHVIFYDPP----WSPEEYIQRIGRAGRIG 78 (78)
T ss_dssp TTSSEEEESTTSHHHHHHHHHHHHHTTSSSEEEESCGGTTSSTSTTESEEEESSSE----SSHHHHHHHHTTSSTTT
T ss_pred CCCcEEEEECCCCHHHHHHHHHHhhccCceEEEeeccccccccccccccccccccC----CCHHHHHHHhhcCCCCC
Confidence 45569999999999999999999999999999999999999999999999876553 48899999999999987
No 155
>PRK14873 primosome assembly protein PriA; Provisional
Probab=99.14 E-value=5.4e-10 Score=148.28 Aligned_cols=325 Identities=15% Similarity=0.102 Sum_probs=170.6
Q ss_pred EcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCC--------CCCCCc
Q 000107 547 CASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGS--------LPKDTS 618 (2191)
Q Consensus 547 ~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~--------l~~~~~ 618 (2191)
.+.+|||||.+|.-++ ...+..|+.+|+++|..+|+.|...+|+..|. +..|..+++..+... .....+
T Consensus 166 ~~~~GSGKTevyl~~i-~~~l~~Gk~vLvLvPEi~lt~q~~~rl~~~f~--~~~v~~lhS~l~~~~R~~~w~~~~~G~~~ 242 (665)
T PRK14873 166 QALPGEDWARRLAAAA-AATLRAGRGALVVVPDQRDVDRLEAALRALLG--AGDVAVLSAGLGPADRYRRWLAVLRGQAR 242 (665)
T ss_pred hcCCCCcHHHHHHHHH-HHHHHcCCeEEEEecchhhHHHHHHHHHHHcC--CCcEEEECCCCCHHHHHHHHHHHhCCCCc
Confidence 3346999999996554 45566799999999999999999999998774 256777888765421 234578
Q ss_pred eEEEchHHHHHHHHHhhhcCCCCccceEEEccccccccc-chh---HHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCC
Q 000107 619 VAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQ-NRG---YLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKA 694 (2191)
Q Consensus 619 IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~-~RG---~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~ 694 (2191)
|+|+|-.- -...+.++++|||||=|.-.-. .++ ..-+..+.+-+
T Consensus 243 IViGtRSA---------vFaP~~~LgLIIvdEEhd~sykq~~~p~yhaRdvA~~Ra~----------------------- 290 (665)
T PRK14873 243 VVVGTRSA---------VFAPVEDLGLVAIWDDGDDLLAEPRAPYPHAREVALLRAH----------------------- 290 (665)
T ss_pred EEEEccee---------EEeccCCCCEEEEEcCCchhhcCCCCCCccHHHHHHHHHH-----------------------
Confidence 99999543 2236889999999999975422 122 22333333332
Q ss_pred CCCCCceEEEEeccCCCHHHHHHHhhcccc-----c-cccccccceEEEEeccccccchhhHHHHHHHhhccCCCChhHH
Q 000107 695 DPAHGLQIVGMSATMPNVAAVADWLQAALY-----E-TNFRPVPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHI 768 (2191)
Q Consensus 695 ~~~~~iqII~mSATL~N~~~la~wL~a~l~-----~-~~~RpvpL~e~i~~~~~~~~~~~~~~r~l~~~~~~~~~d~d~l 768 (2191)
..++.+|+.|||. .++.+..-...... . ......|.-..+..... ... .........-...+
T Consensus 291 --~~~~~lvLgSaTP-Sles~~~~~~g~~~~~~~~~~~~~~~~P~v~~vd~~~~------~~~---~~~~~~g~~ls~~l 358 (665)
T PRK14873 291 --QHGCALLIGGHAR-TAEAQALVESGWAHDLVAPRPVVRARAPRVRALGDSGL------ALE---RDPAARAARLPSLA 358 (665)
T ss_pred --HcCCcEEEECCCC-CHHHHHHHhcCcceeeccccccccCCCCeEEEEeCchh------hhc---cccccccCccCHHH
Confidence 2467899999994 55544332221111 0 00111121111111000 000 00000001133456
Q ss_pred HHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHH---hhcc--cccCCCCchhh----hhHHH--------HHHhhcCC
Q 000107 769 VELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFL---KKFS--INVHSSDSEFI----DITSA--------IDALRRCP 831 (2191)
Q Consensus 769 ~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l---~~~~--~~~~~~~~~~~----~~~~~--------~~~L~~~~ 831 (2191)
...+.+.++.| ++|||+|.+..+-.+...=+... +... ...+....... ..... -..++...
T Consensus 359 ~~~i~~~L~~g-qvll~lnRrGyap~l~C~~Cg~~~~C~~C~~~L~~h~~~~~l~Ch~CG~~~~p~~Cp~Cgs~~l~~~g 437 (665)
T PRK14873 359 FRAARDALEHG-PVLVQVPRRGYVPSLACARCRTPARCRHCTGPLGLPSAGGTPRCRWCGRAAPDWRCPRCGSDRLRAVV 437 (665)
T ss_pred HHHHHHHHhcC-cEEEEecCCCCCCeeEhhhCcCeeECCCCCCceeEecCCCeeECCCCcCCCcCccCCCCcCCcceeee
Confidence 77888888888 99999998875332221111100 0000 00000000000 00000 00000000
Q ss_pred CC---CChhhhhhcC-CcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecc----cccccCCCCCceEEeecCC--CCCcc
Q 000107 832 AG---LDPVLEETLP-SGVAYHHAGLTVEEREVVETCYRKGLVRVLTATS----TLAAGVNLPARRVIFRQPR--IGRDF 901 (2191)
Q Consensus 832 ~g---ld~~L~~~l~-~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATs----tLa~GVNLPav~VVI~~p~--~g~~~ 901 (2191)
.| +.+.|...++ ..|... +++.+++.|. ++..|||+|. +++ | ++ ...+|++.+. ...++
T Consensus 438 ~Gter~eeeL~~~FP~~~V~r~-------d~d~~l~~~~-~~~~IlVGTqgaepm~~-g-~~-~lV~ildaD~~L~~pDf 506 (665)
T PRK14873 438 VGARRTAEELGRAFPGVPVVTS-------GGDQVVDTVD-AGPALVVATPGAEPRVE-G-GY-GAALLLDAWALLGRQDL 506 (665)
T ss_pred ccHHHHHHHHHHHCCCCCEEEE-------ChHHHHHhhc-cCCCEEEECCCCccccc-C-Cc-eEEEEEcchhhhcCCCc
Confidence 11 1223333333 123322 2345788897 5899999998 666 3 22 2233444321 11111
Q ss_pred c----CcccccccccccCCCCCCCceEEEEEeChh
Q 000107 902 I----DGTRYRQMAGRAGRTGIDTKGESMLICKPE 932 (2191)
Q Consensus 902 i----s~~~y~QmiGRAGR~G~d~~Ge~ill~~~~ 932 (2191)
- ....+.|-+|||||.. ..|++++...++
T Consensus 507 RA~Er~~qll~qvagragr~~--~~G~V~iq~~p~ 539 (665)
T PRK14873 507 RAAEDTLRRWMAAAALVRPRA--DGGQVVVVAESS 539 (665)
T ss_pred ChHHHHHHHHHHHHHhhcCCC--CCCEEEEEeCCC
Confidence 1 1224578999999987 689999886554
No 156
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=99.13 E-value=2.3e-10 Score=153.31 Aligned_cols=123 Identities=21% Similarity=0.279 Sum_probs=100.7
Q ss_pred hhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCC
Q 000107 765 PDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPS 844 (2191)
Q Consensus 765 ~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~ 844 (2191)
.+.+...+......+.++||||+|++.++.++..|... +.
T Consensus 432 ~~~L~~~L~~~~~~g~~viIf~~t~~~ae~L~~~L~~~----------------------------------------gi 471 (652)
T PRK05298 432 VDDLLSEIRKRVAKGERVLVTTLTKRMAEDLTDYLKEL----------------------------------------GI 471 (652)
T ss_pred HHHHHHHHHHHHhCCCEEEEEeCCHHHHHHHHHHHhhc----------------------------------------ce
Confidence 34555556666677899999999999999988887541 12
Q ss_pred cEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecCC--CCCcccCcccccccccccCCCCCCCc
Q 000107 845 GVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPR--IGRDFIDGTRYRQMAGRAGRTGIDTK 922 (2191)
Q Consensus 845 GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~--~g~~~is~~~y~QmiGRAGR~G~d~~ 922 (2191)
.+.++|+++++.+|..++..|+.|.+.|||||+.+++|+|+|.+.+||.+.. +| -+-+..+|+||+||+||.. .
T Consensus 472 ~~~~~h~~~~~~~R~~~l~~f~~g~i~vlV~t~~L~rGfdlp~v~lVii~d~eifG-~~~~~~~yiqr~GR~gR~~---~ 547 (652)
T PRK05298 472 KVRYLHSDIDTLERVEIIRDLRLGEFDVLVGINLLREGLDIPEVSLVAILDADKEG-FLRSERSLIQTIGRAARNV---N 547 (652)
T ss_pred eEEEEECCCCHHHHHHHHHHHHcCCceEEEEeCHHhCCccccCCcEEEEeCCcccc-cCCCHHHHHHHhccccCCC---C
Confidence 3788999999999999999999999999999999999999999998776432 22 1236778999999999964 8
Q ss_pred eEEEEEeCh
Q 000107 923 GESMLICKP 931 (2191)
Q Consensus 923 Ge~ill~~~ 931 (2191)
|.|+++++.
T Consensus 548 G~~i~~~~~ 556 (652)
T PRK05298 548 GKVILYADK 556 (652)
T ss_pred CEEEEEecC
Confidence 999999984
No 157
>KOG1000 consensus Chromatin remodeling protein HARP/SMARCAL1, DEAD-box superfamily [Chromatin structure and dynamics]
Probab=99.06 E-value=5.9e-08 Score=118.01 Aligned_cols=139 Identities=19% Similarity=0.238 Sum_probs=92.8
Q ss_pred CCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeE
Q 000107 522 ISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHV 601 (2191)
Q Consensus 522 i~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V 601 (2191)
+..|.|+|.+-+.. ++..|..+++.-.-|-|||+.| ++|..... .....|+|+|- ++-....+.+..++.... .|
T Consensus 196 vs~LlPFQreGv~f-aL~RgGR~llADeMGLGKTiQA-laIA~yyr-aEwplliVcPA-svrftWa~al~r~lps~~-pi 270 (689)
T KOG1000|consen 196 VSRLLPFQREGVIF-ALERGGRILLADEMGLGKTIQA-LAIARYYR-AEWPLLIVCPA-SVRFTWAKALNRFLPSIH-PI 270 (689)
T ss_pred HHhhCchhhhhHHH-HHhcCCeEEEecccccchHHHH-HHHHHHHh-hcCcEEEEecH-HHhHHHHHHHHHhccccc-ce
Confidence 34678999999975 5788999999999999999998 44544433 45568889995 344455666666665432 24
Q ss_pred EEEeccCCC-CCCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHH
Q 000107 602 RSYYGNQGG-GSLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKL 670 (2191)
Q Consensus 602 ~~~~G~~~~-~~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kL 670 (2191)
.++.+.... ..+.....|.|.+++.+..+-+.+.. .+.++||+||.|++-+. +......++..+
T Consensus 271 ~vv~~~~D~~~~~~t~~~v~ivSye~ls~l~~~l~~----~~~~vvI~DEsH~Lk~s-ktkr~Ka~~dll 335 (689)
T KOG1000|consen 271 FVVDKSSDPLPDVCTSNTVAIVSYEQLSLLHDILKK----EKYRVVIFDESHMLKDS-KTKRTKAATDLL 335 (689)
T ss_pred EEEecccCCccccccCCeEEEEEHHHHHHHHHHHhc----ccceEEEEechhhhhcc-chhhhhhhhhHH
Confidence 444454432 23445568999999987665544322 34799999999999875 333344443333
No 158
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=99.03 E-value=2.2e-08 Score=132.05 Aligned_cols=130 Identities=18% Similarity=0.149 Sum_probs=95.4
Q ss_pred cCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCC
Q 000107 520 RGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGR 599 (2191)
Q Consensus 520 ~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~ 599 (2191)
.|. ++|+.|.-.- +.-.+--|.-+.||-|||+++.+|+.-..+ .|+.+-+|.+...||..=++++..++..+|+
T Consensus 82 lG~-r~ydVQliGg----l~Lh~G~IAEM~TGEGKTL~atlpaylnAL-~GkgVhVVTvNdYLA~RDae~m~~vy~~LGL 155 (939)
T PRK12902 82 LGM-RHFDVQLIGG----MVLHEGQIAEMKTGEGKTLVATLPSYLNAL-TGKGVHVVTVNDYLARRDAEWMGQVHRFLGL 155 (939)
T ss_pred hCC-CcchhHHHhh----hhhcCCceeeecCCCChhHHHHHHHHHHhh-cCCCeEEEeCCHHHHHhHHHHHHHHHHHhCC
Confidence 565 6788886543 323455678999999999999998876555 5888999999999999999999999999999
Q ss_pred eEEEEeccCCCCC--CCCCCceEEEchHHH--HHHHHHhh---hcCCCCccceEEEccccccc
Q 000107 600 HVRSYYGNQGGGS--LPKDTSVAVCTIEKA--NSLVNRML---EEGRLSEIGIIVIDELHMVA 655 (2191)
Q Consensus 600 ~V~~~~G~~~~~~--l~~~~~IiV~TpEkl--~~Ll~~l~---~~~~L~~l~lVVIDEaH~l~ 655 (2191)
.|+...++..... ..-.+||+++|...+ +.|-.++. .......+.+.||||+|.|.
T Consensus 156 tvg~i~~~~~~~err~aY~~DItYgTn~e~gFDYLRDnm~~~~~~~vqR~~~faIVDEvDSIL 218 (939)
T PRK12902 156 SVGLIQQDMSPEERKKNYACDITYATNSELGFDYLRDNMATDISEVVQRPFNYCVIDEVDSIL 218 (939)
T ss_pred eEEEECCCCChHHHHHhcCCCeEEecCCcccccchhhhhcccccccccCccceEEEeccccee
Confidence 9998766443211 112589999999875 22322322 12245678999999999764
No 159
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=99.03 E-value=6.2e-09 Score=137.56 Aligned_cols=130 Identities=15% Similarity=0.137 Sum_probs=94.5
Q ss_pred cCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCC
Q 000107 520 RGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGR 599 (2191)
Q Consensus 520 ~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~ 599 (2191)
.|+ ++|+.|.-.. +.-.+.-|.-+.||.|||+++.+|+.-..+ .|+.|-+|.++..||..-++++..++..+|+
T Consensus 73 lG~-r~ydvQlig~----l~L~~G~IaEm~TGEGKTL~a~l~ayl~aL-~G~~VhVvT~NdyLA~RD~e~m~pvy~~LGL 146 (870)
T CHL00122 73 LGL-RHFDVQLIGG----LVLNDGKIAEMKTGEGKTLVATLPAYLNAL-TGKGVHIVTVNDYLAKRDQEWMGQIYRFLGL 146 (870)
T ss_pred hCC-CCCchHhhhh----HhhcCCccccccCCCCchHHHHHHHHHHHh-cCCceEEEeCCHHHHHHHHHHHHHHHHHcCC
Confidence 576 5888887543 333566788999999999999998864444 5888999999999999999999999999999
Q ss_pred eEEEEeccCCCCC--CCCCCceEEEchHHHH-HHHH-Hhh---hcCCCCccceEEEccccccc
Q 000107 600 HVRSYYGNQGGGS--LPKDTSVAVCTIEKAN-SLVN-RML---EEGRLSEIGIIVIDELHMVA 655 (2191)
Q Consensus 600 ~V~~~~G~~~~~~--l~~~~~IiV~TpEkl~-~Ll~-~l~---~~~~L~~l~lVVIDEaH~l~ 655 (2191)
.|+...++..... ..=.++|+++|..-+- +.++ ++. .......+.+.||||+|-+.
T Consensus 147 svg~i~~~~~~~err~aY~~DItYgTn~e~gFDyLRDnm~~~~~~~v~r~~~faIVDEvDSiL 209 (870)
T CHL00122 147 TVGLIQEGMSSEERKKNYLKDITYVTNSELGFDYLRDNMALSLSDVVQRPFNYCIIDEVDSIL 209 (870)
T ss_pred ceeeeCCCCChHHHHHhcCCCCEecCCccccccchhhccCcChHHhhccccceeeeecchhhe
Confidence 9988766543211 1124789999986542 2333 221 11234568899999999664
No 160
>KOG3657 consensus Mitochondrial DNA polymerase gamma, catalytic subunit [Replication, recombination and repair]
Probab=99.01 E-value=1e-09 Score=138.81 Aligned_cols=222 Identities=20% Similarity=0.265 Sum_probs=145.4
Q ss_pred CcccccccccccccccccCCCeEEEEeccchhHHHHHHHhcC---C-----hH----HHHHhcCCCchHHHHHHHHHcCC
Q 000107 1911 NAEVDHCKINARDFFIPSQENWILLAADYSQIELRLMAHFSK---D-----PA----LIGLLSKPHGDVFTMIAARWTGR 1978 (2191)
Q Consensus 1911 ~~~~~~~~~~iR~~Fi~~~~G~~lvsaDySQIELRilAhlS~---D-----~~----Li~af~~~g~Dih~~~Aa~~~g~ 1978 (2191)
++..+++...+|.+.+++ +||.||+||-...|+-|.|.|+. | .+ .++-..+.|.|.|+.+|..+ |+
T Consensus 713 Ns~~~Rigselkamvqap-pgy~LVgaDvdsqElwiaa~lgda~~~~~hg~ta~gwM~Lag~ks~gtdlhs~ta~~l-gi 790 (1075)
T KOG3657|consen 713 NARPDRIGSELKAMVQAP-PGYRLVGADVDSQELWIAALLGDASAEGVHGKTAFGWMTLAGSKSDGTDLHSKTASQL-GI 790 (1075)
T ss_pred ccChhhhhHHHHHhhcCC-CcceEeeccccHHHHHHHHHhhhhhhhcccCcchhhhhhhcCccccCchHhHhhhhhc-cc
Confidence 344566666899999997 99999999999999999888763 1 11 11112223789999998765 44
Q ss_pred CCCCCChhhhcccchhhhhhhcCCChhhhhh---hcC--CCHHHHHHHHHHHHHhChhHH-HHHHHHHHHHHhc------
Q 000107 1979 SEDSVGSQERDQTKRLIYGILYGMGPNTLSE---QLN--CSSNEAKEKIKSFKSSFPGVA-SWLHVAVSSCHQK------ 2046 (2191)
Q Consensus 1979 ~~e~Vt~~~R~~AK~i~fGiiYGmG~~~La~---~l~--is~~eA~~~i~~f~~~yp~v~-~~~~~~~~~a~~~------ 2046 (2191)
.|..||.+|||-|||.|..--.+ +.+ .+.+||+..-...|..-.|-+ ..++..+....+.
T Consensus 791 --------Sr~hakv~Ny~riygag~~fa~~ll~~fnp~l~~~Ea~~~A~~l~~~tkG~~~~rlk~e~~~~e~~~~~~~~ 862 (1075)
T KOG3657|consen 791 --------SRNHAKVFNYARIYGAGQTFAEKLLMRFNPSLTQSEAKSKASQLFKLTKGDRAKRLKVEVRMVENSLVCKIL 862 (1075)
T ss_pred --------cHhhhhhccHHHHhcCCcchHHHhHHhhCCCCchHHHHHHHHHHHHhhcCceeeehHhHHHHhhhhhhchhh
Confidence 59999999999999999653222 222 788999988777777777632 2222221111111
Q ss_pred ----CeE------EcccCCeeecCcccCCC-----------------------h-----hhh-hhhhhhhhHhhhHHHHH
Q 000107 2047 ----GYV------ESLKGRKRFLSKIKFGN-----------------------N-----KEK-SKAQRQAVNSICQGSAA 2087 (2191)
Q Consensus 2047 ----GyV------~Tl~GRrr~lp~i~s~~-----------------------~-----~~r-~~aeRqAvNt~iQGsAA 2087 (2191)
+|+ --..-||...-+-.|.. . ..+ ..--+.-+|++||.||-
T Consensus 863 ~~~~~~~~~~~~~~~~~~~~~w~gg~es~~fn~lesia~~~~prtpvlgc~is~sl~~~~~~~~~f~~srinwvvqssav 942 (1075)
T KOG3657|consen 863 TIDGIYLIYSIYENEVEPRRLWVGGTESSMFNKLESIATAHDPRTPVLGCQISRSLEKLPEGEPKFLPSRINWVVQSSAV 942 (1075)
T ss_pred hhhhhhhhhhhhhcccchhhhccCchHHHHHHHHHHHhhccCCCCCeeccchhhhhcccccCCcccccceeeEEeeccch
Confidence 110 00001111111100000 0 000 01235669999999999
Q ss_pred HHHHHHHHHHHHHHHcCCCCCCChhhhhhhccCCceeEEEEecceeeeeeChhhHHHHH--HHHHHHHhccc
Q 000107 2088 DIIKIAMINIHSIIVGGVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAV--SLVQKCMESAA 2157 (2191)
Q Consensus 2088 DI~K~Ami~i~~~l~~~~~~~~~~~~~~~~~~~~~~~lvlqVHDELv~Evp~~~~~~v~--~~vk~~Me~a~ 2157 (2191)
|.+.+-++.+.-.+..+ +.++|+++.||||+-|-|.|++...+| -.|.++|..|+
T Consensus 943 d~lhlllvsm~wl~~~y---------------~i~~rfcisihdevrylv~e~d~~raalalqisnl~tr~~ 999 (1075)
T KOG3657|consen 943 DFLHLLLVSMQWLCDTY---------------KIDARFCISIHDEVRYLVKEEDAPRAALALQISNLLTRAM 999 (1075)
T ss_pred hHHHHHHHHHHHHHhhc---------------ccceEEEEEehHhHHHHhcccccHHHHHHHHHHHHHHHHH
Confidence 99999999998777665 678999999999999999999886654 44556676664
No 161
>cd06142 RNaseD_exo DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins. Ribonuclease (RNase) D is a bacterial enzyme involved in the maturation of small stable RNAs and the 3' maturation of tRNA. It contains a DEDDy-type DnaQ-like 3'-5' exonuclease domain possessing three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. In vivo, RNase D only becomes essential upon removal of other ribonucleases. Eukaryotic RNase D homologs include yeast Rrp6p, human PM/Scl-100, and the Drosophila melanogaster egalitarian protein.
Probab=99.00 E-value=6.8e-09 Score=117.44 Aligned_cols=171 Identities=15% Similarity=0.174 Sum_probs=117.4
Q ss_pred HHHHHHHhhCCeEEEEeeccCCcccCCCccceEEEEEEEEeCCcEEEEeCCCCcccccccccchhccCCCCCCCCChhhH
Q 000107 1499 DCFLDRWEATHEFYFDIHYDKHSEANSGVLFEIHGLAVCWENSPVYYVNLPKDLWSDHRRKDRFLIYGSSDKNVLTPEHQ 1578 (2191)
Q Consensus 1499 ~~~l~~~~~~~~~afD~e~~~~~~~~s~~~~~i~Gia~~~~~~~ayYi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1578 (2191)
..++..+...+.++||++..+. ....-.+.|+++|.+ +.+||+++.. . .
T Consensus 3 ~~~~~~l~~~~~l~~~~e~~~~----~~~~~~~~~i~l~~~-~~~~~i~~~~-~-~------------------------ 51 (178)
T cd06142 3 EDLCERLASAGVIAVDTEFMRL----NTYYPRLCLIQISTG-GEVYLIDPLA-I-G------------------------ 51 (178)
T ss_pred HHHHHHHhcCCeEEEECCccCC----CcCCCceEEEEEeeC-CCEEEEeCCC-c-c------------------------
Confidence 3445445445588999854321 011235889999977 5588887531 0 0
Q ss_pred HHHHHHHHHHHHHhhccCCccEEEechHHHHHHHHhc-CcccccccCccccccccccccccccccccccCCCCccchHHH
Q 000107 1579 LEMIKQRWKRIGEIMEKRDVRKFTWNMKVQIQVLKHA-AVSIQRFGGLNLVGTSLGLENVGSSFLLLSPVHLKDGIDMCI 1657 (2191)
Q Consensus 1579 ~~~~~~~~~~L~~lLe~~~v~kv~hNlK~dl~vL~~~-gi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~l 1657 (2191)
.+..|+++|+++++.|++||+|++++.|.++ |+. .+ ..+|+++
T Consensus 52 ------~~~~l~~ll~~~~i~kv~~d~K~~~~~L~~~~gi~-~~-----------------------------~~~D~~l 95 (178)
T cd06142 52 ------DLSPLKELLADPNIVKVFHAAREDLELLKRDFGIL-PQ-----------------------------NLFDTQI 95 (178)
T ss_pred ------cHHHHHHHHcCCCceEEEeccHHHHHHHHHHcCCC-CC-----------------------------CcccHHH
Confidence 1245788999999999999999999999876 776 32 1589999
Q ss_pred HHHhcCCCCCCCCchhHHHHHHHhhChHHHHHhhccCchh-hhhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 000107 1658 VSWILWPDDERSSNPNLEKEVKKRLSSEAAAAANRSGRWK-NQMRRAAHNGCCRRVAQTRALCSVLWKLLVSEELIEALL 1736 (2191)
Q Consensus 1658 AawLL~P~~~~~~l~~L~~~~~~~l~~e~~~~~~~~g~~~-~~~~~~~~~ya~~Da~~t~~L~~~L~~~L~~~~L~~l~~ 1736 (2191)
|+||++|+.. + +|..++.++++..... ....++|. .++......|++.|+.++++|+..|.++|++.++.++|
T Consensus 96 aayLl~p~~~-~---~l~~l~~~~l~~~~~~-~~~~~~w~~~~l~~~~~~yaa~~a~~l~~L~~~l~~~L~e~~l~~L~- 169 (178)
T cd06142 96 AARLLGLGDS-V---GLAALVEELLGVELDK-GEQRSDWSKRPLTDEQLEYAALDVRYLLPLYEKLKEELEEEGRLEWA- 169 (178)
T ss_pred HHHHhCCCcc-c---cHHHHHHHHhCCCCCc-ccccccCCCCCCCHHHHHHHHHhHHHHHHHHHHHHHHHHHcCcHHHH-
Confidence 9999999743 3 4666666666544211 11234443 22334456799999999999999999999999999987
Q ss_pred hhhhhH
Q 000107 1737 NIEIPL 1742 (2191)
Q Consensus 1737 ~iEmpl 1742 (2191)
.+|+..
T Consensus 170 ~~~~~~ 175 (178)
T cd06142 170 EEECEL 175 (178)
T ss_pred HHHHHH
Confidence 456654
No 162
>COG4889 Predicted helicase [General function prediction only]
Probab=98.95 E-value=7.4e-09 Score=131.31 Aligned_cols=146 Identities=16% Similarity=0.232 Sum_probs=93.5
Q ss_pred CCcCCCCcHHHHHHHHHcCCCCCCHHHHHhhhhc--ccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhH
Q 000107 503 LDLSSWLPSEICSIYKKRGISKLYPWQVECLHVD--GVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYV 580 (2191)
Q Consensus 503 l~L~~~Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~--~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~r 580 (2191)
+|+.-.-|.++...+.-+.-.+|+|+|++|+... ++..+..-=+.+..|+|||+.++ -|.+.+. ..++||++|..
T Consensus 140 IDW~~f~p~e~~~nl~l~~~kk~R~hQq~Aid~a~~~F~~n~RGkLIMAcGTGKTfTsL-kisEala--~~~iL~LvPSI 216 (1518)
T COG4889 140 IDWDIFDPTELQDNLPLKKPKKPRPHQQTAIDAAKEGFSDNDRGKLIMACGTGKTFTSL-KISEALA--AARILFLVPSI 216 (1518)
T ss_pred CChhhcCccccccccccCCCCCCChhHHHHHHHHHhhcccccCCcEEEecCCCccchHH-HHHHHHh--hhheEeecchH
Confidence 4443333333333333334468999999999751 12223333344557999999984 3444443 37899999999
Q ss_pred HHHHHHHHHHHHHhhccCCeEEEEeccCCCCC-----------------------------CCCCCceEEEchHHHHHHH
Q 000107 581 SICAEKAEHLEVLLEPLGRHVRSYYGNQGGGS-----------------------------LPKDTSVAVCTIEKANSLV 631 (2191)
Q Consensus 581 aLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~-----------------------------l~~~~~IiV~TpEkl~~Ll 631 (2191)
+|..|..++|..- ..+.++...+.++...+. ...+.-|++||+..+..+-
T Consensus 217 sLLsQTlrew~~~-~~l~~~a~aVcSD~kvsrs~eDik~sdl~~p~sT~~~~il~~~~~~~k~~~~~vvFsTYQSl~~i~ 295 (1518)
T COG4889 217 SLLSQTLREWTAQ-KELDFRASAVCSDDKVSRSAEDIKASDLPIPVSTDLEDILSEMEHRQKANGLTVVFSTYQSLPRIK 295 (1518)
T ss_pred HHHHHHHHHHhhc-cCccceeEEEecCccccccccccccccCCCCCcccHHHHHHHHHHhhccCCcEEEEEcccchHHHH
Confidence 9999999888653 334555555555432211 1123469999998876554
Q ss_pred HHhhhcCCCCccceEEEcccccc
Q 000107 632 NRMLEEGRLSEIGIIVIDELHMV 654 (2191)
Q Consensus 632 ~~l~~~~~L~~l~lVVIDEaH~l 654 (2191)
.. ...-+..+++||.||+|+-
T Consensus 296 eA--Qe~G~~~fDliicDEAHRT 316 (1518)
T COG4889 296 EA--QEAGLDEFDLIICDEAHRT 316 (1518)
T ss_pred HH--HHcCCCCccEEEecchhcc
Confidence 33 4557889999999999984
No 163
>smart00474 35EXOc 3'-5' exonuclease. 3\' -5' exonuclease proofreading domain present in DNA polymerase I, Werner syndrome helicase, RNase D and other enzymes
Probab=98.94 E-value=1.3e-08 Score=113.92 Aligned_cols=167 Identities=14% Similarity=0.203 Sum_probs=111.2
Q ss_pred eccCcccHHHHHHHHh-hCCeEEEEeeccCCcccCCCccceEEEEEEEEeCCcEEEEeCCCCcccccccccchhccCCCC
Q 000107 1491 AINASGGFDCFLDRWE-ATHEFYFDIHYDKHSEANSGVLFEIHGLAVCWENSPVYYVNLPKDLWSDHRRKDRFLIYGSSD 1569 (2191)
Q Consensus 1491 ~v~~~~~~~~~l~~~~-~~~~~afD~e~~~~~~~~s~~~~~i~Gia~~~~~~~ayYi~l~~~~~~~~~~~~~~~~~~~~~ 1569 (2191)
++++...+..+++++. ....+++|++..+. ....-.+.|+++|+. +..+|++.....
T Consensus 3 ~i~~~~~~~~~~~~~~~~~~~l~~~~e~~~~----~~~~~~~~~l~l~~~-~~~~~i~~~~~~----------------- 60 (172)
T smart00474 3 VVTDSETLEELLEKLRAAGGEVALDTETTGL----NSYSGKLVLIQISVT-GEGAFIIDPLAL----------------- 60 (172)
T ss_pred EecCHHHHHHHHHHHHhcCCeEEEeccccCC----ccCCCCEEEEEEeEc-CCceEEEEeccc-----------------
Confidence 4556666677666665 45689999865321 011235889999975 446787632110
Q ss_pred CCCCChhhHHHHHHHHHHHHHHhhccCCccEEEechHHHHHHHHhcCcccccccCccccccccccccccccccccccCCC
Q 000107 1570 KNVLTPEHQLEMIKQRWKRIGEIMEKRDVRKFTWNMKVQIQVLKHAAVSIQRFGGLNLVGTSLGLENVGSSFLLLSPVHL 1649 (2191)
Q Consensus 1570 ~~~~~~~~~~~~~~~~~~~L~~lLe~~~v~kv~hNlK~dl~vL~~~gi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1649 (2191)
...+..++++|++..+.|++||+|+++++|+++|+.+.+
T Consensus 61 -------------~~~~~~l~~~l~~~~~~kv~~d~k~~~~~L~~~gi~~~~---------------------------- 99 (172)
T smart00474 61 -------------GDDLEILKDLLEDETITKVGHNAKFDLHVLARFGIELEN---------------------------- 99 (172)
T ss_pred -------------hhhHHHHHHHhcCCCceEEEechHHHHHHHHHCCCcccc----------------------------
Confidence 011345788999999999999999999999887776543
Q ss_pred CccchHHHHHHhcCCCCCCCCchhHHHHHHHhhChHHHHHhhccCchhhh-hHHHHhhhHHHHHHHHHHHHHHHHHHH
Q 000107 1650 KDGIDMCIVSWILWPDDERSSNPNLEKEVKKRLSSEAAAAANRSGRWKNQ-MRRAAHNGCCRRVAQTRALCSVLWKLL 1726 (2191)
Q Consensus 1650 ~~~~Dt~lAawLL~P~~~~~~l~~L~~~~~~~l~~e~~~~~~~~g~~~~~-~~~~~~~ya~~Da~~t~~L~~~L~~~L 1726 (2191)
.+||++|+||++|....+ +|..++..+++.......+ .+.|... ....+..|++.|+.++++|++.|.++|
T Consensus 100 --~~D~~laayll~p~~~~~---~l~~l~~~~l~~~~~~~~~-~~~~~~~~l~~~~~~ya~~~a~~~~~L~~~l~~~l 171 (172)
T smart00474 100 --IFDTMLAAYLLLGGPSKH---GLATLLKEYLGVELDKEEQ-KSDWGARPLSEEQLQYAAEDADALLRLYEKLEKEL 171 (172)
T ss_pred --hhHHHHHHHHHcCCCCcC---CHHHHHHHHhCCCCCcccC-ccccccCCCCHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 389999999999975434 4666666666544211112 2344221 123356699999999999999988765
No 164
>TIGR01388 rnd ribonuclease D. This model describes ribonuclease D, a 3'-exonuclease shown to act on tRNA both in vitro and when overexpressed in vivo. Trusted members of this family are restricted to the Proteobacteria; Aquifex, Mycobacterial, and eukaryotic homologs are not full-length homologs. Ribonuclease D is not essential in E. coli and is deleterious when overexpressed. Its precise biological role is still unknown.
Probab=98.93 E-value=1.2e-08 Score=128.16 Aligned_cols=177 Identities=12% Similarity=0.106 Sum_probs=124.2
Q ss_pred ccCcccHHHHHHHHhhCCeEEEEeeccCCcccCCCccce-EEEEEEEEeCCcEEEEeCCCCcccccccccchhccCCCCC
Q 000107 1492 INASGGFDCFLDRWEATHEFYFDIHYDKHSEANSGVLFE-IHGLAVCWENSPVYYVNLPKDLWSDHRRKDRFLIYGSSDK 1570 (2191)
Q Consensus 1492 v~~~~~~~~~l~~~~~~~~~afD~e~~~~~~~~s~~~~~-i~Gia~~~~~~~ayYi~l~~~~~~~~~~~~~~~~~~~~~~ 1570 (2191)
|++..++..+++.+...+.++||+|+.+.. ..++ +.-|.++. ++.+|.|+.-..
T Consensus 2 I~t~~~l~~~~~~l~~~~~ia~DtE~~~~~-----~y~~~l~LiQia~-~~~~~liD~~~~------------------- 56 (367)
T TIGR01388 2 ITTDDELATVCEAVRTFPFVALDTEFVRER-----TFWPQLGLIQVAD-GEQLALIDPLVI------------------- 56 (367)
T ss_pred cCCHHHHHHHHHHHhcCCEEEEeccccCCC-----CCCCcceEEEEee-CCeEEEEeCCCc-------------------
Confidence 567888999999999999999999986431 1122 33345554 445666654210
Q ss_pred CCCChhhHHHHHHHHHHHHHHhhccCCccEEEechHHHHHHHHhcCcccccccCccccccccccccccccccccccCCCC
Q 000107 1571 NVLTPEHQLEMIKQRWKRIGEIMEKRDVRKFTWNMKVQIQVLKHAAVSIQRFGGLNLVGTSLGLENVGSSFLLLSPVHLK 1650 (2191)
Q Consensus 1571 ~~~~~~~~~~~~~~~~~~L~~lLe~~~v~kv~hNlK~dl~vL~~~gi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1650 (2191)
..+..|.++|+++++.|++||+|+|+.+|++.+...++
T Consensus 57 -------------~~~~~L~~lL~d~~i~KV~h~~k~Dl~~L~~~~~~~~~----------------------------- 94 (367)
T TIGR01388 57 -------------IDWSPLKELLRDESVVKVLHAASEDLEVFLNLFGELPQ----------------------------- 94 (367)
T ss_pred -------------ccHHHHHHHHCCCCceEEEeecHHHHHHHHHHhCCCCC-----------------------------
Confidence 01346788999999999999999999999876443332
Q ss_pred ccchHHHHHHhcCCCCCCCCchhHHHHHHHhhChHHHHHhhccCch-hhhhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Q 000107 1651 DGIDMCIVSWILWPDDERSSNPNLEKEVKKRLSSEAAAAANRSGRW-KNQMRRAAHNGCCRRVAQTRALCSVLWKLLVSE 1729 (2191)
Q Consensus 1651 ~~~Dt~lAawLL~P~~~~~~l~~L~~~~~~~l~~e~~~~~~~~g~~-~~~~~~~~~~ya~~Da~~t~~L~~~L~~~L~~~ 1729 (2191)
..|||++|+||++|+.. + +|..++.++++.+..+. .+...| ..++...+..||+.||.+++.||..|..+|.+.
T Consensus 95 ~~fDtqlAa~lL~~~~~-~---~l~~Lv~~~Lg~~l~K~-~~~sdW~~rPL~~~q~~YAa~Dv~~L~~L~~~L~~~L~~~ 169 (367)
T TIGR01388 95 PLFDTQIAAAFCGFGMS-M---GYAKLVQEVLGVELDKS-ESRTDWLARPLTDAQLEYAAADVTYLLPLYAKLMERLEES 169 (367)
T ss_pred CcccHHHHHHHhCCCCC-c---cHHHHHHHHcCCCCCcc-cccccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 25999999999998643 3 57777888877664322 122335 334445577899999999999999999999877
Q ss_pred HHHHHHHhhhhh
Q 000107 1730 ELIEALLNIEIP 1741 (2191)
Q Consensus 1730 ~L~~l~~~iEmp 1741 (2191)
+....+ ..|+.
T Consensus 170 g~~~w~-~ee~~ 180 (367)
T TIGR01388 170 GRLAWL-EEECT 180 (367)
T ss_pred CcHHHH-HHHHH
Confidence 665543 33554
No 165
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=98.92 E-value=4.8e-08 Score=132.76 Aligned_cols=73 Identities=16% Similarity=0.048 Sum_probs=60.1
Q ss_pred cCCCCCCHHHHHhhhh--cccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHH
Q 000107 520 RGISKLYPWQVECLHV--DGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEV 592 (2191)
Q Consensus 520 ~Gi~~l~p~Q~eal~~--~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~ 592 (2191)
....++++.|.+.+.. ..+..++.+++-||||+|||+.|+++++......+++++|.++|+.|-.|..++...
T Consensus 11 ~~~~~~r~~Q~~~~~~v~~a~~~~~~~~iEapTGtGKTl~yL~~al~~~~~~~~~viist~t~~lq~q~~~~~~~ 85 (654)
T COG1199 11 FPGFEPRPEQREMAEAVAEALKGGEGLLIEAPTGTGKTLAYLLPALAYAREEGKKVIISTRTKALQEQLLEEDLP 85 (654)
T ss_pred CCCCCCCHHHHHHHHHHHHHHcCCCcEEEECCCCccHHHHHHHHHHHHHHHcCCcEEEECCCHHHHHHHHHhhcc
Confidence 3445899999988753 123456779999999999999999999998888889999999999999998876543
No 166
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]
Probab=98.87 E-value=1.7e-07 Score=120.04 Aligned_cols=328 Identities=18% Similarity=0.217 Sum_probs=190.4
Q ss_pred CCCCHHHHHhhhhcc--cccCCeEEEEcCCCCchhHHHH--HHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccC
Q 000107 523 SKLYPWQVECLHVDG--VLQRRNLVYCASTSAGKSFVAE--ILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLG 598 (2191)
Q Consensus 523 ~~l~p~Q~eal~~~~--il~gknlIi~APTGSGKTlvae--l~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg 598 (2191)
..|+++|++++.... ..++.--|+.-.-|=|||.... |+.|.+--.--+.+|||+|. .+..|...+|..++..
T Consensus 204 ~~Lf~yQreGV~WL~~L~~q~~GGILgDeMGLGKTIQiisFLaaL~~S~k~~~paLIVCP~-Tii~qW~~E~~~w~p~-- 280 (923)
T KOG0387|consen 204 SKLFPYQREGVQWLWELYCQRAGGILGDEMGLGKTIQIISFLAALHHSGKLTKPALIVCPA-TIIHQWMKEFQTWWPP-- 280 (923)
T ss_pred HHhhHHHHHHHHHHHHHHhccCCCeecccccCccchhHHHHHHHHhhcccccCceEEEccH-HHHHHHHHHHHHhCcc--
Confidence 578999999998611 1256778999999999996543 33333210112589999996 6678888888888764
Q ss_pred CeEEEEeccCCCCC-----------------CCCCCceEEEchHHHHHHHHHhhhcCC-CCccceEEEcccccccccchh
Q 000107 599 RHVRSYYGNQGGGS-----------------LPKDTSVAVCTIEKANSLVNRMLEEGR-LSEIGIIVIDELHMVADQNRG 660 (2191)
Q Consensus 599 ~~V~~~~G~~~~~~-----------------l~~~~~IiV~TpEkl~~Ll~~l~~~~~-L~~l~lVVIDEaH~l~d~~RG 660 (2191)
++|..++|...... ...+..|+|+|++.+--. ++.. =...+++|+||.|.|-.+
T Consensus 281 ~rv~ilh~t~s~~r~~~~~~~~~~~~~L~r~~~~~~~ilitty~~~r~~-----~d~l~~~~W~y~ILDEGH~IrNp--- 352 (923)
T KOG0387|consen 281 FRVFILHGTGSGARYDASHSSHKKDKLLIRKVATDGGILITTYDGFRIQ-----GDDLLGILWDYVILDEGHRIRNP--- 352 (923)
T ss_pred eEEEEEecCCcccccccchhhhhhhhhheeeecccCcEEEEehhhhccc-----CcccccccccEEEecCcccccCC---
Confidence 57888887654211 122467999999875221 1111 124689999999999654
Q ss_pred HHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccC-C-CHHHHHHHhh---cc------ccccccc
Q 000107 661 YLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATM-P-NVAAVADWLQ---AA------LYETNFR 729 (2191)
Q Consensus 661 ~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL-~-N~~~la~wL~---a~------l~~~~~R 729 (2191)
..+.-++.... ...+.|+||.|. - |+.++...++ .. .|...|.
T Consensus 353 -ns~islackki-------------------------~T~~RiILSGTPiQNnL~ELwsLfDFv~PG~Lgt~~~F~~~f~ 406 (923)
T KOG0387|consen 353 -NSKISLACKKI-------------------------RTVHRIILSGTPIQNNLTELWSLFDFVFPGKLGTLPVFQQNFE 406 (923)
T ss_pred -ccHHHHHHHhc-------------------------cccceEEeeCccccchHHHHHHHhhhccCCcccchHHHHhhhh
Confidence 33433433321 234678888883 2 4666554332 11 1211111
Q ss_pred cccceE--EEEe----------------------------------------ccccccchhhHHHHHHHh----------
Q 000107 730 PVPLEE--YIKV----------------------------------------GNAIYSKKMDVVRTILTA---------- 757 (2191)
Q Consensus 730 pvpL~e--~i~~----------------------------------------~~~~~~~~~~~~r~l~~~---------- 757 (2191)
+|+.. |-.. ...++..-...-+.++..
T Consensus 407 -~pI~~GgyaNAs~~qv~~aykca~~Lr~lI~PylLRR~K~dv~~~~Lp~K~E~VlfC~LT~~QR~~Y~~fl~s~~v~~i 485 (923)
T KOG0387|consen 407 -HPINRGGYANASPRQVQTAYKCAVALRDLISPYLLRRMKSDVKGLKLPKKEEIVLFCRLTKLQRRLYQRFLNSSEVNKI 485 (923)
T ss_pred -hheeccccCCCCHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhhccCCCccceEEEEeccHHHHHHHHHHhhhHHHHHH
Confidence 01000 0000 000000000000000000
Q ss_pred -----------------------------hccCC----------CChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHH
Q 000107 758 -----------------------------ANLGG----------KDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARH 798 (2191)
Q Consensus 758 -----------------------------~~~~~----------~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~ 798 (2191)
..... .....+..++....+.|..+|+|..++....-+-..
T Consensus 486 ~ng~~~~l~Gi~iLrkICnHPdll~~~~~~~~~~~D~~g~~k~sGKm~vl~~ll~~W~kqg~rvllFsqs~~mLdilE~f 565 (923)
T KOG0387|consen 486 LNGKRNCLSGIDILRKICNHPDLLDRRDEDEKQGPDYEGDPKRSGKMKVLAKLLKDWKKQGDRVLLFSQSRQMLDILESF 565 (923)
T ss_pred HcCCccceechHHHHhhcCCcccccCcccccccCCCcCCChhhcchHHHHHHHHHHHhhCCCEEEEehhHHHHHHHHHHH
Confidence 00000 112345556666666777777777776643322222
Q ss_pred HHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCC-ce-EEEec
Q 000107 799 VSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGL-VR-VLTAT 876 (2191)
Q Consensus 799 L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~-ik-VLVAT 876 (2191)
|.. .-.+...-+-|..+...|..+.+.|.++. +. .|++|
T Consensus 566 L~~---------------------------------------~~~ysylRmDGtT~~~~R~~lVd~Fne~~s~~VFLLTT 606 (923)
T KOG0387|consen 566 LRR---------------------------------------AKGYSYLRMDGTTPAALRQKLVDRFNEDESIFVFLLTT 606 (923)
T ss_pred HHh---------------------------------------cCCceEEEecCCCccchhhHHHHhhcCCCceEEEEEEe
Confidence 211 11233555678889999999999999765 33 56788
Q ss_pred ccccccCCCCC-ceEEeecCCCCCcccCcccccccccccCCCCCCCceEEEEEeChh
Q 000107 877 STLAAGVNLPA-RRVIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPE 932 (2191)
Q Consensus 877 stLa~GVNLPa-v~VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~ 932 (2191)
.+-.-|+||-. -||||-.|- .+++.=.|-.-||-|.|+.+.-.+|.+.+..
T Consensus 607 rvGGLGlNLTgAnRVIIfDPd-----WNPStD~QAreRawRiGQkkdV~VYRL~t~g 658 (923)
T KOG0387|consen 607 RVGGLGLNLTGANRVIIFDPD-----WNPSTDNQARERAWRIGQKKDVVVYRLMTAG 658 (923)
T ss_pred cccccccccccCceEEEECCC-----CCCccchHHHHHHHhhcCccceEEEEEecCC
Confidence 89999999986 566663332 2666778999999999988788888888764
No 167
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=98.85 E-value=5.7e-07 Score=118.57 Aligned_cols=162 Identities=19% Similarity=0.222 Sum_probs=105.4
Q ss_pred CCCHHHHHhhhhc-----ccc---cCCeEEEEcCCCCchhHHHHHHHHHHHHh--cC-----CEEEEEchhHHHHHHHHH
Q 000107 524 KLYPWQVECLHVD-----GVL---QRRNLVYCASTSAGKSFVAEILMLRRLIS--TG-----KMALLVLPYVSICAEKAE 588 (2191)
Q Consensus 524 ~l~p~Q~eal~~~-----~il---~gknlIi~APTGSGKTlvael~iL~~ll~--~g-----~kaL~I~P~raLA~q~~~ 588 (2191)
.|+|+|.+.+... +.. ...-.|++-..|+|||+.....| ..+++ .+ .++|||+|- .|+.-+.+
T Consensus 238 ~LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~Isfl-wtlLrq~P~~~~~~~k~lVV~P~-sLv~nWkk 315 (776)
T KOG0390|consen 238 ILRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQCISFI-WTLLRQFPQAKPLINKPLVVAPS-SLVNNWKK 315 (776)
T ss_pred hcCchHHHHHHHHHhhhhcccccCCCCceEeeCCCCcchHHHHHHHH-HHHHHhCcCccccccccEEEccH-HHHHHHHH
Confidence 6899999988641 110 22346777889999999875444 44443 34 579999995 78888888
Q ss_pred HHHHHhhccCCeEEEEeccCCC-----------CCCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEccccccccc
Q 000107 589 HLEVLLEPLGRHVRSYYGNQGG-----------GSLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQ 657 (2191)
Q Consensus 589 ~l~~l~~~lg~~V~~~~G~~~~-----------~~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~ 657 (2191)
+|.++...-.+.+..++|.... +...-..-|++-++|.+....+. .....++++|+||.|.+-..
T Consensus 316 EF~KWl~~~~i~~l~~~~~~~~~w~~~~sil~~~~~~~~~~vli~sye~~~~~~~~----il~~~~glLVcDEGHrlkN~ 391 (776)
T KOG0390|consen 316 EFGKWLGNHRINPLDFYSTKKSSWIKLKSILFLGYKQFTTPVLIISYETASDYCRK----ILLIRPGLLVCDEGHRLKNS 391 (776)
T ss_pred HHHHhccccccceeeeecccchhhhhhHHHHHhhhhheeEEEEeccHHHHHHHHHH----HhcCCCCeEEECCCCCccch
Confidence 8888776544556666666542 00111356888889987655554 34667899999999998653
Q ss_pred chhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccCC--CHHHHHHHhh
Q 000107 658 NRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATMP--NVAAVADWLQ 720 (2191)
Q Consensus 658 ~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL~--N~~~la~wL~ 720 (2191)
...+-..|.++ .-.+.|++|.|+= |..++...|+
T Consensus 392 --~s~~~kaL~~l---------------------------~t~rRVLLSGTp~QNdl~EyFnlL~ 427 (776)
T KOG0390|consen 392 --DSLTLKALSSL---------------------------KTPRRVLLTGTPIQNDLKEYFNLLD 427 (776)
T ss_pred --hhHHHHHHHhc---------------------------CCCceEEeeCCcccccHHHHHHHHh
Confidence 12222333333 2346799999952 4666555554
No 168
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=98.84 E-value=8.2e-07 Score=120.41 Aligned_cols=66 Identities=17% Similarity=0.082 Sum_probs=53.4
Q ss_pred CCCCCCHHHHHhhhh--ccccc-----CCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHH
Q 000107 521 GISKLYPWQVECLHV--DGVLQ-----RRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKA 587 (2191)
Q Consensus 521 Gi~~l~p~Q~eal~~--~~il~-----gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~ 587 (2191)
|| +.++-|.+-... ..+.. ++.++|-||||+|||++|++|++......++++||-..|++|-.|..
T Consensus 23 ~~-e~R~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKTlaYLlPai~~A~~~~k~vVIST~T~~LQeQL~ 95 (697)
T PRK11747 23 GF-IPRAGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKTLSYLLAGIPIARAEKKKLVISTATVALQEQLV 95 (697)
T ss_pred CC-CcCHHHHHHHHHHHHHHhcccccccceEEEECCCCcchhHHHHHHHHHHHHHcCCeEEEEcCCHHHHHHHH
Confidence 56 688889884432 12333 47899999999999999999998777778999999999999998876
No 169
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=98.83 E-value=4.7e-09 Score=102.24 Aligned_cols=72 Identities=35% Similarity=0.482 Sum_probs=63.9
Q ss_pred CCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEeecCCCCCcccCcccccccccccCCCC
Q 000107 843 PSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRIGRDFIDGTRYRQMAGRAGRTG 918 (2191)
Q Consensus 843 ~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI~~p~~g~~~is~~~y~QmiGRAGR~G 918 (2191)
...+..+||+++.++|..+++.|+.|...|||+|++++.|+|+|.+..||.... +++...|.||+||++|.|
T Consensus 11 ~~~~~~~~~~~~~~~r~~~~~~f~~~~~~vli~t~~~~~Gi~~~~~~~vi~~~~----~~~~~~~~Q~~gR~~R~g 82 (82)
T smart00490 11 GIKVARLHGGLSQEEREEILEKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDL----PWSPASYIQRIGRAGRAG 82 (82)
T ss_pred CCeEEEEECCCCHHHHHHHHHHHHcCCCeEEEECChhhCCcChhcCCEEEEeCC----CCCHHHHHHhhcccccCC
Confidence 456999999999999999999999999999999999999999998777764333 358889999999999976
No 170
>PF02399 Herpes_ori_bp: Origin of replication binding protein; InterPro: IPR003450 This entry represents replication origin binding protein. It functions as a docking protein to recruit essential components of the viral replication machinery to viral DNA origins. In the presence of the major DNA-binding protein, it opens dsDNA which leads to a conformational change in the origin that facilitates DNA unwinding and subsequent replication [].; GO: 0003688 DNA replication origin binding, 0005524 ATP binding, 0006260 DNA replication
Probab=98.83 E-value=1.1e-07 Score=124.52 Aligned_cols=307 Identities=18% Similarity=0.155 Sum_probs=171.3
Q ss_pred cCCeEEEEcCCCCchhHHHHHHHHHHH-HhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCC-CCC
Q 000107 540 QRRNLVYCASTSAGKSFVAEILMLRRL-ISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLP-KDT 617 (2191)
Q Consensus 540 ~gknlIi~APTGSGKTlvael~iL~~l-l~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~-~~~ 617 (2191)
.....+|-+|.|+|||....- .|+.. ...+.++|+|.-+++|+.+...+|+...- .|+. .|.+.....+. ...
T Consensus 48 ~~~V~vVRSpMGTGKTtaLi~-wLk~~l~~~~~~VLvVShRrSL~~sL~~rf~~~~l-~gFv---~Y~d~~~~~i~~~~~ 122 (824)
T PF02399_consen 48 KRGVLVVRSPMGTGKTTALIR-WLKDALKNPDKSVLVVSHRRSLTKSLAERFKKAGL-SGFV---NYLDSDDYIIDGRPY 122 (824)
T ss_pred CCCeEEEECCCCCCcHHHHHH-HHHHhccCCCCeEEEEEhHHHHHHHHHHHHhhcCC-Ccce---eeecccccccccccc
Confidence 456789999999999987644 44444 35678999999999999999988865311 1221 22222222222 234
Q ss_pred ceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHH---HHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCC
Q 000107 618 SVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYL---LELLLTKLRYAAGEGTSDSSSGENSGTSSGKA 694 (2191)
Q Consensus 618 ~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~---lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~ 694 (2191)
+-+++..+.+..+ ....+.++++|||||+--+...-+.+. .+.++..|+.+..
T Consensus 123 ~rLivqIdSL~R~-----~~~~l~~yDvVIIDEv~svL~qL~S~Tm~~~~~v~~~L~~lI~------------------- 178 (824)
T PF02399_consen 123 DRLIVQIDSLHRL-----DGSLLDRYDVVIIDEVMSVLNQLFSPTMRQREEVDNLLKELIR------------------- 178 (824)
T ss_pred CeEEEEehhhhhc-----ccccccccCEEEEehHHHHHHHHhHHHHhhHHHHHHHHHHHHH-------------------
Confidence 5666666654332 334577899999999976654322222 3344444544432
Q ss_pred CCCCCceEEEEeccCCC--HHHHHHHhhccccccccccccceEEEEecccc----ccc--hhhHHHHHHHhhc-------
Q 000107 695 DPAHGLQIVGMSATMPN--VAAVADWLQAALYETNFRPVPLEEYIKVGNAI----YSK--KMDVVRTILTAAN------- 759 (2191)
Q Consensus 695 ~~~~~iqII~mSATL~N--~~~la~wL~a~l~~~~~RpvpL~e~i~~~~~~----~~~--~~~~~r~l~~~~~------- 759 (2191)
.--++|+|-||+.+ ++-++..-+..-+ .+-..+|...+... .-. ....+.......+
T Consensus 179 ---~ak~VI~~DA~ln~~tvdFl~~~Rp~~~i-----~vI~n~y~~~~fs~R~~~~~~~l~~~~l~~~~~~~~~~~~~~~ 250 (824)
T PF02399_consen 179 ---NAKTVIVMDADLNDQTVDFLASCRPDENI-----HVIVNTYASPGFSNRRCTFLRSLGTDTLAAALNPEDENADTSP 250 (824)
T ss_pred ---hCCeEEEecCCCCHHHHHHHHHhCCCCcE-----EEEEeeeecCCcccceEEEecccCcHHHHHHhCCcccccccCC
Confidence 23479999999974 2223322221100 00011111111000 000 0001110000000
Q ss_pred ------------cCCCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHh
Q 000107 760 ------------LGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDAL 827 (2191)
Q Consensus 760 ------------~~~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L 827 (2191)
....+.......+..-+..|+.+-||++|...++.+++.....
T Consensus 251 ~~~~~~~~~~~~~~~~~~~tF~~~L~~~L~~gknIcvfsSt~~~~~~v~~~~~~~------------------------- 305 (824)
T PF02399_consen 251 TPKHSPDPTATAAISNDETTFFSELLARLNAGKNICVFSSTVSFAEIVARFCARF------------------------- 305 (824)
T ss_pred CcCCCCccccccccccchhhHHHHHHHHHhCCCcEEEEeChHHHHHHHHHHHHhc-------------------------
Confidence 0012233445556666678899999999988877666655432
Q ss_pred hcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCce--EEeecCCCCCcccCcc
Q 000107 828 RRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARR--VIFRQPRIGRDFIDGT 905 (2191)
Q Consensus 828 ~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~--VVI~~p~~g~~~is~~ 905 (2191)
...|..+++.-... .|+. =+..+|++=|+++..|+++.... -++-+..+...-.+..
T Consensus 306 ---------------~~~Vl~l~s~~~~~---dv~~---W~~~~VviYT~~itvG~Sf~~~HF~~~f~yvk~~~~gpd~~ 364 (824)
T PF02399_consen 306 ---------------TKKVLVLNSTDKLE---DVES---WKKYDVVIYTPVITVGLSFEEKHFDSMFAYVKPMSYGPDMV 364 (824)
T ss_pred ---------------CCeEEEEcCCCCcc---cccc---ccceeEEEEeceEEEEeccchhhceEEEEEecCCCCCCcHH
Confidence 11255566544433 3332 35679999999999999987542 2322222222222555
Q ss_pred cccccccccCCCCCCCceEEEEEeChh
Q 000107 906 RYRQMAGRAGRTGIDTKGESMLICKPE 932 (2191)
Q Consensus 906 ~y~QmiGRAGR~G~d~~Ge~ill~~~~ 932 (2191)
+..||+||.-... ..+.++.++..
T Consensus 365 s~~Q~lgRvR~l~---~~ei~v~~d~~ 388 (824)
T PF02399_consen 365 SVYQMLGRVRSLL---DNEIYVYIDAS 388 (824)
T ss_pred HHHHHHHHHHhhc---cCeEEEEEecc
Confidence 6899999997665 66778877764
No 171
>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain. The domain is related to the DEAD/DEAH box helicase domain which is found in a large family of ATPases.; GO: 0005524 ATP binding, 0008026 ATP-dependent helicase activity, 0019079 viral genome replication; PDB: 2QEQ_A 2V6J_A 2V6I_A 8OHM_A 4A92_B 1JR6_A 1HEI_A 1ONB_A 1A1V_A 1YMF_A ....
Probab=98.81 E-value=5.9e-08 Score=103.84 Aligned_cols=135 Identities=20% Similarity=0.162 Sum_probs=84.7
Q ss_pred cCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCCCCCce
Q 000107 540 QRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPKDTSV 619 (2191)
Q Consensus 540 ~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~~~~~I 619 (2191)
+|+--++-..+|+|||.-.+--+++..+.++.++|++.|||.++.++.+.++. ..+++. ..-. ......+.-|
T Consensus 3 kg~~~~~d~hpGaGKTr~vlp~~~~~~i~~~~rvLvL~PTRvva~em~~aL~~----~~~~~~--t~~~-~~~~~g~~~i 75 (148)
T PF07652_consen 3 KGELTVLDLHPGAGKTRRVLPEIVREAIKRRLRVLVLAPTRVVAEEMYEALKG----LPVRFH--TNAR-MRTHFGSSII 75 (148)
T ss_dssp TTEEEEEE--TTSSTTTTHHHHHHHHHHHTT--EEEEESSHHHHHHHHHHTTT----SSEEEE--STTS-S----SSSSE
T ss_pred CCceeEEecCCCCCCcccccHHHHHHHHHccCeEEEecccHHHHHHHHHHHhc----CCcccC--ceee-eccccCCCcc
Confidence 56778899999999999877778888888999999999999999999877643 233322 1111 1122345568
Q ss_pred EEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCC
Q 000107 620 AVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHG 699 (2191)
Q Consensus 620 iV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~ 699 (2191)
-|+|...+...+ .....+.++++||+||+|...-. --.....++.... ...
T Consensus 76 ~vMc~at~~~~~---~~p~~~~~yd~II~DEcH~~Dp~-----sIA~rg~l~~~~~---------------------~g~ 126 (148)
T PF07652_consen 76 DVMCHATYGHFL---LNPCRLKNYDVIIMDECHFTDPT-----SIAARGYLRELAE---------------------SGE 126 (148)
T ss_dssp EEEEHHHHHHHH---HTSSCTTS-SEEEECTTT--SHH-----HHHHHHHHHHHHH---------------------TTS
T ss_pred cccccHHHHHHh---cCcccccCccEEEEeccccCCHH-----HHhhheeHHHhhh---------------------ccC
Confidence 889988755444 34557889999999999995422 1122233333322 134
Q ss_pred ceEEEEeccCC
Q 000107 700 LQIVGMSATMP 710 (2191)
Q Consensus 700 iqII~mSATL~ 710 (2191)
..+|.||||.|
T Consensus 127 ~~~i~mTATPP 137 (148)
T PF07652_consen 127 AKVIFMTATPP 137 (148)
T ss_dssp -EEEEEESS-T
T ss_pred eeEEEEeCCCC
Confidence 68999999976
No 172
>PRK10829 ribonuclease D; Provisional
Probab=98.81 E-value=6e-08 Score=121.04 Aligned_cols=175 Identities=10% Similarity=0.071 Sum_probs=128.6
Q ss_pred ceeccCcccHHHHHHHHhhCCeEEEEeeccCCcccCCCccce-EEEEEEEEeCCcEEEEeCCCCcccccccccchhccCC
Q 000107 1489 INAINASGGFDCFLDRWEATHEFYFDIHYDKHSEANSGVLFE-IHGLAVCWENSPVYYVNLPKDLWSDHRRKDRFLIYGS 1567 (2191)
Q Consensus 1489 i~~v~~~~~~~~~l~~~~~~~~~afD~e~~~~~~~~s~~~~~-i~Gia~~~~~~~ayYi~l~~~~~~~~~~~~~~~~~~~ 1567 (2191)
+.+|+++..+..+++.+...+.+++|+|+.+. ...++ +.-|.++. +..+|.|+.-..
T Consensus 3 ~~~I~t~~~L~~~~~~l~~~~~lalDtEf~~~-----~ty~~~l~LiQl~~-~~~~~LiD~l~~---------------- 60 (373)
T PRK10829 3 YQMITTDDALASVCEAARAFPAIALDTEFVRT-----RTYYPQLGLIQLYD-GEQLSLIDPLGI---------------- 60 (373)
T ss_pred cEEeCCHHHHHHHHHHHhcCCeEEEecccccC-----ccCCCceeEEEEec-CCceEEEecCCc----------------
Confidence 45788999999999999999999999998743 11122 34445553 344555543100
Q ss_pred CCCCCCChhhHHHHHHHHHHHHHHhhccCCccEEEechHHHHHHH-HhcCcccccccCcccccccccccccccccccccc
Q 000107 1568 SDKNVLTPEHQLEMIKQRWKRIGEIMEKRDVRKFTWNMKVQIQVL-KHAAVSIQRFGGLNLVGTSLGLENVGSSFLLLSP 1646 (2191)
Q Consensus 1568 ~~~~~~~~~~~~~~~~~~~~~L~~lLe~~~v~kv~hNlK~dl~vL-~~~gi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1646 (2191)
..++.|.++|+++++.||+|++.+|+..| +..|+.+.
T Consensus 61 ----------------~d~~~L~~ll~~~~ivKV~H~~~~Dl~~l~~~~g~~p~-------------------------- 98 (373)
T PRK10829 61 ----------------TDWSPFKALLRDPQVTKFLHAGSEDLEVFLNAFGELPQ-------------------------- 98 (373)
T ss_pred ----------------cchHHHHHHHcCCCeEEEEeChHhHHHHHHHHcCCCcC--------------------------
Confidence 01356888999999999999999999998 44566433
Q ss_pred CCCCccchHHHHHHhcCCCCCCCCchhHHHHHHHhhChHHHHHhhccCchhhhhHHHHhhhHHHHHHHHHHHHHHHHHHH
Q 000107 1647 VHLKDGIDMCIVSWILWPDDERSSNPNLEKEVKKRLSSEAAAAANRSGRWKNQMRRAAHNGCCRRVAQTRALCSVLWKLL 1726 (2191)
Q Consensus 1647 ~~~~~~~Dt~lAawLL~P~~~~~~l~~L~~~~~~~l~~e~~~~~~~~g~~~~~~~~~~~~ya~~Da~~t~~L~~~L~~~L 1726 (2191)
.+|||++|+.++.-.. .. +|..++.++++.+..+.....++...++.+.+..||+.||.+++.||..|..+|
T Consensus 99 ----~~fDTqiaa~~lg~~~-~~---gl~~Lv~~~lgv~ldK~~~~sDW~~RPLs~~ql~YAa~Dv~~L~~l~~~L~~~L 170 (373)
T PRK10829 99 ----PLIDTQILAAFCGRPL-SC---GFASMVEEYTGVTLDKSESRTDWLARPLSERQCEYAAADVFYLLPIAAKLMAET 170 (373)
T ss_pred ----CeeeHHHHHHHcCCCc-cc---cHHHHHHHHhCCccCcccccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 2599999999997321 23 577888888988776655555544567888889999999999999999999999
Q ss_pred HHHHHHHHH
Q 000107 1727 VSEELIEAL 1735 (2191)
Q Consensus 1727 ~~~~L~~l~ 1735 (2191)
.+.+....+
T Consensus 171 ~~~g~~~w~ 179 (373)
T PRK10829 171 EAAGWLPAA 179 (373)
T ss_pred HHcCcHHHH
Confidence 876665543
No 173
>cd06129 RNaseD_like DEDDy 3'-5' exonuclease domain of RNase D, WRN, and similar proteins. The RNase D-like group is composed of RNase D, WRN, and similar proteins. They contain a DEDDy-type, DnaQ-like, 3'-5' exonuclease domain that contains three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. RNase D is involved in the 3'-end processing of tRNA precursors. RNase D-like proteins in eukaryotes include yeast Rrp6p, human PM/Scl-100 and Drosophila melanogaster egalitarian (Egl) protein. WRN is a unique DNA helicase possessing exonuclease activity. Mutation in the WRN gene is implicated in Werner syndrome, a disease associated with premature aging and increased predisposition to cancer. Yeast Rrp6p and the human Polymyositis/scleroderma autoantigen 100kDa (PM/Scl-100) are exosome-
Probab=98.80 E-value=6.1e-08 Score=108.35 Aligned_cols=156 Identities=13% Similarity=0.156 Sum_probs=113.0
Q ss_pred HHHHHHHHh-hCCeEEEEeeccCCcccCCCccceEEEEEEEEeCCcEEEEeCCCCcccccccccchhccCCCCCCCCChh
Q 000107 1498 FDCFLDRWE-ATHEFYFDIHYDKHSEANSGVLFEIHGLAVCWENSPVYYVNLPKDLWSDHRRKDRFLIYGSSDKNVLTPE 1576 (2191)
Q Consensus 1498 ~~~~l~~~~-~~~~~afD~e~~~~~~~~s~~~~~i~Gia~~~~~~~ayYi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1576 (2191)
++.+++++. ..+.++||+|..... ...-++.-+.+|.+++.+|.+.+..-.
T Consensus 2 l~~~~~~l~~~~~~ig~D~E~~~~~----~~~~~~~liQl~~~~~~~~l~d~~~~~------------------------ 53 (161)
T cd06129 2 LSSLCEDLSMDGDVIAFDMEWPPGR----RYYGEVALIQLCVSEEKCYLFDPLSLS------------------------ 53 (161)
T ss_pred HHHHHHHHhcCCCEEEEECCccCCC----CCCCceEEEEEEECCCCEEEEecccCc------------------------
Confidence 567888898 899999999986431 111135556777664667777654210
Q ss_pred hHHHHHHHHHHHHHHhhccCCccEEEechHHHHHHHHh-cCcccccccCccccccccccccccccccccccCCCCccchH
Q 000107 1577 HQLEMIKQRWKRIGEIMEKRDVRKFTWNMKVQIQVLKH-AAVSIQRFGGLNLVGTSLGLENVGSSFLLLSPVHLKDGIDM 1655 (2191)
Q Consensus 1577 ~~~~~~~~~~~~L~~lLe~~~v~kv~hNlK~dl~vL~~-~gi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt 1655 (2191)
..++.|+++|+++.+.|++||+|.|+..|.+ +|+.+.+ .+|+
T Consensus 54 -------~~~~~L~~lL~d~~i~Kvg~~~k~D~~~L~~~~gi~~~~------------------------------~~D~ 96 (161)
T cd06129 54 -------VDWQGLKMLLENPSIVKALHGIEGDLWKLLRDFGEKLQR------------------------------LFDT 96 (161)
T ss_pred -------cCHHHHHHHhCCCCEEEEEeccHHHHHHHHHHcCCCccc------------------------------HhHH
Confidence 0124578899999999999999999999976 6775543 4899
Q ss_pred HHHHHhcCCCCCCCCchhHHHHHHHhhChHHHHHhhccCchh-hhhHHHHhhhHHHHHHHHHHHHHHHH
Q 000107 1656 CIVSWILWPDDERSSNPNLEKEVKKRLSSEAAAAANRSGRWK-NQMRRAAHNGCCRRVAQTRALCSVLW 1723 (2191)
Q Consensus 1656 ~lAawLL~P~~~~~~l~~L~~~~~~~l~~e~~~~~~~~g~~~-~~~~~~~~~ya~~Da~~t~~L~~~L~ 1723 (2191)
++|+|+++|.. .+ +|..++.++++....+. .+...|. .++...+..||+.||.+++.+|..|.
T Consensus 97 ~~aa~ll~~~~-~~---~L~~l~~~~lg~~l~K~-~~~s~W~~rpLt~~qi~YAa~Da~~l~~l~~~l~ 160 (161)
T cd06129 97 TIAANLKGLPE-RW---SLASLVEHFLGKTLDKS-ISCADWSYRPLTEDQKLYAAADVYALLIIYTKLR 160 (161)
T ss_pred HHHHHHhCCCC-Cc---hHHHHHHHHhCCCCCcc-ceeccCCCCCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence 99999999852 23 57777877777665332 3345565 57778889999999999999998874
No 174
>cd06148 Egl_like_exo DEDDy 3'-5' exonuclease domain of Drosophila Egalitarian (Egl) and similar proteins. The Egalitarian (Egl) protein subfamily is composed of Drosophila Egl and similar proteins. Egl is a component of an mRNA-binding complex which is required for oocyte specification. Egl contains a DEDDy-type DnaQ-like 3'-5' exonuclease domain possessing three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. The motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. The conservation of this subfamily throughout eukaryotes suggests that its members may be part of ancient RNA processing complexes that are likely to participate in the regulated processing of specific mRNAs. Some members of this subfamily do not have a completely conserved YX(3)D pattern at the ExoIII motif.
Probab=98.79 E-value=8e-08 Score=110.93 Aligned_cols=171 Identities=11% Similarity=0.080 Sum_probs=118.6
Q ss_pred HHHHhhCCeEEEEeeccCCcccCCCccceEEEEEEEEeCCcEEEEeCCCCcccccccccchhccCCCCCCCCChhhHHHH
Q 000107 1502 LDRWEATHEFYFDIHYDKHSEANSGVLFEIHGLAVCWENSPVYYVNLPKDLWSDHRRKDRFLIYGSSDKNVLTPEHQLEM 1581 (2191)
Q Consensus 1502 l~~~~~~~~~afD~e~~~~~~~~s~~~~~i~Gia~~~~~~~ayYi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1581 (2191)
+..++..+.++||+|+.+.. .. -.+.-+.++...+.+|.+++..-. .
T Consensus 4 ~~~l~~~~~i~~D~E~~~~~----~~-~~~~LiQia~~~~~v~l~D~~~~~--~-------------------------- 50 (197)
T cd06148 4 IIHLKKQKVIGLDCEGVNLG----RK-GKLCLVQIATRTGQIYLFDILKLG--S-------------------------- 50 (197)
T ss_pred hhhhhhCCEEEEEcccccCC----CC-CCEEEEEEeeCCCcEEEEEhhhcc--c--------------------------
Confidence 45677788999999986431 11 134445666554677777764210 0
Q ss_pred HHHHHHHHHHhhccCCccEEEechHHHHHHH-HhcCcccccccCccccccccccccccccccccccCCCCccchHHHHHH
Q 000107 1582 IKQRWKRIGEIMEKRDVRKFTWNMKVQIQVL-KHAAVSIQRFGGLNLVGTSLGLENVGSSFLLLSPVHLKDGIDMCIVSW 1660 (2191)
Q Consensus 1582 ~~~~~~~L~~lLe~~~v~kv~hNlK~dl~vL-~~~gi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~lAaw 1660 (2191)
...++.|+++|+++++.|++||+|+|+..| +.+|+.+.+ .|||++|+|
T Consensus 51 -~~~~~~L~~iLe~~~i~Kv~h~~k~D~~~L~~~~gi~~~~------------------------------~fDt~iA~~ 99 (197)
T cd06148 51 -IVFINGLKDILESKKILKVIHDCRRDSDALYHQYGIKLNN------------------------------VFDTQVADA 99 (197)
T ss_pred -hhHHHHHHHHhcCCCccEEEEechhHHHHHHHhcCccccc------------------------------eeeHHHHHH
Confidence 113467888999999999999999999998 466776543 489999999
Q ss_pred hcCCCCCC----CCchhHHHHHHHhhChHHHHH-------hhccCchh-hhhHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Q 000107 1661 ILWPDDER----SSNPNLEKEVKKRLSSEAAAA-------ANRSGRWK-NQMRRAAHNGCCRRVAQTRALCSVLWKLLVS 1728 (2191)
Q Consensus 1661 LL~P~~~~----~~l~~L~~~~~~~l~~e~~~~-------~~~~g~~~-~~~~~~~~~ya~~Da~~t~~L~~~L~~~L~~ 1728 (2191)
|++|.... ....+|..++.++++...... ..+...|. .++.+.+..||+.||..++.||..|...|.+
T Consensus 100 lL~~~~~~~~~~~~~~~L~~l~~~~l~~~~~k~~~~~~~~~~~~s~W~~RPLt~~ql~YAa~Dv~~Ll~l~~~l~~~l~~ 179 (197)
T cd06148 100 LLQEQETGGFNPDRVISLVQLLDKYLYISISLKEDVKKLMREDPKFWALRPLTEDMIRYAALDVLCLLPLYYAMLDALIS 179 (197)
T ss_pred HHHHHhcCCccccccccHHHHHHHhhCCChHHHHHHHHHHhcCchhhhcCCCCHHHHHHHHHHHHhHHHHHHHHHHHhhh
Confidence 99985421 111257777888777654321 12234453 5677778899999999999999999999987
Q ss_pred HHHHHHHH
Q 000107 1729 EELIEALL 1736 (2191)
Q Consensus 1729 ~~L~~l~~ 1736 (2191)
..+...|.
T Consensus 180 ~~~~~~~~ 187 (197)
T cd06148 180 KFLKAVFK 187 (197)
T ss_pred hHHHHHHH
Confidence 65555554
No 175
>cd06147 Rrp6p_like_exo DEDDy 3'-5' exonuclease domain of yeast Rrp6p, human polymyositis/scleroderma autoantigen 100kDa, and similar proteins. Yeast Rrp6p and its human homolog, the polymyositis/scleroderma autoantigen 100kDa (PM/Scl-100), are exosome-associated proteins involved in the degradation and processing of precursors to stable RNAs. Both proteins contain a DEDDy-type DnaQ-like 3'-5' exonuclease domain possessing three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. The motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. PM/Scl-100, an autoantigen present in the nucleolar compartment of the cell, reacts with autoantibodies produced by about 50% of patients with polymyositis-scleroderma overlap syndrome.
Probab=98.78 E-value=1.4e-07 Score=108.61 Aligned_cols=172 Identities=12% Similarity=0.133 Sum_probs=114.2
Q ss_pred CCCceeccCcccHHHHHHHHhhCCeEEEEeeccCCcccCCCccceEEEEEEEEeCCcEEEEeCCCCcccccccccchhcc
Q 000107 1486 KGPINAINASGGFDCFLDRWEATHEFYFDIHYDKHSEANSGVLFEIHGLAVCWENSPVYYVNLPKDLWSDHRRKDRFLIY 1565 (2191)
Q Consensus 1486 ~~~i~~v~~~~~~~~~l~~~~~~~~~afD~e~~~~~~~~s~~~~~i~Gia~~~~~~~ayYi~l~~~~~~~~~~~~~~~~~ 1565 (2191)
.||+.++.+...+..+++.+...+.++++++.... .+..-++.|++++.+++ +||+++-. .
T Consensus 2 ~~~~~~i~~~~~l~~~~~~l~~~~~l~~~~e~~~~----~~~~~~~~~l~l~~~~~-~~~i~~l~-~------------- 62 (192)
T cd06147 2 ETPLTFVDTEEKLEELVEKLKNCKEIAVDLEHHSY----RSYLGFTCLMQISTREE-DYIVDTLK-L------------- 62 (192)
T ss_pred CCCcEEECCHHHHHHHHHHHhcCCeEEEEeEecCC----ccCCCceEEEEEecCCC-cEEEEecc-c-------------
Confidence 37888885556677766666545578888854321 01123588999997665 78886310 0
Q ss_pred CCCCCCCCChhhHHHHHHHHHHHHHHhhccCCccEEEechHHHHHHHH-hcCcccccccCcccccccccccccccccccc
Q 000107 1566 GSSDKNVLTPEHQLEMIKQRWKRIGEIMEKRDVRKFTWNMKVQIQVLK-HAAVSIQRFGGLNLVGTSLGLENVGSSFLLL 1644 (2191)
Q Consensus 1566 ~~~~~~~~~~~~~~~~~~~~~~~L~~lLe~~~v~kv~hNlK~dl~vL~-~~gi~l~~~~~~~~~~~~~~~~~~~~~~~~~ 1644 (2191)
...+..|+++|+++++.|++||+|.+++.|+ ++|+.+.+
T Consensus 63 -----------------~~~~~~L~~~L~~~~i~kv~~d~K~~~~~L~~~~gi~~~~----------------------- 102 (192)
T cd06147 63 -----------------RDDMHILNEVFTDPNILKVFHGADSDIIWLQRDFGLYVVN----------------------- 102 (192)
T ss_pred -----------------ccchHHHHHHhcCCCceEEEechHHHHHHHHHHhCCCcCc-----------------------
Confidence 0012347789999999999999999999998 77876543
Q ss_pred ccCCCCccchHHHHHHhcCCCCCCCCchhHHHHHHHhhChHHHHHhhccCchhh-hhHHHHhhhHHHHHHHHHHHHHHHH
Q 000107 1645 SPVHLKDGIDMCIVSWILWPDDERSSNPNLEKEVKKRLSSEAAAAANRSGRWKN-QMRRAAHNGCCRRVAQTRALCSVLW 1723 (2191)
Q Consensus 1645 ~~~~~~~~~Dt~lAawLL~P~~~~~~l~~L~~~~~~~l~~e~~~~~~~~g~~~~-~~~~~~~~ya~~Da~~t~~L~~~L~ 1723 (2191)
.||+|||+|||+|+ . ++ +..++.++++..... ..+...|.. .+...+..|++.++.++++|+..|.
T Consensus 103 -------~fD~~laaYLL~p~-~-~~---l~~l~~~yl~~~~~k-~~~~~~~~~~~l~~~~~~y~a~~a~~l~~L~~~L~ 169 (192)
T cd06147 103 -------LFDTGQAARVLNLP-R-HS---LAYLLQKYCNVDADK-KYQLADWRIRPLPEEMIKYAREDTHYLLYIYDRLR 169 (192)
T ss_pred -------hHHHHHHHHHhCCC-c-cc---HHHHHHHHhCCCcch-hhhccccccCCCCHHHHHHHHhhHHHHHHHHHHHH
Confidence 28999999999997 4 34 666666666543111 111111221 0022245589999999999999999
Q ss_pred HHHHHH
Q 000107 1724 KLLVSE 1729 (2191)
Q Consensus 1724 ~~L~~~ 1729 (2191)
.+|+++
T Consensus 170 ~~L~e~ 175 (192)
T cd06147 170 NELLER 175 (192)
T ss_pred HHHHHh
Confidence 999764
No 176
>smart00611 SEC63 Domain of unknown function in Sec63p, Brr2p and other proteins.
Probab=98.74 E-value=4.8e-08 Score=120.84 Aligned_cols=111 Identities=14% Similarity=0.084 Sum_probs=100.8
Q ss_pred HHHHHHHHHHhcCCCHHHHHHHhCCCcchHHHHHHHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhccCchhhhhhcC
Q 000107 1156 FYVALILSRLVQETPVLEVCETFKVARGMVQALQENAGRFASMVSVFCERLGWYDLEGLIAKFQNRVSFGVRAEIVELTT 1235 (2191)
Q Consensus 1156 fy~al~L~dli~e~~~~~i~~~y~v~rG~lq~l~~~a~~~a~~v~~fc~~lg~~~~~~ll~~~~~RL~~Gv~~ELl~L~~ 1235 (2191)
+++.++|++++++.++..- . -.+|+..++++|.|++.++..+|...||......+-+|.++|.+|++.+..||++
T Consensus 81 ~K~~lLLqa~i~r~~l~~~--~---l~~D~~~vl~~a~rll~al~di~~~~~~~~~~~~~l~L~q~i~q~~w~~~~~L~Q 155 (312)
T smart00611 81 VKANLLLQAHLSRLKLPSF--A---LESDTVYVLQNAGRLLQAMVDIALERGWLSTALNALNLSQMIIQALWPTDSPLLQ 155 (312)
T ss_pred HHHHHHHHHHHccCCCCch--h---HHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhhCCCCCcccc
Confidence 4589999999999865211 1 3689999999999999999999999999888888999999999999999999999
Q ss_pred CCCCCHHHHHHHHHcCCCCHHHHHcCCHHHHHHHHh
Q 000107 1236 IPYVKGSRARALYKAGLRTPLAIAEASISEIVKALF 1271 (2191)
Q Consensus 1236 ip~v~~~RAR~Ly~aG~~t~~~la~a~~~~l~~~l~ 1271 (2191)
||++++.++|.|.++|++|+.+|..++++++..++.
T Consensus 156 lp~i~~~~~~~l~~~~i~s~~~l~~~~~~~~~~ll~ 191 (312)
T smart00611 156 LPHLPEEILKRLEKKKVLSLEDLLELEDEERGELLG 191 (312)
T ss_pred CCCCCHHHHHHHHhCCCCCHHHHHhcCHHHHHHHHc
Confidence 999999999999999999999999999999988863
No 177
>cd00007 35EXOc 3'-5' exonuclease. The 35EXOc domain is responsible for the 3'-5' exonuclease proofreading activity of prokaryotic DNA polymerase I (pol I) and other enzymes, it catalyses the hydrolysis of unpaired or mismatched nucleotides. This domain consists of the amino-terminal half of the Klenow fragment in E. coli pol I. 35EXOc is also found in the Werner syndrome helicase (WRN), focus forming activity 1 protein (FFA-1) and ribonuclease D (RNase D).
Probab=98.72 E-value=2.3e-07 Score=101.77 Aligned_cols=148 Identities=16% Similarity=0.218 Sum_probs=96.7
Q ss_pred eEEEEeeccCCcccCCCccceEEEEEEEEeCCcEEEEeCCCCcccccccccchhccCCCCCCCCChhhHHHHHHHHHHHH
Q 000107 1510 EFYFDIHYDKHSEANSGVLFEIHGLAVCWENSPVYYVNLPKDLWSDHRRKDRFLIYGSSDKNVLTPEHQLEMIKQRWKRI 1589 (2191)
Q Consensus 1510 ~~afD~e~~~~~~~~s~~~~~i~Gia~~~~~~~ayYi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L 1589 (2191)
.+++|++..+. ......+.++++|++ +..+|++..+.. ...++.+
T Consensus 2 ~l~~d~e~~~~----~~~~~~i~~~~l~~~-~~~~~i~~~~~~------------------------------~~~~~~l 46 (155)
T cd00007 2 EVAFDTETTGL----NYHRGKLVGIQIATA-GEAAYIPDELEL------------------------------EEDLEAL 46 (155)
T ss_pred ceEEEEecCCC----CcCCCeEEEEEEEEC-CcEEEEEcCCCH------------------------------HHHHHHH
Confidence 36778764322 111236889999987 557888754210 1234568
Q ss_pred HHhhccCCccEEEechHHHHHHHHhcCcccccccCccccccccccccccccccccccCCCCccchHHHHHHhcCCCCCCC
Q 000107 1590 GEIMEKRDVRKFTWNMKVQIQVLKHAAVSIQRFGGLNLVGTSLGLENVGSSFLLLSPVHLKDGIDMCIVSWILWPDDERS 1669 (2191)
Q Consensus 1590 ~~lLe~~~v~kv~hNlK~dl~vL~~~gi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~lAawLL~P~~~~~ 1669 (2191)
.++|+++.+.|++||+|+++.+|.+.++...+ .++||++|+|+++|+...+
T Consensus 47 ~~~l~~~~~~~v~~~~k~d~~~L~~~~~~~~~-----------------------------~~~D~~~~ayll~~~~~~~ 97 (155)
T cd00007 47 KELLEDEDITKVGHDAKFDLVVLARDGIELPG-----------------------------NIFDTMLAAYLLNPGEGSH 97 (155)
T ss_pred HHHHcCCCCcEEeccHHHHHHHHHHCCCCCCC-----------------------------CcccHHHHHHHhCCCCCcC
Confidence 88999998999999999999999887654332 2589999999999975334
Q ss_pred CchhHHHHHHHhhChHH---HHHhhccCc-h-hhhhHHHHhhhHHHHHHHHHHHHHHHHHH
Q 000107 1670 SNPNLEKEVKKRLSSEA---AAAANRSGR-W-KNQMRRAAHNGCCRRVAQTRALCSVLWKL 1725 (2191)
Q Consensus 1670 ~l~~L~~~~~~~l~~e~---~~~~~~~g~-~-~~~~~~~~~~ya~~Da~~t~~L~~~L~~~ 1725 (2191)
+|+.++.++++... ....+. ++ | .......+..|++.|+.++++|+..+.++
T Consensus 98 ---~l~~l~~~~l~~~~~~~~~~~~~-~~~~~~~~~~~~~~~y~~~da~~~~~l~~~l~~~ 154 (155)
T cd00007 98 ---SLDDLAKEYLGIELDKDEQIYGK-GAKTFARPLSEELLEYAAEDADALLRLYEKLLEE 154 (155)
T ss_pred ---CHHHHHHHHcCCCCccHHHHhcC-CCCccccCCHHHHHHHHHHhHHHHHHHHHHHHhh
Confidence 46666666654431 111111 10 1 11123345669999999999999888754
No 178
>cd06141 WRN_exo DEDDy 3'-5' exonuclease domain of WRN and similar proteins. WRN is a unique RecQ DNA helicase exhibiting an exonuclease activity. It contains a DEDDy-type DnaQ-like 3'-5' exonuclease domain possessing three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. Mutations in the WRN gene cause Werner syndrome, an autosomal recessive disorder associated with premature aging and increased susceptibility to cancer and type II diabetes. WRN interacts with key proteins involved in DNA replication, recombination, and repair. It is believed to maintain genomic stability and life span by participating in DNA processes. WRN is stimulated by Ku70/80, an important regulator of genomic stability.
Probab=98.71 E-value=1.4e-07 Score=106.35 Aligned_cols=163 Identities=12% Similarity=0.119 Sum_probs=112.8
Q ss_pred CcccHHHHHHHHh-hCCeEEEEeeccCCcccCCCccceEEEEEEEEeCCcEEEEeCCCCcccccccccchhccCCCCCCC
Q 000107 1494 ASGGFDCFLDRWE-ATHEFYFDIHYDKHSEANSGVLFEIHGLAVCWENSPVYYVNLPKDLWSDHRRKDRFLIYGSSDKNV 1572 (2191)
Q Consensus 1494 ~~~~~~~~l~~~~-~~~~~afD~e~~~~~~~~s~~~~~i~Gia~~~~~~~ayYi~l~~~~~~~~~~~~~~~~~~~~~~~~ 1572 (2191)
+...+..+++.+. ....++||+|....... .....+.-|.+| .++.+|.+.+.+..
T Consensus 3 ~~~~~~~~~~~~~~~~~~ig~D~E~~~~~~~--~~~~~~~liQl~-~~~~~~l~~~~~~~-------------------- 59 (170)
T cd06141 3 SAQDAEEAVKELLGKEKVVGFDTEWRPSFRK--GKRNKVALLQLA-TESRCLLFQLAHMD-------------------- 59 (170)
T ss_pred CHHHHHHHHHHHhcCCCEEEEeCccCCccCC--CCCCCceEEEEe-cCCcEEEEEhhhhh--------------------
Confidence 4566788889998 89999999998643110 011134445666 44567777664210
Q ss_pred CChhhHHHHHHHHHHHHHHhhccCCccEEEechHHHHHHHH-hcCcccccccCccccccccccccccccccccccCCCCc
Q 000107 1573 LTPEHQLEMIKQRWKRIGEIMEKRDVRKFTWNMKVQIQVLK-HAAVSIQRFGGLNLVGTSLGLENVGSSFLLLSPVHLKD 1651 (2191)
Q Consensus 1573 ~~~~~~~~~~~~~~~~L~~lLe~~~v~kv~hNlK~dl~vL~-~~gi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1651 (2191)
.....|+++|+++.+.|++||+|+|+..|. .+|+.+.+
T Consensus 60 -----------~~~~~l~~ll~~~~i~kv~~~~k~D~~~L~~~~g~~~~~------------------------------ 98 (170)
T cd06141 60 -----------KLPPSLKQLLEDPSILKVGVGIKGDARKLARDFGIEVRG------------------------------ 98 (170)
T ss_pred -----------cccHHHHHHhcCCCeeEEEeeeHHHHHHHHhHcCCCCCC------------------------------
Confidence 112457889999999999999999999997 66776543
Q ss_pred cchHHHHHHhcCCCCCCCCchhHHHHHHHhhChHHHH-HhhccCchh-hhhHHHHhhhHHHHHHHHHHHHHHHH
Q 000107 1652 GIDMCIVSWILWPDDERSSNPNLEKEVKKRLSSEAAA-AANRSGRWK-NQMRRAAHNGCCRRVAQTRALCSVLW 1723 (2191)
Q Consensus 1652 ~~Dt~lAawLL~P~~~~~~l~~L~~~~~~~l~~e~~~-~~~~~g~~~-~~~~~~~~~ya~~Da~~t~~L~~~L~ 1723 (2191)
.+|+++|+|+++|..... +|..++..+++.+... ...+...|. .++......||+.||.+++.||..|.
T Consensus 99 ~~Dl~~aa~ll~~~~~~~---~l~~l~~~~l~~~~~k~k~~~~s~W~~rpLt~~qi~YAa~Da~~~~~l~~~l~ 169 (170)
T cd06141 99 VVDLSHLAKRVGPRRKLV---SLARLVEEVLGLPLSKPKKVRCSNWEARPLSKEQILYAATDAYASLELYRKLL 169 (170)
T ss_pred eeeHHHHHHHhCCCcCCc---cHHHHHHHHcCcccCCCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence 489999999999964333 4666677777665441 111234454 45777788999999999999998874
No 179
>TIGR00604 rad3 DNA repair helicase (rad3). All proteins in this family for which funcitons are known are DNA-DNA helicases that funciton in the initiation of transcription and nucleotide excision repair as part of the TFIIH complex. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.70 E-value=1.9e-06 Score=117.82 Aligned_cols=73 Identities=16% Similarity=0.151 Sum_probs=60.3
Q ss_pred CCCCCCHHHHHhhhh--cccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcC--CEEEEEchhHHHHHHHHHHHHHH
Q 000107 521 GISKLYPWQVECLHV--DGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTG--KMALLVLPYVSICAEKAEHLEVL 593 (2191)
Q Consensus 521 Gi~~l~p~Q~eal~~--~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g--~kaL~I~P~raLA~q~~~~l~~l 593 (2191)
.|..+||.|.+.... ..+..++++++-+|||+|||++.+.+.|......+ .+++|.+.|.+=..|..++++++
T Consensus 7 Py~~~y~~Q~~~m~~v~~~l~~~~~~llEsPTGtGKTlslL~~aL~~~~~~~~~~kIiy~sRThsQl~q~i~Elk~~ 83 (705)
T TIGR00604 7 PYEKIYPEQRSYMRDLKRSLDRGDEAILEMPSGTGKTISLLSLILAYQQEKPEVRKIIYASRTHSQLEQATEELRKL 83 (705)
T ss_pred CCCCCCHHHHHHHHHHHHHhccCCceEEeCCCCCCccHHHHHHHHHHHHhccccccEEEEcccchHHHHHHHHHHhh
Confidence 467779999987653 23557999999999999999999999998766545 68999999999888888888774
No 180
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=98.68 E-value=3e-07 Score=122.31 Aligned_cols=325 Identities=19% Similarity=0.215 Sum_probs=191.6
Q ss_pred CCCCHHHHHhhhhc--ccccCCeEEEEcCCCCchhHHHHHHHHHHHHh---cCCEEEEEchhHHHHHHHHHHHHHHhhcc
Q 000107 523 SKLYPWQVECLHVD--GVLQRRNLVYCASTSAGKSFVAEILMLRRLIS---TGKMALLVLPYVSICAEKAEHLEVLLEPL 597 (2191)
Q Consensus 523 ~~l~p~Q~eal~~~--~il~gknlIi~APTGSGKTlvael~iL~~ll~---~g~kaL~I~P~raLA~q~~~~l~~l~~~l 597 (2191)
.+|+++|.+-++.. .+..++|+|+.-.-|-|||+.-. ..|..+.. -.+..|+|+|.-.+. -..+.|..+.
T Consensus 369 ~~LRdyQLeGlNWl~~~W~~~~n~ILADEmgLgktvqti-~fl~~l~~~~~~~gpflvvvplst~~-~W~~ef~~w~--- 443 (1373)
T KOG0384|consen 369 NELRDYQLEGLNWLLYSWYKRNNCILADEMGLGKTVQTI-TFLSYLFHSLQIHGPFLVVVPLSTIT-AWEREFETWT--- 443 (1373)
T ss_pred chhhhhhcccchhHHHHHHhcccceehhhcCCCcchHHH-HHHHHHHHhhhccCCeEEEeehhhhH-HHHHHHHHHh---
Confidence 68999999998762 12368999999999999997643 23333332 234678899975443 3334444433
Q ss_pred CCeEEEEeccCCCCC--------CCC-----CCceEEEchHHHHHHHHHhhhcCCCCc--cceEEEcccccccccchhHH
Q 000107 598 GRHVRSYYGNQGGGS--------LPK-----DTSVAVCTIEKANSLVNRMLEEGRLSE--IGIIVIDELHMVADQNRGYL 662 (2191)
Q Consensus 598 g~~V~~~~G~~~~~~--------l~~-----~~~IiV~TpEkl~~Ll~~l~~~~~L~~--l~lVVIDEaH~l~d~~RG~~ 662 (2191)
...+.+|+|+..... ... ..+++++|+|.++. ....|+. ..+++|||+|.|-.. -...
T Consensus 444 ~mn~i~y~g~~~sr~~i~~ye~~~~~~~~~lkf~~lltTye~~Lk------Dk~~L~~i~w~~~~vDeahrLkN~-~~~l 516 (1373)
T KOG0384|consen 444 DMNVIVYHGNLESRQLIRQYEFYHSSNTKKLKFNALLTTYEIVLK------DKAELSKIPWRYLLVDEAHRLKND-ESKL 516 (1373)
T ss_pred hhceeeeecchhHHHHHHHHHheecCCccccccceeehhhHHHhc------cHhhhccCCcceeeecHHhhcCch-HHHH
Confidence 667888999864321 111 37899999998533 2223333 479999999998753 1223
Q ss_pred HHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccC-C-CHHHHHHHhh---cccc------cccc---
Q 000107 663 LELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATM-P-NVAAVADWLQ---AALY------ETNF--- 728 (2191)
Q Consensus 663 lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL-~-N~~~la~wL~---a~l~------~~~~--- 728 (2191)
++. |..++. -.-++++.|. . |+++|...|+ ..-| ..++
T Consensus 517 ~~~-l~~f~~---------------------------~~rllitgTPlQNsikEL~sLl~Fl~P~kf~~~~~f~~~~~~~ 568 (1373)
T KOG0384|consen 517 YES-LNQFKM---------------------------NHRLLITGTPLQNSLKELWSLLHFLMPGKFDSWDEFLEEFDEE 568 (1373)
T ss_pred HHH-HHHhcc---------------------------cceeeecCCCccccHHHHHHHhcccCCCCCCcHHHHHHhhcch
Confidence 333 333321 1346777773 3 4777776553 1100 0000
Q ss_pred ------------ccc---------------cceEEEEecccc-----c----cc---------------hhhHHHHHHHh
Q 000107 729 ------------RPV---------------PLEEYIKVGNAI-----Y----SK---------------KMDVVRTILTA 757 (2191)
Q Consensus 729 ------------Rpv---------------pL~e~i~~~~~~-----~----~~---------------~~~~~r~l~~~ 757 (2191)
+|. ..+..+.+.-.. | .+ -..++-.+.+.
T Consensus 569 ~e~~~~~L~~~L~P~~lRr~kkdvekslp~k~E~IlrVels~lQk~yYk~ILtkN~~~LtKG~~g~~~~lLNimmELkKc 648 (1373)
T KOG0384|consen 569 TEEQVRKLQQILKPFLLRRLKKDVEKSLPPKEETILRVELSDLQKQYYKAILTKNFSALTKGAKGSTPSLLNIMMELKKC 648 (1373)
T ss_pred hHHHHHHHHHHhhHHHHHHHHhhhccCCCCCcceEEEeehhHHHHHHHHHHHHhhHHHHhccCCCCCchHHHHHHHHHHh
Confidence 111 111122211110 0 00 01111111111
Q ss_pred hcc----C-------------------------CCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhccc
Q 000107 758 ANL----G-------------------------GKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSI 808 (2191)
Q Consensus 758 ~~~----~-------------------------~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~ 808 (2191)
.+. . ..+.-.|-.|+..+...|++||||..-.+...-++..|.. .++
T Consensus 649 cNHpyLi~gaee~~~~~~~~~~~d~~L~~lI~sSGKlVLLDKLL~rLk~~GHrVLIFSQMVRmLDIL~eYL~~----r~y 724 (1373)
T KOG0384|consen 649 CNHPYLIKGAEEKILGDFRDKMRDEALQALIQSSGKLVLLDKLLPRLKEGGHRVLIFSQMVRMLDILAEYLSL----RGY 724 (1373)
T ss_pred cCCccccCcHHHHHHHhhhhcchHHHHHHHHHhcCcEEeHHHHHHHHhcCCceEEEhHHHHHHHHHHHHHHHH----cCC
Confidence 100 0 0011112234455556789999998776655555555532 111
Q ss_pred ccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHHHHHHHHHhhc---CCceEEEecccccccCCC
Q 000107 809 NVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETCYRK---GLVRVLTATSTLAAGVNL 885 (2191)
Q Consensus 809 ~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~eR~~Ve~~Fr~---G~ikVLVATstLa~GVNL 885 (2191)
.---+-|++..+-|+..++.|.. .....|+||..-.-||||
T Consensus 725 ------------------------------------pfQRLDGsvrgelRq~AIDhFnap~SddFvFLLSTRAGGLGINL 768 (1373)
T KOG0384|consen 725 ------------------------------------PFQRLDGSVRGELRQQAIDHFNAPDSDDFVFLLSTRAGGLGINL 768 (1373)
T ss_pred ------------------------------------cceeccCCcchHHHHHHHHhccCCCCCceEEEEecccCcccccc
Confidence 12235688889999999999974 456789999999999999
Q ss_pred CCc-eEEe-ecCCCCCcccCcccccccccccCCCCCCCceEEEEEeChhh
Q 000107 886 PAR-RVIF-RQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESMLICKPEE 933 (2191)
Q Consensus 886 Pav-~VVI-~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~ill~~~~e 933 (2191)
-+. +||| +++. ++..=+|..-||-|-|+...-.+|.|++..-
T Consensus 769 atADTVIIFDSDW------NPQNDLQAqARaHRIGQkk~VnVYRLVTk~T 812 (1373)
T KOG0384|consen 769 ATADTVIIFDSDW------NPQNDLQAQARAHRIGQKKHVNVYRLVTKNT 812 (1373)
T ss_pred cccceEEEeCCCC------CcchHHHHHHHHHhhcccceEEEEEEecCCc
Confidence 874 4544 4444 5666779999999999888889999998754
No 181
>COG0349 Rnd Ribonuclease D [Translation, ribosomal structure and biogenesis]
Probab=98.65 E-value=2.2e-07 Score=112.74 Aligned_cols=171 Identities=12% Similarity=0.066 Sum_probs=127.5
Q ss_pred CcccHHHHHHHHhhCCeEEEEeeccCCcccCCCccc--eEEEEEEEEeCCcEEEEeCCCCcccccccccchhccCCCCCC
Q 000107 1494 ASGGFDCFLDRWEATHEFYFDIHYDKHSEANSGVLF--EIHGLAVCWENSPVYYVNLPKDLWSDHRRKDRFLIYGSSDKN 1571 (2191)
Q Consensus 1494 ~~~~~~~~l~~~~~~~~~afD~e~~~~~~~~s~~~~--~i~Gia~~~~~~~ayYi~l~~~~~~~~~~~~~~~~~~~~~~~ 1571 (2191)
+...++.++..+.+.+.+++|+|+.+. .+| .+.-|.+|-+++ ++.|..-...
T Consensus 3 ~~~~l~~~~~~~~~~~~iAiDTEf~r~------~t~~p~LcLIQi~~~e~-~~lIdpl~~~------------------- 56 (361)
T COG0349 3 TGDLLAAACALLRGSKAIAIDTEFMRL------RTYYPRLCLIQISDGEG-ASLIDPLAGI------------------- 56 (361)
T ss_pred chhHHHHHHHHhcCCCceEEecccccc------cccCCceEEEEEecCCC-ceEecccccc-------------------
Confidence 345567788888889999999999754 222 355567777666 5555432110
Q ss_pred CCChhhHHHHHHHHHHHHHHhhccCCccEEEechHHHHHHHHhc-CcccccccCccccccccccccccccccccccCCCC
Q 000107 1572 VLTPEHQLEMIKQRWKRIGEIMEKRDVRKFTWNMKVQIQVLKHA-AVSIQRFGGLNLVGTSLGLENVGSSFLLLSPVHLK 1650 (2191)
Q Consensus 1572 ~~~~~~~~~~~~~~~~~L~~lLe~~~v~kv~hNlK~dl~vL~~~-gi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1650 (2191)
..+..|..+|.++.+.||+|.+.||+.+|.+. |+.+.
T Consensus 57 ------------~d~~~l~~Ll~d~~v~KIfHaa~~DL~~l~~~~g~~p~------------------------------ 94 (361)
T COG0349 57 ------------LDLPPLVALLADPNVVKIFHAARFDLEVLLNLFGLLPT------------------------------ 94 (361)
T ss_pred ------------cccchHHHHhcCCceeeeeccccccHHHHHHhcCCCCC------------------------------
Confidence 11245788999999999999999999999885 33222
Q ss_pred ccchHHHHHHhcCCCCCCCCchhHHHHHHHhhChHHHHHhhccCchhhhhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 000107 1651 DGIDMCIVSWILWPDDERSSNPNLEKEVKKRLSSEAAAAANRSGRWKNQMRRAAHNGCCRRVAQTRALCSVLWKLLVSEE 1730 (2191)
Q Consensus 1651 ~~~Dt~lAawLL~P~~~~~~l~~L~~~~~~~l~~e~~~~~~~~g~~~~~~~~~~~~ya~~Da~~t~~L~~~L~~~L~~~~ 1730 (2191)
.+|||.||+-+..-.. +++ |++++.++++.+..+..+.+.+.+.++.+.+.+||+.||.+.+.||..|...|.+++
T Consensus 95 plfdTqiAa~l~g~~~-~~g---l~~Lv~~ll~v~ldK~~q~SDW~~RPLs~~Ql~YAa~DV~yL~~l~~~L~~~L~~~~ 170 (361)
T COG0349 95 PLFDTQIAAKLAGFGT-SHG---LADLVEELLGVELDKSEQRSDWLARPLSEAQLEYAAADVEYLLPLYDKLTEELAREG 170 (361)
T ss_pred chhHHHHHHHHhCCcc-ccc---HHHHHHHHhCCcccccccccccccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 2699999999998654 664 677788888888766555555556678888999999999999999999999999877
Q ss_pred HHHHHH
Q 000107 1731 LIEALL 1736 (2191)
Q Consensus 1731 L~~l~~ 1736 (2191)
....+.
T Consensus 171 r~~~a~ 176 (361)
T COG0349 171 RLEWAE 176 (361)
T ss_pred chHHHH
Confidence 666553
No 182
>cd09018 DEDDy_polA_RNaseD_like_exo DEDDy 3'-5' exonuclease domain of family-A DNA polymerases, RNase D, WRN, and similar proteins. DEDDy exonucleases, part of the DnaQ-like (or DEDD) exonuclease superfamily, catalyze the excision of nucleoside monophosphates at the DNA or RNA termini in the 3'-5' direction. They contain four invariant acidic residues in three conserved sequence motifs termed ExoI, ExoII and ExoIII. DEDDy exonucleases are classified as such because of the presence of a specific YX(3)D pattern at ExoIII. The four conserved acidic residues serve as ligands for the two metal ions required for catalysis. This family of DEDDy exonucleases includes the proofreading domains of family A DNA polymerases, as well as RNases such as RNase D and yeast Rrp6p. The Egalitarian (Egl) and Bacillus-like DNA Polymerase I subfamilies do not possess a completely conserved YX(3)D pattern at the ExoIII motif. In addition, the Bacillus-like DNA polymerase I subfamily has inactive 3'-5' exonucle
Probab=98.64 E-value=3.4e-07 Score=100.48 Aligned_cols=129 Identities=16% Similarity=0.219 Sum_probs=88.6
Q ss_pred eEEEEEEEEeCCcEEEEeCCCCcccccccccchhccCCCCCCCCChhhHHHHHHHHHHHHHHhhccCCccEEEechHHHH
Q 000107 1530 EIHGLAVCWENSPVYYVNLPKDLWSDHRRKDRFLIYGSSDKNVLTPEHQLEMIKQRWKRIGEIMEKRDVRKFTWNMKVQI 1609 (2191)
Q Consensus 1530 ~i~Gia~~~~~~~ayYi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~lLe~~~v~kv~hNlK~dl 1609 (2191)
++.|+++|.+++.+||+++.+.. . ..+.|+++|+++.+.|++||+|.++
T Consensus 17 ~~~~l~l~~~~~~~~~i~~~~~~------~-------------------------~~~~l~~~l~~~~~~kv~~d~K~~~ 65 (150)
T cd09018 17 NLVLIQLAIEPGVAALIPVAHDY------L-------------------------ALELLKPLLEDEKALKVGQNLKYDR 65 (150)
T ss_pred eEEEEEEEcCCCcEEEEEcCCcc------c-------------------------CHHHHHHHhcCCCCceeeecHHHHH
Confidence 58899999765558888764210 0 0134778999999999999999999
Q ss_pred HHHHhcCcccccccCccccccccccccccccccccccCCCCccchHHHHHHhcCCCCCCCCchhHHHHHHHhhChHH---
Q 000107 1610 QVLKHAAVSIQRFGGLNLVGTSLGLENVGSSFLLLSPVHLKDGIDMCIVSWILWPDDERSSNPNLEKEVKKRLSSEA--- 1686 (2191)
Q Consensus 1610 ~vL~~~gi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~lAawLL~P~~~~~~l~~L~~~~~~~l~~e~--- 1686 (2191)
+.|++.|+.+.+. .+|+++|+|||+|+...+ ++..++.++++...
T Consensus 66 ~~L~~~~~~~~~~-----------------------------~~D~~laayLl~p~~~~~---~l~~l~~~~l~~~~~~~ 113 (150)
T cd09018 66 GILLNYFIELRGI-----------------------------AFDTMLEAYILNSVAGRW---DMDSLVERWLGHKLIKF 113 (150)
T ss_pred HHHHHcCCccCCc-----------------------------chhHHHHHHHhCCCCCCC---CHHHHHHHHhCCCcccH
Confidence 9998887765532 589999999999975233 46666676665441
Q ss_pred HHHhhccCchhhhh-HHHHhhhHHHHHHHHHHHHHHHH
Q 000107 1687 AAAANRSGRWKNQM-RRAAHNGCCRRVAQTRALCSVLW 1723 (2191)
Q Consensus 1687 ~~~~~~~g~~~~~~-~~~~~~ya~~Da~~t~~L~~~L~ 1723 (2191)
....+. | |.... ......|++.|+..+++|+..|.
T Consensus 114 ~~~~~~-~-~~~~~~~~~~~~ya~~~a~~l~~L~~~l~ 149 (150)
T cd09018 114 ESIAGK-L-WFNQPLTEEQGRYAAEDADVTLQIHLKLW 149 (150)
T ss_pred HHhcCC-C-CcccCCHHHHHHHHHHHHHHHHHHHHHhc
Confidence 111111 2 42121 33345689999999998888764
No 183
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=98.61 E-value=4.7e-07 Score=120.82 Aligned_cols=127 Identities=20% Similarity=0.188 Sum_probs=86.7
Q ss_pred CCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEE
Q 000107 524 KLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRS 603 (2191)
Q Consensus 524 ~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~ 603 (2191)
.+|++|.-. ++.-++--|.-+.||-||||++-+|+.-..+ .|+.+-+|...-.||..=++++..++..+|+.|++
T Consensus 169 ~~yDVQliG----givLh~G~IAEM~TGEGKTLvAtlp~yLnAL-~GkgVHvVTVNDYLA~RDaewmgply~fLGLsvg~ 243 (1112)
T PRK12901 169 VHYDVQLIG----GVVLHQGKIAEMATGEGKTLVATLPVYLNAL-TGNGVHVVTVNDYLAKRDSEWMGPLYEFHGLSVDC 243 (1112)
T ss_pred cccchHHhh----hhhhcCCceeeecCCCCchhHHHHHHHHHHH-cCCCcEEEEechhhhhccHHHHHHHHHHhCCceee
Confidence 566666532 2333455577999999999999999876665 46667777888899999999999999999999987
Q ss_pred EeccC-CC--CCCCCCCceEEEchHHH--HHHHHHhh---hcCCCCccceEEEccccccc
Q 000107 604 YYGNQ-GG--GSLPKDTSVAVCTIEKA--NSLVNRML---EEGRLSEIGIIVIDELHMVA 655 (2191)
Q Consensus 604 ~~G~~-~~--~~l~~~~~IiV~TpEkl--~~Ll~~l~---~~~~L~~l~lVVIDEaH~l~ 655 (2191)
..... .. ....-.+||.++|..-+ +.|-.++. .......+.+.||||+|-+.
T Consensus 244 i~~~~~~~~~rr~aY~~DItYgTn~EfGFDYLRDnm~~~~~~~vqR~~~fAIVDEvDSIL 303 (1112)
T PRK12901 244 IDKHQPNSEARRKAYNADITYGTNNEFGFDYLRDNMAHSPEDLVQRKHNYAIVDEVDSVL 303 (1112)
T ss_pred cCCCCCCHHHHHHhCCCcceecCCCccccccchhccccchHhhhCcCCceeEeechhhhh
Confidence 64421 11 11112479999997654 22222221 12234568899999999654
No 184
>cd06128 DNA_polA_exo DEDDy 3'-5' exonuclease domain of family-A DNA polymerases. The 3'-5' exonuclease domain of family-A DNA polymerases has a fundamental role in reducing polymerase errors and is involved in proofreading activity. Family-A DNA polymerases contain a DnaQ-like exonuclease domain in the same polypeptide chain as the polymerase domain, similar to family-B DNA polymerases. The exonuclease domain contains three conserved sequence motifs termed ExoI, ExoII and ExoIII, which are clustered around the active site and contain four invariant acidic residues that serve as ligands for the two metal ions required for catalysis. The Klenow fragment (KF) of Escherichia coli Pol I, the Thermus aquaticus (Taq) Pol I, and Bacillus stearothermophilus (BF) Pol I are examples of family-A DNA polymerases. They are involved in nucleotide excision repair and in the processing of Okazaki fragments that are generated during lagging strand synthesis. The N-terminal domains of BF Pol I and Taq Po
Probab=98.52 E-value=1.1e-06 Score=97.04 Aligned_cols=129 Identities=19% Similarity=0.284 Sum_probs=84.5
Q ss_pred ceEEEEEEEEeCCcEEEEeCCCCcccccccccchhccCCCCCCCCChhhHHHHHHHHHHHHHHhhccCCccEEEechHHH
Q 000107 1529 FEIHGLAVCWENSPVYYVNLPKDLWSDHRRKDRFLIYGSSDKNVLTPEHQLEMIKQRWKRIGEIMEKRDVRKFTWNMKVQ 1608 (2191)
Q Consensus 1529 ~~i~Gia~~~~~~~ayYi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~lLe~~~v~kv~hNlK~d 1608 (2191)
.++.|++++.+++ +||+++... .. .+.|+++|++..+.|++||+|+.
T Consensus 18 ~~~~glal~~~~~-~~yi~~~~~---~~-----------------------------~~~l~~~l~~~~~~ki~~d~K~~ 64 (151)
T cd06128 18 ANLVGLAFAIEGV-AAYIPVAHD---YA-----------------------------LELLKPLLEDEKALKVGQNLKYD 64 (151)
T ss_pred CcEEEEEEEcCCC-eEEEeCCCC---cC-----------------------------HHHHHHHHcCCCCCEEeeehHHH
Confidence 3588999997654 888874310 00 12477889988899999999999
Q ss_pred HHHHHhcCcccccccCccccccccccccccccccccccCCCCccchHHHHHHhcCCCCCCCCchhHHHHHHHhhChH-H-
Q 000107 1609 IQVLKHAAVSIQRFGGLNLVGTSLGLENVGSSFLLLSPVHLKDGIDMCIVSWILWPDDERSSNPNLEKEVKKRLSSE-A- 1686 (2191)
Q Consensus 1609 l~vL~~~gi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~lAawLL~P~~~~~~l~~L~~~~~~~l~~e-~- 1686 (2191)
+++|+++|+.+.+. .||+|||+|||+|+...++ +..++.+++... .
T Consensus 65 ~~~l~~~gi~l~~~-----------------------------~fD~~LAaYLL~p~~~~~~---l~~la~~yl~~~~~~ 112 (151)
T cd06128 65 RVILANYGIELRGI-----------------------------AFDTMLEAYLLDPVAGRHD---MDSLAERWLKEKTIT 112 (151)
T ss_pred HHHHHHCCCCCCCc-----------------------------chhHHHHHHHcCCCCCCCC---HHHHHHHHcCCCCcc
Confidence 99999999877642 4899999999999764234 555566665433 1
Q ss_pred -HHHhhccCchhhhh-HHHHhhhHHHHHHHHHHHHHHHH
Q 000107 1687 -AAAANRSGRWKNQM-RRAAHNGCCRRVAQTRALCSVLW 1723 (2191)
Q Consensus 1687 -~~~~~~~g~~~~~~-~~~~~~ya~~Da~~t~~L~~~L~ 1723 (2191)
....++ |+..... ......|++..+..+++|+..|.
T Consensus 113 ~~~~~gk-g~~~~~~~~~~~~~~~~~~a~~l~~L~~~l~ 150 (151)
T cd06128 113 FEEIAGK-GLTFNQIALEEAGEYAAEDAAVTLQLHLKMW 150 (151)
T ss_pred HHHHcCC-CCChhhcCHHHHHHHHHHHHHHHHHHHHHhh
Confidence 112222 2100011 11123477887888888877764
No 185
>PF00176 SNF2_N: SNF2 family N-terminal domain; InterPro: IPR000330 This domain is found in proteins involved in a variety of processes including transcription regulation (e.g., SNF2, STH1, brahma, MOT1), DNA repair (e.g., ERCC6, RAD16, RAD5), DNA recombination (e.g., RAD54), and chromatin unwinding (e.g., ISWI) as well as a variety of other proteins with little functional information (e.g., lodestar, ETL1) [, ]. SNF2 functions as the ATPase component of the SNF2/SWI multisubunit complex, which utilises energy derived from ATP hydrolysis to disrupt histone-DNA interactions, resulting in the increased accessibility of DNA to transcription factors. Proteins that contain this domain appear to be distantly related to the DEAX box helicases IPR001410 from INTERPRO, however no helicase activity has ever been demonstrated for these proteins. ; GO: 0003677 DNA binding, 0005524 ATP binding; PDB: 1Z63_B 1Z3I_X 3DMQ_A 3MWY_W.
Probab=98.50 E-value=1.1e-06 Score=107.42 Aligned_cols=111 Identities=21% Similarity=0.244 Sum_probs=72.6
Q ss_pred cCCeEEEEcCCCCchhHHHHHHHHHHHHhcC-----CEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccC----CC
Q 000107 540 QRRNLVYCASTSAGKSFVAEILMLRRLISTG-----KMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQ----GG 610 (2191)
Q Consensus 540 ~gknlIi~APTGSGKTlvael~iL~~ll~~g-----~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~----~~ 610 (2191)
..+..|++-.+|.|||+.+...+. .+...+ +.+|||+|. ++..+...++.+++.+...++..+.|.. ..
T Consensus 24 ~~~g~lL~de~GlGKT~~~i~~~~-~l~~~~~~~~~~~~LIv~P~-~l~~~W~~E~~~~~~~~~~~v~~~~~~~~~~~~~ 101 (299)
T PF00176_consen 24 PPRGGLLADEMGLGKTITAIALIS-YLKNEFPQRGEKKTLIVVPS-SLLSQWKEEIEKWFDPDSLRVIIYDGDSERRRLS 101 (299)
T ss_dssp TT-EEEE---TTSSHHHHHHHHHH-HHHHCCTTSS-S-EEEEE-T-TTHHHHHHHHHHHSGT-TS-EEEESSSCHHHHTT
T ss_pred CCCCEEEEECCCCCchhhhhhhhh-hhhhccccccccceeEeecc-chhhhhhhhhcccccccccccccccccccccccc
Confidence 457899999999999988865554 333322 259999999 8888999999988765456777776655 11
Q ss_pred CCCCCCCceEEEchHHHH-----HHHHHhhhcCCCCccceEEEcccccccc
Q 000107 611 GSLPKDTSVAVCTIEKAN-----SLVNRMLEEGRLSEIGIIVIDELHMVAD 656 (2191)
Q Consensus 611 ~~l~~~~~IiV~TpEkl~-----~Ll~~l~~~~~L~~l~lVVIDEaH~l~d 656 (2191)
.......+++|+|++.+. .....+ . --+.++|||||+|.+.+
T Consensus 102 ~~~~~~~~vvi~ty~~~~~~~~~~~~~~l-~---~~~~~~vIvDEaH~~k~ 148 (299)
T PF00176_consen 102 KNQLPKYDVVITTYETLRKARKKKDKEDL-K---QIKWDRVIVDEAHRLKN 148 (299)
T ss_dssp SSSCCCSSEEEEEHHHHH--TSTHTTHHH-H---TSEEEEEEETTGGGGTT
T ss_pred ccccccceeeecccccccccccccccccc-c---cccceeEEEeccccccc
Confidence 223456899999999976 211111 1 12489999999999954
No 186
>TIGR03117 cas_csf4 CRISPR-associated DEAD/DEAH-box helicase Csf4. Members of this family show up near CRISPR repeats in Acidithiobacillus ferrooxidans ATCC 23270, Azoarcus sp. EbN1, and Rhodoferax ferrireducens DSM 15236. In the latter two species, the CRISPR/cas locus is found on a plasmid. This family is one of several characteristic of a type of CRISPR-associated (cas) gene cluster we designate Aferr after A. ferrooxidans, where it is both chromosomal and the only type of cas gene cluster found. The gene is designated csf4 (CRISPR/cas Subtype as in A. ferrooxidans protein 1), as it lies farthest (fourth closest) from the repeats in the A. ferrooxidans genome.
Probab=98.46 E-value=8.3e-07 Score=117.08 Aligned_cols=57 Identities=23% Similarity=0.250 Sum_probs=51.0
Q ss_pred cccCCeEEEEcCCCCchhHHHHHHHHHHHHh-cCCEEEEEchhHHHHHHHHHHHHHHh
Q 000107 538 VLQRRNLVYCASTSAGKSFVAEILMLRRLIS-TGKMALLVLPYVSICAEKAEHLEVLL 594 (2191)
Q Consensus 538 il~gknlIi~APTGSGKTlvael~iL~~ll~-~g~kaL~I~P~raLA~q~~~~l~~l~ 594 (2191)
+.+++.+++.||||+|||++|+++++..+.. .++++||++||++|+.|.++.+..+.
T Consensus 13 l~~~~~lliEA~TGtGKTlAYLlpal~~~~~~~~~rvlIstpT~~Lq~Ql~~~l~~l~ 70 (636)
T TIGR03117 13 LRQKRIGMLEASTGVGKTLAMIMAALTMLKERPDQKIAIAVPTLALMGQLWSELERLT 70 (636)
T ss_pred HhcCCeEEEEcCCCCcHHHHHHHHHHHHHHhccCceEEEECCcHHHHHHHHHHHHHHH
Confidence 5578999999999999999999999887764 57899999999999999999887766
No 187
>KOG0392 consensus SNF2 family DNA-dependent ATPase domain-containing protein [Transcription]
Probab=98.42 E-value=2e-05 Score=105.06 Aligned_cols=127 Identities=17% Similarity=0.249 Sum_probs=88.7
Q ss_pred CCCHHHHHhhhhccccc--CCeEEEEcCCCCchhHHHHHHHHHHHHhc--------CCEEEEEchhHHHHHHHHHHHHHH
Q 000107 524 KLYPWQVECLHVDGVLQ--RRNLVYCASTSAGKSFVAEILMLRRLIST--------GKMALLVLPYVSICAEKAEHLEVL 593 (2191)
Q Consensus 524 ~l~p~Q~eal~~~~il~--gknlIi~APTGSGKTlvael~iL~~ll~~--------g~kaL~I~P~raLA~q~~~~l~~l 593 (2191)
.|+.+|.+-+++.+++. +-+-|+|-.-|=|||+...-.+.....++ ....|||+|. .|+--+..++.++
T Consensus 975 ~LRkYQqEGVnWLaFLnky~LHGILcDDMGLGKTLQticilAsd~y~r~s~~~e~~~~PSLIVCPs-TLtGHW~~E~~kf 1053 (1549)
T KOG0392|consen 975 KLRKYQQEGVNWLAFLNKYKLHGILCDDMGLGKTLQTICILASDHYKRRSESSEFNRLPSLIVCPS-TLTGHWKSEVKKF 1053 (1549)
T ss_pred HHHHHHHhccHHHHHHHHhcccceeeccccccHHHHHHHHHHHHHHhhcccchhhccCCeEEECCc-hhhhHHHHHHHHh
Confidence 46679999998755554 56889999999999998764333333322 2248999995 7888888888888
Q ss_pred hhccCCeEEEEeccCCCCC----CCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEccccccccc
Q 000107 594 LEPLGRHVRSYYGNQGGGS----LPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQ 657 (2191)
Q Consensus 594 ~~~lg~~V~~~~G~~~~~~----l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~ 657 (2191)
+.. ++|..|.|...... .-++.+|+|+.++.+-.=+..+.. .+..++|+||-|-|-+.
T Consensus 1054 ~pf--L~v~~yvg~p~~r~~lR~q~~~~~iiVtSYDv~RnD~d~l~~----~~wNYcVLDEGHVikN~ 1115 (1549)
T KOG0392|consen 1054 FPF--LKVLQYVGPPAERRELRDQYKNANIIVTSYDVVRNDVDYLIK----IDWNYCVLDEGHVIKNS 1115 (1549)
T ss_pred cch--hhhhhhcCChHHHHHHHhhccccceEEeeHHHHHHHHHHHHh----cccceEEecCcceecch
Confidence 765 56777777654322 224579999999986433333222 24579999999998753
No 188
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=98.36 E-value=1.6e-05 Score=102.28 Aligned_cols=93 Identities=14% Similarity=0.134 Sum_probs=71.0
Q ss_pred hhcCCcEEEEcCCCCHHHHHHHHHHhhcC-Cc-eEEEecccccccCCCCCceEEeecCCCCCcccCcccccccccccCCC
Q 000107 840 ETLPSGVAYHHAGLTVEEREVVETCYRKG-LV-RVLTATSTLAAGVNLPARRVIFRQPRIGRDFIDGTRYRQMAGRAGRT 917 (2191)
Q Consensus 840 ~~l~~GVa~hHagLs~~eR~~Ve~~Fr~G-~i-kVLVATstLa~GVNLPav~VVI~~p~~g~~~is~~~y~QmiGRAGR~ 917 (2191)
.++.++..-+-|...-.+|..++..|... .| -.|++|-.-.-||||-...+||-++.- +++-.=+|.--||-|.
T Consensus 798 ~~l~~~ylRLDGsTqV~~RQ~lId~Fn~d~difVFLLSTKAGG~GINLt~An~VIihD~d----FNP~dD~QAEDRcHRv 873 (941)
T KOG0389|consen 798 DTLGYKYLRLDGSTQVNDRQDLIDEFNTDKDIFVFLLSTKAGGFGINLTCANTVIIHDID----FNPYDDKQAEDRCHRV 873 (941)
T ss_pred HhcCceEEeecCCccchHHHHHHHhhccCCceEEEEEeeccCcceecccccceEEEeecC----CCCcccchhHHHHHhh
Confidence 45556667778999999999999999864 34 467899999999999988776543321 1333457889999999
Q ss_pred CCCCceEEEEEeChhhHHH
Q 000107 918 GIDTKGESMLICKPEEVKK 936 (2191)
Q Consensus 918 G~d~~Ge~ill~~~~e~~~ 936 (2191)
|..++-.+|.+++..-++.
T Consensus 874 GQtkpVtV~rLItk~TIEE 892 (941)
T KOG0389|consen 874 GQTKPVTVYRLITKSTIEE 892 (941)
T ss_pred CCcceeEEEEEEecCcHHH
Confidence 9988999999988765443
No 189
>cd06146 mut-7_like_exo DEDDy 3'-5' exonuclease domain of Caenorhabditis elegans mut-7 and similar proteins. The mut-7 subfamily is composed of Caenorhabditis elegans mut-7 and similar proteins found in plants and metazoans. Mut-7 is implicated in posttranscriptional gene silencing. It contains a DEDDy-type DnaQ-like 3'-5' exonuclease domain possessing three conserved sequence motifs, termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis.
Probab=98.36 E-value=5.6e-06 Score=95.39 Aligned_cols=181 Identities=14% Similarity=0.126 Sum_probs=119.0
Q ss_pred ceeccCcccHHHHHHH--HhhCCeEEEEeeccCCcccCCCccceEEEEEEEEeCCcEEEEeCCCCcccccccccchhccC
Q 000107 1489 INAINASGGFDCFLDR--WEATHEFYFDIHYDKHSEANSGVLFEIHGLAVCWENSPVYYVNLPKDLWSDHRRKDRFLIYG 1566 (2191)
Q Consensus 1489 i~~v~~~~~~~~~l~~--~~~~~~~afD~e~~~~~~~~s~~~~~i~Gia~~~~~~~ayYi~l~~~~~~~~~~~~~~~~~~ 1566 (2191)
|.++++++++..++.+ +...+.++||+|....... ...-.+.-+.+|. ++.+|.+.+...... .
T Consensus 1 ~~~i~~~~el~~~~~~~~l~~~~vig~D~Ew~~~~~~--~~~~~v~LiQiat-~~~~~lid~~~~~~~-~---------- 66 (193)
T cd06146 1 IHIVDSEEELEALLLALSLEAGRVVGIDSEWKPSFLG--DSDPRVAILQLAT-EDEVFLLDLLALENL-E---------- 66 (193)
T ss_pred CeEecCHHHHHHHHHHHhhccCCEEEEECccCCCccC--CCCCCceEEEEec-CCCEEEEEchhcccc-c----------
Confidence 4578889999999999 7888899999998632110 0012344456664 345666665321000 0
Q ss_pred CCCCCCCChhhHHHHHHHHHHHHHHhhccCCccEEEechHHHHHHHHh-cCcccccccCccccccccccccccccccccc
Q 000107 1567 SSDKNVLTPEHQLEMIKQRWKRIGEIMEKRDVRKFTWNMKVQIQVLKH-AAVSIQRFGGLNLVGTSLGLENVGSSFLLLS 1645 (2191)
Q Consensus 1567 ~~~~~~~~~~~~~~~~~~~~~~L~~lLe~~~v~kv~hNlK~dl~vL~~-~gi~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 1645 (2191)
.......|+++|+++++.||+|++++|+..|++ +|+....+
T Consensus 67 ---------------~~~~~~~L~~ll~d~~i~KVg~~~~~D~~~L~~~~~~~~~~~----------------------- 108 (193)
T cd06146 67 ---------------SEDWDRLLKRLFEDPDVLKLGFGFKQDLKALSASYPALKCMF----------------------- 108 (193)
T ss_pred ---------------hHHHHHHHHHHhCCCCeeEEEechHHHHHHHHHhcCcccccc-----------------------
Confidence 011234688999999999999999999999986 34421100
Q ss_pred cCCCCccchHHHHHHhcCCCCC-------CCCchhHHHHHHHhhChHHHHHhhccCchh-hhhHHHHhhhHHHHHHHHHH
Q 000107 1646 PVHLKDGIDMCIVSWILWPDDE-------RSSNPNLEKEVKKRLSSEAAAAANRSGRWK-NQMRRAAHNGCCRRVAQTRA 1717 (2191)
Q Consensus 1646 ~~~~~~~~Dt~lAawLL~P~~~-------~~~l~~L~~~~~~~l~~e~~~~~~~~g~~~-~~~~~~~~~ya~~Da~~t~~ 1717 (2191)
..+.+++|++.+++.+..... .....+|..++.++++....+. .+.+.|. .++...+..||+.||.+++.
T Consensus 109 -~~~~~v~Dl~~~a~~l~~~~~~~~~~~~~~~~~sL~~l~~~~lg~~l~K~-~q~SdW~~rpLs~~Qi~YAA~Da~~l~~ 186 (193)
T cd06146 109 -ERVQNVLDLQNLAKELQKSDMGRLKGNLPSKTKGLADLVQEVLGKPLDKS-EQCSNWERRPLREEQILYAALDAYCLLE 186 (193)
T ss_pred -ccCCceEEHHHHHHHHhhccccccccccCcccCCHHHHHHHHhCCCcCcc-cccCCCCCCCCCHHHHHHHHHHHHHHHH
Confidence 012346999998888764211 0112367777888887665443 3445675 57888889999999999999
Q ss_pred HHHHHH
Q 000107 1718 LCSVLW 1723 (2191)
Q Consensus 1718 L~~~L~ 1723 (2191)
||..|.
T Consensus 187 l~~~L~ 192 (193)
T cd06146 187 VFDKLL 192 (193)
T ss_pred HHHHHh
Confidence 998875
No 190
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=98.28 E-value=3.9e-06 Score=102.59 Aligned_cols=70 Identities=23% Similarity=0.191 Sum_probs=55.9
Q ss_pred CCCHHHHHhhhh--cccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCC-----EEEEEchhHHHHHHHHHHHHHH
Q 000107 524 KLYPWQVECLHV--DGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGK-----MALLVLPYVSICAEKAEHLEVL 593 (2191)
Q Consensus 524 ~l~p~Q~eal~~--~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~-----kaL~I~P~raLA~q~~~~l~~l 593 (2191)
.++|+|.+.... ..+..|+++++.||||+|||++++++++..+...+. +++|.++|.++..+....+++.
T Consensus 8 ~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~~ 84 (289)
T smart00488 8 EPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRKL 84 (289)
T ss_pred CCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHhc
Confidence 469999994332 125679999999999999999999999877665444 8999999999988877766654
No 191
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=98.28 E-value=3.9e-06 Score=102.59 Aligned_cols=70 Identities=23% Similarity=0.191 Sum_probs=55.9
Q ss_pred CCCHHHHHhhhh--cccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCC-----EEEEEchhHHHHHHHHHHHHHH
Q 000107 524 KLYPWQVECLHV--DGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGK-----MALLVLPYVSICAEKAEHLEVL 593 (2191)
Q Consensus 524 ~l~p~Q~eal~~--~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~-----kaL~I~P~raLA~q~~~~l~~l 593 (2191)
.++|+|.+.... ..+..|+++++.||||+|||++++++++..+...+. +++|.++|.++..+....+++.
T Consensus 8 ~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~~ 84 (289)
T smart00489 8 EPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRKL 84 (289)
T ss_pred CCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHhc
Confidence 469999994332 125679999999999999999999999877665444 8999999999988877766654
No 192
>PF14520 HHH_5: Helix-hairpin-helix domain; PDB: 3AUO_B 3AU6_A 3AU2_A 3B0X_A 3B0Y_A 1SZP_C 3LDA_A 1WCN_A 2JZB_B 2ZTC_A ....
Probab=98.25 E-value=1e-06 Score=81.88 Aligned_cols=57 Identities=32% Similarity=0.428 Sum_probs=52.1
Q ss_pred hhhhcCCCCCCHHHHHHHHHcCCCCHHHHHcCCHHHHHHHHhhcchhHHHHHhhhhHHHHHHHHHHHHH
Q 000107 1230 IVELTTIPYVKGSRARALYKAGLRTPLAIAEASISEIVKALFESSSWIAEAQRRVQLGVAKKIKNGARK 1298 (2191)
Q Consensus 1230 Ll~L~~ip~v~~~RAR~Ly~aG~~t~~~la~a~~~~l~~~l~~~~~~~~~~~~~~~~~~A~~I~~~A~~ 1298 (2191)
-.+|+.|||||..+|++||++||.|++||+.+++++|..+ ++++.+.|.+|+++||+
T Consensus 4 ~~~L~~I~Gig~~~a~~L~~~G~~t~~~l~~a~~~~L~~i------------~Gig~~~a~~i~~~~~~ 60 (60)
T PF14520_consen 4 FDDLLSIPGIGPKRAEKLYEAGIKTLEDLANADPEELAEI------------PGIGEKTAEKIIEAARE 60 (60)
T ss_dssp HHHHHTSTTCHHHHHHHHHHTTCSSHHHHHTSHHHHHHTS------------TTSSHHHHHHHHHHHHH
T ss_pred HHhhccCCCCCHHHHHHHHhcCCCcHHHHHcCCHHHHhcC------------CCCCHHHHHHHHHHHhC
Confidence 3578899999999999999999999999999999999887 67889999999998874
No 193
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=97.96 E-value=4.2e-05 Score=93.47 Aligned_cols=129 Identities=20% Similarity=0.232 Sum_probs=88.3
Q ss_pred CCCCHHHHHhhhhccccc-C----CeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhcc
Q 000107 523 SKLYPWQVECLHVDGVLQ-R----RNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPL 597 (2191)
Q Consensus 523 ~~l~p~Q~eal~~~~il~-g----knlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~l 597 (2191)
-.|-|+|.+-+.. +.. . .--|+.-..|.|||..+.-.+|..+ ++...|+++|+++|. |..+++..... -
T Consensus 183 i~LL~fQkE~l~W--l~~QE~Ss~~GGiLADEMGMGKTIQtIaLllae~--~ra~tLVvaP~VAlm-QW~nEI~~~T~-g 256 (791)
T KOG1002|consen 183 IPLLPFQKEGLAW--LTSQEESSVAGGILADEMGMGKTIQTIALLLAEV--DRAPTLVVAPTVALM-QWKNEIERHTS-G 256 (791)
T ss_pred ecchhhhHHHHHH--HHHhhhhhhccceehhhhccchHHHHHHHHHhcc--ccCCeeEEccHHHHH-HHHHHHHHhcc-C
Confidence 3577888888764 221 1 2356788999999999876666543 567799999999984 55566665443 2
Q ss_pred CCeEEEEeccCCCCCC--CCCCceEEEchHHHHHHHHHhhhc-----------CCCCc--cceEEEccccccccc
Q 000107 598 GRHVRSYYGNQGGGSL--PKDTSVAVCTIEKANSLVNRMLEE-----------GRLSE--IGIIVIDELHMVADQ 657 (2191)
Q Consensus 598 g~~V~~~~G~~~~~~l--~~~~~IiV~TpEkl~~Ll~~l~~~-----------~~L~~--l~lVVIDEaH~l~d~ 657 (2191)
..+|-.|+|....... -.++|++.+|+..+.+..++--.. ..|.+ +--||+||+|.|-+.
T Consensus 257 slkv~~YhG~~R~~nikel~~YDvVLTty~vvEs~yRk~~~GfrrKngv~ke~SlLHsi~~~RiIlDEAH~IK~R 331 (791)
T KOG1002|consen 257 SLKVYIYHGAKRDKNIKELMNYDVVLTTYAVVESVYRKQDYGFRRKNGVDKEKSLLHSIKFYRIILDEAHNIKDR 331 (791)
T ss_pred ceEEEEEecccccCCHHHhhcCcEEEEecHHHHHHHHhccccccccCCcccccchhhhceeeeeehhhhcccccc
Confidence 4678888887644322 246899999999988887751110 11222 457999999999873
No 194
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=97.81 E-value=0.0004 Score=97.23 Aligned_cols=111 Identities=17% Similarity=0.125 Sum_probs=70.9
Q ss_pred CCeEEEEcCCCCchhHHHHHHHHHHHH--hcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCC--CCCCC-C
Q 000107 541 RRNLVYCASTSAGKSFVAEILMLRRLI--STGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQG--GGSLP-K 615 (2191)
Q Consensus 541 gknlIi~APTGSGKTlvael~iL~~ll--~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~--~~~l~-~ 615 (2191)
++.-+|.=-||||||+...... +.+. ...+++++|+-++.|-.|..+.|+.+........ -..+.. ...+. .
T Consensus 273 ~~~G~IWHtqGSGKTlTm~~~A-~~l~~~~~~~~v~fvvDR~dLd~Q~~~~f~~~~~~~~~~~--~~~s~~~Lk~~l~~~ 349 (962)
T COG0610 273 GKGGYIWHTQGSGKTLTMFKLA-RLLLELPKNPKVLFVVDRKDLDDQTSDEFQSFGKVAFNDP--KAESTSELKELLEDG 349 (962)
T ss_pred CCceEEEeecCCchHHHHHHHH-HHHHhccCCCeEEEEechHHHHHHHHHHHHHHHHhhhhcc--cccCHHHHHHHHhcC
Confidence 4678999999999998765433 2222 2567999999999999999999988754332211 011110 01122 2
Q ss_pred CCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccc
Q 000107 616 DTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMV 654 (2191)
Q Consensus 616 ~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l 654 (2191)
...|+|+|+.++...+........-..=-+||+||||.-
T Consensus 350 ~~~ii~TTIQKf~~~~~~~~~~~~~~~~ivvI~DEaHRS 388 (962)
T COG0610 350 KGKIIVTTIQKFNKAVKEDELELLKRKNVVVIIDEAHRS 388 (962)
T ss_pred CCcEEEEEecccchhhhcccccccCCCcEEEEEechhhc
Confidence 358999999999887754200111122247889999993
No 195
>COG0653 SecA Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking and secretion]
Probab=97.71 E-value=0.00025 Score=94.60 Aligned_cols=129 Identities=19% Similarity=0.209 Sum_probs=89.4
Q ss_pred CCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEE
Q 000107 524 KLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRS 603 (2191)
Q Consensus 524 ~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~ 603 (2191)
.++||-.|.+- ++.-+..-|.-.-||=|||+++-+|+.-..+ .|+.+.+|...--||.--.+++..++..+|+.|+.
T Consensus 78 g~~~~dVQliG--~i~lh~g~iaEM~TGEGKTL~atlp~ylnaL-~gkgVhvVTvNdYLA~RDae~m~~l~~~LGlsvG~ 154 (822)
T COG0653 78 GMRHFDVQLLG--GIVLHLGDIAEMRTGEGKTLVATLPAYLNAL-AGKGVHVVTVNDYLARRDAEWMGPLYEFLGLSVGV 154 (822)
T ss_pred CCChhhHHHhh--hhhhcCCceeeeecCCchHHHHHHHHHHHhc-CCCCcEEeeehHHhhhhCHHHHHHHHHHcCCceee
Confidence 34444444453 3555667788999999999999998865444 47778888888999999999999999999999987
Q ss_pred EeccCCCCCC--CCCCceEEEchHHH--HHHHHHh---hhcCCCCccceEEEccccccc
Q 000107 604 YYGNQGGGSL--PKDTSVAVCTIEKA--NSLVNRM---LEEGRLSEIGIIVIDELHMVA 655 (2191)
Q Consensus 604 ~~G~~~~~~l--~~~~~IiV~TpEkl--~~Ll~~l---~~~~~L~~l~lVVIDEaH~l~ 655 (2191)
...+...... .-.+||..+|-..+ +.|-..+ ........+.+.||||++-|.
T Consensus 155 ~~~~m~~~ek~~aY~~DItY~TnnElGFDYLRDNm~~~~ee~vqr~~~faIvDEvDSIL 213 (822)
T COG0653 155 ILAGMSPEEKRAAYACDITYGTNNELGFDYLRDNMVTSQEEKVQRGLNFAIVDEVDSIL 213 (822)
T ss_pred ccCCCChHHHHHHHhcCceeccccccCcchhhhhhhccHHHhhhccCCeEEEcchhhee
Confidence 6655432111 11478999996654 1111111 133345568899999998664
No 196
>PF07517 SecA_DEAD: SecA DEAD-like domain; InterPro: IPR011115 SecA protein binds to the plasma membrane where it interacts with proOmpA to support translocation of proOmpA through the membrane. SecA protein achieves this translocation, in association with SecY protein, in an ATP-dependent manner [,]. This domain represents the N-terminal ATP-dependent helicase domain, which is related to the IPR0011545 from INTERPRO.; GO: 0005524 ATP binding, 0017038 protein import, 0016020 membrane; PDB: 1NL3_B 1NKT_B 3DIN_B 3JUX_A 2FSG_B 2VDA_A 2FSH_A 2FSF_A 2FSI_A 3BXZ_A ....
Probab=97.60 E-value=0.00016 Score=86.75 Aligned_cols=130 Identities=16% Similarity=0.160 Sum_probs=90.7
Q ss_pred cCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCC
Q 000107 520 RGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGR 599 (2191)
Q Consensus 520 ~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~ 599 (2191)
.|+ .|++.|.-+.-. +..|+ |+...||=|||+++.++..-..+ .|+.|=+|.....||..=++++..++..+|+
T Consensus 74 ~g~-~p~~vQll~~l~--L~~G~--laEm~TGEGKTli~~l~a~~~AL-~G~~V~vvT~NdyLA~RD~~~~~~~y~~LGl 147 (266)
T PF07517_consen 74 LGL-RPYDVQLLGALA--LHKGR--LAEMKTGEGKTLIAALPAALNAL-QGKGVHVVTSNDYLAKRDAEEMRPFYEFLGL 147 (266)
T ss_dssp TS-----HHHHHHHHH--HHTTS--EEEESTTSHHHHHHHHHHHHHHT-TSS-EEEEESSHHHHHHHHHHHHHHHHHTT-
T ss_pred cCC-cccHHHHhhhhh--cccce--eEEecCCCCcHHHHHHHHHHHHH-hcCCcEEEeccHHHhhccHHHHHHHHHHhhh
Confidence 555 788888877643 54555 89999999999999888766655 5888889999999999999999999999999
Q ss_pred eEEEEeccCCCCC--CCCCCceEEEchHHHHH-HHHHhhhcC----CCCccceEEEccccccc
Q 000107 600 HVRSYYGNQGGGS--LPKDTSVAVCTIEKANS-LVNRMLEEG----RLSEIGIIVIDELHMVA 655 (2191)
Q Consensus 600 ~V~~~~G~~~~~~--l~~~~~IiV~TpEkl~~-Ll~~l~~~~----~L~~l~lVVIDEaH~l~ 655 (2191)
.|....++..... ..-..+|+++|...+.. .++..+... ....+.++||||+|.+.
T Consensus 148 sv~~~~~~~~~~~r~~~Y~~dI~Y~t~~~~~fD~Lrd~~~~~~~~~~~r~~~~~ivDEvDs~L 210 (266)
T PF07517_consen 148 SVGIITSDMSSEERREAYAADIVYGTNSEFGFDYLRDNLALSKNEQVQRGFDFAIVDEVDSIL 210 (266)
T ss_dssp -EEEEETTTEHHHHHHHHHSSEEEEEHHHHHHHHHHHTT-SSGGG--SSSSSEEEECTHHHHT
T ss_pred ccccCccccCHHHHHHHHhCcccccccchhhHHHHHHHHhhccchhccCCCCEEEEeccceEE
Confidence 9998877543110 00136899999988643 343222211 24678999999999764
No 197
>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1
Probab=97.45 E-value=0.0018 Score=78.13 Aligned_cols=171 Identities=19% Similarity=0.138 Sum_probs=106.6
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhc-----ccc---cCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhH
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVD-----GVL---QRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYV 580 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~-----~il---~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~r 580 (2191)
||..+.+. -.|..-|.+++--. ..+ .+.-.++--.||.||--+..-.|+..+++..+++|++...-
T Consensus 28 lp~~~~~~------g~LS~~QLEaV~yA~q~h~~~Lp~~~R~Gf~lGDGtGvGKGR~iAgiI~~n~l~Gr~r~vwvS~s~ 101 (303)
T PF13872_consen 28 LPEEVIDS------GLLSALQLEAVIYACQRHEQILPGGSRAGFFLGDGTGVGKGRQIAGIILENWLRGRKRAVWVSVSN 101 (303)
T ss_pred CCHHHHhc------ccccHHHHHHHHHHHHHHHhhcccccCcEEEeccCCCcCccchhHHHHHHHHHcCCCceEEEECCh
Confidence 67765543 24778888876421 112 35678999999999998887778888887777899999999
Q ss_pred HHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCCCCCceEEEchHHHHHHHHHh-hhcC-------CC--CccceEEEcc
Q 000107 581 SICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPKDTSVAVCTIEKANSLVNRM-LEEG-------RL--SEIGIIVIDE 650 (2191)
Q Consensus 581 aLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~~~~~IiV~TpEkl~~Ll~~l-~~~~-------~L--~~l~lVVIDE 650 (2191)
.|-....+.|+.+... .+.+..+..-.......-...|+++|+-.+..-.... .... |+ +-=++||+||
T Consensus 102 dL~~Da~RDl~DIG~~-~i~v~~l~~~~~~~~~~~~~GvlF~TYs~L~~~~~~~~~~~sRl~ql~~W~g~dfdgvivfDE 180 (303)
T PF13872_consen 102 DLKYDAERDLRDIGAD-NIPVHPLNKFKYGDIIRLKEGVLFSTYSTLISESQSGGKYRSRLDQLVDWCGEDFDGVIVFDE 180 (303)
T ss_pred hhhhHHHHHHHHhCCC-cccceechhhccCcCCCCCCCccchhHHHHHhHHhccCCccchHHHHHHHHhcCCCceEEecc
Confidence 9999988888876443 3333332221111111223469999998865543210 0011 11 1126999999
Q ss_pred cccccccchh----HHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccC
Q 000107 651 LHMVADQNRG----YLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATM 709 (2191)
Q Consensus 651 aH~l~d~~RG----~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL 709 (2191)
+|.......+ ......+..|... -++.|+|.+|||-
T Consensus 181 cH~akn~~~~~~~~sk~g~avl~LQ~~-----------------------LP~ARvvY~SATg 220 (303)
T PF13872_consen 181 CHKAKNLSSGSKKPSKTGIAVLELQNR-----------------------LPNARVVYASATG 220 (303)
T ss_pred chhcCCCCccCccccHHHHHHHHHHHh-----------------------CCCCcEEEecccc
Confidence 9998764321 2233333333322 2567899999994
No 198
>PF02889 Sec63: Sec63 Brl domain; InterPro: IPR004179 This domain was named after the yeast Sec63 (or NPL1) (also known as the Brl domain) protein in which it was found. This protein is required for assembly of functional endoplasmic reticulum translocons [, ]. Other yeast proteins containing this domain include pre-mRNA splicing helicase BRR2, HFM1 protein and putative helicases. ; PDB: 3IM2_A 3IM1_A 3HIB_A 2Q0Z_X.
Probab=97.39 E-value=0.0022 Score=79.73 Aligned_cols=111 Identities=15% Similarity=0.208 Sum_probs=89.3
Q ss_pred HHHHHHHHHhcCCCHHHHHHHhCCCcchHHHHHHHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhccCchhhhhhcCC
Q 000107 1157 YVALILSRLVQETPVLEVCETFKVARGMVQALQENAGRFASMVSVFCERLGWYDLEGLIAKFQNRVSFGVRAEIVELTTI 1236 (2191)
Q Consensus 1157 y~al~L~dli~e~~~~~i~~~y~v~rG~lq~l~~~a~~~a~~v~~fc~~lg~~~~~~ll~~~~~RL~~Gv~~ELl~L~~i 1236 (2191)
++-++|+.-+...++.... | +.|...+++.|.++..++..+|-..||......+-.|.+.|..|++..-.+|.+|
T Consensus 79 K~~~Llqa~l~r~~l~~~~--l---~~D~~~i~~~~~Rll~a~~ei~~~~~~~~~~~~~l~l~q~i~q~~w~~~~~L~Ql 153 (314)
T PF02889_consen 79 KAFVLLQAHLSRIPLPDSS--L---RQDLKYILDNAPRLLRAMIEIALEKGWLSTALNALELSQCIVQALWDSDSPLLQL 153 (314)
T ss_dssp HHHHHHHHHHCT-----HH--H---HHHHHHHHHHHHHHHHHHHHHHHHTTBCCHHHHHHHHHHHHHHTS-TTS-GGGGS
T ss_pred HHHHHHHHhccCCCcCchh--H---HhhHHhhhhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhcCCCCChhhcC
Confidence 4778899999987776421 1 3589999999999999999999999998888889999999999999989999999
Q ss_pred CCCCHHHHHHHHHcCCCCHHHHHcCCHHHHHHHHhh
Q 000107 1237 PYVKGSRARALYKAGLRTPLAIAEASISEIVKALFE 1272 (2191)
Q Consensus 1237 p~v~~~RAR~Ly~aG~~t~~~la~a~~~~l~~~l~~ 1272 (2191)
|+++..-++.|-+.|+.|+.+|++++++++..++..
T Consensus 154 p~i~~~~~~~l~~~~i~~l~~l~~~~~~e~~~ll~~ 189 (314)
T PF02889_consen 154 PHIGEESLKKLEKRGIKTLQDLRDLSPEELEELLNR 189 (314)
T ss_dssp TT--HHHHHHHHHTT--SHHHHHHS-HHHHHHHH-S
T ss_pred CCCCHHHHHHHhccCCCcHHHHhhCCHHHHHHHHhh
Confidence 999999999999999999999999999999999753
No 199
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=97.39 E-value=0.0024 Score=90.24 Aligned_cols=86 Identities=12% Similarity=0.049 Sum_probs=70.8
Q ss_pred CcEEEEcCCCCHHHHHHHHHHhhcC--CceEEEecccccccCCCCCceEEeecCCCCCcccCcccccccccccCCCCCCC
Q 000107 844 SGVAYHHAGLTVEEREVVETCYRKG--LVRVLTATSTLAAGVNLPARRVIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDT 921 (2191)
Q Consensus 844 ~GVa~hHagLs~~eR~~Ve~~Fr~G--~ikVLVATstLa~GVNLPav~VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~ 921 (2191)
.....++|+++..+|..+.+.|.++ ..-++++|.....|+|+-....||.++. +.++....|...||-|.|.+.
T Consensus 736 ~~~~~ldG~~~~~~r~~~i~~f~~~~~~~v~lls~kagg~glnLt~a~~vi~~d~----~wnp~~~~Qa~dRa~RigQ~~ 811 (866)
T COG0553 736 IKYVRLDGSTPAKRRQELIDRFNADEEEKVFLLSLKAGGLGLNLTGADTVILFDP----WWNPAVELQAIDRAHRIGQKR 811 (866)
T ss_pred CcEEEEeCCCChhhHHHHHHHhhcCCCCceEEEEecccccceeecccceEEEecc----ccChHHHHHHHHHHHHhcCcc
Confidence 4588899999999999999999986 4566777789999999998777775433 347788999999999999888
Q ss_pred ceEEEEEeChhh
Q 000107 922 KGESMLICKPEE 933 (2191)
Q Consensus 922 ~Ge~ill~~~~e 933 (2191)
.-.+|.++....
T Consensus 812 ~v~v~r~i~~~t 823 (866)
T COG0553 812 PVKVYRLITRGT 823 (866)
T ss_pred eeEEEEeecCCc
Confidence 888888877654
No 200
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=97.36 E-value=0.0014 Score=89.48 Aligned_cols=52 Identities=29% Similarity=0.262 Sum_probs=42.1
Q ss_pred CceEEEecccccccCCCCCceEEeecCCCCCcccCcccccccccccCCCCCCCceE
Q 000107 869 LVRVLTATSTLAAGVNLPARRVIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGE 924 (2191)
Q Consensus 869 ~ikVLVATstLa~GVNLPav~VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge 924 (2191)
.++.|++-++|..|.|-|.+-+|......+ |...-.|.+||.-|.-.|..|+
T Consensus 501 ~~~fifs~~al~egwd~~~~~~~~~l~~~~----s~~~~~q~~gr~lr~~vnq~G~ 552 (986)
T PRK15483 501 TRRFLFSKWTLREGWDNPNVFQIAKLRSSG----SETSKLQEVGRGLRLPVDENGH 552 (986)
T ss_pred CeEEEEEhHHhhhcCCCCCeEEEEEeccCC----chHHHHHHhccceeccccccCc
Confidence 689999999999999999999887544433 4445689999999988776664
No 201
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=97.35 E-value=0.0065 Score=81.23 Aligned_cols=136 Identities=18% Similarity=0.221 Sum_probs=91.2
Q ss_pred CCCHHHHHhhhhcc--cccCCeEEEEcCCCCchhHHHHHHHHHHHHhcC---CEEEEEchhHHHHHHHHHHHHHHhhccC
Q 000107 524 KLYPWQVECLHVDG--VLQRRNLVYCASTSAGKSFVAEILMLRRLISTG---KMALLVLPYVSICAEKAEHLEVLLEPLG 598 (2191)
Q Consensus 524 ~l~p~Q~eal~~~~--il~gknlIi~APTGSGKTlvael~iL~~ll~~g---~kaL~I~P~raLA~q~~~~l~~l~~~lg 598 (2191)
.|+.+|..-+.+.. +.++-|-|+.-.-|-|||..- |.+|.++.+.. +.-|||+||--+.+ +--+|++++. |
T Consensus 615 qLReYQkiGLdWLatLYeknlNGILADEmGLGKTIQt-ISllAhLACeegnWGPHLIVVpTsviLn-WEMElKRwcP--g 690 (1958)
T KOG0391|consen 615 QLREYQKIGLDWLATLYEKNLNGILADEMGLGKTIQT-ISLLAHLACEEGNWGPHLIVVPTSVILN-WEMELKRWCP--G 690 (1958)
T ss_pred HHHHHHHhhHHHHHHHHHhcccceehhhhcccchhHH-HHHHHHHHhcccCCCCceEEeechhhhh-hhHHHhhhCC--c
Confidence 56778888876521 225778999999999999775 45555665532 24688899855433 3335666654 7
Q ss_pred CeEEEEeccCCCC-------CCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHH
Q 000107 599 RHVRSYYGNQGGG-------SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLT 668 (2191)
Q Consensus 599 ~~V~~~~G~~~~~-------~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~ 668 (2191)
++|..|||..... ..+...+|.|+.+..+..=+... .-.+..++|+||+|.|-++ +...++.+|.
T Consensus 691 lKILTYyGs~kErkeKRqgW~kPnaFHVCItSYklv~qd~~AF----krkrWqyLvLDEaqnIKnf-ksqrWQAlln 762 (1958)
T KOG0391|consen 691 LKILTYYGSHKERKEKRQGWAKPNAFHVCITSYKLVFQDLTAF----KRKRWQYLVLDEAQNIKNF-KSQRWQALLN 762 (1958)
T ss_pred ceEeeecCCHHHHHHHhhcccCCCeeEEeehhhHHHHhHHHHH----Hhhccceeehhhhhhhcch-hHHHHHHHhc
Confidence 8999999986432 23345788888887654333322 2234689999999999876 5666766653
No 202
>PRK12766 50S ribosomal protein L32e; Provisional
Probab=97.34 E-value=0.00023 Score=81.87 Aligned_cols=55 Identities=29% Similarity=0.320 Sum_probs=49.6
Q ss_pred hhhcCCCCCCHHHHHHHHHcCCCCHHHHHcCCHHHHHHHHhhcchhHHHHHhhhhHHHHHHHHHHHH
Q 000107 1231 VELTTIPYVKGSRARALYKAGLRTPLAIAEASISEIVKALFESSSWIAEAQRRVQLGVAKKIKNGAR 1297 (2191)
Q Consensus 1231 l~L~~ip~v~~~RAR~Ly~aG~~t~~~la~a~~~~l~~~l~~~~~~~~~~~~~~~~~~A~~I~~~A~ 1297 (2191)
-+|..|||||+.||+.|+++||.|+++|+.|++++|..+ ++++...|.+|++...
T Consensus 3 ~~L~~IpGIG~krakkLl~~GF~Sve~Ik~AS~eEL~~V------------~GIg~k~AekI~e~l~ 57 (232)
T PRK12766 3 EELEDISGVGPSKAEALREAGFESVEDVRAADQSELAEV------------DGIGNALAARIKADVG 57 (232)
T ss_pred cccccCCCcCHHHHHHHHHcCCCCHHHHHhCCHHHHHHc------------cCCCHHHHHHHHHHhc
Confidence 468899999999999999999999999999999999888 5677888999988655
No 203
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=97.31 E-value=0.00062 Score=78.84 Aligned_cols=63 Identities=22% Similarity=0.220 Sum_probs=45.6
Q ss_pred CCCHHHHHhhhhccccc-C-CeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHH
Q 000107 524 KLYPWQVECLHVDGVLQ-R-RNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEH 589 (2191)
Q Consensus 524 ~l~p~Q~eal~~~~il~-g-knlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~ 589 (2191)
+|++-|.+++.. ++. + +-.++.||.|+|||.+. -.+.+.+...+.++++++||...+.+..+.
T Consensus 1 ~L~~~Q~~a~~~--~l~~~~~~~~l~G~aGtGKT~~l-~~~~~~~~~~g~~v~~~apT~~Aa~~L~~~ 65 (196)
T PF13604_consen 1 TLNEEQREAVRA--ILTSGDRVSVLQGPAGTGKTTLL-KALAEALEAAGKRVIGLAPTNKAAKELREK 65 (196)
T ss_dssp -S-HHHHHHHHH--HHHCTCSEEEEEESTTSTHHHHH-HHHHHHHHHTT--EEEEESSHHHHHHHHHH
T ss_pred CCCHHHHHHHHH--HHhcCCeEEEEEECCCCCHHHHH-HHHHHHHHhCCCeEEEECCcHHHHHHHHHh
Confidence 478899999986 653 3 46888899999999864 345666666789999999998887775543
No 204
>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli [].; GO: 0005524 ATP binding; PDB: 3B85_A.
Probab=97.22 E-value=0.00013 Score=84.30 Aligned_cols=59 Identities=19% Similarity=0.162 Sum_probs=41.5
Q ss_pred CCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhc-CCEEEEEchhHHH
Q 000107 522 ISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIST-GKMALLVLPYVSI 582 (2191)
Q Consensus 522 i~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~-g~kaL~I~P~raL 582 (2191)
+.-.++-|..++.. ++..+.+++.||.|+|||+++....++.+... -.+++|+-|.++.
T Consensus 2 I~p~~~~Q~~~~~a--l~~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~~ 61 (205)
T PF02562_consen 2 IKPKNEEQKFALDA--LLNNDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVEA 61 (205)
T ss_dssp ----SHHHHHHHHH--HHH-SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--T
T ss_pred ccCCCHHHHHHHHH--HHhCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCCC
Confidence 34568899999976 77889999999999999999999998887762 2488888888654
No 205
>PRK10536 hypothetical protein; Provisional
Probab=97.10 E-value=0.00071 Score=80.28 Aligned_cols=60 Identities=13% Similarity=0.194 Sum_probs=46.3
Q ss_pred cCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcC-CEEEEEchhHH
Q 000107 520 RGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTG-KMALLVLPYVS 581 (2191)
Q Consensus 520 ~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g-~kaL~I~P~ra 581 (2191)
.++.-.+.-|...+.. +.++..+++.||+|+|||+.+....++.+.... .++++.=|...
T Consensus 55 ~~i~p~n~~Q~~~l~a--l~~~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~v~ 115 (262)
T PRK10536 55 SPILARNEAQAHYLKA--IESKQLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVLQ 115 (262)
T ss_pred ccccCCCHHHHHHHHH--HhcCCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCCCC
Confidence 4566778889988875 778889999999999999999887777665433 35666667765
No 206
>PF06862 DUF1253: Protein of unknown function (DUF1253); InterPro: IPR010678 This family is defined by a C-terminal region of approximately 500 residues, Digestive organ expansion factor (DEF) is thought to Regulate the p53 pathway to control the expansion growth of digestive organs and is required for the expansion growth of intestine, liver and exocrine pancreas, but not endocrine pancreas [, ].; GO: 0005634 nucleus
Probab=97.04 E-value=0.18 Score=64.69 Aligned_cols=95 Identities=5% Similarity=-0.026 Sum_probs=58.8
Q ss_pred EEEEcCCCCHHHHHHHHHHhhcCCceEEEecccc--cccCCCCCceEEeecCCCCCcccCcccccccccccCC-CCCCCc
Q 000107 846 VAYHHAGLTVEEREVVETCYRKGLVRVLTATSTL--AAGVNLPARRVIFRQPRIGRDFIDGTRYRQMAGRAGR-TGIDTK 922 (2191)
Q Consensus 846 Va~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstL--a~GVNLPav~VVI~~p~~g~~~is~~~y~QmiGRAGR-~G~d~~ 922 (2191)
.+.+|.-.+..+-...-..|..|..+||+-|-=+ =+-..|.+++.||-+..|....+ -.++..|++.... .+....
T Consensus 327 F~~i~EYts~~~isRAR~~F~~G~~~iLL~TER~HFfrRy~irGi~~viFY~~P~~p~f-Y~El~n~~~~~~~~~~~~~~ 405 (442)
T PF06862_consen 327 FVQISEYTSNSDISRARSQFFHGRKPILLYTERFHFFRRYRIRGIRHVIFYGPPENPQF-YSELLNMLDESSGGEVDAAD 405 (442)
T ss_pred EEEecccCCHHHHHHHHHHHHcCCceEEEEEhHHhhhhhceecCCcEEEEECCCCChhH-HHHHHhhhcccccccccccC
Confidence 4556777888888888999999999999999633 24456777776665554432111 1233444443332 122245
Q ss_pred eEEEEEeChhhHHHHHhhh
Q 000107 923 GESMLICKPEEVKKIMGLL 941 (2191)
Q Consensus 923 Ge~ill~~~~e~~~~~~ll 941 (2191)
..|.++++.-+.-.+..++
T Consensus 406 ~~~~~lysk~D~~~LErIV 424 (442)
T PF06862_consen 406 ATVTVLYSKYDALRLERIV 424 (442)
T ss_pred ceEEEEecHhHHHHHHHHh
Confidence 7788888886655544433
No 207
>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=96.98 E-value=0.0022 Score=82.46 Aligned_cols=171 Identities=16% Similarity=0.159 Sum_probs=108.0
Q ss_pred CCCHHHHHhhhhcccc---cCCeEEEEcCCCCchhHHHHHHHHHHHH-h---c-----CCEEEEEchhHHHHHHHHHHHH
Q 000107 524 KLYPWQVECLHVDGVL---QRRNLVYCASTSAGKSFVAEILMLRRLI-S---T-----GKMALLVLPYVSICAEKAEHLE 591 (2191)
Q Consensus 524 ~l~p~Q~eal~~~~il---~gknlIi~APTGSGKTlvael~iL~~ll-~---~-----g~kaL~I~P~raLA~q~~~~l~ 591 (2191)
.+.|+|..++...... .+.--|+...-|-|||+...-.|+..=. + . ..+.|||+|- +|..|...++.
T Consensus 325 ~LmpHQkaal~Wl~wRE~q~~~GGILaddmGLGKTlsmislil~qK~~~~~~~~~~~~a~~TLII~Pa-Sli~qW~~Ev~ 403 (901)
T KOG4439|consen 325 ELMPHQKAALRWLLWRESQPPSGGILADDMGLGKTLSMISLILHQKAARKAREKKGESASKTLIICPA-SLIHQWEAEVA 403 (901)
T ss_pred ecchhhhhhhhhhcccccCCCCCcccccccccccchHHHHHHHHHHHHHHhhcccccccCCeEEeCcH-HHHHHHHHHHH
Confidence 6788999998762122 2456788899999999965544443221 1 1 1258999996 67788888888
Q ss_pred HHhhccCCeEEEEeccCCCC---CCCCCCceEEEchHHHHH----HHHHhhhcCCCCc--cceEEEcccccccccchhHH
Q 000107 592 VLLEPLGRHVRSYYGNQGGG---SLPKDTSVAVCTIEKANS----LVNRMLEEGRLSE--IGIIVIDELHMVADQNRGYL 662 (2191)
Q Consensus 592 ~l~~~lg~~V~~~~G~~~~~---~l~~~~~IiV~TpEkl~~----Ll~~l~~~~~L~~--l~lVVIDEaH~l~d~~RG~~ 662 (2191)
..+..--++|..|+|..... ..-..+||+|+|+.-+.. -+........+.. ...||+||||.|-+. ...
T Consensus 404 ~rl~~n~LsV~~~HG~n~r~i~~~~L~~YDvViTTY~lva~~~~~e~~~~~~~spL~~I~W~RVILDEAH~IrN~--~tq 481 (901)
T KOG4439|consen 404 RRLEQNALSVYLYHGPNKREISAKELRKYDVVITTYNLVANKPDDELEEGKNSSPLARIAWSRVILDEAHNIRNS--NTQ 481 (901)
T ss_pred HHHhhcceEEEEecCCccccCCHHHHhhcceEEEeeeccccCCchhhhcccCccHHHHhhHHHhhhhhhhhhccc--chh
Confidence 87777678999999976321 122468999999865322 0001001111222 368999999999764 334
Q ss_pred HHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEeccC-CC----HHHHHHHhhcccc
Q 000107 663 LELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSATM-PN----VAAVADWLQAALY 724 (2191)
Q Consensus 663 lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSATL-~N----~~~la~wL~a~l~ 724 (2191)
--..+.+|+-. -.-++|+|. -| +-.+..||++..|
T Consensus 482 ~S~AVC~L~a~---------------------------~RWclTGTPiqNn~~DvysLlrFLr~~pF 521 (901)
T KOG4439|consen 482 CSKAVCKLSAK---------------------------SRWCLTGTPIQNNLWDVYSLLRFLRCPPF 521 (901)
T ss_pred HHHHHHHHhhc---------------------------ceeecccCccccchhHHHHHHHHhcCCCc
Confidence 44555566322 236788883 23 4556677776654
No 208
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=96.92 E-value=0.0021 Score=81.95 Aligned_cols=84 Identities=18% Similarity=0.180 Sum_probs=68.7
Q ss_pred HHHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhh
Q 000107 516 IYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLE 595 (2191)
Q Consensus 516 ~l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~ 595 (2191)
.+...|+.+|+.-|..|+.. ++++.-.||.+|+|+|||.+..-.+++.+...+.++|+++|....+.+.++.+.+
T Consensus 402 ~~s~~~lpkLN~SQ~~AV~~--VL~rplsLIQGPPGTGKTvtsa~IVyhl~~~~~~~VLvcApSNiAVDqLaeKIh~--- 476 (935)
T KOG1802|consen 402 RFSVPNLPKLNASQSNAVKH--VLQRPLSLIQGPPGTGKTVTSATIVYHLARQHAGPVLVCAPSNIAVDQLAEKIHK--- 476 (935)
T ss_pred hhcCCCchhhchHHHHHHHH--HHcCCceeeecCCCCCceehhHHHHHHHHHhcCCceEEEcccchhHHHHHHHHHh---
Confidence 34557888999999999987 9999999999999999998887666666666788999999999888888876654
Q ss_pred ccCCeEEEEe
Q 000107 596 PLGRHVRSYY 605 (2191)
Q Consensus 596 ~lg~~V~~~~ 605 (2191)
.|++|..+.
T Consensus 477 -tgLKVvRl~ 485 (935)
T KOG1802|consen 477 -TGLKVVRLC 485 (935)
T ss_pred -cCceEeeee
Confidence 467766543
No 209
>TIGR01447 recD exodeoxyribonuclease V, alpha subunit. This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.
Probab=96.92 E-value=0.0046 Score=82.54 Aligned_cols=128 Identities=21% Similarity=0.221 Sum_probs=74.4
Q ss_pred HHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHH--HHHHHHhc--CCEEEEEchhHHHHHHHHHHHHHHhhccCCeEE
Q 000107 527 PWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEIL--MLRRLIST--GKMALLVLPYVSICAEKAEHLEVLLEPLGRHVR 602 (2191)
Q Consensus 527 p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~--iL~~ll~~--g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~ 602 (2191)
+||++++.. .+.++..+|+|+.|+|||++..-. ++...... +.++++++||---|....+.+......++..
T Consensus 148 ~~Qk~A~~~--al~~~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~~~~~~~l~~~-- 223 (586)
T TIGR01447 148 NWQKVAVAL--ALKSNFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESLRKAVKNLAAA-- 223 (586)
T ss_pred HHHHHHHHH--HhhCCeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHHHhhhcccccc--
Confidence 899999976 788999999999999999875432 22222111 2479999999888887776665433322211
Q ss_pred EEeccCCCCCCCCCCceEEEchHHHHHHHHH---h-hhcCCCCccceEEEcccccccccchhHHHHHHHHHH
Q 000107 603 SYYGNQGGGSLPKDTSVAVCTIEKANSLVNR---M-LEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKL 670 (2191)
Q Consensus 603 ~~~G~~~~~~l~~~~~IiV~TpEkl~~Ll~~---l-~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kL 670 (2191)
. .......+-..|..++...... . ........+++|||||+=|+.- ..+..++..+
T Consensus 224 ---~-----~~~~~~~~~a~TiHrlLg~~~~~~~~~~~~~~~l~~dvlIiDEaSMvd~----~l~~~ll~al 283 (586)
T TIGR01447 224 ---E-----ALIAALPSEAVTIHRLLGIKPDTKRFRHHERNPLPLDVLVVDEASMVDL----PLMAKLLKAL 283 (586)
T ss_pred ---h-----hhhhccccccchhhhhhcccCCcchhhhcccCCCcccEEEEcccccCCH----HHHHHHHHhc
Confidence 0 0001111224555554332110 0 0112234589999999999863 2344444443
No 210
>KOG0386 consensus Chromatin remodeling complex SWI/SNF, component SWI2 and related ATPases (DNA/RNA helicase superfamily) [Chromatin structure and dynamics; Transcription]
Probab=96.87 E-value=0.0018 Score=86.09 Aligned_cols=81 Identities=20% Similarity=0.164 Sum_probs=62.0
Q ss_pred EEEEcCCCCHHHHHHHHHHhhcC---CceEEEecccccccCCCCCc-eEEe-ecCCCCCcccCcccccccccccCCCCCC
Q 000107 846 VAYHHAGLTVEEREVVETCYRKG---LVRVLTATSTLAAGVNLPAR-RVIF-RQPRIGRDFIDGTRYRQMAGRAGRTGID 920 (2191)
Q Consensus 846 Va~hHagLs~~eR~~Ve~~Fr~G---~ikVLVATstLa~GVNLPav-~VVI-~~p~~g~~~is~~~y~QmiGRAGR~G~d 920 (2191)
-..+-|....++|-..++.|..- ....|.+|.....|+|+... +||| +.+. .+....|+--||-|-|..
T Consensus 753 YlRLDG~TK~~eRg~ll~~FN~Pds~yf~FllstragglglNlQtadtviifdsdw------np~~d~qaqdrahrigq~ 826 (1157)
T KOG0386|consen 753 YLRLDGQTKVEERGDLLEIFNAPDSPYFIFLLSTRAGGLGLNLQTADTVIIFDSDW------NPHQDLQAQDRAHRIGQK 826 (1157)
T ss_pred eeeecCCcchhhHHHHHHHhcCCCCceeeeeeeecccccccchhhcceEEEecCCC------CchhHHHHHHHHHHhhch
Confidence 44567888889999999999853 35778899999999999864 4444 3333 567788999999999977
Q ss_pred CceEEEEEeChh
Q 000107 921 TKGESMLICKPE 932 (2191)
Q Consensus 921 ~~Ge~ill~~~~ 932 (2191)
..-.++.+++-.
T Consensus 827 ~evRv~rl~tv~ 838 (1157)
T KOG0386|consen 827 KEVRVLRLITVN 838 (1157)
T ss_pred hheeeeeeehhh
Confidence 777777777654
No 211
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=96.83 E-value=0.0056 Score=81.99 Aligned_cols=118 Identities=23% Similarity=0.230 Sum_probs=71.2
Q ss_pred CCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHh----cCCEEEEEchhHHHHHHHHHHHHHHhhccCCe
Q 000107 525 LYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIS----TGKMALLVLPYVSICAEKAEHLEVLLEPLGRH 600 (2191)
Q Consensus 525 l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~----~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~ 600 (2191)
..+||++|+.. .+.++-.+|.|++|+|||++..- ++..+.. ...++++++||.--|....+.+......++..
T Consensus 153 ~~d~Qk~Av~~--a~~~~~~vItGgpGTGKTt~v~~-ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~~~~~~~~~ 229 (615)
T PRK10875 153 EVDWQKVAAAV--ALTRRISVISGGPGTGKTTTVAK-LLAALIQLADGERCRIRLAAPTGKAAARLTESLGKALRQLPLT 229 (615)
T ss_pred CCHHHHHHHHH--HhcCCeEEEEeCCCCCHHHHHHH-HHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHHhhhhccccc
Confidence 35899999976 67889999999999999987532 2222222 23478888999988888877765544333211
Q ss_pred EEEEeccCCCCCCCCCCceEEEchHHHHHHHHH----hhhcCCCCccceEEEccccccc
Q 000107 601 VRSYYGNQGGGSLPKDTSVAVCTIEKANSLVNR----MLEEGRLSEIGIIVIDELHMVA 655 (2191)
Q Consensus 601 V~~~~G~~~~~~l~~~~~IiV~TpEkl~~Ll~~----l~~~~~L~~l~lVVIDEaH~l~ 655 (2191)
. ........-..|..++....-. .......-.+++|||||+-|+.
T Consensus 230 -----~-----~~~~~~~~~a~TiHrlLg~~~~~~~~~~~~~~~l~~dvlIvDEaSMvd 278 (615)
T PRK10875 230 -----D-----EQKKRIPEEASTLHRLLGAQPGSQRLRYHAGNPLHLDVLVVDEASMVD 278 (615)
T ss_pred -----h-----hhhhcCCCchHHHHHHhCcCCCccchhhccccCCCCCeEEEChHhccc
Confidence 0 0001111123455554332100 0011223356999999999975
No 212
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=96.60 E-value=0.011 Score=81.06 Aligned_cols=63 Identities=14% Similarity=0.122 Sum_probs=49.0
Q ss_pred cCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcC--CEEEEEchhHHHHHHH
Q 000107 520 RGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTG--KMALLVLPYVSICAEK 586 (2191)
Q Consensus 520 ~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g--~kaL~I~P~raLA~q~ 586 (2191)
.++ .+++.|.+|+.. +..++.+++.|+.|+|||++.- .+++.+...+ ..+++++||-..|..+
T Consensus 320 ~~~-~l~~~Q~~Ai~~--~~~~~~~iitGgpGTGKTt~l~-~i~~~~~~~~~~~~v~l~ApTg~AA~~L 384 (720)
T TIGR01448 320 LRK-GLSEEQKQALDT--AIQHKVVILTGGPGTGKTTITR-AIIELAEELGGLLPVGLAAPTGRAAKRL 384 (720)
T ss_pred cCC-CCCHHHHHHHHH--HHhCCeEEEECCCCCCHHHHHH-HHHHHHHHcCCCceEEEEeCchHHHHHH
Confidence 454 799999999986 7788899999999999998763 4444444445 6788899997777643
No 213
>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function. It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].
Probab=96.60 E-value=0.0047 Score=78.17 Aligned_cols=93 Identities=16% Similarity=0.220 Sum_probs=62.1
Q ss_pred CeEEEEcCCCCchhHHHHHHHHHHH--HhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCCCCCce
Q 000107 542 RNLVYCASTSAGKSFVAEILMLRRL--ISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPKDTSV 619 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael~iL~~l--l~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~~~~~I 619 (2191)
+.+||.|..|||||+++.- ++..+ ...+.+++++++...|.......+..... ......
T Consensus 2 ~v~~I~G~aGTGKTvla~~-l~~~l~~~~~~~~~~~l~~n~~l~~~l~~~l~~~~~------------------~~~~~~ 62 (352)
T PF09848_consen 2 QVILITGGAGTGKTVLALN-LAKELQNSEEGKKVLYLCGNHPLRNKLREQLAKKYN------------------PKLKKS 62 (352)
T ss_pred eEEEEEecCCcCHHHHHHH-HHHHhhccccCCceEEEEecchHHHHHHHHHhhhcc------------------cchhhh
Confidence 4689999999999999854 44555 45688999999999998877766654320 001122
Q ss_pred EEEchHHHHHHHHHh-hhcCCCCccceEEEcccccccc
Q 000107 620 AVCTIEKANSLVNRM-LEEGRLSEIGIIVIDELHMVAD 656 (2191)
Q Consensus 620 iV~TpEkl~~Ll~~l-~~~~~L~~l~lVVIDEaH~l~d 656 (2191)
.+..+..+ ++.. ........+++|||||+|.+.+
T Consensus 63 ~~~~~~~~---i~~~~~~~~~~~~~DviivDEAqrl~~ 97 (352)
T PF09848_consen 63 DFRKPTSF---INNYSESDKEKNKYDVIIVDEAQRLRT 97 (352)
T ss_pred hhhhhHHH---HhhcccccccCCcCCEEEEehhHhhhh
Confidence 33333332 2221 1234567899999999999987
No 214
>PF14229 DUF4332: Domain of unknown function (DUF4332)
Probab=96.55 E-value=0.0028 Score=67.76 Aligned_cols=69 Identities=19% Similarity=0.196 Sum_probs=50.2
Q ss_pred hhhhcCCCCCCHHHHHHHHHcCCCCHHHHHcCCHHHHHHHHhhcchhHHHHHhh--hhHHHHHHHHHHHHHH
Q 000107 1230 IVELTTIPYVKGSRARALYKAGLRTPLAIAEASISEIVKALFESSSWIAEAQRR--VQLGVAKKIKNGARKI 1299 (2191)
Q Consensus 1230 Ll~L~~ip~v~~~RAR~Ly~aG~~t~~~la~a~~~~l~~~l~~~~~~~~~~~~~--~~~~~A~~I~~~A~~l 1299 (2191)
+.+||+||||+...|..|..|||.|+.+||.++|.+|...+..-.. .....+. .....++.-|++|+.|
T Consensus 52 ~AdL~ri~gi~~~~a~LL~~AGv~Tv~~LA~~~p~~L~~~l~~~n~-~~~~~r~~~p~~~~v~~WI~~Ak~l 122 (122)
T PF14229_consen 52 QADLMRIPGIGPQYAELLEHAGVDTVEELAQRNPQNLHQKLGRLNR-KLKLRRQLCPSLEEVQEWIEQAKQL 122 (122)
T ss_pred HHHhhhcCCCCHHHHHHHHHhCcCcHHHHHhCCHHHHHHHHHHHHH-HhcCCcCCCCCHHHHHHHHHHHHhC
Confidence 4688999999999999999999999999999999999988742100 0001111 2345566777777653
No 215
>KOG2340 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.55 E-value=0.023 Score=71.56 Aligned_cols=149 Identities=17% Similarity=0.206 Sum_probs=97.2
Q ss_pred CCCCCHHHHHhhhhcccccCCeEEEEcCC-CCch--hHHHHHHHHHHHHh------------------------------
Q 000107 522 ISKLYPWQVECLHVDGVLQRRNLVYCAST-SAGK--SFVAEILMLRRLIS------------------------------ 568 (2191)
Q Consensus 522 i~~l~p~Q~eal~~~~il~gknlIi~APT-GSGK--Tlvael~iL~~ll~------------------------------ 568 (2191)
-..+++.|.+.+.. ..+-+++++---| +.|+ +-+|.+-+|+++++
T Consensus 214 s~pltalQ~~L~~~--m~~YrDl~y~~~s~kn~~e~R~lYclH~lNHi~K~r~~IL~Nn~r~~Sqk~g~~~~~~frDQG~ 291 (698)
T KOG2340|consen 214 SEPLTALQKELFKI--MFNYRDLLYPTRSQKNGEEYRSLYCLHALNHILKTRDLILGNNRRLASQKEGENPDESFRDQGF 291 (698)
T ss_pred cCcchHHHHHHHHH--HHhhhhhccccccccccchhhhhHHHHHHHHHHHHHHHHhcchHhhhhhhcCCCCchhhhhcCC
Confidence 35789999999875 5667888764333 2344 56777888888762
Q ss_pred cCCEEEEEchhHHHHHHHHHHHHHHhhccCC---------eEEEEeccCCCCC-----CC--------------------
Q 000107 569 TGKMALLVLPYVSICAEKAEHLEVLLEPLGR---------HVRSYYGNQGGGS-----LP-------------------- 614 (2191)
Q Consensus 569 ~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~---------~V~~~~G~~~~~~-----l~-------------------- 614 (2191)
..+++|||+|+|+-|-.+...|..++..... +...-|++..... .+
T Consensus 292 tRpkVLivvpfRe~A~riVn~lis~l~G~~q~k~~V~Nk~RF~~eys~~te~~~~~~~kP~D~~~lf~GNtDD~FriGl~ 371 (698)
T KOG2340|consen 292 TRPKVLIVVPFRESAYRIVNLLISLLSGDDQGKSEVWNKKRFEGEYSGPTELPPPRAKKPEDFEELFSGNTDDAFRIGLA 371 (698)
T ss_pred CCceEEEEecchHHHHHHHHHHHHHhcCccccchhhhhhhhhchhcCCCcccCCCCCCCchhHHHHhcCCCcchhhhhHH
Confidence 1358999999999999999999887543221 1111122110100 00
Q ss_pred ------------CCCceEEEchHHHHHHHHH----hhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHhhcC
Q 000107 615 ------------KDTSVAVCTIEKANSLVNR----MLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAAGE 676 (2191)
Q Consensus 615 ------------~~~~IiV~TpEkl~~Ll~~----l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~ 676 (2191)
-..||+||.|=-+..++.. ......|+.|.++|||-+|.+.- ..+|.++..+-++..+
T Consensus 372 ftkKtikLys~fy~SDIlVaSPLGLRmil~n~gdkkrd~dfLSSIEl~iIDQa~~~l~----QNwEhl~~ifdHLn~~ 445 (698)
T KOG2340|consen 372 FTKKTIKLYSKFYKSDILVASPLGLRMILGNTGDKKRDFDFLSSIELLIIDQADIMLM----QNWEHLLHIFDHLNLQ 445 (698)
T ss_pred HHHHHHHHHhhhcccCeEEecchhhhhhhcCCCcccccchhhhhhhhhhhhhHHHHHH----hhHHHHHHHHHHhhcC
Confidence 1368999999887777752 11233588999999999999753 4567766666655443
No 216
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=96.52 E-value=0.014 Score=62.58 Aligned_cols=25 Identities=24% Similarity=0.327 Sum_probs=16.4
Q ss_pred cCCeEEEEcCCCCchhHHHHHHHHH
Q 000107 540 QRRNLVYCASTSAGKSFVAEILMLR 564 (2191)
Q Consensus 540 ~gknlIi~APTGSGKTlvael~iL~ 564 (2191)
+++.+++.||+|+|||.+....+-.
T Consensus 3 ~~~~~~i~G~~G~GKT~~~~~~~~~ 27 (131)
T PF13401_consen 3 SQRILVISGPPGSGKTTLIKRLARQ 27 (131)
T ss_dssp ----EEEEE-TTSSHHHHHHHHHHH
T ss_pred CCcccEEEcCCCCCHHHHHHHHHHH
Confidence 4678999999999999987655443
No 217
>KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only]
Probab=96.46 E-value=0.0027 Score=84.64 Aligned_cols=220 Identities=18% Similarity=0.163 Sum_probs=150.5
Q ss_pred HHHHhCCcCCCCCHHHHHHHHHHhcCCCCCCCCCCCCCCCCCcHHHHHHhhh----cCCc-----HHHHHHHHHHHHHHH
Q 000107 1779 AYTLAGMKFSLYTAADIANVLYGHLKLPIPEGHNKGKQHPSTDKHCLDLLRH----EHPI-----VPVIKEHRTLAKLLN 1849 (2191)
Q Consensus 1779 i~~l~G~~fnl~S~~ql~~vLf~~l~lp~~~~~~k~k~~~ST~~~vL~~L~~----~hpi-----~~~ile~R~l~Klls 1849 (2191)
+..+.-..||..++-.++.+||..|+.-.+. -+|+...+ --|+ ....+.|+.+...|+
T Consensus 715 ~t~Lg~a~f~~~~~~~~a~~l~~~L~~~~~~-------------~vle~~lh~lylvtP~~~~~~~~dwli~f~i~~~L~ 781 (1008)
T KOG0950|consen 715 ITRLGRACFNAGSDPEVANILFADLKKSLPQ-------------LVLESSLHLLYLVTPYLEVMNDIDWLIYFQIYHTLP 781 (1008)
T ss_pred hhhhhhhhhcccCChhhhHHHHHHHHHhhhc-------------cccccccceeeeecchHhhcccccHHHHHHHHhcCC
Confidence 5556666899999999999999988764321 12222221 1233 334556666655555
Q ss_pred hHHHHHHHHhhhhcCCCceeeccccccccccccccccCCCCccccccccccccccccccCCCcccccccccccccccccC
Q 000107 1850 CTLGSICSLARISMSTQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINARDFFIPSQ 1929 (2191)
Q Consensus 1850 ty~~~l~~~~~~~~~~~~grih~~~~q~gTaTGRlSss~PNLQNiPk~~~~~~~~~~g~~~~~~~~~~~~~iR~~Fi~~~ 1929 (2191)
+-...+ .+ .-|++|..+- - .+.| -+.+|+||+|....| +...++.-|+...
T Consensus 782 ~~~~~~---~~-----~~G~~e~fi~-~-~~~g---qs~~~~~~~~~~~r~----------------y~~l~L~~li~es 832 (1008)
T KOG0950|consen 782 SPEQKL---AK-----LLGVIESFIE-K-CVSG---QSVRNLQNVQKRKRL----------------YVALALQKLINES 832 (1008)
T ss_pred cHHHHH---Hh-----hhchHHHHHH-H-hhhc---cccccccchhHHHHH----------------HHHHHHHHHHhhC
Confidence 433333 22 1366665432 1 2223 466899999852111 2235677777653
Q ss_pred CCeEEEEeccchhHHHHHHHhcCChHHHHHhcCCCchHHHHHHHHHcCCCCCCCChhhhcccchhhhhhhcCCChhhhhh
Q 000107 1930 ENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDSVGSQERDQTKRLIYGILYGMGPNTLSE 2009 (2191)
Q Consensus 1930 ~G~~lvsaDySQIELRilAhlS~D~~Li~af~~~g~Dih~~~Aa~~~g~~~e~Vt~~~R~~AK~i~fGiiYGmG~~~La~ 2009 (2191)
+ -..|..+|.+.+.||.||++++..+..+.. .|+. --.|+ + +..-+.-+|+.+|+||.+.|..
T Consensus 833 p-i~~V~~kYk~~rg~lqall~~a~~~a~~It-----~Fce-~l~w~--~--------~~~l~~~~~~rl~~g~~~eL~~ 895 (1008)
T KOG0950|consen 833 P-IRTVAEKYKVERGRLQALLSNASSFASLIT-----FFCE-SIQWF--P--------LRALLSEFYGRLSFGGHAELIP 895 (1008)
T ss_pred c-HHHHHHHhCchHHHHHHHHhcchhHHHHHH-----HHHH-Hhhhc--c--------hHHHHHHHHHHHhccchhhhhh
Confidence 3 368899999999999999999988766553 2222 23465 2 6667889999999999999999
Q ss_pred hcCCCHHHHHHHHHHHHHhChhHHHHHHHHHHHHHhcCeEEcccCCee
Q 000107 2010 QLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSSCHQKGYVESLKGRKR 2057 (2191)
Q Consensus 2010 ~l~is~~eA~~~i~~f~~~yp~v~~~~~~~~~~a~~~GyV~Tl~GRrr 2057 (2191)
-+.++-..++....-|++.|+++..+...+.....+.=+..+.++++.
T Consensus 896 Lmrv~~~~~~RAr~lf~Agf~tv~~iA~a~p~klvkel~~si~~~~a~ 943 (1008)
T KOG0950|consen 896 LMRVPDVKAERARQLFKAGFTSVGSIANATPEKLVKELPISISMKQAT 943 (1008)
T ss_pred hhcCchhHHHHHHHHHHhhccchHHHhcCChHHHHHHhhccccHHHhh
Confidence 999999999999999999999999998888777766555555555544
No 218
>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA. This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.
Probab=96.31 E-value=0.037 Score=76.41 Aligned_cols=100 Identities=19% Similarity=0.102 Sum_probs=66.9
Q ss_pred CCCHHHHHhhhhccccc-CCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEE
Q 000107 524 KLYPWQVECLHVDGVLQ-RRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVR 602 (2191)
Q Consensus 524 ~l~p~Q~eal~~~~il~-gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~ 602 (2191)
.|++.|.+|+.. ++. ++.+++.|++|+|||++.- ++...+...|.++++++||--.|.... . ..|+.
T Consensus 352 ~Ls~~Q~~Av~~--i~~s~~~~il~G~aGTGKTtll~-~i~~~~~~~g~~V~~~ApTg~Aa~~L~----~---~~g~~-- 419 (744)
T TIGR02768 352 RLSEEQYEAVRH--VTGSGDIAVVVGRAGTGKSTMLK-AAREAWEAAGYRVIGAALSGKAAEGLQ----A---ESGIE-- 419 (744)
T ss_pred CCCHHHHHHHHH--HhcCCCEEEEEecCCCCHHHHHH-HHHHHHHhCCCeEEEEeCcHHHHHHHH----h---ccCCc--
Confidence 689999999986 665 5789999999999998754 344445556889999999966554432 1 11221
Q ss_pred EEeccCCCCCCCCCCceEEEchHHHHHHHHHhh-hcCCCCccceEEEcccccccc
Q 000107 603 SYYGNQGGGSLPKDTSVAVCTIEKANSLVNRML-EEGRLSEIGIIVIDELHMVAD 656 (2191)
Q Consensus 603 ~~~G~~~~~~l~~~~~IiV~TpEkl~~Ll~~l~-~~~~L~~l~lVVIDEaH~l~d 656 (2191)
-.|..++ +..+. ....+...++|||||+-|+..
T Consensus 420 ------------------a~Ti~~~---~~~~~~~~~~~~~~~llIvDEasMv~~ 453 (744)
T TIGR02768 420 ------------------SRTLASL---EYAWANGRDLLSDKDVLVIDEAGMVGS 453 (744)
T ss_pred ------------------eeeHHHH---HhhhccCcccCCCCcEEEEECcccCCH
Confidence 1244443 11111 223466789999999999864
No 219
>PF13245 AAA_19: Part of AAA domain
Probab=96.27 E-value=0.0095 Score=58.35 Aligned_cols=50 Identities=22% Similarity=0.245 Sum_probs=38.0
Q ss_pred CCeEEEEcCCCCchhHHHHHHHHHHHHh---cCCEEEEEchhHHHHHHHHHHH
Q 000107 541 RRNLVYCASTSAGKSFVAEILMLRRLIS---TGKMALLVLPYVSICAEKAEHL 590 (2191)
Q Consensus 541 gknlIi~APTGSGKTlvael~iL~~ll~---~g~kaL~I~P~raLA~q~~~~l 590 (2191)
+.-++|.||+|||||.+..-.+...+.. .+.+++++.|++..+.++.+++
T Consensus 10 ~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 10 SPLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAADELRERL 62 (76)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHHHHHHHHH
Confidence 5556679999999997765544443321 2779999999999999988776
No 220
>PF12340 DUF3638: Protein of unknown function (DUF3638); InterPro: IPR022099 This domain family is found in eukaryotes, and is approximately 230 amino acids in length. There are two conserved sequence motifs: LLE and NMG.
Probab=96.27 E-value=0.022 Score=66.84 Aligned_cols=132 Identities=20% Similarity=0.211 Sum_probs=86.5
Q ss_pred cCCCCCCHHHHHhhhhcccc---cCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEE-EEEchhHHHHHHHHHHHHHHhh
Q 000107 520 RGISKLYPWQVECLHVDGVL---QRRNLVYCASTSAGKSFVAEILMLRRLISTGKMA-LLVLPYVSICAEKAEHLEVLLE 595 (2191)
Q Consensus 520 ~Gi~~l~p~Q~eal~~~~il---~gknlIi~APTGSGKTlvael~iL~~ll~~g~ka-L~I~P~raLA~q~~~~l~~l~~ 595 (2191)
.+| -+++.|.+.... +. .|+|.+...-+|.|||.|. +||+-.++.+|.+. .+++| ++|..|..+.+...++
T Consensus 20 ~~i-liR~~Q~~ia~~--mi~~~~~~n~v~QlnMGeGKTsVI-~Pmla~~LAdg~~LvrviVp-k~Ll~q~~~~L~~~lg 94 (229)
T PF12340_consen 20 SNI-LIRPVQVEIARE--MISPPSGKNSVMQLNMGEGKTSVI-VPMLALALADGSRLVRVIVP-KALLEQMRQMLRSRLG 94 (229)
T ss_pred cCc-eeeHHHHHHHHH--HhCCCCCCCeEeeecccCCccchH-HHHHHHHHcCCCcEEEEEcC-HHHHHHHHHHHHHHHH
Confidence 344 689999998764 33 4789999999999999985 67777777776654 45555 5899999998876665
Q ss_pred c-cCCeEEEEeccCCCCC--------------CCCCCceEEEchHHHHHHHHHhhhc----------------CCCCccc
Q 000107 596 P-LGRHVRSYYGNQGGGS--------------LPKDTSVAVCTIEKANSLVNRMLEE----------------GRLSEIG 644 (2191)
Q Consensus 596 ~-lg~~V~~~~G~~~~~~--------------l~~~~~IiV~TpEkl~~Ll~~l~~~----------------~~L~~l~ 644 (2191)
. ++.+|..+-=++.... ......|+++|||.+.++--..++. .++++..
T Consensus 95 ~l~~r~i~~lpFsR~~~~~~~~~~~~~~l~~~~~~~~gill~~PEhilSf~L~~le~l~~~~~~~~~~l~~~q~~l~~~~ 174 (229)
T PF12340_consen 95 GLLNRRIYHLPFSRSTPLTPETLEKIRQLLEECMRSGGILLATPEHILSFKLKGLERLQDGKPEEARELLKIQKWLDEHS 174 (229)
T ss_pred HHhCCeeEEecccCCCCCCHHHHHHHHHHHHHHHHcCCEEEeChHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhcC
Confidence 4 4555543322221110 1123569999999987763221110 1234456
Q ss_pred eEEEcccccccc
Q 000107 645 IIVIDELHMVAD 656 (2191)
Q Consensus 645 lVVIDEaH~l~d 656 (2191)
.=|+||.|.+..
T Consensus 175 rdilDEsDe~L~ 186 (229)
T PF12340_consen 175 RDILDESDEILS 186 (229)
T ss_pred CeEeECchhccC
Confidence 678888888654
No 221
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=96.19 E-value=0.043 Score=76.80 Aligned_cols=104 Identities=21% Similarity=0.080 Sum_probs=68.2
Q ss_pred HcCCCCCCHHHHHhhhhccccc-CCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhcc
Q 000107 519 KRGISKLYPWQVECLHVDGVLQ-RRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPL 597 (2191)
Q Consensus 519 ~~Gi~~l~p~Q~eal~~~~il~-gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~l 597 (2191)
..|+ .|++-|.+++.. ++. +..+++.|+.|+|||++. -++.+.+...|.+++.++||-..|.... . ..
T Consensus 342 ~~g~-~Ls~eQr~Av~~--il~s~~v~vv~G~AGTGKTT~l-~~~~~~~e~~G~~V~~~ApTGkAA~~L~----e---~t 410 (988)
T PRK13889 342 ARGL-VLSGEQADALAH--VTDGRDLGVVVGYAGTGKSAML-GVAREAWEAAGYEVRGAALSGIAAENLE----G---GS 410 (988)
T ss_pred hcCC-CCCHHHHHHHHH--HhcCCCeEEEEeCCCCCHHHHH-HHHHHHHHHcCCeEEEecCcHHHHHHHh----h---cc
Confidence 3565 699999999986 666 456899999999999873 3444445556889999999965553322 1 11
Q ss_pred CCeEEEEeccCCCCCCCCCCceEEEchHHHHHHHHHhh-hcCCCCccceEEEcccccccc
Q 000107 598 GRHVRSYYGNQGGGSLPKDTSVAVCTIEKANSLVNRML-EEGRLSEIGIIVIDELHMVAD 656 (2191)
Q Consensus 598 g~~V~~~~G~~~~~~l~~~~~IiV~TpEkl~~Ll~~l~-~~~~L~~l~lVVIDEaH~l~d 656 (2191)
|+. -.|..++ +..+. ....+...++|||||+-|++.
T Consensus 411 Gi~--------------------a~TI~sl---l~~~~~~~~~l~~~~vlIVDEASMv~~ 447 (988)
T PRK13889 411 GIA--------------------SRTIASL---EHGWGQGRDLLTSRDVLVIDEAGMVGT 447 (988)
T ss_pred Ccc--------------------hhhHHHH---HhhhcccccccccCcEEEEECcccCCH
Confidence 211 1244443 22221 223466778999999999864
No 222
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=96.16 E-value=0.011 Score=69.51 Aligned_cols=66 Identities=23% Similarity=0.271 Sum_probs=49.5
Q ss_pred CCCHHHHHhhhhcccccCCe-EEEEcCCCCchhHHHHHHHHHHH--------HhcCCEEEEEchhHHHHHHHHHHHHH
Q 000107 524 KLYPWQVECLHVDGVLQRRN-LVYCASTSAGKSFVAEILMLRRL--------ISTGKMALLVLPYVSICAEKAEHLEV 592 (2191)
Q Consensus 524 ~l~p~Q~eal~~~~il~gkn-lIi~APTGSGKTlvael~iL~~l--------l~~g~kaL~I~P~raLA~q~~~~l~~ 592 (2191)
+|++-|.+|+.. ++.... .+|.||+|+|||.+..- ++..+ ...++++|+++|+...+....+.+.+
T Consensus 1 ~ln~~Q~~Ai~~--~~~~~~~~~i~GpPGTGKT~~l~~-~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~ 75 (236)
T PF13086_consen 1 KLNESQREAIQS--ALSSNGITLIQGPPGTGKTTTLAS-IIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK 75 (236)
T ss_dssp ---HHHHHHHHH--HCTSSE-EEEE-STTSSHHHHHHH-HHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred CCCHHHHHHHHH--HHcCCCCEEEECCCCCChHHHHHH-HHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence 478899999986 777777 99999999999965543 33333 45788999999999999999988766
No 223
>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins. The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].
Probab=96.05 E-value=0.02 Score=72.83 Aligned_cols=122 Identities=25% Similarity=0.362 Sum_probs=74.5
Q ss_pred CCCHHHHHhhhhccc------ccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHH--HHHHHHHhh
Q 000107 524 KLYPWQVECLHVDGV------LQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEK--AEHLEVLLE 595 (2191)
Q Consensus 524 ~l~p~Q~eal~~~~i------l~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~--~~~l~~l~~ 595 (2191)
+|++-|.+++.. + .++.++++.||-|+|||++.-. +...+...++.+++++||-..|.-+ -..+..++
T Consensus 1 ~Ln~eQ~~~~~~--v~~~~~~~~~~~~fv~G~~GtGKs~l~~~-i~~~~~~~~~~~~~~a~tg~AA~~i~~G~T~hs~f- 76 (364)
T PF05970_consen 1 KLNEEQRRVFDT--VIEAIENEEGLNFFVTGPAGTGKSFLIKA-IIDYLRSRGKKVLVTAPTGIAAFNIPGGRTIHSFF- 76 (364)
T ss_pred CCCHHHHHHHHH--HHHHHHccCCcEEEEEcCCCCChhHHHHH-HHHHhccccceEEEecchHHHHHhccCCcchHHhc-
Confidence 367788888765 5 6789999999999999988643 3344444677899999997666554 12222221
Q ss_pred ccCCeEEEEeccCCCCCCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHhh
Q 000107 596 PLGRHVRSYYGNQGGGSLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAA 674 (2191)
Q Consensus 596 ~lg~~V~~~~G~~~~~~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~ 674 (2191)
++.+. . . . .-.+.+++... ....+..+++|||||+=|+. ...++.+=.+|+.+.
T Consensus 77 --~i~~~----~-----~--~--~~~~~~~~~~~------~~~~l~~~~~lIiDEism~~----~~~l~~i~~~lr~i~ 130 (364)
T PF05970_consen 77 --GIPIN----N-----N--E--KSQCKISKNSR------LRERLRKADVLIIDEISMVS----ADMLDAIDRRLRDIR 130 (364)
T ss_pred --Ccccc----c-----c--c--cccccccccch------hhhhhhhheeeecccccchh----HHHHHHHHHhhhhhh
Confidence 11110 0 0 0 00112222111 12357788999999999975 445666666666654
No 224
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=95.87 E-value=0.15 Score=65.03 Aligned_cols=90 Identities=11% Similarity=0.194 Sum_probs=55.3
Q ss_pred cCCeEEEEcCCCCchhHHHHHHHHHHHH---hcCCEEEEEc--hhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCC
Q 000107 540 QRRNLVYCASTSAGKSFVAEILMLRRLI---STGKMALLVL--PYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLP 614 (2191)
Q Consensus 540 ~gknlIi~APTGSGKTlvael~iL~~ll---~~g~kaL~I~--P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~ 614 (2191)
.++.+++.||||+|||+++.-.+..... ..+.++.++. ++|.-+.++.. .+...+|+.+..
T Consensus 173 ~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~---~~a~~lgvpv~~----------- 238 (388)
T PRK12723 173 KKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQ---TYGDIMGIPVKA----------- 238 (388)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHH---HHhhcCCcceEe-----------
Confidence 3578999999999999887644433222 1355665554 77777776644 334434554421
Q ss_pred CCCceEEEchHHHHHHHHHhhhcCCCCccceEEEccccccc
Q 000107 615 KDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVA 655 (2191)
Q Consensus 615 ~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~ 655 (2191)
+-++..+...+.+ +.+.++||||++....
T Consensus 239 ------~~~~~~l~~~L~~------~~~~DlVLIDTaGr~~ 267 (388)
T PRK12723 239 ------IESFKDLKEEITQ------SKDFDLVLVDTIGKSP 267 (388)
T ss_pred ------eCcHHHHHHHHHH------hCCCCEEEEcCCCCCc
Confidence 1134444433332 4578999999998864
No 225
>PF13307 Helicase_C_2: Helicase C-terminal domain; PDB: 4A15_A 2VSF_A 3CRV_A 3CRW_1 2VL7_A.
Probab=95.80 E-value=0.015 Score=65.69 Aligned_cols=127 Identities=19% Similarity=0.224 Sum_probs=70.2
Q ss_pred cCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHH
Q 000107 778 EGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEE 857 (2191)
Q Consensus 778 ~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~e 857 (2191)
.++.+|||++|....+.+...+...... .++..+.. ...+
T Consensus 8 ~~g~~lv~f~Sy~~l~~~~~~~~~~~~~--------------------------------------~~~~v~~q--~~~~ 47 (167)
T PF13307_consen 8 VPGGVLVFFPSYRRLEKVYERLKERLEE--------------------------------------KGIPVFVQ--GSKS 47 (167)
T ss_dssp CSSEEEEEESSHHHHHHHHTT-TSS-E---------------------------------------ETSCEEES--TCCH
T ss_pred CCCCEEEEeCCHHHHHHHHHHHHhhccc--------------------------------------ccceeeec--Ccch
Confidence 3589999999999877766555321100 00111222 2457
Q ss_pred HHHHHHHhhcCCceEEEecc--cccccCCCCC--c-eEEe-ecCCCCCc-cc-----------------------Ccccc
Q 000107 858 REVVETCYRKGLVRVLTATS--TLAAGVNLPA--R-RVIF-RQPRIGRD-FI-----------------------DGTRY 907 (2191)
Q Consensus 858 R~~Ve~~Fr~G~ikVLVATs--tLa~GVNLPa--v-~VVI-~~p~~g~~-~i-----------------------s~~~y 907 (2191)
+..+.+.|+.+.-.||+|+. .+..|||+|+ . .||| ..|.+... ++ -....
T Consensus 48 ~~~~l~~~~~~~~~il~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~d~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l 127 (167)
T PF13307_consen 48 RDELLEEFKRGEGAILLAVAGGSFSEGIDFPGDLLRAVIIVGLPFPPPSDPLVQAKREYLDKQGKNPFRDWYLPPAIRKL 127 (167)
T ss_dssp HHHHHHHHCCSSSEEEEEETTSCCGSSS--ECESEEEEEEES-----TTCHHHHHHHHHHHHCCTTCHHHHTHHHHHHHH
T ss_pred HHHHHHHHHhccCeEEEEEecccEEEeecCCCchhheeeecCCCCCCCCCHHHHHHHHHHHHHhccchhhHhhHHHHHHH
Confidence 78889999999999999998 9999999996 3 2343 34543221 10 00134
Q ss_pred cccccccCCCCCCCceEEEEEeChhhHHHHHhhhccCC
Q 000107 908 RQMAGRAGRTGIDTKGESMLICKPEEVKKIMGLLNESC 945 (2191)
Q Consensus 908 ~QmiGRAGR~G~d~~Ge~ill~~~~e~~~~~~ll~~~l 945 (2191)
.|.+||+-|... ..|..+++-..-....+.+.+-..+
T Consensus 128 ~Qa~GR~iR~~~-D~g~i~llD~R~~~~~y~~~l~~~l 164 (167)
T PF13307_consen 128 KQAIGRLIRSED-DYGVIILLDSRFLSKRYGKYLPKWL 164 (167)
T ss_dssp HHHHHCC--STT--EEEEEEESGGGGGHHHHHH-T---
T ss_pred hhhcCcceeccC-CcEEEEEEcCccccchhhhcCcccc
Confidence 899999999874 4777666655433344444444433
No 226
>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=95.63 E-value=0.17 Score=60.54 Aligned_cols=129 Identities=21% Similarity=0.250 Sum_probs=73.1
Q ss_pred ccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEc---hhHHHHHHHHHHHHHHhhccCCeEEE-EeccCCC--
Q 000107 537 GVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVL---PYVSICAEKAEHLEVLLEPLGRHVRS-YYGNQGG-- 610 (2191)
Q Consensus 537 ~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~---P~raLA~q~~~~l~~l~~~lg~~V~~-~~G~~~~-- 610 (2191)
++..|.-++|+|+||+|||..+...+++.+...+.+++|+. |...++..... .. .++.... ..+....
T Consensus 9 Gl~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s~E~~~~~~~~r~~~----~~--~~~~~~~~~~~~~~~~~ 82 (242)
T cd00984 9 GLQPGDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFSLEMSKEQLLQRLLA----SE--SGISLSKLRTGSLSDED 82 (242)
T ss_pred CCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEeCCCCHHHHHHHHHH----Hh--cCCCHHHHhcCCCCHHH
Confidence 57788999999999999998887777666655588899887 33333332211 10 1111000 0000000
Q ss_pred --------CCCCCCCceEE-----EchHHHHHHHHHhhhcCCCCccceEEEcccccccccc----hhHHHHHHHHHHHHh
Q 000107 611 --------GSLPKDTSVAV-----CTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQN----RGYLLELLLTKLRYA 673 (2191)
Q Consensus 611 --------~~l~~~~~IiV-----~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~----RG~~lE~lL~kLr~~ 673 (2191)
..+ ....+.| .|++.+...++.+... .++++||||=++.+.... +...+..++..|+.+
T Consensus 83 ~~~~~~~~~~~-~~~~~~i~~~~~~~~~~l~~~i~~~~~~---~~~~~vvID~l~~l~~~~~~~~~~~~~~~~~~~L~~l 158 (242)
T cd00984 83 WERLAEAIGEL-KELPIYIDDSSSLTVSDIRSRARRLKKE---HGLGLIVIDYLQLMSGSKKKGNRQQEVAEISRSLKLL 158 (242)
T ss_pred HHHHHHHHHHH-hcCCEEEeCCCCCCHHHHHHHHHHHHHh---cCCCEEEEcCchhcCCCCCCCCHHHHHHHHHHHHHHH
Confidence 000 0112333 2555555555544322 278999999999875432 344567778888776
Q ss_pred hc
Q 000107 674 AG 675 (2191)
Q Consensus 674 ~~ 675 (2191)
+.
T Consensus 159 a~ 160 (242)
T cd00984 159 AK 160 (242)
T ss_pred HH
Confidence 54
No 227
>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=95.43 E-value=0.063 Score=65.35 Aligned_cols=136 Identities=17% Similarity=0.133 Sum_probs=71.8
Q ss_pred cccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEE-eccCCC----
Q 000107 536 DGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSY-YGNQGG---- 610 (2191)
Q Consensus 536 ~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~-~G~~~~---- 610 (2191)
.++..|..+++.||||+|||..+...+.......|.+++|+.-- .-..+...++........+..... ......
T Consensus 25 gG~~~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS~E-~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~ 103 (271)
T cd01122 25 KGLRKGELIILTAGTGVGKTTFLREYALDLITQHGVRVGTISLE-EPVVRTARRLLGQYAGKRLHLPDTVFIYTLEEFDA 103 (271)
T ss_pred EEEcCCcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEEcc-cCHHHHHHHHHHHHhCCCcccCCccccccHHHHHH
Confidence 35778999999999999999887766655444447888888631 223344444433322222111000 000000
Q ss_pred --CCCCCCCceEE------EchHHHHHHHHHhhhcCCCCccceEEEcccccccccc-----hhHHHHHHHHHHHHhhc
Q 000107 611 --GSLPKDTSVAV------CTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQN-----RGYLLELLLTKLRYAAG 675 (2191)
Q Consensus 611 --~~l~~~~~IiV------~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~-----RG~~lE~lL~kLr~~~~ 675 (2191)
..+.....+.+ .|++.+...++.+.. -..+++||||.++.+.... ....+..++..|+.++.
T Consensus 104 ~~~~~~~~~~l~i~d~~~~~~~~~i~~~i~~~~~---~~~~~~vvID~l~~l~~~~~~~~~~~~~~~~~~~~L~~la~ 178 (271)
T cd01122 104 AFDEFEGTGRLFMYDSFGEYSMDSVLEKVRYMAV---SHGIQHIIIDNLSIMVSDERASGDERKALDEIMTKLRGFAT 178 (271)
T ss_pred HHHHhcCCCcEEEEcCCCccCHHHHHHHHHHHHh---cCCceEEEECCHHHHhccCCCchhHHHHHHHHHHHHHHHHH
Confidence 00101111221 145555555544322 2367899999999886532 22335566666766653
No 228
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=95.41 E-value=0.093 Score=66.37 Aligned_cols=89 Identities=19% Similarity=0.192 Sum_probs=52.2
Q ss_pred ccCCeEEEEcCCCCchhHHHHHHHHHHHHhcC-CEEEEEc--hhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCCC
Q 000107 539 LQRRNLVYCASTSAGKSFVAEILMLRRLISTG-KMALLVL--PYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPK 615 (2191)
Q Consensus 539 l~gknlIi~APTGSGKTlvael~iL~~ll~~g-~kaL~I~--P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~~ 615 (2191)
..+..+++.||||+|||+.+...+.+.+...| .++.++. ++|.-+.+....+. ..+|+.+..
T Consensus 135 ~~g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a---~~~gv~~~~------------ 199 (374)
T PRK14722 135 ERGGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFG---KILGVPVHA------------ 199 (374)
T ss_pred cCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHH---HHcCCceEe------------
Confidence 35789999999999999988765555444444 4554443 33444554444433 334444322
Q ss_pred CCceEEEchHHHHHHHHHhhhcCCCCccceEEEccccc
Q 000107 616 DTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHM 653 (2191)
Q Consensus 616 ~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~ 653 (2191)
+-+++.+...+.+ +.+.++|+||.+=+
T Consensus 200 -----~~~~~~l~~~l~~------l~~~DlVLIDTaG~ 226 (374)
T PRK14722 200 -----VKDGGDLQLALAE------LRNKHMVLIDTIGM 226 (374)
T ss_pred -----cCCcccHHHHHHH------hcCCCEEEEcCCCC
Confidence 2233333333332 44569999999965
No 229
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=95.40 E-value=0.14 Score=72.27 Aligned_cols=110 Identities=17% Similarity=0.105 Sum_probs=71.4
Q ss_pred CCCHHHHHhhhhcccc-cCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEE
Q 000107 524 KLYPWQVECLHVDGVL-QRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVR 602 (2191)
Q Consensus 524 ~l~p~Q~eal~~~~il-~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~ 602 (2191)
.|++-|.+++.. +. .++-.++.|+.|+|||++.- ++.+.+...|.+++.++|+-.-|.... + ..|+..
T Consensus 381 ~Ls~eQ~~Av~~--i~~~~r~~~v~G~AGTGKTt~l~-~~~~~~e~~G~~V~g~ApTgkAA~~L~----e---~~Gi~a- 449 (1102)
T PRK13826 381 RLSDEQKTAIEH--VAGPARIAAVVGRAGAGKTTMMK-AAREAWEAAGYRVVGGALAGKAAEGLE----K---EAGIQS- 449 (1102)
T ss_pred CCCHHHHHHHHH--HhccCCeEEEEeCCCCCHHHHHH-HHHHHHHHcCCeEEEEcCcHHHHHHHH----H---hhCCCe-
Confidence 799999999985 43 47889999999999998754 344555567889999999966554432 1 122221
Q ss_pred EEeccCCCCCCCCCCceEEEchHHHHHHHHHh-hhcCCCCccceEEEcccccccccchhHHHHHHHHHH
Q 000107 603 SYYGNQGGGSLPKDTSVAVCTIEKANSLVNRM-LEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKL 670 (2191)
Q Consensus 603 ~~~G~~~~~~l~~~~~IiV~TpEkl~~Ll~~l-~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kL 670 (2191)
.|..+| +..+ .....+..-++|||||+.|++. ..+..++..+
T Consensus 450 -------------------~TIas~---ll~~~~~~~~l~~~~vlVIDEAsMv~~----~~m~~Ll~~~ 492 (1102)
T PRK13826 450 -------------------RTLSSW---ELRWNQGRDQLDNKTVFVLDEAGMVAS----RQMALFVEAV 492 (1102)
T ss_pred -------------------eeHHHH---HhhhccCccCCCCCcEEEEECcccCCH----HHHHHHHHHH
Confidence 233332 1111 1223456678999999999863 3455555444
No 230
>PF10391 DNA_pol_lambd_f: Fingers domain of DNA polymerase lambda; InterPro: IPR018944 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. This entry represents 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 []. ; GO: 0016779 nucleotidyltransferase activity; PDB: 1KDH_A 1KEJ_A 1JMS_A 2IHM_A 3OGU_A 1MQ2_A 2P66_A 7ICI_A 1ZQN_A 1ZQK_A ....
Probab=95.33 E-value=0.014 Score=52.64 Aligned_cols=29 Identities=31% Similarity=0.275 Sum_probs=22.8
Q ss_pred hhcCCCCCCHHHHHHHHHcCCCCHHHHHc
Q 000107 1232 ELTTIPYVKGSRARALYKAGLRTPLAIAE 1260 (2191)
Q Consensus 1232 ~L~~ip~v~~~RAR~Ly~aG~~t~~~la~ 1260 (2191)
.+++|-|||+.+||++|+.||+|++||.+
T Consensus 3 ~f~~I~GVG~~tA~~w~~~G~rtl~Dl~~ 31 (52)
T PF10391_consen 3 LFTGIWGVGPKTARKWYAKGIRTLEDLRK 31 (52)
T ss_dssp HHHTSTT--HHHHHHHHHTT--SHHHHHH
T ss_pred chhhcccccHHHHHHHHHhCCCCHHHHhh
Confidence 46899999999999999999999999954
No 231
>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=95.27 E-value=0.077 Score=56.16 Aligned_cols=42 Identities=17% Similarity=0.158 Sum_probs=28.3
Q ss_pred CCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHH
Q 000107 541 RRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSIC 583 (2191)
Q Consensus 541 gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA 583 (2191)
+.++++.||+|+|||..+...+ ..+...+..++++.+.....
T Consensus 2 ~~~~~l~G~~G~GKTtl~~~l~-~~~~~~~~~~~~~~~~~~~~ 43 (148)
T smart00382 2 GEVILIVGPPGSGKTTLARALA-RELGPPGGGVIYIDGEDILE 43 (148)
T ss_pred CCEEEEECCCCCcHHHHHHHHH-hccCCCCCCEEEECCEEccc
Confidence 5789999999999999875443 33332233577777664443
No 232
>PF00580 UvrD-helicase: UvrD/REP helicase N-terminal domain; InterPro: IPR000212 Members of this family are helicases that catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. THe family includes both Rep and UvrD helcases. The Rep family helicases are composed of four structural domains []. The Rep proteins function as dimers.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 1UAA_B 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A 1QHG_A 1PJR_A ....
Probab=95.20 E-value=0.041 Score=67.84 Aligned_cols=68 Identities=19% Similarity=0.100 Sum_probs=53.4
Q ss_pred CCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhc---CCEEEEEchhHHHHHHHHHHHHHHhhc
Q 000107 525 LYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIST---GKMALLVLPYVSICAEKAEHLEVLLEP 596 (2191)
Q Consensus 525 l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~---g~kaL~I~P~raLA~q~~~~l~~l~~~ 596 (2191)
|++-|.+++.. ..++++|.|..|||||.+...-++..+... ..++|++++|++.|.++..++...+..
T Consensus 1 l~~eQ~~~i~~----~~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~aa~e~~~ri~~~l~~ 71 (315)
T PF00580_consen 1 LTDEQRRIIRS----TEGPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNAAAQEMRERIRELLEE 71 (315)
T ss_dssp S-HHHHHHHHS-----SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHhC----CCCCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHHHHHHHHHHHHHhcCc
Confidence 57789998853 678999999999999999877666655543 358999999999999999999887654
No 233
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=95.17 E-value=0.029 Score=69.97 Aligned_cols=58 Identities=34% Similarity=0.328 Sum_probs=49.0
Q ss_pred hhhcCCCCCCHHHHHHHHHcCCCCHHHHHcCCHHHHHHHHhhcchhHHHHHhhhhHHHHHHHHHHHHHHH
Q 000107 1231 VELTTIPYVKGSRARALYKAGLRTPLAIAEASISEIVKALFESSSWIAEAQRRVQLGVAKKIKNGARKIV 1300 (2191)
Q Consensus 1231 l~L~~ip~v~~~RAR~Ly~aG~~t~~~la~a~~~~l~~~l~~~~~~~~~~~~~~~~~~A~~I~~~A~~l~ 1300 (2191)
++|.++|||++.+|..|.++||.|++||+.+++++|.+++ +++...|..|++.|+..+
T Consensus 6 ~~l~~l~gIg~~~a~~L~~~Gi~t~~dl~~~~~~~L~~~~------------g~~~~~a~~l~~~a~~~~ 63 (317)
T PRK04301 6 KDLEDLPGVGPATAEKLREAGYDTVEAIAVASPKELSEAA------------GIGESTAAKIIEAAREAA 63 (317)
T ss_pred ccHhhcCCCCHHHHHHHHHcCCCCHHHHHcCCHHHHHHhc------------CCCHHHHHHHHHHHHHhh
Confidence 6889999999999999999999999999999999999885 344456777777666543
No 234
>PHA02533 17 large terminase protein; Provisional
Probab=95.13 E-value=0.22 Score=66.13 Aligned_cols=122 Identities=19% Similarity=0.214 Sum_probs=77.2
Q ss_pred CCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHH-HHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCC--e
Q 000107 524 KLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILML-RRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGR--H 600 (2191)
Q Consensus 524 ~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL-~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~--~ 600 (2191)
.|.|||.+.+.. +..++-.++..+=..|||.++...++ ..+...+..+++++|+..-|..+++.++.+...+.. +
T Consensus 59 ~L~p~Q~~i~~~--~~~~R~~ii~~aRq~GKStl~a~~al~~a~~~~~~~v~i~A~~~~QA~~vF~~ik~~ie~~P~l~~ 136 (534)
T PHA02533 59 QMRDYQKDMLKI--MHKNRFNACNLSRQLGKTTVVAIFLLHYVCFNKDKNVGILAHKASMAAEVLDRTKQAIELLPDFLQ 136 (534)
T ss_pred CCcHHHHHHHHH--HhcCeEEEEEEcCcCChHHHHHHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHHHHhCHHHhh
Confidence 588999999875 54566667888999999988875444 344456779999999999999999888876554321 1
Q ss_pred EEEEeccCCCCCCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccc
Q 000107 601 VRSYYGNQGGGSLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVAD 656 (2191)
Q Consensus 601 V~~~~G~~~~~~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d 656 (2191)
..........-.+..+..|.+.|... ....=..+.++|+||+|.+.+
T Consensus 137 ~~i~~~~~~~I~l~NGS~I~~lss~~---------~t~rG~~~~~liiDE~a~~~~ 183 (534)
T PHA02533 137 PGIVEWNKGSIELENGSKIGAYASSP---------DAVRGNSFAMIYIDECAFIPN 183 (534)
T ss_pred cceeecCccEEEeCCCCEEEEEeCCC---------CccCCCCCceEEEeccccCCC
Confidence 11000111111123455565555321 001112457899999999765
No 235
>PF11731 Cdd1: Pathogenicity locus; InterPro: IPR021725 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=95.04 E-value=0.033 Score=56.12 Aligned_cols=44 Identities=30% Similarity=0.466 Sum_probs=41.1
Q ss_pred chhhhhhcCCCCCCHHHHHHHHHcCCCCHHHHHcCCHHHHHHHH
Q 000107 1227 RAEIVELTTIPYVKGSRARALYKAGLRTPLAIAEASISEIVKAL 1270 (2191)
Q Consensus 1227 ~~ELl~L~~ip~v~~~RAR~Ly~aG~~t~~~la~a~~~~l~~~l 1270 (2191)
+..+-+|..||+||.+-|+-|..-||.|+++|+..+|.+|-..+
T Consensus 8 ~~~~~~L~~iP~IG~a~a~DL~~LGi~s~~~L~g~dP~~Ly~~l 51 (93)
T PF11731_consen 8 RAGLSDLTDIPNIGKATAEDLRLLGIRSPADLKGRDPEELYERL 51 (93)
T ss_pred HHHHHHHhcCCCccHHHHHHHHHcCCCCHHHHhCCCHHHHHHHH
Confidence 45678999999999999999999999999999999999999876
No 236
>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 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. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....
Probab=94.98 E-value=0.24 Score=60.11 Aligned_cols=145 Identities=22% Similarity=0.284 Sum_probs=85.6
Q ss_pred ccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEe-ccCCCC----
Q 000107 537 GVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYY-GNQGGG---- 611 (2191)
Q Consensus 537 ~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~-G~~~~~---- 611 (2191)
++..|.-+++.|+||.|||..+.-.+.+.....+..++|+..-- -..+++.++-.... ++....+. |.....
T Consensus 15 G~~~g~L~vi~a~pg~GKT~~~l~ia~~~a~~~~~~vly~SlEm-~~~~l~~R~la~~s--~v~~~~i~~g~l~~~e~~~ 91 (259)
T PF03796_consen 15 GLRPGELTVIAARPGVGKTAFALQIALNAALNGGYPVLYFSLEM-SEEELAARLLARLS--GVPYNKIRSGDLSDEEFER 91 (259)
T ss_dssp SB-TT-EEEEEESTTSSHHHHHHHHHHHHHHTTSSEEEEEESSS--HHHHHHHHHHHHH--TSTHHHHHCCGCHHHHHHH
T ss_pred CCCcCcEEEEEecccCCchHHHHHHHHHHHHhcCCeEEEEcCCC-CHHHHHHHHHHHhh--cchhhhhhccccCHHHHHH
Confidence 56778899999999999999988777766665568888886421 11222222211111 11000000 000000
Q ss_pred ------CCCCCCceEE-----EchHHHHHHHHHhhhcCCCCccceEEEccccccccc----chhHHHHHHHHHHHHhhcC
Q 000107 612 ------SLPKDTSVAV-----CTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQ----NRGYLLELLLTKLRYAAGE 676 (2191)
Q Consensus 612 ------~l~~~~~IiV-----~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~----~RG~~lE~lL~kLr~~~~~ 676 (2191)
.+. +..++| .|++.+...++++.... ..+++||||=+|.|... .+...+..+...|+.++.+
T Consensus 92 ~~~~~~~l~-~~~l~i~~~~~~~~~~i~~~i~~~~~~~--~~~~~v~IDyl~ll~~~~~~~~~~~~~~~i~~~Lk~lA~~ 168 (259)
T PF03796_consen 92 LQAAAEKLS-DLPLYIEDTPSLTIDDIESKIRRLKREG--KKVDVVFIDYLQLLKSEDSSDNRRQEIGEISRELKALAKE 168 (259)
T ss_dssp HHHHHHHHH-TSEEEEEESSS-BHHHHHHHHHHHHHHS--TTEEEEEEEEGGGSBTSCSSSCCHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHh-hCcEEEECCCCCCHHHHHHHHHHHHhhc--cCCCEEEechHHHhcCCCCCCCHHHHHHHHHHHHHHHHHH
Confidence 000 111222 25667777777654433 77899999999999763 4566788888889888753
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCceEEEEecc
Q 000107 677 GTSDSSSGENSGTSSGKADPAHGLQIVGMSAT 708 (2191)
Q Consensus 677 ~~~~s~~~~~~~~~~~~~~~~~~iqII~mSAT 708 (2191)
.++.||++|-.
T Consensus 169 ---------------------~~i~vi~~sQl 179 (259)
T PF03796_consen 169 ---------------------LNIPVIALSQL 179 (259)
T ss_dssp ---------------------HTSEEEEEEEB
T ss_pred ---------------------cCCeEEEcccc
Confidence 56788888776
No 237
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=94.97 E-value=0.43 Score=60.22 Aligned_cols=142 Identities=16% Similarity=0.204 Sum_probs=83.8
Q ss_pred ccCCeEEEEcCCCCchhHHHHHHHHHHH-HhcCCE-EEEEc-hhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCCC
Q 000107 539 LQRRNLVYCASTSAGKSFVAEILMLRRL-ISTGKM-ALLVL-PYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPK 615 (2191)
Q Consensus 539 l~gknlIi~APTGSGKTlvael~iL~~l-l~~g~k-aL~I~-P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~~ 615 (2191)
.+++.+.+.||||.|||+...-...+.. ....++ +|+.. -+|.=|.++.+.+.++ +|+.+
T Consensus 201 ~~~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~i---m~vp~-------------- 263 (407)
T COG1419 201 EQKRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADI---MGVPL-------------- 263 (407)
T ss_pred ccCcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHHH---hCCce--------------
Confidence 4589999999999999987665444444 333334 44444 6777777776555444 34443
Q ss_pred CCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCC
Q 000107 616 DTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKAD 695 (2191)
Q Consensus 616 ~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~ 695 (2191)
.++-+|.-+...+. .+.+.++|.||=+-+ ++.=...+..|+.....
T Consensus 264 ---~vv~~~~el~~ai~------~l~~~d~ILVDTaGr------s~~D~~~i~el~~~~~~------------------- 309 (407)
T COG1419 264 ---EVVYSPKELAEAIE------ALRDCDVILVDTAGR------SQYDKEKIEELKELIDV------------------- 309 (407)
T ss_pred ---EEecCHHHHHHHHH------HhhcCCEEEEeCCCC------CccCHHHHHHHHHHHhc-------------------
Confidence 34556666655444 356679999998754 32223334444433221
Q ss_pred CCCCceEEEEeccCCCHHHHHHHhhccccccccccccceEEEE
Q 000107 696 PAHGLQIVGMSATMPNVAAVADWLQAALYETNFRPVPLEEYIK 738 (2191)
Q Consensus 696 ~~~~iqII~mSATL~N~~~la~wL~a~l~~~~~RpvpL~e~i~ 738 (2191)
...---.+.+|||. ..+++.+-+. .|+.+|+...|.
T Consensus 310 ~~~i~~~Lvlsat~-K~~dlkei~~------~f~~~~i~~~I~ 345 (407)
T COG1419 310 SHSIEVYLVLSATT-KYEDLKEIIK------QFSLFPIDGLIF 345 (407)
T ss_pred cccceEEEEEecCc-chHHHHHHHH------HhccCCcceeEE
Confidence 01123457789995 5556555443 567777776554
No 238
>PRK04296 thymidine kinase; Provisional
Probab=94.93 E-value=0.05 Score=62.88 Aligned_cols=37 Identities=16% Similarity=0.094 Sum_probs=27.9
Q ss_pred CCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEch
Q 000107 541 RRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLP 578 (2191)
Q Consensus 541 gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P 578 (2191)
|.-.++.||+|+|||+.+.-.+. ++...+.+++++-|
T Consensus 2 g~i~litG~~GsGKTT~~l~~~~-~~~~~g~~v~i~k~ 38 (190)
T PRK04296 2 AKLEFIYGAMNSGKSTELLQRAY-NYEERGMKVLVFKP 38 (190)
T ss_pred cEEEEEECCCCCHHHHHHHHHHH-HHHHcCCeEEEEec
Confidence 45678999999999988765544 44456888888866
No 239
>PRK05973 replicative DNA helicase; Provisional
Probab=94.84 E-value=0.17 Score=60.38 Aligned_cols=121 Identities=14% Similarity=0.192 Sum_probs=66.1
Q ss_pred cccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCCC
Q 000107 536 DGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPK 615 (2191)
Q Consensus 536 ~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~~ 615 (2191)
.++..|.-++|.|++|+|||+.+...+...+ ..|.+++|+.---. ..++.+++..+ |+....+. .
T Consensus 59 GGl~~Gsl~LIaG~PG~GKT~lalqfa~~~a-~~Ge~vlyfSlEes-~~~i~~R~~s~----g~d~~~~~---------~ 123 (237)
T PRK05973 59 SQLKPGDLVLLGARPGHGKTLLGLELAVEAM-KSGRTGVFFTLEYT-EQDVRDRLRAL----GADRAQFA---------D 123 (237)
T ss_pred CCCCCCCEEEEEeCCCCCHHHHHHHHHHHHH-hcCCeEEEEEEeCC-HHHHHHHHHHc----CCChHHhc---------c
Confidence 3577889999999999999999877766554 45888888863322 35555555443 32211000 0
Q ss_pred CCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHhh
Q 000107 616 DTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAA 674 (2191)
Q Consensus 616 ~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~ 674 (2191)
...+....+.....+++++... ...++||||=+..+....+.+.+..++..|+.+.
T Consensus 124 ~~~~d~~d~~~~~~ii~~l~~~---~~~~lVVIDsLq~l~~~~~~~el~~~~~~Lk~~A 179 (237)
T PRK05973 124 LFEFDTSDAICADYIIARLASA---PRGTLVVIDYLQLLDQRREKPDLSVQVRALKSFA 179 (237)
T ss_pred ceEeecCCCCCHHHHHHHHHHh---hCCCEEEEEcHHHHhhcccchhHHHHHHHHHHHH
Confidence 0000000001112234443331 2458999999998753323333444444455544
No 240
>TIGR00376 DNA helicase, putative. The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.
Probab=94.79 E-value=0.061 Score=72.98 Aligned_cols=67 Identities=19% Similarity=0.255 Sum_probs=54.2
Q ss_pred CCCCHHHHHhhhhccccc-CCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHH
Q 000107 523 SKLYPWQVECLHVDGVLQ-RRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEV 592 (2191)
Q Consensus 523 ~~l~p~Q~eal~~~~il~-gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~ 592 (2191)
..|++.|.+|+.. ++. ...++|.||+|+|||.+.. .++..+...|.++|+++|+...+.++.+.+..
T Consensus 156 ~~ln~~Q~~Av~~--~l~~~~~~lI~GpPGTGKT~t~~-~ii~~~~~~g~~VLv~a~sn~Avd~l~e~l~~ 223 (637)
T TIGR00376 156 PNLNESQKEAVSF--ALSSKDLFLIHGPPGTGKTRTLV-ELIRQLVKRGLRVLVTAPSNIAVDNLLERLAL 223 (637)
T ss_pred CCCCHHHHHHHHH--HhcCCCeEEEEcCCCCCHHHHHH-HHHHHHHHcCCCEEEEcCcHHHHHHHHHHHHh
Confidence 4689999999976 554 4789999999999997764 34445556788999999999999998877754
No 241
>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=94.74 E-value=0.11 Score=55.60 Aligned_cols=38 Identities=21% Similarity=0.312 Sum_probs=26.2
Q ss_pred CCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchh
Q 000107 541 RRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPY 579 (2191)
Q Consensus 541 gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~ 579 (2191)
++.+++.||+|+|||..+.. +.+.+...+..++++...
T Consensus 19 ~~~v~i~G~~G~GKT~l~~~-i~~~~~~~~~~v~~~~~~ 56 (151)
T cd00009 19 PKNLLLYGPPGTGKTTLARA-IANELFRPGAPFLYLNAS 56 (151)
T ss_pred CCeEEEECCCCCCHHHHHHH-HHHHhhcCCCCeEEEehh
Confidence 68999999999999977644 334443445566666543
No 242
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=94.73 E-value=0.29 Score=56.89 Aligned_cols=56 Identities=21% Similarity=0.268 Sum_probs=36.9
Q ss_pred CeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEc--hhHHHHHHHHHHHHHHhhccCCeE
Q 000107 542 RNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVL--PYVSICAEKAEHLEVLLEPLGRHV 601 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~--P~raLA~q~~~~l~~l~~~lg~~V 601 (2191)
+.+++.||||+|||+...-...+...+ ++++.+++ .+|.=|.++.+.+.+. +|+.+
T Consensus 2 ~vi~lvGptGvGKTTt~aKLAa~~~~~-~~~v~lis~D~~R~ga~eQL~~~a~~---l~vp~ 59 (196)
T PF00448_consen 2 KVIALVGPTGVGKTTTIAKLAARLKLK-GKKVALISADTYRIGAVEQLKTYAEI---LGVPF 59 (196)
T ss_dssp EEEEEEESTTSSHHHHHHHHHHHHHHT-T--EEEEEESTSSTHHHHHHHHHHHH---HTEEE
T ss_pred EEEEEECCCCCchHhHHHHHHHHHhhc-cccceeecCCCCCccHHHHHHHHHHH---hcccc
Confidence 467899999999998877555554444 66665555 6777777766555443 45554
No 243
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=94.63 E-value=0.34 Score=64.45 Aligned_cols=120 Identities=11% Similarity=0.122 Sum_probs=76.2
Q ss_pred cccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCC--------eEEEEeccCC
Q 000107 538 VLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGR--------HVRSYYGNQG 609 (2191)
Q Consensus 538 il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~--------~V~~~~G~~~ 609 (2191)
.+..+-.++.+|=|.|||.+..+.+...+...|.+++|++|...-+.+.+++++..+..++. ++....|+..
T Consensus 184 ~fkq~~tV~taPRqrGKS~iVgi~l~~La~f~Gi~IlvTAH~~~ts~evF~rv~~~le~lg~~~~fp~~~~iv~vkgg~E 263 (752)
T PHA03333 184 EYGKCYTAATVPRRCGKTTIMAIILAAMISFLEIDIVVQAQRKTMCLTLYNRVETVVHAYQHKPWFPEEFKIVTLKGTDE 263 (752)
T ss_pred HHhhcceEEEeccCCCcHHHHHHHHHHHHHhcCCeEEEECCChhhHHHHHHHHHHHHHHhccccccCCCceEEEeeCCee
Confidence 34567788899999999998887766544436889999999999999999999888875441 1121222211
Q ss_pred CCC--CC-----CCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHH
Q 000107 610 GGS--LP-----KDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKL 670 (2191)
Q Consensus 610 ~~~--l~-----~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kL 670 (2191)
.-. .+ ....|.+++-.. ...+-..++++||||++.|.+ ..++.++-.+
T Consensus 264 ~I~f~~p~gak~G~sti~F~Ars~---------~s~RG~~~DLLIVDEAAfI~~----~~l~aIlP~l 318 (752)
T PHA03333 264 NLEYISDPAAKEGKTTAHFLASSP---------NAARGQNPDLVIVDEAAFVNP----GALLSVLPLM 318 (752)
T ss_pred EEEEecCcccccCcceeEEecccC---------CCcCCCCCCEEEEECcccCCH----HHHHHHHHHH
Confidence 000 00 113444544331 112223579999999999865 3455555444
No 244
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=94.61 E-value=0.6 Score=60.61 Aligned_cols=89 Identities=19% Similarity=0.195 Sum_probs=53.8
Q ss_pred cCCeEEEEcCCCCchhHHHHHHHHHHH-HhcCCEEEEEc--hhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCCCC
Q 000107 540 QRRNLVYCASTSAGKSFVAEILMLRRL-ISTGKMALLVL--PYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPKD 616 (2191)
Q Consensus 540 ~gknlIi~APTGSGKTlvael~iL~~l-l~~g~kaL~I~--P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~~~ 616 (2191)
.++.+++.+|||+|||+.....+.... ...+.++.+|. |+|.-+.+....+.. .+|+.+.
T Consensus 220 ~~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a~eqL~~~a~---~~~vp~~-------------- 282 (424)
T PRK05703 220 QGGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQLKTYAK---IMGIPVE-------------- 282 (424)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHHHHHHHHHHH---HhCCceE--------------
Confidence 467899999999999988765554443 34556666554 666655544444333 2343321
Q ss_pred CceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccc
Q 000107 617 TSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMV 654 (2191)
Q Consensus 617 ~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l 654 (2191)
.+.+++.+...+.. +.+.++||||.+-+.
T Consensus 283 ---~~~~~~~l~~~l~~------~~~~DlVlIDt~G~~ 311 (424)
T PRK05703 283 ---VVYDPKELAKALEQ------LRDCDVILIDTAGRS 311 (424)
T ss_pred ---ccCCHHhHHHHHHH------hCCCCEEEEeCCCCC
Confidence 12344444444433 346799999998664
No 245
>PRK06526 transposase; Provisional
Probab=94.61 E-value=0.17 Score=61.21 Aligned_cols=40 Identities=23% Similarity=0.309 Sum_probs=29.3
Q ss_pred cccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEch
Q 000107 538 VLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLP 578 (2191)
Q Consensus 538 il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P 578 (2191)
+..+.|++++||+|+|||..+.- +...+...|.+++|+..
T Consensus 95 i~~~~nlll~Gp~GtGKThLa~a-l~~~a~~~g~~v~f~t~ 134 (254)
T PRK06526 95 VTGKENVVFLGPPGTGKTHLAIG-LGIRACQAGHRVLFATA 134 (254)
T ss_pred hhcCceEEEEeCCCCchHHHHHH-HHHHHHHCCCchhhhhH
Confidence 44678999999999999988754 33445556777776543
No 246
>TIGR02236 recomb_radA DNA repair and recombination protein RadA. This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.
Probab=94.34 E-value=0.067 Score=66.57 Aligned_cols=55 Identities=38% Similarity=0.338 Sum_probs=44.6
Q ss_pred hcCCCCCCHHHHHHHHHcCCCCHHHHHcCCHHHHHHHHhhcchhHHHHHhhhhHHHHHHHHHHHHHH
Q 000107 1233 LTTIPYVKGSRARALYKAGLRTPLAIAEASISEIVKALFESSSWIAEAQRRVQLGVAKKIKNGARKI 1299 (2191)
Q Consensus 1233 L~~ip~v~~~RAR~Ly~aG~~t~~~la~a~~~~l~~~l~~~~~~~~~~~~~~~~~~A~~I~~~A~~l 1299 (2191)
|.+||||++.+|+.|+++||.|++||+.+++++|.+++. +....|..|++.|++.
T Consensus 1 l~~i~gig~~~~~~L~~~Gi~ti~dl~~~~~~~L~~~~g------------~~~~~a~~l~~~~~~~ 55 (310)
T TIGR02236 1 LEDLPGVGPATAEKLREAGYDTFEAIAVASPKELSEIAG------------ISEGTAAKIIQAARKA 55 (310)
T ss_pred CcccCCCCHHHHHHHHHcCCCCHHHHHcCCHHHHHhccC------------CCHHHHHHHHHHHHHH
Confidence 458999999999999999999999999999999998852 3344566666655543
No 247
>TIGR01954 nusA_Cterm_rpt transcription termination factor NusA, C-terminal duplication. NusA is a bacterial transcription termination factor. It is named for its interaction with phage lambda protein N, as part of the N utilization substance. Some members of the NusA family have a long C-terminal extension. This model represents an acidic 50-residue region found in two copies toward the C-terminus of most Proteobacterial NusA proteins, spaced about 26 residues apart. Analogous C-terminal extensions in some other bacterial lineages lack apparent homology but appear similarly acidic.
Probab=94.30 E-value=0.09 Score=46.93 Aligned_cols=48 Identities=25% Similarity=0.276 Sum_probs=39.4
Q ss_pred CHHHHHHHHHcCCCCHHHHHcCCHHHHHHHHhhcchhHHHHHhhhhHHHHHHHHHHHHHH
Q 000107 1240 KGSRARALYKAGLRTPLAIAEASISEIVKALFESSSWIAEAQRRVQLGVAKKIKNGARKI 1299 (2191)
Q Consensus 1240 ~~~RAR~Ly~aG~~t~~~la~a~~~~l~~~l~~~~~~~~~~~~~~~~~~A~~I~~~A~~l 1299 (2191)
...-|-.|+++||.|+++||.+++++|..+ .++....|..|+..||+.
T Consensus 2 ~~~~~~~L~~~G~~s~e~la~~~~~eL~~i------------~g~~~e~a~~ii~~a~~~ 49 (50)
T TIGR01954 2 DEEIAQLLVEEGFTTVEDLAYVPIDELLSI------------EGFDEETAKELINRARNA 49 (50)
T ss_pred CHHHHHHHHHcCCCCHHHHHccCHHHHhcC------------CCCCHHHHHHHHHHHHHh
Confidence 456688999999999999999999999987 345666778888877753
No 248
>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=94.27 E-value=0.075 Score=65.95 Aligned_cols=38 Identities=32% Similarity=0.442 Sum_probs=35.2
Q ss_pred cCchhhhhhcCCCCCCHHHHHHHHHcCCCCHHHHHcCC
Q 000107 1225 GVRAEIVELTTIPYVKGSRARALYKAGLRTPLAIAEAS 1262 (2191)
Q Consensus 1225 Gv~~ELl~L~~ip~v~~~RAR~Ly~aG~~t~~~la~a~ 1262 (2191)
-+.+.|++|++|||||..+|++||+.|++|++||..+-
T Consensus 79 ~~~~~l~~l~~i~GiGpk~a~~l~~lGi~sl~dL~~a~ 116 (307)
T cd00141 79 DVPPGLLLLLRVPGVGPKTARKLYELGIRTLEDLRKAA 116 (307)
T ss_pred cchHHHHHHHcCCCCCHHHHHHHHHcCCCCHHHHHHHh
Confidence 37789999999999999999999999999999998864
No 249
>PRK14973 DNA topoisomerase I; Provisional
Probab=94.22 E-value=0.11 Score=72.58 Aligned_cols=104 Identities=15% Similarity=0.188 Sum_probs=82.8
Q ss_pred CCCHHHHHHHhCCCcchHHHHHHHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhccCchhhhhhcCCCCCCHHHHHHH
Q 000107 1168 ETPVLEVCETFKVARGMVQALQENAGRFASMVSVFCERLGWYDLEGLIAKFQNRVSFGVRAEIVELTTIPYVKGSRARAL 1247 (2191)
Q Consensus 1168 e~~~~~i~~~y~v~rG~lq~l~~~a~~~a~~v~~fc~~lg~~~~~~ll~~~~~RL~~Gv~~ELl~L~~ip~v~~~RAR~L 1247 (2191)
..+..+++..-|++..+++.++..| |+.|+...-.... ..|...|-++ |+.|+|||....-.|
T Consensus 831 ~a~p~~La~~~g~~~~~~~~~~~~~----------~~~~~~~~~~~~~---~~~~~~~~~e----l~~vkg~ge~t~~~l 893 (936)
T PRK14973 831 SVHPAYLALKTGISPETICRHAKLV----------CEKLGRPVPEKIS---KAAFERGRAE----LLSVPGLGETTLEKL 893 (936)
T ss_pred hcCHHHHhcCCCCChhhHHHHHHHH----------HHHhcCCCchhhh---hhhhcccchh----hhhccCCCHHHHHHH
Confidence 3455688889999999988887655 4455543333222 6666666666 999999999999999
Q ss_pred HHcCCCCHHHHHcCCHHHHHHHHhhcchhHHHHHhhhhHHHHHHHHHHHHHHH
Q 000107 1248 YKAGLRTPLAIAEASISEIVKALFESSSWIAEAQRRVQLGVAKKIKNGARKIV 1300 (2191)
Q Consensus 1248 y~aG~~t~~~la~a~~~~l~~~l~~~~~~~~~~~~~~~~~~A~~I~~~A~~l~ 1300 (2191)
+.|||.|++||+++++++|... .+++.+.++++.+.|+..+
T Consensus 894 ~~ag~~~~e~l~~~d~~~la~~------------~~i~~k~~~~~~~~~~~~~ 934 (936)
T PRK14973 894 YLAGVYDGDLLVSADPKKLAKV------------TGIDEKKLRNLQAYAKKVL 934 (936)
T ss_pred HHcCCCCHHHhccCCHHHHhhh------------cCCCHHHHHHHHHHHhhhh
Confidence 9999999999999999999886 4688889999999888765
No 250
>PRK08181 transposase; Validated
Probab=94.16 E-value=0.5 Score=57.62 Aligned_cols=39 Identities=26% Similarity=0.304 Sum_probs=29.3
Q ss_pred cccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEc
Q 000107 538 VLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVL 577 (2191)
Q Consensus 538 il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~ 577 (2191)
+..++|++++||+|+|||..+. ++...+...|.+++|+.
T Consensus 103 ~~~~~nlll~Gp~GtGKTHLa~-Aia~~a~~~g~~v~f~~ 141 (269)
T PRK08181 103 LAKGANLLLFGPPGGGKSHLAA-AIGLALIENGWRVLFTR 141 (269)
T ss_pred HhcCceEEEEecCCCcHHHHHH-HHHHHHHHcCCceeeee
Confidence 3468899999999999997764 44445555677777764
No 251
>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family. Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.
Probab=94.15 E-value=0.4 Score=57.42 Aligned_cols=55 Identities=15% Similarity=0.274 Sum_probs=41.2
Q ss_pred cccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHH
Q 000107 536 DGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEV 592 (2191)
Q Consensus 536 ~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~ 592 (2191)
.++..|..+++.||+|+|||+.+...+...+ .+|.+++|+. +.+-..+..+++..
T Consensus 16 GG~~~gs~~lI~G~pGsGKT~la~~~l~~~~-~~ge~~lyvs-~ee~~~~i~~~~~~ 70 (237)
T TIGR03877 16 GGIPERNVVLLSGGPGTGKSIFSQQFLWNGL-QMGEPGIYVA-LEEHPVQVRRNMAQ 70 (237)
T ss_pred CCCcCCeEEEEEcCCCCCHHHHHHHHHHHHH-HcCCcEEEEE-eeCCHHHHHHHHHH
Confidence 4677889999999999999999887777665 5688999987 33444555555444
No 252
>PRK11823 DNA repair protein RadA; Provisional
Probab=94.04 E-value=0.32 Score=63.59 Aligned_cols=114 Identities=17% Similarity=0.171 Sum_probs=66.1
Q ss_pred cccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCCC
Q 000107 536 DGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPK 615 (2191)
Q Consensus 536 ~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~~ 615 (2191)
.++..|..+++.+++|+|||+.....+.. +...+.+++|+.-.. -..|+..+..+ +|+...
T Consensus 75 GGi~~Gs~~lI~G~pG~GKTtL~lq~a~~-~a~~g~~vlYvs~Ee-s~~qi~~ra~r----lg~~~~------------- 135 (446)
T PRK11823 75 GGLVPGSVVLIGGDPGIGKSTLLLQVAAR-LAAAGGKVLYVSGEE-SASQIKLRAER----LGLPSD------------- 135 (446)
T ss_pred CCccCCEEEEEECCCCCCHHHHHHHHHHH-HHhcCCeEEEEEccc-cHHHHHHHHHH----cCCChh-------------
Confidence 46778899999999999999987766554 334578999987532 23344433332 333211
Q ss_pred CCceEEEchHHHHHHHHHhhhcCCCCccceEEEccccccccc------chhHHHHHHHHHHHHhh
Q 000107 616 DTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQ------NRGYLLELLLTKLRYAA 674 (2191)
Q Consensus 616 ~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~------~RG~~lE~lL~kLr~~~ 674 (2191)
.+.+.....+..++... .. .+.++||||+++.+... +....+..++..|....
T Consensus 136 --~l~~~~e~~l~~i~~~i-~~---~~~~lVVIDSIq~l~~~~~~~~~g~~~qvr~~~~~L~~~a 194 (446)
T PRK11823 136 --NLYLLAETNLEAILATI-EE---EKPDLVVIDSIQTMYSPELESAPGSVSQVRECAAELMRLA 194 (446)
T ss_pred --cEEEeCCCCHHHHHHHH-Hh---hCCCEEEEechhhhccccccCCCCCHHHHHHHHHHHHHHH
Confidence 13333333344444432 11 35689999999977532 12233445555555543
No 253
>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=93.79 E-value=0.13 Score=58.58 Aligned_cols=48 Identities=21% Similarity=0.194 Sum_probs=33.4
Q ss_pred eEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHH
Q 000107 543 NLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEV 592 (2191)
Q Consensus 543 nlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~ 592 (2191)
.+++.||+|+|||..+...+...+ ..|.+++|+... +-..+..+++..
T Consensus 1 ~~li~G~~G~GKT~l~~~~~~~~~-~~g~~v~~~s~e-~~~~~~~~~~~~ 48 (187)
T cd01124 1 STLLSGGPGTGKTTFALQFLYAGL-ARGEPGLYVTLE-ESPEELIENAES 48 (187)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHH-HCCCcEEEEECC-CCHHHHHHHHHH
Confidence 368999999999998876665544 568889988643 334455544443
No 254
>PRK14974 cell division protein FtsY; Provisional
Probab=93.71 E-value=0.57 Score=58.79 Aligned_cols=93 Identities=17% Similarity=0.184 Sum_probs=52.4
Q ss_pred CCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEc--hhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCCCCCc
Q 000107 541 RRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVL--PYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPKDTS 618 (2191)
Q Consensus 541 gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~--P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~~~~~ 618 (2191)
...++++||+|+|||++..-.+ ..+...|.+++++. ++|.-+.++.. .+...+|+.+.. +.. ..
T Consensus 140 ~~vi~~~G~~GvGKTTtiakLA-~~l~~~g~~V~li~~Dt~R~~a~eqL~---~~a~~lgv~v~~--~~~-----g~--- 205 (336)
T PRK14974 140 PVVIVFVGVNGTGKTTTIAKLA-YYLKKNGFSVVIAAGDTFRAGAIEQLE---EHAERLGVKVIK--HKY-----GA--- 205 (336)
T ss_pred CeEEEEEcCCCCCHHHHHHHHH-HHHHHcCCeEEEecCCcCcHHHHHHHH---HHHHHcCCceec--ccC-----CC---
Confidence 4678999999999998765443 34455677777665 45555554443 333445655431 110 01
Q ss_pred eEEEchHH-HHHHHHHhhhcCCCCccceEEEccccccc
Q 000107 619 VAVCTIEK-ANSLVNRMLEEGRLSEIGIIVIDELHMVA 655 (2191)
Q Consensus 619 IiV~TpEk-l~~Ll~~l~~~~~L~~l~lVVIDEaH~l~ 655 (2191)
.|.. +...+... ...+.++|+||.++++.
T Consensus 206 ----dp~~v~~~ai~~~----~~~~~DvVLIDTaGr~~ 235 (336)
T PRK14974 206 ----DPAAVAYDAIEHA----KARGIDVVLIDTAGRMH 235 (336)
T ss_pred ----CHHHHHHHHHHHH----HhCCCCEEEEECCCccC
Confidence 1111 12222221 22456899999999875
No 255
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=93.70 E-value=0.17 Score=60.27 Aligned_cols=42 Identities=17% Similarity=0.291 Sum_probs=33.4
Q ss_pred cccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEch
Q 000107 536 DGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLP 578 (2191)
Q Consensus 536 ~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P 578 (2191)
.++-.|..+++.|++|+|||..+...+...+ .+|.+++|+.=
T Consensus 20 gG~~~g~~~~i~G~~GsGKt~l~~~~~~~~~-~~g~~~~y~~~ 61 (234)
T PRK06067 20 GGIPFPSLILIEGDHGTGKSVLSQQFVYGAL-KQGKKVYVITT 61 (234)
T ss_pred CCCcCCcEEEEECCCCCChHHHHHHHHHHHH-hCCCEEEEEEc
Confidence 3566789999999999999998877666544 36888888874
No 256
>PRK07952 DNA replication protein DnaC; Validated
Probab=93.66 E-value=1 Score=54.14 Aligned_cols=34 Identities=21% Similarity=0.496 Sum_probs=27.1
Q ss_pred CeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEE
Q 000107 542 RNLVYCASTSAGKSFVAEILMLRRLISTGKMALLV 576 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I 576 (2191)
..+++++++|+|||..+. ++...+...|..++|+
T Consensus 100 ~~~~l~G~~GtGKThLa~-aia~~l~~~g~~v~~i 133 (244)
T PRK07952 100 ASFIFSGKPGTGKNHLAA-AICNELLLRGKSVLII 133 (244)
T ss_pred ceEEEECCCCCCHHHHHH-HHHHHHHhcCCeEEEE
Confidence 589999999999998764 5566666677788777
No 257
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=93.62 E-value=0.29 Score=60.19 Aligned_cols=64 Identities=17% Similarity=0.213 Sum_probs=49.7
Q ss_pred HcCCCCCCHHHHHhhhhcccccC--CeEEEEcCCCCchhHHHHHHHHHHHHhcC--CEEEEEchhHHHHH
Q 000107 519 KRGISKLYPWQVECLHVDGVLQR--RNLVYCASTSAGKSFVAEILMLRRLISTG--KMALLVLPYVSICA 584 (2191)
Q Consensus 519 ~~Gi~~l~p~Q~eal~~~~il~g--knlIi~APTGSGKTlvael~iL~~ll~~g--~kaL~I~P~raLA~ 584 (2191)
-.|+.-.+..|.-|+.. ++.. .=+.+.++-|+|||+.|+-+.+...+.++ .++|+.=|+..+..
T Consensus 223 vwGi~prn~eQ~~ALdl--Lld~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~vpvG~ 290 (436)
T COG1875 223 VWGIRPRNAEQRVALDL--LLDDDIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPTVPVGE 290 (436)
T ss_pred hhccCcccHHHHHHHHH--hcCCCCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCCcCccc
Confidence 36887788889888875 6654 55778999999999999998888877643 47888778866553
No 258
>smart00483 POLXc DNA polymerase X family. includes vertebrate polymerase beta and terminal deoxynucleotidyltransferases
Probab=93.54 E-value=0.13 Score=64.60 Aligned_cols=44 Identities=18% Similarity=0.150 Sum_probs=37.8
Q ss_pred HHHhccCchhhhhhcCCCCCCHHHHHHHHHcCCCCHHHHHcCCH
Q 000107 1220 NRVSFGVRAEIVELTTIPYVKGSRARALYKAGLRTPLAIAEASI 1263 (2191)
Q Consensus 1220 ~RL~~Gv~~ELl~L~~ip~v~~~RAR~Ly~aG~~t~~~la~a~~ 1263 (2191)
..+.-=+.+-|++|++|||||+.+|++||+-|++|++||..+-.
T Consensus 78 e~l~~~~p~~l~~l~~i~GiGpk~a~~l~~lGi~tl~eL~~a~~ 121 (334)
T smart00483 78 EILNDEVYKSLKLFTNVFGVGPKTAAKWYRKGIRTLEELKKNKE 121 (334)
T ss_pred HHhcCcHHHHHHHHHccCCcCHHHHHHHHHhCCCCHHHHHhccc
Confidence 34444567889999999999999999999999999999987643
No 259
>KOG2206 consensus Exosome 3'-5' exoribonuclease complex, subunit PM/SCL-100 (Rrp6) [Translation, ribosomal structure and biogenesis]
Probab=93.48 E-value=0.36 Score=62.12 Aligned_cols=167 Identities=16% Similarity=0.156 Sum_probs=106.1
Q ss_pred CceeccCcccHHHHHHHHhhCCeEEEEeeccCCcccCCCccc-eEEEE-EEEEeCCcEEEEeCCCCcccccccccchhcc
Q 000107 1488 PINAINASGGFDCFLDRWEATHEFYFDIHYDKHSEANSGVLF-EIHGL-AVCWENSPVYYVNLPKDLWSDHRRKDRFLIY 1565 (2191)
Q Consensus 1488 ~i~~v~~~~~~~~~l~~~~~~~~~afD~e~~~~~~~~s~~~~-~i~Gi-a~~~~~~~ayYi~l~~~~~~~~~~~~~~~~~ 1565 (2191)
+...|.+.+.+.++.+.+....+|++|+|.- +...| .+.++ -|+..+ +.|.|+-
T Consensus 192 ~~~~I~t~~el~~l~~~l~~~~Efavdlehh------syrsf~gltclmqISTr~-ed~iIDt----------------- 247 (687)
T KOG2206|consen 192 PKVWICTLGELEALPEILDSVIEFAVDLEHH------SYRSFLGLTCLMQISTRT-EDFIIDT----------------- 247 (687)
T ss_pred CceeeechHHHHHHHHHHhhhhhhhhhcccc------chhhhcCceeEEEeeccc-hhheehh-----------------
Confidence 3456667778888888888889999998653 22222 23222 222111 1121111
Q ss_pred CCCCCCCCChhhHHHHHHHHHHHHHHhhccCCccEEEechHHHHHHHHh-cCcccccccCcccccccccccccccccccc
Q 000107 1566 GSSDKNVLTPEHQLEMIKQRWKRIGEIMEKRDVRKFTWNMKVQIQVLKH-AAVSIQRFGGLNLVGTSLGLENVGSSFLLL 1644 (2191)
Q Consensus 1566 ~~~~~~~~~~~~~~~~~~~~~~~L~~lLe~~~v~kv~hNlK~dl~vL~~-~gi~l~~~~~~~~~~~~~~~~~~~~~~~~~ 1644 (2191)
+ .+.+.+..|.+.|.+|++.||+|.+--|+.+|.+ +||-+
T Consensus 248 -------------~-~l~~~i~~l~e~fsdp~ivkvfhgaD~diiwlqrdfgiyv------------------------- 288 (687)
T KOG2206|consen 248 -------------F-KLRDHIGILNEVFSDPGIVKVFHGADTDIIWLQRDFGIYV------------------------- 288 (687)
T ss_pred -------------H-HHHHHHHHhhhhccCCCeEEEEecCccchhhhhccceEEE-------------------------
Confidence 0 0122334677889999999999999999999966 44433
Q ss_pred ccCCCCccchHHHHHHhcCCCCCCCCchhHHHHHHHhhChHHHHHhhccCchh-hhhHHHHhhhHHHHHHHHHHHHHHHH
Q 000107 1645 SPVHLKDGIDMCIVSWILWPDDERSSNPNLEKEVKKRLSSEAAAAANRSGRWK-NQMRRAAHNGCCRRVAQTRALCSVLW 1723 (2191)
Q Consensus 1645 ~~~~~~~~~Dt~lAawLL~P~~~~~~l~~L~~~~~~~l~~e~~~~~~~~g~~~-~~~~~~~~~ya~~Da~~t~~L~~~L~ 1723 (2191)
.+.|||..|+.+|.= ..+++.-|-+.++.... ...-+-+.|+ .++.+.+..||-+|+.+.+-+|..|.
T Consensus 289 -----vnLfdt~~a~r~L~~--~r~sL~~ll~~~~~v~~----nk~yqladwR~rpLp~~Mv~yar~dthyllyiyD~lr 357 (687)
T KOG2206|consen 289 -----VNLFDTIQASRLLGL--PRPSLAYLLECVCGVLT----NKKYQLADWRIRPLPEEMVRYAREDTHYLLYIYDVLR 357 (687)
T ss_pred -----EechhhHHHHHHhCC--CcccHHHHHHHHHhhhh----hhhhhhchhccccCcHHHHHHHhhcchhHHHHHHHHH
Confidence 246999999999973 34555444444433221 1112345565 45667788999999999999999998
Q ss_pred HHHHH
Q 000107 1724 KLLVS 1728 (2191)
Q Consensus 1724 ~~L~~ 1728 (2191)
..|..
T Consensus 358 ~el~~ 362 (687)
T KOG2206|consen 358 KELKR 362 (687)
T ss_pred HHHHH
Confidence 66654
No 260
>PRK06921 hypothetical protein; Provisional
Probab=93.43 E-value=0.33 Score=59.16 Aligned_cols=38 Identities=13% Similarity=0.220 Sum_probs=29.5
Q ss_pred cCCeEEEEcCCCCchhHHHHHHHHHHHHhc-CCEEEEEch
Q 000107 540 QRRNLVYCASTSAGKSFVAEILMLRRLIST-GKMALLVLP 578 (2191)
Q Consensus 540 ~gknlIi~APTGSGKTlvael~iL~~ll~~-g~kaL~I~P 578 (2191)
.+.++++.||||+|||..+ .+|...+... +..++|+..
T Consensus 116 ~~~~l~l~G~~G~GKThLa-~aia~~l~~~~g~~v~y~~~ 154 (266)
T PRK06921 116 RKNSIALLGQPGSGKTHLL-TAAANELMRKKGVPVLYFPF 154 (266)
T ss_pred CCCeEEEECCCCCcHHHHH-HHHHHHHhhhcCceEEEEEH
Confidence 4679999999999999876 4566666666 777777653
No 261
>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=93.37 E-value=0.46 Score=61.80 Aligned_cols=160 Identities=19% Similarity=0.202 Sum_probs=89.2
Q ss_pred CCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCe
Q 000107 521 GISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRH 600 (2191)
Q Consensus 521 Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~ 600 (2191)
|+..-++-=-+.+. ++..|.-+++.|+||+|||..+.-.+.......|..++|+.. -.-..++..++-... .|+.
T Consensus 176 gi~tG~~~LD~~~~--G~~~g~liviag~pg~GKT~~al~ia~~~a~~~g~~v~~fSl-Em~~~~l~~Rl~~~~--~~v~ 250 (421)
T TIGR03600 176 GLSTGLPKLDRLTN--GLVKGDLIVIGARPSMGKTTLALNIAENVALREGKPVLFFSL-EMSAEQLGERLLASK--SGIN 250 (421)
T ss_pred ceeCCChhHHHHhc--CCCCCceEEEEeCCCCCHHHHHHHHHHHHHHhCCCcEEEEEC-CCCHHHHHHHHHHHH--cCCC
Confidence 34333333334442 577899999999999999988876555544456778888762 122233333332211 1221
Q ss_pred EEEE-eccCCCCC---------CCCCCceEEE-----chHHHHHHHHHhhhcCCCCccceEEEcccccccc---cchhHH
Q 000107 601 VRSY-YGNQGGGS---------LPKDTSVAVC-----TIEKANSLVNRMLEEGRLSEIGIIVIDELHMVAD---QNRGYL 662 (2191)
Q Consensus 601 V~~~-~G~~~~~~---------l~~~~~IiV~-----TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d---~~RG~~ 662 (2191)
...+ .|...... ...+..+.|. |++.+...++++... ...+++||||=+|.+.. ..+...
T Consensus 251 ~~~~~~~~l~~~~~~~~~~~~~~l~~~~l~i~d~~~~t~~~i~~~~r~~~~~--~~~~~lvvIDyLql~~~~~~~~~~~~ 328 (421)
T TIGR03600 251 TGNIRTGRFNDSDFNRLLNAVDRLSEKDLYIDDTGGLTVAQIRSIARRIKRK--KGGLDLIVVDYIQLMAPTRGRDRNEE 328 (421)
T ss_pred HHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHh--cCCCCEEEEecccccCCCCCCCHHHH
Confidence 1111 11110000 0011234443 444555555543322 22589999999999864 235556
Q ss_pred HHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEecc
Q 000107 663 LELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSAT 708 (2191)
Q Consensus 663 lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSAT 708 (2191)
+..+...|+.++.+ .++.+|++|-.
T Consensus 329 ~~~i~~~Lk~lAke---------------------~~i~Vi~lsQl 353 (421)
T TIGR03600 329 LGGISRGLKALAKE---------------------LDVPVVLLAQL 353 (421)
T ss_pred HHHHHHHHHHHHHH---------------------hCCcEEEeccc
Confidence 77788888887653 56788888765
No 262
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=93.30 E-value=0.39 Score=59.02 Aligned_cols=86 Identities=22% Similarity=0.279 Sum_probs=50.7
Q ss_pred cCCeEEEEcCCCCchhHHHHHHHHHHHHhcC-CEEEEEc--hhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCCCC
Q 000107 540 QRRNLVYCASTSAGKSFVAEILMLRRLISTG-KMALLVL--PYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPKD 616 (2191)
Q Consensus 540 ~gknlIi~APTGSGKTlvael~iL~~ll~~g-~kaL~I~--P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~~~ 616 (2191)
.++.++++||||+|||+.....+.......| .++.+|. |++.-+.+....+.. .+|+.+.
T Consensus 193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~~r~~a~eql~~~~~---~~~~p~~-------------- 255 (282)
T TIGR03499 193 QGGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTDTYRIGAVEQLKTYAK---ILGVPVK-------------- 255 (282)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCccchhHHHHHHHHHH---HhCCcee--------------
Confidence 4678999999999999887655544333323 5555544 556555554444433 2333221
Q ss_pred CceEEEchHHHHHHHHHhhhcCCCCccceEEEccc
Q 000107 617 TSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDEL 651 (2191)
Q Consensus 617 ~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEa 651 (2191)
.+.++..+...+.+ +.+.++|+||.+
T Consensus 256 ---~~~~~~~l~~~l~~------~~~~d~vliDt~ 281 (282)
T TIGR03499 256 ---VARDPKELRKALDR------LRDKDLILIDTA 281 (282)
T ss_pred ---ccCCHHHHHHHHHH------ccCCCEEEEeCC
Confidence 12245555555543 345799999975
No 263
>PHA03368 DNA packaging terminase subunit 1; Provisional
Probab=93.27 E-value=0.54 Score=62.40 Aligned_cols=134 Identities=14% Similarity=0.177 Sum_probs=85.6
Q ss_pred cccCCeEEEEcCCCCchhHHHHHHHHHHHH--hcCCEEEEEchhHHHHHHHHHHHHHHhhcc--CCeEEEEeccCCCCCC
Q 000107 538 VLQRRNLVYCASTSAGKSFVAEILMLRRLI--STGKMALLVLPYVSICAEKAEHLEVLLEPL--GRHVRSYYGNQGGGSL 613 (2191)
Q Consensus 538 il~gknlIi~APTGSGKTlvael~iL~~ll--~~g~kaL~I~P~raLA~q~~~~l~~l~~~l--g~~V~~~~G~~~~~~l 613 (2191)
....+-.+++.|==.|||.+.. +++-.++ ..|.+++|++|.+..+...++++..+++.+ +..+....|..-.-.+
T Consensus 251 ~fkqk~tVflVPRR~GKTwivv-~iI~~ll~s~~Gi~IgytAH~~~ts~~vF~eI~~~le~~f~~~~v~~vkGe~I~i~f 329 (738)
T PHA03368 251 HFRQRATVFLVPRRHGKTWFLV-PLIALALATFRGIKIGYTAHIRKATEPVFEEIGARLRQWFGASRVDHVKGETISFSF 329 (738)
T ss_pred HhhccceEEEecccCCchhhHH-HHHHHHHHhCCCCEEEEEcCcHHHHHHHHHHHHHHHhhhcchhheeeecCcEEEEEe
Confidence 4567888999999999998776 4433333 269999999999999999999998877654 2223333331100011
Q ss_pred CCC--CceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCC
Q 000107 614 PKD--TSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSS 691 (2191)
Q Consensus 614 ~~~--~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~ 691 (2191)
..+ ..|.+++-. +. ...+=..++++||||++.|.+ ..+..++-.+ .
T Consensus 330 ~nG~kstI~FaSar------nt--NsiRGqtfDLLIVDEAqFIk~----~al~~ilp~l---~----------------- 377 (738)
T PHA03368 330 PDGSRSTIVFASSH------NT--NGIRGQDFNLLFVDEANFIRP----DAVQTIMGFL---N----------------- 377 (738)
T ss_pred cCCCccEEEEEecc------CC--CCccCCcccEEEEechhhCCH----HHHHHHHHHH---h-----------------
Confidence 212 256665321 00 112234789999999999865 3455555443 1
Q ss_pred CCCCCCCCceEEEEeccC
Q 000107 692 GKADPAHGLQIVGMSATM 709 (2191)
Q Consensus 692 ~~~~~~~~iqII~mSATL 709 (2191)
..+.++|.+|-|-
T Consensus 378 -----~~n~k~I~ISS~N 390 (738)
T PHA03368 378 -----QTNCKIIFVSSTN 390 (738)
T ss_pred -----ccCccEEEEecCC
Confidence 2467899999883
No 264
>PRK12377 putative replication protein; Provisional
Probab=93.26 E-value=0.57 Score=56.47 Aligned_cols=44 Identities=20% Similarity=0.402 Sum_probs=30.7
Q ss_pred CCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHH
Q 000107 541 RRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEK 586 (2191)
Q Consensus 541 gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~ 586 (2191)
..++++.||+|+|||..+ .+|.+.+...|..++|+ +...|..++
T Consensus 101 ~~~l~l~G~~GtGKThLa-~AIa~~l~~~g~~v~~i-~~~~l~~~l 144 (248)
T PRK12377 101 CTNFVFSGKPGTGKNHLA-AAIGNRLLAKGRSVIVV-TVPDVMSRL 144 (248)
T ss_pred CCeEEEECCCCCCHHHHH-HHHHHHHHHcCCCeEEE-EHHHHHHHH
Confidence 468999999999999876 45566666667777665 333444443
No 265
>COG3421 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=93.20 E-value=0.34 Score=62.39 Aligned_cols=111 Identities=16% Similarity=0.147 Sum_probs=61.6
Q ss_pred EEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHH------Hhhc---cCCeEEEEeccCCCCCCCCC
Q 000107 546 YCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEV------LLEP---LGRHVRSYYGNQGGGSLPKD 616 (2191)
Q Consensus 546 i~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~------l~~~---lg~~V~~~~G~~~~~~l~~~ 616 (2191)
..+.||||||++..-.||......-+..|+.|..-.+.......+.. ++.+ .+-.+..+-....-.....+
T Consensus 2 f~matgsgkt~~ma~lil~~y~kgyr~flffvnq~nilekt~~nftd~~s~kylf~e~i~~~d~~i~ikkvn~fsehnd~ 81 (812)
T COG3421 2 FEMATGSGKTLVMAGLILECYKKGYRNFLFFVNQANILEKTKLNFTDSVSSKYLFSENININDENIEIKKVNNFSEHNDA 81 (812)
T ss_pred cccccCCChhhHHHHHHHHHHHhchhhEEEEecchhHHHHHHhhcccchhhhHhhhhhhhcCCceeeeeeecccCccCCc
Confidence 35689999999988778876655555677777655544443332211 1110 00000000000000113345
Q ss_pred CceEEEchHHHHHHHHHhhhc----CCCCccceE-EEcccccccc
Q 000107 617 TSVAVCTIEKANSLVNRMLEE----GRLSEIGII-VIDELHMVAD 656 (2191)
Q Consensus 617 ~~IiV~TpEkl~~Ll~~l~~~----~~L~~l~lV-VIDEaH~l~d 656 (2191)
..|+++|+..+...+.+-.+. ..+.+..+| +-||+|++..
T Consensus 82 iei~fttiq~l~~d~~~~ken~itledl~~~klvfl~deahhln~ 126 (812)
T COG3421 82 IEIYFTTIQGLFSDFTRAKENAITLEDLKDQKLVFLADEAHHLNT 126 (812)
T ss_pred eEEEEeehHHHHHHHHhhccccccHhhHhhCceEEEechhhhhhh
Confidence 789999999987766542222 134555555 5699999874
No 266
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=93.20 E-value=1.9 Score=54.74 Aligned_cols=90 Identities=13% Similarity=0.104 Sum_probs=53.2
Q ss_pred CCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEc--hhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCCCCCc
Q 000107 541 RRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVL--PYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPKDTS 618 (2191)
Q Consensus 541 gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~--P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~~~~~ 618 (2191)
.+.+.+.||||+|||+.+...... +...|.++.++. |+|.-+.++.. .+....|+.+.
T Consensus 241 ~~vI~LVGptGvGKTTTiaKLA~~-L~~~GkkVglI~aDt~RiaAvEQLk---~yae~lgipv~---------------- 300 (436)
T PRK11889 241 VQTIALIGPTGVGKTTTLAKMAWQ-FHGKKKTVGFITTDHSRIGTVQQLQ---DYVKTIGFEVI---------------- 300 (436)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHH-HHHcCCcEEEEecCCcchHHHHHHH---HHhhhcCCcEE----------------
Confidence 468999999999999887655443 445566665554 56644444433 33222333321
Q ss_pred eEEEchHHHHHHHHHhhhcCCCCccceEEEcccccc
Q 000107 619 VAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMV 654 (2191)
Q Consensus 619 IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l 654 (2191)
.+.+|..+...+..+.. -.++++|+||-+=..
T Consensus 301 -v~~d~~~L~~aL~~lk~---~~~~DvVLIDTaGRs 332 (436)
T PRK11889 301 -AVRDEAAMTRALTYFKE---EARVDYILIDTAGKN 332 (436)
T ss_pred -ecCCHHHHHHHHHHHHh---ccCCCEEEEeCcccc
Confidence 22356666555544211 125799999988553
No 267
>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....
Probab=93.20 E-value=0.46 Score=50.62 Aligned_cols=18 Identities=22% Similarity=0.412 Sum_probs=15.2
Q ss_pred EEEEcCCCCchhHHHHHH
Q 000107 544 LVYCASTSAGKSFVAEIL 561 (2191)
Q Consensus 544 lIi~APTGSGKTlvael~ 561 (2191)
+++.||+|+|||..+...
T Consensus 1 ill~G~~G~GKT~l~~~l 18 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLARAL 18 (132)
T ss_dssp EEEESSTTSSHHHHHHHH
T ss_pred CEEECcCCCCeeHHHHHH
Confidence 689999999999887543
No 268
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.16 E-value=0.36 Score=62.80 Aligned_cols=19 Identities=26% Similarity=0.550 Sum_probs=16.5
Q ss_pred eEEEEcCCCCchhHHHHHH
Q 000107 543 NLVYCASTSAGKSFVAEIL 561 (2191)
Q Consensus 543 nlIi~APTGSGKTlvael~ 561 (2191)
.+|++||.|+|||.++-+.
T Consensus 42 a~Lf~GP~GtGKTTlAriL 60 (484)
T PRK14956 42 AYIFFGPRGVGKTTIARIL 60 (484)
T ss_pred EEEEECCCCCCHHHHHHHH
Confidence 4799999999999998654
No 269
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=93.13 E-value=0.39 Score=66.69 Aligned_cols=107 Identities=18% Similarity=0.124 Sum_probs=72.4
Q ss_pred CCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhc---CCEEEEEchhHHHHHHHHHHHHHHhhccCC
Q 000107 523 SKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIST---GKMALLVLPYVSICAEKAEHLEVLLEPLGR 599 (2191)
Q Consensus 523 ~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~---g~kaL~I~P~raLA~q~~~~l~~l~~~lg~ 599 (2191)
..|++-|.+++.. ...+++|.|..|||||.+..--+...+... ..++|+|..|+..|.++.+++.+++..
T Consensus 3 ~~Ln~~Q~~av~~----~~g~~lV~AgaGSGKT~~L~~Ria~Li~~~~v~p~~IL~lTFTnkAA~em~~Rl~~~~~~--- 75 (715)
T TIGR01075 3 DGLNDKQREAVAA----PPGNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRHRIGALLGT--- 75 (715)
T ss_pred cccCHHHHHHHcC----CCCCEEEEecCCCCHHHHHHHHHHHHHHcCCCCHHHeEeeeccHHHHHHHHHHHHHHhcc---
Confidence 4689999999864 356899999999999998765555444332 348999999999999999988876421
Q ss_pred eEEEEeccCCCCCCCCCCceEEEchHHHH-HHHHHhhhcCCCCccceEEEcccc
Q 000107 600 HVRSYYGNQGGGSLPKDTSVAVCTIEKAN-SLVNRMLEEGRLSEIGIIVIDELH 652 (2191)
Q Consensus 600 ~V~~~~G~~~~~~l~~~~~IiV~TpEkl~-~Ll~~l~~~~~L~~l~lVVIDEaH 652 (2191)
....+.|+|...+- .++++......+.. .+-|+|+.+
T Consensus 76 ---------------~~~~~~i~TfHs~~~~iLr~~~~~~g~~~-~f~i~d~~d 113 (715)
T TIGR01075 76 ---------------SARGMWIGTFHGLAHRLLRAHHLDAGLPQ-DFQILDSDD 113 (715)
T ss_pred ---------------cccCcEEEcHHHHHHHHHHHHHHHhCCCC-CCeecCHHH
Confidence 01257899988753 45554322111211 345667654
No 270
>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=93.13 E-value=0.46 Score=52.27 Aligned_cols=38 Identities=24% Similarity=0.263 Sum_probs=27.4
Q ss_pred EEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHH
Q 000107 544 LVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSI 582 (2191)
Q Consensus 544 lIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raL 582 (2191)
+++.||+|+|||..+...+.. +...+..++|+.....+
T Consensus 2 ~~i~G~~G~GKT~l~~~i~~~-~~~~~~~v~~~~~e~~~ 39 (165)
T cd01120 2 ILVFGPTGSGKTTLALQLALN-IATKGGKVVYVDIEEEI 39 (165)
T ss_pred eeEeCCCCCCHHHHHHHHHHH-HHhcCCEEEEEECCcch
Confidence 689999999999987654443 34467888888765443
No 271
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=93.09 E-value=1.1 Score=68.09 Aligned_cols=62 Identities=15% Similarity=0.194 Sum_probs=48.2
Q ss_pred CCCHHHHHhhhhccccc--CCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHH
Q 000107 524 KLYPWQVECLHVDGVLQ--RRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAE 588 (2191)
Q Consensus 524 ~l~p~Q~eal~~~~il~--gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~ 588 (2191)
.|++-|.+++.. ++. ++-.+|.++.|+|||.+.- .+++.+...|.+++.++|+-.-+....+
T Consensus 429 ~Ls~~Q~~Av~~--il~s~~~v~ii~G~aGTGKTt~l~-~l~~~~~~~G~~V~~lAPTgrAA~~L~e 492 (1960)
T TIGR02760 429 ALSPSNKDAVST--LFTSTKRFIIINGFGGTGSTEIAQ-LLLHLASEQGYEIQIITAGSLSAQELRQ 492 (1960)
T ss_pred CCCHHHHHHHHH--HHhCCCCeEEEEECCCCCHHHHHH-HHHHHHHhcCCeEEEEeCCHHHHHHHHH
Confidence 689999999986 554 4889999999999998743 3444455578899999999776655543
No 272
>PRK08727 hypothetical protein; Validated
Probab=93.09 E-value=0.5 Score=56.51 Aligned_cols=35 Identities=14% Similarity=0.167 Sum_probs=25.5
Q ss_pred CeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEc
Q 000107 542 RNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVL 577 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~ 577 (2191)
..++++||+|+|||..+. ++...+...+.+++|+.
T Consensus 42 ~~l~l~G~~G~GKThL~~-a~~~~~~~~~~~~~y~~ 76 (233)
T PRK08727 42 DWLYLSGPAGTGKTHLAL-ALCAAAEQAGRSSAYLP 76 (233)
T ss_pred CeEEEECCCCCCHHHHHH-HHHHHHHHcCCcEEEEe
Confidence 459999999999997654 34444555677777764
No 273
>PRK11054 helD DNA helicase IV; Provisional
Probab=93.02 E-value=0.27 Score=67.29 Aligned_cols=87 Identities=18% Similarity=0.135 Sum_probs=63.5
Q ss_pred CCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHh---cCCEEEEEchhHHHHHHHHHHHHHHhhccCC
Q 000107 523 SKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIS---TGKMALLVLPYVSICAEKAEHLEVLLEPLGR 599 (2191)
Q Consensus 523 ~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~---~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~ 599 (2191)
..|++-|.+|+.. ...+++|.|..|||||.+..--+...+.. .+.++|+++.++..|.++.+++...++
T Consensus 195 ~~L~~~Q~~av~~----~~~~~lV~agaGSGKT~vl~~r~ayLl~~~~~~~~~IL~ltft~~AA~em~eRL~~~lg---- 266 (684)
T PRK11054 195 SPLNPSQARAVVN----GEDSLLVLAGAGSGKTSVLVARAGWLLARGQAQPEQILLLAFGRQAAEEMDERIRERLG---- 266 (684)
T ss_pred CCCCHHHHHHHhC----CCCCeEEEEeCCCCHHHHHHHHHHHHHHhCCCCHHHeEEEeccHHHHHHHHHHHHHhcC----
Confidence 4799999999853 34578999999999999876544333332 245899999999999999988876531
Q ss_pred eEEEEeccCCCCCCCCCCceEEEchHHHH-HHHHH
Q 000107 600 HVRSYYGNQGGGSLPKDTSVAVCTIEKAN-SLVNR 633 (2191)
Q Consensus 600 ~V~~~~G~~~~~~l~~~~~IiV~TpEkl~-~Ll~~ 633 (2191)
...|.|.|...+- .+++.
T Consensus 267 ----------------~~~v~v~TFHSlal~Il~~ 285 (684)
T PRK11054 267 ----------------TEDITARTFHALALHIIQQ 285 (684)
T ss_pred ----------------CCCcEEEeHHHHHHHHHHH
Confidence 0258889987764 44554
No 274
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=92.97 E-value=0.17 Score=65.65 Aligned_cols=67 Identities=16% Similarity=0.197 Sum_probs=52.2
Q ss_pred CCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHH
Q 000107 523 SKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLE 591 (2191)
Q Consensus 523 ~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~ 591 (2191)
..+.+-|++|+.. ++....-.++.||+|+|||.+....|. .+...++++|+..|+..-+.-+.+++.
T Consensus 184 ~~ln~SQk~Av~~-~~~~k~l~~I~GPPGTGKT~TlvEiI~-qlvk~~k~VLVcaPSn~AVdNiverl~ 250 (649)
T KOG1803|consen 184 KNLNSSQKAAVSF-AINNKDLLIIHGPPGTGKTRTLVEIIS-QLVKQKKRVLVCAPSNVAVDNIVERLT 250 (649)
T ss_pred ccccHHHHHHHHH-HhccCCceEeeCCCCCCceeeHHHHHH-HHHHcCCeEEEEcCchHHHHHHHHHhc
Confidence 3678899999986 233346788999999999988655554 455578999999999998888877654
No 275
>PRK06893 DNA replication initiation factor; Validated
Probab=92.94 E-value=0.52 Score=56.20 Aligned_cols=36 Identities=14% Similarity=0.207 Sum_probs=25.6
Q ss_pred CCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEc
Q 000107 541 RRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVL 577 (2191)
Q Consensus 541 gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~ 577 (2191)
+..++++||+|+|||..+. ++.+.+...+.+++|+.
T Consensus 39 ~~~l~l~G~~G~GKThL~~-ai~~~~~~~~~~~~y~~ 74 (229)
T PRK06893 39 QPFFYIWGGKSSGKSHLLK-AVSNHYLLNQRTAIYIP 74 (229)
T ss_pred CCeEEEECCCCCCHHHHHH-HHHHHHHHcCCCeEEee
Confidence 3468999999999997764 44455555566777654
No 276
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=92.94 E-value=0.75 Score=58.65 Aligned_cols=114 Identities=16% Similarity=0.146 Sum_probs=64.4
Q ss_pred cccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCCC
Q 000107 536 DGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPK 615 (2191)
Q Consensus 536 ~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~~ 615 (2191)
.++..|.-+++.+++|+|||+.+...+. .+...+.+++|+.-..+ ..|+..+..+ +|+...
T Consensus 77 GGi~~GslvLI~G~pG~GKStLllq~a~-~~a~~g~~VlYvs~EEs-~~qi~~Ra~r----lg~~~~------------- 137 (372)
T cd01121 77 GGLVPGSVILIGGDPGIGKSTLLLQVAA-RLAKRGGKVLYVSGEES-PEQIKLRADR----LGISTE------------- 137 (372)
T ss_pred CCccCCeEEEEEeCCCCCHHHHHHHHHH-HHHhcCCeEEEEECCcC-HHHHHHHHHH----cCCCcc-------------
Confidence 3567789999999999999998766544 34445678999875433 2333333322 332110
Q ss_pred CCceEEEchHHHHHHHHHhhhcCCCCccceEEEccccccccc------chhHHHHHHHHHHHHhh
Q 000107 616 DTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQ------NRGYLLELLLTKLRYAA 674 (2191)
Q Consensus 616 ~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~------~RG~~lE~lL~kLr~~~ 674 (2191)
.+.+.....+..+++.. . -.+.++||||+++.+... +.-..+..++..|..+.
T Consensus 138 --~l~l~~e~~le~I~~~i-~---~~~~~lVVIDSIq~l~~~~~~~~~g~~~qvr~~~~~L~~la 196 (372)
T cd01121 138 --NLYLLAETNLEDILASI-E---ELKPDLVIIDSIQTVYSSELTSAPGSVSQVRECTAELMRFA 196 (372)
T ss_pred --cEEEEccCcHHHHHHHH-H---hcCCcEEEEcchHHhhccccccCCCCHHHHHHHHHHHHHHH
Confidence 12222222233343332 1 135789999999987422 12234555556555544
No 277
>PRK08116 hypothetical protein; Validated
Probab=92.93 E-value=1 Score=55.04 Aligned_cols=42 Identities=21% Similarity=0.389 Sum_probs=30.2
Q ss_pred CCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHH
Q 000107 541 RRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICA 584 (2191)
Q Consensus 541 gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~ 584 (2191)
+..+++.|++|+|||..+. ++.+.+...+..++|+. ...+..
T Consensus 114 ~~gl~l~G~~GtGKThLa~-aia~~l~~~~~~v~~~~-~~~ll~ 155 (268)
T PRK08116 114 NVGLLLWGSVGTGKTYLAA-CIANELIEKGVPVIFVN-FPQLLN 155 (268)
T ss_pred CceEEEECCCCCCHHHHHH-HHHHHHHHcCCeEEEEE-HHHHHH
Confidence 3459999999999998874 56777776677776664 334433
No 278
>PRK05748 replicative DNA helicase; Provisional
Probab=92.90 E-value=0.48 Score=62.12 Aligned_cols=147 Identities=16% Similarity=0.169 Sum_probs=84.5
Q ss_pred ccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCC---
Q 000107 537 GVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSL--- 613 (2191)
Q Consensus 537 ~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l--- 613 (2191)
++..|.-++|.|+||.|||..+.-.+.+.....|..++|+.. ..-..|+..++-.....+.... ...|......+
T Consensus 199 G~~~G~livIaarpg~GKT~~al~ia~~~a~~~g~~v~~fSl-Ems~~~l~~R~l~~~~~v~~~~-i~~~~l~~~e~~~~ 276 (448)
T PRK05748 199 GLQPNDLIIVAARPSVGKTAFALNIAQNVATKTDKNVAIFSL-EMGAESLVMRMLCAEGNIDAQR-LRTGQLTDDDWPKL 276 (448)
T ss_pred CCCCCceEEEEeCCCCCchHHHHHHHHHHHHhCCCeEEEEeC-CCCHHHHHHHHHHHhcCCCHHH-hhcCCCCHHHHHHH
Confidence 577889999999999999988876555544445777777642 2233444444422211111100 00111110000
Q ss_pred ------CCCCceEEE-----chHHHHHHHHHhhhcCCCCccceEEEccccccccc-----chhHHHHHHHHHHHHhhcCC
Q 000107 614 ------PKDTSVAVC-----TIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQ-----NRGYLLELLLTKLRYAAGEG 677 (2191)
Q Consensus 614 ------~~~~~IiV~-----TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~-----~RG~~lE~lL~kLr~~~~~~ 677 (2191)
..+..+.|. |++.+...++++.... .++++||||=+|.|... .|...+..+...|+.++.+
T Consensus 277 ~~a~~~l~~~~~~i~d~~~~ti~~i~~~~r~~~~~~--~~~~~vvIDyL~li~~~~~~~~~r~~~i~~i~~~LK~lAke- 353 (448)
T PRK05748 277 TIAMGSLSDAPIYIDDTPGIKVTEIRARCRRLAQEH--GGLGLILIDYLQLIQGSGRSGENRQQEVSEISRSLKALAKE- 353 (448)
T ss_pred HHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhc--CCCCEEEEccchhcCCCCCCCcCHHHHHHHHHHHHHHHHHH-
Confidence 012234443 4555555555543321 26899999999998522 2445577788888887653
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCceEEEEecc
Q 000107 678 TSDSSSGENSGTSSGKADPAHGLQIVGMSAT 708 (2191)
Q Consensus 678 ~~~s~~~~~~~~~~~~~~~~~~iqII~mSAT 708 (2191)
.++.+|++|-.
T Consensus 354 --------------------~~i~vi~lsQl 364 (448)
T PRK05748 354 --------------------LKVPVIALSQL 364 (448)
T ss_pred --------------------hCCeEEEeccc
Confidence 56788888776
No 279
>COG1444 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]
Probab=92.82 E-value=0.96 Score=61.39 Aligned_cols=130 Identities=21% Similarity=0.201 Sum_probs=81.8
Q ss_pred CCCCcHHHHHHHHHcCCCCCCHHHHHhhhhc-cccc--CCeEEEEcCCCCchhHHHHHHHHHHHHhcC--CEEEEEchhH
Q 000107 506 SSWLPSEICSIYKKRGISKLYPWQVECLHVD-GVLQ--RRNLVYCASTSAGKSFVAEILMLRRLISTG--KMALLVLPYV 580 (2191)
Q Consensus 506 ~~~Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~-~il~--gknlIi~APTGSGKTlvael~iL~~ll~~g--~kaL~I~P~r 580 (2191)
.+..|.++.+. ..+.-|.+++... .+++ .+-+++.|.=|=|||.+.-+++. .+...+ ..+++++|+.
T Consensus 200 ~~~~~~~l~~l-------~~T~dQ~~~l~~~~~l~~~~~~~~vlTAdRGRGKSA~lGi~~~-~~~~~~~~~~iiVTAP~~ 271 (758)
T COG1444 200 DPVFPRELYEL-------CLTEDQAEALEILERLLDAPKRALVLTADRGRGKSAALGIALA-AAARLAGSVRIIVTAPTP 271 (758)
T ss_pred CCCCCHHHhhh-------hcChhHHHHHHHHHHHHcCCCceEEEEcCCCCcHhHHHhHHHH-HHHHhcCCceEEEeCCCH
Confidence 33355554443 2455566655431 1332 35899999999999999887773 333333 4899999999
Q ss_pred HHHHHHHHHHHHHhhccCCeEEEEeccCCC--CCCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEccccccc
Q 000107 581 SICAEKAEHLEVLLEPLGRHVRSYYGNQGG--GSLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVA 655 (2191)
Q Consensus 581 aLA~q~~~~l~~l~~~lg~~V~~~~G~~~~--~~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~ 655 (2191)
+-++..++-+.+-+..+|.+-.+.....+. ....+...|-+-+|.... ..-++||||||=.|.
T Consensus 272 ~nv~~Lf~fa~~~l~~lg~~~~v~~d~~g~~~~~~~~~~~i~y~~P~~a~------------~~~DllvVDEAAaIp 336 (758)
T COG1444 272 ANVQTLFEFAGKGLEFLGYKRKVAPDALGEIREVSGDGFRIEYVPPDDAQ------------EEADLLVVDEAAAIP 336 (758)
T ss_pred HHHHHHHHHHHHhHHHhCCccccccccccceeeecCCceeEEeeCcchhc------------ccCCEEEEehhhcCC
Confidence 999999888777777777653222211111 111233456777776532 115899999998875
No 280
>PRK08760 replicative DNA helicase; Provisional
Probab=92.81 E-value=0.42 Score=62.92 Aligned_cols=146 Identities=19% Similarity=0.191 Sum_probs=84.7
Q ss_pred ccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCC----
Q 000107 537 GVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGS---- 612 (2191)
Q Consensus 537 ~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~---- 612 (2191)
++..|.-++|.|.||.|||..+.-.+.......+..++|...- .-..|+..++......+...- ...|......
T Consensus 225 G~~~G~LivIaarPg~GKTafal~iA~~~a~~~g~~V~~fSlE-Ms~~ql~~Rl~a~~s~i~~~~-i~~g~l~~~e~~~~ 302 (476)
T PRK08760 225 GLQPTDLIILAARPAMGKTTFALNIAEYAAIKSKKGVAVFSME-MSASQLAMRLISSNGRINAQR-LRTGALEDEDWARV 302 (476)
T ss_pred CCCCCceEEEEeCCCCChhHHHHHHHHHHHHhcCCceEEEecc-CCHHHHHHHHHHhhCCCcHHH-HhcCCCCHHHHHHH
Confidence 5677889999999999999888765554444457777776532 223444444433222111100 0011111000
Q ss_pred -----CCCCCceEEE-----chHHHHHHHHHhhhcCCCCccceEEEcccccccc----cchhHHHHHHHHHHHHhhcCCC
Q 000107 613 -----LPKDTSVAVC-----TIEKANSLVNRMLEEGRLSEIGIIVIDELHMVAD----QNRGYLLELLLTKLRYAAGEGT 678 (2191)
Q Consensus 613 -----l~~~~~IiV~-----TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d----~~RG~~lE~lL~kLr~~~~~~~ 678 (2191)
.-.+..+.|. |++.+...++++... ..+++||||=++.|.. ..|...+..+...|+.++.+
T Consensus 303 ~~a~~~l~~~~l~I~d~~~~t~~~I~~~~r~l~~~---~~~~lVvIDyLql~~~~~~~~~r~~ei~~Isr~LK~lAke-- 377 (476)
T PRK08760 303 TGAIKMLKETKIFIDDTPGVSPEVLRSKCRRLKRE---HDLGLIVIDYLQLMSVPGNSENRATEISEISRSLKGLAKE-- 377 (476)
T ss_pred HHHHHHHhcCCEEEeCCCCCCHHHHHHHHHHHHHh---cCCCEEEEecHHhcCCCCCCcccHHHHHHHHHHHHHHHHH--
Confidence 0011234443 556665566655432 3589999999999852 23556677788888888753
Q ss_pred CCCCCCCCCCCCCCCCCCCCCceEEEEecc
Q 000107 679 SDSSSGENSGTSSGKADPAHGLQIVGMSAT 708 (2191)
Q Consensus 679 ~~s~~~~~~~~~~~~~~~~~~iqII~mSAT 708 (2191)
.++.||++|-.
T Consensus 378 -------------------l~ipVi~lsQL 388 (476)
T PRK08760 378 -------------------LNVPVIALSQL 388 (476)
T ss_pred -------------------hCCEEEEeecc
Confidence 56888888754
No 281
>TIGR01547 phage_term_2 phage terminase, large subunit, PBSX family. This model detects members of a highly divergent family of the large subunit of phage terminase. All members are encoded by phage genomes or within prophage regions of bacterial genomes. This is a distinct family from pfam03354.
Probab=92.78 E-value=0.54 Score=60.66 Aligned_cols=118 Identities=17% Similarity=0.174 Sum_probs=77.4
Q ss_pred eEEEEcCCCCchhHHHHHHHHHHHHh--cCCEEEEEchhHH-HHHHHHHHHHHHhhccCCeEEEEeccCC-CCCCCC-CC
Q 000107 543 NLVYCASTSAGKSFVAEILMLRRLIS--TGKMALLVLPYVS-ICAEKAEHLEVLLEPLGRHVRSYYGNQG-GGSLPK-DT 617 (2191)
Q Consensus 543 nlIi~APTGSGKTlvael~iL~~ll~--~g~kaL~I~P~ra-LA~q~~~~l~~l~~~lg~~V~~~~G~~~-~~~l~~-~~ 617 (2191)
-.++.|..|||||.+..+.++..+.. .+.+++++-|+.. |...++..+...+..+|+....-..... .-.... +.
T Consensus 3 ~~i~~GgrgSGKS~~~~~~~~~~~~~~~~~~~~~~~r~~~~sl~~sv~~~l~~~i~~~g~~~~~~~~~~~~~i~~~~~g~ 82 (396)
T TIGR01547 3 EIIAKGGRRSGKTFAIALKLVEKLAINKKQQNILAARKVQNSIRDSVFKDIENLLSIEGINYEFKKSKSSMEIKILNTGK 82 (396)
T ss_pred eEEEeCCCCcccHHHHHHHHHHHHHhcCCCcEEEEEehhhhHHHHHHHHHHHHHHHHcCChhheeecCCccEEEecCCCe
Confidence 46889999999999999888887777 6788999988876 6667778888777777654221111110 001222 44
Q ss_pred ceEEEch-HHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHH
Q 000107 618 SVAVCTI-EKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLR 671 (2191)
Q Consensus 618 ~IiV~Tp-Ekl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr 671 (2191)
.|++..- +....+. ....++++.+||+..+.. ..++.++.++|
T Consensus 83 ~i~f~g~~d~~~~ik-------~~~~~~~~~idEa~~~~~----~~~~~l~~rlr 126 (396)
T TIGR01547 83 KFIFKGLNDKPNKLK-------SGAGIAIIWFEEASQLTF----EDIKELIPRLR 126 (396)
T ss_pred EEEeecccCChhHhh-------CcceeeeehhhhhhhcCH----HHHHHHHHHhh
Confidence 5666554 3322211 233469999999999843 36777777764
No 282
>PRK04328 hypothetical protein; Provisional
Probab=92.69 E-value=0.37 Score=58.15 Aligned_cols=40 Identities=20% Similarity=0.405 Sum_probs=32.7
Q ss_pred ccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEc
Q 000107 537 GVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVL 577 (2191)
Q Consensus 537 ~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~ 577 (2191)
++-.|..+++.+|+|+|||+.+...+.+.+ ..|.+++|+.
T Consensus 19 Gip~gs~ili~G~pGsGKT~l~~~fl~~~~-~~ge~~lyis 58 (249)
T PRK04328 19 GIPERNVVLLSGGPGTGKSIFSQQFLWNGL-QMGEPGVYVA 58 (249)
T ss_pred CCcCCcEEEEEcCCCCCHHHHHHHHHHHHH-hcCCcEEEEE
Confidence 456789999999999999998877776654 4588888886
No 283
>PRK05636 replicative DNA helicase; Provisional
Probab=92.68 E-value=1.3 Score=58.69 Aligned_cols=145 Identities=17% Similarity=0.187 Sum_probs=79.8
Q ss_pred ccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEE-eccCCCCC---
Q 000107 537 GVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSY-YGNQGGGS--- 612 (2191)
Q Consensus 537 ~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~-~G~~~~~~--- 612 (2191)
++..|.-+++.|.||.|||..++-.+.......+..++|... ..-..|+..++-.... ++....+ .|......
T Consensus 261 Gl~~G~Liiiaarpg~GKT~~al~~a~~~a~~~g~~v~~fSl-EMs~~ql~~R~ls~~s--~v~~~~i~~g~l~~~e~~~ 337 (505)
T PRK05636 261 GLRGGQMIIVAARPGVGKSTLALDFMRSASIKHNKASVIFSL-EMSKSEIVMRLLSAEA--EVRLSDMRGGKMDEDAWEK 337 (505)
T ss_pred CCCCCceEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEEe-eCCHHHHHHHHHHHhc--CCCHHHHhcCCCCHHHHHH
Confidence 466788889999999999988765544444445677776632 1222333333211111 1111000 11111000
Q ss_pred ------CCCCCceEEE-----chHHHHHHHHHhhhcCCCCccceEEEccccccccc----chhHHHHHHHHHHHHhhcCC
Q 000107 613 ------LPKDTSVAVC-----TIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQ----NRGYLLELLLTKLRYAAGEG 677 (2191)
Q Consensus 613 ------l~~~~~IiV~-----TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~----~RG~~lE~lL~kLr~~~~~~ 677 (2191)
.-.+..+.|. |...+...++++... ..+++||||=+|.|... .|...+..+...|+.++.+
T Consensus 338 ~~~a~~~l~~~~l~I~d~~~~ti~~I~~~~r~~~~~---~~~~lvvIDYLql~~~~~~~~~r~~ei~~isr~LK~lAke- 413 (505)
T PRK05636 338 LVQRLGKIAQAPIFIDDSANLTMMEIRSKARRLKQK---HDLKLIVVDYLQLMSSGKRVESRQQEVSEFSRQLKLLAKE- 413 (505)
T ss_pred HHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHh---cCCCEEEEcchHhcCCCCCCCcHHHHHHHHHHHHHHHHHH-
Confidence 0012234442 444444445554332 35899999999999632 2445677788888888753
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCceEEEEecc
Q 000107 678 TSDSSSGENSGTSSGKADPAHGLQIVGMSAT 708 (2191)
Q Consensus 678 ~~~s~~~~~~~~~~~~~~~~~~iqII~mSAT 708 (2191)
.++.||++|--
T Consensus 414 --------------------l~ipVi~lsQL 424 (505)
T PRK05636 414 --------------------LDVPLIAISQL 424 (505)
T ss_pred --------------------hCCeEEEEeec
Confidence 56888888743
No 284
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=92.61 E-value=0.99 Score=59.14 Aligned_cols=92 Identities=11% Similarity=0.170 Sum_probs=54.1
Q ss_pred CeEEEEcCCCCchhHHHHHHHHHHHHh--cCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCCCCCce
Q 000107 542 RNLVYCASTSAGKSFVAEILMLRRLIS--TGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPKDTSV 619 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael~iL~~ll~--~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~~~~~I 619 (2191)
..+++.|++|+|||... .++.+.+.. .+.+++|+.+ ..+..+....+... .
T Consensus 142 npl~i~G~~G~GKTHLl-~Ai~~~l~~~~~~~~v~yv~~-~~f~~~~~~~l~~~----------------------~--- 194 (450)
T PRK14087 142 NPLFIYGESGMGKTHLL-KAAKNYIESNFSDLKVSYMSG-DEFARKAVDILQKT----------------------H--- 194 (450)
T ss_pred CceEEECCCCCcHHHHH-HHHHHHHHHhCCCCeEEEEEH-HHHHHHHHHHHHHh----------------------h---
Confidence 46999999999999665 455555543 4667887765 34444444333210 0
Q ss_pred EEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHh
Q 000107 620 AVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYA 673 (2191)
Q Consensus 620 iV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~ 673 (2191)
+.+..+.+ .+.+++++||||+|.+.. .....+.+...+...
T Consensus 195 -----~~~~~~~~------~~~~~dvLiIDDiq~l~~--k~~~~e~lf~l~N~~ 235 (450)
T PRK14087 195 -----KEIEQFKN------EICQNDVLIIDDVQFLSY--KEKTNEIFFTIFNNF 235 (450)
T ss_pred -----hHHHHHHH------HhccCCEEEEeccccccC--CHHHHHHHHHHHHHH
Confidence 11222222 244678999999999864 233445555555443
No 285
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=92.58 E-value=0.51 Score=64.05 Aligned_cols=122 Identities=19% Similarity=0.178 Sum_probs=79.4
Q ss_pred CCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEE
Q 000107 523 SKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVR 602 (2191)
Q Consensus 523 ~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~ 602 (2191)
..|+.-|++|+-. .+....-.+|.|=+|+|||++.. .+++.+...|+++|+++=|-+.+.-+.-.+... ++.+.
T Consensus 668 ~~LN~dQr~A~~k-~L~aedy~LI~GMPGTGKTTtI~-~LIkiL~~~gkkVLLtsyThsAVDNILiKL~~~----~i~~l 741 (1100)
T KOG1805|consen 668 LRLNNDQRQALLK-ALAAEDYALILGMPGTGKTTTIS-LLIKILVALGKKVLLTSYTHSAVDNILIKLKGF----GIYIL 741 (1100)
T ss_pred hhcCHHHHHHHHH-HHhccchheeecCCCCCchhhHH-HHHHHHHHcCCeEEEEehhhHHHHHHHHHHhcc----Cccee
Confidence 5799999999975 34456678889999999998754 345666678999999999988877776655442 32221
Q ss_pred EEeccCCC----------------C------CCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEccccccccc
Q 000107 603 SYYGNQGG----------------G------SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQ 657 (2191)
Q Consensus 603 ~~~G~~~~----------------~------~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~ 657 (2191)
. .|.... . ..-..+.|+.||-=-++..+- ..+.++++||||+-.|..+
T Consensus 742 R-LG~~~kih~~v~e~~~~~~~s~ks~~~l~~~~~~~~IVa~TClgi~~plf------~~R~FD~cIiDEASQI~lP 811 (1100)
T KOG1805|consen 742 R-LGSEEKIHPDVEEFTLTNETSEKSYADLKKFLDQTSIVACTCLGINHPLF------VNRQFDYCIIDEASQILLP 811 (1100)
T ss_pred e-cCCccccchHHHHHhcccccchhhHHHHHHHhCCCcEEEEEccCCCchhh------hccccCEEEEccccccccc
Confidence 1 121100 0 012346788888433332221 1245899999999987654
No 286
>PRK06063 DNA polymerase III subunit epsilon; Provisional
Probab=92.52 E-value=1.8 Score=54.14 Aligned_cols=96 Identities=5% Similarity=-0.047 Sum_probs=61.2
Q ss_pred HHHHHHHHHhhccCCccEEEechHHHHHHHHhc----CcccccccCccccccccccccccccccccccCCCCccchHHHH
Q 000107 1583 KQRWKRIGEIMEKRDVRKFTWNMKVQIQVLKHA----AVSIQRFGGLNLVGTSLGLENVGSSFLLLSPVHLKDGIDMCIV 1658 (2191)
Q Consensus 1583 ~~~~~~L~~lLe~~~v~kv~hNlK~dl~vL~~~----gi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~lA 1658 (2191)
.+.+..+..++.+ ...|+||+.||+.+|.+. |+..+ ...++||+-.
T Consensus 82 ~ev~~~l~~~l~~--~~lVaHNa~FD~~fL~~~~~r~g~~~~----------------------------~~~~ldTl~l 131 (313)
T PRK06063 82 ADIAGEVAELLRG--RTLVAHNVAFDYSFLAAEAERAGAELP----------------------------VDQVMCTVEL 131 (313)
T ss_pred HHHHHHHHHHcCC--CEEEEeCHHHHHHHHHHHHHHcCCCCC----------------------------CCCEEehHHH
Confidence 4566778888854 578999999999988652 22111 1135899977
Q ss_pred HHhcCCCCCCCCchhHHHHHHHhhChHHHHHhhccCchhhhhHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Q 000107 1659 SWILWPDDERSSNPNLEKEVKKRLSSEAAAAANRSGRWKNQMRRAAHNGCCRRVAQTRALCSVLWKLLVS 1728 (2191)
Q Consensus 1659 awLL~P~~~~~~l~~L~~~~~~~l~~e~~~~~~~~g~~~~~~~~~~~~ya~~Da~~t~~L~~~L~~~L~~ 1728 (2191)
+..+.|....+.|.+| + ++++.+. ...+.|..|+.+|..++..+.+.+..
T Consensus 132 ar~~~~~~~~~kL~~l---~-~~~gi~~----------------~~~H~Al~DA~ata~l~~~ll~~~~~ 181 (313)
T PRK06063 132 ARRLGLGLPNLRLETL---A-AHWGVPQ----------------QRPHDALDDARVLAGILRPSLERARE 181 (313)
T ss_pred HHHhccCCCCCCHHHH---H-HHcCCCC----------------CCCCCcHHHHHHHHHHHHHHHHHHHh
Confidence 7667766566665443 3 2333321 11245678999998888777766543
No 287
>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family. This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.
Probab=92.49 E-value=0.24 Score=60.17 Aligned_cols=41 Identities=20% Similarity=0.297 Sum_probs=33.8
Q ss_pred cccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEc
Q 000107 536 DGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVL 577 (2191)
Q Consensus 536 ~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~ 577 (2191)
.++..|.-++|+||+|+|||..+...+.+.+. .|.+++|+.
T Consensus 31 GGip~gs~~lI~G~pGtGKT~l~~qf~~~~a~-~Ge~vlyis 71 (259)
T TIGR03878 31 GGIPAYSVINITGVSDTGKSLMVEQFAVTQAS-RGNPVLFVT 71 (259)
T ss_pred CCeECCcEEEEEcCCCCCHHHHHHHHHHHHHh-CCCcEEEEE
Confidence 46778899999999999999988877666544 588899987
No 288
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=92.47 E-value=0.43 Score=64.27 Aligned_cols=44 Identities=20% Similarity=0.248 Sum_probs=29.9
Q ss_pred CCCHHHHHhhhh--cccccCCeEEEEcCCCCchhHHHH---HHHHHHHH
Q 000107 524 KLYPWQVECLHV--DGVLQRRNLVYCASTSAGKSFVAE---ILMLRRLI 567 (2191)
Q Consensus 524 ~l~p~Q~eal~~--~~il~gknlIi~APTGSGKTlvae---l~iL~~ll 567 (2191)
+||+.|..-+.. ..+....|.++-.|||+|||+..+ ++..++..
T Consensus 21 qpY~~Q~a~M~rvl~~L~~~q~~llESPTGTGKSLsLLCS~LAW~q~~k 69 (945)
T KOG1132|consen 21 QPYPTQLAFMTRVLSCLDRKQNGLLESPTGTGKSLSLLCSTLAWQQHLK 69 (945)
T ss_pred CcchHHHHHHHHHHHHHHHhhhhhccCCCCCCccHHHHHHHHHHHHHhh
Confidence 678888765543 113356889999999999996544 44444443
No 289
>TIGR00665 DnaB replicative DNA helicase. This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.
Probab=92.46 E-value=0.56 Score=61.33 Aligned_cols=144 Identities=19% Similarity=0.228 Sum_probs=81.8
Q ss_pred ccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEE-eccCCCC----
Q 000107 537 GVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSY-YGNQGGG---- 611 (2191)
Q Consensus 537 ~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~-~G~~~~~---- 611 (2191)
++..|.-++|.|+||+|||..+.-.+.+.....|..++|+..- .-..++..++-.... ++....+ .|.....
T Consensus 191 G~~~G~l~vi~g~pg~GKT~~~l~~a~~~a~~~g~~vl~~SlE-m~~~~i~~R~~~~~~--~v~~~~~~~g~l~~~~~~~ 267 (434)
T TIGR00665 191 GLQPSDLIILAARPSMGKTAFALNIAENAAIKEGKPVAFFSLE-MSAEQLAMRMLSSES--RVDSQKLRTGKLSDEDWEK 267 (434)
T ss_pred CCCCCeEEEEEeCCCCChHHHHHHHHHHHHHhCCCeEEEEeCc-CCHHHHHHHHHHHhc--CCCHHHhccCCCCHHHHHH
Confidence 5777899999999999999887766655454457778777532 222333333322221 1111000 1111000
Q ss_pred ------CCCCCCceEE-----EchHHHHHHHHHhhhcCCCCccceEEEccccccccc----chhHHHHHHHHHHHHhhcC
Q 000107 612 ------SLPKDTSVAV-----CTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQ----NRGYLLELLLTKLRYAAGE 676 (2191)
Q Consensus 612 ------~l~~~~~IiV-----~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~----~RG~~lE~lL~kLr~~~~~ 676 (2191)
.+. +..+.| .|++.+...++++... ..+++||||=++.+... .|...+..+...|+.++.+
T Consensus 268 ~~~a~~~l~-~~~l~i~d~~~~~~~~i~~~i~~~~~~---~~~~~vvID~l~~i~~~~~~~~r~~~i~~i~~~Lk~lA~e 343 (434)
T TIGR00665 268 LTSAAGKLS-EAPLYIDDTPGLTITELRAKARRLKRE---HGLGLIVIDYLQLMSGSGRSENRQQEVSEISRSLKALAKE 343 (434)
T ss_pred HHHHHHHHh-cCCEEEECCCCCCHHHHHHHHHHHHHh---cCCCEEEEcchHhcCCCCCCCCHHHHHHHHHHHHHHHHHH
Confidence 011 123444 2455555555554332 24799999999998532 2444566777788877643
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCceEEEEecc
Q 000107 677 GTSDSSSGENSGTSSGKADPAHGLQIVGMSAT 708 (2191)
Q Consensus 677 ~~~~s~~~~~~~~~~~~~~~~~~iqII~mSAT 708 (2191)
.++.+|++|-.
T Consensus 344 ---------------------~~i~vi~lsql 354 (434)
T TIGR00665 344 ---------------------LNVPVIALSQL 354 (434)
T ss_pred ---------------------hCCeEEEEecc
Confidence 56778888765
No 290
>PRK06904 replicative DNA helicase; Validated
Probab=92.46 E-value=0.81 Score=60.26 Aligned_cols=146 Identities=18% Similarity=0.181 Sum_probs=84.9
Q ss_pred ccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEE-ec-cCCCC---
Q 000107 537 GVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSY-YG-NQGGG--- 611 (2191)
Q Consensus 537 ~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~-~G-~~~~~--- 611 (2191)
++..|.-+|+.|.||.|||..++-.+.......+..++|+.. ..-..|+..++-..... +....+ .| .....
T Consensus 217 Gl~~G~LiiIaarPg~GKTafalnia~~~a~~~g~~Vl~fSl-EMs~~ql~~Rlla~~s~--v~~~~i~~g~~l~~~e~~ 293 (472)
T PRK06904 217 GLQPSDLIIVAARPSMGKTTFAMNLCENAAMASEKPVLVFSL-EMPAEQIMMRMLASLSR--VDQTKIRTGQNLDQQDWA 293 (472)
T ss_pred ccCCCcEEEEEeCCCCChHHHHHHHHHHHHHhcCCeEEEEec-cCCHHHHHHHHHHhhCC--CCHHHhccCCCCCHHHHH
Confidence 577888999999999999987754443333345777777653 23344555444332221 111111 12 11100
Q ss_pred -------CCCCCCceEE-----EchHHHHHHHHHhhhcCCCCccceEEEccccccccc----chhHHHHHHHHHHHHhhc
Q 000107 612 -------SLPKDTSVAV-----CTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQ----NRGYLLELLLTKLRYAAG 675 (2191)
Q Consensus 612 -------~l~~~~~IiV-----~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~----~RG~~lE~lL~kLr~~~~ 675 (2191)
.+.....+.| .|+..+...++++... -..+++||||=+++|... .|...+..+...|+.++.
T Consensus 294 ~~~~a~~~l~~~~~l~I~d~~~~t~~~i~~~~r~~~~~--~~~~~lvvIDYLqli~~~~~~~~r~~ei~~isr~LK~lAk 371 (472)
T PRK06904 294 KISSTVGMFKQKPNLYIDDSSGLTPTELRSRARRVYRE--NGGLSLIMVDYLQLMRAPGFEDNRTLEIAEISRSLKALAK 371 (472)
T ss_pred HHHHHHHHHhcCCCEEEECCCCCCHHHHHHHHHHHHHh--CCCCCEEEEecHHhcCCCCCCCcHHHHHHHHHHHHHHHHH
Confidence 1112233555 3555555555554321 235899999999998632 355667788888888875
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCceEEEEecc
Q 000107 676 EGTSDSSSGENSGTSSGKADPAHGLQIVGMSAT 708 (2191)
Q Consensus 676 ~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSAT 708 (2191)
+ .++.||++|--
T Consensus 372 e---------------------l~ipVi~lsQL 383 (472)
T PRK06904 372 E---------------------LKVPVVALSQL 383 (472)
T ss_pred H---------------------hCCeEEEEEec
Confidence 3 57889998844
No 291
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=92.45 E-value=0.53 Score=63.12 Aligned_cols=56 Identities=21% Similarity=0.253 Sum_probs=44.8
Q ss_pred CCceEEEecccccccCCCCCceEEeecCCCCCcccCcccccccccccCCCCCCCceEEEE
Q 000107 868 GLVRVLTATSTLAAGVNLPARRVIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGESML 927 (2191)
Q Consensus 868 G~ikVLVATstLa~GVNLPav~VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge~il 927 (2191)
.-++.|++-.+|-.|.|=|+|-.|+..-..+ |..+=+|-+||.-|-..+..|+=+.
T Consensus 482 ~plRFIFS~waLrEGWDNPNVFtIckL~~S~----SeiSK~QeVGRGLRLaVNe~G~RV~ 537 (985)
T COG3587 482 EPLRFIFSKWALREGWDNPNVFTICKLRSSG----SEISKLQEVGRGLRLAVNENGERVT 537 (985)
T ss_pred CcceeeeehhHHhhcCCCCCeeEEEEecCCC----cchHHHHHhccceeeeeccccceec
Confidence 4579999999999999999999997544433 5556789999999988777776544
No 292
>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins. TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].
Probab=92.43 E-value=0.36 Score=59.00 Aligned_cols=110 Identities=19% Similarity=0.229 Sum_probs=60.5
Q ss_pred CeEEEEcCCCCchhHHHHHHHHHHHHh--cC---CEEEE-EchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCCC
Q 000107 542 RNLVYCASTSAGKSFVAEILMLRRLIS--TG---KMALL-VLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPK 615 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael~iL~~ll~--~g---~kaL~-I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~~ 615 (2191)
.|+++.|+|+.|||.+..-..-.+-.. .+ ..+|+ -.|...-....+..+ +..+|..+. .
T Consensus 62 p~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~I---L~~lgaP~~----~-------- 126 (302)
T PF05621_consen 62 PNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAI---LEALGAPYR----P-------- 126 (302)
T ss_pred CceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHH---HHHhCcccC----C--------
Confidence 699999999999998765443222111 11 12333 345554444444333 333333221 0
Q ss_pred CCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHhhc
Q 000107 616 DTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAAG 675 (2191)
Q Consensus 616 ~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~ 675 (2191)
.. +..++...+.+++. --.+.++||||+|.+... ....-..++..||++..
T Consensus 127 ~~-----~~~~~~~~~~~llr---~~~vrmLIIDE~H~lLaG-s~~~qr~~Ln~LK~L~N 177 (302)
T PF05621_consen 127 RD-----RVAKLEQQVLRLLR---RLGVRMLIIDEFHNLLAG-SYRKQREFLNALKFLGN 177 (302)
T ss_pred CC-----CHHHHHHHHHHHHH---HcCCcEEEeechHHHhcc-cHHHHHHHHHHHHHHhh
Confidence 00 22222222222222 235789999999998764 45556778888888853
No 293
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=92.30 E-value=0.28 Score=67.34 Aligned_cols=89 Identities=15% Similarity=0.141 Sum_probs=64.7
Q ss_pred CCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhc---CCEEEEEchhHHHHHHHHHHHHHHhhccCCe
Q 000107 524 KLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIST---GKMALLVLPYVSICAEKAEHLEVLLEPLGRH 600 (2191)
Q Consensus 524 ~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~---g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~ 600 (2191)
.|++-|.+|+.. ....++|.|..|||||.+..--+...+... ..++|+|..|+..|.++.+++..++...
T Consensus 2 ~Ln~~Q~~av~~----~~g~~lV~AgpGSGKT~vL~~Ria~Li~~~~v~p~~IL~lTFT~kAA~em~~Rl~~~l~~~--- 74 (672)
T PRK10919 2 RLNPGQQQAVEF----VTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQTLGRK--- 74 (672)
T ss_pred CCCHHHHHHHhC----CCCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeeeEechHHHHHHHHHHHHHHhCcc---
Confidence 488999999864 356788999999999999766665555432 3479999999999999998887764310
Q ss_pred EEEEeccCCCCCCCCCCceEEEchHHHH-HHHHH
Q 000107 601 VRSYYGNQGGGSLPKDTSVAVCTIEKAN-SLVNR 633 (2191)
Q Consensus 601 V~~~~G~~~~~~l~~~~~IiV~TpEkl~-~Ll~~ 633 (2191)
....+.|+|...+- .++++
T Consensus 75 --------------~~~~v~i~TfHS~~~~iLr~ 94 (672)
T PRK10919 75 --------------EARGLMISTFHTLGLDIIKR 94 (672)
T ss_pred --------------cccCcEEEcHHHHHHHHHHH
Confidence 01247899987753 44544
No 294
>PRK05642 DNA replication initiation factor; Validated
Probab=92.02 E-value=0.8 Score=54.82 Aligned_cols=36 Identities=14% Similarity=0.131 Sum_probs=26.6
Q ss_pred CeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEch
Q 000107 542 RNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLP 578 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P 578 (2191)
..++++||+|+|||-.+ .++...+...+.+++|+..
T Consensus 46 ~~l~l~G~~G~GKTHLl-~a~~~~~~~~~~~v~y~~~ 81 (234)
T PRK05642 46 SLIYLWGKDGVGRSHLL-QAACLRFEQRGEPAVYLPL 81 (234)
T ss_pred CeEEEECCCCCCHHHHH-HHHHHHHHhCCCcEEEeeH
Confidence 67899999999999774 3445555556778887653
No 295
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=92.01 E-value=1.8 Score=56.99 Aligned_cols=91 Identities=21% Similarity=0.160 Sum_probs=53.6
Q ss_pred cccCCeEEEEcCCCCchhHHHHHHHHHHHHhc-CCEEEEEc--hhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCC
Q 000107 538 VLQRRNLVYCASTSAGKSFVAEILMLRRLIST-GKMALLVL--PYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLP 614 (2191)
Q Consensus 538 il~gknlIi~APTGSGKTlvael~iL~~ll~~-g~kaL~I~--P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~ 614 (2191)
+..|+.+.++||||+|||+.+...+....... +.++.++. +++.-+.++. ..+...+|+.+..
T Consensus 347 l~~G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQL---k~ya~iLgv~v~~----------- 412 (559)
T PRK12727 347 LERGGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQL---HSYGRQLGIAVHE----------- 412 (559)
T ss_pred ccCCCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHH---HHhhcccCceeEe-----------
Confidence 44689999999999999988765554433332 34555543 4565554433 3333333433321
Q ss_pred CCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccc
Q 000107 615 KDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMV 654 (2191)
Q Consensus 615 ~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l 654 (2191)
+.+++.+..++++ +.+.++||||..-+.
T Consensus 413 ------a~d~~~L~~aL~~------l~~~DLVLIDTaG~s 440 (559)
T PRK12727 413 ------ADSAESLLDLLER------LRDYKLVLIDTAGMG 440 (559)
T ss_pred ------cCcHHHHHHHHHH------hccCCEEEecCCCcc
Confidence 1234445555543 346799999999764
No 296
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=91.99 E-value=0.82 Score=63.72 Aligned_cols=26 Identities=27% Similarity=0.415 Sum_probs=19.6
Q ss_pred CeEEEEcCCCCchhHHHHHHHHHHHHh
Q 000107 542 RNLVYCASTSAGKSFVAEILMLRRLIS 568 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael~iL~~ll~ 568 (2191)
.-+|+++|.|+|||+++.+.. +.+++
T Consensus 38 Ha~Lf~Gp~G~GKTt~A~~lA-r~L~C 63 (824)
T PRK07764 38 HAYLFSGPRGCGKTSSARILA-RSLNC 63 (824)
T ss_pred ceEEEECCCCCCHHHHHHHHH-HHhCc
Confidence 347999999999999986644 44443
No 297
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=91.97 E-value=3.1 Score=53.49 Aligned_cols=51 Identities=22% Similarity=0.313 Sum_probs=36.1
Q ss_pred cCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEc--hhHHHHHHHHHHH
Q 000107 540 QRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVL--PYVSICAEKAEHL 590 (2191)
Q Consensus 540 ~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~--P~raLA~q~~~~l 590 (2191)
.+..+++++|||+|||+++...+.......|.++.++. ++|..+.++...+
T Consensus 222 ~~~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~Dt~R~aA~eQLk~y 274 (432)
T PRK12724 222 QRKVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDNYRIAAIEQLKRY 274 (432)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecccchhhhHHHHHHHH
Confidence 35568899999999999988766554445676766655 6777776655443
No 298
>PRK08084 DNA replication initiation factor; Provisional
Probab=91.91 E-value=0.99 Score=54.05 Aligned_cols=38 Identities=16% Similarity=0.151 Sum_probs=26.8
Q ss_pred cCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEch
Q 000107 540 QRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLP 578 (2191)
Q Consensus 540 ~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P 578 (2191)
.+.+++++||+|+|||..+. ++.+.+...+.+++|+.-
T Consensus 44 ~~~~l~l~Gp~G~GKThLl~-a~~~~~~~~~~~v~y~~~ 81 (235)
T PRK08084 44 HSGYIYLWSREGAGRSHLLH-AACAELSQRGRAVGYVPL 81 (235)
T ss_pred CCCeEEEECCCCCCHHHHHH-HHHHHHHhCCCeEEEEEH
Confidence 34689999999999997764 334444445677777643
No 299
>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.
Probab=91.91 E-value=1.6 Score=51.63 Aligned_cols=90 Identities=17% Similarity=0.240 Sum_probs=52.0
Q ss_pred CeEEEEcCCCCchhHHHHHHHHHHHHh--cCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCCCCCce
Q 000107 542 RNLVYCASTSAGKSFVAEILMLRRLIS--TGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPKDTSV 619 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael~iL~~ll~--~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~~~~~I 619 (2191)
..+++.||+|+|||-. +.++...+.. .+.+++|+... .........+..
T Consensus 35 ~~l~l~G~~G~GKTHL-L~Ai~~~~~~~~~~~~v~y~~~~-~f~~~~~~~~~~--------------------------- 85 (219)
T PF00308_consen 35 NPLFLYGPSGLGKTHL-LQAIANEAQKQHPGKRVVYLSAE-EFIREFADALRD--------------------------- 85 (219)
T ss_dssp SEEEEEESTTSSHHHH-HHHHHHHHHHHCTTS-EEEEEHH-HHHHHHHHHHHT---------------------------
T ss_pred CceEEECCCCCCHHHH-HHHHHHHHHhccccccceeecHH-HHHHHHHHHHHc---------------------------
Confidence 4589999999999975 4555555554 46678887642 233322222111
Q ss_pred EEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHh
Q 000107 620 AVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYA 673 (2191)
Q Consensus 620 iV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~ 673 (2191)
+.+..+..+ +...++++||.+|.+.+. ...-+.++..+..+
T Consensus 86 -----~~~~~~~~~------~~~~DlL~iDDi~~l~~~--~~~q~~lf~l~n~~ 126 (219)
T PF00308_consen 86 -----GEIEEFKDR------LRSADLLIIDDIQFLAGK--QRTQEELFHLFNRL 126 (219)
T ss_dssp -----TSHHHHHHH------HCTSSEEEEETGGGGTTH--HHHHHHHHHHHHHH
T ss_pred -----ccchhhhhh------hhcCCEEEEecchhhcCc--hHHHHHHHHHHHHH
Confidence 011222222 456899999999999753 33345555555444
No 300
>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=91.82 E-value=0.88 Score=53.76 Aligned_cols=124 Identities=18% Similarity=0.186 Sum_probs=69.6
Q ss_pred cccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcC------CEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCC
Q 000107 536 DGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTG------KMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQG 609 (2191)
Q Consensus 536 ~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g------~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~ 609 (2191)
.++..|+-+.+.||+|+|||..+...+..... .+ .+++|+..-..+-. .++.+++...+....
T Consensus 14 GG~~~g~v~~I~G~~GsGKT~l~~~ia~~~~~-~~~~~g~~~~v~yi~~e~~~~~---~rl~~~~~~~~~~~~------- 82 (226)
T cd01393 14 GGIPTGRITEIFGEFGSGKTQLCLQLAVEAQL-PGELGGLEGKVVYIDTEGAFRP---ERLVQLAVRFGLDPE------- 82 (226)
T ss_pred CCCcCCcEEEEeCCCCCChhHHHHHHHHHhhc-ccccCCCcceEEEEecCCCCCH---HHHHHHHHHhccchh-------
Confidence 45677899999999999999988766554433 34 78888876432222 222332222221110
Q ss_pred CCCCCCCCceEE---EchHHHHHHHHHhhhcCCCCccceEEEccccccccc---------chhHHHHHHHHHHHHhh
Q 000107 610 GGSLPKDTSVAV---CTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQ---------NRGYLLELLLTKLRYAA 674 (2191)
Q Consensus 610 ~~~l~~~~~IiV---~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~---------~RG~~lE~lL~kLr~~~ 674 (2191)
.... .|.| .+++.+..+++.+.....-..+++||||-+-.+... .+...+..++..|+.++
T Consensus 83 --~~~~--~i~~~~~~~~~~~~~~l~~~~~~~~~~~~~lvVIDsis~l~~~~~~~~~~~~~~~~~l~~~~~~L~~~a 155 (226)
T cd01393 83 --EVLD--NIYVARPYNGEQQLEIVEELERIMSSGRVDLVVVDSVAALFRKEFIGRGMLAERARLLSQALRKLLRLA 155 (226)
T ss_pred --hhhc--cEEEEeCCCHHHHHHHHHHHHHHhhcCCeeEEEEcCcchhhhhhhcCCchHHHHHHHHHHHHHHHHHHH
Confidence 0111 1222 356666666666543222357899999998655311 12233445556666554
No 301
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include 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 []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....
Probab=91.81 E-value=0.57 Score=55.50 Aligned_cols=55 Identities=18% Similarity=0.211 Sum_probs=37.9
Q ss_pred cccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHH
Q 000107 536 DGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLE 591 (2191)
Q Consensus 536 ~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~ 591 (2191)
.++-.|..+++.||+|+|||+.+...+.+.+.+.|.+++|+.- .+-..+..+++.
T Consensus 14 GGip~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~-ee~~~~l~~~~~ 68 (226)
T PF06745_consen 14 GGIPKGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSF-EEPPEELIENMK 68 (226)
T ss_dssp TSEETTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEES-SS-HHHHHHHHH
T ss_pred CCCCCCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEe-cCCHHHHHHHHH
Confidence 4677889999999999999999888777766543888998873 222344444443
No 302
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=91.77 E-value=0.86 Score=54.05 Aligned_cols=37 Identities=14% Similarity=0.178 Sum_probs=25.7
Q ss_pred cCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEc
Q 000107 540 QRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVL 577 (2191)
Q Consensus 540 ~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~ 577 (2191)
.+..++++||+|+|||..+.. +.+.....+..++|+.
T Consensus 41 ~~~~~~l~G~~G~GKT~La~a-i~~~~~~~~~~~~~i~ 77 (227)
T PRK08903 41 ADRFFYLWGEAGSGRSHLLQA-LVADASYGGRNARYLD 77 (227)
T ss_pred CCCeEEEECCCCCCHHHHHHH-HHHHHHhCCCcEEEEe
Confidence 467899999999999977643 3344444555666554
No 303
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=91.71 E-value=1.7 Score=55.01 Aligned_cols=91 Identities=15% Similarity=0.152 Sum_probs=55.8
Q ss_pred ccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEc--hhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCCCC
Q 000107 539 LQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVL--PYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPKD 616 (2191)
Q Consensus 539 l~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~--P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~~~ 616 (2191)
..++.+++++|||+|||+.+.-.+.. +...+.++.+|. |+|.-|.++. +.+...+++.+.
T Consensus 204 ~~~~ii~lvGptGvGKTTt~akLA~~-l~~~g~~V~lItaDtyR~gAveQL---k~yae~lgvpv~-------------- 265 (407)
T PRK12726 204 SNHRIISLIGQTGVGKTTTLVKLGWQ-LLKQNRTVGFITTDTFRSGAVEQF---QGYADKLDVELI-------------- 265 (407)
T ss_pred cCCeEEEEECCCCCCHHHHHHHHHHH-HHHcCCeEEEEeCCccCccHHHHH---HHHhhcCCCCEE--------------
Confidence 45789999999999999887655543 444566665554 6666555543 343333343221
Q ss_pred CceEEEchHHHHHHHHHhhhcCCCCccceEEEccccc
Q 000107 617 TSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHM 653 (2191)
Q Consensus 617 ~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~ 653 (2191)
.+.+|+.+...+..+. ..++.++|+||=+=.
T Consensus 266 ---~~~dp~dL~~al~~l~---~~~~~D~VLIDTAGr 296 (407)
T PRK12726 266 ---VATSPAELEEAVQYMT---YVNCVDHILIDTVGR 296 (407)
T ss_pred ---ecCCHHHHHHHHHHHH---hcCCCCEEEEECCCC
Confidence 1235666655554321 234679999998755
No 304
>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=91.67 E-value=1.1 Score=53.02 Aligned_cols=36 Identities=22% Similarity=0.255 Sum_probs=25.4
Q ss_pred cCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEE
Q 000107 540 QRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLV 576 (2191)
Q Consensus 540 ~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I 576 (2191)
.+.++++.||+|+|||..+.. +.+.....+..++|+
T Consensus 37 ~~~~lll~G~~G~GKT~la~~-~~~~~~~~~~~~~~i 72 (226)
T TIGR03420 37 GDRFLYLWGESGSGKSHLLQA-ACAAAEERGKSAIYL 72 (226)
T ss_pred CCCeEEEECCCCCCHHHHHHH-HHHHHHhcCCcEEEE
Confidence 467999999999999988754 334444445555554
No 305
>PF12826 HHH_2: Helix-hairpin-helix motif; PDB: 1X2I_B 1DGS_A 1V9P_B.
Probab=91.63 E-value=0.18 Score=47.84 Aligned_cols=49 Identities=22% Similarity=0.185 Sum_probs=37.6
Q ss_pred cCCCCCCHHHHHHHHHcCCCCHHHHHcCCHHHHHHHHhhcchhHHHHHhhhhHHHHHHHHHH
Q 000107 1234 TTIPYVKGSRARALYKAGLRTPLAIAEASISEIVKALFESSSWIAEAQRRVQLGVAKKIKNG 1295 (2191)
Q Consensus 1234 ~~ip~v~~~RAR~Ly~aG~~t~~~la~a~~~~l~~~l~~~~~~~~~~~~~~~~~~A~~I~~~ 1295 (2191)
+.||+||..+|+.|. .-|.|++.|.+|++++|..+ ++++..+|.+|++-
T Consensus 6 LGI~~VG~~~ak~L~-~~f~sl~~l~~a~~e~L~~i------------~gIG~~~A~si~~f 54 (64)
T PF12826_consen 6 LGIPGVGEKTAKLLA-KHFGSLEALMNASVEELSAI------------PGIGPKIAQSIYEF 54 (64)
T ss_dssp CTSTT--HHHHHHHH-HCCSCHHHHCC--HHHHCTS------------TT--HHHHHHHHHH
T ss_pred CCCCCccHHHHHHHH-HHcCCHHHHHHcCHHHHhcc------------CCcCHHHHHHHHHH
Confidence 589999999999996 67999999999999998876 67888899988874
No 306
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=91.50 E-value=1.3 Score=60.69 Aligned_cols=89 Identities=21% Similarity=0.192 Sum_probs=52.7
Q ss_pred cCCeEEEEcCCCCchhHHHHHHHHHHHHhcC-CEEEEEc--hhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCCCC
Q 000107 540 QRRNLVYCASTSAGKSFVAEILMLRRLISTG-KMALLVL--PYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPKD 616 (2191)
Q Consensus 540 ~gknlIi~APTGSGKTlvael~iL~~ll~~g-~kaL~I~--P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~~~ 616 (2191)
.++.+.+.||||+|||++............| +++.++. ++|.=+.++...+ ...+|+.+
T Consensus 184 ~g~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~---a~~~gvpv--------------- 245 (767)
T PRK14723 184 QGGVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIY---GRILGVPV--------------- 245 (767)
T ss_pred CCeEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHH---HHhCCCCc---------------
Confidence 4678899999999999887655544434455 4655544 3454444444333 33333322
Q ss_pred CceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccc
Q 000107 617 TSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMV 654 (2191)
Q Consensus 617 ~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l 654 (2191)
.++.+|+.+...+.. +.+.++|+||=+=+.
T Consensus 246 --~~~~~~~~l~~al~~------~~~~D~VLIDTAGRs 275 (767)
T PRK14723 246 --HAVKDAADLRFALAA------LGDKHLVLIDTVGMS 275 (767)
T ss_pred --cccCCHHHHHHHHHH------hcCCCEEEEeCCCCC
Confidence 123366665555543 345689999988664
No 307
>PRK07004 replicative DNA helicase; Provisional
Probab=91.47 E-value=0.7 Score=60.70 Aligned_cols=146 Identities=14% Similarity=0.130 Sum_probs=83.2
Q ss_pred ccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEE-eccCCCCC---
Q 000107 537 GVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSY-YGNQGGGS--- 612 (2191)
Q Consensus 537 ~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~-~G~~~~~~--- 612 (2191)
++..|.-+||.|.||+|||..+.-.+.......+..++|... ..-..|...++-.... ++....+ .|......
T Consensus 209 G~~~g~liviaarpg~GKT~~al~ia~~~a~~~~~~v~~fSl-EM~~~ql~~R~la~~~--~v~~~~i~~g~l~~~e~~~ 285 (460)
T PRK07004 209 GMHGGELIIVAGRPSMGKTAFSMNIGEYVAVEYGLPVAVFSM-EMPGTQLAMRMLGSVG--RLDQHRMRTGRLTDEDWPK 285 (460)
T ss_pred CCCCCceEEEEeCCCCCccHHHHHHHHHHHHHcCCeEEEEeC-CCCHHHHHHHHHHhhc--CCCHHHHhcCCCCHHHHHH
Confidence 577789999999999999988765554444455777777642 1222333333311111 1111100 11111100
Q ss_pred ------CCCCCceEEE-----chHHHHHHHHHhhhcCCCCccceEEEccccccccc----chhHHHHHHHHHHHHhhcCC
Q 000107 613 ------LPKDTSVAVC-----TIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQ----NRGYLLELLLTKLRYAAGEG 677 (2191)
Q Consensus 613 ------l~~~~~IiV~-----TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~----~RG~~lE~lL~kLr~~~~~~ 677 (2191)
.-.+..+.|. |+..+...++++... ...+++||||=++.|... .|...+..+...|+.++.+
T Consensus 286 ~~~a~~~l~~~~l~I~d~~~~~~~~i~~~~r~l~~~--~~~~~lviIDYLql~~~~~~~~~r~~ei~~Isr~LK~lAke- 362 (460)
T PRK07004 286 LTHAVQKMSEAQLFIDETGGLNPMELRSRARRLARQ--CGKLGLIIIDYLQLMSGSSQGENRATEISEISRSLKSLAKE- 362 (460)
T ss_pred HHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHh--CCCCCEEEEChhhhccCCCCCCcHHHHHHHHHHHHHHHHHH-
Confidence 0012345553 455555555554332 235899999999999632 3555677888888888753
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCceEEEEecc
Q 000107 678 TSDSSSGENSGTSSGKADPAHGLQIVGMSAT 708 (2191)
Q Consensus 678 ~~~s~~~~~~~~~~~~~~~~~~iqII~mSAT 708 (2191)
.++.||++|--
T Consensus 363 --------------------l~ipVi~lsQL 373 (460)
T PRK07004 363 --------------------LDVPVIALSQL 373 (460)
T ss_pred --------------------hCCeEEEEecc
Confidence 57888888754
No 308
>PRK08840 replicative DNA helicase; Provisional
Probab=91.35 E-value=1.8 Score=56.84 Aligned_cols=160 Identities=17% Similarity=0.152 Sum_probs=88.6
Q ss_pred CCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCe
Q 000107 521 GISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRH 600 (2191)
Q Consensus 521 Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~ 600 (2191)
|+.+-++---+.+ .++..|.-+|+.|.||.|||..++-.+.......+..++|...- .-..|+..++-.... ++.
T Consensus 199 gi~TG~~~LD~~~--~G~~~g~LiviaarPg~GKTafalnia~~~a~~~~~~v~~fSlE-Ms~~ql~~Rlla~~s--~v~ 273 (464)
T PRK08840 199 GVDTGFTDLNKKT--AGLQGSDLIIVAARPSMGKTTFAMNLCENAAMDQDKPVLIFSLE-MPAEQLMMRMLASLS--RVD 273 (464)
T ss_pred CcCCCcHHHHHhh--cCCCCCceEEEEeCCCCchHHHHHHHHHHHHHhCCCeEEEEecc-CCHHHHHHHHHHhhC--CCC
Confidence 3444444334444 35778899999999999999887554444444457777776532 223344433322211 111
Q ss_pred EEEE-eccCCCC----------CCCCCCceEEE-----chHHHHHHHHHhhhcCCCCccceEEEccccccccc----chh
Q 000107 601 VRSY-YGNQGGG----------SLPKDTSVAVC-----TIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQ----NRG 660 (2191)
Q Consensus 601 V~~~-~G~~~~~----------~l~~~~~IiV~-----TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~----~RG 660 (2191)
...+ .|..... .+.....+.|. |+..+...++++... ...+++||||=+|+|... .|.
T Consensus 274 ~~~i~~~~l~~~e~~~~~~a~~~l~~~~~l~I~d~~~~ti~~i~~~~r~~~~~--~~~~~lvvIDYLql~~~~~~~~~r~ 351 (464)
T PRK08840 274 QTKIRTGQLDDEDWARISSTMGILMEKKNMYIDDSSGLTPTEVRSRARRIARE--HGGLSMIMVDYLQLMRVPALSDNRT 351 (464)
T ss_pred HHHHhcCCCCHHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHh--cCCCCEEEEccHHhcCCCCCCCchH
Confidence 1100 1111100 01112234442 445555555554322 135899999999999522 345
Q ss_pred HHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEecc
Q 000107 661 YLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSAT 708 (2191)
Q Consensus 661 ~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSAT 708 (2191)
..+..+...|+.++.+ .++.||++|--
T Consensus 352 ~ei~~isr~LK~lAke---------------------l~ipVi~LsQL 378 (464)
T PRK08840 352 LEIAEISRSLKALAKE---------------------LNVPVVALSQL 378 (464)
T ss_pred HHHHHHHHHHHHHHHH---------------------hCCeEEEEEec
Confidence 5677888888888753 57888988843
No 309
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=91.34 E-value=1.4 Score=58.11 Aligned_cols=105 Identities=16% Similarity=0.253 Sum_probs=52.9
Q ss_pred CeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCCCCCceEE
Q 000107 542 RNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPKDTSVAV 621 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~~~~~IiV 621 (2191)
..++++||.|+|||+++.+.. +.+....+... -| |. ....+..+.......|..+-+.. +
T Consensus 36 ha~Lf~Gp~G~GKTT~ArilA-k~LnC~~~~~~--~p----Cg-~C~~C~~i~~~~~~Dv~eidaas---------~--- 95 (491)
T PRK14964 36 QSILLVGASGVGKTTCARIIS-LCLNCSNGPTS--DP----CG-TCHNCISIKNSNHPDVIEIDAAS---------N--- 95 (491)
T ss_pred ceEEEECCCCccHHHHHHHHH-HHHcCcCCCCC--CC----cc-ccHHHHHHhccCCCCEEEEeccc---------C---
Confidence 579999999999999886543 33332211100 01 10 11112222222223333322210 0
Q ss_pred EchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHH
Q 000107 622 CTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKL 670 (2191)
Q Consensus 622 ~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kL 670 (2191)
...+.+..++......+...+..++||||+|++... ..+.++..|
T Consensus 96 ~~vddIR~Iie~~~~~P~~~~~KVvIIDEah~Ls~~----A~NaLLK~L 140 (491)
T PRK14964 96 TSVDDIKVILENSCYLPISSKFKVYIIDEVHMLSNS----AFNALLKTL 140 (491)
T ss_pred CCHHHHHHHHHHHHhccccCCceEEEEeChHhCCHH----HHHHHHHHH
Confidence 122344444544334455678899999999998642 344444444
No 310
>TIGR02237 recomb_radB DNA repair and recombination protein RadB. This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).
Probab=91.27 E-value=1.3 Score=51.68 Aligned_cols=43 Identities=19% Similarity=0.217 Sum_probs=33.5
Q ss_pred cccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchh
Q 000107 536 DGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPY 579 (2191)
Q Consensus 536 ~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~ 579 (2191)
.++..|.-+.+.||+|+|||..+...+... ...+.+++|+.-.
T Consensus 7 GGi~~g~i~~i~G~~GsGKT~l~~~~~~~~-~~~g~~v~yi~~e 49 (209)
T TIGR02237 7 GGVERGTITQIYGPPGSGKTNICMILAVNA-ARQGKKVVYIDTE 49 (209)
T ss_pred CCCCCCeEEEEECCCCCCHHHHHHHHHHHH-HhCCCeEEEEECC
Confidence 466778999999999999999987665544 3457788888754
No 311
>PRK08006 replicative DNA helicase; Provisional
Probab=91.26 E-value=1.4 Score=58.09 Aligned_cols=147 Identities=18% Similarity=0.163 Sum_probs=86.1
Q ss_pred cccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEE-eccCCCC---
Q 000107 536 DGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSY-YGNQGGG--- 611 (2191)
Q Consensus 536 ~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~-~G~~~~~--- 611 (2191)
.++..|.-+||.|.||.|||..++-.+.......|..++|...- .-..|+..++-.... ++....+ .|.....
T Consensus 219 ~Gl~~G~LiiIaarPgmGKTafalnia~~~a~~~g~~V~~fSlE-M~~~ql~~Rlla~~~--~v~~~~i~~~~l~~~e~~ 295 (471)
T PRK08006 219 AGLQPSDLIIVAARPSMGKTTFAMNLCENAAMLQDKPVLIFSLE-MPGEQIMMRMLASLS--RVDQTRIRTGQLDDEDWA 295 (471)
T ss_pred cCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhcCCeEEEEecc-CCHHHHHHHHHHHhc--CCCHHHhhcCCCCHHHHH
Confidence 35778899999999999999887655555444457777776532 223344444332211 1111111 1111110
Q ss_pred -------CCCCCCceEEE-----chHHHHHHHHHhhhcCCCCccceEEEccccccccc----chhHHHHHHHHHHHHhhc
Q 000107 612 -------SLPKDTSVAVC-----TIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQ----NRGYLLELLLTKLRYAAG 675 (2191)
Q Consensus 612 -------~l~~~~~IiV~-----TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~----~RG~~lE~lL~kLr~~~~ 675 (2191)
.+.....+.|- |+..+...++++... ...+++||||=+|+|... .|...+..+...|+.++.
T Consensus 296 ~~~~a~~~~~~~~~l~I~d~~~~t~~~i~~~~r~~~~~--~~~~~lvvIDYLqli~~~~~~~~r~~ei~~isr~LK~lAk 373 (471)
T PRK08006 296 RISGTMGILLEKRNMYIDDSSGLTPTEVRSRARRIFRE--HGGLSLIMIDYLQLMRVPSLSDNRTLEIAEISRSLKALAK 373 (471)
T ss_pred HHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHh--cCCCCEEEEccHHHccCCCCCCCcHHHHHHHHHHHHHHHH
Confidence 01122334443 555655556554332 236899999999998632 355567888888888875
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCceEEEEecc
Q 000107 676 EGTSDSSSGENSGTSSGKADPAHGLQIVGMSAT 708 (2191)
Q Consensus 676 ~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSAT 708 (2191)
+ .++.||++|-.
T Consensus 374 e---------------------l~ipVi~LsQL 385 (471)
T PRK08006 374 E---------------------LQVPVVALSQL 385 (471)
T ss_pred H---------------------hCCeEEEEEec
Confidence 3 57889998854
No 312
>PRK05595 replicative DNA helicase; Provisional
Probab=91.15 E-value=1.2 Score=58.32 Aligned_cols=145 Identities=17% Similarity=0.142 Sum_probs=81.3
Q ss_pred ccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEE-eccCCCCCC--
Q 000107 537 GVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSY-YGNQGGGSL-- 613 (2191)
Q Consensus 537 ~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~-~G~~~~~~l-- 613 (2191)
++..|.-++|.|.||.|||..+.-.+.....+.|.+++|+..- .-..|+..++-.... ++....+ .|......+
T Consensus 197 G~~~g~liviaarpg~GKT~~al~ia~~~a~~~g~~vl~fSlE-ms~~~l~~R~~a~~~--~v~~~~~~~~~l~~~e~~~ 273 (444)
T PRK05595 197 GFQKGDMILIAARPSMGKTTFALNIAEYAALREGKSVAIFSLE-MSKEQLAYKLLCSEA--NVDMLRLRTGNLEDKDWEN 273 (444)
T ss_pred CCCCCcEEEEEecCCCChHHHHHHHHHHHHHHcCCcEEEEecC-CCHHHHHHHHHHHhc--CCCHHHHhcCCCCHHHHHH
Confidence 5677888999999999999887655544344567788877542 222333333322211 2211111 111100000
Q ss_pred -------CCCCceEEE-----chHHHHHHHHHhhhcCCCCccceEEEccccccccc----chhHHHHHHHHHHHHhhcCC
Q 000107 614 -------PKDTSVAVC-----TIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQ----NRGYLLELLLTKLRYAAGEG 677 (2191)
Q Consensus 614 -------~~~~~IiV~-----TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~----~RG~~lE~lL~kLr~~~~~~ 677 (2191)
-....+.|. |++.+...++++... ..+++||||=+|.|... .|...+..+...|+.++.+
T Consensus 274 ~~~~~~~l~~~~l~i~d~~~~t~~~i~~~~r~~~~~---~~~~~vvIDylql~~~~~~~~~r~~~v~~is~~LK~lAke- 349 (444)
T PRK05595 274 IARASGPLAAAKIFIDDTAGVSVMEMRSKCRRLKIE---HGIDMILIDYLQLMSGGKGSESRQQEVSEISRSIKALAKE- 349 (444)
T ss_pred HHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHh---cCCCEEEEeHHHhccCCCCCccHHHHHHHHHHHHHHHHHH-
Confidence 011223332 444554445554322 34899999999999632 2444567777788887653
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCceEEEEecc
Q 000107 678 TSDSSSGENSGTSSGKADPAHGLQIVGMSAT 708 (2191)
Q Consensus 678 ~~~s~~~~~~~~~~~~~~~~~~iqII~mSAT 708 (2191)
.++.+|++|-.
T Consensus 350 --------------------~~i~vi~lsQL 360 (444)
T PRK05595 350 --------------------MECPVIALSQL 360 (444)
T ss_pred --------------------hCCeEEEeecc
Confidence 56788888765
No 313
>TIGR00362 DnaA chromosomal replication initiator protein DnaA. DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).
Probab=91.14 E-value=1.4 Score=57.07 Aligned_cols=36 Identities=11% Similarity=0.170 Sum_probs=26.7
Q ss_pred CeEEEEcCCCCchhHHHHHHHHHHHHhc--CCEEEEEch
Q 000107 542 RNLVYCASTSAGKSFVAEILMLRRLIST--GKMALLVLP 578 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael~iL~~ll~~--g~kaL~I~P 578 (2191)
..+++.||+|+|||..+ .++.+.+... +.+++|+..
T Consensus 137 n~l~l~G~~G~GKThL~-~ai~~~l~~~~~~~~v~yi~~ 174 (405)
T TIGR00362 137 NPLFIYGGVGLGKTHLL-HAIGNEILENNPNAKVVYVSS 174 (405)
T ss_pred CeEEEECCCCCcHHHHH-HHHHHHHHHhCCCCcEEEEEH
Confidence 46899999999999886 4555555544 567888753
No 314
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=91.12 E-value=1.2 Score=55.94 Aligned_cols=42 Identities=21% Similarity=0.442 Sum_probs=30.8
Q ss_pred CCCHHHHHhhhhcccc-cC---CeEEEEcCCCCchhHHHHHHHHHHHHh
Q 000107 524 KLYPWQVECLHVDGVL-QR---RNLVYCASTSAGKSFVAEILMLRRLIS 568 (2191)
Q Consensus 524 ~l~p~Q~eal~~~~il-~g---knlIi~APTGSGKTlvael~iL~~ll~ 568 (2191)
.+||||...+.. +. .| .-++++||.|.|||..+.. +.+.++.
T Consensus 3 ~~yPWl~~~~~~--~~~~~r~~ha~Lf~G~~G~GK~~~A~~-~A~~llC 48 (328)
T PRK05707 3 EIYPWQQSLWQQ--LAGRGRHPHAYLLHGPAGIGKRALAER-LAAALLC 48 (328)
T ss_pred cCCCCcHHHHHH--HHHCCCcceeeeeECCCCCCHHHHHHH-HHHHHcC
Confidence 468999999875 44 33 3689999999999988754 4445544
No 315
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=91.12 E-value=2.1 Score=55.34 Aligned_cols=87 Identities=24% Similarity=0.268 Sum_probs=47.2
Q ss_pred ccCCeEEEEcCCCCchhHHHHHHHHHHHHhcC-CE-EEEEc-hhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCCC
Q 000107 539 LQRRNLVYCASTSAGKSFVAEILMLRRLISTG-KM-ALLVL-PYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPK 615 (2191)
Q Consensus 539 l~gknlIi~APTGSGKTlvael~iL~~ll~~g-~k-aL~I~-P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~~ 615 (2191)
..|+.+.+.||||+|||+......-+.+...+ .+ .++.. .+|.-+.++...+ ..-+|+.+.
T Consensus 189 ~~g~vi~lvGpnG~GKTTtlakLA~~~~~~~~~~~v~~i~~d~~rigalEQL~~~---a~ilGvp~~------------- 252 (420)
T PRK14721 189 EQGGVYALIGPTGVGKTTTTAKLAARAVIRHGADKVALLTTDSYRIGGHEQLRIY---GKLLGVSVR------------- 252 (420)
T ss_pred CCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecCCcchhHHHHHHHH---HHHcCCcee-------------
Confidence 45788999999999999887654443333322 33 33333 3344444443333 333344332
Q ss_pred CCceEEEchHHHHHHHHHhhhcCCCCccceEEEccc
Q 000107 616 DTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDEL 651 (2191)
Q Consensus 616 ~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEa 651 (2191)
.+-++..+...+. .+.+.++|+||.+
T Consensus 253 ----~v~~~~dl~~al~------~l~~~d~VLIDTa 278 (420)
T PRK14721 253 ----SIKDIADLQLMLH------ELRGKHMVLIDTV 278 (420)
T ss_pred ----cCCCHHHHHHHHH------HhcCCCEEEecCC
Confidence 1123333322222 2567789999986
No 316
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=91.00 E-value=0.8 Score=55.50 Aligned_cols=49 Identities=18% Similarity=0.253 Sum_probs=34.7
Q ss_pred cccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHH
Q 000107 538 VLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAE 588 (2191)
Q Consensus 538 il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~ 588 (2191)
+.+++|+++.||+|+|||..+. +|...+...|..++| +++.+++.+...
T Consensus 102 ~~~~~nl~l~G~~G~GKThLa~-Ai~~~l~~~g~sv~f-~~~~el~~~Lk~ 150 (254)
T COG1484 102 FERGENLVLLGPPGVGKTHLAI-AIGNELLKAGISVLF-ITAPDLLSKLKA 150 (254)
T ss_pred hccCCcEEEECCCCCcHHHHHH-HHHHHHHHcCCeEEE-EEHHHHHHHHHH
Confidence 3378999999999999998874 455555555666555 566666665543
No 317
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=90.91 E-value=0.9 Score=68.96 Aligned_cols=62 Identities=18% Similarity=0.194 Sum_probs=45.9
Q ss_pred CCCCHHHHHhhhhccccc--CCeEEEEcCCCCchhHHHH---HHHHHHHHhcCCEEEEEchhHHHHHHH
Q 000107 523 SKLYPWQVECLHVDGVLQ--RRNLVYCASTSAGKSFVAE---ILMLRRLISTGKMALLVLPYVSICAEK 586 (2191)
Q Consensus 523 ~~l~p~Q~eal~~~~il~--gknlIi~APTGSGKTlvae---l~iL~~ll~~g~kaL~I~P~raLA~q~ 586 (2191)
..|++.|.+++.. ++. ++-++|.|+.|+|||++.. -++.+.+...+.+++.++||-.-|.+.
T Consensus 1018 ~~Lt~~Q~~Ai~~--il~~~~~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~~g~~v~glApT~~Aa~~L 1084 (1960)
T TIGR02760 1018 ERLTHGQKQAIHL--IISTKDRFVAVQGLAGVGKTTMLESRYKPVLQAFESEQLQVIGLAPTHEAVGEL 1084 (1960)
T ss_pred CCCCHHHHHHHHH--HHhCCCcEEEEEeCCCCCHHHhHHHHHHHHHHHHHhcCCeEEEEeChHHHHHHH
Confidence 3799999999986 654 4778899999999998762 223343444677899999996665543
No 318
>PF05127 Helicase_RecD: Helicase; InterPro: IPR007807 This domain is about 350 amino acid residues long and appears to have a P-loop motif, suggesting this is an ATPase. This domain is often N-terminal to a GCN5-related N-acetyltransferase domain IPR000182 from INTERPRO and C-terminal to IPR013562 from INTERPRO.; PDB: 2ZPA_B.
Probab=90.86 E-value=0.15 Score=57.99 Aligned_cols=102 Identities=14% Similarity=0.063 Sum_probs=44.0
Q ss_pred EEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCC-CCCCCCCCceEEEc
Q 000107 545 VYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQG-GGSLPKDTSVAVCT 623 (2191)
Q Consensus 545 Ii~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~-~~~l~~~~~IiV~T 623 (2191)
|+.|+=|-|||.+.-+++...+.....++++.+|..+-++..++.+...+..++++......... .........|-+..
T Consensus 1 VltA~RGRGKSa~lGl~~a~l~~~~~~~I~vtAP~~~~~~~lf~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~i~f~~ 80 (177)
T PF05127_consen 1 VLTADRGRGKSAALGLAAAALIQKGKIRILVTAPSPENVQTLFEFAEKGLKALGYKEEKKKRIGQIIKLRFNKQRIEFVA 80 (177)
T ss_dssp -EEE-TTSSHHHHHHHCCCCSSS-----EEEE-SS--S-HHHHHCC--------------------------CCC--B--
T ss_pred CccCCCCCCHHHHHHHHHHHHHHhcCceEEEecCCHHHHHHHHHHHHhhccccccccccccccccccccccccceEEEEC
Confidence 57899999999888776654433333589999999998888887776656655544311000000 00011245677777
Q ss_pred hHHHHHHHHHhhhcCCCCccceEEEccccccc
Q 000107 624 IEKANSLVNRMLEEGRLSEIGIIVIDELHMVA 655 (2191)
Q Consensus 624 pEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~ 655 (2191)
|..+.. .-...+++||||+=.|.
T Consensus 81 Pd~l~~---------~~~~~DlliVDEAAaIp 103 (177)
T PF05127_consen 81 PDELLA---------EKPQADLLIVDEAAAIP 103 (177)
T ss_dssp HHHHCC---------T----SCEEECTGGGS-
T ss_pred CHHHHh---------CcCCCCEEEEechhcCC
Confidence 766322 11235899999998874
No 319
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.85 E-value=1.1 Score=60.15 Aligned_cols=20 Identities=25% Similarity=0.534 Sum_probs=16.9
Q ss_pred CeEEEEcCCCCchhHHHHHH
Q 000107 542 RNLVYCASTSAGKSFVAEIL 561 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael~ 561 (2191)
..+|++||.|+|||.++.+.
T Consensus 38 HAyLF~GPpGvGKTTlAriL 57 (702)
T PRK14960 38 HAYLFTGTRGVGKTTIARIL 57 (702)
T ss_pred eEEEEECCCCCCHHHHHHHH
Confidence 46799999999999988654
No 320
>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]
Probab=90.76 E-value=0.94 Score=59.14 Aligned_cols=133 Identities=17% Similarity=0.185 Sum_probs=86.5
Q ss_pred CCCHHHHHhhhhc--ccccCCeEEEEcCCCCchhHHHHHHHHHHHHhc---CCEEEEEchhHHHHHHHHHHHHHHhhccC
Q 000107 524 KLYPWQVECLHVD--GVLQRRNLVYCASTSAGKSFVAEILMLRRLIST---GKMALLVLPYVSICAEKAEHLEVLLEPLG 598 (2191)
Q Consensus 524 ~l~p~Q~eal~~~--~il~gknlIi~APTGSGKTlvael~iL~~ll~~---g~kaL~I~P~raLA~q~~~~l~~l~~~lg 598 (2191)
+|-.+|.+-++.. .+-+|-|-|+.-.-|-|||.... .+|.++.+. -+..|+|.|--.| .-.++++.+++. .
T Consensus 567 tLKEYQlkGLnWLvnlYdqGiNGILADeMGLGKTVQsi-svlAhLaE~~nIwGPFLVVtpaStL-~NWaqEisrFlP--~ 642 (1185)
T KOG0388|consen 567 TLKEYQLKGLNWLVNLYDQGINGILADEMGLGKTVQSI-SVLAHLAETHNIWGPFLVVTPASTL-HNWAQEISRFLP--S 642 (1185)
T ss_pred hhHHHhhccHHHHHHHHHccccceehhhhccchhHHHH-HHHHHHHHhccCCCceEEeehHHHH-hHHHHHHHHhCc--c
Confidence 5666777766541 12368899999999999998874 444555542 2467889997555 445666666665 4
Q ss_pred CeEEEEeccCCCCC-------------CCCCCceEEEchHHHHH---HHHHhhhcCCCCccceEEEcccccccccchhHH
Q 000107 599 RHVRSYYGNQGGGS-------------LPKDTSVAVCTIEKANS---LVNRMLEEGRLSEIGIIVIDELHMVADQNRGYL 662 (2191)
Q Consensus 599 ~~V~~~~G~~~~~~-------------l~~~~~IiV~TpEkl~~---Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~ 662 (2191)
+++..|.|+..+.. -....+|+|+|+..+.. .+++ . ...+.|+||++-|-.. ....
T Consensus 643 ~k~lpywGs~~eRkiLrKfw~rKnmY~rna~fhVviTSYQlvVtDeky~qk---v----KWQYMILDEAQAIKSS-sS~R 714 (1185)
T KOG0388|consen 643 FKVLPYWGSPSERKILRKFWNRKNMYRRNAPFHVVITSYQLVVTDEKYLQK---V----KWQYMILDEAQAIKSS-SSSR 714 (1185)
T ss_pred ceeecCcCChhhhHHHHHhcchhhhhccCCCceEEEEeeeeeechHHHHHh---h----hhhheehhHHHHhhhh-hhhH
Confidence 68888899876532 12347899998876422 1221 1 2368999999998654 3444
Q ss_pred HHHHHH
Q 000107 663 LELLLT 668 (2191)
Q Consensus 663 lE~lL~ 668 (2191)
+..+|+
T Consensus 715 WKtLLs 720 (1185)
T KOG0388|consen 715 WKTLLS 720 (1185)
T ss_pred HHHHhh
Confidence 555443
No 321
>PRK09165 replicative DNA helicase; Provisional
Probab=90.70 E-value=1.1 Score=59.54 Aligned_cols=145 Identities=13% Similarity=0.165 Sum_probs=81.5
Q ss_pred ccccCCeEEEEcCCCCchhHHHHHHHHHHHHh--------------cCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEE
Q 000107 537 GVLQRRNLVYCASTSAGKSFVAEILMLRRLIS--------------TGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVR 602 (2191)
Q Consensus 537 ~il~gknlIi~APTGSGKTlvael~iL~~ll~--------------~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~ 602 (2191)
++..|.-+||.|+||.|||..++-.+...... .|.+++|+.. ..-..|+..++-.... ++...
T Consensus 213 G~~~g~livIaarpg~GKT~~al~ia~~~a~~~~~~~~~~~~~~~~~g~~vl~fSl-EMs~~ql~~R~la~~s--~v~~~ 289 (497)
T PRK09165 213 GLHPSDLIILAGRPSMGKTALATNIAFNAAKAYRREAQPDGSKKAVNGGVVGFFSL-EMSAEQLATRILSEQS--EISSS 289 (497)
T ss_pred CCCCCceEEEEeCCCCChHHHHHHHHHHHHHhhcccccccccccccCCCeEEEEeC-cCCHHHHHHHHHHHhc--CCCHH
Confidence 56778899999999999998876555443322 2567777642 2333444444432211 22111
Q ss_pred EE-eccCCCCC---------CCCCCceEEE-----chHHHHHHHHHhhhcCCCCccceEEEccccccccc------chhH
Q 000107 603 SY-YGNQGGGS---------LPKDTSVAVC-----TIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQ------NRGY 661 (2191)
Q Consensus 603 ~~-~G~~~~~~---------l~~~~~IiV~-----TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~------~RG~ 661 (2191)
.+ .|...... .-....+.|. |++.+...++++... ..+++||||=+|.|... .|..
T Consensus 290 ~i~~~~l~~~e~~~l~~a~~~l~~~~l~I~d~~~~ti~~i~~~ir~l~~~---~~~~lvvIDyLqli~~~~~~~~~~r~~ 366 (497)
T PRK09165 290 KIRRGKISEEDFEKLVDASQELQKLPLYIDDTPALSISQLRARARRLKRQ---HGLDLLVVDYLQLIRGSSKRSSDNRVQ 366 (497)
T ss_pred HHhcCCCCHHHHHHHHHHHHHHhcCCeEEeCCCCCCHHHHHHHHHHHHHh---cCCCEEEEcchHhccCCCCCCCCchHH
Confidence 11 11111000 0011234443 455655556654332 35899999999988632 2334
Q ss_pred HHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEecc
Q 000107 662 LLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSAT 708 (2191)
Q Consensus 662 ~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSAT 708 (2191)
.+..+...|+.++.+ .++.||++|--
T Consensus 367 ev~~is~~LK~lAke---------------------l~ipVi~lsQL 392 (497)
T PRK09165 367 EISEITQGLKALAKE---------------------LNIPVIALSQL 392 (497)
T ss_pred HHHHHHHHHHHHHHH---------------------hCCeEEEeecc
Confidence 567777788877643 56788887764
No 322
>TIGR02012 tigrfam_recA protein RecA. This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.
Probab=90.69 E-value=0.59 Score=58.23 Aligned_cols=93 Identities=18% Similarity=0.247 Sum_probs=58.0
Q ss_pred cccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCCC
Q 000107 536 DGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPK 615 (2191)
Q Consensus 536 ~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~~ 615 (2191)
.++-.|.-+.|.+|+|+|||+.+...+... ...|.+++||-.-.++-.+. +..+|+.+.
T Consensus 50 GGlp~G~iteI~G~~GsGKTtLaL~~~~~~-~~~g~~v~yId~E~~~~~~~-------a~~lGvd~~------------- 108 (321)
T TIGR02012 50 GGLPRGRIIEIYGPESSGKTTLALHAIAEA-QKAGGTAAFIDAEHALDPVY-------ARKLGVDID------------- 108 (321)
T ss_pred CCCcCCeEEEEECCCCCCHHHHHHHHHHHH-HHcCCcEEEEcccchhHHHH-------HHHcCCCHH-------------
Confidence 467778999999999999999987666554 44688899997655554432 222333211
Q ss_pred CCceEEEch---HHHHHHHHHhhhcCCCCccceEEEcccccc
Q 000107 616 DTSVAVCTI---EKANSLVNRMLEEGRLSEIGIIVIDELHMV 654 (2191)
Q Consensus 616 ~~~IiV~Tp---Ekl~~Ll~~l~~~~~L~~l~lVVIDEaH~l 654 (2191)
+++++.| |.+..++..+.. -..+++||||-+-.+
T Consensus 109 --~l~v~~p~~~eq~l~~~~~li~---~~~~~lIVIDSv~al 145 (321)
T TIGR02012 109 --NLLVSQPDTGEQALEIAETLVR---SGAVDIIVVDSVAAL 145 (321)
T ss_pred --HeEEecCCCHHHHHHHHHHHhh---ccCCcEEEEcchhhh
Confidence 2334433 333334433322 246899999998754
No 323
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=90.47 E-value=0.53 Score=65.45 Aligned_cols=107 Identities=18% Similarity=0.123 Sum_probs=71.7
Q ss_pred CCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhc---CCEEEEEchhHHHHHHHHHHHHHHhhccCC
Q 000107 523 SKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIST---GKMALLVLPYVSICAEKAEHLEVLLEPLGR 599 (2191)
Q Consensus 523 ~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~---g~kaL~I~P~raLA~q~~~~l~~l~~~lg~ 599 (2191)
..|+|-|.+++.. ...+++|.|..|||||.+..--+...+... ..++|+|.-|+..|.++.+++.+++..
T Consensus 8 ~~Ln~~Q~~av~~----~~g~~lV~AgaGSGKT~vl~~Ria~Li~~~~v~p~~IL~lTFT~kAA~Em~~Rl~~~~~~--- 80 (721)
T PRK11773 8 DSLNDKQREAVAA----PLGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMRHRIEQLLGT--- 80 (721)
T ss_pred HhcCHHHHHHHhC----CCCCEEEEecCCCCHHHHHHHHHHHHHHcCCCChhHeEeeeccHHHHHHHHHHHHHHhcc---
Confidence 4699999999864 356899999999999988765555444332 357999999999999999988876421
Q ss_pred eEEEEeccCCCCCCCCCCceEEEchHHHH-HHHHHhhhcCCCCccceEEEcccc
Q 000107 600 HVRSYYGNQGGGSLPKDTSVAVCTIEKAN-SLVNRMLEEGRLSEIGIIVIDELH 652 (2191)
Q Consensus 600 ~V~~~~G~~~~~~l~~~~~IiV~TpEkl~-~Ll~~l~~~~~L~~l~lVVIDEaH 652 (2191)
. ...+.|+|...+- .++++......+. -.+-|+|+.+
T Consensus 81 --------~-------~~~~~i~TfHs~~~~iLr~~~~~~g~~-~~f~i~d~~d 118 (721)
T PRK11773 81 --------S-------QGGMWVGTFHGLAHRLLRAHWQDANLP-QDFQILDSDD 118 (721)
T ss_pred --------C-------CCCCEEEcHHHHHHHHHHHHHHHhCCC-CCCeecCHHH
Confidence 0 1247889987753 3454422211111 1245667653
No 324
>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .
Probab=90.39 E-value=0.82 Score=54.36 Aligned_cols=127 Identities=17% Similarity=0.156 Sum_probs=68.1
Q ss_pred cccccCCeEEEEcCCCCchhHHHHHHHHHHHHhc-----CCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCC
Q 000107 536 DGVLQRRNLVYCASTSAGKSFVAEILMLRRLIST-----GKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGG 610 (2191)
Q Consensus 536 ~~il~gknlIi~APTGSGKTlvael~iL~~ll~~-----g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~ 610 (2191)
.++..|.-+.+++|+|+|||..+...++...... +.+++|+.--...- .+++.......+....
T Consensus 14 GGi~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~---~~rl~~~~~~~~~~~~-------- 82 (235)
T cd01123 14 GGIETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFR---PERLVQIAERFGLDPE-------- 82 (235)
T ss_pred CCCCCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcC---HHHHHHHHHHhccChH--------
Confidence 4577789999999999999998877665533322 36888887432111 1223333222222110
Q ss_pred CCCCCCCceEE-EchHHHHHHHHHhhhcCCCC-ccceEEEcccccccc-----c----chhHHHHHHHHHHHHhh
Q 000107 611 GSLPKDTSVAV-CTIEKANSLVNRMLEEGRLS-EIGIIVIDELHMVAD-----Q----NRGYLLELLLTKLRYAA 674 (2191)
Q Consensus 611 ~~l~~~~~IiV-~TpEkl~~Ll~~l~~~~~L~-~l~lVVIDEaH~l~d-----~----~RG~~lE~lL~kLr~~~ 674 (2191)
.......++- .+.+.+..+++.+.....-. .+++||||-+-.+.. . .+...+..++..|+.++
T Consensus 83 -~~~~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~liVIDSis~~~~~~~~~~~~~~~r~~~l~~~~~~L~~la 156 (235)
T cd01123 83 -EVLDNIYVARAYNSDHQLQLLEELEAILIESSRIKLVIVDSVTALFRAEFDGRGELAERQQHLAKLLRTLKRLA 156 (235)
T ss_pred -hHhcCEEEEecCCHHHHHHHHHHHHHHHhhcCCeeEEEEeCcHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHH
Confidence 0111111111 23455555554432222223 789999999976521 1 13344556666676654
No 325
>PRK08506 replicative DNA helicase; Provisional
Probab=90.36 E-value=1.1 Score=59.08 Aligned_cols=145 Identities=17% Similarity=0.233 Sum_probs=83.7
Q ss_pred cccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEE-eccCCCC---
Q 000107 536 DGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSY-YGNQGGG--- 611 (2191)
Q Consensus 536 ~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~-~G~~~~~--- 611 (2191)
.++..|.-+|+.|.||.|||..+.-.+.+ +...|.+++|+.. -.-+.|+..++-.... ++....+ .|.....
T Consensus 187 ~G~~~G~LivIaarpg~GKT~fal~ia~~-~~~~g~~V~~fSl-EMs~~ql~~Rlla~~s--~v~~~~i~~~~l~~~e~~ 262 (472)
T PRK08506 187 KGFNKGDLIIIAARPSMGKTTLCLNMALK-ALNQDKGVAFFSL-EMPAEQLMLRMLSAKT--SIPLQNLRTGDLDDDEWE 262 (472)
T ss_pred CCCCCCceEEEEcCCCCChHHHHHHHHHH-HHhcCCcEEEEeC-cCCHHHHHHHHHHHhc--CCCHHHHhcCCCCHHHHH
Confidence 35778899999999999999887665554 4456777777653 2333444444422211 2211100 1111100
Q ss_pred -------CCCCCCceEE-----EchHHHHHHHHHhhhcCCCCccceEEEccccccccc----chhHHHHHHHHHHHHhhc
Q 000107 612 -------SLPKDTSVAV-----CTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQ----NRGYLLELLLTKLRYAAG 675 (2191)
Q Consensus 612 -------~l~~~~~IiV-----~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~----~RG~~lE~lL~kLr~~~~ 675 (2191)
.+ .+..+.| .|+..+...++++... ...+++||||=++.|... .|...+..+...|+.++.
T Consensus 263 ~~~~a~~~l-~~~~l~I~d~~~~ti~~I~~~~r~l~~~--~~~~~lvvIDyLql~~~~~~~~~r~~ev~~isr~LK~lAk 339 (472)
T PRK08506 263 RLSDACDEL-SKKKLFVYDSGYVNIHQVRAQLRKLKSQ--HPEIGLAVIDYLQLMSGSGNFKDRHLQISEISRGLKLLAR 339 (472)
T ss_pred HHHHHHHHH-HcCCeEEECCCCCCHHHHHHHHHHHHHh--CCCCCEEEEcChhhccCCCCCCCHHHHHHHHHHHHHHHHH
Confidence 01 1123444 2556665556654332 235899999999998632 244456667777877764
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCceEEEEecc
Q 000107 676 EGTSDSSSGENSGTSSGKADPAHGLQIVGMSAT 708 (2191)
Q Consensus 676 ~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSAT 708 (2191)
+ .++.||++|-.
T Consensus 340 e---------------------l~ipVi~lsQL 351 (472)
T PRK08506 340 E---------------------LDIPIIALSQL 351 (472)
T ss_pred H---------------------hCCcEEEEeec
Confidence 3 56888888855
No 326
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.36 E-value=1.3 Score=59.45 Aligned_cols=24 Identities=29% Similarity=0.440 Sum_probs=18.4
Q ss_pred eEEEEcCCCCchhHHHHHHHHHHHH
Q 000107 543 NLVYCASTSAGKSFVAEILMLRRLI 567 (2191)
Q Consensus 543 nlIi~APTGSGKTlvael~iL~~ll 567 (2191)
-+|++||.|+|||.++.+.+ +.+.
T Consensus 37 a~Lf~Gp~G~GKTt~A~~lA-k~l~ 60 (584)
T PRK14952 37 AYLFSGPRGCGKTSSARILA-RSLN 60 (584)
T ss_pred EEEEECCCCCCHHHHHHHHH-HHhc
Confidence 36999999999999986543 4444
No 327
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=90.33 E-value=0.54 Score=64.88 Aligned_cols=84 Identities=17% Similarity=0.110 Sum_probs=62.7
Q ss_pred CCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhc---CCEEEEEchhHHHHHHHHHHHHHHhhccCCe
Q 000107 524 KLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIST---GKMALLVLPYVSICAEKAEHLEVLLEPLGRH 600 (2191)
Q Consensus 524 ~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~---g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~ 600 (2191)
.|++-|.+++.. ...+++|.|..|||||.+..--+...+... ..++++|..++..|.++.+++.+.++.
T Consensus 1 ~Ln~~Q~~av~~----~~~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~~~p~~IL~vTFt~~Aa~em~~Rl~~~l~~---- 72 (664)
T TIGR01074 1 KLNPQQQEAVEY----VTGPCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKERVAKTLGK---- 72 (664)
T ss_pred CCCHHHHHHHhC----CCCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeEEEeccHHHHHHHHHHHHHHhCc----
Confidence 378899999864 356899999999999998776666555432 357899999999999998888765421
Q ss_pred EEEEeccCCCCCCCCCCceEEEchHHHH
Q 000107 601 VRSYYGNQGGGSLPKDTSVAVCTIEKAN 628 (2191)
Q Consensus 601 V~~~~G~~~~~~l~~~~~IiV~TpEkl~ 628 (2191)
.....+.|.|...+-
T Consensus 73 -------------~~~~~v~v~TfHs~a 87 (664)
T TIGR01074 73 -------------GEARGLTISTFHTLG 87 (664)
T ss_pred -------------cccCCeEEEeHHHHH
Confidence 012358899988763
No 328
>TIGR02881 spore_V_K stage V sporulation protein K. Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.
Probab=90.30 E-value=1.1 Score=54.34 Aligned_cols=21 Identities=29% Similarity=0.493 Sum_probs=18.1
Q ss_pred CCeEEEEcCCCCchhHHHHHH
Q 000107 541 RRNLVYCASTSAGKSFVAEIL 561 (2191)
Q Consensus 541 gknlIi~APTGSGKTlvael~ 561 (2191)
..++++.||+|+|||.++...
T Consensus 42 ~~~vll~GppGtGKTtlA~~i 62 (261)
T TIGR02881 42 VLHMIFKGNPGTGKTTVARIL 62 (261)
T ss_pred cceEEEEcCCCCCHHHHHHHH
Confidence 468999999999999998654
No 329
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.23 E-value=1.1 Score=61.82 Aligned_cols=24 Identities=17% Similarity=0.397 Sum_probs=18.2
Q ss_pred eEEEEcCCCCchhHHHHHHHHHHHH
Q 000107 543 NLVYCASTSAGKSFVAEILMLRRLI 567 (2191)
Q Consensus 543 nlIi~APTGSGKTlvael~iL~~ll 567 (2191)
-+|++||.|+|||+++.+.+ +.+.
T Consensus 40 AyLFtGPpGtGKTTLARiLA-k~Ln 63 (944)
T PRK14949 40 AYLFTGTRGVGKTSLARLFA-KGLN 63 (944)
T ss_pred EEEEECCCCCCHHHHHHHHH-Hhcc
Confidence 35899999999999986543 4443
No 330
>PRK14666 uvrC excinuclease ABC subunit C; Provisional
Probab=90.20 E-value=0.93 Score=61.04 Aligned_cols=83 Identities=14% Similarity=0.178 Sum_probs=61.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhccCchhhhhhcCCCCCCHHHHHHHHHcCCCCHHHHHcCCH
Q 000107 1184 MVQALQENAGRFASMVSVFCERLGWYDLEGLIAKFQNRVSFGVRAEIVELTTIPYVKGSRARALYKAGLRTPLAIAEASI 1263 (2191)
Q Consensus 1184 ~lq~l~~~a~~~a~~v~~fc~~lg~~~~~~ll~~~~~RL~~Gv~~ELl~L~~ip~v~~~RAR~Ly~aG~~t~~~la~a~~ 1263 (2191)
.||.+++.|..||-..-+ .+. .++. .+ -.|.+|||||..|+++|++. |.|+++|..|+.
T Consensus 610 ~Lq~iRDEaHRfAi~~hR---~~r-----------~k~~---~~---s~L~~IPGIGpkr~k~LL~~-FGSle~I~~AS~ 668 (694)
T PRK14666 610 FLQHVRDTVHDYAIGRHR---RAR-----------AGAA---LT---GELQRVEGIGPATARLLWER-FGSLQAMAAAGE 668 (694)
T ss_pred HHHHHHHHHHHHHHHHHH---HHH-----------Hhhh---hH---hHHhhCCCCCHHHHHHHHHH-hCCHHHHHhcCH
Confidence 589999999998853311 110 0000 01 56789999999999999997 789999999999
Q ss_pred HHHHHHHhhcchhHHHHHhhhhHHHHHHHHHHHHHH
Q 000107 1264 SEIVKALFESSSWIAEAQRRVQLGVAKKIKNGARKI 1299 (2191)
Q Consensus 1264 ~~l~~~l~~~~~~~~~~~~~~~~~~A~~I~~~A~~l 1299 (2191)
++|.++ .+++.+.|+.|++..+.+
T Consensus 669 eELa~V------------~Gig~k~Ae~I~~~L~~~ 692 (694)
T PRK14666 669 EGLAAV------------PGIGPARAAALHEHLKTL 692 (694)
T ss_pred HHHHhc------------CCcCHHHHHHHHHHHHHh
Confidence 998776 457778899998876544
No 331
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=90.20 E-value=1.3 Score=64.98 Aligned_cols=61 Identities=18% Similarity=0.092 Sum_probs=45.3
Q ss_pred CCCHHHHHhhhhccccc--CCeEEEEcCCCCchhHHHH--HHHHHHHHh-cCCEEEEEchhHHHHHHH
Q 000107 524 KLYPWQVECLHVDGVLQ--RRNLVYCASTSAGKSFVAE--ILMLRRLIS-TGKMALLVLPYVSICAEK 586 (2191)
Q Consensus 524 ~l~p~Q~eal~~~~il~--gknlIi~APTGSGKTlvae--l~iL~~ll~-~g~kaL~I~P~raLA~q~ 586 (2191)
.|++.|.+|+.. ++. ++.++|.|..|+|||++.. +.+++.+.. .+..++.++||-.-+.+.
T Consensus 835 ~Lt~~Qr~Av~~--iLts~dr~~~IqG~AGTGKTT~l~~i~~~~~~l~e~~g~~V~glAPTgkAa~~L 900 (1623)
T PRK14712 835 KLTSGQRAATRM--ILETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEM 900 (1623)
T ss_pred ccCHHHHHHHHH--HHhCCCceEEEEeCCCCCHHHHHHHHHHHHHHHhhccCceEEEEechHHHHHHH
Confidence 799999999986 664 5899999999999998853 233333322 466788899996666554
No 332
>PRK14672 uvrC excinuclease ABC subunit C; Provisional
Probab=90.09 E-value=0.86 Score=61.15 Aligned_cols=83 Identities=23% Similarity=0.339 Sum_probs=63.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhccCchhhhhhcCCCCCCHHHHHHHHHcCCCCHHHHHcCCH
Q 000107 1184 MVQALQENAGRFASMVSVFCERLGWYDLEGLIAKFQNRVSFGVRAEIVELTTIPYVKGSRARALYKAGLRTPLAIAEASI 1263 (2191)
Q Consensus 1184 ~lq~l~~~a~~~a~~v~~fc~~lg~~~~~~ll~~~~~RL~~Gv~~ELl~L~~ip~v~~~RAR~Ly~aG~~t~~~la~a~~ 1263 (2191)
.||.+++.|.+||-..- +.+. .+-.+ -..|-+|||||.+|+++|++. |.|++.|..|++
T Consensus 581 lLq~iRDEaHRFAIt~h---R~~R------------~k~~~-----~s~L~~IpGiG~kr~~~LL~~-FgS~~~i~~As~ 639 (691)
T PRK14672 581 MLQRIRDEAHRFAITRN---RHLR------------TKKEL-----VLSFERLPHVGKVRAHRLLAH-FGSFRSLQSATP 639 (691)
T ss_pred HHHHHHHHHHHHHHHHH---HHHh------------hhhhc-----ccccccCCCCCHHHHHHHHHH-hcCHHHHHhCCH
Confidence 68899999999875321 1111 11000 145669999999999999987 889999999999
Q ss_pred HHHHHHHhhcchhHHHHHhhhhHHHHHHHHHHHHHH
Q 000107 1264 SEIVKALFESSSWIAEAQRRVQLGVAKKIKNGARKI 1299 (2191)
Q Consensus 1264 ~~l~~~l~~~~~~~~~~~~~~~~~~A~~I~~~A~~l 1299 (2191)
++|.++ .+++.++|.+|+.+|..-
T Consensus 640 eel~~v------------~gi~~~~A~~i~~~~~~~ 663 (691)
T PRK14672 640 QDIATA------------IHIPLTQAHTILHAATRS 663 (691)
T ss_pred HHHHhC------------CCCCHHHHHHHHHHhhcc
Confidence 999987 467789999999988654
No 333
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=90.04 E-value=0.93 Score=54.10 Aligned_cols=51 Identities=16% Similarity=0.203 Sum_probs=35.8
Q ss_pred cccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHH
Q 000107 538 VLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHL 590 (2191)
Q Consensus 538 il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l 590 (2191)
+..|..+++.+|+|+|||+.+...+.. ...+|.+++|+.... -..+..+.+
T Consensus 21 i~~g~~~~i~G~~G~GKTtl~~~~~~~-~~~~g~~~~yi~~e~-~~~~~~~~~ 71 (230)
T PRK08533 21 IPAGSLILIEGDESTGKSILSQRLAYG-FLQNGYSVSYVSTQL-TTTEFIKQM 71 (230)
T ss_pred CCCCcEEEEECCCCCCHHHHHHHHHHH-HHhCCCcEEEEeCCC-CHHHHHHHH
Confidence 556889999999999999987655554 445688899988432 223444443
No 334
>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family. Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.
Probab=90.04 E-value=3.9 Score=48.58 Aligned_cols=41 Identities=15% Similarity=0.231 Sum_probs=32.2
Q ss_pred ccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEch
Q 000107 537 GVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLP 578 (2191)
Q Consensus 537 ~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P 578 (2191)
++..|..+++.+|+|+|||..+...+.+.+ ..+..++|+.-
T Consensus 16 Gi~~G~~~~i~G~~G~GKT~l~~~~~~~~~-~~g~~~~~is~ 56 (229)
T TIGR03881 16 GIPRGFFVAVTGEPGTGKTIFCLHFAYKGL-RDGDPVIYVTT 56 (229)
T ss_pred CCcCCeEEEEECCCCCChHHHHHHHHHHHH-hcCCeEEEEEc
Confidence 567789999999999999988766555443 46778888874
No 335
>PF03354 Terminase_1: Phage Terminase ; InterPro: IPR005021 This entry is represented by Lactococcus phage bIL285, Orf41 (terminase). The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=89.97 E-value=1.2 Score=59.03 Aligned_cols=68 Identities=19% Similarity=0.227 Sum_probs=51.6
Q ss_pred HHHHHhhhhcccc---------cCCeEEEEcCCCCchhHHHHHHHHHHHHh---cCCEEEEEchhHHHHHHHHHHHHHHh
Q 000107 527 PWQVECLHVDGVL---------QRRNLVYCASTSAGKSFVAEILMLRRLIS---TGKMALLVLPYVSICAEKAEHLEVLL 594 (2191)
Q Consensus 527 p~Q~eal~~~~il---------~gknlIi~APTGSGKTlvael~iL~~ll~---~g~kaL~I~P~raLA~q~~~~l~~l~ 594 (2191)
|||.-.+.. ++ .-+.+++.-|=+.|||......++-.+.- .+..++++++++.-|...++.+..+.
T Consensus 1 PwQ~fi~~~--i~G~~~~~g~rrf~~~~l~v~RkNGKS~l~a~i~ly~l~~~g~~~~~i~~~A~~~~QA~~~f~~~~~~i 78 (477)
T PF03354_consen 1 PWQKFILRS--IFGWRKDDGRRRFREVYLEVPRKNGKSTLAAAIALYMLFLDGEPGAEIYCAANTRDQAKIVFDEAKKMI 78 (477)
T ss_pred CcHHHHHHH--HhceEcCCCCEEEEEEEEEEcCccCccHHHHHHHHHHHhcCCccCceEEEEeCCHHHHHHHHHHHHHHH
Confidence 688876653 33 12568888999999998877665555543 45689999999999999999888876
Q ss_pred hc
Q 000107 595 EP 596 (2191)
Q Consensus 595 ~~ 596 (2191)
..
T Consensus 79 ~~ 80 (477)
T PF03354_consen 79 EA 80 (477)
T ss_pred Hh
Confidence 54
No 336
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=89.88 E-value=0.61 Score=58.19 Aligned_cols=61 Identities=16% Similarity=0.235 Sum_probs=42.7
Q ss_pred HHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHH--hcCCEEEEEchhHHH
Q 000107 518 KKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLI--STGKMALLVLPYVSI 582 (2191)
Q Consensus 518 ~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll--~~g~kaL~I~P~raL 582 (2191)
.+.|. +++.|.+.|.. .+..++|++|+|+||||||+.. -+++..+. ..+.+++.+-...+|
T Consensus 124 v~~g~--~~~~~~~~L~~-~v~~~~nilI~G~tGSGKTTll-~aL~~~i~~~~~~~rivtiEd~~El 186 (323)
T PRK13833 124 VTSKI--MTEAQASVIRS-AIDSRLNIVISGGTGSGKTTLA-NAVIAEIVASAPEDRLVILEDTAEI 186 (323)
T ss_pred HHcCC--CCHHHHHHHHH-HHHcCCeEEEECCCCCCHHHHH-HHHHHHHhcCCCCceEEEecCCccc
Confidence 34454 67888888764 4667899999999999999875 45555553 234567776655554
No 337
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.85 E-value=1.4 Score=56.27 Aligned_cols=23 Identities=22% Similarity=0.440 Sum_probs=17.8
Q ss_pred eEEEEcCCCCchhHHHHHHHHHHH
Q 000107 543 NLVYCASTSAGKSFVAEILMLRRL 566 (2191)
Q Consensus 543 nlIi~APTGSGKTlvael~iL~~l 566 (2191)
.++++||.|+|||..+... .+.+
T Consensus 40 ~~L~~Gp~G~GKTtla~~l-a~~l 62 (363)
T PRK14961 40 AWLLSGTRGVGKTTIARLL-AKSL 62 (363)
T ss_pred EEEEecCCCCCHHHHHHHH-HHHh
Confidence 4699999999999988653 3444
No 338
>PRK08609 hypothetical protein; Provisional
Probab=89.77 E-value=0.46 Score=63.93 Aligned_cols=38 Identities=26% Similarity=0.430 Sum_probs=34.2
Q ss_pred cCchhhhhhcCCCCCCHHHHHHHHH-cCCCCHHHHHcCC
Q 000107 1225 GVRAEIVELTTIPYVKGSRARALYK-AGLRTPLAIAEAS 1262 (2191)
Q Consensus 1225 Gv~~ELl~L~~ip~v~~~RAR~Ly~-aG~~t~~~la~a~ 1262 (2191)
-+++.+++|++|||||..+|++||+ -|++|+++|..|-
T Consensus 82 ~~p~~~~~l~~i~GiGpk~a~~l~~~lGi~tl~~L~~a~ 120 (570)
T PRK08609 82 EVPEGLLPLLKLPGLGGKKIAKLYKELGVVDKESLKEAC 120 (570)
T ss_pred hCcHHHHHHhcCCCCCHHHHHHHHHHhCCCCHHHHHHHH
Confidence 3788999999999999999999996 6999999998653
No 339
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.63 E-value=2.3 Score=56.64 Aligned_cols=25 Identities=20% Similarity=0.417 Sum_probs=18.8
Q ss_pred CeEEEEcCCCCchhHHHHHHHHHHHH
Q 000107 542 RNLVYCASTSAGKSFVAEILMLRRLI 567 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael~iL~~ll 567 (2191)
.-+|++||.|+|||.++.+. .+.+.
T Consensus 39 ha~Lf~Gp~G~GKTt~A~~l-Ak~l~ 63 (509)
T PRK14958 39 HAYLFTGTRGVGKTTISRIL-AKCLN 63 (509)
T ss_pred eeEEEECCCCCCHHHHHHHH-HHHhc
Confidence 35799999999999998653 34443
No 340
>PHA02542 41 41 helicase; Provisional
Probab=89.61 E-value=1.3 Score=58.13 Aligned_cols=144 Identities=19% Similarity=0.172 Sum_probs=81.3
Q ss_pred ccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEc---hhHHHHHHHHHHHHHHhhccCC-eEEEEeccCCC--
Q 000107 537 GVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVL---PYVSICAEKAEHLEVLLEPLGR-HVRSYYGNQGG-- 610 (2191)
Q Consensus 537 ~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~---P~raLA~q~~~~l~~l~~~lg~-~V~~~~G~~~~-- 610 (2191)
++..|.-+|+.|+||.|||..+.-.+.... ..|.+++|+. |...| ..++.......+. .+..+......
T Consensus 186 Gl~~G~LiiIaarPgmGKTtfalniA~~~a-~~g~~Vl~fSLEM~~~ql----~~Rl~a~~~~i~~~~l~~l~~~~~~~~ 260 (473)
T PHA02542 186 GAERKTLNVLLAGVNVGKSLGLCSLAADYL-QQGYNVLYISMEMAEEVI----AKRIDANLLDVSLDDIDDLSKAEYKAK 260 (473)
T ss_pred CCCCCcEEEEEcCCCccHHHHHHHHHHHHH-hcCCcEEEEeccCCHHHH----HHHHHHHHcCCCHHHHhhcCHHHHHHH
Confidence 466678899999999999998876555443 5677787775 33333 3333211111111 00000000000
Q ss_pred ----CCCCCCCceEE-------EchHHHHHHHHHhhhcCCCCccceEEEccccccccc-------chhHHHHHHHHHHHH
Q 000107 611 ----GSLPKDTSVAV-------CTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQ-------NRGYLLELLLTKLRY 672 (2191)
Q Consensus 611 ----~~l~~~~~IiV-------~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~-------~RG~~lE~lL~kLr~ 672 (2191)
..+. ...+.| .|+..+...++++... .=..+++||||=++.|.+. .|...+..+...|+.
T Consensus 261 ~~~~~~~~-~~~l~I~~~d~~~lt~~~ir~~~rrlk~~-~g~~~dlVvIDYLqL~~~~~~~~~~~nr~~ei~~Isr~LK~ 338 (473)
T PHA02542 261 MEKLRSKT-QGKLIIKQYPTGGAHAGHFRALLNELKLK-KNFKPDVIIVDYLGICASSRLRVSSENSYTYVKAIAEELRG 338 (473)
T ss_pred HHHHHHHh-CCCceeecCCCCCCCHHHHHHHHHHHHHh-cCCCCCEEEEechhhccCCcccCCCCChHHHHHHHHHHHHH
Confidence 0000 112222 3566677777776432 1113799999999999532 345557778888888
Q ss_pred hhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEecc
Q 000107 673 AAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSAT 708 (2191)
Q Consensus 673 ~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSAT 708 (2191)
++.+ .++.+|++|=.
T Consensus 339 lAke---------------------l~vpVi~lsQL 353 (473)
T PHA02542 339 LAVE---------------------HDVVVWTAAQT 353 (473)
T ss_pred HHHH---------------------hCCeEEEEEee
Confidence 8753 56888888776
No 341
>PRK06321 replicative DNA helicase; Provisional
Probab=89.51 E-value=1.7 Score=57.23 Aligned_cols=145 Identities=14% Similarity=0.163 Sum_probs=81.3
Q ss_pred ccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEE-eccCCCCCC--
Q 000107 537 GVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSY-YGNQGGGSL-- 613 (2191)
Q Consensus 537 ~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~-~G~~~~~~l-- 613 (2191)
++..|.-+||.|.||.|||..+.-.+.......+..++|... ..-..|+..++-.... ++....+ .|......+
T Consensus 222 Gl~~G~LiiiaarPgmGKTafal~ia~~~a~~~g~~v~~fSL-EMs~~ql~~Rlla~~s--~v~~~~i~~~~l~~~e~~~ 298 (472)
T PRK06321 222 GFSPSNLMILAARPAMGKTALALNIAENFCFQNRLPVGIFSL-EMTVDQLIHRIICSRS--EVESKKISVGDLSGRDFQR 298 (472)
T ss_pred CCCCCcEEEEEeCCCCChHHHHHHHHHHHHHhcCCeEEEEec-cCCHHHHHHHHHHhhc--CCCHHHhhcCCCCHHHHHH
Confidence 466788889999999999988765433333345667776642 2223333433322111 2211111 121111000
Q ss_pred -------CCCCceEEE-----chHHHHHHHHHhhhcCCCCccceEEEccccccccc-------chhHHHHHHHHHHHHhh
Q 000107 614 -------PKDTSVAVC-----TIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQ-------NRGYLLELLLTKLRYAA 674 (2191)
Q Consensus 614 -------~~~~~IiV~-----TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~-------~RG~~lE~lL~kLr~~~ 674 (2191)
-.+..+.|. |.+.+...++++... ..+++||||=++.|... .|...+..+...|+.++
T Consensus 299 ~~~a~~~l~~~~~~idd~~~~ti~~i~~~~r~~~~~---~~~~lvvIDyLql~~~~~~~~~~~~r~~ei~~Isr~LK~lA 375 (472)
T PRK06321 299 IVSVVNEMQEHTLLIDDQPGLKITDLRARARRMKES---YDIQFLIIDYLQLLSGSGNLRNSESRQTEISEISRMLKNLA 375 (472)
T ss_pred HHHHHHHHHcCCEEEeCCCCCCHHHHHHHHHHHHHh---cCCCEEEEcchHHcCCCCccCCcchHHHHHHHHHHHHHHHH
Confidence 012345554 555555555554332 35899999999998632 23445666777788776
Q ss_pred cCCCCCCCCCCCCCCCCCCCCCCCCceEEEEecc
Q 000107 675 GEGTSDSSSGENSGTSSGKADPAHGLQIVGMSAT 708 (2191)
Q Consensus 675 ~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSAT 708 (2191)
.+ .++.+|++|-.
T Consensus 376 ke---------------------l~vpVi~lsQL 388 (472)
T PRK06321 376 RE---------------------LNIPILCLSQL 388 (472)
T ss_pred HH---------------------hCCcEEEEeec
Confidence 43 56788888776
No 342
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=89.49 E-value=2.6 Score=55.96 Aligned_cols=42 Identities=21% Similarity=0.332 Sum_probs=26.2
Q ss_pred HHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHH
Q 000107 625 EKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKL 670 (2191)
Q Consensus 625 Ekl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kL 670 (2191)
+.+..++......+...+..+|||||+|++.. ..++.++..+
T Consensus 111 d~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~----~a~naLLk~L 152 (507)
T PRK06645 111 DDIRRIIESAEYKPLQGKHKIFIIDEVHMLSK----GAFNALLKTL 152 (507)
T ss_pred HHHHHHHHHHHhccccCCcEEEEEEChhhcCH----HHHHHHHHHH
Confidence 34444554443445667889999999999863 2344444444
No 343
>PRK09354 recA recombinase A; Provisional
Probab=89.43 E-value=0.85 Score=57.35 Aligned_cols=93 Identities=17% Similarity=0.249 Sum_probs=60.3
Q ss_pred cccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCCC
Q 000107 536 DGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPK 615 (2191)
Q Consensus 536 ~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~~ 615 (2191)
.++-.|.-+.|.+|+|+|||+.+...+.... ..|.+++||-.--++-.+. +..+|+.+.
T Consensus 55 GGip~G~IteI~G~~GsGKTtLal~~~~~~~-~~G~~~~yId~E~s~~~~~-------a~~lGvdld------------- 113 (349)
T PRK09354 55 GGLPRGRIVEIYGPESSGKTTLALHAIAEAQ-KAGGTAAFIDAEHALDPVY-------AKKLGVDID------------- 113 (349)
T ss_pred CCCcCCeEEEEECCCCCCHHHHHHHHHHHHH-HcCCcEEEECCccchHHHH-------HHHcCCCHH-------------
Confidence 3566788999999999999999887766543 4688999998766655432 222333221
Q ss_pred CCceEEEc---hHHHHHHHHHhhhcCCCCccceEEEcccccc
Q 000107 616 DTSVAVCT---IEKANSLVNRMLEEGRLSEIGIIVIDELHMV 654 (2191)
Q Consensus 616 ~~~IiV~T---pEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l 654 (2191)
++++.. .|.+..++..+... ..+++||||=+-.+
T Consensus 114 --~lli~qp~~~Eq~l~i~~~li~s---~~~~lIVIDSvaaL 150 (349)
T PRK09354 114 --NLLVSQPDTGEQALEIADTLVRS---GAVDLIVVDSVAAL 150 (349)
T ss_pred --HeEEecCCCHHHHHHHHHHHhhc---CCCCEEEEeChhhh
Confidence 233333 45555555544332 46889999987654
No 344
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=89.38 E-value=1.4 Score=59.82 Aligned_cols=24 Identities=17% Similarity=0.403 Sum_probs=18.1
Q ss_pred eEEEEcCCCCchhHHHHHHHHHHHH
Q 000107 543 NLVYCASTSAGKSFVAEILMLRRLI 567 (2191)
Q Consensus 543 nlIi~APTGSGKTlvael~iL~~ll 567 (2191)
-+|++||.|+|||+++.+. .+.+.
T Consensus 40 AyLFtGPpGvGKTTlAriL-AKaLn 63 (830)
T PRK07003 40 AYLFTGTRGVGKTTLSRIF-AKALN 63 (830)
T ss_pred EEEEECCCCCCHHHHHHHH-HHHhc
Confidence 5699999999999987653 34443
No 345
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=89.36 E-value=1.2 Score=57.49 Aligned_cols=35 Identities=11% Similarity=0.194 Sum_probs=24.1
Q ss_pred CCeEEEEcCCCCchhHHHHHHHHHHHHhc--CCEEEEE
Q 000107 541 RRNLVYCASTSAGKSFVAEILMLRRLIST--GKMALLV 576 (2191)
Q Consensus 541 gknlIi~APTGSGKTlvael~iL~~ll~~--g~kaL~I 576 (2191)
..+++|+||+|+|||.+.-. +++.+... +..++++
T Consensus 55 ~~~~lI~G~~GtGKT~l~~~-v~~~l~~~~~~~~~v~i 91 (394)
T PRK00411 55 PLNVLIYGPPGTGKTTTVKK-VFEELEEIAVKVVYVYI 91 (394)
T ss_pred CCeEEEECCCCCCHHHHHHH-HHHHHHHhcCCcEEEEE
Confidence 46899999999999988654 34444333 3455665
No 346
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=89.33 E-value=2.5 Score=57.99 Aligned_cols=22 Identities=18% Similarity=0.229 Sum_probs=16.9
Q ss_pred EEEEcCCCCchhHHHHHHHHHHH
Q 000107 544 LVYCASTSAGKSFVAEILMLRRL 566 (2191)
Q Consensus 544 lIi~APTGSGKTlvael~iL~~l 566 (2191)
++|+|+||+|||++.-.. ++.+
T Consensus 784 LYIyG~PGTGKTATVK~V-LrEL 805 (1164)
T PTZ00112 784 LYISGMPGTGKTATVYSV-IQLL 805 (1164)
T ss_pred EEEECCCCCCHHHHHHHH-HHHH
Confidence 469999999999987554 3444
No 347
>PRK07740 hypothetical protein; Provisional
Probab=89.30 E-value=5.9 Score=47.81 Aligned_cols=101 Identities=12% Similarity=0.058 Sum_probs=62.4
Q ss_pred HHHHHHHHHhhccCCccEEEechHHHHHHHHhcCcccccccCccccccccccccccccccccccCCCCccchHHHHHHhc
Q 000107 1583 KQRWKRIGEIMEKRDVRKFTWNMKVQIQVLKHAAVSIQRFGGLNLVGTSLGLENVGSSFLLLSPVHLKDGIDMCIVSWIL 1662 (2191)
Q Consensus 1583 ~~~~~~L~~lLe~~~v~kv~hNlK~dl~vL~~~gi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~lAawLL 1662 (2191)
.+.+..+..++.+ ...|+||+.||+..|.+......+. +. ...++||+..+..+
T Consensus 129 ~evl~~f~~fi~~--~~lVahna~fD~~fL~~~~~~~~~~-----------------------~~-~~~~iDt~~l~r~l 182 (244)
T PRK07740 129 AEVLHRFYAFIGA--GVLVAHHAGHDKAFLRHALWRTYRQ-----------------------PF-THRLIDTMFLTKLL 182 (244)
T ss_pred HHHHHHHHHHhCC--CEEEEeCHHHHHHHHHHHHHHhcCC-----------------------Cc-CCCeechHHHHHHH
Confidence 3455666666654 4789999999999886532110000 00 01368999888888
Q ss_pred CCCCCCCCchhHHHHHHHhhChHHHHHhhccCchhhhhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Q 000107 1663 WPDDERSSNPNLEKEVKKRLSSEAAAAANRSGRWKNQMRRAAHNGCCRRVAQTRALCSVLWKLLVSE 1729 (2191)
Q Consensus 1663 ~P~~~~~~l~~L~~~~~~~l~~e~~~~~~~~g~~~~~~~~~~~~ya~~Da~~t~~L~~~L~~~L~~~ 1729 (2191)
.|....++| +.++. +++.+. .+ .+.|..||.+|.+|+..+...+.+.
T Consensus 183 ~~~~~~~sL---~~l~~-~~gi~~------~~----------~H~Al~Da~ata~l~~~ll~~~~~~ 229 (244)
T PRK07740 183 AHERDFPTL---DDALA-YYGIPI------PR----------RHHALGDALMTAKLWAILLVEAQQR 229 (244)
T ss_pred cCCCCCCCH---HHHHH-HCCcCC------CC----------CCCcHHHHHHHHHHHHHHHHHHHHc
Confidence 886556654 44432 333321 11 1346789999999998888777653
No 348
>PRK14670 uvrC excinuclease ABC subunit C; Provisional
Probab=89.15 E-value=1.1 Score=59.72 Aligned_cols=79 Identities=25% Similarity=0.325 Sum_probs=61.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhccCchhhhhhcCCCCCCHHHHHHHHHcCCCCHHHHHcCCH
Q 000107 1184 MVQALQENAGRFASMVSVFCERLGWYDLEGLIAKFQNRVSFGVRAEIVELTTIPYVKGSRARALYKAGLRTPLAIAEASI 1263 (2191)
Q Consensus 1184 ~lq~l~~~a~~~a~~v~~fc~~lg~~~~~~ll~~~~~RL~~Gv~~ELl~L~~ip~v~~~RAR~Ly~aG~~t~~~la~a~~ 1263 (2191)
.||.+++.|.+||-.. +. +++.+ .+ ..|-.|||||..|.++|++. |.|++.|.+|+.
T Consensus 489 lLq~iRDEaHRFAit~-----------hR----k~R~k----~~---s~L~~I~GiG~kr~~~LL~~-Fgs~~~I~~As~ 545 (574)
T PRK14670 489 ILQNVRDEAHRKANGF-----------NK----KLREN----IK---LNYTKIKGIGEKKAKKILKS-LGTYKDILLLNE 545 (574)
T ss_pred HHHHHHHHHHHHHHHH-----------HH----Hhhcc----cc---cccccCCCCCHHHHHHHHHH-hCCHHHHHhCCH
Confidence 5888999999887532 11 12222 22 36779999999999999987 889999999999
Q ss_pred HHHHHHHhhcchhHHHHHhhhhHHHHHHHHHHHH
Q 000107 1264 SEIVKALFESSSWIAEAQRRVQLGVAKKIKNGAR 1297 (2191)
Q Consensus 1264 ~~l~~~l~~~~~~~~~~~~~~~~~~A~~I~~~A~ 1297 (2191)
++|.++ ++++.++|..|.+..+
T Consensus 546 eeL~~v------------~gi~~~~A~~I~~~l~ 567 (574)
T PRK14670 546 DEIAEK------------MKINIKMAKKIKKFAE 567 (574)
T ss_pred HHHHhC------------CCCCHHHHHHHHHHHH
Confidence 999988 5677889999987543
No 349
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=89.07 E-value=2.4 Score=55.74 Aligned_cols=42 Identities=10% Similarity=0.161 Sum_probs=28.3
Q ss_pred CeEEEEcCCCCchhHHHHHHHHHHHHhc--CCEEEEEchhHHHHHH
Q 000107 542 RNLVYCASTSAGKSFVAEILMLRRLIST--GKMALLVLPYVSICAE 585 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael~iL~~ll~~--g~kaL~I~P~raLA~q 585 (2191)
..+++.||+|+|||..+. ++.+.+... +.+++|+.. ..+..+
T Consensus 149 ~~l~l~G~~G~GKThL~~-ai~~~~~~~~~~~~v~yi~~-~~~~~~ 192 (450)
T PRK00149 149 NPLFIYGGVGLGKTHLLH-AIGNYILEKNPNAKVVYVTS-EKFTND 192 (450)
T ss_pred CeEEEECCCCCCHHHHHH-HHHHHHHHhCCCCeEEEEEH-HHHHHH
Confidence 569999999999998763 455555544 567777744 344433
No 350
>PRK14873 primosome assembly protein PriA; Provisional
Probab=88.95 E-value=1.7 Score=59.33 Aligned_cols=92 Identities=14% Similarity=0.171 Sum_probs=72.7
Q ss_pred CCChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhh
Q 000107 762 GKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEET 841 (2191)
Q Consensus 762 ~~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~ 841 (2191)
..+.+....++.+.+..|+++||.+|....+..+...|...+..
T Consensus 171 SGKTevyl~~i~~~l~~Gk~vLvLvPEi~lt~q~~~rl~~~f~~------------------------------------ 214 (665)
T PRK14873 171 EDWARRLAAAAAATLRAGRGALVVVPDQRDVDRLEAALRALLGA------------------------------------ 214 (665)
T ss_pred CcHHHHHHHHHHHHHHcCCeEEEEecchhhHHHHHHHHHHHcCC------------------------------------
Confidence 34566777888889999999999999999888888877665421
Q ss_pred cCCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEe
Q 000107 842 LPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIF 892 (2191)
Q Consensus 842 l~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI 892 (2191)
..|+.+|++++..+|........+|..+|+|.|..+ .=.-+++...||
T Consensus 215 --~~v~~lhS~l~~~~R~~~w~~~~~G~~~IViGtRSA-vFaP~~~LgLII 262 (665)
T PRK14873 215 --GDVAVLSAGLGPADRYRRWLAVLRGQARVVVGTRSA-VFAPVEDLGLVA 262 (665)
T ss_pred --CcEEEECCCCCHHHHHHHHHHHhCCCCcEEEEccee-EEeccCCCCEEE
Confidence 128889999999999999999999999999999763 334455554443
No 351
>PRK07942 DNA polymerase III subunit epsilon; Provisional
Probab=88.90 E-value=5.9 Score=47.47 Aligned_cols=98 Identities=12% Similarity=0.107 Sum_probs=53.2
Q ss_pred HHHHHHHHhhccCCccEEEechHHHHHHHHhcCcccccccCccccccccccccccccccccccCCCCccchHHHHHHhcC
Q 000107 1584 QRWKRIGEIMEKRDVRKFTWNMKVQIQVLKHAAVSIQRFGGLNLVGTSLGLENVGSSFLLLSPVHLKDGIDMCIVSWILW 1663 (2191)
Q Consensus 1584 ~~~~~L~~lLe~~~v~kv~hNlK~dl~vL~~~gi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~lAawLL~ 1663 (2191)
+.+..+..++.. +...|+||+.||+.+|.+.. ...+ .+......++||+..++.++
T Consensus 81 e~~~~l~~~~~~-~~~lVahNa~FD~~fL~~~~---~r~~--------------------~~~~~~~~~iDt~~l~~~~~ 136 (232)
T PRK07942 81 EIADALREAWAR-GVPVVVFNAPYDLTVLDREL---RRHG--------------------LPSLVPGPVIDPYVIDKAVD 136 (232)
T ss_pred HHHHHHHHHhhc-CCEEEEeCcHhhHHHHHHHH---HHcC--------------------CCCccCCcEeeHHHHHhhhh
Confidence 334444444432 45679999999998886521 1110 00000012589998888776
Q ss_pred CCC-CCCCchhHHHHHHHhhChHHHHHhhccCchhhhhHHHHhhhHHHHHHHHHHHHHHHHHH
Q 000107 1664 PDD-ERSSNPNLEKEVKKRLSSEAAAAANRSGRWKNQMRRAAHNGCCRRVAQTRALCSVLWKL 1725 (2191)
Q Consensus 1664 P~~-~~~~l~~L~~~~~~~l~~e~~~~~~~~g~~~~~~~~~~~~ya~~Da~~t~~L~~~L~~~ 1725 (2191)
+.. ..++ |..++. +++.+.. + ...|..||.+|.+|+..+...
T Consensus 137 ~~~~~~~~---L~~l~~-~~gi~~~------~----------aH~Al~Da~ata~l~~~l~~~ 179 (232)
T PRK07942 137 RYRKGKRT---LTALCE-HYGVRLD------N----------AHEATADALAAARVAWALARR 179 (232)
T ss_pred cccCCCCC---HHHHHH-HcCCCCC------C----------CCChHHHHHHHHHHHHHHHHH
Confidence 632 2344 444433 2333210 1 234678999998888776543
No 352
>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=88.90 E-value=0.82 Score=57.01 Aligned_cols=93 Identities=17% Similarity=0.243 Sum_probs=59.2
Q ss_pred cccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCCC
Q 000107 536 DGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPK 615 (2191)
Q Consensus 536 ~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~~ 615 (2191)
.++-.|+-+.|.+|+|+|||+.+...+... ...+.+++||-+--++-.+.+ ..+|+.+
T Consensus 50 GGlp~G~iteI~Gp~GsGKTtLal~~~~~~-~~~g~~~vyId~E~~~~~~~a-------~~lGvd~-------------- 107 (325)
T cd00983 50 GGYPKGRIIEIYGPESSGKTTLALHAIAEA-QKLGGTVAFIDAEHALDPVYA-------KKLGVDL-------------- 107 (325)
T ss_pred CCccCCeEEEEECCCCCCHHHHHHHHHHHH-HHcCCCEEEECccccHHHHHH-------HHcCCCH--------------
Confidence 356678899999999999999887766554 346888999987655544322 2223221
Q ss_pred CCceEEE---chHHHHHHHHHhhhcCCCCccceEEEcccccc
Q 000107 616 DTSVAVC---TIEKANSLVNRMLEEGRLSEIGIIVIDELHMV 654 (2191)
Q Consensus 616 ~~~IiV~---TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l 654 (2191)
.++++. +.|.+..++..+... ..+++||||=+-.+
T Consensus 108 -~~l~v~~p~~~eq~l~i~~~li~s---~~~~lIVIDSvaal 145 (325)
T cd00983 108 -DNLLISQPDTGEQALEIADSLVRS---GAVDLIVVDSVAAL 145 (325)
T ss_pred -HHheecCCCCHHHHHHHHHHHHhc---cCCCEEEEcchHhh
Confidence 113333 345555555544332 35899999987654
No 353
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=88.76 E-value=1.6 Score=58.87 Aligned_cols=95 Identities=12% Similarity=0.134 Sum_probs=47.8
Q ss_pred CeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCCCCCceEE
Q 000107 542 RNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPKDTSVAV 621 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~~~~~IiV 621 (2191)
..+|++||.|+|||.++-+.. +.+.......-.-+-.. ..+..+.......|..+-+.. .+
T Consensus 39 hayLf~Gp~GtGKTt~Ak~lA-kal~c~~~~~~~pC~~C-------~~C~~i~~g~~~dv~eidaas---------~~-- 99 (559)
T PRK05563 39 HAYLFSGPRGTGKTSAAKIFA-KAVNCLNPPDGEPCNEC-------EICKAITNGSLMDVIEIDAAS---------NN-- 99 (559)
T ss_pred eEEEEECCCCCCHHHHHHHHH-HHhcCCCCCCCCCCCcc-------HHHHHHhcCCCCCeEEeeccc---------cC--
Confidence 458889999999999987653 34432211000001111 122222222222332221110 00
Q ss_pred EchHHHHHHHHHhhhcCCCCccceEEEcccccccc
Q 000107 622 CTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVAD 656 (2191)
Q Consensus 622 ~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d 656 (2191)
..+.+..+.......+......++||||+|+|..
T Consensus 100 -~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~ 133 (559)
T PRK05563 100 -GVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLST 133 (559)
T ss_pred -CHHHHHHHHHHHhhCcccCCeEEEEEECcccCCH
Confidence 1233444554443445567789999999999864
No 354
>PRK07883 hypothetical protein; Validated
Probab=88.76 E-value=3.5 Score=55.53 Aligned_cols=96 Identities=9% Similarity=0.035 Sum_probs=59.5
Q ss_pred HHHHHHHHHhhccCCccEEEechHHHHHHHHh----cCcccccccCccccccccccccccccccccccCCCCccchHHHH
Q 000107 1583 KQRWKRIGEIMEKRDVRKFTWNMKVQIQVLKH----AAVSIQRFGGLNLVGTSLGLENVGSSFLLLSPVHLKDGIDMCIV 1658 (2191)
Q Consensus 1583 ~~~~~~L~~lLe~~~v~kv~hNlK~dl~vL~~----~gi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~lA 1658 (2191)
.+.+..+..++.+ ...|+||+.||+..|++ +|+.... ..++||+..
T Consensus 83 ~evl~~f~~fl~~--~~lVaHNa~FD~~fL~~~~~r~g~~~~~----------------------------~~~iDTl~l 132 (557)
T PRK07883 83 EEVLPAFLEFARG--AVLVAHNAPFDIGFLRAAAARCGYPWPG----------------------------PPVLCTVRL 132 (557)
T ss_pred HHHHHHHHHHhcC--CEEEEeCcHHHHHHHHHHHHHcCCCCCC----------------------------CCcEecHHH
Confidence 4556677777764 56889999999998865 3332211 135899855
Q ss_pred HHhcCC--CCCCCCchhHHHHHHHhhChHHHHHhhccCchhhhhHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Q 000107 1659 SWILWP--DDERSSNPNLEKEVKKRLSSEAAAAANRSGRWKNQMRRAAHNGCCRRVAQTRALCSVLWKLLVS 1728 (2191)
Q Consensus 1659 awLL~P--~~~~~~l~~L~~~~~~~l~~e~~~~~~~~g~~~~~~~~~~~~ya~~Da~~t~~L~~~L~~~L~~ 1728 (2191)
+.-+.| ....++ |..++. +++.+.. ..+.|..||.+|..++..+...+..
T Consensus 133 ar~l~~~~~~~~~~---L~~L~~-~~gi~~~----------------~~H~Al~DA~ata~l~~~l~~~~~~ 184 (557)
T PRK07883 133 ARRVLPRDEAPNVR---LSTLAR-LFGATTT----------------PTHRALDDARATVDVLHGLIERLGN 184 (557)
T ss_pred HHHhcccCCCCCCC---HHHHHH-HCCcccC----------------CCCCHHHHHHHHHHHHHHHHHHHHh
Confidence 544444 334454 443332 3333210 1245778999999999888877754
No 355
>PRK14973 DNA topoisomerase I; Provisional
Probab=88.74 E-value=0.39 Score=67.48 Aligned_cols=38 Identities=13% Similarity=0.052 Sum_probs=36.8
Q ss_pred hhcCCCCCCHHHHHHHHHcCCCCHHHHHcCCHHHHHHH
Q 000107 1232 ELTTIPYVKGSRARALYKAGLRTPLAIAEASISEIVKA 1269 (2191)
Q Consensus 1232 ~L~~ip~v~~~RAR~Ly~aG~~t~~~la~a~~~~l~~~ 1269 (2191)
.||+++||..+-|..||++||+|++|++.|+|++|..+
T Consensus 803 ~~~~~~gv~~~~~~~~~~~G~~~~~d~~~a~p~~La~~ 840 (936)
T PRK14973 803 SRLKEIGVPAVSLKKYQEAGFDTPEDFCSVHPAYLALK 840 (936)
T ss_pred HhhcccCCCHHHHHHHHHhcCCCHHHHHhcCHHHHhcC
Confidence 59999999999999999999999999999999999987
No 356
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=88.61 E-value=1.8 Score=59.84 Aligned_cols=82 Identities=15% Similarity=0.237 Sum_probs=65.6
Q ss_pred HHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCC
Q 000107 775 VVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLT 854 (2191)
Q Consensus 775 ~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs 854 (2191)
.+..+.+++|.+||+.-|.+.+..+.+.+...+ ..|+.+||+++
T Consensus 306 ~~~~g~q~lilaPT~~LA~Q~~~~l~~l~~~~~------------------------------------i~v~ll~G~~~ 349 (681)
T PRK10917 306 AIEAGYQAALMAPTEILAEQHYENLKKLLEPLG------------------------------------IRVALLTGSLK 349 (681)
T ss_pred HHHcCCeEEEEeccHHHHHHHHHHHHHHHhhcC------------------------------------cEEEEEcCCCC
Confidence 345688999999999988888888876654321 23889999999
Q ss_pred HHHHHHHHHHhhcCCceEEEeccc-ccccCCCCCceEEe
Q 000107 855 VEEREVVETCYRKGLVRVLTATST-LAAGVNLPARRVIF 892 (2191)
Q Consensus 855 ~~eR~~Ve~~Fr~G~ikVLVATst-La~GVNLPav~VVI 892 (2191)
..+|..+...+.+|...|+|+|.. +...+.++...+||
T Consensus 350 ~~~r~~~~~~l~~g~~~IvVgT~~ll~~~v~~~~l~lvV 388 (681)
T PRK10917 350 GKERREILEAIASGEADIVIGTHALIQDDVEFHNLGLVI 388 (681)
T ss_pred HHHHHHHHHHHhCCCCCEEEchHHHhcccchhcccceEE
Confidence 999999999999999999999975 44467777776554
No 357
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=88.52 E-value=2.8 Score=54.86 Aligned_cols=36 Identities=17% Similarity=0.267 Sum_probs=28.0
Q ss_pred CeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEch
Q 000107 542 RNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLP 578 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P 578 (2191)
..+++.||+|+|||..+. ++...+...+.+++|+..
T Consensus 142 npl~L~G~~G~GKTHLl~-Ai~~~l~~~~~~v~yi~~ 177 (445)
T PRK12422 142 NPIYLFGPEGSGKTHLMQ-AAVHALRESGGKILYVRS 177 (445)
T ss_pred ceEEEEcCCCCCHHHHHH-HHHHHHHHcCCCEEEeeH
Confidence 468999999999998764 555666666888888864
No 358
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=88.51 E-value=1.9 Score=57.93 Aligned_cols=25 Identities=20% Similarity=0.420 Sum_probs=19.1
Q ss_pred eEEEEcCCCCchhHHHHHHHHHHHHh
Q 000107 543 NLVYCASTSAGKSFVAEILMLRRLIS 568 (2191)
Q Consensus 543 nlIi~APTGSGKTlvael~iL~~ll~ 568 (2191)
-+|++||.|.|||+++.+. .+.+..
T Consensus 40 A~LFtGP~GvGKTTLAriL-AkaLnC 64 (700)
T PRK12323 40 AYLFTGTRGVGKTTLSRIL-AKSLNC 64 (700)
T ss_pred EEEEECCCCCCHHHHHHHH-HHHhcC
Confidence 5799999999999998653 444443
No 359
>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=88.51 E-value=2.5 Score=57.28 Aligned_cols=112 Identities=14% Similarity=0.068 Sum_probs=73.8
Q ss_pred cCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCCHHH
Q 000107 778 EGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEE 857 (2191)
Q Consensus 778 ~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs~~e 857 (2191)
.++.+||.+.|.+..+.++..|...+. + -.+.+|..+ .
T Consensus 469 ~~G~~lvLfTS~~~~~~~~~~l~~~l~---------------------------------------~-~~l~qg~~~--~ 506 (636)
T TIGR03117 469 AQGGTLVLTTAFSHISAIGQLVELGIP---------------------------------------A-EIVIQSEKN--R 506 (636)
T ss_pred cCCCEEEEechHHHHHHHHHHHHhhcC---------------------------------------C-CEEEeCCCc--c
Confidence 567999999999999888887754321 1 123444332 3
Q ss_pred HHHHHHHhhc----CCceEEEecccccccCCC--------CC--c-eEEee-cCCCCCccc-------------------
Q 000107 858 REVVETCYRK----GLVRVLTATSTLAAGVNL--------PA--R-RVIFR-QPRIGRDFI------------------- 902 (2191)
Q Consensus 858 R~~Ve~~Fr~----G~ikVLVATstLa~GVNL--------Pa--v-~VVI~-~p~~g~~~i------------------- 902 (2191)
|..+++.|+. |.-.||++|..+-.|||+ |+ . .|||+ .|++-.+++
T Consensus 507 ~~~l~~~f~~~~~~~~~~vL~gt~sfweGvDv~~~~~~p~~G~~Ls~ViI~kLPF~~~dp~a~~~~~~~~g~~~f~~~p~ 586 (636)
T TIGR03117 507 LASAEQQFLALYANGIQPVLIAAGGAWTGIDLTHKPVSPDKDNLLTDLIITCAPFGLNRSLSMLKRIRKTSVRPWEIINE 586 (636)
T ss_pred HHHHHHHHHHhhcCCCCcEEEeCCccccccccCCccCCCCCCCcccEEEEEeCCCCcCChHHHHHHHHhcCCChHhhhHH
Confidence 4567788886 468999999999999999 34 2 35554 343222211
Q ss_pred CcccccccccccCCCCCC-CceEEEEEeCh
Q 000107 903 DGTRYRQMAGRAGRTGID-TKGESMLICKP 931 (2191)
Q Consensus 903 s~~~y~QmiGRAGR~G~d-~~Ge~ill~~~ 931 (2191)
....++|-+||--|..-| ..|..+++-..
T Consensus 587 a~i~lkQg~GRLIR~~~D~~~G~i~ilD~R 616 (636)
T TIGR03117 587 SLMMLRQGLGRLVRHPDMPQNRRIHMLDGR 616 (636)
T ss_pred HHHHHHHhcCceeecCCCcCceEEEEEeCC
Confidence 012458999999998855 37866655444
No 360
>PRK08939 primosomal protein DnaI; Reviewed
Probab=88.39 E-value=2 Score=53.44 Aligned_cols=37 Identities=19% Similarity=0.302 Sum_probs=28.3
Q ss_pred cCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEc
Q 000107 540 QRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVL 577 (2191)
Q Consensus 540 ~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~ 577 (2191)
.++++++.||+|+|||..+. ++...+...|..++|+.
T Consensus 155 ~~~gl~L~G~~G~GKThLa~-Aia~~l~~~g~~v~~~~ 191 (306)
T PRK08939 155 KVKGLYLYGDFGVGKSYLLA-AIANELAKKGVSSTLLH 191 (306)
T ss_pred CCCeEEEECCCCCCHHHHHH-HHHHHHHHcCCCEEEEE
Confidence 35799999999999998864 55566666777776653
No 361
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=88.35 E-value=1.7 Score=54.69 Aligned_cols=20 Identities=15% Similarity=0.463 Sum_probs=17.8
Q ss_pred CeEEEEcCCCCchhHHHHHH
Q 000107 542 RNLVYCASTSAGKSFVAEIL 561 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael~ 561 (2191)
-++|+.||+|+|||.++.+.
T Consensus 49 ~SmIl~GPPG~GKTTlA~li 68 (436)
T COG2256 49 HSMILWGPPGTGKTTLARLI 68 (436)
T ss_pred ceeEEECCCCCCHHHHHHHH
Confidence 58999999999999998754
No 362
>PRK07773 replicative DNA helicase; Validated
Probab=88.28 E-value=4.5 Score=57.67 Aligned_cols=145 Identities=16% Similarity=0.178 Sum_probs=83.6
Q ss_pred ccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEE-eccCCCCC---
Q 000107 537 GVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSY-YGNQGGGS--- 612 (2191)
Q Consensus 537 ~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~-~G~~~~~~--- 612 (2191)
++..|.-++|.|++|+|||..+.-.+.+...+.+..++|+. +-.-..|+..++..... ++....+ .|......
T Consensus 213 Gl~~G~livIagrPg~GKT~fal~ia~~~a~~~~~~V~~fS-lEms~~ql~~R~~s~~~--~i~~~~i~~g~l~~~~~~~ 289 (886)
T PRK07773 213 GLHPGQLIIVAARPSMGKTTFGLDFARNCAIRHRLAVAIFS-LEMSKEQLVMRLLSAEA--KIKLSDMRSGRMSDDDWTR 289 (886)
T ss_pred CCCCCcEEEEEeCCCCCcHHHHHHHHHHHHHhcCCeEEEEe-cCCCHHHHHHHHHHHhc--CCCHHHHhcCCCCHHHHHH
Confidence 56678889999999999998887666555445566777664 22233444444433221 1111000 11110000
Q ss_pred ------CCCCCceEE-----EchHHHHHHHHHhhhcCCCCccceEEEccccccccc----chhHHHHHHHHHHHHhhcCC
Q 000107 613 ------LPKDTSVAV-----CTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQ----NRGYLLELLLTKLRYAAGEG 677 (2191)
Q Consensus 613 ------l~~~~~IiV-----~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~----~RG~~lE~lL~kLr~~~~~~ 677 (2191)
.-.+..|.| .|+..+..-++++... ..+++||||=++.|... .|...+..+...|+.++.+
T Consensus 290 ~~~a~~~l~~~~i~i~d~~~~~i~~i~~~~r~~~~~---~~~~lvvIDyLql~~~~~~~~~r~~ei~~isr~LK~lAke- 365 (886)
T PRK07773 290 LARAMGEISEAPIFIDDTPNLTVMEIRAKARRLRQE---ANLGLIVVDYLQLMTSGKKYENRQQEVSEISRHLKLLAKE- 365 (886)
T ss_pred HHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHh---cCCCEEEEcchhhcCCCCCCCCHHHHHHHHHHHHHHHHHH-
Confidence 001223444 2555555555554433 35899999999998632 3555677888888877653
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCceEEEEecc
Q 000107 678 TSDSSSGENSGTSSGKADPAHGLQIVGMSAT 708 (2191)
Q Consensus 678 ~~~s~~~~~~~~~~~~~~~~~~iqII~mSAT 708 (2191)
.++.+|++|-.
T Consensus 366 --------------------l~vpvi~lsQL 376 (886)
T PRK07773 366 --------------------LEVPVVALSQL 376 (886)
T ss_pred --------------------HCCcEEEeccc
Confidence 56788888755
No 363
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=88.27 E-value=2.5 Score=57.39 Aligned_cols=20 Identities=25% Similarity=0.449 Sum_probs=17.2
Q ss_pred CeEEEEcCCCCchhHHHHHH
Q 000107 542 RNLVYCASTSAGKSFVAEIL 561 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael~ 561 (2191)
..+|++||.|+|||+++.+.
T Consensus 39 Ha~Lf~GP~GvGKTTlAriL 58 (709)
T PRK08691 39 HAYLLTGTRGVGKTTIARIL 58 (709)
T ss_pred eEEEEECCCCCcHHHHHHHH
Confidence 46899999999999998654
No 364
>PF13173 AAA_14: AAA domain
Probab=88.22 E-value=1.5 Score=47.35 Aligned_cols=34 Identities=18% Similarity=0.312 Sum_probs=23.0
Q ss_pred CCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEE
Q 000107 541 RRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLV 576 (2191)
Q Consensus 541 gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I 576 (2191)
++.+++.||.|+|||+.....+-+ +. ...+++|+
T Consensus 2 ~~~~~l~G~R~vGKTtll~~~~~~-~~-~~~~~~yi 35 (128)
T PF13173_consen 2 RKIIILTGPRGVGKTTLLKQLAKD-LL-PPENILYI 35 (128)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHH-hc-ccccceee
Confidence 578999999999999887554322 22 23445554
No 365
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=88.13 E-value=2.6 Score=57.04 Aligned_cols=24 Identities=25% Similarity=0.458 Sum_probs=18.5
Q ss_pred eEEEEcCCCCchhHHHHHHHHHHHH
Q 000107 543 NLVYCASTSAGKSFVAEILMLRRLI 567 (2191)
Q Consensus 543 nlIi~APTGSGKTlvael~iL~~ll 567 (2191)
-++++||.|+|||.++.+. .+.+.
T Consensus 40 a~Lf~Gp~GvGKTtlAr~l-Ak~Ln 63 (618)
T PRK14951 40 AYLFTGTRGVGKTTVSRIL-AKSLN 63 (618)
T ss_pred EEEEECCCCCCHHHHHHHH-HHHhc
Confidence 4699999999999998653 34444
No 366
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=88.10 E-value=1.8 Score=55.97 Aligned_cols=42 Identities=19% Similarity=0.272 Sum_probs=26.7
Q ss_pred HHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHH
Q 000107 625 EKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKL 670 (2191)
Q Consensus 625 Ekl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kL 670 (2191)
+.+..+...+...+.+.+..+|||||+|.+.. ...+.++..+
T Consensus 110 d~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~~----~~~~~LLk~L 151 (397)
T PRK14955 110 DDIRLLRENVRYGPQKGRYRVYIIDEVHMLSI----AAFNAFLKTL 151 (397)
T ss_pred HHHHHHHHHHhhchhcCCeEEEEEeChhhCCH----HHHHHHHHHH
Confidence 44444555544445677889999999999864 2344454444
No 367
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=88.06 E-value=0.85 Score=57.04 Aligned_cols=62 Identities=21% Similarity=0.351 Sum_probs=42.6
Q ss_pred HHHcCCCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHH--hcCCEEEEEchhHHH
Q 000107 517 YKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLI--STGKMALLVLPYVSI 582 (2191)
Q Consensus 517 l~~~Gi~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll--~~g~kaL~I~P~raL 582 (2191)
|.+.|+ +.+.|.+.+.. .+..+++++++|+||||||+.. -+++..+. ....++++|-.+.+|
T Consensus 127 l~~~g~--~~~~~~~~L~~-~v~~~~~ilI~G~tGSGKTTll-~aL~~~~~~~~~~~rivtIEd~~El 190 (319)
T PRK13894 127 YVERGI--MTAAQREAIIA-AVRAHRNILVIGGTGSGKTTLV-NAIINEMVIQDPTERVFIIEDTGEI 190 (319)
T ss_pred HHhcCC--CCHHHHHHHHH-HHHcCCeEEEECCCCCCHHHHH-HHHHHhhhhcCCCceEEEEcCCCcc
Confidence 334554 56788888864 4678899999999999999664 45555442 234577777666554
No 368
>PRK05601 DNA polymerase III subunit epsilon; Validated
Probab=88.01 E-value=5.6 Score=50.22 Aligned_cols=31 Identities=10% Similarity=0.072 Sum_probs=25.1
Q ss_pred HHHHHHHHHHhhccCCccEEEechHHHHHHHHh
Q 000107 1582 IKQRWKRIGEIMEKRDVRKFTWNMKVQIQVLKH 1614 (2191)
Q Consensus 1582 ~~~~~~~L~~lLe~~~v~kv~hNlK~dl~vL~~ 1614 (2191)
+.+.|..|.+++.+ ...|+||+.||+..|.+
T Consensus 112 f~eVl~el~~fL~g--~vLVaHNA~FD~~FL~~ 142 (377)
T PRK05601 112 FSQILKPLDRLIDG--RTLILHNAPRTWGFIVS 142 (377)
T ss_pred HHHHHHHHHHHhCC--CEEEEECcHHHHHHHHH
Confidence 35678888888874 56899999999998765
No 369
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=87.93 E-value=1.8 Score=60.50 Aligned_cols=154 Identities=16% Similarity=0.168 Sum_probs=93.9
Q ss_pred cccCCeEEEEcCCCCchhHHHHHHHHHHHH-----------h------cCCEEEEEchhHHHHHHHHHHHHHHhhccCCe
Q 000107 538 VLQRRNLVYCASTSAGKSFVAEILMLRRLI-----------S------TGKMALLVLPYVSICAEKAEHLEVLLEPLGRH 600 (2191)
Q Consensus 538 il~gknlIi~APTGSGKTlvael~iL~~ll-----------~------~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~ 600 (2191)
...|+.++.+-..|.|||..-....+...- . .-+..|||+|. ++-.|...++..=... +++
T Consensus 371 ~~~g~~~~~ade~~~qk~~~~l~~~l~~~~k~~~~~cS~~~~e~~n~~~tgaTLII~P~-aIl~QW~~EI~kH~~~-~lK 448 (1394)
T KOG0298|consen 371 KKHGKRVQCADEMGWQKTSEKLILELSDLPKLCPSCCSELVKEGENLVETGATLIICPN-AILMQWFEEIHKHISS-LLK 448 (1394)
T ss_pred ccCCcceeehhhhhccchHHHHHHHHhcccccchhhhhHHHhcccceeecCceEEECcH-HHHHHHHHHHHHhccc-cce
Confidence 335788899999999999876554443311 0 12457999997 5667777777654433 478
Q ss_pred EEEEeccCCCCCCC----CCCceEEEchHHHHHHHHHhhhcCC----------------CC--ccceEEEcccccccccc
Q 000107 601 VRSYYGNQGGGSLP----KDTSVAVCTIEKANSLVNRMLEEGR----------------LS--EIGIIVIDELHMVADQN 658 (2191)
Q Consensus 601 V~~~~G~~~~~~l~----~~~~IiV~TpEkl~~Ll~~l~~~~~----------------L~--~l~lVVIDEaH~l~d~~ 658 (2191)
|..|+|........ -++|||++|+..+-.=+..--..+. |- ..=-|++||++|+-..
T Consensus 449 v~~Y~Girk~~~~~~~el~~yDIVlTtYdiLr~El~hte~~~~~R~lR~qsr~~~~~SPL~~v~wWRIclDEaQMvess- 527 (1394)
T KOG0298|consen 449 VLLYFGIRKTFWLSPFELLQYDIVLTTYDILRNELYHTEDFGSDRQLRHQSRYMRPNSPLLMVNWWRICLDEAQMVESS- 527 (1394)
T ss_pred EEEEechhhhcccCchhhhccCEEEeehHHHHhHhhcccccCChhhhhcccCCCCCCCchHHHHHHHHhhhHHHhhcch-
Confidence 99999987543332 2589999999876332211000000 00 1235899999998652
Q ss_pred hhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCceEEEEecc----CCCHHHHHHHhhcc
Q 000107 659 RGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGKADPAHGLQIVGMSAT----MPNVAAVADWLQAA 722 (2191)
Q Consensus 659 RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~~~~~~~iqII~mSAT----L~N~~~la~wL~a~ 722 (2191)
....-.++.+| +.+..-+.|.| +.+.--+..||+..
T Consensus 528 -sS~~a~M~~rL---------------------------~~in~W~VTGTPiq~Iddl~~Ll~fLk~~ 567 (1394)
T KOG0298|consen 528 -SSAAAEMVRRL---------------------------HAINRWCVTGTPIQKIDDLFPLLEFLKLP 567 (1394)
T ss_pred -HHHHHHHHHHh---------------------------hhhceeeecCCchhhhhhhHHHHHHhcCC
Confidence 33333344444 33456889999 44444555666544
No 370
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=87.83 E-value=1.1 Score=62.53 Aligned_cols=89 Identities=20% Similarity=0.213 Sum_probs=65.5
Q ss_pred CCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcC---CEEEEEchhHHHHHHHHHHHHHHhhccCC
Q 000107 523 SKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTG---KMALLVLPYVSICAEKAEHLEVLLEPLGR 599 (2191)
Q Consensus 523 ~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g---~kaL~I~P~raLA~q~~~~l~~l~~~lg~ 599 (2191)
..|+|-|.+++.. ...+++|.|..|||||.+..--+...+...+ .++|++.-|+..|.++.+++.+++..
T Consensus 3 ~~Ln~~Q~~av~~----~~g~~lV~AgaGSGKT~~l~~ria~Li~~~~i~P~~IL~lTFT~kAA~em~~Rl~~~~~~--- 75 (726)
T TIGR01073 3 AHLNPEQREAVKT----TEGPLLIMAGAGSGKTRVLTHRIAHLIAEKNVAPWNILAITFTNKAAREMKERVEKLLGP--- 75 (726)
T ss_pred cccCHHHHHHHhC----CCCCEEEEeCCCCCHHHHHHHHHHHHHHcCCCCHHHeeeeeccHHHHHHHHHHHHHHhcc---
Confidence 4689999999864 3578999999999999987766655554322 47999999999999999888776421
Q ss_pred eEEEEeccCCCCCCCCCCceEEEchHHHH-HHHHH
Q 000107 600 HVRSYYGNQGGGSLPKDTSVAVCTIEKAN-SLVNR 633 (2191)
Q Consensus 600 ~V~~~~G~~~~~~l~~~~~IiV~TpEkl~-~Ll~~ 633 (2191)
....+.|+|...+- .++++
T Consensus 76 ---------------~~~~~~i~TFHs~~~~iLr~ 95 (726)
T TIGR01073 76 ---------------VAEDIWISTFHSMCVRILRR 95 (726)
T ss_pred ---------------ccCCcEEEcHHHHHHHHHHH
Confidence 01357899987753 34544
No 371
>TIGR01405 polC_Gram_pos DNA polymerase III, alpha chain, Gram-positive type. The N-terminal region of about 200 amino acids is rich in low-complexity sequence, poorly alignable, and not included n this model.
Probab=87.68 E-value=3.5 Score=59.73 Aligned_cols=100 Identities=19% Similarity=0.233 Sum_probs=63.1
Q ss_pred HHHHHHHHHhhccCCccEEEechHHHHHHHHhcCcccccccCccccccccccccccccccccccCCCCccchHHHHHHhc
Q 000107 1583 KQRWKRIGEIMEKRDVRKFTWNMKVQIQVLKHAAVSIQRFGGLNLVGTSLGLENVGSSFLLLSPVHLKDGIDMCIVSWIL 1662 (2191)
Q Consensus 1583 ~~~~~~L~~lLe~~~v~kv~hNlK~dl~vL~~~gi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~lAawLL 1662 (2191)
.+.+..+..++.+ ...|+||+.||+..|++.- ...+ .++. ...++||+..++.+
T Consensus 258 ~evl~~f~~fl~~--~iLVaHNa~FD~~fL~~~~---~r~g--------------------~~~~-~~~~IDTl~lar~l 311 (1213)
T TIGR01405 258 EEVLEKFKEFFKD--SILVAHNASFDIGFLNTNF---EKVG--------------------LEPL-ENPVIDTLELARAL 311 (1213)
T ss_pred HHHHHHHHHHhCC--CeEEEEChHHHHHHHHHHH---HHcC--------------------CCcc-CCCEeEHHHHHHHH
Confidence 4556777788864 5789999999999887531 1110 0000 01368999888888
Q ss_pred CCCCCCCCchhHHHHHHHhhChHHHHHhhccCchhhhhHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Q 000107 1663 WPDDERSSNPNLEKEVKKRLSSEAAAAANRSGRWKNQMRRAAHNGCCRRVAQTRALCSVLWKLLVS 1728 (2191)
Q Consensus 1663 ~P~~~~~~l~~L~~~~~~~l~~e~~~~~~~~g~~~~~~~~~~~~ya~~Da~~t~~L~~~L~~~L~~ 1728 (2191)
.|+...++|.+| +.. ++.+.. .++.|..||.+|..++..+..++.+
T Consensus 312 ~p~~k~~kL~~L---ak~-lgi~~~----------------~~HrAl~DA~aTa~I~~~ll~~l~~ 357 (1213)
T TIGR01405 312 NPEYKSHRLGNI---CKK-LGVDLD----------------DHHRADYDAEATAKVFKVMVEQLKE 357 (1213)
T ss_pred hccCCCCCHHHH---HHH-cCCCCC----------------CCcCHHHHHHHHHHHHHHHHHHHHH
Confidence 887777765544 332 232210 1345778888888888887766643
No 372
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=87.63 E-value=4 Score=51.08 Aligned_cols=47 Identities=23% Similarity=0.442 Sum_probs=32.8
Q ss_pred CCCCCHHHHHhhhhc--ccccCC---eEEEEcCCCCchhHHHHHHHHHHHHhc
Q 000107 522 ISKLYPWQVECLHVD--GVLQRR---NLVYCASTSAGKSFVAEILMLRRLIST 569 (2191)
Q Consensus 522 i~~l~p~Q~eal~~~--~il~gk---nlIi~APTGSGKTlvael~iL~~ll~~ 569 (2191)
+..+||||..++... .+..|+ -++++||.|.||+..+.. +.+.++..
T Consensus 2 ~~~~yPW~~~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~-lA~~LlC~ 53 (319)
T PRK08769 2 TSAFSPWQQRAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALA-LAEHVLAS 53 (319)
T ss_pred CccccccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHH-HHHHHhCC
Confidence 357899999988641 112333 599999999999988754 44555543
No 373
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=87.55 E-value=14 Score=45.35 Aligned_cols=104 Identities=13% Similarity=0.129 Sum_probs=57.3
Q ss_pred cCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEc--hhH-HHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCCCC
Q 000107 540 QRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVL--PYV-SICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPKD 616 (2191)
Q Consensus 540 ~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~--P~r-aLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~~~ 616 (2191)
.+..+.+.+|+|+|||..+...+.. +...+.++.++. +.+ +.+. +|+.+...+++.+.
T Consensus 74 ~~~~i~~~G~~g~GKTtl~~~l~~~-l~~~~~~v~~i~~D~~ri~~~~----ql~~~~~~~~~~~~-------------- 134 (270)
T PRK06731 74 EVQTIALIGPTGVGKTTTLAKMAWQ-FHGKKKTVGFITTDHSRIGTVQ----QLQDYVKTIGFEVI-------------- 134 (270)
T ss_pred CCCEEEEECCCCCcHHHHHHHHHHH-HHHcCCeEEEEecCCCCHHHHH----HHHHHhhhcCceEE--------------
Confidence 4579999999999999988765543 333455665554 333 2222 33333333343331
Q ss_pred CceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHH
Q 000107 617 TSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKL 670 (2191)
Q Consensus 617 ~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kL 670 (2191)
...+++.+...+..+. ...++++||||-+=.... -...++.+...+
T Consensus 135 ---~~~~~~~l~~~l~~l~---~~~~~D~ViIDt~Gr~~~--~~~~l~el~~~~ 180 (270)
T PRK06731 135 ---AVRDEAAMTRALTYFK---EEARVDYILIDTAGKNYR--ASETVEEMIETM 180 (270)
T ss_pred ---ecCCHHHHHHHHHHHH---hcCCCCEEEEECCCCCcC--CHHHHHHHHHHH
Confidence 1124555544444321 234679999999865421 133455554444
No 374
>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB. The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.
Probab=87.53 E-value=1.3 Score=55.07 Aligned_cols=56 Identities=20% Similarity=0.300 Sum_probs=39.5
Q ss_pred CCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHh--cCCEEEEEchhHHH
Q 000107 525 LYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIS--TGKMALLVLPYVSI 582 (2191)
Q Consensus 525 l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~--~g~kaL~I~P~raL 582 (2191)
+.+-|.+.|.. .+..+++++++||||||||+.. -+++..+.. .+.+++++--..++
T Consensus 117 ~~~~~~~~L~~-~v~~~~~ilI~G~tGSGKTTll-~al~~~i~~~~~~~ri~tiEd~~El 174 (299)
T TIGR02782 117 MTAAQRDVLRE-AVLARKNILVVGGTGSGKTTLA-NALLAEIAKNDPTDRVVIIEDTREL 174 (299)
T ss_pred CCHHHHHHHHH-HHHcCCeEEEECCCCCCHHHHH-HHHHHHhhccCCCceEEEECCchhh
Confidence 55666666653 3567899999999999999886 445555543 25678877766555
No 375
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=87.45 E-value=2.7 Score=62.56 Aligned_cols=60 Identities=17% Similarity=0.068 Sum_probs=43.8
Q ss_pred CCCHHHHHhhhhccccc--CCeEEEEcCCCCchhHHHHH--HHHHHHHh-cCCEEEEEchhHHHHHH
Q 000107 524 KLYPWQVECLHVDGVLQ--RRNLVYCASTSAGKSFVAEI--LMLRRLIS-TGKMALLVLPYVSICAE 585 (2191)
Q Consensus 524 ~l~p~Q~eal~~~~il~--gknlIi~APTGSGKTlvael--~iL~~ll~-~g~kaL~I~P~raLA~q 585 (2191)
.|++.|.+++.. ++. ++-++|.|..|+|||++.-. .+++.+.. .+.+++.++||---|.+
T Consensus 967 ~Lt~~Q~~Av~~--il~s~dr~~~I~G~AGTGKTT~l~~v~~~~~~l~~~~~~~V~glAPTgrAAk~ 1031 (1747)
T PRK13709 967 GLTSGQRAATRM--ILESTDRFTVVQGYAGVGKTTQFRAVMSAVNTLPESERPRVVGLGPTHRAVGE 1031 (1747)
T ss_pred CCCHHHHHHHHH--HHhCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhhcccCceEEEECCcHHHHHH
Confidence 689999999986 665 47899999999999987532 22222222 35678889999766654
No 376
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=87.41 E-value=1.1 Score=56.91 Aligned_cols=27 Identities=19% Similarity=0.369 Sum_probs=20.4
Q ss_pred CCeEEEEcCCCCchhHHHHHHHHHHHHh
Q 000107 541 RRNLVYCASTSAGKSFVAEILMLRRLIS 568 (2191)
Q Consensus 541 gknlIi~APTGSGKTlvael~iL~~ll~ 568 (2191)
..|+++.||||+|||.+.-. +++.+..
T Consensus 42 p~n~~iyG~~GTGKT~~~~~-v~~~l~~ 68 (366)
T COG1474 42 PSNIIIYGPTGTGKTATVKF-VMEELEE 68 (366)
T ss_pred CccEEEECCCCCCHhHHHHH-HHHHHHh
Confidence 35799999999999988644 4555554
No 377
>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=87.38 E-value=4.5 Score=47.65 Aligned_cols=41 Identities=20% Similarity=0.192 Sum_probs=32.3
Q ss_pred cccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEc
Q 000107 536 DGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVL 577 (2191)
Q Consensus 536 ~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~ 577 (2191)
.++..|.-+++.|++|+|||..+...+... ...+.+++|+.
T Consensus 14 GGi~~g~i~~i~G~~GsGKT~l~~~~a~~~-~~~g~~v~yi~ 54 (218)
T cd01394 14 GGVERGTVTQVYGPPGTGKTNIAIQLAVET-AGQGKKVAYID 54 (218)
T ss_pred CCccCCeEEEEECCCCCCHHHHHHHHHHHH-HhcCCeEEEEE
Confidence 356678999999999999999887766544 34578898883
No 378
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=87.38 E-value=4 Score=54.84 Aligned_cols=95 Identities=12% Similarity=0.209 Sum_probs=47.1
Q ss_pred CeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCCCCCceEE
Q 000107 542 RNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPKDTSVAV 621 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~~~~~IiV 621 (2191)
..+|++||.|+|||..|... .+.+.+.+....-.+-.-..|.+ +.......+..+-+. ..+
T Consensus 39 hA~Lf~GP~GvGKTTlA~~l-Ak~L~C~~~~~~~~Cg~C~sCr~-------i~~~~h~DiieIdaa---------s~i-- 99 (605)
T PRK05896 39 HAYIFSGPRGIGKTSIAKIF-AKAINCLNPKDGDCCNSCSVCES-------INTNQSVDIVELDAA---------SNN-- 99 (605)
T ss_pred ceEEEECCCCCCHHHHHHHH-HHHhcCCCCCCCCCCcccHHHHH-------HHcCCCCceEEeccc---------ccc--
Confidence 46899999999999988654 34444322211111111112222 111111122211110 011
Q ss_pred EchHHHHHHHHHhhhcCCCCccceEEEcccccccc
Q 000107 622 CTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVAD 656 (2191)
Q Consensus 622 ~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d 656 (2191)
..+.+..++......+.....+++||||+|++..
T Consensus 100 -gVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt~ 133 (605)
T PRK05896 100 -GVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLST 133 (605)
T ss_pred -CHHHHHHHHHHHHhchhhCCcEEEEEechHhCCH
Confidence 2233444444433344556778999999999853
No 379
>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=87.29 E-value=1.5 Score=53.16 Aligned_cols=21 Identities=19% Similarity=0.238 Sum_probs=17.2
Q ss_pred CCeEEEEcCCCCchhHHHHHH
Q 000107 541 RRNLVYCASTSAGKSFVAEIL 561 (2191)
Q Consensus 541 gknlIi~APTGSGKTlvael~ 561 (2191)
...+++.||+|+|||+.+-..
T Consensus 43 ~~~~~l~G~~G~GKTtl~~~l 63 (269)
T TIGR03015 43 EGFILITGEVGAGKTTLIRNL 63 (269)
T ss_pred CCEEEEEcCCCCCHHHHHHHH
Confidence 347999999999999887543
No 380
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=87.27 E-value=3 Score=54.94 Aligned_cols=19 Identities=32% Similarity=0.586 Sum_probs=16.5
Q ss_pred eEEEEcCCCCchhHHHHHH
Q 000107 543 NLVYCASTSAGKSFVAEIL 561 (2191)
Q Consensus 543 nlIi~APTGSGKTlvael~ 561 (2191)
.+|++||+|+|||+.+.+.
T Consensus 38 ~~Lf~GPpGtGKTTlA~~l 56 (472)
T PRK14962 38 AYIFAGPRGTGKTTVARIL 56 (472)
T ss_pred EEEEECCCCCCHHHHHHHH
Confidence 4799999999999998654
No 381
>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif. They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.
Probab=87.27 E-value=0.94 Score=51.90 Aligned_cols=46 Identities=20% Similarity=0.347 Sum_probs=30.0
Q ss_pred cccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHH
Q 000107 538 VLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAE 585 (2191)
Q Consensus 538 il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q 585 (2191)
+..++|+++.||||+|||..+ .++.+.+...|..++|+. ...|..+
T Consensus 44 ~~~~~~l~l~G~~G~GKThLa-~ai~~~~~~~g~~v~f~~-~~~L~~~ 89 (178)
T PF01695_consen 44 IENGENLILYGPPGTGKTHLA-VAIANEAIRKGYSVLFIT-ASDLLDE 89 (178)
T ss_dssp -SC--EEEEEESTTSSHHHHH-HHHHHHHHHTT--EEEEE-HHHHHHH
T ss_pred cccCeEEEEEhhHhHHHHHHH-HHHHHHhccCCcceeEee-cCceecc
Confidence 456899999999999999887 455666666788888764 4344433
No 382
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=87.20 E-value=3.1 Score=56.50 Aligned_cols=23 Identities=22% Similarity=0.483 Sum_probs=17.9
Q ss_pred EEEEcCCCCchhHHHHHHHHHHHH
Q 000107 544 LVYCASTSAGKSFVAEILMLRRLI 567 (2191)
Q Consensus 544 lIi~APTGSGKTlvael~iL~~ll 567 (2191)
+|++||.|+|||+++.+.. +.+.
T Consensus 41 yLf~Gp~GvGKTTlAr~lA-k~L~ 63 (647)
T PRK07994 41 YLFSGTRGVGKTTIARLLA-KGLN 63 (647)
T ss_pred EEEECCCCCCHHHHHHHHH-Hhhh
Confidence 6899999999999986543 3443
No 383
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=86.97 E-value=6.4 Score=51.09 Aligned_cols=48 Identities=13% Similarity=0.151 Sum_probs=33.0
Q ss_pred CeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEc--hhHHHHHHHHHHH
Q 000107 542 RNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVL--PYVSICAEKAEHL 590 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~--P~raLA~q~~~~l 590 (2191)
..+.++|++|+|||+.+.-.+. .+...|.++++|. |+|.-|.++.+.+
T Consensus 101 ~vi~lvG~~GvGKTTtaaKLA~-~l~~~G~kV~lV~~D~~R~aA~eQLk~~ 150 (429)
T TIGR01425 101 NVIMFVGLQGSGKTTTCTKLAY-YYQRKGFKPCLVCADTFRAGAFDQLKQN 150 (429)
T ss_pred eEEEEECCCCCCHHHHHHHHHH-HHHHCCCCEEEEcCcccchhHHHHHHHH
Confidence 5788999999999987764433 3445677777665 6777666655443
No 384
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=86.93 E-value=2.6 Score=56.18 Aligned_cols=86 Identities=19% Similarity=0.190 Sum_probs=64.3
Q ss_pred HHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEE
Q 000107 768 IVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVA 847 (2191)
Q Consensus 768 l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa 847 (2191)
...++...+..++++||.+|++.-+..++..+.+.+. ..++
T Consensus 14 ~l~~i~~~l~~g~~vLvlvP~i~L~~Q~~~~l~~~f~---------------------------------------~~v~ 54 (505)
T TIGR00595 14 YLQAIEKVLALGKSVLVLVPEIALTPQMIQRFKYRFG---------------------------------------SQVA 54 (505)
T ss_pred HHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHHhC---------------------------------------CcEE
Confidence 3455666677788999999999988877777655331 1278
Q ss_pred EEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceE-Eee
Q 000107 848 YHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRV-IFR 893 (2191)
Q Consensus 848 ~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~V-VI~ 893 (2191)
.+||+++..+|..+.....+|..+|+|+|..+-. ..+++..+ |||
T Consensus 55 vlhs~~~~~er~~~~~~~~~g~~~IVVGTrsalf-~p~~~l~lIIVD 100 (505)
T TIGR00595 55 VLHSGLSDSEKLQAWRKVKNGEILVVIGTRSALF-LPFKNLGLIIVD 100 (505)
T ss_pred EEECCCCHHHHHHHHHHHHcCCCCEEECChHHHc-CcccCCCEEEEE
Confidence 8999999999999999999999999999975432 34555554 444
No 385
>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.
Probab=86.91 E-value=1.4 Score=51.81 Aligned_cols=19 Identities=21% Similarity=0.492 Sum_probs=16.5
Q ss_pred CeEEEEcCCCCchhHHHHH
Q 000107 542 RNLVYCASTSAGKSFVAEI 560 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael 560 (2191)
.++|+.||+|.|||+.|.+
T Consensus 51 ~h~lf~GPPG~GKTTLA~I 69 (233)
T PF05496_consen 51 DHMLFYGPPGLGKTTLARI 69 (233)
T ss_dssp -EEEEESSTTSSHHHHHHH
T ss_pred ceEEEECCCccchhHHHHH
Confidence 4799999999999998865
No 386
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=86.87 E-value=3.9 Score=48.40 Aligned_cols=42 Identities=14% Similarity=0.179 Sum_probs=32.6
Q ss_pred cccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEch
Q 000107 536 DGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLP 578 (2191)
Q Consensus 536 ~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P 578 (2191)
.++..|..+.+.+|+|+|||..+...+... ...+.+++|+.=
T Consensus 18 GGi~~g~i~~i~G~~GsGKT~l~~~la~~~-~~~~~~v~yi~~ 59 (225)
T PRK09361 18 GGFERGTITQIYGPPGSGKTNICLQLAVEA-AKNGKKVIYIDT 59 (225)
T ss_pred CCCCCCeEEEEECCCCCCHHHHHHHHHHHH-HHCCCeEEEEEC
Confidence 356678999999999999998887665544 345788888753
No 387
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=86.84 E-value=3.6 Score=54.07 Aligned_cols=52 Identities=15% Similarity=0.093 Sum_probs=37.3
Q ss_pred cccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHH
Q 000107 536 DGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEH 589 (2191)
Q Consensus 536 ~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~ 589 (2191)
.++..|.-+++.+++|+|||+.+...+.. +...+.+++|+..-.. ..|+..+
T Consensus 89 GGi~~GsvilI~G~pGsGKTTL~lq~a~~-~a~~g~kvlYvs~EEs-~~qi~~r 140 (454)
T TIGR00416 89 GGIVPGSLILIGGDPGIGKSTLLLQVACQ-LAKNQMKVLYVSGEES-LQQIKMR 140 (454)
T ss_pred CCccCCeEEEEEcCCCCCHHHHHHHHHHH-HHhcCCcEEEEECcCC-HHHHHHH
Confidence 45778899999999999999988765543 4455778999986433 3444433
No 388
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=86.61 E-value=3.5 Score=55.99 Aligned_cols=43 Identities=19% Similarity=0.352 Sum_probs=27.7
Q ss_pred hHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHH
Q 000107 624 IEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKL 670 (2191)
Q Consensus 624 pEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kL 670 (2191)
.+.+..+...+...+.+.+..+|||||+|.+... ..+.++..|
T Consensus 109 vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~~----a~naLLK~L 151 (620)
T PRK14954 109 VDDIRQLRENVRYGPQKGRYRVYIIDEVHMLSTA----AFNAFLKTL 151 (620)
T ss_pred HHHHHHHHHHHHhhhhcCCCEEEEEeChhhcCHH----HHHHHHHHH
Confidence 3455555555444456778899999999998642 344555444
No 389
>PTZ00035 Rad51 protein; Provisional
Probab=86.58 E-value=1.2 Score=56.21 Aligned_cols=54 Identities=22% Similarity=0.259 Sum_probs=48.3
Q ss_pred CCCCCHHHHHHHHHcCCCCHHHHHcCCHHHHHHHHhhcchhHHHHHhhhhHHHHHHHHHHHHHHHH
Q 000107 1236 IPYVKGSRARALYKAGLRTPLAIAEASISEIVKALFESSSWIAEAQRRVQLGVAKKIKNGARKIVL 1301 (2191)
Q Consensus 1236 ip~v~~~RAR~Ly~aG~~t~~~la~a~~~~l~~~l~~~~~~~~~~~~~~~~~~A~~I~~~A~~l~~ 1301 (2191)
-+||+..-+.+|-+|||+|++||+.+++.+|.++. +++...|.+|++.|++++.
T Consensus 28 ~~g~~~~~~~kL~~~g~~t~~~~~~~~~~~L~~~~------------gis~~~~~~i~~~~~~~~~ 81 (337)
T PTZ00035 28 SAGINAADIKKLKEAGICTVESVAYATKKDLCNIK------------GISEAKVEKIKEAASKLVP 81 (337)
T ss_pred cCCCCHHHHHHHHHcCCCcHHHHHhCCHHHHHHhh------------CCCHHHHHHHHHHHHHhcc
Confidence 38899999999999999999999999999999983 5667889999999988863
No 390
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=86.54 E-value=3.9 Score=55.69 Aligned_cols=97 Identities=19% Similarity=0.202 Sum_probs=47.8
Q ss_pred CeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCCCCCceEE
Q 000107 542 RNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPKDTSVAV 621 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~~~~~IiV 621 (2191)
..+|++||.|+|||.++... .+.+...........|. . ....++.+.......+..+-+ ...+
T Consensus 39 ~a~Lf~Gp~G~GKttlA~~l-Ak~L~c~~~~~~~~~~C----g-~C~~C~~i~~g~h~D~~ei~~---------~~~~-- 101 (620)
T PRK14948 39 PAYLFTGPRGTGKTSSARIL-AKSLNCLNSDKPTPEPC----G-KCELCRAIAAGNALDVIEIDA---------ASNT-- 101 (620)
T ss_pred ceEEEECCCCCChHHHHHHH-HHHhcCCCcCCCCCCCC----c-ccHHHHHHhcCCCccEEEEec---------cccC--
Confidence 46799999999999998654 34443321110000111 1 112222222222222222111 0011
Q ss_pred EchHHHHHHHHHhhhcCCCCccceEEEcccccccc
Q 000107 622 CTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVAD 656 (2191)
Q Consensus 622 ~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d 656 (2191)
..+.+..++.............+|||||+|+|..
T Consensus 102 -~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~ 135 (620)
T PRK14948 102 -GVDNIRELIERAQFAPVQARWKVYVIDECHMLST 135 (620)
T ss_pred -CHHHHHHHHHHHhhChhcCCceEEEEECccccCH
Confidence 2344445554433333456779999999999864
No 391
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=86.51 E-value=1.9 Score=56.50 Aligned_cols=85 Identities=19% Similarity=0.164 Sum_probs=48.1
Q ss_pred cCCeEEEEcCCCCchhHHHHHHHHHHHHhcCC-EEEEEc--hhHHHHHHHHHHHHHHhhccCCeEEEEeccCCC----CC
Q 000107 540 QRRNLVYCASTSAGKSFVAEILMLRRLISTGK-MALLVL--PYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGG----GS 612 (2191)
Q Consensus 540 ~gknlIi~APTGSGKTlvael~iL~~ll~~g~-kaL~I~--P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~----~~ 612 (2191)
.|+.+.+.||||+|||++.....-......|. ++.+|. ++|.-+.+....|.++ +|+.+......... ..
T Consensus 255 ~g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~Dt~RigA~EQLr~~Aei---lGVpv~~~~~~~Dl~~aL~~ 331 (484)
T PRK06995 255 RGGVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLTTDSYRIGGHEQLRIYGKI---LGVPVHAVKDAADLRLALSE 331 (484)
T ss_pred CCcEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEeCCccchhHHHHHHHHHHH---hCCCeeccCCchhHHHHHHh
Confidence 46789999999999999877655444444443 554443 5566666655555443 34443221111000 11
Q ss_pred CCCCCceEEEchHHH
Q 000107 613 LPKDTSVAVCTIEKA 627 (2191)
Q Consensus 613 l~~~~~IiV~TpEkl 627 (2191)
+...-.++|-|+++.
T Consensus 332 L~d~d~VLIDTaGr~ 346 (484)
T PRK06995 332 LRNKHIVLIDTIGMS 346 (484)
T ss_pred ccCCCeEEeCCCCcC
Confidence 222346888898853
No 392
>TIGR02928 orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.
Probab=86.49 E-value=1.5 Score=55.80 Aligned_cols=25 Identities=24% Similarity=0.434 Sum_probs=19.1
Q ss_pred CCeEEEEcCCCCchhHHHHHHHHHHH
Q 000107 541 RRNLVYCASTSAGKSFVAEILMLRRL 566 (2191)
Q Consensus 541 gknlIi~APTGSGKTlvael~iL~~l 566 (2191)
..+++|+||+|+|||.++.. +++.+
T Consensus 40 ~~~i~I~G~~GtGKT~l~~~-~~~~l 64 (365)
T TIGR02928 40 PSNVFIYGKTGTGKTAVTKY-VMKEL 64 (365)
T ss_pred CCcEEEECCCCCCHHHHHHH-HHHHH
Confidence 46899999999999987643 44444
No 393
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=86.37 E-value=5 Score=54.38 Aligned_cols=110 Identities=20% Similarity=0.307 Sum_probs=54.0
Q ss_pred CeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCCCCCceEE
Q 000107 542 RNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPKDTSVAV 621 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~~~~~IiV 621 (2191)
..+|++||.|.|||..+.+.. +.+...+...- --|+...|. ....++.+.......|..+... ..
T Consensus 47 ha~L~~Gp~GvGKTt~Ar~lA-k~L~c~~~~~~-~~~~~~~cg-~c~~C~~i~~g~h~Dv~e~~a~---------s~--- 111 (598)
T PRK09111 47 QAFMLTGVRGVGKTTTARILA-RALNYEGPDGD-GGPTIDLCG-VGEHCQAIMEGRHVDVLEMDAA---------SH--- 111 (598)
T ss_pred ceEEEECCCCCCHHHHHHHHH-HhhCcCCcccc-CCCccccCc-ccHHHHHHhcCCCCceEEeccc---------cc---
Confidence 469999999999999986543 44433221000 011111111 1222333332222222221110 01
Q ss_pred EchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHH
Q 000107 622 CTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKL 670 (2191)
Q Consensus 622 ~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kL 670 (2191)
...+.+..++........+.+.++|||||+|++... ..+.++..|
T Consensus 112 ~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls~~----a~naLLKtL 156 (598)
T PRK09111 112 TGVDDIREIIESVRYRPVSARYKVYIIDEVHMLSTA----AFNALLKTL 156 (598)
T ss_pred CCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCCHH----HHHHHHHHH
Confidence 113344445544334455678899999999998642 344555444
No 394
>PRK09146 DNA polymerase III subunit epsilon; Validated
Probab=86.29 E-value=9.8 Score=45.83 Aligned_cols=30 Identities=7% Similarity=0.069 Sum_probs=22.2
Q ss_pred HHHHHHHHHhhccCCccEEEechHHHHHHHHh
Q 000107 1583 KQRWKRIGEIMEKRDVRKFTWNMKVQIQVLKH 1614 (2191)
Q Consensus 1583 ~~~~~~L~~lLe~~~v~kv~hNlK~dl~vL~~ 1614 (2191)
.+.+..+..++.+ ...|+||+.||+.+|.+
T Consensus 117 ~evl~~l~~~~~~--~~lVaHna~FD~~fL~~ 146 (239)
T PRK09146 117 ERILDELLEALAG--KVVVVHYRRIERDFLDQ 146 (239)
T ss_pred HHHHHHHHHHhCC--CEEEEECHHHHHHHHHH
Confidence 3455666666643 46899999999999865
No 395
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=86.25 E-value=2.7 Score=58.65 Aligned_cols=25 Identities=32% Similarity=0.464 Sum_probs=20.3
Q ss_pred cCCeEEEEcCCCCchhHHHHHHHHH
Q 000107 540 QRRNLVYCASTSAGKSFVAEILMLR 564 (2191)
Q Consensus 540 ~gknlIi~APTGSGKTlvael~iL~ 564 (2191)
...|+|+.||+|+|||.++....-+
T Consensus 202 ~~~n~lL~G~pG~GKT~l~~~la~~ 226 (731)
T TIGR02639 202 KKNNPLLVGEPGVGKTAIAEGLALR 226 (731)
T ss_pred CCCceEEECCCCCCHHHHHHHHHHH
Confidence 3579999999999999998765443
No 396
>PRK10867 signal recognition particle protein; Provisional
Probab=86.24 E-value=2 Score=55.85 Aligned_cols=57 Identities=28% Similarity=0.259 Sum_probs=37.4
Q ss_pred CCeEEEEcCCCCchhHHHHHHHHHHHHhc-CCEEEEEc--hhHHHHHHHHHHHHHHhhccCCeE
Q 000107 541 RRNLVYCASTSAGKSFVAEILMLRRLIST-GKMALLVL--PYVSICAEKAEHLEVLLEPLGRHV 601 (2191)
Q Consensus 541 gknlIi~APTGSGKTlvael~iL~~ll~~-g~kaL~I~--P~raLA~q~~~~l~~l~~~lg~~V 601 (2191)
...+++++|+|+|||+++.-.+.. +... |.++++|. ++|.-+.++...+ ....|+.+
T Consensus 100 p~vI~~vG~~GsGKTTtaakLA~~-l~~~~G~kV~lV~~D~~R~aa~eQL~~~---a~~~gv~v 159 (433)
T PRK10867 100 PTVIMMVGLQGAGKTTTAGKLAKY-LKKKKKKKVLLVAADVYRPAAIEQLKTL---GEQIGVPV 159 (433)
T ss_pred CEEEEEECCCCCcHHHHHHHHHHH-HHHhcCCcEEEEEccccchHHHHHHHHH---HhhcCCeE
Confidence 357889999999999887654443 3344 77776665 6777776555443 33445554
No 397
>PF05876 Terminase_GpA: Phage terminase large subunit (GpA); InterPro: IPR008866 This entry is represented by Bacteriophage lambda, GpA. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry 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=86.23 E-value=0.79 Score=61.56 Aligned_cols=139 Identities=16% Similarity=0.166 Sum_probs=88.1
Q ss_pred CCCCHHHHHhhhhccccc--CCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHH-HHHHHHhhccCC
Q 000107 523 SKLYPWQVECLHVDGVLQ--RRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKA-EHLEVLLEPLGR 599 (2191)
Q Consensus 523 ~~l~p~Q~eal~~~~il~--gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~-~~l~~l~~~lg~ 599 (2191)
...+|+|.+.... +.. -+.++++.++-+|||.+.+..+...+......++++.|+..+|.... .+|..++.....
T Consensus 15 ~~~~Py~~eimd~--~~~~~v~~Vv~~k~aQ~GkT~~~~n~~g~~i~~~P~~~l~v~Pt~~~a~~~~~~rl~Pmi~~sp~ 92 (557)
T PF05876_consen 15 TDRTPYLREIMDA--LSDPSVREVVVMKSAQVGKTELLLNWIGYSIDQDPGPMLYVQPTDDAAKDFSKERLDPMIRASPV 92 (557)
T ss_pred CCCChhHHHHHHh--cCCcCccEEEEEEcchhhHhHHHHhhceEEEEeCCCCEEEEEEcHHHHHHHHHHHHHHHHHhCHH
Confidence 3678999998765 433 37899999999999997766655555556778999999999999977 456665543211
Q ss_pred eEEEEec---cCCC-----CCCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccc--cchhHHHHHHHHH
Q 000107 600 HVRSYYG---NQGG-----GSLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVAD--QNRGYLLELLLTK 669 (2191)
Q Consensus 600 ~V~~~~G---~~~~-----~~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d--~~RG~~lE~lL~k 669 (2191)
--..+.. .... ..++ +..|.++....... ..-..+++|++||++..-+ .+-|..++++..|
T Consensus 93 l~~~~~~~~~~~~~~t~~~k~f~-gg~l~~~ga~S~~~--------l~s~~~r~~~~DEvD~~p~~~~~eGdp~~la~~R 163 (557)
T PF05876_consen 93 LRRKLSPSKSRDSGNTILYKRFP-GGFLYLVGANSPSN--------LRSRPARYLLLDEVDRYPDDVGGEGDPVELAEKR 163 (557)
T ss_pred HHHHhCchhhcccCCchhheecC-CCEEEEEeCCCCcc--------cccCCcCEEEEechhhccccCccCCCHHHHHHHH
Confidence 0001111 0000 1122 34455554322111 1223579999999999853 3467888888888
Q ss_pred HHH
Q 000107 670 LRY 672 (2191)
Q Consensus 670 Lr~ 672 (2191)
..-
T Consensus 164 ~~t 166 (557)
T PF05876_consen 164 TKT 166 (557)
T ss_pred Hhh
Confidence 743
No 398
>PRK14667 uvrC excinuclease ABC subunit C; Provisional
Probab=86.20 E-value=2 Score=57.46 Aligned_cols=78 Identities=18% Similarity=0.290 Sum_probs=57.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhccCchhhhhhcCCCCCCHHHHHHHHHcCCCCHHHHHcCCH
Q 000107 1184 MVQALQENAGRFASMVSVFCERLGWYDLEGLIAKFQNRVSFGVRAEIVELTTIPYVKGSRARALYKAGLRTPLAIAEASI 1263 (2191)
Q Consensus 1184 ~lq~l~~~a~~~a~~v~~fc~~lg~~~~~~ll~~~~~RL~~Gv~~ELl~L~~ip~v~~~RAR~Ly~aG~~t~~~la~a~~ 1263 (2191)
.||.+++.|.+||-..- +.+ +.+-.+ + ..|-.|||||..|.++|++. |.|++.|.+|+.
T Consensus 487 lLq~irDEaHRFAi~~h---R~~------------r~k~~~--~---S~Ld~I~GiG~kr~~~Ll~~-Fgs~~~ik~As~ 545 (567)
T PRK14667 487 VFGLIRDEAHRFALSYN---RKL------------REKEGL--K---DILDKIKGIGEVKKEIIYRN-FKTLYDFLKADD 545 (567)
T ss_pred HHHHHHHHHHHHHHHHH---HHH------------hhcccc--c---CccccCCCCCHHHHHHHHHH-hCCHHHHHhCCH
Confidence 58899999999875331 111 111111 1 45679999999999999987 889999999999
Q ss_pred HHHHHHHhhcchhHHHHHhhhhHHHHHHHHHH
Q 000107 1264 SEIVKALFESSSWIAEAQRRVQLGVAKKIKNG 1295 (2191)
Q Consensus 1264 ~~l~~~l~~~~~~~~~~~~~~~~~~A~~I~~~ 1295 (2191)
++|.++ +++.++|.+|.+.
T Consensus 546 eeL~~v-------------gi~~~~A~~I~~~ 564 (567)
T PRK14667 546 EELKKL-------------GIPPSVKQEVKKY 564 (567)
T ss_pred HHHHHc-------------CCCHHHHHHHHHH
Confidence 999886 2456788888764
No 399
>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX. Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.
Probab=86.18 E-value=5.2 Score=49.36 Aligned_cols=20 Identities=20% Similarity=0.292 Sum_probs=17.5
Q ss_pred CCeEEEEcCCCCchhHHHHH
Q 000107 541 RRNLVYCASTSAGKSFVAEI 560 (2191)
Q Consensus 541 gknlIi~APTGSGKTlvael 560 (2191)
+.++++.||+|+|||++|..
T Consensus 58 ~~~vll~G~pGTGKT~lA~~ 77 (284)
T TIGR02880 58 TLHMSFTGNPGTGKTTVALR 77 (284)
T ss_pred CceEEEEcCCCCCHHHHHHH
Confidence 56899999999999998854
No 400
>COG4626 Phage terminase-like protein, large subunit [General function prediction only]
Probab=86.18 E-value=2.9 Score=54.79 Aligned_cols=123 Identities=20% Similarity=0.277 Sum_probs=73.2
Q ss_pred CCCHHHHHhhhhcccc------cC----CeEEEEcCCCCchhHHHHHHHHHHHH---hcCCEEEEEchhHHHHHHHHHHH
Q 000107 524 KLYPWQVECLHVDGVL------QR----RNLVYCASTSAGKSFVAEILMLRRLI---STGKMALLVLPYVSICAEKAEHL 590 (2191)
Q Consensus 524 ~l~p~Q~eal~~~~il------~g----knlIi~APTGSGKTlvael~iL~~ll---~~g~kaL~I~P~raLA~q~~~~l 590 (2191)
.+-|||.-.+.. ++ .+ +-.+|..|-+-|||..+...++..++ ..+..+.+++|+.+-+.+.+...
T Consensus 61 ~l~PwQkFiia~--l~G~~~k~T~~rrf~e~fI~v~RkngKt~l~A~i~~~~~l~~~~~~~~~~i~A~s~~qa~~~F~~a 138 (546)
T COG4626 61 SLEPWQKFIVAA--LFGFYDKQTGIRRFKEAFIFIPRKNGKSTLAAGIMMTALLLNWRSGAGIYILAPSVEQAANSFNPA 138 (546)
T ss_pred ccchHHHHHHHH--HhceeecCCCceEEEEEEEEEecCCchHHHHHHHHHHHHHhhhhcCCcEEEEeccHHHHHHhhHHH
Confidence 577899888754 43 12 56899999999999777643333322 35778999999999999888887
Q ss_pred HHHhhccCCeEEEEeccCCCCCCCCCCceEEEchHHHHHHHHHhhhc-CCC--CccceEEEccccccccc
Q 000107 591 EVLLEPLGRHVRSYYGNQGGGSLPKDTSVAVCTIEKANSLVNRMLEE-GRL--SEIGIIVIDELHMVADQ 657 (2191)
Q Consensus 591 ~~l~~~lg~~V~~~~G~~~~~~l~~~~~IiV~TpEkl~~Ll~~l~~~-~~L--~~l~lVVIDEaH~l~d~ 657 (2191)
+....... ..... ..-..+-...|..+..+.++..... ... .+..+.|+||+|+.++.
T Consensus 139 r~mv~~~~-~l~~~--------~~~q~~s~~i~~~~~~s~ik~~aa~~~~~Dg~~~~~~I~DEih~f~~~ 199 (546)
T COG4626 139 RDMVKRDD-DLRDL--------CNVQTHSRTITHRKTDSTIKAVAADPNTVDGLNSVGAIIDELHLFGKQ 199 (546)
T ss_pred HHHHHhCc-chhhh--------hccccceeEEEecccceeeeeeccCCCcccCCCcceEEEehhhhhcCH
Confidence 76654332 11000 0111122223333333333221111 122 34689999999998763
No 401
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=85.98 E-value=4.9 Score=54.50 Aligned_cols=30 Identities=27% Similarity=0.325 Sum_probs=20.3
Q ss_pred HHHHHHHhhhcCCCCccceEEEcccccccc
Q 000107 627 ANSLVNRMLEEGRLSEIGIIVIDELHMVAD 656 (2191)
Q Consensus 627 l~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d 656 (2191)
+..++......+...+.+++||||+|++..
T Consensus 104 ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~ 133 (576)
T PRK14965 104 IRELRENVKYLPSRSRYKIFIIDEVHMLST 133 (576)
T ss_pred HHHHHHHHHhccccCCceEEEEEChhhCCH
Confidence 334444433344567789999999999864
No 402
>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]
Probab=85.97 E-value=6.3 Score=48.66 Aligned_cols=129 Identities=18% Similarity=0.261 Sum_probs=72.2
Q ss_pred cCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEE--chh--------HHHHHHHHHHHHHHhhccCCeEEEEeccCC
Q 000107 540 QRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLV--LPY--------VSICAEKAEHLEVLLEPLGRHVRSYYGNQG 609 (2191)
Q Consensus 540 ~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I--~P~--------raLA~q~~~~l~~l~~~lg~~V~~~~G~~~ 609 (2191)
++..+++.+|-|||||...--.+.. ....|-+.+++ -|+ +.++.|...++... ...+|.
T Consensus 48 EsnsviiigprgsgkT~li~~~Ls~-~q~~~E~~l~v~Lng~~~~dk~al~~I~rql~~e~~~~--------~k~~gs-- 116 (408)
T KOG2228|consen 48 ESNSVIIIGPRGSGKTILIDTRLSD-IQENGENFLLVRLNGELQTDKIALKGITRQLALELNRI--------VKSFGS-- 116 (408)
T ss_pred CCCceEEEccCCCCceEeeHHHHhh-HHhcCCeEEEEEECccchhhHHHHHHHHHHHHHHHhhh--------heeecc--
Confidence 5689999999999999654333332 23334444433 232 33333333333221 111232
Q ss_pred CCCCCCCCceEEEchHHHHHHHHHhhhcCCCCcc-ceEEEcccccccccchhHHHHHHHHHHHHhhcCCCCCCCCCCCCC
Q 000107 610 GGSLPKDTSVAVCTIEKANSLVNRMLEEGRLSEI-GIIVIDELHMVADQNRGYLLELLLTKLRYAAGEGTSDSSSGENSG 688 (2191)
Q Consensus 610 ~~~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l-~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~ 688 (2191)
+.|.+..++.-+......... -.+|+||+|......|...+..++...+..
T Consensus 117 -------------fte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~--------------- 168 (408)
T KOG2228|consen 117 -------------FTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSA--------------- 168 (408)
T ss_pred -------------cchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhc---------------
Confidence 222233333333233333333 467889999988888888888877766432
Q ss_pred CCCCCCCCCCCceEEEEeccCCCHHHH
Q 000107 689 TSSGKADPAHGLQIVGMSATMPNVAAV 715 (2191)
Q Consensus 689 ~~~~~~~~~~~iqII~mSATL~N~~~l 715 (2191)
..++-|||+|.-+.-.+.+
T Consensus 169 --------r~Piciig~Ttrld~lE~L 187 (408)
T KOG2228|consen 169 --------RAPICIIGVTTRLDILELL 187 (408)
T ss_pred --------CCCeEEEEeeccccHHHHH
Confidence 3578899999887433333
No 403
>PRK13342 recombination factor protein RarA; Reviewed
Probab=85.87 E-value=2.9 Score=54.33 Aligned_cols=19 Identities=21% Similarity=0.445 Sum_probs=16.7
Q ss_pred CeEEEEcCCCCchhHHHHH
Q 000107 542 RNLVYCASTSAGKSFVAEI 560 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael 560 (2191)
.++++.||+|+|||+++..
T Consensus 37 ~~ilL~GppGtGKTtLA~~ 55 (413)
T PRK13342 37 SSMILWGPPGTGKTTLARI 55 (413)
T ss_pred ceEEEECCCCCCHHHHHHH
Confidence 4899999999999988764
No 404
>PRK05580 primosome assembly protein PriA; Validated
Probab=85.79 E-value=3.3 Score=57.25 Aligned_cols=85 Identities=16% Similarity=0.166 Sum_probs=63.2
Q ss_pred HHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEE
Q 000107 769 VELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAY 848 (2191)
Q Consensus 769 ~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~ 848 (2191)
..++...+..++++||.+|++.-+.++...+.+.+. ..++.
T Consensus 180 l~~i~~~l~~g~~vLvLvPt~~L~~Q~~~~l~~~fg---------------------------------------~~v~~ 220 (679)
T PRK05580 180 LQAIAEVLAQGKQALVLVPEIALTPQMLARFRARFG---------------------------------------APVAV 220 (679)
T ss_pred HHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHHhC---------------------------------------CCEEE
Confidence 345555666788999999999988877776654321 12888
Q ss_pred EcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCce-EEee
Q 000107 849 HHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARR-VIFR 893 (2191)
Q Consensus 849 hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~-VVI~ 893 (2191)
+||+++..+|..+......|..+|+|+|.... -+.+.+.. +|||
T Consensus 221 ~~s~~s~~~r~~~~~~~~~g~~~IVVgTrsal-~~p~~~l~liVvD 265 (679)
T PRK05580 221 LHSGLSDGERLDEWRKAKRGEAKVVIGARSAL-FLPFKNLGLIIVD 265 (679)
T ss_pred EECCCCHHHHHHHHHHHHcCCCCEEEeccHHh-cccccCCCEEEEE
Confidence 99999999999999999999999999997533 24455554 4454
No 405
>TIGR01298 RNaseT ribonuclease T. in gamma-subdivision Proteobacteria such as Escherichia coli and Xylella fastidiosa. Ribonuclease T is homologous to the DNA polymerase III alpha chain. It can liberate AMP from the common C-C-A terminus of uncharged tRNA. It appears also to be involved in RNA maturation. It also acts as a 3' to 5' single-strand DNA-specific exonuclease; it is distinctive for its ability to remove residues near a double-stranded stem. Ribonuclease T is a high copy suppressor in E. coli of a uv-repair defect caused by deletion of three other single-stranded DNA exonucleases.
Probab=85.76 E-value=9.6 Score=44.58 Aligned_cols=105 Identities=11% Similarity=0.089 Sum_probs=57.8
Q ss_pred HHHHHHHHHhhcc---CCccEEEechHHHHHHHHhcCcccccccCccccccccccccccccccccccCCCCccchHHHHH
Q 000107 1583 KQRWKRIGEIMEK---RDVRKFTWNMKVQIQVLKHAAVSIQRFGGLNLVGTSLGLENVGSSFLLLSPVHLKDGIDMCIVS 1659 (2191)
Q Consensus 1583 ~~~~~~L~~lLe~---~~v~kv~hNlK~dl~vL~~~gi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~lAa 1659 (2191)
.+.++.+.+++.. .+...|+||+.||+.+|.+..-..... .. +.....++||+..+
T Consensus 88 ~~~~~~l~~~~~~~~~~~~~lVaHNa~FD~~fL~~~~~r~~~~--------------------~~-~~~~~~~lDTl~la 146 (200)
T TIGR01298 88 HEIFKVVRKAMKASGCQRAILVGHNANFDLGFLNAAVERTSLK--------------------RN-PFHPFSTFDTATLA 146 (200)
T ss_pred HHHHHHHHHHHHhcccCCCEEEEECchhhHHHHHHHHHHhCCC--------------------CC-CCCCCcEEEHHHHH
Confidence 3455555555532 345689999999999987532111000 00 00011258999777
Q ss_pred HhcCCCCCCCCchhHHHHHHHhhChHHHHHhhccCchhhhhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Q 000107 1660 WILWPDDERSSNPNLEKEVKKRLSSEAAAAANRSGRWKNQMRRAAHNGCCRRVAQTRALCSVLWKLLVSE 1729 (2191)
Q Consensus 1660 wLL~P~~~~~~l~~L~~~~~~~l~~e~~~~~~~~g~~~~~~~~~~~~ya~~Da~~t~~L~~~L~~~L~~~ 1729 (2191)
+.+.|. + +|+.+.. +++.+.. ....+.|..|+.+|..|+..+..++.+.
T Consensus 147 r~~~~~---~---~L~~l~~-~~gi~~~--------------~~~~H~Al~Da~ata~lf~~l~~~~~~~ 195 (200)
T TIGR01298 147 GLAYGQ---T---VLAKACQ-AAGXDFD--------------STQAHSALYDTEKTAELFCEIVNRWKRL 195 (200)
T ss_pred HHHcCc---c---cHHHHHH-HcCCCcc--------------ccchhhhHHhHHHHHHHHHHHHHHHHHc
Confidence 776653 2 2444333 2232210 0113356789999999988887776543
No 406
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]
Probab=85.73 E-value=2.1 Score=59.49 Aligned_cols=96 Identities=16% Similarity=0.111 Sum_probs=63.2
Q ss_pred HHHHHHHHHhhccCCccEEEechHHHHHHHHh----cCcccccccCccccccccccccccccccccccCCCCccchHHHH
Q 000107 1583 KQRWKRIGEIMEKRDVRKFTWNMKVQIQVLKH----AAVSIQRFGGLNLVGTSLGLENVGSSFLLLSPVHLKDGIDMCIV 1658 (2191)
Q Consensus 1583 ~~~~~~L~~lLe~~~v~kv~hNlK~dl~vL~~----~gi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~lA 1658 (2191)
...+..++.|+.+ ...|+||+.||+-.|.. +|+..- + ..++||.-.
T Consensus 489 ~~vL~kf~~~~~d--~IlVAHNasFD~gFl~~~~~k~~~~~~--------------~--------------~pvIDTL~l 538 (1444)
T COG2176 489 EEVLEKFREFIGD--SILVAHNASFDMGFLNTNYEKYGLEPL--------------T--------------NPVIDTLEL 538 (1444)
T ss_pred HHHHHHHHHHhcC--cEEEeccCccchhHHHHHHHHhCCccc--------------c--------------CchhhHHHH
Confidence 4566788888876 57899999999987754 222111 0 125899999
Q ss_pred HHhcCCCCCCCCchhHHHHHHHhhChHHHHHhhccCchhhhhHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Q 000107 1659 SWILWPDDERSSNPNLEKEVKKRLSSEAAAAANRSGRWKNQMRRAAHNGCCRRVAQTRALCSVLWKLLVS 1728 (2191)
Q Consensus 1659 awLL~P~~~~~~l~~L~~~~~~~l~~e~~~~~~~~g~~~~~~~~~~~~ya~~Da~~t~~L~~~L~~~L~~ 1728 (2191)
||-|+|.-.+|+|..|.+.+ +.+. ..++.|..|+.+|-+++-.+.+.+++
T Consensus 539 ar~L~P~~ksh~Lg~l~kk~----~v~l----------------e~hHRA~yDaeat~~vf~~f~~~~ke 588 (1444)
T COG2176 539 ARALNPEFKSHRLGTLCKKL----GVEL----------------ERHHRADYDAEATAKVFFVFLKDLKE 588 (1444)
T ss_pred HHHhChhhhhcchHHHHHHh----CccH----------------HHhhhhhhhHHHHHHHHHHHHHHHHH
Confidence 99999999999877664443 2221 12334556777777666666655543
No 407
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=85.73 E-value=3.7 Score=55.45 Aligned_cols=21 Identities=19% Similarity=0.452 Sum_probs=17.8
Q ss_pred CeEEEEcCCCCchhHHHHHHH
Q 000107 542 RNLVYCASTSAGKSFVAEILM 562 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael~i 562 (2191)
..+|+++|.|+|||+++.+..
T Consensus 39 ha~Lf~GPpG~GKTtiArilA 59 (624)
T PRK14959 39 PAYLFSGTRGVGKTTIARIFA 59 (624)
T ss_pred ceEEEECCCCCCHHHHHHHHH
Confidence 468899999999999987644
No 408
>PHA00729 NTP-binding motif containing protein
Probab=85.64 E-value=1.6 Score=51.68 Aligned_cols=19 Identities=21% Similarity=0.128 Sum_probs=16.6
Q ss_pred CeEEEEcCCCCchhHHHHH
Q 000107 542 RNLVYCASTSAGKSFVAEI 560 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael 560 (2191)
.|+++.|++|+|||..+..
T Consensus 18 ~nIlItG~pGvGKT~LA~a 36 (226)
T PHA00729 18 VSAVIFGKQGSGKTTYALK 36 (226)
T ss_pred EEEEEECCCCCCHHHHHHH
Confidence 3899999999999988754
No 409
>PRK04195 replication factor C large subunit; Provisional
Probab=85.53 E-value=3.6 Score=54.68 Aligned_cols=20 Identities=20% Similarity=0.404 Sum_probs=17.5
Q ss_pred CCeEEEEcCCCCchhHHHHH
Q 000107 541 RRNLVYCASTSAGKSFVAEI 560 (2191)
Q Consensus 541 gknlIi~APTGSGKTlvael 560 (2191)
.+.+++.||+|+|||..+..
T Consensus 39 ~~~lLL~GppG~GKTtla~a 58 (482)
T PRK04195 39 KKALLLYGPPGVGKTSLAHA 58 (482)
T ss_pred CCeEEEECCCCCCHHHHHHH
Confidence 57899999999999988754
No 410
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=85.51 E-value=7.3 Score=50.89 Aligned_cols=56 Identities=21% Similarity=0.268 Sum_probs=35.6
Q ss_pred CCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEc--hhHHHHHHHHHHHHHHhhccCCe
Q 000107 541 RRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVL--PYVSICAEKAEHLEVLLEPLGRH 600 (2191)
Q Consensus 541 gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~--P~raLA~q~~~~l~~l~~~lg~~ 600 (2191)
...+++++++|+|||+++.-.+ ..+...|.++++|. ++|.-+.++. +.+...+++.
T Consensus 95 p~vI~lvG~~GsGKTTtaakLA-~~L~~~g~kV~lV~~D~~R~aa~eQL---~~la~~~gvp 152 (437)
T PRK00771 95 PQTIMLVGLQGSGKTTTAAKLA-RYFKKKGLKVGLVAADTYRPAAYDQL---KQLAEKIGVP 152 (437)
T ss_pred CeEEEEECCCCCcHHHHHHHHH-HHHHHcCCeEEEecCCCCCHHHHHHH---HHHHHHcCCc
Confidence 4688999999999998876544 34455677776665 4455444443 3334444544
No 411
>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]
Probab=85.44 E-value=3.3 Score=54.50 Aligned_cols=124 Identities=19% Similarity=0.149 Sum_probs=87.2
Q ss_pred hHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCc
Q 000107 766 DHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSG 845 (2191)
Q Consensus 766 d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~G 845 (2191)
..+-.|+..+..+|+.+|+|..-.+... .|..++.. .+|.
T Consensus 1031 ~~LDeLL~kLkaegHRvL~yfQMTkM~d----l~EdYl~y------------------------------------r~Y~ 1070 (1185)
T KOG0388|consen 1031 VVLDELLPKLKAEGHRVLMYFQMTKMID----LIEDYLVY------------------------------------RGYT 1070 (1185)
T ss_pred eeHHHHHHHhhcCCceEEehhHHHHHHH----HHHHHHHh------------------------------------hccc
Confidence 3455666777778999999986544332 23332221 1233
Q ss_pred EEEEcCCCCHHHHHHHHHHhhcCCc-eEEEecccccccCCCCCceEEeecCCCCCcccCcccccccccccCCCCCCCceE
Q 000107 846 VAYHHAGLTVEEREVVETCYRKGLV-RVLTATSTLAAGVNLPARRVIFRQPRIGRDFIDGTRYRQMAGRAGRTGIDTKGE 924 (2191)
Q Consensus 846 Va~hHagLs~~eR~~Ve~~Fr~G~i-kVLVATstLa~GVNLPav~VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d~~Ge 924 (2191)
-.-+.|.....+|..+...|....+ -.|++|..-.-|||+.+..-||-++.. .++.-=.|...||-|.|....-.
T Consensus 1071 ylRLDGSsk~~dRrd~vrDwQ~sdiFvFLLSTRAGGLGINLTAADTViFYdSD----WNPT~D~QAMDRAHRLGQTrdvt 1146 (1185)
T KOG0388|consen 1071 YLRLDGSSKASDRRDVVRDWQASDIFVFLLSTRAGGLGINLTAADTVIFYDSD----WNPTADQQAMDRAHRLGQTRDVT 1146 (1185)
T ss_pred eEEecCcchhhHHHHHHhhccCCceEEEEEecccCcccccccccceEEEecCC----CCcchhhHHHHHHHhccCcccee
Confidence 4457788999999999999998666 457899999999999997766543321 24444568889999999888888
Q ss_pred EEEEeChhh
Q 000107 925 SMLICKPEE 933 (2191)
Q Consensus 925 ~ill~~~~e 933 (2191)
+|.+.....
T Consensus 1147 vyrl~~rgT 1155 (1185)
T KOG0388|consen 1147 VYRLITRGT 1155 (1185)
T ss_pred eeeeccccc
Confidence 888876643
No 412
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=85.39 E-value=4.5 Score=50.75 Aligned_cols=24 Identities=25% Similarity=0.362 Sum_probs=18.7
Q ss_pred eEEEEcCCCCchhHHHHHHHHHHHH
Q 000107 543 NLVYCASTSAGKSFVAEILMLRRLI 567 (2191)
Q Consensus 543 nlIi~APTGSGKTlvael~iL~~ll 567 (2191)
++++.||+|+|||..+... .+.+.
T Consensus 38 ~lll~Gp~GtGKT~la~~~-~~~l~ 61 (337)
T PRK12402 38 HLLVQGPPGSGKTAAVRAL-ARELY 61 (337)
T ss_pred eEEEECCCCCCHHHHHHHH-HHHhc
Confidence 7999999999999887543 34443
No 413
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=85.39 E-value=3.7 Score=56.75 Aligned_cols=127 Identities=18% Similarity=0.206 Sum_probs=78.1
Q ss_pred CChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhc
Q 000107 763 KDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETL 842 (2191)
Q Consensus 763 ~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l 842 (2191)
.+...+.-|++.+..+|+.||||..-.+... .|..++...++
T Consensus 1260 GKLQtLAiLLqQLk~eghRvLIfTQMtkmLD----VLeqFLnyHgy---------------------------------- 1301 (1958)
T KOG0391|consen 1260 GKLQTLAILLQQLKSEGHRVLIFTQMTKMLD----VLEQFLNYHGY---------------------------------- 1301 (1958)
T ss_pred chHHHHHHHHHHHHhcCceEEehhHHHHHHH----HHHHHHhhcce----------------------------------
Confidence 3455666677888889999999986544332 33333322211
Q ss_pred CCcEEEEcCCCCHHHHHHHHHHhhcCC--ceEEEecccccccCCCCCceEEeecCCCCCcccCcccccccccccCCCCCC
Q 000107 843 PSGVAYHHAGLTVEEREVVETCYRKGL--VRVLTATSTLAAGVNLPARRVIFRQPRIGRDFIDGTRYRQMAGRAGRTGID 920 (2191)
Q Consensus 843 ~~GVa~hHagLs~~eR~~Ve~~Fr~G~--ikVLVATstLa~GVNLPav~VVI~~p~~g~~~is~~~y~QmiGRAGR~G~d 920 (2191)
-..-+-|....++|....+.|.... ...|++|..-..||||-+..-||-|+.. | +...=.|---|+-|-|..
T Consensus 1302 --lY~RLDg~t~vEqRQaLmerFNaD~RIfcfILSTrSggvGiNLtgADTVvFYDsD---w-NPtMDaQAQDrChRIGqt 1375 (1958)
T KOG0391|consen 1302 --LYVRLDGNTSVEQRQALMERFNADRRIFCFILSTRSGGVGINLTGADTVVFYDSD---W-NPTMDAQAQDRCHRIGQT 1375 (1958)
T ss_pred --EEEEecCCccHHHHHHHHHHhcCCCceEEEEEeccCCccccccccCceEEEecCC---C-CchhhhHHHHHHHhhcCc
Confidence 1233568888999999999998643 3677899999999999886655433321 1 222222333333333333
Q ss_pred CceEEEEEeChhh
Q 000107 921 TKGESMLICKPEE 933 (2191)
Q Consensus 921 ~~Ge~ill~~~~e 933 (2191)
+.-..|.|++..-
T Consensus 1376 RDVHIYRLISe~T 1388 (1958)
T KOG0391|consen 1376 RDVHIYRLISERT 1388 (1958)
T ss_pred cceEEEEeeccch
Confidence 4667788877643
No 414
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=85.36 E-value=5 Score=53.38 Aligned_cols=25 Identities=12% Similarity=0.278 Sum_probs=18.9
Q ss_pred eEEEEcCCCCchhHHHHHHHHHHHHh
Q 000107 543 NLVYCASTSAGKSFVAEILMLRRLIS 568 (2191)
Q Consensus 543 nlIi~APTGSGKTlvael~iL~~ll~ 568 (2191)
.++++||+|+|||+++.. +.+.+..
T Consensus 38 a~Lf~GppGtGKTTlA~~-lA~~l~c 62 (504)
T PRK14963 38 AYLFSGPRGVGKTTTARL-IAMAVNC 62 (504)
T ss_pred EEEEECCCCCCHHHHHHH-HHHHHhc
Confidence 459999999999999854 4455543
No 415
>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=85.31 E-value=0.82 Score=60.10 Aligned_cols=57 Identities=28% Similarity=0.338 Sum_probs=43.9
Q ss_pred hhcCCCCCCHHHHHHHHHcCCCCHHHHHcCCHHHHHHHHhhcchhHHHHHhhhhHHHHHHHHHHHHHHH
Q 000107 1232 ELTTIPYVKGSRARALYKAGLRTPLAIAEASISEIVKALFESSSWIAEAQRRVQLGVAKKIKNGARKIV 1300 (2191)
Q Consensus 1232 ~L~~ip~v~~~RAR~Ly~aG~~t~~~la~a~~~~l~~~l~~~~~~~~~~~~~~~~~~A~~I~~~A~~l~ 1300 (2191)
+|.-|+||++.|+..|+++||.|+++||.+++..+..+. +++.+.|.+++.+|+..+
T Consensus 208 ~lslv~gi~~~~~~~L~~~GI~ti~~La~~~~~~l~~~~------------~~~~~~~~~l~~qA~a~~ 264 (457)
T TIGR03491 208 HLSLVPGIGPSRYRLLQELGIHTLEDLAAADPNDLEDFG------------EQGLGVAEQLVQQARAQL 264 (457)
T ss_pred CeeecCCCCHHHHHHHHHcCCCcHHHHhcCCcccccccc------------ccCHHHHHHHHHHHHHHH
Confidence 788899999999999999999999999999865554431 233456666666666553
No 416
>PRK06195 DNA polymerase III subunit epsilon; Validated
Probab=85.16 E-value=3.1 Score=52.03 Aligned_cols=96 Identities=14% Similarity=0.163 Sum_probs=60.7
Q ss_pred HHHHHHHHHHhhccCCccEEEechHHHHHHHHhc----CcccccccCccccccccccccccccccccccCCCCccchHHH
Q 000107 1582 IKQRWKRIGEIMEKRDVRKFTWNMKVQIQVLKHA----AVSIQRFGGLNLVGTSLGLENVGSSFLLLSPVHLKDGIDMCI 1657 (2191)
Q Consensus 1582 ~~~~~~~L~~lLe~~~v~kv~hNlK~dl~vL~~~----gi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~l 1657 (2191)
+.+.|..+.+++.+ ...|+||+.||+.+|.+. ++..+. ..++||+-
T Consensus 67 f~ev~~~~~~fl~~--~~lVaHNa~FD~~fL~~~~~r~~~~~~~----------------------------~~~idT~~ 116 (309)
T PRK06195 67 FDKIWEKIKHYFNN--NLVIAHNASFDISVLRKTLELYNIPMPS----------------------------FEYICTMK 116 (309)
T ss_pred HHHHHHHHHHHhCC--CEEEEECcHHHHHHHHHHHHHhCCCCCC----------------------------CCEEEHHH
Confidence 35667788888854 578999999999888652 221111 13689986
Q ss_pred HHHhcCCCCCCCCchhHHHHHHHhhChHHHHHhhccCchhhhhHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Q 000107 1658 VSWILWPDDERSSNPNLEKEVKKRLSSEAAAAANRSGRWKNQMRRAAHNGCCRRVAQTRALCSVLWKLLVS 1728 (2191)
Q Consensus 1658 AawLL~P~~~~~~l~~L~~~~~~~l~~e~~~~~~~~g~~~~~~~~~~~~ya~~Da~~t~~L~~~L~~~L~~ 1728 (2191)
.+.-+.|....++|.+|.+. ++.+. -++.|..||.+|.+|+..+..++..
T Consensus 117 lar~l~~~~~~~~L~~L~~~----~gi~~-----------------~~H~Al~DA~ata~l~~~l~~~~~~ 166 (309)
T PRK06195 117 LAKNFYSNIDNARLNTVNNF----LGYEF-----------------KHHDALADAMACSNILLNISKELNS 166 (309)
T ss_pred HHHHHcCCCCcCCHHHHHHH----cCCCC-----------------cccCCHHHHHHHHHHHHHHHHHhcc
Confidence 66666676556665544322 22210 1245778999998888777665543
No 417
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=85.14 E-value=5.7 Score=53.46 Aligned_cols=56 Identities=13% Similarity=0.221 Sum_probs=33.8
Q ss_pred HHHHHHHHhcCCCHHHHHHHhCCCcchHHHHHHHHHHHHHHHHHHHHHhCc-hhHHHHHHHHHHHHh
Q 000107 1158 VALILSRLVQETPVLEVCETFKVARGMVQALQENAGRFASMVSVFCERLGW-YDLEGLIAKFQNRVS 1223 (2191)
Q Consensus 1158 ~al~L~dli~e~~~~~i~~~y~v~rG~lq~l~~~a~~~a~~v~~fc~~lg~-~~~~~ll~~~~~RL~ 1223 (2191)
+||-|..=+-..++.+|.+.|| | .-.+..+++.++-+.|.- ..+...+..+..+|.
T Consensus 559 iAMYL~r~lt~~Sl~~IG~~Fg--R--------dHSTV~~A~~kI~~~~~~d~~l~~~V~~L~~~i~ 615 (617)
T PRK14086 559 IAMYLCRELTDLSLPKIGQQFG--R--------DHTTVMHADRKIRALMAERRSIYNQVTELTNRIK 615 (617)
T ss_pred HHHHHHHHHcCCCHHHHHHHhC--C--------ChhHHHHHHHHHHHHHHhCHHHHHHHHHHHHHHh
Confidence 4555555566777888888887 3 134455555566665552 356666666666653
No 418
>TIGR00959 ffh signal recognition particle protein. This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.
Probab=85.02 E-value=2.4 Score=55.09 Aligned_cols=57 Identities=23% Similarity=0.225 Sum_probs=36.8
Q ss_pred CeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEc--hhHHHHHHHHHHHHHHhhccCCeE
Q 000107 542 RNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVL--PYVSICAEKAEHLEVLLEPLGRHV 601 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~--P~raLA~q~~~~l~~l~~~lg~~V 601 (2191)
..+++++++|+|||+++.-.+.......|.++++|. ++|..+.++.+.+ ....|+.+
T Consensus 100 ~vi~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D~~R~~a~~QL~~~---a~~~gvp~ 158 (428)
T TIGR00959 100 TVILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACDLYRPAAIEQLKVL---GQQVGVPV 158 (428)
T ss_pred EEEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEeccccchHHHHHHHHH---HHhcCCce
Confidence 578899999999999876555442224577777665 6666665554443 33345443
No 419
>CHL00181 cbbX CbbX; Provisional
Probab=85.02 E-value=6.1 Score=48.89 Aligned_cols=22 Identities=23% Similarity=0.317 Sum_probs=18.7
Q ss_pred cCCeEEEEcCCCCchhHHHHHH
Q 000107 540 QRRNLVYCASTSAGKSFVAEIL 561 (2191)
Q Consensus 540 ~gknlIi~APTGSGKTlvael~ 561 (2191)
.+-++++.||+|+|||.+|-..
T Consensus 58 ~~~~ill~G~pGtGKT~lAr~l 79 (287)
T CHL00181 58 PGLHMSFTGSPGTGKTTVALKM 79 (287)
T ss_pred CCceEEEECCCCCCHHHHHHHH
Confidence 3567999999999999998654
No 420
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=84.86 E-value=6.2 Score=52.64 Aligned_cols=42 Identities=24% Similarity=0.445 Sum_probs=25.2
Q ss_pred HHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHH
Q 000107 625 EKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKL 670 (2191)
Q Consensus 625 Ekl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kL 670 (2191)
+.+..++......+......+|||||+|++.. ...+.++..+
T Consensus 100 d~IRelie~~~~~P~~~~~KVvIIDEad~Lt~----~A~NALLK~L 141 (535)
T PRK08451 100 DDIRELIEQTKYKPSMARFKIFIIDEVHMLTK----EAFNALLKTL 141 (535)
T ss_pred HHHHHHHHHHhhCcccCCeEEEEEECcccCCH----HHHHHHHHHH
Confidence 44444444322234567789999999999864 2344444444
No 421
>TIGR02785 addA_Gpos recombination helicase AddA, Firmicutes type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the Firmicutes (as modeled here) and the alphaproteobacteria, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=84.83 E-value=1.9 Score=63.26 Aligned_cols=122 Identities=13% Similarity=0.111 Sum_probs=76.3
Q ss_pred CCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhc--CCEEEEEchhHHHHHHHHHHHHHHhhccCCeE
Q 000107 524 KLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIST--GKMALLVLPYVSICAEKAEHLEVLLEPLGRHV 601 (2191)
Q Consensus 524 ~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~--g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V 601 (2191)
++++-|.++|.. .++|++|+|.-|||||.+..--+++.+... -.++++|+=|++.|.++.+++.+.+...-..
T Consensus 1 ~~t~~Q~~ai~~----~~~~~lv~A~AGsGKT~~lv~r~~~~~~~~~~~~~il~~tFt~~aa~e~~~ri~~~l~~~~~~- 75 (1232)
T TIGR02785 1 QWTDEQWQAIYT----RGQNILVSASAGSGKTAVLVERIIKKILRGVDIDRLLVVTFTNAAAREMKERIEEALQKALQQ- 75 (1232)
T ss_pred CCCHHHHHHHhC----CCCCEEEEecCCCcHHHHHHHHHHHHHhcCCCHhhEEEEeccHHHHHHHHHHHHHHHHHHHhc-
Confidence 368899999863 689999999999999999887777766532 1358999999999999998887765432000
Q ss_pred EEEeccCC-CCCCCCCCceEEEchHHHH-HHHHHhhhcCCCCccceEEEccccc
Q 000107 602 RSYYGNQG-GGSLPKDTSVAVCTIEKAN-SLVNRMLEEGRLSEIGIIVIDELHM 653 (2191)
Q Consensus 602 ~~~~G~~~-~~~l~~~~~IiV~TpEkl~-~Ll~~l~~~~~L~~l~lVVIDEaH~ 653 (2191)
--.... ...+..-...-|+|...+. .++++......++ -++=|.||...
T Consensus 76 --~p~~~~L~~q~~~~~~~~i~Tihsf~~~~~~~~~~~l~ld-P~F~i~de~e~ 126 (1232)
T TIGR02785 76 --EPNSKHLRRQLALLNTANISTLHSFCLKVIRKHYYLLDLD-PSFRILTDTEQ 126 (1232)
T ss_pred --CchhHHHHHHHhhccCCeEeeHHHHHHHHHHHhhhhcCCC-CCceeCCHHHH
Confidence 000000 0001111356789987753 4455422211111 14456887764
No 422
>smart00492 HELICc3 helicase superfamily c-terminal domain.
Probab=84.53 E-value=1.8 Score=47.77 Aligned_cols=79 Identities=24% Similarity=0.224 Sum_probs=51.9
Q ss_pred EcCCCCHHHHHHHHHHhhcCC-ceEEEecccccccCCCCCc---eEEe-ecCCCCCc------------------ccC--
Q 000107 849 HHAGLTVEEREVVETCYRKGL-VRVLTATSTLAAGVNLPAR---RVIF-RQPRIGRD------------------FID-- 903 (2191)
Q Consensus 849 hHagLs~~eR~~Ve~~Fr~G~-ikVLVATstLa~GVNLPav---~VVI-~~p~~g~~------------------~is-- 903 (2191)
+..+....+...+.+.|+... -.||++|.-++.|||+|+. .||| ..|.+... +..
T Consensus 27 ~~e~~~~~~~~~~l~~f~~~~~~~iL~~~~~~~EGiD~~g~~~r~vii~glPfp~~~d~~~~~~~~~~~~~~~~~~~~~~ 106 (141)
T smart00492 27 LVQGEDGKETGKLLEKYVEACENAILLATARFSEGVDFPGDYLRAVIIDGLPFPYPDSPILKARLELLRDKGQIRPFDFV 106 (141)
T ss_pred EEeCCChhHHHHHHHHHHHcCCCEEEEEccceecceecCCCCeeEEEEEecCCCCCCCHHHHHHHHHHHHhCCCCchhHH
Confidence 444555656788888898654 3799999889999999983 3443 33443111 111
Q ss_pred -----cccccccccccCCCCCCCceEEEEE
Q 000107 904 -----GTRYRQMAGRAGRTGIDTKGESMLI 928 (2191)
Q Consensus 904 -----~~~y~QmiGRAGR~G~d~~Ge~ill 928 (2191)
.....|.+||+-|... ..|..+++
T Consensus 107 ~~~~a~~~l~Qa~GR~iR~~~-D~g~i~l~ 135 (141)
T smart00492 107 SLPDAMRTLAQCVGRLIRGAN-DYGVVVIA 135 (141)
T ss_pred HHHHHHHHHHHHhCccccCcC-ceEEEEEE
Confidence 1245899999999874 46765554
No 423
>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family. This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.
Probab=84.52 E-value=1.4 Score=52.14 Aligned_cols=54 Identities=13% Similarity=0.089 Sum_probs=37.8
Q ss_pred ccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHH
Q 000107 537 GVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEV 592 (2191)
Q Consensus 537 ~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~ 592 (2191)
++..|..+++.+++|+|||..+...+...+. .|.+++|+.--. -..+..+++..
T Consensus 12 Gi~~g~~~li~G~~G~GKt~~~~~~~~~~~~-~g~~~~y~s~e~-~~~~l~~~~~~ 65 (224)
T TIGR03880 12 GFPEGHVIVVIGEYGTGKTTFSLQFLYQGLK-NGEKAMYISLEE-REERILGYAKS 65 (224)
T ss_pred CCCCCeEEEEECCCCCCHHHHHHHHHHHHHh-CCCeEEEEECCC-CHHHHHHHHHH
Confidence 4567889999999999999887766655444 588898886543 33444444433
No 424
>PRK14669 uvrC excinuclease ABC subunit C; Provisional
Probab=84.50 E-value=2.9 Score=56.58 Aligned_cols=66 Identities=23% Similarity=0.330 Sum_probs=49.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhccCchhhhhhcCCCCCCHHHHHHHHHcCCCCHHHHHcCCH
Q 000107 1184 MVQALQENAGRFASMVSVFCERLGWYDLEGLIAKFQNRVSFGVRAEIVELTTIPYVKGSRARALYKAGLRTPLAIAEASI 1263 (2191)
Q Consensus 1184 ~lq~l~~~a~~~a~~v~~fc~~lg~~~~~~ll~~~~~RL~~Gv~~ELl~L~~ip~v~~~RAR~Ly~aG~~t~~~la~a~~ 1263 (2191)
.||.+++.|.+||-..- +.+. +++.. + ..|..|||||..|+++|++. |.|++.|.+|+.
T Consensus 525 lLq~iRDEaHRFAIt~h---Rk~R-----------~k~~~---~---S~L~~IpGIG~kr~~~LL~~-FgSi~~I~~As~ 583 (624)
T PRK14669 525 LVQSIRDEAHRFAITFH---RKRR-----------ETRDR---T---SELLEIPGVGAKTVQRLLKH-FGSLERVRAATE 583 (624)
T ss_pred HHHHHHHHHHHHHHHHh---HHHh-----------hHHHH---H---HHHhcCCCCCHHHHHHHHHH-cCCHHHHHhCCH
Confidence 58899999999875331 1111 01111 1 45669999999999999987 889999999999
Q ss_pred HHHHHHH
Q 000107 1264 SEIVKAL 1270 (2191)
Q Consensus 1264 ~~l~~~l 1270 (2191)
++|.+++
T Consensus 584 eeL~~vi 590 (624)
T PRK14669 584 TQLAAVV 590 (624)
T ss_pred HHHHHHh
Confidence 9998873
No 425
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=84.47 E-value=5.2 Score=49.77 Aligned_cols=24 Identities=17% Similarity=0.383 Sum_probs=20.1
Q ss_pred cccccCCeEEEEcCCCCchhHHHH
Q 000107 536 DGVLQRRNLVYCASTSAGKSFVAE 559 (2191)
Q Consensus 536 ~~il~gknlIi~APTGSGKTlvae 559 (2191)
.+|...+-+++.+|+|+|||+.|=
T Consensus 180 ~GI~PPKGVLLYGPPGTGKTLLAk 203 (406)
T COG1222 180 LGIDPPKGVLLYGPPGTGKTLLAK 203 (406)
T ss_pred cCCCCCCceEeeCCCCCcHHHHHH
Confidence 355667899999999999999874
No 426
>COG2874 FlaH Predicted ATPases involved in biogenesis of archaeal flagella [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=84.45 E-value=6.4 Score=45.95 Aligned_cols=128 Identities=17% Similarity=0.150 Sum_probs=72.9
Q ss_pred cccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEc---hhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCC
Q 000107 538 VLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVL---PYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLP 614 (2191)
Q Consensus 538 il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~---P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~ 614 (2191)
+--|.=++|-++.|+|||......+. -.+..|.++.|++ |.++...| ...+++.|..++-.-.-.-++
T Consensus 25 iP~GsL~lIEGd~~tGKSvLsqr~~Y-G~L~~g~~v~yvsTe~T~refi~q--------m~sl~ydv~~~~l~G~l~~~~ 95 (235)
T COG2874 25 IPVGSLILIEGDNGTGKSVLSQRFAY-GFLMNGYRVTYVSTELTVREFIKQ--------MESLSYDVSDFLLSGRLLFFP 95 (235)
T ss_pred CccCeEEEEECCCCccHHHHHHHHHH-HHHhCCceEEEEEechhHHHHHHH--------HHhcCCCchHHHhcceeEEEE
Confidence 33467789999999999987665544 3445678888776 33333332 333444432211100000001
Q ss_pred CCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHhh
Q 000107 615 KDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAA 674 (2191)
Q Consensus 615 ~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~ 674 (2191)
-+..=+...++....++..+++.....+-+++|||=+..+.-..--..+..+++.+|.++
T Consensus 96 ~~~~~~~~~~~~~~~~L~~l~~~~k~~~~dViIIDSls~~~~~~~~~~vl~fm~~~r~l~ 155 (235)
T COG2874 96 VNLEPVNWGRRSARKLLDLLLEFIKRWEKDVIIIDSLSAFATYDSEDAVLNFMTFLRKLS 155 (235)
T ss_pred ecccccccChHHHHHHHHHHHhhHHhhcCCEEEEecccHHhhcccHHHHHHHHHHHHHHH
Confidence 111122334555666777666666677889999999988764322234555677777775
No 427
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=84.31 E-value=2.6 Score=57.62 Aligned_cols=90 Identities=22% Similarity=0.230 Sum_probs=71.6
Q ss_pred CChhHHHHHHHHHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhc
Q 000107 763 KDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETL 842 (2191)
Q Consensus 763 ~d~d~l~~Ll~e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l 842 (2191)
.+.+...+++.+.+..|+++||-+|.......+...+...+.
T Consensus 229 GKTEvYl~~i~~~L~~GkqvLvLVPEI~Ltpq~~~rf~~rFg-------------------------------------- 270 (730)
T COG1198 229 GKTEVYLEAIAKVLAQGKQVLVLVPEIALTPQLLARFKARFG-------------------------------------- 270 (730)
T ss_pred cHHHHHHHHHHHHHHcCCEEEEEeccccchHHHHHHHHHHhC--------------------------------------
Confidence 344667788999999999999999999887777777665543
Q ss_pred CCcEEEEcCCCCHHHHHHHHHHhhcCCceEEEecccccccCCCCCceEEe
Q 000107 843 PSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIF 892 (2191)
Q Consensus 843 ~~GVa~hHagLs~~eR~~Ve~~Fr~G~ikVLVATstLa~GVNLPav~VVI 892 (2191)
..|+.+|++|++.+|..+....++|..+|+|.|-. |-=.-+++..+||
T Consensus 271 -~~v~vlHS~Ls~~er~~~W~~~~~G~~~vVIGtRS-AlF~Pf~~LGLII 318 (730)
T COG1198 271 -AKVAVLHSGLSPGERYRVWRRARRGEARVVIGTRS-ALFLPFKNLGLII 318 (730)
T ss_pred -CChhhhcccCChHHHHHHHHHHhcCCceEEEEech-hhcCchhhccEEE
Confidence 12778999999999999999999999999999975 3344555666554
No 428
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=83.89 E-value=5.7 Score=49.89 Aligned_cols=115 Identities=10% Similarity=0.192 Sum_probs=57.5
Q ss_pred CCCHHHHHhhhhc--ccccC---CeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccC
Q 000107 524 KLYPWQVECLHVD--GVLQR---RNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLG 598 (2191)
Q Consensus 524 ~l~p~Q~eal~~~--~il~g---knlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg 598 (2191)
.+||||...+... .+..| .-++++||.|.||+..+.. +.+.++.......- | -.....++.+.....
T Consensus 2 ~~yPW~~~~~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~-~A~~llC~~~~~~~--~-----Cg~C~sC~~~~~g~H 73 (325)
T PRK06871 2 ALYPWLQPTYQQITQAFQQGLGHHALLFKADSGLGTEQLIRA-LAQWLMCQTPQGDQ--P-----CGQCHSCHLFQAGNH 73 (325)
T ss_pred CCCcchHHHHHHHHHHHHcCCcceeEEeECCCCCCHHHHHHH-HHHHHcCCCCCCCC--C-----CCCCHHHHHHhcCCC
Confidence 3588888877640 12233 4688999999999988754 34555543221000 0 011112222211111
Q ss_pred CeEEEEeccCCCCCCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccc
Q 000107 599 RHVRSYYGNQGGGSLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVAD 656 (2191)
Q Consensus 599 ~~V~~~~G~~~~~~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d 656 (2191)
-.+..+... .+..| ..+.+-.+.+.+...+.-...+++|||++|.|..
T Consensus 74 PD~~~i~p~-------~~~~I---~id~iR~l~~~~~~~~~~g~~KV~iI~~a~~m~~ 121 (325)
T PRK06871 74 PDFHILEPI-------DNKDI---GVDQVREINEKVSQHAQQGGNKVVYIQGAERLTE 121 (325)
T ss_pred CCEEEEccc-------cCCCC---CHHHHHHHHHHHhhccccCCceEEEEechhhhCH
Confidence 111111110 01111 2344444444444445567789999999999864
No 429
>PF09281 Taq-exonuc: Taq polymerase, exonuclease; InterPro: IPR015361 This domain is found in prokaryotic Taq DNA polymerase (thermostable), where it assumes a ribonuclease H-like motif. The domain confers 5'-3' exonuclease activity to the polymerase []. ; GO: 0001882 nucleoside binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 4DF4_A 3T3F_A 1QSY_A 3OJS_A 3PO5_A 3OJU_A 1QTM_A 1QSS_A 3PY8_A 4DFJ_A ....
Probab=83.85 E-value=3.1 Score=44.24 Aligned_cols=52 Identities=27% Similarity=0.418 Sum_probs=28.3
Q ss_pred cchHHHHHHhcCCCCCCCCchhHHHHHHHhhChHHHHHhhccCchhhhhHHHHhhhHHHHHHHHHHHHHHHHHHH
Q 000107 1652 GIDMCIVSWILWPDDERSSNPNLEKEVKKRLSSEAAAAANRSGRWKNQMRRAAHNGCCRRVAQTRALCSVLWKLL 1726 (2191)
Q Consensus 1652 ~~Dt~lAawLL~P~~~~~~l~~L~~~~~~~l~~e~~~~~~~~g~~~~~~~~~~~~ya~~Da~~t~~L~~~L~~~L 1726 (2191)
.-|||+.+|||||.+. +....+.+|++ |.|.. -+...+.++.+|+..|..+|
T Consensus 87 GDDPlLlAYLlDPsNt-----~p~~varRY~~----------~~W~~--------dA~~RA~~t~~L~~~L~prL 138 (138)
T PF09281_consen 87 GDDPLLLAYLLDPSNT-----NPEGVARRYLG----------GEWPE--------DAATRALATARLLRALPPRL 138 (138)
T ss_dssp ---HHHHHHHH-TT-------SHHHHHHHH-T----------S---S--------SHHHHHHHHHHHHHHHHHHT
T ss_pred CCCcchhhhhcCccCC-----ChHHHHHHhcC----------CCCCc--------cHHHHHHHHHHHHHHhhhcC
Confidence 3699999999999754 23334455543 33432 34566777888887777654
No 430
>PRK07758 hypothetical protein; Provisional
Probab=83.71 E-value=2.6 Score=42.77 Aligned_cols=33 Identities=27% Similarity=0.325 Sum_probs=28.7
Q ss_pred CCCCHHHHHHHHHcCCCCHHHHHcCCHHHHHHH
Q 000107 1237 PYVKGSRARALYKAGLRTPLAIAEASISEIVKA 1269 (2191)
Q Consensus 1237 p~v~~~RAR~Ly~aG~~t~~~la~a~~~~l~~~ 1269 (2191)
|+++..-.+.|.+|||.|++||+..+.++|.++
T Consensus 40 ~~LSvRA~N~Lk~AGI~TL~dLv~~te~ELl~i 72 (95)
T PRK07758 40 SLLSAPARRALEHHGIHTVEELSKYSEKEILKL 72 (95)
T ss_pred ccccHHHHHHHHHcCCCcHHHHHcCCHHHHHHc
Confidence 455555568999999999999999999999998
No 431
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=83.53 E-value=6.2 Score=49.91 Aligned_cols=41 Identities=24% Similarity=0.451 Sum_probs=29.4
Q ss_pred CCHHHHHhhhhcccc--cC---CeEEEEcCCCCchhHHHHHHHHHHHHh
Q 000107 525 LYPWQVECLHVDGVL--QR---RNLVYCASTSAGKSFVAEILMLRRLIS 568 (2191)
Q Consensus 525 l~p~Q~eal~~~~il--~g---knlIi~APTGSGKTlvael~iL~~ll~ 568 (2191)
+||||...... +. .+ .-+++.||.|.||+..+.. +.+.++.
T Consensus 2 ~yPW~~~~~~~--l~~~~~rl~ha~Lf~Gp~G~GK~~lA~~-~A~~LlC 47 (342)
T PRK06964 2 LYPWQTDDWNR--LQALRARLPHALLLHGQAGIGKLDFAQH-LAQGLLC 47 (342)
T ss_pred CCcccHHHHHH--HHHhcCCcceEEEEECCCCCCHHHHHHH-HHHHHcC
Confidence 57888888765 32 22 4788999999999988854 4455554
No 432
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=83.48 E-value=7.8 Score=50.88 Aligned_cols=36 Identities=8% Similarity=0.163 Sum_probs=26.1
Q ss_pred CeEEEEcCCCCchhHHHHHHHHHHHHhc--CCEEEEEch
Q 000107 542 RNLVYCASTSAGKSFVAEILMLRRLIST--GKMALLVLP 578 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael~iL~~ll~~--g~kaL~I~P 578 (2191)
..+++.||+|+|||..+. ++.+.+... +.+++|+..
T Consensus 131 n~l~lyG~~G~GKTHLl~-ai~~~l~~~~~~~~v~yi~~ 168 (440)
T PRK14088 131 NPLFIYGGVGLGKTHLLQ-SIGNYVVQNEPDLRVMYITS 168 (440)
T ss_pred CeEEEEcCCCCcHHHHHH-HHHHHHHHhCCCCeEEEEEH
Confidence 469999999999998763 455555443 457888764
No 433
>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1. This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.
Probab=83.41 E-value=2.5 Score=52.76 Aligned_cols=104 Identities=10% Similarity=0.141 Sum_probs=58.2
Q ss_pred ccccCCeEEEEcCCCCchhHHHHHHHHHHHHh-----cCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCC
Q 000107 537 GVLQRRNLVYCASTSAGKSFVAEILMLRRLIS-----TGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGG 611 (2191)
Q Consensus 537 ~il~gknlIi~APTGSGKTlvael~iL~~ll~-----~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~ 611 (2191)
++..|.-+.+++|+|+|||..+...++...+. .+.+++||----.+-.+ ++.++...+|+...
T Consensus 92 Gi~~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~e---Ri~~~a~~~g~d~~--------- 159 (313)
T TIGR02238 92 GIESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPD---RIRAIAERFGVDPD--------- 159 (313)
T ss_pred CCcCCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHH---HHHHHHHHcCCChH---------
Confidence 56677899999999999998887666544332 25689999743222112 22222222332211
Q ss_pred CCCCCCceEE---EchHHHHHHHHHhhhcCCCCccceEEEcccccc
Q 000107 612 SLPKDTSVAV---CTIEKANSLVNRMLEEGRLSEIGIIVIDELHMV 654 (2191)
Q Consensus 612 ~l~~~~~IiV---~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l 654 (2191)
.... +|.+ -+.+....++..+.....-.++++||||=+--+
T Consensus 160 ~~l~--~i~~~~~~~~e~~~~~l~~l~~~i~~~~~~LvVIDSisal 203 (313)
T TIGR02238 160 AVLD--NILYARAYTSEHQMELLDYLAAKFSEEPFRLLIVDSIMAL 203 (313)
T ss_pred HhcC--cEEEecCCCHHHHHHHHHHHHHHhhccCCCEEEEEcchHh
Confidence 0111 1333 245665555554332222246899999997644
No 434
>COG2251 Predicted nuclease (RecB family) [General function prediction only]
Probab=83.37 E-value=1.4 Score=55.62 Aligned_cols=38 Identities=26% Similarity=0.354 Sum_probs=34.1
Q ss_pred hhcCCCCCCHHHHHHHHHcCCCCHHHHHcCCHHHHHHH
Q 000107 1232 ELTTIPYVKGSRARALYKAGLRTPLAIAEASISEIVKA 1269 (2191)
Q Consensus 1232 ~L~~ip~v~~~RAR~Ly~aG~~t~~~la~a~~~~l~~~ 1269 (2191)
+|.=+|||+..|++.|++.||+|++|||+++...+..+
T Consensus 226 ~L~Lv~Gi~~~r~~~l~~~GI~Ti~~LA~~~~~~~~~~ 263 (474)
T COG2251 226 DLSLVPGITPSRYDVLEEVGITTIEDLADASLPILELV 263 (474)
T ss_pred ceeccCCCCHHHHHHHHHcCcchHHHHHhccccchhhh
Confidence 56668999999999999999999999999998877665
No 435
>PLN03187 meiotic recombination protein DMC1 homolog; Provisional
Probab=83.33 E-value=2.1 Score=54.05 Aligned_cols=54 Identities=15% Similarity=0.156 Sum_probs=48.1
Q ss_pred CCCCCHHHHHHHHHcCCCCHHHHHcCCHHHHHHHHhhcchhHHHHHhhhhHHHHHHHHHHHHHHHH
Q 000107 1236 IPYVKGSRARALYKAGLRTPLAIAEASISEIVKALFESSSWIAEAQRRVQLGVAKKIKNGARKIVL 1301 (2191)
Q Consensus 1236 ip~v~~~RAR~Ly~aG~~t~~~la~a~~~~l~~~l~~~~~~~~~~~~~~~~~~A~~I~~~A~~l~~ 1301 (2191)
-+||+..-+.+|-++||+|++||+.+++.+|.++ .+++...|.+|++.|++++.
T Consensus 36 ~~g~~~~~~~kL~~~g~~tv~~~~~~~~~~L~~~------------~g~s~~~~~ki~~~a~~~~~ 89 (344)
T PLN03187 36 SQGINAGDVKKLQDAGIYTCNGLMMHTKKNLTGI------------KGLSEAKVDKICEAAEKLLN 89 (344)
T ss_pred hCCCCHHHHHHHHHcCCCcHHHHHhCCHHHHHHh------------cCCCHHHHHHHHHHHHHhhc
Confidence 3789999999999999999999999999999997 35677889999999988863
No 436
>PRK00116 ruvA Holliday junction DNA helicase RuvA; Reviewed
Probab=83.29 E-value=1.9 Score=50.13 Aligned_cols=58 Identities=17% Similarity=0.130 Sum_probs=45.1
Q ss_pred hhhcCCCCCCHHHHHHHHHc-CCCCH-HHHHcCCHHHHHHHHhhcchhHHHHHhhhhHHHHHHHHHHHHHHH
Q 000107 1231 VELTTIPYVKGSRARALYKA-GLRTP-LAIAEASISEIVKALFESSSWIAEAQRRVQLGVAKKIKNGARKIV 1300 (2191)
Q Consensus 1231 l~L~~ip~v~~~RAR~Ly~a-G~~t~-~~la~a~~~~l~~~l~~~~~~~~~~~~~~~~~~A~~I~~~A~~l~ 1300 (2191)
..|..|||||+.+|+++.+. |..++ +.|.++++++|.++ ++++.+.|.+|+.+-+.-+
T Consensus 73 ~~L~~i~GIGpk~A~~il~~fg~~~l~~~i~~~d~~~L~~v------------~Gig~k~A~~I~~~l~~~~ 132 (192)
T PRK00116 73 RLLISVSGVGPKLALAILSGLSPEELVQAIANGDVKALTKV------------PGIGKKTAERIVLELKDKL 132 (192)
T ss_pred HHHhcCCCCCHHHHHHHHHhCCHHHHHHHHHhCCHHHHHhC------------CCCCHHHHHHHHHHHHHHh
Confidence 46778999999999999875 54443 45777888888776 6788899999998766544
No 437
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=83.26 E-value=20 Score=45.14 Aligned_cols=52 Identities=15% Similarity=0.172 Sum_probs=34.6
Q ss_pred cCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEc--hhHHHHHHHHHHHHH
Q 000107 540 QRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVL--PYVSICAEKAEHLEV 592 (2191)
Q Consensus 540 ~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~--P~raLA~q~~~~l~~ 592 (2191)
.++.+.+++|+|+|||+.+.-.+. .+...+++++++. +++.-+.++...+..
T Consensus 113 ~~~vi~lvGpnGsGKTTt~~kLA~-~l~~~g~~V~Li~~D~~r~~a~eql~~~a~ 166 (318)
T PRK10416 113 KPFVILVVGVNGVGKTTTIGKLAH-KYKAQGKKVLLAAGDTFRAAAIEQLQVWGE 166 (318)
T ss_pred CCeEEEEECCCCCcHHHHHHHHHH-HHHhcCCeEEEEecCccchhhHHHHHHHHH
Confidence 467889999999999988754433 2334567777664 456666555544433
No 438
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=83.08 E-value=5.8 Score=55.95 Aligned_cols=95 Identities=19% Similarity=0.238 Sum_probs=63.7
Q ss_pred HHHHHHHHHhhccCCccEEEechHHHHHHHHhc----CcccccccCccccccccccccccccccccccCCCCccchHHHH
Q 000107 1583 KQRWKRIGEIMEKRDVRKFTWNMKVQIQVLKHA----AVSIQRFGGLNLVGTSLGLENVGSSFLLLSPVHLKDGIDMCIV 1658 (2191)
Q Consensus 1583 ~~~~~~L~~lLe~~~v~kv~hNlK~dl~vL~~~----gi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~lA 1658 (2191)
.+.+..+.+++.+ ...|+||+.||+..|.+. |+.+. ..++||+-.
T Consensus 74 ~ev~~~~~~~l~~--~~lVaHN~~FD~~fL~~~~~~~g~~~~-----------------------------~~~iDT~~l 122 (820)
T PRK07246 74 SQVARHIYDLIED--CIFVAHNVKFDANLLAEALFLEGYELR-----------------------------TPRVDTVEL 122 (820)
T ss_pred HHHHHHHHHHhCC--CEEEEECcHHHHHHHHHHHHHcCCCCC-----------------------------CCceeHHHH
Confidence 4556677777765 568999999999998652 22211 125899988
Q ss_pred HHhcCCCCCCCCchhHHHHHHHhhChHHHHHhhccCchhhhhHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Q 000107 1659 SWILWPDDERSSNPNLEKEVKKRLSSEAAAAANRSGRWKNQMRRAAHNGCCRRVAQTRALCSVLWKLLVS 1728 (2191)
Q Consensus 1659 awLL~P~~~~~~l~~L~~~~~~~l~~e~~~~~~~~g~~~~~~~~~~~~ya~~Da~~t~~L~~~L~~~L~~ 1728 (2191)
+..+.|...+++|.+|.. +++.+.. ..+.|..||.+|..|+..+..++..
T Consensus 123 a~~~~p~~~~~~L~~L~~----~lgl~~~----------------~~H~Al~DA~ata~L~~~l~~~l~~ 172 (820)
T PRK07246 123 AQVFFPTLEKYSLSHLSR----ELNIDLA----------------DAHTAIADARATAELFLKLLQKIES 172 (820)
T ss_pred HHHHhCCCCCCCHHHHHH----HcCCCCC----------------CCCCHHHHHHHHHHHHHHHHHHHhh
Confidence 888888766776555432 2332210 1245778999999999998887754
No 439
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=83.08 E-value=4.7 Score=55.79 Aligned_cols=20 Identities=25% Similarity=0.476 Sum_probs=17.3
Q ss_pred CeEEEEcCCCCchhHHHHHH
Q 000107 542 RNLVYCASTSAGKSFVAEIL 561 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael~ 561 (2191)
.++++.||+|+|||..+...
T Consensus 53 ~slLL~GPpGtGKTTLA~aI 72 (725)
T PRK13341 53 GSLILYGPPGVGKTTLARII 72 (725)
T ss_pred ceEEEECCCCCCHHHHHHHH
Confidence 58999999999999887643
No 440
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=83.00 E-value=5.8 Score=53.08 Aligned_cols=24 Identities=17% Similarity=0.390 Sum_probs=18.5
Q ss_pred eEEEEcCCCCchhHHHHHHHHHHHH
Q 000107 543 NLVYCASTSAGKSFVAEILMLRRLI 567 (2191)
Q Consensus 543 nlIi~APTGSGKTlvael~iL~~ll 567 (2191)
.+|++||.|+|||+++.+.+ +.+.
T Consensus 40 a~Lf~Gp~GvGKTTlAr~lA-k~L~ 63 (546)
T PRK14957 40 AYLFTGTRGVGKTTLGRLLA-KCLN 63 (546)
T ss_pred EEEEECCCCCCHHHHHHHHH-HHhC
Confidence 47899999999999986544 4443
No 441
>PRK05711 DNA polymerase III subunit epsilon; Provisional
Probab=82.97 E-value=14 Score=44.59 Aligned_cols=96 Identities=14% Similarity=0.140 Sum_probs=55.3
Q ss_pred HHHHHHHHHhhccCCccEEEechHHHHHHHHhc----CcccccccCccccccccccccccccccccccCCCCccchHHHH
Q 000107 1583 KQRWKRIGEIMEKRDVRKFTWNMKVQIQVLKHA----AVSIQRFGGLNLVGTSLGLENVGSSFLLLSPVHLKDGIDMCIV 1658 (2191)
Q Consensus 1583 ~~~~~~L~~lLe~~~v~kv~hNlK~dl~vL~~~----gi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~lA 1658 (2191)
.+.+..+..++.+ ...|+||+.||+..|.+. |..++.. .....++||+..
T Consensus 74 ~ev~~~f~~fi~~--~~lVaHNa~FD~~fL~~el~r~g~~~~~~------------------------~~~~~~iDTl~l 127 (240)
T PRK05711 74 AEVADEFLDFIRG--AELIIHNAPFDIGFMDYEFALLGRDIPKT------------------------NTFCKVTDTLAM 127 (240)
T ss_pred HHHHHHHHHHhCC--CEEEEEccHHhHHHHHHHHHHhCCCCCcc------------------------cccCceeeHHHH
Confidence 4556677777755 457999999999888652 2111100 001236899988
Q ss_pred HHhcCCCCCCCCchhHHHHHHHhhChHHHHHhhccCchhhhhHHHHhhhHHHHHHHHHHHHHHHH
Q 000107 1659 SWILWPDDERSSNPNLEKEVKKRLSSEAAAAANRSGRWKNQMRRAAHNGCCRRVAQTRALCSVLW 1723 (2191)
Q Consensus 1659 awLL~P~~~~~~l~~L~~~~~~~l~~e~~~~~~~~g~~~~~~~~~~~~ya~~Da~~t~~L~~~L~ 1723 (2191)
+..+.|+. .++ |+.++. +++.+. .++ ....|..|+..+..+|..+.
T Consensus 128 ar~~~p~~-~~~---L~aL~~-~~gi~~------~~r--------~~H~AL~DA~~~A~v~~~l~ 173 (240)
T PRK05711 128 ARRMFPGK-RNS---LDALCK-RYGIDN------SHR--------TLHGALLDAEILAEVYLAMT 173 (240)
T ss_pred HHHHcCCC-CCC---HHHHHH-HCCCCC------CCC--------CCCCHHHHHHHHHHHHHHHH
Confidence 88788863 444 444443 333321 010 12356778888877765554
No 442
>TIGR00580 mfd transcription-repair coupling factor (mfd). All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transacribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families.
Probab=82.96 E-value=4.8 Score=57.15 Aligned_cols=83 Identities=13% Similarity=0.216 Sum_probs=64.3
Q ss_pred HHHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCC
Q 000107 774 EVVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGL 853 (2191)
Q Consensus 774 e~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagL 853 (2191)
..+..+.+++|.+||+.-|.+.+..+.+.+... +..|..+|++.
T Consensus 495 ~al~~g~qvlvLvPT~~LA~Q~~~~f~~~~~~~------------------------------------~i~v~~Lsg~~ 538 (926)
T TIGR00580 495 KAVLDGKQVAVLVPTTLLAQQHFETFKERFANF------------------------------------PVTIELLSRFR 538 (926)
T ss_pred HHHHhCCeEEEEeCcHHHHHHHHHHHHHHhccC------------------------------------CcEEEEEeccc
Confidence 344567899999999998888887776654321 12378899999
Q ss_pred CHHHHHHHHHHhhcCCceEEEecccc-cccCCCCCceEEe
Q 000107 854 TVEEREVVETCYRKGLVRVLTATSTL-AAGVNLPARRVIF 892 (2191)
Q Consensus 854 s~~eR~~Ve~~Fr~G~ikVLVATstL-a~GVNLPav~VVI 892 (2191)
+..++..+.+.++.|.++|||+|..+ ...+.+..+.+||
T Consensus 539 ~~~e~~~~~~~l~~g~~dIVIGTp~ll~~~v~f~~L~llV 578 (926)
T TIGR00580 539 SAKEQNEILKELASGKIDILIGTHKLLQKDVKFKDLGLLI 578 (926)
T ss_pred cHHHHHHHHHHHHcCCceEEEchHHHhhCCCCcccCCEEE
Confidence 99999999999999999999999844 4557777766554
No 443
>TIGR00678 holB DNA polymerase III, delta' subunit. At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.
Probab=82.64 E-value=6.5 Score=45.24 Aligned_cols=44 Identities=16% Similarity=0.295 Sum_probs=28.7
Q ss_pred chHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHH
Q 000107 623 TIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKL 670 (2191)
Q Consensus 623 TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kL 670 (2191)
+.+.+..+++.....+......+|||||+|.+... ..+.++..+
T Consensus 77 ~~~~i~~i~~~~~~~~~~~~~kviiide~~~l~~~----~~~~Ll~~l 120 (188)
T TIGR00678 77 KVDQVRELVEFLSRTPQESGRRVVIIEDAERMNEA----AANALLKTL 120 (188)
T ss_pred CHHHHHHHHHHHccCcccCCeEEEEEechhhhCHH----HHHHHHHHh
Confidence 34666666665544555677899999999998642 344555444
No 444
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=82.46 E-value=6.6 Score=52.68 Aligned_cols=32 Identities=19% Similarity=0.370 Sum_probs=21.2
Q ss_pred HHHHHHHHHhhhcCCCCccceEEEcccccccc
Q 000107 625 EKANSLVNRMLEEGRLSEIGIIVIDELHMVAD 656 (2191)
Q Consensus 625 Ekl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d 656 (2191)
+.+..++......+...+.+++||||+|++..
T Consensus 102 d~ir~l~~~~~~~p~~~~~kVvIIDEad~ls~ 133 (527)
T PRK14969 102 DAMRELLDNAQYAPTRGRFKVYIIDEVHMLSK 133 (527)
T ss_pred HHHHHHHHHHhhCcccCCceEEEEcCcccCCH
Confidence 34444554433344556789999999999864
No 445
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=82.40 E-value=8.1 Score=52.58 Aligned_cols=95 Identities=18% Similarity=0.286 Sum_probs=47.2
Q ss_pred CeEEEEcCCCCchhHHHHHHHHHHHHhcCCEE-EEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCCCCCceE
Q 000107 542 RNLVYCASTSAGKSFVAEILMLRRLISTGKMA-LLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPKDTSVA 620 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael~iL~~ll~~g~ka-L~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~~~~~Ii 620 (2191)
..+|++||.|+|||.++.+.+ +.+....... .--+.....| +.+....+..+..+.+. ..
T Consensus 39 ~a~Lf~Gp~G~GKTtlA~~lA-~~l~c~~~~~~~~~c~~c~~c-------~~i~~~~~~d~~~i~~~---------~~-- 99 (585)
T PRK14950 39 HAYLFTGPRGVGKTSTARILA-KAVNCTTNDPKGRPCGTCEMC-------RAIAEGSAVDVIEMDAA---------SH-- 99 (585)
T ss_pred eEEEEECCCCCCHHHHHHHHH-HHhcCCCCCCCCCCCccCHHH-------HHHhcCCCCeEEEEecc---------cc--
Confidence 457999999999999986543 4443211100 0001111122 22222222222222110 00
Q ss_pred EEchHHHHHHHHHhhhcCCCCccceEEEcccccccc
Q 000107 621 VCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVAD 656 (2191)
Q Consensus 621 V~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d 656 (2191)
...+.+..++........+.+..+|||||+|+|..
T Consensus 100 -~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~ 134 (585)
T PRK14950 100 -TSVDDAREIIERVQFRPALARYKVYIIDEVHMLST 134 (585)
T ss_pred -CCHHHHHHHHHHHhhCcccCCeEEEEEeChHhCCH
Confidence 12233444444433344567789999999999864
No 446
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=82.13 E-value=5.1 Score=55.02 Aligned_cols=82 Identities=15% Similarity=0.228 Sum_probs=64.7
Q ss_pred HHhcCCcEEEEeCchhHHHHHHHHHHHHHhhcccccCCCCchhhhhHHHHHHhhcCCCCCChhhhhhcCCcEEEEcCCCC
Q 000107 775 VVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLT 854 (2191)
Q Consensus 775 ~~~~g~~vLVF~~Sr~~~e~lA~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~~~gld~~L~~~l~~GVa~hHagLs 854 (2191)
.+..+.+++|-+||+.-|++.+..+.+.+...+ ..++.+||+++
T Consensus 280 ~~~~g~qvlilaPT~~LA~Q~~~~~~~l~~~~g------------------------------------i~v~lltg~~~ 323 (630)
T TIGR00643 280 AIEAGYQVALMAPTEILAEQHYNSLRNLLAPLG------------------------------------IEVALLTGSLK 323 (630)
T ss_pred HHHcCCcEEEECCHHHHHHHHHHHHHHHhcccC------------------------------------cEEEEEecCCC
Confidence 345688999999999988888887776553321 23889999999
Q ss_pred HHHHHHHHHHhhcCCceEEEeccccc-ccCCCCCceEEe
Q 000107 855 VEEREVVETCYRKGLVRVLTATSTLA-AGVNLPARRVIF 892 (2191)
Q Consensus 855 ~~eR~~Ve~~Fr~G~ikVLVATstLa-~GVNLPav~VVI 892 (2191)
..+|..+.+...+|...|+|+|..+- ..+.+....+||
T Consensus 324 ~~~r~~~~~~i~~g~~~IiVgT~~ll~~~~~~~~l~lvV 362 (630)
T TIGR00643 324 GKRRKELLETIASGQIHLVVGTHALIQEKVEFKRLALVI 362 (630)
T ss_pred HHHHHHHHHHHhCCCCCEEEecHHHHhccccccccceEE
Confidence 99999999999999999999998654 456677766554
No 447
>PRK07956 ligA NAD-dependent DNA ligase LigA; Validated
Probab=82.10 E-value=2.6 Score=57.71 Aligned_cols=103 Identities=20% Similarity=0.184 Sum_probs=69.0
Q ss_pred HhcCCCHHHHHHHhCCCcchHHHHHHHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhccCchhhhhhcCCCCCCHHHH
Q 000107 1165 LVQETPVLEVCETFKVARGMVQALQENAGRFASMVSVFCERLGWYDLEGLIAKFQNRVSFGVRAEIVELTTIPYVKGSRA 1244 (2191)
Q Consensus 1165 li~e~~~~~i~~~y~v~rG~lq~l~~~a~~~a~~v~~fc~~lg~~~~~~ll~~~~~RL~~Gv~~ELl~L~~ip~v~~~RA 1244 (2191)
|+++--+..+++-|.+..++|..| +.+|-.....++..+...-.....+=|..| .||+||..+|
T Consensus 461 L~~~g~I~~i~DL~~L~~~~L~~l---------------~gfG~Ksa~~ll~~Ie~sk~~~l~R~l~al-gi~~IG~~~a 524 (665)
T PRK07956 461 LFEKGLIHDPADLFKLTAEDLLGL---------------EGFGEKSAQNLLDAIEKSKETSLARFLYAL-GIRHVGEKAA 524 (665)
T ss_pred HHHcCCCCCHHHHHhcCHHHHhcC---------------cCcchHHHHHHHHHHHHhhcCCHHHhhHhh-hccCcCHHHH
Confidence 444445556666666665554443 122323345566666654333333334444 8999999999
Q ss_pred HHHHHcCCCCHHHHHcCCHHHHHHHHhhcchhHHHHHhhhhHHHHHHHHHHH
Q 000107 1245 RALYKAGLRTPLAIAEASISEIVKALFESSSWIAEAQRRVQLGVAKKIKNGA 1296 (2191)
Q Consensus 1245 R~Ly~aG~~t~~~la~a~~~~l~~~l~~~~~~~~~~~~~~~~~~A~~I~~~A 1296 (2191)
+.|.+. |.|+++|..|+.++|.++ ++++..+|.+|++--
T Consensus 525 k~L~~~-f~sl~~l~~As~eeL~~i------------~GIG~~~A~sI~~ff 563 (665)
T PRK07956 525 KALARH-FGSLEALRAASEEELAAV------------EGVGEVVAQSIVEFF 563 (665)
T ss_pred HHHHHH-cCCHHHHHhCCHHHHhcc------------CCcCHHHHHHHHHHH
Confidence 999876 599999999999998877 578889999998753
No 448
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=81.94 E-value=9.1 Score=51.68 Aligned_cols=25 Identities=20% Similarity=0.309 Sum_probs=18.9
Q ss_pred CeEEEEcCCCCchhHHHHHHHHHHHH
Q 000107 542 RNLVYCASTSAGKSFVAEILMLRRLI 567 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael~iL~~ll 567 (2191)
..+|++||.|.|||.++.+ +.+.+.
T Consensus 39 hayLf~Gp~G~GKTt~Ar~-lAk~L~ 63 (563)
T PRK06647 39 NAYIFSGPRGVGKTSSARA-FARCLN 63 (563)
T ss_pred eEEEEECCCCCCHHHHHHH-HHHhhc
Confidence 3589999999999999865 334443
No 449
>PRK08517 DNA polymerase III subunit epsilon; Provisional
Probab=81.88 E-value=21 Score=43.50 Aligned_cols=30 Identities=7% Similarity=0.101 Sum_probs=23.3
Q ss_pred HHHHHHHHHhhccCCccEEEechHHHHHHHHh
Q 000107 1583 KQRWKRIGEIMEKRDVRKFTWNMKVQIQVLKH 1614 (2191)
Q Consensus 1583 ~~~~~~L~~lLe~~~v~kv~hNlK~dl~vL~~ 1614 (2191)
.+.+..+..++.+ ...|+||+.||+..|.+
T Consensus 135 ~evl~~f~~fl~~--~v~VaHNa~FD~~fL~~ 164 (257)
T PRK08517 135 KEVLEEFRLFLGD--SVFVAHNVNFDYNFISR 164 (257)
T ss_pred HHHHHHHHHHHCC--CeEEEECHHHHHHHHHH
Confidence 4566777778765 45899999999998865
No 450
>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.
Probab=81.75 E-value=2.2 Score=52.09 Aligned_cols=52 Identities=19% Similarity=0.105 Sum_probs=32.9
Q ss_pred CCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEc
Q 000107 525 LYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVL 577 (2191)
Q Consensus 525 l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~ 577 (2191)
+.+-|.+.|.......+..+++++|||||||+.. .+++..+...+.+++.|-
T Consensus 64 ~~~~~~~~l~~~~~~~~GlilisG~tGSGKTT~l-~all~~i~~~~~~iitiE 115 (264)
T cd01129 64 LKPENLEIFRKLLEKPHGIILVTGPTGSGKTTTL-YSALSELNTPEKNIITVE 115 (264)
T ss_pred CCHHHHHHHHHHHhcCCCEEEEECCCCCcHHHHH-HHHHhhhCCCCCeEEEEC
Confidence 3555666665311124568999999999999876 445555544455566553
No 451
>PHA00350 putative assembly protein
Probab=81.70 E-value=3.9 Score=52.39 Aligned_cols=30 Identities=13% Similarity=0.195 Sum_probs=21.1
Q ss_pred EEEEcCCCCchhHHHHHHHHHHHHhcCCEE
Q 000107 544 LVYCASTSAGKSFVAEILMLRRLISTGKMA 573 (2191)
Q Consensus 544 lIi~APTGSGKTlvael~iL~~ll~~g~ka 573 (2191)
.++.|..|||||+.+.-..+...++.|+++
T Consensus 4 ~l~tG~pGSGKT~~aV~~~i~palk~GR~V 33 (399)
T PHA00350 4 YAIVGRPGSYKSYEAVVYHIIPALKDGRKV 33 (399)
T ss_pred EEEecCCCCchhHHHHHHHHHHHHHCCCEE
Confidence 578999999999998864333344456543
No 452
>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]
Probab=81.67 E-value=12 Score=44.50 Aligned_cols=23 Identities=17% Similarity=0.420 Sum_probs=19.9
Q ss_pred ccccCCeEEEEcCCCCchhHHHH
Q 000107 537 GVLQRRNLVYCASTSAGKSFVAE 559 (2191)
Q Consensus 537 ~il~gknlIi~APTGSGKTlvae 559 (2191)
++-..+-+++.+|+|+|||+++-
T Consensus 207 gidppkgvllygppgtgktl~ar 229 (435)
T KOG0729|consen 207 GIDPPKGVLLYGPPGTGKTLCAR 229 (435)
T ss_pred CCCCCCceEEeCCCCCchhHHHH
Confidence 45667899999999999999974
No 453
>TIGR00575 dnlj DNA ligase, NAD-dependent. The member of this family from Treponema pallidum differs in having three rather than just one copy of the BRCT (BRCA1 C Terminus) domain (pfam00533) at the C-terminus. It is included in the seed.
Probab=81.63 E-value=2.6 Score=57.63 Aligned_cols=67 Identities=12% Similarity=0.116 Sum_probs=53.5
Q ss_pred HHHHHHHhccCchhhhhhcCCCCCCHHHHHHHHHcCC-CCHHHHHcCCHHHHHHHHhhcchhHHHHHhhhhHHHHHHHHH
Q 000107 1216 AKFQNRVSFGVRAEIVELTTIPYVKGSRARALYKAGL-RTPLAIAEASISEIVKALFESSSWIAEAQRRVQLGVAKKIKN 1294 (2191)
Q Consensus 1216 ~~~~~RL~~Gv~~ELl~L~~ip~v~~~RAR~Ly~aG~-~t~~~la~a~~~~l~~~l~~~~~~~~~~~~~~~~~~A~~I~~ 1294 (2191)
.++..||.|=+..+. |.|+|+|..++++||++|+ +++.||-.+..++|..+ ++++.+.|.+|++
T Consensus 420 aq~~~~l~hf~sr~a---l~I~GLG~k~i~~L~~~g~I~~~~Dl~~L~~~~L~~L------------~GfG~Ksa~nIl~ 484 (652)
T TIGR00575 420 AQRVERIKHFASRNA---MDIEGLGDKVIEQLFEKKLVRSVADLYALKKEDLLEL------------EGFGEKSAQNLLN 484 (652)
T ss_pred HHHHHHhHHhhcCCc---cCCCCcCHHHHHHHHHcCCcCCHHHHHhcCHHHHhhc------------cCccHHHHHHHHH
Confidence 366677777666554 7899999999999999975 89999999998888766 4677788888877
Q ss_pred HHH
Q 000107 1295 GAR 1297 (2191)
Q Consensus 1295 ~A~ 1297 (2191)
+..
T Consensus 485 ~Ie 487 (652)
T TIGR00575 485 AIE 487 (652)
T ss_pred HHH
Confidence 543
No 454
>TIGR00575 dnlj DNA ligase, NAD-dependent. The member of this family from Treponema pallidum differs in having three rather than just one copy of the BRCT (BRCA1 C Terminus) domain (pfam00533) at the C-terminus. It is included in the seed.
Probab=81.11 E-value=3.1 Score=56.82 Aligned_cols=103 Identities=20% Similarity=0.193 Sum_probs=66.7
Q ss_pred HhcCCCHHHHHHHhCCCcchHHHHHHHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhccCchhhhhhcCCCCCCHHHH
Q 000107 1165 LVQETPVLEVCETFKVARGMVQALQENAGRFASMVSVFCERLGWYDLEGLIAKFQNRVSFGVRAEIVELTTIPYVKGSRA 1244 (2191)
Q Consensus 1165 li~e~~~~~i~~~y~v~rG~lq~l~~~a~~~a~~v~~fc~~lg~~~~~~ll~~~~~RL~~Gv~~ELl~L~~ip~v~~~RA 1244 (2191)
|+++--+..+++-|.+..++|..|- .+|-..-+.++..+...-..-. ..++..+.|||||..+|
T Consensus 448 L~~~g~I~~~~Dl~~L~~~~L~~L~---------------GfG~Ksa~nIl~~Ie~sk~~~l-~r~L~aLgIpgVG~~~a 511 (652)
T TIGR00575 448 LFEKKLVRSVADLYALKKEDLLELE---------------GFGEKSAQNLLNAIEKSKEKPL-ARLLFALGIRHVGEVTA 511 (652)
T ss_pred HHHcCCcCCHHHHHhcCHHHHhhcc---------------CccHHHHHHHHHHHHHhccCcH-HHHHhhccCCCcCHHHH
Confidence 3444455566666666665555441 1221223334444432221111 24777789999999999
Q ss_pred HHHHHcCCCCHHHHHcCCHHHHHHHHhhcchhHHHHHhhhhHHHHHHHHHHH
Q 000107 1245 RALYKAGLRTPLAIAEASISEIVKALFESSSWIAEAQRRVQLGVAKKIKNGA 1296 (2191)
Q Consensus 1245 R~Ly~aG~~t~~~la~a~~~~l~~~l~~~~~~~~~~~~~~~~~~A~~I~~~A 1296 (2191)
+.|++. |.|+++|..|+.++|.++ ++++..+|.+|++--
T Consensus 512 k~L~~~-f~sl~~l~~As~eeL~~i------------~GIG~~~A~~I~~ff 550 (652)
T TIGR00575 512 KNLAKH-FGTLDKLKAASLEELLSV------------EGVGPKVAESIVNFF 550 (652)
T ss_pred HHHHHH-hCCHHHHHhCCHHHHhcC------------CCcCHHHHHHHHHHH
Confidence 999986 359999999999988776 568888999998753
No 455
>COG3743 Uncharacterized conserved protein [Function unknown]
Probab=81.10 E-value=3.4 Score=44.31 Aligned_cols=39 Identities=23% Similarity=0.166 Sum_probs=37.1
Q ss_pred hhhcCCCCCCHHHHHHHHHcCCCCHHHHHcCCHHHHHHH
Q 000107 1231 VELTTIPYVKGSRARALYKAGLRTPLAIAEASISEIVKA 1269 (2191)
Q Consensus 1231 l~L~~ip~v~~~RAR~Ly~aG~~t~~~la~a~~~~l~~~ 1269 (2191)
=+|..|.|||.+-+..|...|+.|..+||..+..++..+
T Consensus 67 DDLt~I~GIGPk~e~~Ln~~GI~tfaQIAAwt~~di~~i 105 (133)
T COG3743 67 DDLTRISGIGPKLEKVLNELGIFTFAQIAAWTRADIAWI 105 (133)
T ss_pred ccchhhcccCHHHHHHHHHcCCccHHHHHhcCHHHHHHH
Confidence 478999999999999999999999999999999999987
No 456
>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.
Probab=81.05 E-value=2.5 Score=48.66 Aligned_cols=50 Identities=20% Similarity=0.365 Sum_probs=34.1
Q ss_pred CCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEE
Q 000107 524 KLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLV 576 (2191)
Q Consensus 524 ~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I 576 (2191)
.+.+-|.+.+.. .+..++++++++|||||||+..- +++..+ ....+++.+
T Consensus 9 ~~~~~~~~~l~~-~v~~g~~i~I~G~tGSGKTTll~-aL~~~i-~~~~~~i~i 58 (186)
T cd01130 9 TFSPLQAAYLWL-AVEARKNILISGGTGSGKTTLLN-ALLAFI-PPDERIITI 58 (186)
T ss_pred CCCHHHHHHHHH-HHhCCCEEEEECCCCCCHHHHHH-HHHhhc-CCCCCEEEE
Confidence 366777777764 46679999999999999998753 234333 333444444
No 457
>cd01125 repA Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.
Probab=80.67 E-value=23 Score=42.41 Aligned_cols=53 Identities=19% Similarity=0.127 Sum_probs=32.4
Q ss_pred CeEEEEcCCCCchhHHHHHHHHHHHH-----------hcCCEEEEEchhHHHHHHHHHHHHHHhh
Q 000107 542 RNLVYCASTSAGKSFVAEILMLRRLI-----------STGKMALLVLPYVSICAEKAEHLEVLLE 595 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael~iL~~ll-----------~~g~kaL~I~P~raLA~q~~~~l~~l~~ 595 (2191)
...++.||.|+|||+.+...++.-.. ..+.+++|+.--- =..++.+++..+..
T Consensus 2 ~~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed-~~~~i~~Rl~~i~~ 65 (239)
T cd01125 2 YVSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAED-PREEIHRRLEAILQ 65 (239)
T ss_pred ceeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCC-CHHHHHHHHHHHHh
Confidence 35689999999999988766654221 1456888887211 11234444544444
No 458
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=80.66 E-value=5.6 Score=49.63 Aligned_cols=18 Identities=33% Similarity=0.379 Sum_probs=14.0
Q ss_pred eEEEEcCCCCchhHHHHH
Q 000107 543 NLVYCASTSAGKSFVAEI 560 (2191)
Q Consensus 543 nlIi~APTGSGKTlvael 560 (2191)
-++++||+|+|||..+..
T Consensus 45 ~lll~G~~G~GKT~la~~ 62 (316)
T PHA02544 45 MLLHSPSPGTGKTTVAKA 62 (316)
T ss_pred EEEeeCcCCCCHHHHHHH
Confidence 444589999999988654
No 459
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=80.58 E-value=2.5 Score=54.94 Aligned_cols=46 Identities=17% Similarity=0.119 Sum_probs=31.0
Q ss_pred CHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCE
Q 000107 526 YPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKM 572 (2191)
Q Consensus 526 ~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~k 572 (2191)
++.|.+.+....-....-+++.||||||||+.. ..+|..+.....+
T Consensus 243 ~~~~~~~~~~~~~~p~GliLvTGPTGSGKTTTL-Y~~L~~ln~~~~n 288 (500)
T COG2804 243 SPFQLARLLRLLNRPQGLILVTGPTGSGKTTTL-YAALSELNTPERN 288 (500)
T ss_pred CHHHHHHHHHHHhCCCeEEEEeCCCCCCHHHHH-HHHHHHhcCCCce
Confidence 666776665411123567899999999999874 5667666655555
No 460
>PRK10436 hypothetical protein; Provisional
Probab=80.50 E-value=2.2 Score=55.89 Aligned_cols=50 Identities=16% Similarity=0.080 Sum_probs=32.1
Q ss_pred CHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEE
Q 000107 526 YPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLV 576 (2191)
Q Consensus 526 ~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I 576 (2191)
.+-|.+.|....-..+..++++||||||||+.. .++++.+...+.+++-|
T Consensus 203 ~~~~~~~l~~~~~~~~GliLvtGpTGSGKTTtL-~a~l~~~~~~~~~i~Ti 252 (462)
T PRK10436 203 TPAQLAQFRQALQQPQGLILVTGPTGSGKTVTL-YSALQTLNTAQINICSV 252 (462)
T ss_pred CHHHHHHHHHHHHhcCCeEEEECCCCCChHHHH-HHHHHhhCCCCCEEEEe
Confidence 445555554311235678999999999999875 45666665555555443
No 461
>KOG1015 consensus Transcription regulator XNP/ATRX, DEAD-box superfamily [Transcription]
Probab=80.22 E-value=6.7 Score=53.35 Aligned_cols=126 Identities=17% Similarity=0.211 Sum_probs=0.0
Q ss_pred CCchhHHHHHHHHHHHHh---cCCEEEEEchhHHHHHHHHHHHHHHhhcc----CCeEEEEeccCCCCC-------CCCC
Q 000107 551 SAGKSFVAEILMLRRLIS---TGKMALLVLPYVSICAEKAEHLEVLLEPL----GRHVRSYYGNQGGGS-------LPKD 616 (2191)
Q Consensus 551 GSGKTlvael~iL~~ll~---~g~kaL~I~P~raLA~q~~~~l~~l~~~l----g~~V~~~~G~~~~~~-------l~~~ 616 (2191)
|-|||+...-.+.-.++. .-+++|||+|. ..+.-++.+|.++...+ .+.|..+........ +...
T Consensus 706 GLGKTlQVvtflhTvL~c~klg~ktaLvV~Pl-Nt~~NW~~EFekWm~~~e~~~~leV~eL~~vkr~e~R~~~L~~W~~~ 784 (1567)
T KOG1015|consen 706 GLGKTLQVVTFLHTVLLCDKLGFKTALVVCPL-NTALNWMNEFEKWMEGLEDDEKLEVSELATVKRPEERSYMLQRWQED 784 (1567)
T ss_pred cccceehhhHHHHHHHHhhccCCceEEEEcch-HHHHHHHHHHHHhcccccccccceeehhhhccChHHHHHHHHHHHhc
Q ss_pred CceEEEchHHHHHHHHHhhhcCCCCcc-------------ceEEEcccccccccchhHHHHHHHHHHHHhhcCCCCCCCC
Q 000107 617 TSVAVCTIEKANSLVNRMLEEGRLSEI-------------GIIVIDELHMVADQNRGYLLELLLTKLRYAAGEGTSDSSS 683 (2191)
Q Consensus 617 ~~IiV~TpEkl~~Ll~~l~~~~~L~~l-------------~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~~~~s~~ 683 (2191)
..|.|.-++.+-.|... ......++ ++||.||+|.|-.. ...+...+.+++--
T Consensus 785 ggVmIiGYdmyRnLa~g--r~vk~rk~ke~f~k~lvdpGPD~vVCDE~HiLKNe--ksa~Skam~~irtk---------- 850 (1567)
T KOG1015|consen 785 GGVMIIGYDMYRNLAQG--RNVKSRKLKEIFNKALVDPGPDFVVCDEGHILKNE--KSAVSKAMNSIRTK---------- 850 (1567)
T ss_pred CCEEEEehHHHHHHhcc--cchhhhHHHHHHHHhccCCCCCeEEecchhhhccc--hHHHHHHHHHHHhh----------
Q ss_pred CCCCCCCCCCCCCCCCceEEEEecc
Q 000107 684 GENSGTSSGKADPAHGLQIVGMSAT 708 (2191)
Q Consensus 684 ~~~~~~~~~~~~~~~~iqII~mSAT 708 (2191)
|.|+|+.|
T Consensus 851 -----------------RRI~LTGT 858 (1567)
T KOG1015|consen 851 -----------------RRIILTGT 858 (1567)
T ss_pred -----------------eeEEeecC
No 462
>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]. These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....
Probab=80.20 E-value=1.7 Score=52.94 Aligned_cols=41 Identities=17% Similarity=0.215 Sum_probs=30.3
Q ss_pred cccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchh
Q 000107 538 VLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPY 579 (2191)
Q Consensus 538 il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~ 579 (2191)
+..+.+++++||||||||+.. -+++..+-....+++++--.
T Consensus 124 v~~~~~ili~G~tGSGKTT~l-~all~~i~~~~~~iv~iEd~ 164 (270)
T PF00437_consen 124 VRGRGNILISGPTGSGKTTLL-NALLEEIPPEDERIVTIEDP 164 (270)
T ss_dssp HHTTEEEEEEESTTSSHHHHH-HHHHHHCHTTTSEEEEEESS
T ss_pred cccceEEEEECCCccccchHH-HHHhhhccccccceEEeccc
Confidence 556899999999999999886 45566554444677776544
No 463
>PRK07956 ligA NAD-dependent DNA ligase LigA; Validated
Probab=80.17 E-value=2.9 Score=57.27 Aligned_cols=67 Identities=12% Similarity=0.200 Sum_probs=52.3
Q ss_pred HHHHHHHhccCchhhhhhcCCCCCCHHHHHHHHHcC-CCCHHHHHcCCHHHHHHHHhhcchhHHHHHhhhhHHHHHHHHH
Q 000107 1216 AKFQNRVSFGVRAEIVELTTIPYVKGSRARALYKAG-LRTPLAIAEASISEIVKALFESSSWIAEAQRRVQLGVAKKIKN 1294 (2191)
Q Consensus 1216 ~~~~~RL~~Gv~~ELl~L~~ip~v~~~RAR~Ly~aG-~~t~~~la~a~~~~l~~~l~~~~~~~~~~~~~~~~~~A~~I~~ 1294 (2191)
.++..||.|=+.++. |.|+|+|..++++||++| ++++.||-.+..++|..+ ++++.+.|.+|++
T Consensus 433 aq~~~~l~hf~sr~a---l~I~GLG~k~i~~L~~~g~I~~i~DL~~L~~~~L~~l------------~gfG~Ksa~~ll~ 497 (665)
T PRK07956 433 AQLKERLIHFVSRNA---MDIDGLGEKIIEQLFEKGLIHDPADLFKLTAEDLLGL------------EGFGEKSAQNLLD 497 (665)
T ss_pred HHHHHHHHHhhcccc---cCCCCcCHHHHHHHHHcCCCCCHHHHHhcCHHHHhcC------------cCcchHHHHHHHH
Confidence 356677777665544 789999999999999986 589999999888877665 4577778888777
Q ss_pred HHH
Q 000107 1295 GAR 1297 (2191)
Q Consensus 1295 ~A~ 1297 (2191)
+..
T Consensus 498 ~Ie 500 (665)
T PRK07956 498 AIE 500 (665)
T ss_pred HHH
Confidence 543
No 464
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.
Probab=80.15 E-value=4.9 Score=57.10 Aligned_cols=23 Identities=26% Similarity=0.330 Sum_probs=19.3
Q ss_pred cCCeEEEEcCCCCchhHHHHHHH
Q 000107 540 QRRNLVYCASTSAGKSFVAEILM 562 (2191)
Q Consensus 540 ~gknlIi~APTGSGKTlvael~i 562 (2191)
...|+|+.||+|+|||.++...+
T Consensus 193 ~~~n~lL~G~pGvGKT~l~~~la 215 (852)
T TIGR03346 193 TKNNPVLIGEPGVGKTAIVEGLA 215 (852)
T ss_pred CCCceEEEcCCCCCHHHHHHHHH
Confidence 35799999999999999987544
No 465
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=80.10 E-value=2.7 Score=54.18 Aligned_cols=23 Identities=13% Similarity=0.368 Sum_probs=19.0
Q ss_pred cccCCeEEEEcCCCCchhHHHHH
Q 000107 538 VLQRRNLVYCASTSAGKSFVAEI 560 (2191)
Q Consensus 538 il~gknlIi~APTGSGKTlvael 560 (2191)
+...+.+++.||+|+|||+++-.
T Consensus 162 ~~~p~gvLL~GppGtGKT~lAka 184 (389)
T PRK03992 162 IEPPKGVLLYGPPGTGKTLLAKA 184 (389)
T ss_pred CCCCCceEEECCCCCChHHHHHH
Confidence 44567899999999999988754
No 466
>PF12846 AAA_10: AAA-like domain
Probab=80.04 E-value=2 Score=52.56 Aligned_cols=41 Identities=20% Similarity=0.284 Sum_probs=32.1
Q ss_pred CCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHH
Q 000107 541 RRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSI 582 (2191)
Q Consensus 541 gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raL 582 (2191)
+.+++|.|+||+|||.... .++..+...|..++++=|..+.
T Consensus 1 n~h~~i~G~tGsGKT~~~~-~l~~~~~~~g~~~~i~D~~g~~ 41 (304)
T PF12846_consen 1 NPHTLILGKTGSGKTTLLK-NLLEQLIRRGPRVVIFDPKGDY 41 (304)
T ss_pred CCeEEEECCCCCcHHHHHH-HHHHHHHHcCCCEEEEcCCchH
Confidence 4689999999999998876 6666777778888888665433
No 467
>PLN03187 meiotic recombination protein DMC1 homolog; Provisional
Probab=80.01 E-value=7.9 Score=49.01 Aligned_cols=104 Identities=12% Similarity=0.149 Sum_probs=56.4
Q ss_pred ccccCCeEEEEcCCCCchhHHHHHHHHHHHHh---c--CCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCC
Q 000107 537 GVLQRRNLVYCASTSAGKSFVAEILMLRRLIS---T--GKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGG 611 (2191)
Q Consensus 537 ~il~gknlIi~APTGSGKTlvael~iL~~ll~---~--g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~ 611 (2191)
++..|.-+.++||+|+|||..+...++...+. . +.+++||----..-.+ ++.++...+|+....
T Consensus 122 Gi~~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~pe---Rl~~ia~~~g~d~~~-------- 190 (344)
T PLN03187 122 GIETRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPD---RIVPIAERFGMDADA-------- 190 (344)
T ss_pred CCCCCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHH---HHHHHHHHcCCChhh--------
Confidence 56677889999999999998887666554331 1 3589999753221112 122222223332111
Q ss_pred CCCCCCceEEE---chHHHHHHHHHhhhcCCCCccceEEEcccccc
Q 000107 612 SLPKDTSVAVC---TIEKANSLVNRMLEEGRLSEIGIIVIDELHMV 654 (2191)
Q Consensus 612 ~l~~~~~IiV~---TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l 654 (2191)
... +|.+. +++.+..++..+.....-..+++||||=+--+
T Consensus 191 -~l~--~I~~~~~~~~e~~~~~l~~l~~~i~~~~~~LvVIDSital 233 (344)
T PLN03187 191 -VLD--NIIYARAYTYEHQYNLLLGLAAKMAEEPFRLLIVDSVIAL 233 (344)
T ss_pred -hcC--eEEEecCCCHHHHHHHHHHHHHHHHhcCCCEEEEeCcHHh
Confidence 111 13333 44554444443221111245899999997654
No 468
>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1. This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.
Probab=79.95 E-value=3.1 Score=52.05 Aligned_cols=53 Identities=21% Similarity=0.211 Sum_probs=46.7
Q ss_pred CCCCHHHHHHHHHcCCCCHHHHHcCCHHHHHHHHhhcchhHHHHHhhhhHHHHHHHHHHHHHHHH
Q 000107 1237 PYVKGSRARALYKAGLRTPLAIAEASISEIVKALFESSSWIAEAQRRVQLGVAKKIKNGARKIVL 1301 (2191)
Q Consensus 1237 p~v~~~RAR~Ly~aG~~t~~~la~a~~~~l~~~l~~~~~~~~~~~~~~~~~~A~~I~~~A~~l~~ 1301 (2191)
.||+..-+.+|-+|||.|++||+.+++.+|.++. +++...|.+|+++|++++.
T Consensus 7 ~g~~~~~~~~L~~~g~~t~~~~~~~~~~~L~~~~------------gls~~~~~~i~~~~~~~~~ 59 (313)
T TIGR02238 7 HGINAADIKKLKSAGICTVNGVIMTTRRALCKIK------------GLSEAKVDKIKEAASKIIN 59 (313)
T ss_pred CCCCHHHHHHHHHcCCCcHHHHHhCCHHHHHHhc------------CCCHHHHHHHHHHHHhhhc
Confidence 5699999999999999999999999999999983 4667789999998888753
No 469
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=79.95 E-value=6.7 Score=54.60 Aligned_cols=24 Identities=25% Similarity=0.372 Sum_probs=19.9
Q ss_pred cCCeEEEEcCCCCchhHHHHHHHH
Q 000107 540 QRRNLVYCASTSAGKSFVAEILML 563 (2191)
Q Consensus 540 ~gknlIi~APTGSGKTlvael~iL 563 (2191)
...|+++.||+|+|||.++.....
T Consensus 206 ~~~n~LLvGppGvGKT~lae~la~ 229 (758)
T PRK11034 206 RKNNPLLVGESGVGKTAIAEGLAW 229 (758)
T ss_pred CCCCeEEECCCCCCHHHHHHHHHH
Confidence 357999999999999999876543
No 470
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=79.86 E-value=8.8 Score=45.71 Aligned_cols=18 Identities=22% Similarity=0.606 Sum_probs=16.5
Q ss_pred CCeEEEEcCCCCchhHHH
Q 000107 541 RRNLVYCASTSAGKSFVA 558 (2191)
Q Consensus 541 gknlIi~APTGSGKTlva 558 (2191)
.+|++..+|||+|||..|
T Consensus 151 PknVLFyGppGTGKTm~A 168 (368)
T COG1223 151 PKNVLFYGPPGTGKTMMA 168 (368)
T ss_pred cceeEEECCCCccHHHHH
Confidence 489999999999999876
No 471
>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism]
Probab=79.75 E-value=10 Score=43.87 Aligned_cols=92 Identities=16% Similarity=0.141 Sum_probs=51.4
Q ss_pred CCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCC-eEEEEeccCCCCCCCCCCce
Q 000107 541 RRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGR-HVRSYYGNQGGGSLPKDTSV 619 (2191)
Q Consensus 541 gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~-~V~~~~G~~~~~~l~~~~~I 619 (2191)
++-.++++|-.||||.-.+. -+++....|.++++.-|-. ...+ +. .|....|. ...-+
T Consensus 4 g~l~~i~gpM~SGKT~eLl~-r~~~~~~~g~~v~vfkp~i----------D~R~---~~~~V~Sr~G~-------~~~A~ 62 (201)
T COG1435 4 GWLEFIYGPMFSGKTEELLR-RARRYKEAGMKVLVFKPAI----------DTRY---GVGKVSSRIGL-------SSEAV 62 (201)
T ss_pred EEEEEEEccCcCcchHHHHH-HHHHHHHcCCeEEEEeccc----------cccc---ccceeeeccCC-------cccce
Confidence 45678999999999985433 3334444788888887741 1111 11 12111221 11234
Q ss_pred EEEchHHHHHHHHHhhhcCCCCccceEEEcccccccc
Q 000107 620 AVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVAD 656 (2191)
Q Consensus 620 iV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d 656 (2191)
+|-.+..+...+.. ......+++|.|||++.+.+
T Consensus 63 ~i~~~~~i~~~i~~---~~~~~~~~~v~IDEaQF~~~ 96 (201)
T COG1435 63 VIPSDTDIFDEIAA---LHEKPPVDCVLIDEAQFFDE 96 (201)
T ss_pred ecCChHHHHHHHHh---cccCCCcCEEEEehhHhCCH
Confidence 45555554444443 22222389999999999764
No 472
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=79.62 E-value=7.4 Score=49.19 Aligned_cols=116 Identities=13% Similarity=0.209 Sum_probs=58.7
Q ss_pred CCCHHHHHhhhhc--ccccC---CeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccC
Q 000107 524 KLYPWQVECLHVD--GVLQR---RNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLG 598 (2191)
Q Consensus 524 ~l~p~Q~eal~~~--~il~g---knlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg 598 (2191)
.+||||...+... .+..| .-+++.||.|.||+..+.. +.+.++...+..---+ ..-..++.+.....
T Consensus 2 ~~yPWl~~~~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~-~A~~LlC~~~~~~~~C-------g~C~sC~~~~~g~H 73 (334)
T PRK07993 2 KWYPWLRPDYEQLVGSYQAGRGHHALLIQALPGMGDDALIYA-LSRWLMCQQPQGHKSC-------GHCRGCQLMQAGTH 73 (334)
T ss_pred CCCCCChHHHHHHHHHHHcCCcceEEeeECCCCCCHHHHHHH-HHHHHcCCCCCCCCCC-------CCCHHHHHHHcCCC
Confidence 4688888877641 11233 3788999999999988754 3445544221100000 01111222211111
Q ss_pred CeEEEEeccCCCCCCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccc
Q 000107 599 RHVRSYYGNQGGGSLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVAD 656 (2191)
Q Consensus 599 ~~V~~~~G~~~~~~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d 656 (2191)
-.+..+....+ +..| +.+.+..+.+.+.........+++|||++|.|..
T Consensus 74 PD~~~i~p~~~------~~~I---~idqiR~l~~~~~~~~~~g~~kV~iI~~ae~m~~ 122 (334)
T PRK07993 74 PDYYTLTPEKG------KSSL---GVDAVREVTEKLYEHARLGGAKVVWLPDAALLTD 122 (334)
T ss_pred CCEEEEecccc------cccC---CHHHHHHHHHHHhhccccCCceEEEEcchHhhCH
Confidence 11111111100 0111 2344555555554555667889999999999864
No 473
>PF04408 HA2: Helicase associated domain (HA2); InterPro: IPR007502 This presumed domain is about 90 amino acid residues in length. It is found as a diverse set of RNA helicases. Its function is unknown, however it seems likely to be involved in nucleic acid binding.; GO: 0004386 helicase activity; PDB: 3I4U_A 2XAU_B 3KX2_B.
Probab=79.51 E-value=2.3 Score=44.13 Aligned_cols=43 Identities=28% Similarity=0.343 Sum_probs=32.5
Q ss_pred HHHHHHHHcccceeccCCCccCCCHHHHHHHhcCCChhhHHHHHHHHh
Q 000107 1002 DSLRWLCHRKFLEWNEDTKLYSTTPLGRAAFGSSLCPEESLIVLDDLS 1049 (2191)
Q Consensus 1002 ~al~~L~~~~~i~~~~~~~~~~~T~LG~a~~~s~L~p~~a~~l~~~L~ 1049 (2191)
+|++.|...|+|. +++ .+|++|+.+...|++|..|++++....
T Consensus 1 ~A~~~L~~Lgald--~~~---~lT~lG~~~~~lPl~p~~a~~Ll~~~~ 43 (102)
T PF04408_consen 1 KALELLKSLGALD--ENG---NLTPLGRKMSQLPLDPRLAKMLLYGIQ 43 (102)
T ss_dssp -HHHHHHHTTSB---TTS----B-HHHHHHTTSSS-HHHHHHHHHHHH
T ss_pred CHHHHHHHCCCCC--CCC---CcCHHHHHHHHCCCchHhHhHhhhccc
Confidence 3678899999994 222 699999999999999999999986654
No 474
>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []. In homologous recombination, the protein functions as a DNA-dependent ATPase, promoting synapsis, heteroduplex formation and strand exchange between homologous DNAs []. RecA also acts as a protease cofactor that promotes autodigestion of the lexA product and phage repressors. The proteolytic inactivation of the lexA repressor by an activated form of recA may cause a derepression of the 20 or so genes involved in the SOS response, which regulates DNA repair, induced mutagenesis, delayed cell division and prophage induction in response to DNA damage []. RecA is a protein of about 350 amino-acid residues. Its sequence is very well conserved [, , ] among eubacterial species. It is also found in the chloroplast of plants []. RecA-like proteins are found in archaea and diverse eukaryotic organisms, like fission yeast, mouse or human. In the filament visualised by X-ray crystallography, beta-strand 3, the loop C-terminal to beta-strand 2, and alpha-helix D of the core domain form one surface that packs against alpha-helix A and beta-strand 0 (the N-terminal domain) of an adjacent monomer during polymerisation []. The core ATP-binding site domain is well conserved, with 14 invariant residues. It contains the nucleotide binding loop between beta-strand 1 and alpha-helix C. The Escherichia coli sequence GPESSGKT matches the consensus sequence of amino acids (G/A)XXXXGK(T/S) for the Walker A box (also referred to as the P-loop) found in a number of nucleoside triphosphate (NTP)-binding proteins. Another nucleotide binding motif, the Walker B box is found at beta-strand 4 in the RecA structure. The Walker B box is characterised by four hydrophobic amino acids followed by an acidic residue (usually aspartate). Nucleotide specificity and additional ATP binding interactions are contributed by the amino acid residues at beta-strand 2 and the loop C-terminal to that strand, all of which are greater than 90% conserved among bacterial RecA proteins.; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair; PDB: 2IN0_A 1MO3_A 3IFJ_A 2IN8_A 2IMZ_B 1G18_A 1MO4_A 3IGD_A 2L8L_A 2IN9_A ....
Probab=79.47 E-value=4.4 Score=50.64 Aligned_cols=94 Identities=19% Similarity=0.300 Sum_probs=56.8
Q ss_pred cccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCCC
Q 000107 536 DGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPK 615 (2191)
Q Consensus 536 ~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~~ 615 (2191)
.++-.|+.+-+.+|+|+|||..++..+ ......+..++||-|-.+|-...+.. +|+.+
T Consensus 48 GG~p~G~ivEi~G~~ssGKttLaL~~i-a~~q~~g~~~a~ID~e~~ld~~~a~~-------lGvdl-------------- 105 (322)
T PF00154_consen 48 GGLPRGRIVEIYGPESSGKTTLALHAI-AEAQKQGGICAFIDAEHALDPEYAES-------LGVDL-------------- 105 (322)
T ss_dssp SSEETTSEEEEEESTTSSHHHHHHHHH-HHHHHTT-EEEEEESSS---HHHHHH-------TT--G--------------
T ss_pred CccccCceEEEeCCCCCchhhhHHHHH-HhhhcccceeEEecCcccchhhHHHh-------cCccc--------------
Confidence 455568889999999999999986555 45556788999999887776554322 23321
Q ss_pred CCceEEEch---HHHHHHHHHhhhcCCCCccceEEEccccccc
Q 000107 616 DTSVAVCTI---EKANSLVNRMLEEGRLSEIGIIVIDELHMVA 655 (2191)
Q Consensus 616 ~~~IiV~Tp---Ekl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~ 655 (2191)
.+++|..| |.+..++..++... .+++||||=+-.+.
T Consensus 106 -~rllv~~P~~~E~al~~~e~lirsg---~~~lVVvDSv~al~ 144 (322)
T PF00154_consen 106 -DRLLVVQPDTGEQALWIAEQLIRSG---AVDLVVVDSVAALV 144 (322)
T ss_dssp -GGEEEEE-SSHHHHHHHHHHHHHTT---SESEEEEE-CTT-B
T ss_pred -cceEEecCCcHHHHHHHHHHHhhcc---cccEEEEecCcccC
Confidence 13555544 55555555554433 46799999877653
No 475
>PF00940 RNA_pol: DNA-dependent RNA polymerase; InterPro: IPR002092 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. The phage-type enzymes are family of single chain polymerases found in bacteriophages and mitochondria [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3SPA_A 1CEZ_A 1H38_B 1S77_D 1QLN_A 1S0V_D 3E2E_A 2PI4_A 3E3J_B 1S76_D ....
Probab=79.16 E-value=17 Score=47.31 Aligned_cols=123 Identities=20% Similarity=0.249 Sum_probs=81.6
Q ss_pred EEEEeccchhHHHHHHHhcCChHHHHHhcC----CCchHHHHHHHHHcCCCCCC--------------CChhhhcccchh
Q 000107 1933 ILLAADYSQIELRLMAHFSKDPALIGLLSK----PHGDVFTMIAARWTGRSEDS--------------VGSQERDQTKRL 1994 (2191)
Q Consensus 1933 ~lvsaDySQIELRilAhlS~D~~Li~af~~----~g~Dih~~~Aa~~~g~~~e~--------------Vt~~~R~~AK~i 1994 (2191)
+-|..|-|-==|-.+|.|.+|+.+.++-|= .-.|||..+|..+...=.+. ...-.|...|+.
T Consensus 87 lPV~~DgSCsGlQH~sal~rD~~ga~~vNLip~~~p~DiY~~V~~~v~~~l~~~~~~~~~~~~~~~~l~~~i~Rk~vK~~ 166 (405)
T PF00940_consen 87 LPVHQDGSCSGLQHYSALLRDEVGAKAVNLIPSDKPQDIYSEVAEEVKKRLEEDADDAEEDNSLAKWLKGGITRKLVKRP 166 (405)
T ss_dssp SEEEEEBSTHHHHHHHHHTT-HHHHHHTTSSSSSS---HHHHHHHHHHHHHHHHHHEHHCCHHHHHHCCCT--HHHHHHH
T ss_pred ceeeecCcccHHHHHHHHccCHhhChhcCCCCCCCCCchHHHHHHHHHHHHHHhhcccccchHHHHHhcCCCChhhcccc
Confidence 567888887788899999999999888761 13799999986554321111 123459999999
Q ss_pred hhhhhcCCChhhhhhhcC-------C-----------CHHHHHHHHHHHHHhChhHH---HHHHHHHHHHHhcCe---EE
Q 000107 1995 IYGILYGMGPNTLSEQLN-------C-----------SSNEAKEKIKSFKSSFPGVA---SWLHVAVSSCHQKGY---VE 2050 (2191)
Q Consensus 1995 ~fGiiYGmG~~~La~~l~-------i-----------s~~eA~~~i~~f~~~yp~v~---~~~~~~~~~a~~~Gy---V~ 2050 (2191)
+--++||.+..|.++++. . ...-|+.+.+.+.+.||+.. +|++.+.+.+.+.+- -.
T Consensus 167 vMT~~YG~T~~g~~~qi~~~l~~~~~~~~~~~~~~~~~~~la~~i~~~i~~~~~~a~~~m~wL~~~a~~~~~~~~pv~W~ 246 (405)
T PF00940_consen 167 VMTIVYGVTFYGARDQIKEQLKEKGDEEEDKIESYKAAMYLAKIIFEAIKEVFPGARNIMDWLQEIAKIIAKLNKPVSWT 246 (405)
T ss_dssp HHHHHHT-TCCHHHHHHHHHCHCHCCCTTTTTTHHHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHCTCB-EEEE
T ss_pred eEEeeeCcchhhHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHccCCcEEEE
Confidence 999999999999987652 1 12234567788888888655 566666666665442 24
Q ss_pred cccCC
Q 000107 2051 SLKGR 2055 (2191)
Q Consensus 2051 Tl~GR 2055 (2191)
|++|-
T Consensus 247 tP~Gl 251 (405)
T PF00940_consen 247 TPLGL 251 (405)
T ss_dssp ETTSE
T ss_pred CCCCC
Confidence 66664
No 476
>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=79.16 E-value=8.8 Score=49.70 Aligned_cols=117 Identities=19% Similarity=0.242 Sum_probs=64.4
Q ss_pred CcHHHHHHHHHcCCCCCCHHHHHhhhhcccc----------cCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEch
Q 000107 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVL----------QRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLP 578 (2191)
Q Consensus 509 Lp~~l~~~l~~~Gi~~l~p~Q~eal~~~~il----------~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P 578 (2191)
...+-++.+...|+-...+.-.+.+....++ .=..+++.+|.|||||..|.-..+.. .-+-+=++.|
T Consensus 496 ~see~l~~~~~~Gmi~~g~~v~~il~~G~llv~qvk~s~~s~lvSvLl~Gp~~sGKTaLAA~iA~~S---~FPFvKiiSp 572 (744)
T KOG0741|consen 496 ISEEDLERFVMNGMINWGPPVTRILDDGKLLVQQVKNSERSPLVSVLLEGPPGSGKTALAAKIALSS---DFPFVKIISP 572 (744)
T ss_pred CCHHHHHHHHhCCceeecccHHHHHhhHHHHHHHhhccccCcceEEEEecCCCCChHHHHHHHHhhc---CCCeEEEeCh
Confidence 4455556666666655555444444321111 12579999999999997665433321 2233444444
Q ss_pred hHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEcccccccccc
Q 000107 579 YVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQN 658 (2191)
Q Consensus 579 ~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~ 658 (2191)
..-. | +.-..+.. .+++...+..-+.+++||||++..+.|+.
T Consensus 573 e~mi-----------------------G--------------~sEsaKc~-~i~k~F~DAYkS~lsiivvDdiErLiD~v 614 (744)
T KOG0741|consen 573 EDMI-----------------------G--------------LSESAKCA-HIKKIFEDAYKSPLSIIVVDDIERLLDYV 614 (744)
T ss_pred HHcc-----------------------C--------------ccHHHHHH-HHHHHHHHhhcCcceEEEEcchhhhhccc
Confidence 2110 0 00111222 33444455566778999999999999873
Q ss_pred -hhHHHHHH
Q 000107 659 -RGYLLELL 666 (2191)
Q Consensus 659 -RG~~lE~l 666 (2191)
-|+.+..+
T Consensus 615 pIGPRfSN~ 623 (744)
T KOG0741|consen 615 PIGPRFSNL 623 (744)
T ss_pred ccCchhhHH
Confidence 45555433
No 477
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=79.16 E-value=13 Score=46.37 Aligned_cols=27 Identities=19% Similarity=0.362 Sum_probs=20.2
Q ss_pred CCe-EEEEcCCCCchhHHHHHHHHHHHHh
Q 000107 541 RRN-LVYCASTSAGKSFVAEILMLRRLIS 568 (2191)
Q Consensus 541 gkn-lIi~APTGSGKTlvael~iL~~ll~ 568 (2191)
... ++++||.|+|||.++. .+.+.+..
T Consensus 23 ~~halL~~Gp~G~Gktt~a~-~lA~~l~~ 50 (325)
T COG0470 23 LPHALLFYGPPGVGKTTAAL-ALAKELLC 50 (325)
T ss_pred CCceeeeeCCCCCCHHHHHH-HHHHHHhC
Confidence 345 9999999999998874 44555553
No 478
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=79.15 E-value=3.8 Score=53.69 Aligned_cols=61 Identities=20% Similarity=0.121 Sum_probs=41.3
Q ss_pred HHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHh-----cCCEEEEEchhHHHHHHHHHHHH
Q 000107 528 WQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIS-----TGKMALLVLPYVSICAEKAEHLE 591 (2191)
Q Consensus 528 ~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~-----~g~kaL~I~P~raLA~q~~~~l~ 591 (2191)
-|-++|.. -.++-+||.|..|||||.+|+--+.-.+.. .++.+|++.|.+-...-+...|-
T Consensus 216 EQneIIR~---ek~~ilVVQGaAGSGKTtiALHRvAyLlY~~R~~l~~k~vlvl~PN~vFleYis~VLP 281 (747)
T COG3973 216 EQNEIIRF---EKNKILVVQGAAGSGKTTIALHRVAYLLYGYRGPLQAKPVLVLGPNRVFLEYISRVLP 281 (747)
T ss_pred hHHHHHhc---cCCCeEEEecCCCCCchhHHHHHHHHHHhccccccccCceEEEcCcHHHHHHHHHhch
Confidence 35555532 467899999999999999987544333322 34569999999887655544433
No 479
>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=79.13 E-value=6.3 Score=44.64 Aligned_cols=34 Identities=29% Similarity=0.303 Sum_probs=23.9
Q ss_pred eEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEc
Q 000107 543 NLVYCASTSAGKSFVAEILMLRRLISTGKMALLVL 577 (2191)
Q Consensus 543 nlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~ 577 (2191)
.+++.+|+|+|||..+...+ ..+...+.+++++.
T Consensus 2 ~~~~~G~~G~GKTt~~~~la-~~~~~~g~~v~~i~ 35 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLA-LYLKKKGKKVLLVA 35 (173)
T ss_pred EEEEECCCCCCHHHHHHHHH-HHHHHCCCcEEEEE
Confidence 36789999999999875444 34445566776654
No 480
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=79.11 E-value=8.1 Score=51.40 Aligned_cols=137 Identities=12% Similarity=0.079 Sum_probs=0.0
Q ss_pred ccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCCCC
Q 000107 537 GVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPKD 616 (2191)
Q Consensus 537 ~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~~~ 616 (2191)
++..|..+++.+|+|+|||+.+...+...+. +|.+++|+. +-+-..|+..+...+ |-........+
T Consensus 259 G~~~gs~~li~G~~G~GKt~l~~~f~~~~~~-~ge~~~y~s-~eEs~~~i~~~~~~l------------g~~~~~~~~~g 324 (484)
T TIGR02655 259 GFFKDSIILATGATGTGKTLLVSKFLENACA-NKERAILFA-YEESRAQLLRNAYSW------------GIDFEEMEQQG 324 (484)
T ss_pred CccCCcEEEEECCCCCCHHHHHHHHHHHHHH-CCCeEEEEE-eeCCHHHHHHHHHHc------------CCChHHHhhCC
Q ss_pred CceEEE---chHHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCCCC
Q 000107 617 TSVAVC---TIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAAGEGTSDSSSGENSGTSSGK 693 (2191)
Q Consensus 617 ~~IiV~---TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~~~~~ 693 (2191)
.=.+++ +.-....++..+.+...-.+.+.||||=+-.+............+..|.....+
T Consensus 325 ~l~~~~~~p~~~~~~~~~~~i~~~i~~~~~~~vvIDsi~~~~~~~~~~~~r~~~~~l~~~lk~----------------- 387 (484)
T TIGR02655 325 LLKIICAYPESAGLEDHLQIIKSEIADFKPARIAIDSLSALARGVSNNAFRQFVIGVTGYAKQ----------------- 387 (484)
T ss_pred cEEEEEcccccCChHHHHHHHHHHHHHcCCCEEEEcCHHHHHHhcCHHHHHHHHHHHHHHHhh-----------------
Q ss_pred CCCCCCceEEEEecc
Q 000107 694 ADPAHGLQIVGMSAT 708 (2191)
Q Consensus 694 ~~~~~~iqII~mSAT 708 (2191)
.++-+++.+.|
T Consensus 388 ----~~it~~~t~~~ 398 (484)
T TIGR02655 388 ----EEITGFFTNTS 398 (484)
T ss_pred ----CCCeEEEeecc
No 481
>PRK10263 DNA translocase FtsK; Provisional
Probab=78.96 E-value=10 Score=54.54 Aligned_cols=26 Identities=27% Similarity=0.401 Sum_probs=20.0
Q ss_pred CeEEEEcCCCCchhHHHHHHHHHHHH
Q 000107 542 RNLVYCASTSAGKSFVAEILMLRRLI 567 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael~iL~~ll 567 (2191)
-+++|.|-||||||.+.--.|+..+.
T Consensus 1011 PHLLIAGaTGSGKSv~LntLIlSLl~ 1036 (1355)
T PRK10263 1011 PHLLVAGTTGSGKSVGVNAMILSMLY 1036 (1355)
T ss_pred CcEEEecCCCCCHHHHHHHHHHHHHH
Confidence 68999999999999886555554443
No 482
>PRK14351 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=78.95 E-value=6.6 Score=53.96 Aligned_cols=127 Identities=22% Similarity=0.225 Sum_probs=0.0
Q ss_pred HHHHHhcCCCHHHHHHHhCCCcchHHHHHHHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhccCchhhhhhcCCCCCC
Q 000107 1161 ILSRLVQETPVLEVCETFKVARGMVQALQENAGRFASMVSVFCERLGWYDLEGLIAKFQNRVSFGVRAEIVELTTIPYVK 1240 (2191)
Q Consensus 1161 ~L~dli~e~~~~~i~~~y~v~rG~lq~l~~~a~~~a~~v~~fc~~lg~~~~~~ll~~~~~RL~~Gv~~ELl~L~~ip~v~ 1240 (2191)
.+..|++.--+..+++-|.+.+.+|..| +.+|-.....++..+.+.-..-..+=|..| .|||||
T Consensus 474 ~i~~L~~~g~V~~~~Dl~~L~~~~L~~l---------------~g~g~Ksa~~Ll~~Ie~sk~~~l~r~l~AL-gIpgIG 537 (689)
T PRK14351 474 RVQQLVDAGLVESLADLYDLTVADLAEL---------------EGWGETSAENLLAELEASREPPLADFLVAL-GIPEVG 537 (689)
T ss_pred HHHHHHHcCCCCCHHHHHHcCHHHHhcC---------------cCcchhHHHHHHHHHHHHccCCHHHHHHHc-CCCCcC
Q ss_pred HHHHHHHHHcCCCCHHHHHcCCHHHHHHHHhhcchhHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCC
Q 000107 1241 GSRARALYKAGLRTPLAIAEASISEIVKALFESSSWIAEAQRRVQLGVAKKIKNGARKIVLEKAEEARIAAFSAFKSLGL 1320 (2191)
Q Consensus 1241 ~~RAR~Ly~aG~~t~~~la~a~~~~l~~~l~~~~~~~~~~~~~~~~~~A~~I~~~A~~l~~~~a~e~r~~~~~~~~~~~~ 1320 (2191)
..+|+.|. ..|.|+++|..|+.++|..+ ++++..+|.+|++ .+. .+.-.+....+.++|+
T Consensus 538 ~~~ak~L~-~~F~si~~L~~As~eeL~~i------------~GIG~k~A~sI~~----ff~---~~~n~~~i~~L~~~Gv 597 (689)
T PRK14351 538 PTTARNLA-REFGTFEAIMDADEEALRAV------------DDVGPTVAEEIRE----FFD---SERNRAVIDDLLDHGV 597 (689)
T ss_pred HHHHHHHH-HHhCCHHHHHhCCHHHHhcc------------CCcCHHHHHHHHH----HHh---hhHHHHHHHHHHhccc
Q ss_pred CCC
Q 000107 1321 NVP 1323 (2191)
Q Consensus 1321 ~~~ 1323 (2191)
+..
T Consensus 598 ~~~ 600 (689)
T PRK14351 598 DPQ 600 (689)
T ss_pred ccc
No 483
>PRK05168 ribonuclease T; Provisional
Probab=78.58 E-value=40 Score=39.84 Aligned_cols=103 Identities=14% Similarity=0.100 Sum_probs=56.2
Q ss_pred HHHHHHHHhhcc---CCccEEEechHHHHHHHHhcCcccccccCccccccccccccccccccccccCCCCccchHHHHHH
Q 000107 1584 QRWKRIGEIMEK---RDVRKFTWNMKVQIQVLKHAAVSIQRFGGLNLVGTSLGLENVGSSFLLLSPVHLKDGIDMCIVSW 1660 (2191)
Q Consensus 1584 ~~~~~L~~lLe~---~~v~kv~hNlK~dl~vL~~~gi~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~lAaw 1660 (2191)
+.++.+.+++.. .+...|+||+.||+..|.+..-... .. .++.....++||+-.++
T Consensus 98 ~~~~~l~~~~~~~~~~~~~lVaHNa~FD~~fL~~~~~r~~-~~--------------------~~~~~~~~~iDt~~lar 156 (211)
T PRK05168 98 EIFKMVRKGIKASGCNRAILVAHNAHFDLSFLMAAAERAG-LK--------------------RNPFHPFSTFDTATLSG 156 (211)
T ss_pred HHHHHHHHHHHhcccCCceEEEeccHHhHHHHHHHHHHhC-CC--------------------CCCCCCCcEeeHHHHHH
Confidence 344444444432 2467899999999998865321110 00 00001113689987777
Q ss_pred hcCCCCCCCCchhHHHHHHHhhChHHHHHhhccCchhhhhHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Q 000107 1661 ILWPDDERSSNPNLEKEVKKRLSSEAAAAANRSGRWKNQMRRAAHNGCCRRVAQTRALCSVLWKLLVS 1728 (2191)
Q Consensus 1661 LL~P~~~~~~l~~L~~~~~~~l~~e~~~~~~~~g~~~~~~~~~~~~ya~~Da~~t~~L~~~L~~~L~~ 1728 (2191)
.+.|. + .|..++.. ++.+. .+ ...+.|..||.+|..|+..+..++.+
T Consensus 157 ~~~~~---~---~L~~l~~~-~gl~~------~~--------~~~H~Al~DA~ata~l~~~l~~~~~~ 203 (211)
T PRK05168 157 LALGQ---T---VLAKACQA-AGIEF------DN--------KEAHSALYDTEKTAELFCEIVNRWKR 203 (211)
T ss_pred HHcCC---C---CHHHHHHH-CCCCC------CC--------CCCCChHHHHHHHHHHHHHHHHHHHH
Confidence 66653 2 24433332 22210 00 11345778999999999888877754
No 484
>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau. This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.
Probab=78.54 E-value=12 Score=47.30 Aligned_cols=32 Identities=16% Similarity=0.376 Sum_probs=21.5
Q ss_pred HHHHHHHHHhhhcCCCCccceEEEcccccccc
Q 000107 625 EKANSLVNRMLEEGRLSEIGIIVIDELHMVAD 656 (2191)
Q Consensus 625 Ekl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d 656 (2191)
+.+..+++.....+.+..-.+|||||+|.+..
T Consensus 100 ~~~~~l~~~~~~~p~~~~~~vviidea~~l~~ 131 (355)
T TIGR02397 100 DDIREILDNVKYAPSSGKYKVYIIDEVHMLSK 131 (355)
T ss_pred HHHHHHHHHHhcCcccCCceEEEEeChhhcCH
Confidence 33445555443445567778999999999853
No 485
>PLN03025 replication factor C subunit; Provisional
Probab=78.29 E-value=6.2 Score=49.52 Aligned_cols=24 Identities=21% Similarity=0.313 Sum_probs=18.6
Q ss_pred CeEEEEcCCCCchhHHHHHHHHHHH
Q 000107 542 RNLVYCASTSAGKSFVAEILMLRRL 566 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael~iL~~l 566 (2191)
.+++++||+|+|||..+.. +.+.+
T Consensus 35 ~~lll~Gp~G~GKTtla~~-la~~l 58 (319)
T PLN03025 35 PNLILSGPPGTGKTTSILA-LAHEL 58 (319)
T ss_pred ceEEEECCCCCCHHHHHHH-HHHHH
Confidence 5799999999999988754 34444
No 486
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=78.27 E-value=14 Score=50.81 Aligned_cols=42 Identities=26% Similarity=0.419 Sum_probs=26.5
Q ss_pred HHHHHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHH
Q 000107 625 EKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKL 670 (2191)
Q Consensus 625 Ekl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kL 670 (2191)
+.+..++......+......++||||+|+|.. .....++..|
T Consensus 101 d~IReLie~~~~~P~~g~~KV~IIDEa~~LT~----~A~NALLKtL 142 (725)
T PRK07133 101 DEIRELIENVKNLPTQSKYKIYIIDEVHMLSK----SAFNALLKTL 142 (725)
T ss_pred HHHHHHHHHHHhchhcCCCEEEEEEChhhCCH----HHHHHHHHHh
Confidence 33444555444445667889999999999853 2344554444
No 487
>TIGR00573 dnaq exonuclease, DNA polymerase III, epsilon subunit family. All proteins in this family for which functions are known are components of the DNA polymerase III complex (epsilon subunit). There is, however, an outgroup that includes paralogs in some gamma-proteobacteria and the n-terminal region of DinG from some low GC gram positive bacteria. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=78.13 E-value=19 Score=42.73 Aligned_cols=31 Identities=10% Similarity=0.123 Sum_probs=23.9
Q ss_pred HHHHHHHHHhhccCCccEEEechHHHHHHHHhc
Q 000107 1583 KQRWKRIGEIMEKRDVRKFTWNMKVQIQVLKHA 1615 (2191)
Q Consensus 1583 ~~~~~~L~~lLe~~~v~kv~hNlK~dl~vL~~~ 1615 (2191)
.+.+..+..++.+ ...|+||+.||+.+|.+.
T Consensus 75 ~ev~~~~~~~~~~--~~lVaHNa~FD~~fL~~~ 105 (217)
T TIGR00573 75 KEIAEDFADYIRG--AELVIHNASFDVGFLNYE 105 (217)
T ss_pred HHHHHHHHHHhCC--CEEEEeccHHHHHHHHHH
Confidence 4556677777754 568999999999999764
No 488
>PF05729 NACHT: NACHT domain
Probab=77.94 E-value=14 Score=40.80 Aligned_cols=43 Identities=16% Similarity=0.143 Sum_probs=26.0
Q ss_pred CeEEEEcCCCCchhHHHHHHHHHHHHhcC-----CEEEEEchhHHHHHH
Q 000107 542 RNLVYCASTSAGKSFVAEILMLRRLISTG-----KMALLVLPYVSICAE 585 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael~iL~~ll~~g-----~kaL~I~P~raLA~q 585 (2191)
+-++|.|++|+|||....- +...+.... ..+++..+.+.....
T Consensus 1 r~l~I~G~~G~GKStll~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 48 (166)
T PF05729_consen 1 RVLWISGEPGSGKSTLLRK-LAQQLAEEEPPPSKFPYPFFFSLRDISDS 48 (166)
T ss_pred CEEEEECCCCCChHHHHHH-HHHHHHhcCcccccceEEEEEeehhhhhc
Confidence 3589999999999987653 333444322 134555555554443
No 489
>cd06149 ISG20 DEDDh 3'-5' exonuclease domain of Interferon Stimulated Gene product of 20 kDa, and similar proteins. Interferon (IFN) Stimulated Gene product of 20 kDa (ISG20) is an IFN-induced antiviral exonuclease with a strong preference for single-stranded RNA and minor activity towards single-stranded DNA. It was also independently identified by its response to estrogen and was called HEM45 (human estrogen regulated transcript). ISG20 is a DEDDh-type DnaQ-like 3'-5' exonuclease containing three conserved sequence motifs termed ExoI, ExoII and ExoIII with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. ISG20 may be a major effector of innate immunity against pathogens including viruses, bacteria, and parasites. It is located in promyelocytic leukemia (PML) nuclear bodies, sites for oncogenic DNA viral transcription and repli
Probab=77.78 E-value=18 Score=40.66 Aligned_cols=30 Identities=17% Similarity=0.104 Sum_probs=23.2
Q ss_pred HHHHHHHHHhhccCCccEEEechHHHHHHHHh
Q 000107 1583 KQRWKRIGEIMEKRDVRKFTWNMKVQIQVLKH 1614 (2191)
Q Consensus 1583 ~~~~~~L~~lLe~~~v~kv~hNlK~dl~vL~~ 1614 (2191)
.+.+..+..++. +...|+||++||+.+|..
T Consensus 65 ~~v~~~l~~~l~--~~vlV~Hn~~~D~~~l~~ 94 (157)
T cd06149 65 AVAQKEILKILK--GKVVVGHAIHNDFKALKY 94 (157)
T ss_pred HHHHHHHHHHcC--CCEEEEeCcHHHHHHhcc
Confidence 456677777775 357899999999988864
No 490
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=77.70 E-value=11 Score=48.05 Aligned_cols=25 Identities=20% Similarity=0.340 Sum_probs=19.8
Q ss_pred eEEEEcCCCCchhHHHHHHHHHHHHh
Q 000107 543 NLVYCASTSAGKSFVAEILMLRRLIS 568 (2191)
Q Consensus 543 nlIi~APTGSGKTlvael~iL~~ll~ 568 (2191)
.++++||+|.|||..+. .+.+.++.
T Consensus 47 a~L~~G~~G~GKttlA~-~lA~~Llc 71 (351)
T PRK09112 47 ALLFEGPEGIGKATLAF-HLANHILS 71 (351)
T ss_pred eEeeECCCCCCHHHHHH-HHHHHHcC
Confidence 69999999999998875 44556655
No 491
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=77.64 E-value=5 Score=50.34 Aligned_cols=43 Identities=12% Similarity=0.169 Sum_probs=32.4
Q ss_pred cccccCCeEEEEcCCCCchhHHHHHHHHHHHHh-----cCCEEEEEch
Q 000107 536 DGVLQRRNLVYCASTSAGKSFVAEILMLRRLIS-----TGKMALLVLP 578 (2191)
Q Consensus 536 ~~il~gknlIi~APTGSGKTlvael~iL~~ll~-----~g~kaL~I~P 578 (2191)
.++..|..+.|++|+|+|||..+...+...... .+.+++||.-
T Consensus 97 GGi~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~t 144 (317)
T PRK04301 97 GGIETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDT 144 (317)
T ss_pred CCccCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeC
Confidence 356678999999999999999888777665432 1348888863
No 492
>PRK09519 recA DNA recombination protein RecA; Reviewed
Probab=77.53 E-value=5.7 Score=54.94 Aligned_cols=93 Identities=22% Similarity=0.298 Sum_probs=59.8
Q ss_pred ccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCCCCC
Q 000107 537 GVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPKD 616 (2191)
Q Consensus 537 ~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l~~~ 616 (2191)
++-.|..+.+.+|+|+|||..+...+... ...|.+++||-.--.+..+.+ ..+|+...
T Consensus 56 Gip~GsiteI~G~~GsGKTtLal~~~~~a-~~~G~~v~yId~E~t~~~~~A-------~~lGvDl~-------------- 113 (790)
T PRK09519 56 GLPRGRVIEIYGPESSGKTTVALHAVANA-QAAGGVAAFIDAEHALDPDYA-------KKLGVDTD-------------- 113 (790)
T ss_pred CccCCeEEEEECCCCCCHHHHHHHHHHHH-HHcCCcEEEECCccchhHHHH-------HHcCCChh--------------
Confidence 46678899999999999999987766644 346889999987666654322 22343321
Q ss_pred CceEEEch---HHHHHHHHHhhhcCCCCccceEEEccccccc
Q 000107 617 TSVAVCTI---EKANSLVNRMLEEGRLSEIGIIVIDELHMVA 655 (2191)
Q Consensus 617 ~~IiV~Tp---Ekl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~ 655 (2191)
.+++..| |.+..++..+... ..+++||||-+--+.
T Consensus 114 -~llv~~~~~~E~~l~~i~~lv~~---~~~~LVVIDSI~aL~ 151 (790)
T PRK09519 114 -SLLVSQPDTGEQALEIADMLIRS---GALDIVVIDSVAALV 151 (790)
T ss_pred -HeEEecCCCHHHHHHHHHHHhhc---CCCeEEEEcchhhhc
Confidence 1223332 4444444443332 358999999987654
No 493
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=77.51 E-value=4.1 Score=55.81 Aligned_cols=69 Identities=12% Similarity=0.206 Sum_probs=49.8
Q ss_pred CCCHHHHHhhhh--cccccC-CeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHHHHHHHHHHHHHhhc
Q 000107 524 KLYPWQVECLHV--DGVLQR-RNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKAEHLEVLLEP 596 (2191)
Q Consensus 524 ~l~p~Q~eal~~--~~il~g-knlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raLA~q~~~~l~~l~~~ 596 (2191)
.|.--|.++|.. .++..| +..++.|-||||||+...- +++. .++.+|||+|...+|.|.+.+|+.++..
T Consensus 9 ~~~~~Q~~ai~~l~~~~~~~~~~~~l~Gvtgs~kt~~~a~-~~~~---~~~p~Lvi~~n~~~A~ql~~el~~f~p~ 80 (655)
T TIGR00631 9 QPAGDQPKAIAKLVEGLTDGEKHQTLLGVTGSGKTFTMAN-VIAQ---VNRPTLVIAHNKTLAAQLYNEFKEFFPE 80 (655)
T ss_pred CCChHHHHHHHHHHHhhhcCCCcEEEECCCCcHHHHHHHH-HHHH---hCCCEEEEECCHHHHHHHHHHHHHhCCC
Confidence 355567666653 123233 3667999999999988643 2222 4678999999999999999999998753
No 494
>PHA03372 DNA packaging terminase subunit 1; Provisional
Probab=77.46 E-value=27 Score=46.76 Aligned_cols=128 Identities=18% Similarity=0.223 Sum_probs=76.9
Q ss_pred ccCCeEEEEcCCCCchhHHHHHHHHHHHHh--cCCEEEEEchhHHHHHHHHHHHHHHhhcc-CCe-EEEEeccCCCCCCC
Q 000107 539 LQRRNLVYCASTSAGKSFVAEILMLRRLIS--TGKMALLVLPYVSICAEKAEHLEVLLEPL-GRH-VRSYYGNQGGGSLP 614 (2191)
Q Consensus 539 l~gknlIi~APTGSGKTlvael~iL~~ll~--~g~kaL~I~P~raLA~q~~~~l~~l~~~l-g~~-V~~~~G~~~~~~l~ 614 (2191)
++.+-.+.-.|=--|||+.. .+|+..++. .|.++.|++--+-.+.-+++++...+..+ +-+ +...
T Consensus 200 FKQkaTVFLVPRRHGKTWf~-VpiIsllL~s~~gI~IGYvAHqKhvs~~Vf~EI~~~lrrwF~~~~vi~~---------- 268 (668)
T PHA03372 200 FKQKATVFLVPRRHGKTWFI-IPIISFLLKNIIGISIGYVAHQKHVSQFVLKEVEFRCRRMFPRKHTIEN---------- 268 (668)
T ss_pred hhccceEEEecccCCceehH-HHHHHHHHHhhcCceEEEEeeHHHHHHHHHHHHHHHHhhhcCccceeee----------
Confidence 45677788889999999754 444444443 68899999999988888777765444332 111 1111
Q ss_pred CCCceEEEchHHH-----HHHHHHhhhcCCCCccceEEEcccccccccchhHHHHHHHHHHHHhhcCCCCCCCCCCCCCC
Q 000107 615 KDTSVAVCTIEKA-----NSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYLLELLLTKLRYAAGEGTSDSSSGENSGT 689 (2191)
Q Consensus 615 ~~~~IiV~TpEkl-----~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d~~RG~~lE~lL~kLr~~~~~~~~~s~~~~~~~~ 689 (2191)
++..|.+.-|++= .+-.+. ...+=++.++++|||+|.+. ...+..+|..| .
T Consensus 269 k~~tI~~s~pg~Kst~~fasc~n~--NsiRGQ~fnll~VDEA~FI~----~~a~~tilgfm---~--------------- 324 (668)
T PHA03372 269 KDNVISIDHRGAKSTALFASCYNT--NSIRGQNFHLLLVDEAHFIK----KDAFNTILGFL---A--------------- 324 (668)
T ss_pred cCcEEEEecCCCcceeeehhhccC--ccccCCCCCEEEEehhhccC----HHHHHHhhhhh---c---------------
Confidence 1112333322211 000110 12234568999999999984 44555555555 2
Q ss_pred CCCCCCCCCCceEEEEecc
Q 000107 690 SSGKADPAHGLQIVGMSAT 708 (2191)
Q Consensus 690 ~~~~~~~~~~iqII~mSAT 708 (2191)
..+.++|..|.|
T Consensus 325 -------q~~~KiIfISS~ 336 (668)
T PHA03372 325 -------QNTTKIIFISST 336 (668)
T ss_pred -------ccCceEEEEeCC
Confidence 357789999988
No 495
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=77.45 E-value=5.7 Score=54.30 Aligned_cols=108 Identities=22% Similarity=0.260 Sum_probs=69.2
Q ss_pred CeEEEEcCCCCchhHHHHHHHHHHHHh--------cCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCCCC
Q 000107 542 RNLVYCASTSAGKSFVAEILMLRRLIS--------TGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSL 613 (2191)
Q Consensus 542 knlIi~APTGSGKTlvael~iL~~ll~--------~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~~l 613 (2191)
+--|+.-.-|-|||......++..-.. .++..|+|+|+ ++..|...++.+....-.+.|..++|.......
T Consensus 153 ~ggIladd~glgkt~~ti~l~l~~~~~~~~~~~~~~~kttLivcp~-s~~~qW~~elek~~~~~~l~v~v~~gr~kd~~e 231 (674)
T KOG1001|consen 153 RGGILADDMGLGKTVKTIALILKQKLKSKEEDRQKEFKTTLIVCPT-SLLTQWKTELEKVTEEDKLSIYVYHGRTKDKSE 231 (674)
T ss_pred ccceEeeccccchHHHHHHHHHhcccCCcchhhccccCceeEecch-HHHHHHHHHHhccCCccceEEEEecccccccch
Confidence 345677788999998876655543222 23456777776 566677766655555556677777771222223
Q ss_pred CCCCceEEEchHHHHHHHHHhhhcCCCC--ccceEEEcccccccccc
Q 000107 614 PKDTSVAVCTIEKANSLVNRMLEEGRLS--EIGIIVIDELHMVADQN 658 (2191)
Q Consensus 614 ~~~~~IiV~TpEkl~~Ll~~l~~~~~L~--~l~lVVIDEaH~l~d~~ 658 (2191)
...++|+++||..+-. ..+. ..-.||+||+|.+....
T Consensus 232 l~~~dVVltTy~il~~--------~~l~~i~w~Riildea~~ikn~~ 270 (674)
T KOG1001|consen 232 LNSYDVVLTTYDILKN--------SPLVKIKWLRIVLDEAHTIKNKD 270 (674)
T ss_pred hcCCceEEeeHHHhhc--------ccccceeEEEEEeccccccCCcc
Confidence 3457899999988642 1121 23579999999998653
No 496
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=77.37 E-value=12 Score=49.79 Aligned_cols=20 Identities=25% Similarity=0.541 Sum_probs=16.2
Q ss_pred eEEEEcCCCCchhHHHHHHH
Q 000107 543 NLVYCASTSAGKSFVAEILM 562 (2191)
Q Consensus 543 nlIi~APTGSGKTlvael~i 562 (2191)
-++++||.|+|||.++.+..
T Consensus 40 ayLf~Gp~G~GKTtlAr~lA 59 (486)
T PRK14953 40 AYIFAGPRGTGKTTIARILA 59 (486)
T ss_pred EEEEECCCCCCHHHHHHHHH
Confidence 36789999999998886543
No 497
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=77.24 E-value=2.8 Score=52.10 Aligned_cols=58 Identities=16% Similarity=0.206 Sum_probs=40.6
Q ss_pred CCCCCHHHHHhhhhcccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHH
Q 000107 522 ISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSI 582 (2191)
Q Consensus 522 i~~l~p~Q~eal~~~~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raL 582 (2191)
|..+++-|...+.. .+....|+++++.||||||+.. -.|........++|.+--+.+|
T Consensus 155 ~gt~~~~~a~~L~~-av~~r~NILisGGTGSGKTTlL--Nal~~~i~~~eRvItiEDtaEL 212 (355)
T COG4962 155 FGTMIRRAAKFLRR-AVGIRCNILISGGTGSGKTTLL--NALSGFIDSDERVITIEDTAEL 212 (355)
T ss_pred cCCcCHHHHHHHHH-HHhhceeEEEeCCCCCCHHHHH--HHHHhcCCCcccEEEEeehhhh
Confidence 56889999998875 3445679999999999999763 2222222344588888766554
No 498
>PF03237 Terminase_6: Terminase-like family; InterPro: IPR004921 The terminase is a component of the molecular motor that translocates genomic DNA into empty capsids during DNA packaging []. The large subunit heterodimerises with the small terminase protein, which is docked on the capsid portal protein. The latter forms a ring through which genomic DNA is translocated into the capsid. The terminase protein may have or induce an endonuclease activity to cleave DNA after encapsidation. This entry represents a family of terminase large subunits found in a variety of the Caudovirales and prophage regions of bacterial genomes. Homologues are also found in Gene Transfer Agents (GTA) [], including ORFg2 (RCAP_rcc01683) of the GTA of Rhodobacter capsulatus (Rhodopseudomonas capsulata) [see Fig.1, in ].; PDB: 2O0K_A 3CPE_A 2O0J_A 2O0H_A 3C6H_A 3C6A_A.
Probab=77.07 E-value=8.8 Score=48.34 Aligned_cols=106 Identities=15% Similarity=0.149 Sum_probs=49.6
Q ss_pred EEEcCCCCchhHHHHHHHHHHHHhcCC-EEEEEchhHHHHHHH----HHHHHHHhhccCCeEEEEeccCCCCCCCCCCce
Q 000107 545 VYCASTSAGKSFVAEILMLRRLISTGK-MALLVLPYVSICAEK----AEHLEVLLEPLGRHVRSYYGNQGGGSLPKDTSV 619 (2191)
Q Consensus 545 Ii~APTGSGKTlvael~iL~~ll~~g~-kaL~I~P~raLA~q~----~~~l~~l~~~lg~~V~~~~G~~~~~~l~~~~~I 619 (2191)
++.++.|+|||.+..+.++..+...+. +.++++|+..-+... ...+..+... -+.+..-........+..+..|
T Consensus 1 ~i~~~r~~GKT~~~~~~~~~~~~~~~~~~~vi~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~nG~~i 79 (384)
T PF03237_consen 1 LINGGRGSGKTTLIAIWFLWWALTRPPGRRVIIASTYRQARDIFGRFWKGIIELLPS-WFEIKFNEWNDRKIILPNGSRI 79 (384)
T ss_dssp -EEE-SSS-HHHHHHHHHHHHHHSSSS--EEEEEESSHHHHHHHHHHHHHHHHTS-T-TTS--EEEE-SSEEEETTS-EE
T ss_pred CCcCCccccHHHHHHHHHHHHHhhCCCCcEEEEecCHHHHHHHHHHhHHHHHHHHHH-hcCcccccCCCCcEEecCceEE
Confidence 578899999999988877777776553 455555666555553 2333333333 1222111000000112344556
Q ss_pred EEEchHHHHHHHHHhhhcCCCCccceEEEcccccccc
Q 000107 620 AVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVAD 656 (2191)
Q Consensus 620 iV~TpEkl~~Ll~~l~~~~~L~~l~lVVIDEaH~l~d 656 (2191)
.+.+...-. -...+.+ ..+++|++||+-.+.+
T Consensus 80 ~~~~~~~~~-~~~~~~G----~~~~~i~iDE~~~~~~ 111 (384)
T PF03237_consen 80 QFRGADSPD-SGDNIRG----FEYDLIIIDEAAKVPD 111 (384)
T ss_dssp EEES------SHHHHHT----S--SEEEEESGGGSTT
T ss_pred EEecccccc-ccccccc----cccceeeeeecccCch
Confidence 666643211 0111111 4578999999888754
No 499
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=77.07 E-value=1.8 Score=54.66 Aligned_cols=44 Identities=14% Similarity=0.335 Sum_probs=31.2
Q ss_pred ccccCCeEEEEcCCCCchhHHHHHHHHHHHHhcCCEEEEEchhHHH
Q 000107 537 GVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSI 582 (2191)
Q Consensus 537 ~il~gknlIi~APTGSGKTlvael~iL~~ll~~g~kaL~I~P~raL 582 (2191)
.+..++|++|+||||||||+.. -+++..+ ....+++.|-.+.+|
T Consensus 158 ~v~~~~nilI~G~tGSGKTTll-~aLl~~i-~~~~rivtiEd~~El 201 (344)
T PRK13851 158 CVVGRLTMLLCGPTGSGKTTMS-KTLISAI-PPQERLITIEDTLEL 201 (344)
T ss_pred HHHcCCeEEEECCCCccHHHHH-HHHHccc-CCCCCEEEECCCccc
Confidence 3567899999999999999875 3444443 344567777766554
No 500
>PLN03186 DNA repair protein RAD51 homolog; Provisional
Probab=77.00 E-value=6.4 Score=49.78 Aligned_cols=102 Identities=10% Similarity=0.117 Sum_probs=0.0
Q ss_pred ccccCCeEEEEcCCCCchhHHHHHHHHHHHHh-----cCCEEEEEchhHHHHHHHHHHHHHHhhccCCeEEEEeccCCCC
Q 000107 537 GVLQRRNLVYCASTSAGKSFVAEILMLRRLIS-----TGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGG 611 (2191)
Q Consensus 537 ~il~gknlIi~APTGSGKTlvael~iL~~ll~-----~g~kaL~I~P~raLA~q~~~~l~~l~~~lg~~V~~~~G~~~~~ 611 (2191)
++..|.-+.++|++|+|||..+...+....+. .+++++||----..-.+...++.+.+ |-....
T Consensus 119 G~~~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl~qia~~~-----------~~~~~~ 187 (342)
T PLN03186 119 GIETGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRLIQIAERF-----------GLNGAD 187 (342)
T ss_pred CCcCceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHHHHHHHHc-----------CCChhh
Q ss_pred CCCCCCceEEEchHHHHHHHHHhhhcCCCCccceEEEc
Q 000107 612 SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVID 649 (2191)
Q Consensus 612 ~l~~~~~IiV~TpEkl~~Ll~~l~~~~~L~~l~lVVID 649 (2191)
.+..-.-.-..+.+.+..++........-.++++||||
T Consensus 188 ~l~~i~~~~~~~~e~~~~ll~~~~~~~~~~~~~LIVID 225 (342)
T PLN03186 188 VLENVAYARAYNTDHQSELLLEAASMMAETRFALMIVD 225 (342)
T ss_pred hccceEEEecCCHHHHHHHHHHHHHHhhccCCCEEEEe
Done!