Query 001475
Match_columns 1071
No_of_seqs 493 out of 2915
Neff 7.1
Searched_HMMs 46136
Date Fri Mar 29 01:45:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001475.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001475hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0298 DEAD box-containing he 100.0 6.1E-85 1.3E-89 784.7 26.8 888 14-1069 222-1128(1394)
2 KOG0385 Chromatin remodeling c 100.0 2.4E-82 5.2E-87 729.1 24.5 367 246-676 216-617 (971)
3 KOG0384 Chromodomain-helicase 100.0 1.1E-75 2.3E-80 702.2 20.5 416 246-730 419-890 (1373)
4 KOG0387 Transcription-coupled 100.0 2.5E-75 5.5E-80 675.2 22.5 367 248-675 256-675 (923)
5 KOG0392 SNF2 family DNA-depend 100.0 6.2E-74 1.3E-78 682.7 19.8 373 248-673 1032-1469(1549)
6 KOG0389 SNF2 family DNA-depend 100.0 1E-71 2.2E-76 644.1 14.6 375 247-678 448-908 (941)
7 PLN03142 Probable chromatin-re 100.0 4.4E-70 9.5E-75 679.6 27.9 366 247-676 219-617 (1033)
8 KOG1002 Nucleotide excision re 100.0 6E-68 1.3E-72 583.4 25.4 393 248-677 232-768 (791)
9 KOG4439 RNA polymerase II tran 100.0 9.4E-68 2E-72 603.5 26.2 486 11-676 299-876 (901)
10 KOG0388 SNF2 family DNA-depend 100.0 5.3E-68 1.2E-72 601.4 15.3 357 247-672 617-1168(1185)
11 KOG0391 SNF2 family DNA-depend 100.0 1.1E-67 2.4E-72 620.5 17.5 232 248-537 666-904 (1958)
12 KOG0386 Chromatin remodeling c 100.0 2.2E-65 4.7E-70 603.6 15.9 367 247-674 444-854 (1157)
13 KOG0390 DNA repair protein, SN 100.0 5.2E-57 1.1E-61 538.9 25.9 370 247-675 298-724 (776)
14 KOG1001 Helicase-like transcri 100.0 6.5E-53 1.4E-57 507.9 25.9 371 246-674 188-666 (674)
15 COG0553 HepA Superfamily II DN 100.0 6E-53 1.3E-57 540.6 22.7 377 247-674 390-838 (866)
16 KOG1015 Transcription regulato 100.0 5.6E-50 1.2E-54 465.3 22.8 385 246-669 727-1288(1567)
17 PF00176 SNF2_N: SNF2 family N 100.0 2.5E-46 5.5E-51 419.9 17.2 241 248-538 59-299 (299)
18 KOG1000 Chromatin remodeling p 100.0 3.2E-41 7E-46 373.6 18.6 339 248-668 242-613 (689)
19 PRK04914 ATP-dependent helicas 100.0 1.1E-39 2.5E-44 406.5 24.7 342 247-672 199-619 (956)
20 KOG1016 Predicted DNA helicase 100.0 2.9E-40 6.2E-45 378.0 14.6 394 246-670 311-861 (1387)
21 KOG0383 Predicted helicase [Ge 100.0 1E-38 2.2E-43 379.4 11.0 303 247-615 345-679 (696)
22 TIGR00603 rad25 DNA repair hel 99.9 2.5E-24 5.4E-29 261.3 23.1 299 248-678 299-625 (732)
23 PRK13766 Hef nuclease; Provisi 99.8 1.5E-18 3.2E-23 220.4 21.1 367 248-666 59-487 (773)
24 COG1061 SSL2 DNA or RNA helica 99.5 1.3E-12 2.8E-17 155.0 22.4 298 249-669 82-405 (442)
25 PF04851 ResIII: Type III rest 99.3 8.9E-12 1.9E-16 129.3 13.6 123 249-386 52-183 (184)
26 cd00046 DEXDc DEAD-like helica 99.3 1.5E-11 3.3E-16 120.4 12.4 111 247-385 30-144 (144)
27 smart00487 DEXDc DEAD-like hel 99.3 1.9E-11 4.1E-16 127.2 13.7 128 248-402 55-190 (201)
28 PHA02558 uvsW UvsW helicase; P 99.2 1.8E-10 4E-15 139.2 15.6 99 249-387 160-261 (501)
29 KOG1123 RNA polymerase II tran 99.1 1.3E-10 2.9E-15 131.1 8.5 128 248-403 346-474 (776)
30 PRK11448 hsdR type I restricti 99.0 2.7E-09 5.8E-14 138.1 15.2 116 248-388 464-597 (1123)
31 COG1111 MPH1 ERCC4-like helica 99.0 2.1E-08 4.6E-13 115.2 20.1 128 248-404 59-190 (542)
32 cd00268 DEADc DEAD-box helicas 98.8 1.3E-07 2.8E-12 100.4 15.1 111 248-386 70-185 (203)
33 TIGR00348 hsdR type I site-spe 98.7 1E-07 2.2E-12 118.8 13.7 110 248-388 294-405 (667)
34 TIGR00643 recG ATP-dependent D 98.7 1.7E-07 3.7E-12 116.5 14.5 112 249-390 286-401 (630)
35 PF00270 DEAD: DEAD/DEAH box h 98.6 3.7E-07 8.1E-12 93.6 11.5 117 248-392 45-168 (169)
36 PF13872 AAA_34: P-loop contai 98.6 3.8E-06 8.2E-11 92.9 19.6 145 301-474 136-302 (303)
37 KOG0354 DEAD-box like helicase 98.5 1.1E-05 2.3E-10 98.3 22.8 126 247-401 106-236 (746)
38 PRK10917 ATP-dependent DNA hel 98.4 1.4E-06 3.1E-11 109.2 14.0 110 249-389 312-423 (681)
39 COG4096 HsdR Type I site-speci 98.4 1.7E-06 3.7E-11 105.0 11.9 106 248-388 216-323 (875)
40 PRK11192 ATP-dependent RNA hel 98.3 4.4E-06 9.5E-11 99.7 14.3 118 248-392 74-195 (434)
41 PRK10689 transcription-repair 98.3 2.9E-06 6.2E-11 110.8 13.1 112 248-390 650-763 (1147)
42 TIGR00580 mfd transcription-re 98.3 4E-06 8.7E-11 107.2 13.7 112 248-390 501-614 (926)
43 PRK10590 ATP-dependent RNA hel 98.3 9.8E-06 2.1E-10 97.3 15.7 111 249-386 77-191 (456)
44 TIGR00614 recQ_fam ATP-depende 98.3 4.7E-06 1E-10 100.4 12.9 129 248-402 52-189 (470)
45 PRK02362 ski2-like helicase; P 98.2 1.4E-05 3E-10 101.6 15.6 115 248-395 68-189 (737)
46 PRK01172 ski2-like helicase; P 98.2 1.5E-05 3.2E-10 100.5 15.5 114 248-394 66-186 (674)
47 PRK11776 ATP-dependent RNA hel 98.2 1.2E-05 2.7E-10 96.6 14.1 111 249-386 74-189 (460)
48 PLN00206 DEAD-box ATP-dependen 98.2 2.6E-05 5.6E-10 95.1 15.7 112 248-386 197-311 (518)
49 PTZ00424 helicase 45; Provisio 98.1 2.2E-05 4.8E-10 92.5 14.5 111 248-386 97-212 (401)
50 COG1204 Superfamily II helicas 98.1 1.4E-05 3E-10 100.4 12.8 122 248-405 77-205 (766)
51 PTZ00110 helicase; Provisional 98.1 2.7E-05 5.8E-10 95.4 14.5 110 249-385 205-318 (545)
52 PRK04837 ATP-dependent RNA hel 98.1 4.1E-05 8.9E-10 91.1 15.2 111 248-386 84-201 (423)
53 PRK11057 ATP-dependent DNA hel 98.1 2.3E-05 5E-10 97.3 13.1 128 248-402 66-201 (607)
54 PRK11634 ATP-dependent RNA hel 98.1 4.6E-05 1E-09 94.6 15.1 110 249-385 76-190 (629)
55 TIGR01389 recQ ATP-dependent D 98.0 2.8E-05 6.1E-10 96.5 12.9 127 248-401 54-188 (591)
56 PRK01297 ATP-dependent RNA hel 98.0 5.9E-05 1.3E-09 91.1 15.1 113 248-386 163-281 (475)
57 KOG0298 DEAD box-containing he 98.0 1.9E-06 4.2E-11 107.8 0.8 107 564-670 1214-1338(1394)
58 PRK04537 ATP-dependent RNA hel 98.0 9.1E-05 2E-09 91.2 15.4 111 248-385 85-202 (572)
59 PRK00254 ski2-like helicase; P 98.0 0.0001 2.2E-09 93.6 16.2 115 248-395 69-187 (720)
60 PRK09401 reverse gyrase; Revie 97.9 0.00012 2.6E-09 96.2 15.4 88 248-360 124-214 (1176)
61 COG1200 RecG RecG-like helicas 97.9 4.4E-05 9.5E-10 91.9 10.2 112 249-391 313-427 (677)
62 PRK05580 primosome assembly pr 97.8 0.00017 3.6E-09 90.6 13.9 108 248-388 191-307 (679)
63 COG1205 Distinct helicase fami 97.7 0.00025 5.4E-09 90.5 13.1 114 248-384 116-241 (851)
64 KOG0331 ATP-dependent RNA heli 97.7 0.00081 1.8E-08 79.9 16.0 107 249-384 167-280 (519)
65 TIGR03158 cas3_cyano CRISPR-as 97.7 0.00045 9.7E-09 80.4 13.9 125 249-387 41-193 (357)
66 PRK13767 ATP-dependent helicas 97.7 0.00044 9.6E-09 89.3 15.0 112 249-385 86-217 (876)
67 TIGR03817 DECH_helic helicase/ 97.6 0.00068 1.5E-08 86.0 15.3 112 249-385 83-204 (742)
68 COG4889 Predicted helicase [Ge 97.6 9.8E-05 2.1E-09 89.3 6.5 116 248-386 207-351 (1518)
69 PF07652 Flavi_DEAD: Flaviviru 97.5 0.0007 1.5E-08 67.4 10.6 101 248-387 34-138 (148)
70 PHA02653 RNA helicase NPH-II; 97.5 0.0026 5.6E-08 79.3 17.6 103 248-385 223-331 (675)
71 TIGR00595 priA primosomal prot 97.5 0.00041 9E-09 84.1 10.2 107 248-387 26-141 (505)
72 TIGR01587 cas3_core CRISPR-ass 97.3 0.00087 1.9E-08 77.8 9.8 120 248-386 30-166 (358)
73 PLN03137 ATP-dependent DNA hel 97.3 0.0016 3.4E-08 83.6 12.4 131 248-400 501-641 (1195)
74 TIGR03714 secA2 accessory Sec 97.2 0.0017 3.7E-08 81.0 11.8 118 249-397 113-232 (762)
75 TIGR01054 rgy reverse gyrase. 97.1 0.0013 2.8E-08 86.9 10.2 86 248-361 122-213 (1171)
76 KOG0350 DEAD-box ATP-dependent 97.1 0.0017 3.7E-08 75.2 9.4 97 246-363 214-311 (620)
77 PRK15483 type III restriction- 97.1 0.0042 9E-08 79.0 13.0 155 248-417 90-274 (986)
78 COG1197 Mfd Transcription-repa 97.0 0.0028 6.1E-08 80.9 10.9 113 248-391 644-758 (1139)
79 COG1201 Lhr Lhr-like helicases 96.9 0.0053 1.1E-07 77.1 11.8 125 249-403 75-206 (814)
80 KOG0952 DNA/RNA helicase MER3/ 96.9 0.0029 6.3E-08 79.0 9.1 136 249-416 166-311 (1230)
81 TIGR02621 cas3_GSU0051 CRISPR- 96.3 0.034 7.4E-07 70.4 13.5 117 249-386 64-216 (844)
82 PRK14701 reverse gyrase; Provi 96.2 0.016 3.4E-07 78.7 10.1 87 249-360 124-213 (1638)
83 PF11496 HDA2-3: Class II hist 96.1 0.0027 6E-08 71.5 2.2 200 456-670 4-257 (297)
84 PRK09200 preprotein translocas 96.0 0.03 6.5E-07 70.7 10.5 89 248-360 120-212 (790)
85 TIGR00963 secA preprotein tran 95.8 0.0093 2E-07 74.2 5.3 100 551-651 386-512 (745)
86 COG0610 Type I site-specific r 95.8 0.04 8.6E-07 71.9 11.3 115 249-392 305-420 (962)
87 PF13086 AAA_11: AAA domain; P 95.6 0.18 3.8E-06 54.1 13.6 36 347-387 192-228 (236)
88 TIGR01407 dinG_rel DnaQ family 95.6 0.072 1.6E-06 69.2 12.3 41 299-361 414-454 (850)
89 PRK09694 helicase Cas3; Provis 95.1 0.13 2.8E-06 66.2 12.0 75 302-393 411-488 (878)
90 PRK09751 putative ATP-dependen 95.0 0.11 2.4E-06 69.7 11.4 119 248-395 38-177 (1490)
91 COG0513 SrmB Superfamily II DN 94.3 0.28 6.1E-06 60.0 11.9 108 250-385 102-215 (513)
92 KOG0947 Cytoplasmic exosomal R 94.1 1.3 2.9E-05 55.8 16.6 40 621-661 685-725 (1248)
93 KOG0330 ATP-dependent RNA heli 94.1 0.23 5E-06 56.6 9.4 111 249-385 131-245 (476)
94 PRK12899 secA preprotein trans 94.1 0.3 6.5E-06 62.2 11.4 103 249-386 137-243 (970)
95 TIGR03117 cas_csf4 CRISPR-asso 94.0 0.4 8.7E-06 59.6 12.3 43 299-363 180-222 (636)
96 KOG0338 ATP-dependent RNA heli 93.1 0.45 9.8E-06 56.0 9.8 122 245-396 250-378 (691)
97 COG1203 CRISPR-associated heli 93.1 0.5 1.1E-05 60.4 11.3 131 248-387 247-382 (733)
98 KOG0343 RNA Helicase [RNA proc 93.0 0.28 6E-06 58.1 8.0 119 249-395 143-265 (758)
99 PRK12898 secA preprotein trans 92.9 0.57 1.2E-05 58.3 11.1 116 248-385 145-269 (656)
100 TIGR01970 DEAH_box_HrpB ATP-de 92.9 0.4 8.7E-06 61.6 10.0 43 635-682 312-355 (819)
101 KOG0335 ATP-dependent RNA heli 92.8 0.38 8.2E-06 57.0 8.9 86 248-360 153-239 (482)
102 COG1110 Reverse gyrase [DNA re 92.8 0.26 5.6E-06 62.4 7.9 87 248-359 126-215 (1187)
103 PRK11664 ATP-dependent RNA hel 92.8 0.59 1.3E-05 60.1 11.4 43 635-682 315-358 (812)
104 KOG1513 Nuclear helicase MOP-3 92.7 0.81 1.8E-05 56.3 11.5 149 301-477 368-539 (1300)
105 KOG1802 RNA helicase nonsense 92.7 0.26 5.7E-06 59.4 7.3 36 247-286 454-490 (935)
106 PRK13104 secA preprotein trans 92.6 0.31 6.8E-06 62.0 8.4 86 249-359 125-214 (896)
107 COG4098 comFA Superfamily II D 92.5 2.1 4.5E-05 48.5 13.6 39 347-387 202-245 (441)
108 PF00628 PHD: PHD-finger; Int 91.5 0.068 1.5E-06 43.6 0.6 30 166-199 4-33 (51)
109 KOG1132 Helicase of the DEAD s 90.1 1.1 2.3E-05 56.3 9.1 24 108-131 42-65 (945)
110 COG0514 RecQ Superfamily II DN 89.6 0.54 1.2E-05 57.5 6.0 130 247-403 57-194 (590)
111 PRK13103 secA preprotein trans 89.5 0.84 1.8E-05 58.2 7.8 88 248-360 124-215 (913)
112 COG4581 Superfamily II RNA hel 89.0 2.3 4.9E-05 55.2 11.2 99 250-384 165-269 (1041)
113 PRK11131 ATP-dependent RNA hel 88.3 2.8 6.1E-05 56.0 11.6 62 301-386 163-229 (1294)
114 TIGR00376 DNA helicase, putati 88.1 4.6 0.0001 50.8 13.0 41 342-387 356-396 (637)
115 cd00079 HELICc Helicase superf 87.4 0.22 4.7E-06 48.2 0.7 32 621-652 99-131 (131)
116 KOG1803 DNA helicase [Replicat 87.4 1.7 3.6E-05 52.7 8.0 40 343-387 354-393 (649)
117 PRK12904 preprotein translocas 87.2 1.7 3.7E-05 55.4 8.4 86 249-359 124-213 (830)
118 KOG0336 ATP-dependent RNA heli 86.7 2.5 5.4E-05 48.7 8.4 107 248-383 295-405 (629)
119 smart00249 PHD PHD zinc finger 86.2 0.47 1E-05 37.2 1.9 24 177-200 11-34 (47)
120 KOG1131 RNA polymerase II tran 85.3 1.5 3.3E-05 51.8 6.1 28 108-135 37-64 (755)
121 KOG0951 RNA helicase BRR2, DEA 85.3 4.3 9.3E-05 52.9 10.3 105 249-384 366-483 (1674)
122 PRK14873 primosome assembly pr 85.1 2.6 5.7E-05 53.1 8.6 107 248-386 189-304 (665)
123 COG3587 Restriction endonuclea 84.8 2.2 4.8E-05 53.5 7.5 123 248-384 105-241 (985)
124 PF13604 AAA_30: AAA domain; P 84.8 11 0.00024 40.0 12.1 39 347-387 93-132 (196)
125 PF09848 DUF2075: Uncharacteri 84.6 1.9 4.1E-05 50.2 6.7 17 345-361 81-97 (352)
126 PF06733 DEAD_2: DEAD_2; Inte 83.2 0.76 1.6E-05 47.7 2.4 44 297-361 115-159 (174)
127 COG1202 Superfamily II helicas 82.1 3.8 8.3E-05 49.3 7.7 124 246-395 260-390 (830)
128 KOG0345 ATP-dependent RNA heli 81.9 6.5 0.00014 46.4 9.3 110 249-384 81-197 (567)
129 KOG0348 ATP-dependent RNA heli 79.7 5.9 0.00013 47.4 8.1 109 250-385 214-341 (708)
130 KOG0347 RNA helicase [RNA proc 79.7 4.4 9.6E-05 48.5 7.1 112 249-384 265-385 (731)
131 PRK04296 thymidine kinase; Pro 79.7 9.2 0.0002 40.4 9.1 36 347-384 78-114 (190)
132 PRK12326 preprotein translocas 79.5 7 0.00015 49.1 9.1 102 248-385 120-225 (764)
133 PRK13107 preprotein translocas 79.0 5.9 0.00013 50.9 8.4 102 248-385 124-229 (908)
134 KOG0342 ATP-dependent RNA heli 78.0 4.2 9.1E-05 48.1 6.2 110 249-384 156-270 (543)
135 KOG0339 ATP-dependent RNA heli 75.9 11 0.00024 44.9 8.7 110 246-384 294-410 (731)
136 KOG0333 U5 snRNP-like RNA heli 74.7 7.2 0.00016 46.6 6.9 86 249-361 324-410 (673)
137 smart00489 DEXDc3 DEAD-like he 74.3 1.9 4.2E-05 48.7 2.3 44 297-361 207-250 (289)
138 smart00488 DEXDc2 DEAD-like he 74.3 1.9 4.2E-05 48.7 2.3 44 297-361 207-250 (289)
139 PRK11747 dinG ATP-dependent DN 73.0 2.6 5.7E-05 53.6 3.3 47 297-362 215-261 (697)
140 TIGR01967 DEAH_box_HrpA ATP-de 72.9 14 0.00031 49.7 9.9 83 978-1067 1119-1202(1283)
141 KOG1844 PHD Zn-finger proteins 71.3 1.9 4E-05 52.8 1.3 37 161-200 85-121 (508)
142 PRK12906 secA preprotein trans 71.3 8.6 0.00019 49.1 7.1 87 248-359 122-212 (796)
143 PF02399 Herpes_ori_bp: Origin 69.5 29 0.00063 44.2 10.9 100 248-384 79-189 (824)
144 COG0556 UvrB Helicase subunit 68.5 8.5 0.00018 46.2 5.7 30 248-277 58-88 (663)
145 PRK07003 DNA polymerase III su 66.5 21 0.00046 45.3 9.0 60 347-406 119-179 (830)
146 KOG0340 ATP-dependent RNA heli 65.9 26 0.00056 40.3 8.6 120 249-393 77-201 (442)
147 PF13401 AAA_22: AAA domain; P 65.5 4.1 8.8E-05 39.5 2.2 35 349-385 89-125 (131)
148 PF07517 SecA_DEAD: SecA DEAD- 65.3 37 0.0008 38.0 9.8 87 248-359 119-209 (266)
149 PF02562 PhoH: PhoH-like prote 63.9 6.6 0.00014 42.1 3.5 42 347-390 119-160 (205)
150 PRK12902 secA preprotein trans 63.8 24 0.00051 45.5 8.7 87 248-359 127-217 (939)
151 KOG0926 DEAH-box RNA helicase 62.5 28 0.00061 43.8 8.7 34 302-358 350-383 (1172)
152 KOG1973 Chromatin remodeling p 62.1 3.7 8.1E-05 46.0 1.3 48 161-237 218-268 (274)
153 KOG4284 DEAD box protein [Tran 61.3 31 0.00067 42.5 8.6 123 242-393 88-216 (980)
154 KOG1805 DNA replication helica 59.6 56 0.0012 42.2 10.8 40 343-387 792-831 (1100)
155 COG1198 PriA Primosomal protei 59.3 93 0.002 39.8 12.8 107 248-387 246-361 (730)
156 PRK10536 hypothetical protein; 58.1 9.2 0.0002 42.4 3.4 41 348-390 177-217 (262)
157 PF07227 DUF1423: Protein of u 57.8 8.8 0.00019 45.2 3.3 77 164-270 131-207 (446)
158 TIGR02881 spore_V_K stage V sp 57.6 33 0.00072 38.0 7.9 20 108-127 44-63 (261)
159 PRK14960 DNA polymerase III su 57.1 53 0.0011 41.4 9.9 60 347-406 118-178 (702)
160 TIGR00604 rad3 DNA repair heli 56.4 6.2 0.00013 50.4 2.0 64 263-361 171-234 (705)
161 PRK08074 bifunctional ATP-depe 56.2 7.8 0.00017 51.1 3.0 43 297-361 427-469 (928)
162 COG5034 TNG2 Chromatin remodel 55.0 5.6 0.00012 43.2 1.1 48 160-236 219-269 (271)
163 PRK07246 bifunctional ATP-depe 52.8 9.2 0.0002 49.6 2.7 40 298-360 410-449 (820)
164 CHL00122 secA preprotein trans 52.2 35 0.00077 43.9 7.5 87 248-359 118-208 (870)
165 PRK14964 DNA polymerase III su 52.1 57 0.0012 39.8 9.1 20 108-127 37-56 (491)
166 PF12340 DUF3638: Protein of u 51.7 82 0.0018 34.4 9.3 65 249-314 72-143 (229)
167 KOG0948 Nuclear exosomal RNA h 51.0 28 0.0006 43.6 6.0 68 257-362 183-250 (1041)
168 PRK07764 DNA polymerase III su 50.7 47 0.001 43.2 8.5 38 347-384 120-158 (824)
169 PF00271 Helicase_C: Helicase 49.2 14 0.00031 32.3 2.7 17 628-644 61-78 (78)
170 PRK14958 DNA polymerase III su 47.7 94 0.002 38.2 10.1 38 347-384 119-157 (509)
171 PRK14965 DNA polymerase III su 45.0 68 0.0015 40.0 8.5 20 110-129 42-61 (576)
172 KOG0337 ATP-dependent RNA heli 43.1 37 0.0008 39.9 5.2 105 248-384 91-204 (529)
173 PRK06645 DNA polymerase III su 42.2 1.2E+02 0.0026 37.3 9.8 23 107-129 44-66 (507)
174 KOG0949 Predicted helicase, DE 41.6 48 0.001 42.8 6.2 77 301-398 605-682 (1330)
175 TIGR00269 conserved hypothetic 41.3 45 0.00098 31.7 4.8 62 812-875 36-101 (104)
176 PF13173 AAA_14: AAA domain 40.5 30 0.00066 33.7 3.7 39 348-387 62-100 (128)
177 PRK05563 DNA polymerase III su 38.7 96 0.0021 38.6 8.4 20 110-129 42-61 (559)
178 KOG0329 ATP-dependent RNA heli 38.4 51 0.0011 36.2 5.1 62 249-316 112-176 (387)
179 PF07496 zf-CW: CW-type Zinc F 37.3 11 0.00024 30.9 -0.0 15 179-193 2-16 (50)
180 PRK12900 secA preprotein trans 37.1 86 0.0019 41.1 7.7 109 249-394 181-293 (1025)
181 KOG1133 Helicase of the DEAD s 36.8 18 0.00039 44.8 1.6 56 274-362 308-363 (821)
182 TIGR00631 uvrb excinuclease AB 36.6 64 0.0014 40.9 6.5 31 248-280 55-86 (655)
183 PRK07940 DNA polymerase III su 36.6 79 0.0017 37.5 6.9 22 108-129 38-59 (394)
184 KOG0334 RNA helicase [RNA proc 36.4 73 0.0016 41.5 6.8 57 250-313 441-500 (997)
185 PF08824 Serine_rich: Serine r 36.3 66 0.0014 33.1 5.3 119 739-860 4-134 (159)
186 PRK14959 DNA polymerase III su 35.9 1.1E+02 0.0025 38.3 8.4 20 110-129 42-61 (624)
187 PF05876 Terminase_GpA: Phage 35.9 94 0.002 38.7 7.7 55 341-395 128-189 (557)
188 KOG0951 RNA helicase BRR2, DEA 35.5 1.3E+02 0.0028 40.3 8.7 103 248-388 1187-1301(1674)
189 PRK12901 secA preprotein trans 35.5 1.1E+02 0.0023 40.5 8.1 100 260-395 227-326 (1112)
190 KOG0328 Predicted ATP-dependen 34.8 1.5E+02 0.0034 33.2 8.1 110 248-385 96-210 (400)
191 TIGR00596 rad1 DNA repair prot 34.1 2.2E+02 0.0049 37.0 10.8 65 300-387 6-74 (814)
192 PRK06647 DNA polymerase III su 33.5 1.2E+02 0.0025 37.9 7.9 20 110-129 42-61 (563)
193 COG1702 PhoH Phosphate starvat 33.4 22 0.00048 40.8 1.5 41 348-390 244-284 (348)
194 TIGR02880 cbbX_cfxQ probable R 33.1 84 0.0018 35.5 6.2 20 108-127 60-79 (284)
195 COG1875 NYN ribonuclease and A 32.7 33 0.00072 39.7 2.8 40 347-388 351-390 (436)
196 CHL00181 cbbX CbbX; Provisiona 32.2 1.1E+02 0.0025 34.5 7.1 18 110-127 63-80 (287)
197 PRK14971 DNA polymerase III su 32.2 2.1E+02 0.0045 36.1 9.9 38 347-384 121-159 (614)
198 KOG4323 Polycomb-like PHD Zn-f 32.0 16 0.00034 43.6 0.1 53 162-236 171-223 (464)
199 PRK12903 secA preprotein trans 31.7 1.2E+02 0.0026 39.3 7.6 67 527-594 377-449 (925)
200 PRK05896 DNA polymerase III su 30.8 2E+02 0.0043 36.1 9.2 20 110-129 42-61 (605)
201 PHA00673 acetyltransferase dom 30.5 78 0.0017 32.4 4.8 45 347-391 87-134 (154)
202 COG1643 HrpA HrpA-like helicas 30.5 2.6E+02 0.0055 36.6 10.3 26 636-661 364-390 (845)
203 KOG0353 ATP-dependent DNA heli 30.4 65 0.0014 37.1 4.5 56 343-398 211-273 (695)
204 PF13245 AAA_19: Part of AAA d 30.1 77 0.0017 28.2 4.2 19 112-130 16-34 (76)
205 PRK14963 DNA polymerase III su 30.1 3.2E+02 0.0069 33.6 10.8 20 110-129 40-59 (504)
206 COG4224 Uncharacterized protei 29.9 33 0.00072 30.3 1.7 20 721-740 27-46 (77)
207 PF13871 Helicase_C_4: Helicas 29.0 43 0.00094 37.6 2.9 55 616-672 86-142 (278)
208 KOG0326 ATP-dependent RNA heli 28.5 2.7E+02 0.006 31.8 8.8 109 246-384 152-267 (459)
209 PLN03025 replication factor C 28.2 79 0.0017 36.2 5.0 58 347-404 99-157 (319)
210 PRK14948 DNA polymerase III su 27.8 2E+02 0.0043 36.3 8.7 20 110-129 42-61 (620)
211 KOG0952 DNA/RNA helicase MER3/ 27.1 1.2E+02 0.0027 39.7 6.6 86 247-364 973-1063(1230)
212 TIGR00595 priA primosomal prot 25.5 1.5E+02 0.0033 36.4 7.0 51 258-310 270-321 (505)
213 smart00490 HELICc helicase sup 24.6 46 0.001 28.6 1.8 22 622-644 60-82 (82)
214 COG1199 DinG Rad3-related DNA 24.5 47 0.001 42.1 2.5 44 300-363 193-236 (654)
215 KOG3259 Peptidyl-prolyl cis-tr 24.2 61 0.0013 32.5 2.6 60 70-132 7-66 (163)
216 TIGR02768 TraA_Ti Ti-type conj 23.7 4.2E+02 0.0091 34.3 10.7 39 347-387 439-478 (744)
217 PRK14954 DNA polymerase III su 23.7 3.6E+02 0.0078 34.1 9.8 20 110-129 42-61 (620)
218 PF05979 DUF896: Bacterial pro 23.2 40 0.00088 29.3 1.0 20 721-740 25-44 (65)
219 COG1198 PriA Primosomal protei 23.0 1.6E+02 0.0035 37.8 6.6 62 250-314 485-547 (730)
220 PRK01631 hypothetical protein; 22.9 53 0.0011 29.4 1.7 20 721-740 26-45 (76)
221 PF08807 DUF1798: Bacterial do 22.7 2.2E+02 0.0047 27.6 6.0 100 717-826 3-110 (111)
222 PF13831 PHD_2: PHD-finger; PD 22.7 24 0.00053 26.9 -0.4 22 179-200 3-24 (36)
223 PRK02539 hypothetical protein; 22.7 53 0.0012 30.0 1.7 20 721-740 27-46 (85)
224 PF12387 Peptidase_C74: Pestiv 22.2 77 0.0017 32.6 2.9 65 809-873 103-182 (200)
225 KOG0344 ATP-dependent RNA heli 22.0 1.2E+02 0.0027 37.1 5.0 90 249-362 211-303 (593)
226 PRK05707 DNA polymerase III su 21.6 4.8E+02 0.01 30.2 9.7 21 110-130 26-46 (328)
227 TIGR01447 recD exodeoxyribonuc 21.6 83 0.0018 39.4 3.7 39 347-387 259-297 (586)
228 COG4646 DNA methylase [Transcr 21.2 43 0.00092 39.7 1.0 31 375-405 473-503 (637)
229 PRK01546 hypothetical protein; 21.1 60 0.0013 29.3 1.7 20 721-740 28-47 (79)
No 1
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=100.00 E-value=6.1e-85 Score=784.74 Aligned_cols=888 Identities=28% Similarity=0.334 Sum_probs=693.7
Q ss_pred hhhhcCCCCCCCCCccCCCCCcCCCChHHHHHHHHHHHHhhhCCCCC------CchhhhccccCCCcccccccCCCccee
Q 001475 14 WQGFMKPLSDQKPMLEEDLPDLLPLLRPYQRRAAYWMVQREKGDSAS------SSERERSQFFSPLCMPMDFLDTYSTLF 87 (1071)
Q Consensus 14 ~~~~~~p~~~~~~~~~~~~p~L~~~LrpyQ~~av~WMl~rE~~~~~~------~~~~~~~~~~~plw~~~~~~~~~~~~y 87 (1071)
++.+|+| ..........+..+.+++|+||.+++.||.+||..-... .....+.+..-++-.++.+.+.+
T Consensus 222 ~~~~i~~-l~~s~~~~D~~~~~~~~~r~~~~r~~~~~~~~~~e~~~~s~~~It~~~~~di~~~~~~~l~~~~~~~~---- 296 (1394)
T KOG0298|consen 222 EKHRITV-LVESERSLDLIKRFQSQLRKYQQRTVSWMPSREQEYTQVSANFITLHLIDDITRVFKLKLCFQFYSFE---- 296 (1394)
T ss_pred hhhhccc-cchhccCchHHHHhhhhccHHHHHHHHhccccchhhhhccccccccccccchHHHhhhccceeccccc----
Confidence 3445666 444445555567789999999999999999999854221 11111111111111111111111
Q ss_pred eeccCCcccCCCCCCCCCccCceeecCCCCCHHHHHHHHHHHccCCCCCCccccccccccchhhhhHHHHhhhhhhhhhc
Q 001475 88 YNPFSGSLSLSPDYTSSYVFGGILADEMGLGKTVELLACIFAHRKPASDDSIFIDTAVQVTDDQKVNLRRLKRERVECIC 167 (1071)
Q Consensus 88 ~n~~tg~~~~~~~~~~~~~rGGILADEMGLGKTvq~LalIl~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~v~c~c 167 (1071)
.+ -+..+.+.||.+|||||||||++-+|++..|+.+.. .+.......+.|.|
T Consensus 297 ----~~------l~~e~l~~~~t~~de~gl~k~~E~~a~~~~n~~p~~------------------~~~~s~~~~~~~~~ 348 (1394)
T KOG0298|consen 297 ----EE------LPKESLSPGGTLADEMGLGKTVEFLAMLTSNRRPPD------------------SYRNSYLHQRLEEY 348 (1394)
T ss_pred ----cc------chhccCCCcchHHHHhhhHHHHHHHHHHhccCCCcc------------------cccchHHHHHHHHH
Confidence 11 112234569999999999999999999999887642 12334556678899
Q ss_pred ccccccccccccccccccccccccccccccCCCCCCccchhhhhhhc--ccccc--ccccccCCccccchhhhhhhccCC
Q 001475 168 GAVSESRKYKGLWVQCDICDAWQHADCVGYSPRGKKRRSTFELKKHT--RKKDM--TNIVVRDGEHICQWCDELIEATDS 243 (1071)
Q Consensus 168 ~~~~~~~~~~g~~v~c~~c~~w~h~~cv~~~~~~~~~~~~~~~~~~~--~~~~~--~~~~~~~~~~~C~~c~~~~~~~~~ 243 (1071)
+...+...+.+.|++|..|..|.+++-.+.-. ++. +|+.. .........+.|..|+........
T Consensus 349 ~~~~e~~~~r~nq~~~~~~~~~~~~g~~~~~a------------de~~~qk~~~~l~~~l~~~~k~~~~~cS~~~~e~~n 416 (1394)
T KOG0298|consen 349 SDEVELKRSRINQKDEVLCSGDKKHGKRVQCA------------DEMGWQKTSEKLILELSDLPKLCPSCCSELVKEGEN 416 (1394)
T ss_pred hhhhHhHHhHhhhhhHHhhcCCccCCcceeeh------------hhhhccchHHHHHHHHhcccccchhhhhHHHhcccc
Confidence 99999989999999999999988864110000 111 11111 122334556667777888888888
Q ss_pred CCCCCcEEEEeCchhHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCC
Q 001475 244 PVATGATLIVCPAPILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRH 323 (1071)
Q Consensus 244 ~~~~~~tLIV~P~SLl~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~ 323 (1071)
+..+|+||||||.+++.||-.||.+|+++ .++|+.|.|.++... ..+..+.+||||+|||++|+.++.+. ..
T Consensus 417 ~~~tgaTLII~P~aIl~QW~~EI~kH~~~-~lKv~~Y~Girk~~~-----~~~~el~~yDIVlTtYdiLr~El~ht--e~ 488 (1394)
T KOG0298|consen 417 LVETGATLIICPNAILMQWFEEIHKHISS-LLKVLLYFGIRKTFW-----LSPFELLQYDIVLTTYDILRNELYHT--ED 488 (1394)
T ss_pred eeecCceEEECcHHHHHHHHHHHHHhccc-cceEEEEechhhhcc-----cCchhhhccCEEEeehHHHHhHhhcc--cc
Confidence 99999999999999999999999999953 479999999977543 34578899999999999999999886 55
Q ss_pred cchhhhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCCCCChhhhhccccccCCC
Q 001475 324 EGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQRKLDDLYGLLRFLKSS 403 (1071)
Q Consensus 324 ~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPiqN~l~DL~~LL~FL~p~ 403 (1071)
.++.+.+|++++|+.+++||..+.||||||||||++.+..|.+++|+.+|++.+|||+||||||+ ++|||+||.||+..
T Consensus 489 ~~~~R~lR~qsr~~~~~SPL~~v~wWRIclDEaQMvesssS~~a~M~~rL~~in~W~VTGTPiq~-Iddl~~Ll~fLk~~ 567 (1394)
T KOG0298|consen 489 FGSDRQLRHQSRYMRPNSPLLMVNWWRICLDEAQMVESSSSAAAEMVRRLHAINRWCVTGTPIQK-IDDLFPLLEFLKLP 567 (1394)
T ss_pred cCChhhhhcccCCCCCCCchHHHHHHHHhhhHHHhhcchHHHHHHHHHHhhhhceeeecCCchhh-hhhhHHHHHHhcCC
Confidence 68889999999999999999999999999999999999999999999999999999999999999 99999999999999
Q ss_pred CCCChhhhHHHhcCCCcCCchhHHHHHHHHHHHHhhhcccccccccCCCCCceEEEEEecCCHHHHHHHHHHHHHHHHHH
Q 001475 404 PFSISRWWIEVIRDPYENGDVGAMEFTHKFFKEIMCRSSKVHVSDELQLPPQEECVSWLTFSPIEEHFYQSQHETCVGYA 483 (1071)
Q Consensus 404 ~~~~~~~F~~~~~~p~~~~~~~~~~~L~~~L~~~mlRRtK~dV~~el~LPpk~e~vv~v~lS~~Q~~~Y~~~~~~~~~~~ 483 (1071)
||+...+|.+.+..++... .....+..+++..++|+.|.+|..++.+||+.+.++++.+++.|-++|+..+..|..++
T Consensus 568 Pf~~~~~~iq~v~~~~~~r--a~~~~~~dl~~q~l~R~~k~~v~~el~~ppq~e~~h~~~~sa~~s~v~r~~~~t~v~e~ 645 (1394)
T KOG0298|consen 568 PFCRPQDFIQTVDKAYQLR--AKCEPLLDLFKQLLWRTFKSKVEHELGLPPQTEVVHRLELSAVESHVYREEHFTCVEEF 645 (1394)
T ss_pred CCCChHHHHHHHHHHHHHH--hhhhhHHHHHHhhhhhhhhHHHHHHhCCCchHHHHHHHHhcchhhhhhHHHHhhHHHHH
Confidence 9999999999998877654 45667899999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhhccCCCCCCCCCccCcccchhhHHHHHHHHHHHHHHccCCCCCCCCcccccCCCCCHHHHHHHHHHHH
Q 001475 484 REVIQRLKDNILKRNVPGHASSDALYNPIITHAEAAKLLNSLLKLRQACCHPQVGSSGLRSLQQSPLSMDEILMVLIGKT 563 (1071)
Q Consensus 484 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~il~~L~rLRQiC~HP~L~~~~~~~~~~~~~t~~elL~~Ll~~~ 563 (1071)
...+.+++.+.+..+ .+.+.+++...+.++.+|++|||+||||+++.+++.+..+. +++|+|..|+++.
T Consensus 646 ~~~~~~~k~~~l~~~---------sd~~~l~~~~~a~i~~~l~rLRq~Cchplv~~~~ls~~k~~--s~~DiL~~lle~~ 714 (1394)
T KOG0298|consen 646 AAAVEKLKRHNLDNS---------SDLASLSPQLLAIILKWLLRLRQACCHPLVGNSNLSSTKYL--SIQDILARLLENT 714 (1394)
T ss_pred HHHHHHHHHhccccc---------cccccCChhhHHHHHHHHHHHHHhhcccccccCCcchhcCC--CHHHHHHHHHHhc
Confidence 999888877655211 11233456677899999999999999999999988777555 9999999999999
Q ss_pred HHhhhhhhhhHHHHhhhHhhHHHHHHhHHH----HHHHHHHHHHHHHHHhhcc-CCCCCcCceeEeeCCcCCchhhhhhh
Q 001475 564 KIEGEEALRKLVMALNGLAGIALIEKNLSQ----AVSLYKEAMAVVEEHSEDF-RLDPLLNIHLHHNLTEILPMVANCAT 638 (1071)
Q Consensus 564 ~~e~~~~~rk~l~~sq~~a~L~ii~~~~~~----a~~~y~~~l~~~~~~~~~f-~~D~~~~~~~~~nl~~wnp~~~~QA~ 638 (1071)
..++....|......++.+.+..+.+++.. ....|+..+.+..+...+. -.|.--+.|-.+++. +|.-
T Consensus 715 ed~~~~~~R~~~~~~~~~a~i~~~~n~f~~~~l~i~k~y~~~~nl~~~~~~~~~~~d~d~h~~ei~~~~--~~~~----- 787 (1394)
T KOG0298|consen 715 EDECKTELRTLASSKNGLAAIYFEKNDFPGGILQIIKYYRLKLNLANEPNEQNISVDSDLHIHEIYNLL--QASS----- 787 (1394)
T ss_pred chhhhHHHHHHHHHhhhhHHHHHHHhcCchhHHHHHHHhccccccCCCchhcccccchhhHHHHHhhhh--cccc-----
Confidence 999999999999999999999999998884 4555666655444333321 133333334344443 1110
Q ss_pred hhhhcCCCCceEEEeccccCCccccchhHhhhhccccccCCCCCCCCCCCCCCCccccCCCCCCCCCCcCCCCCCCCchh
Q 001475 639 ELSQNEQHFPGCSEKAFKIHSIETCDENARKCQRVSREENSDFTDAEDPSGHLSDLSENGFNGDRKSDCCVSSSSFDDAS 718 (1071)
Q Consensus 639 R~hRiGQ~~~V~vyrl~t~~tiEE~~~~~~k~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 718 (1071)
+-.-+...+-.++|+.-.+. +...+.. |....++
T Consensus 788 -------------------~~~sd~~~~~~~~~~~~~~~--------------------s~~~~~~--~~d~~~~----- 821 (1394)
T KOG0298|consen 788 -------------------LAPSDRKLTELEHKKYQAQM--------------------SRLEWKY--LEDETRV----- 821 (1394)
T ss_pred -------------------ccchhhhHHHHHHHhhhhhh--------------------ccccchh--hchhhHH-----
Confidence 00001111222222222211 1111111 1111222
Q ss_pred HHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhhhhcccCChHHHHHHHHhhcCCCchHHHHHHHHHHhhccccc
Q 001475 719 LITVCENLKQKYLSGFSVKLSVAQQEFRKSYMQVCNALDDREKQYSAWWLEALHHAEGNKDFSAELIRKIEEAISGSLNK 798 (1071)
Q Consensus 719 l~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~ww~~~l~~~~~~~~~~~~l~~~i~~~~~~~~~~ 798 (1071)
+.--|..++++|++.+..+...++.+|...+.++.+..+.++.....||++.....+.+.++..+|-
T Consensus 822 ~~~~~q~~~~kl~s~~~~~~t~~~~e~~~~~~~~~~v~s~m~~k~~~~v~~~~~lqe~~~~~~~eLr------------- 888 (1394)
T KOG0298|consen 822 LYSLLQDLNEKLESVSILKKTFELEEFDLLATNMVNVKSSMGDKIWNKVRDDRLLQEINVEFLEELR------------- 888 (1394)
T ss_pred HHHHHHHHHHHHHHHHhhhhhhhHHHHHHHhhhhhhhhccccchhHHHHHhhhHHHHHHHHHHHHHH-------------
Confidence 6677889999999999999999999999999999999999999999999999999999888877776
Q ss_pred cccccccccccCcchhHHHHHhHHHHHHHHHHHHHHHHHHHHhhhcCCChHhhhhccccccccCCCCCCcccccccchhH
Q 001475 799 SRALRTASRYRSISGLTYHIQSSLDQLEASRKTLLDRLLEIDQTMEKPKEEDMDRMRHCRICYGVGDGPICVHCELDESF 878 (1071)
Q Consensus 799 ~~~~~~~~~~~~~~gL~~~l~~~l~~L~~~R~~~~~~l~~l~~~~~~p~~~~ve~~~~C~~c~~~~~~~~C~~C~~~~~~ 878 (1071)
.|+.+++.+.+++..|++...+|..+++.+..+++++++.++.+...+..+...|-.|-...-++.|.+|.+|..+
T Consensus 889 ----ai~~~~~~i~i~~l~L~~~~~~l~~s~~e~~~~~~~i~~~Ie~~~~~~~n~~~i~d~~~k~~~~h~~~~~~~d~~~ 964 (1394)
T KOG0298|consen 889 ----AIAFRARFIHIMKLKLQNLKSDLIASFEEVKGVMQEICEAIETGGALVLNRMEIIDFIEKVTVCHLTDIEDYDKDK 964 (1394)
T ss_pred ----HHHhhhhccccchhhhhhhhhhHHHHHHHHHHHHHHHHHHHhhhHHHHHhHHHHHHHHHhccCCCcchHhhccccc
Confidence 2566899999999999999999999999999999999999999999888888888888877778899999999999
Q ss_pred HHHHHhhccccccCCCc---cchHHHHHHHhhhccccccccccCCCCCCCCCCCCchhhhhccccccceeeccCCchHHH
Q 001475 879 QDYEARLFRLKKSQGDI---ASAEEAVDLQKKNSSLNRFYWYLSQPNKNSTSSSVGNEEIKRRDVRETVVVSKSPSELEV 955 (1071)
Q Consensus 879 ~~ye~~LF~~~~~~~~~---~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Se~E~ 955 (1071)
..|+++.|+.+...++- +-++|-+.+|.+..+++-+.-++++ -.-.
T Consensus 965 ~i~~~r~~~~~~~~~~~~~i~~~ce~~~~q~k~~~~~s~~~~l~~-------------------------------~~~~ 1013 (1394)
T KOG0298|consen 965 PIKPKRHRRCRLCLRRKSLILFECELFALQPKEDATVSESLELSS-------------------------------MEKS 1013 (1394)
T ss_pred ccccchhhhhhhhhhhhHHHHHHHHHHhcCccccchhhhhhccch-------------------------------hhhc
Confidence 99999999876543332 5567777777665544443322221 1111
Q ss_pred HHHHHHHH-HHhhhchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHhhhhhhhccccCCCCCcccccCcc
Q 001475 956 ILGVIKNY-CKTQLGREAISASSKQLHILEAMRKEYANARSLATAQAQFLRAHDEIRMATTRLHLKEDDNDTSVDALSPD 1034 (1071)
Q Consensus 956 vLk~i~~~-~k~~~~~~~~~~~~~~l~~le~~rkE~~~~r~l~~a~~~~l~A~DEL~ma~~Rlrlr~~~e~~~~~~i~~~ 1034 (1071)
.-|.|..+ .+.++.+++..+|+.++++|+.|+.++...++||..+.|.+.|+||++|+++||.|++..|..++|.|+.+
T Consensus 1014 ~ekSi~~~~~~~~l~~e~~~~~t~~~~~l~~lqnt~~~~~~~~~~~qq~~~~~~~~~~~~m~l~lkd~~~~~~~y~i~~~ 1093 (1394)
T KOG0298|consen 1014 FEKSIIAFLRKKQLFSEWKEEATPLLELLSCLQNTYKFRIEYWIEVQQMVDALDELEMSKMRLYLKDDEEEQSIYRILAC 1093 (1394)
T ss_pred chhhHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccchhhheeeecCcHHHHHHHHHHHh
Confidence 12334444 45589999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccchhhhhchhhHHHhHHHHHHhhccccccccccc
Q 001475 1035 ELASASVTNSSEKFISMTLLSQVKGKLRYLKVSTE 1069 (1071)
Q Consensus 1035 ev~~~~~~~~~~k~~a~~~l~~~~gql~YL~~~~~ 1069 (1071)
+++.+.+-.+++++++...+..+.|-+|||+||.|
T Consensus 1094 qld~~~~~nt~s~~~~q~~~ls~~G~~r~lk~l~e 1128 (1394)
T KOG0298|consen 1094 QLDEQSQLNTYSLQTSQLSFLSIPGLLRYLKGLKE 1128 (1394)
T ss_pred hHHHHHHHhHHHHHHhhhhhhccchHHHHHHHHHH
Confidence 99999999999999999999999999999999975
No 2
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=100.00 E-value=2.4e-82 Score=729.06 Aligned_cols=367 Identities=23% Similarity=0.339 Sum_probs=309.1
Q ss_pred CCCcEEEEeCchhHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcc
Q 001475 246 ATGATLIVCPAPILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEG 325 (1071)
Q Consensus 246 ~~~~tLIV~P~SLl~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~ 325 (1071)
..||+||+||.|++.||.+||++|+ |++++++|+|.+..+.... .....-..+||+||||+++.++.
T Consensus 216 ~~GPfLVi~P~StL~NW~~Ef~rf~--P~l~~~~~~Gdk~eR~~~~--r~~~~~~~fdV~iTsYEi~i~dk--------- 282 (971)
T KOG0385|consen 216 IPGPFLVIAPKSTLDNWMNEFKRFT--PSLNVVVYHGDKEERAALR--RDIMLPGRFDVCITSYEIAIKDK--------- 282 (971)
T ss_pred CCCCeEEEeeHhhHHHHHHHHHHhC--CCcceEEEeCCHHHHHHHH--HHhhccCCCceEeehHHHHHhhH---------
Confidence 3589999999999999999999999 8999999999976653211 12222348999999999999984
Q ss_pred hhhhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCCCCChhhhhccccccCCCCC
Q 001475 326 DRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQRKLDDLYGLLRFLKSSPF 405 (1071)
Q Consensus 326 ~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPiqN~l~DL~~LL~FL~p~~~ 405 (1071)
+.|..+.|.++|+||||+|||.+|..++.++.+.+.+|++|||||+||++.|||+||+||-|+.|
T Consensus 283 ---------------~~lk~~~W~ylvIDEaHRiKN~~s~L~~~lr~f~~~nrLLlTGTPLQNNL~ELWaLLnFllPdiF 347 (971)
T KOG0385|consen 283 ---------------SFLKKFNWRYLVIDEAHRIKNEKSKLSKILREFKTDNRLLLTGTPLQNNLHELWALLNFLLPDIF 347 (971)
T ss_pred ---------------HHHhcCCceEEEechhhhhcchhhHHHHHHHHhcccceeEeeCCcccccHHHHHHHHHhhchhhc
Confidence 46999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CChhhhHHHhcCCCcCCchhHHHHHHHHHHHHhhhcccccccccCCCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHH
Q 001475 406 SISRWWIEVIRDPYENGDVGAMEFTHKFFKEIMCRSSKVHVSDELQLPPQEECVSWLTFSPIEEHFYQSQHETCVGYARE 485 (1071)
Q Consensus 406 ~~~~~F~~~~~~p~~~~~~~~~~~L~~~L~~~mlRRtK~dV~~el~LPpk~e~vv~v~lS~~Q~~~Y~~~~~~~~~~~~~ 485 (1071)
++...|..+|......++.+.+.+|+.+++||++||.|.+|.. .|||+.+.+++|.||..|+++|..++..-....
T Consensus 348 ~~~e~F~swF~~~~~~~~~e~v~~Lh~vL~pFlLRR~K~dVe~--sLppKkE~~iyvgms~mQkk~Y~~iL~kdl~~~-- 423 (971)
T KOG0385|consen 348 NSAEDFDSWFDFTNCEGDQELVSRLHKVLRPFLLRRIKSDVEK--SLPPKKELIIYVGMSSMQKKWYKAILMKDLDAL-- 423 (971)
T ss_pred cCHHHHHHHHcccccccCHHHHHHHHhhhhHHHHHHHHHhHhh--cCCCcceeeEeccchHHHHHHHHHHHHhcchhh--
Confidence 9999999999988888888899999999999999999999955 499999999999999999999999765422110
Q ss_pred HHHHHHHHHhhccCCCCCCCCCccCcccchhhHHHHHHHHHHHHHHccCCCCCCCCcccccCCCCCHHH----------H
Q 001475 486 VIQRLKDNILKRNVPGHASSDALYNPIITHAEAAKLLNSLLKLRQACCHPQVGSSGLRSLQQSPLSMDE----------I 555 (1071)
Q Consensus 486 ~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~il~~L~rLRQiC~HP~L~~~~~~~~~~~~~t~~e----------l 555 (1071)
. | .. ..+...+++++|+||++||||+|+.+... ..+.+.++ +
T Consensus 424 ---------n-----~---~~--------~~~k~kL~NI~mQLRKccnHPYLF~g~eP---g~pyttdehLv~nSGKm~v 475 (971)
T KOG0385|consen 424 ---------N-----G---EG--------KGEKTKLQNIMMQLRKCCNHPYLFDGAEP---GPPYTTDEHLVTNSGKMLV 475 (971)
T ss_pred ---------c-----c---cc--------cchhhHHHHHHHHHHHhcCCccccCCCCC---CCCCCcchHHHhcCcceeh
Confidence 0 0 00 11357899999999999999999887321 12333333 7
Q ss_pred HHHHHHHHHHhhhhhhhhHHHHhhhHhhHHHHHHhHHHHHHHHHHHHH-----HHHHHhhccCCCCC---cCc------e
Q 001475 556 LMVLIGKTKIEGEEALRKLVMALNGLAGIALIEKNLSQAVSLYKEAMA-----VVEEHSEDFRLDPL---LNI------H 621 (1071)
Q Consensus 556 L~~Ll~~~~~e~~~~~rk~l~~sq~~a~L~ii~~~~~~a~~~y~~~l~-----~~~~~~~~f~~D~~---~~~------~ 621 (1071)
|++|+.+++.+| ++||+|||++.|||||+++.......|-+..+ .+.+.++.|+.++. .++ +
T Consensus 476 LDkLL~~Lk~~G----hRVLIFSQmt~mLDILeDyc~~R~y~ycRiDGSt~~eeR~~aI~~fn~~~s~~FiFlLSTRAGG 551 (971)
T KOG0385|consen 476 LDKLLPKLKEQG----HRVLIFSQMTRMLDILEDYCMLRGYEYCRLDGSTSHEEREDAIEAFNAPPSEKFIFLLSTRAGG 551 (971)
T ss_pred HHHHHHHHHhCC----CeEEEeHHHHHHHHHHHHHHHhcCceeEeecCCCCcHHHHHHHHhcCCCCcceEEEEEeccccc
Confidence 888888888888 99999999999999999988777666644433 55566677877763 222 5
Q ss_pred eEeeCC----------cCCchhhhhhh-hhhhcCCCCceEEEeccccCCccccchhHhhhhccccc
Q 001475 622 LHHNLT----------EILPMVANCAT-ELSQNEQHFPGCSEKAFKIHSIETCDENARKCQRVSRE 676 (1071)
Q Consensus 622 ~~~nl~----------~wnp~~~~QA~-R~hRiGQ~~~V~vyrl~t~~tiEE~~~~~~k~k~~~~~ 676 (1071)
+++||+ ||||++|.||+ |||||||+|+|.||||+|++||||+|++.|-.|.-.+.
T Consensus 552 LGINL~aADtVIlyDSDWNPQ~DLQAmDRaHRIGQ~K~V~V~RLitentVEe~IveRA~~KL~Ld~ 617 (971)
T KOG0385|consen 552 LGINLTAADTVILYDSDWNPQVDLQAMDRAHRIGQKKPVVVYRLITENTVEEKIVERAAAKLRLDK 617 (971)
T ss_pred cccccccccEEEEecCCCCchhhhHHHHHHHhhCCcCceEEEEEeccchHHHHHHHHHHHHhchhh
Confidence 567776 89999999999 99999999999999999999999999999999887764
No 3
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=100.00 E-value=1.1e-75 Score=702.21 Aligned_cols=416 Identities=20% Similarity=0.292 Sum_probs=329.3
Q ss_pred CCCcEEEEeCchhHHHHHHHHHHhcCCCCCeEEEEeCCCCCcccccccc----chhhhcCCcEEEEeHHHHHhhcccCCC
Q 001475 246 ATGATLIVCPAPILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIM----DISELVGADIVLTTYDVLKEDLSHDSD 321 (1071)
Q Consensus 246 ~~~~tLIV~P~SLl~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~----~~~~l~~~dVVItTY~~l~~d~~~~~~ 321 (1071)
..||+|||||.|++.+|++||..|+ .+++++|+|....+....... .....-+++++||||+++.+|..
T Consensus 419 ~~gpflvvvplst~~~W~~ef~~w~---~mn~i~y~g~~~sr~~i~~ye~~~~~~~~~lkf~~lltTye~~LkDk~---- 491 (1373)
T KOG0384|consen 419 IHGPFLVVVPLSTITAWEREFETWT---DMNVIVYHGNLESRQLIRQYEFYHSSNTKKLKFNALLTTYEIVLKDKA---- 491 (1373)
T ss_pred ccCCeEEEeehhhhHHHHHHHHHHh---hhceeeeecchhHHHHHHHHHheecCCccccccceeehhhHHHhccHh----
Confidence 4589999999999999999999999 799999999865432111100 00222469999999999999863
Q ss_pred CCcchhhhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCCCCChhhhhccccccC
Q 001475 322 RHEGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQRKLDDLYGLLRFLK 401 (1071)
Q Consensus 322 ~~~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPiqN~l~DL~~LL~FL~ 401 (1071)
.|..++|..+++||||++||..++++..+..+...||+++||||+||++.|||+|++||.
T Consensus 492 --------------------~L~~i~w~~~~vDeahrLkN~~~~l~~~l~~f~~~~rllitgTPlQNsikEL~sLl~Fl~ 551 (1373)
T KOG0384|consen 492 --------------------ELSKIPWRYLLVDEAHRLKNDESKLYESLNQFKMNHRLLITGTPLQNSLKELWSLLHFLM 551 (1373)
T ss_pred --------------------hhccCCcceeeecHHhhcCchHHHHHHHHHHhcccceeeecCCCccccHHHHHHHhcccC
Confidence 488999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCChhhhHHHhcCCCcCCchhHHHHHHHHHHHHhhhcccccccccCCCCCceEEEEEecCCHHHHHHHHHHHHHHHH
Q 001475 402 SSPFSISRWWIEVIRDPYENGDVGAMEFTHKFFKEIMCRSSKVHVSDELQLPPQEECVSWLTFSPIEEHFYQSQHETCVG 481 (1071)
Q Consensus 402 p~~~~~~~~F~~~~~~p~~~~~~~~~~~L~~~L~~~mlRRtK~dV~~el~LPpk~e~vv~v~lS~~Q~~~Y~~~~~~~~~ 481 (1071)
|+.|.+...|...+ .......+..|+.+|+|+|+||.|+||. ..|||+.|.++.|+||+.|+++|+.++++...
T Consensus 552 P~kf~~~~~f~~~~----~~~~e~~~~~L~~~L~P~~lRr~kkdve--kslp~k~E~IlrVels~lQk~yYk~ILtkN~~ 625 (1373)
T KOG0384|consen 552 PGKFDSWDEFLEEF----DEETEEQVRKLQQILKPFLLRRLKKDVE--KSLPPKEETILRVELSDLQKQYYKAILTKNFS 625 (1373)
T ss_pred CCCCCcHHHHHHhh----cchhHHHHHHHHHHhhHHHHHHHHhhhc--cCCCCCcceEEEeehhHHHHHHHHHHHHhhHH
Confidence 99999999998877 3455667889999999999999999994 55999999999999999999999999987543
Q ss_pred HHHHHHHHHHHHHhhccCCCCCCCCCccCcccchhhHHHHHHHHHHHHHHccCCCCCCCCcccccCCC--CCHHH-----
Q 001475 482 YAREVIQRLKDNILKRNVPGHASSDALYNPIITHAEAAKLLNSLLKLRQACCHPQVGSSGLRSLQQSP--LSMDE----- 554 (1071)
Q Consensus 482 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~il~~L~rLRQiC~HP~L~~~~~~~~~~~~--~t~~e----- 554 (1071)
... + |. .+ +...+|+.+|.||+|||||+|+.+.-....... ...++
T Consensus 626 ~Lt------------K---G~---~g---------~~~~lLNimmELkKccNHpyLi~gaee~~~~~~~~~~~d~~L~~l 678 (1373)
T KOG0384|consen 626 ALT------------K---GA---KG---------STPSLLNIMMELKKCCNHPYLIKGAEEKILGDFRDKMRDEALQAL 678 (1373)
T ss_pred HHh------------c---cC---CC---------CCchHHHHHHHHHHhcCCccccCcHHHHHHHhhhhcchHHHHHHH
Confidence 221 1 11 11 114799999999999999999876543321111 11222
Q ss_pred --------HHHHHHHHHHHhhhhhhhhHHHHhhhHhhHHHHHHhHHHHHHHHHHHHH-----HHHHHhhccCCCC---Cc
Q 001475 555 --------ILMVLIGKTKIEGEEALRKLVMALNGLAGIALIEKNLSQAVSLYKEAMA-----VVEEHSEDFRLDP---LL 618 (1071)
Q Consensus 555 --------lL~~Ll~~~~~e~~~~~rk~l~~sq~~a~L~ii~~~~~~a~~~y~~~l~-----~~~~~~~~f~~D~---~~ 618 (1071)
+|++||.+++..| |+||||||++.||+||.+++......|++..+ +|+..++.|+... |-
T Consensus 679 I~sSGKlVLLDKLL~rLk~~G----HrVLIFSQMVRmLDIL~eYL~~r~ypfQRLDGsvrgelRq~AIDhFnap~SddFv 754 (1373)
T KOG0384|consen 679 IQSSGKLVLLDKLLPRLKEGG----HRVLIFSQMVRMLDILAEYLSLRGYPFQRLDGSVRGELRQQAIDHFNAPDSDDFV 754 (1373)
T ss_pred HHhcCcEEeHHHHHHHHhcCC----ceEEEhHHHHHHHHHHHHHHHHcCCcceeccCCcchHHHHHHHHhccCCCCCceE
Confidence 4556666666655 99999999999999999999999888887665 5666667775533 33
Q ss_pred Cc------eeEeeCC----------cCCchhhhhhh-hhhhcCCCCceEEEeccccCCccccchhHhhhhcccccc----
Q 001475 619 NI------HLHHNLT----------EILPMVANCAT-ELSQNEQHFPGCSEKAFKIHSIETCDENARKCQRVSREE---- 677 (1071)
Q Consensus 619 ~~------~~~~nl~----------~wnp~~~~QA~-R~hRiGQ~~~V~vyrl~t~~tiEE~~~~~~k~k~~~~~~---- 677 (1071)
+| +.++||+ ||||+||.||| |||||||++.|+||||||++||||.|.+.||+|+|++..
T Consensus 755 FLLSTRAGGLGINLatADTVIIFDSDWNPQNDLQAqARaHRIGQkk~VnVYRLVTk~TvEeEilERAk~KmvLD~aVIQ~ 834 (1373)
T KOG0384|consen 755 FLLSTRAGGLGINLATADTVIIFDSDWNPQNDLQAQARAHRIGQKKHVNVYRLVTKNTVEEEILERAKLKMVLDHAVIQR 834 (1373)
T ss_pred EEEecccCcccccccccceEEEeCCCCCcchHHHHHHHHHhhcccceEEEEEEecCCchHHHHHHHHHHHhhhHHHHHHh
Confidence 33 6788888 89999999999 999999999999999999999999999999999998721
Q ss_pred -C-----CCCC--CCCCCCCCCCccccCCCCCCCCCCcCCCCCCCCchhHHHHHHHHHHHh
Q 001475 678 -N-----SDFT--DAEDPSGHLSDLSENGFNGDRKSDCCVSSSSFDDASLITVCENLKQKY 730 (1071)
Q Consensus 678 -~-----~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~y 730 (1071)
+ ++.+ .+++|.+...++.++.+...-. ....+...++++-.+..+.+-
T Consensus 835 m~t~~~~s~~~~f~K~ELsaILKfGA~~lfke~en-----e~s~~~e~DIDeIL~rae~~~ 890 (1373)
T KOG0384|consen 835 MDTKGKTSKSNPFSKEELSAILKFGAYELFKEEEN-----EESKFCEMDIDEILERAETRI 890 (1373)
T ss_pred hccccccCCCCCCCHHHHHHHHHhchHHhhhcccc-----ccccccccCHHHHHhhccccc
Confidence 1 1111 5667778888888888887322 122444455665555554443
No 4
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]
Probab=100.00 E-value=2.5e-75 Score=675.16 Aligned_cols=367 Identities=21% Similarity=0.299 Sum_probs=297.3
Q ss_pred CcEEEEeCchhHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccc--------cccchhhhcCCcEEEEeHHHHHhhcccC
Q 001475 248 GATLIVCPAPILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDT--------SIMDISELVGADIVLTTYDVLKEDLSHD 319 (1071)
Q Consensus 248 ~~tLIV~P~SLl~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~--------~~~~~~~l~~~dVVItTY~~l~~d~~~~ 319 (1071)
+|+|||||++|+.||++|+.+|+ |.++|.+|||......... ............|+||||+.++..-
T Consensus 256 ~paLIVCP~Tii~qW~~E~~~w~--p~~rv~ilh~t~s~~r~~~~~~~~~~~~~L~r~~~~~~~ilitty~~~r~~~--- 330 (923)
T KOG0387|consen 256 KPALIVCPATIIHQWMKEFQTWW--PPFRVFILHGTGSGARYDASHSSHKKDKLLIRKVATDGGILITTYDGFRIQG--- 330 (923)
T ss_pred CceEEEccHHHHHHHHHHHHHhC--cceEEEEEecCCcccccccchhhhhhhhhheeeecccCcEEEEehhhhcccC---
Confidence 89999999999999999999999 7899999999866311000 0111223455679999999998763
Q ss_pred CCCCcchhhhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCCCCChhhhhccccc
Q 001475 320 SDRHEGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQRKLDDLYGLLRF 399 (1071)
Q Consensus 320 ~~~~~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPiqN~l~DL~~LL~F 399 (1071)
..+..+.|++||+||||+|||++|+.+.+++.+++.+|++||||||||++.|||+|++|
T Consensus 331 ---------------------d~l~~~~W~y~ILDEGH~IrNpns~islackki~T~~RiILSGTPiQNnL~ELwsLfDF 389 (923)
T KOG0387|consen 331 ---------------------DDLLGILWDYVILDEGHRIRNPNSKISLACKKIRTVHRIILSGTPIQNNLTELWSLFDF 389 (923)
T ss_pred ---------------------cccccccccEEEecCcccccCCccHHHHHHHhccccceEEeeCccccchHHHHHHHhhh
Confidence 24888999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCCChhhhHHHhcCCCcCCch------------hHHHHHHHHHHHHhhhcccccccccCCCCCceEEEEEecCCHH
Q 001475 400 LKSSPFSISRWWIEVIRDPYENGDV------------GAMEFTHKFFKEIMCRSSKVHVSDELQLPPQEECVSWLTFSPI 467 (1071)
Q Consensus 400 L~p~~~~~~~~F~~~~~~p~~~~~~------------~~~~~L~~~L~~~mlRRtK~dV~~el~LPpk~e~vv~v~lS~~ 467 (1071)
+.|+.+|+...|.+.|..|+..|.. ...-.|+.+++||+|||+|+||.. +.||.|.+.|++|.||+.
T Consensus 390 v~PG~Lgt~~~F~~~f~~pI~~GgyaNAs~~qv~~aykca~~Lr~lI~PylLRR~K~dv~~-~~Lp~K~E~VlfC~LT~~ 468 (923)
T KOG0387|consen 390 VFPGKLGTLPVFQQNFEHPINRGGYANASPRQVQTAYKCAVALRDLISPYLLRRMKSDVKG-LKLPKKEEIVLFCRLTKL 468 (923)
T ss_pred ccCCcccchHHHHhhhhhheeccccCCCCHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhh-ccCCCccceEEEEeccHH
Confidence 9999999999999999999998742 234478999999999999999987 679999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCCccCcccchhhHHHHHHHHHHHHHHccCCCCCCCCcccccC
Q 001475 468 EEHFYQSQHETCVGYAREVIQRLKDNILKRNVPGHASSDALYNPIITHAEAAKLLNSLLKLRQACCHPQVGSSGLRSLQQ 547 (1071)
Q Consensus 468 Q~~~Y~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~il~~L~rLRQiC~HP~L~~~~~~~~~~ 547 (1071)
|+.+|+++++.- + +..+.+ . ...+|..+..||++||||.|..........
T Consensus 469 QR~~Y~~fl~s~--~----v~~i~n----g--------------------~~~~l~Gi~iLrkICnHPdll~~~~~~~~~ 518 (923)
T KOG0387|consen 469 QRRLYQRFLNSS--E----VNKILN----G--------------------KRNCLSGIDILRKICNHPDLLDRRDEDEKQ 518 (923)
T ss_pred HHHHHHHHhhhH--H----HHHHHc----C--------------------CccceechHHHHhhcCCcccccCccccccc
Confidence 999999987631 1 122111 1 124677888999999999998764211111
Q ss_pred CC--------CCHHHHHHHHHHHHHHhhhhhhhhHHHHhhhHhhHHHHHHhHHH-HHHHHHH-----HHHHHHHHhhccC
Q 001475 548 SP--------LSMDEILMVLIGKTKIEGEEALRKLVMALNGLAGIALIEKNLSQ-AVSLYKE-----AMAVVEEHSEDFR 613 (1071)
Q Consensus 548 ~~--------~t~~elL~~Ll~~~~~e~~~~~rk~l~~sq~~a~L~ii~~~~~~-a~~~y~~-----~l~~~~~~~~~f~ 613 (1071)
++ ...-+++..|+..+..+| ++++.|+|...||+||+..+.. ....|.. ....++..+++|+
T Consensus 519 ~~D~~g~~k~sGKm~vl~~ll~~W~kqg----~rvllFsqs~~mLdilE~fL~~~~~ysylRmDGtT~~~~R~~lVd~Fn 594 (923)
T KOG0387|consen 519 GPDYEGDPKRSGKMKVLAKLLKDWKKQG----DRVLLFSQSRQMLDILESFLRRAKGYSYLRMDGTTPAALRQKLVDRFN 594 (923)
T ss_pred CCCcCCChhhcchHHHHHHHHHHHhhCC----CEEEEehhHHHHHHHHHHHHHhcCCceEEEecCCCccchhhHHHHhhc
Confidence 10 112257788888777777 7999999999999999988874 3344433 2347888899999
Q ss_pred CCCCcCc--------eeEeeCC----------cCCchhhhhhh-hhhhcCCCCceEEEeccccCCccccchhHhhhhccc
Q 001475 614 LDPLLNI--------HLHHNLT----------EILPMVANCAT-ELSQNEQHFPGCSEKAFKIHSIETCDENARKCQRVS 674 (1071)
Q Consensus 614 ~D~~~~~--------~~~~nl~----------~wnp~~~~QA~-R~hRiGQ~~~V~vyrl~t~~tiEE~~~~~~k~k~~~ 674 (1071)
.|...++ +.+.||+ ||||..|+||. |||||||||+|.||||+|.|||||+|...|=-|--.
T Consensus 595 e~~s~~VFLLTTrvGGLGlNLTgAnRVIIfDPdWNPStD~QAreRawRiGQkkdV~VYRL~t~gTIEEkiY~rQI~Kq~L 674 (923)
T KOG0387|consen 595 EDESIFVFLLTTRVGGLGLNLTGANRVIIFDPDWNPSTDNQARERAWRIGQKKDVVVYRLMTAGTIEEKIYHRQIFKQFL 674 (923)
T ss_pred CCCceEEEEEEecccccccccccCceEEEECCCCCCccchHHHHHHHhhcCccceEEEEEecCCcHHHHHHHHHHHHHHH
Confidence 8876444 5567776 79999999999 999999999999999999999999998877655444
Q ss_pred c
Q 001475 675 R 675 (1071)
Q Consensus 675 ~ 675 (1071)
.
T Consensus 675 t 675 (923)
T KOG0387|consen 675 T 675 (923)
T ss_pred H
Confidence 4
No 5
>KOG0392 consensus SNF2 family DNA-dependent ATPase domain-containing protein [Transcription]
Probab=100.00 E-value=6.2e-74 Score=682.67 Aligned_cols=373 Identities=23% Similarity=0.330 Sum_probs=304.5
Q ss_pred CcEEEEeCchhHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcchh
Q 001475 248 GATLIVCPAPILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGDR 327 (1071)
Q Consensus 248 ~~tLIV~P~SLl~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~~ 327 (1071)
.|.|||||++|..+|+.|+.+|+ |.|+|..|.|....+. .......+++|+||||+++++|+..
T Consensus 1032 ~PSLIVCPsTLtGHW~~E~~kf~--pfL~v~~yvg~p~~r~-----~lR~q~~~~~iiVtSYDv~RnD~d~--------- 1095 (1549)
T KOG0392|consen 1032 LPSLIVCPSTLTGHWKSEVKKFF--PFLKVLQYVGPPAERR-----ELRDQYKNANIIVTSYDVVRNDVDY--------- 1095 (1549)
T ss_pred CCeEEECCchhhhHHHHHHHHhc--chhhhhhhcCChHHHH-----HHHhhccccceEEeeHHHHHHHHHH---------
Confidence 58999999999999999999999 7899999999876543 2345567789999999999999853
Q ss_pred hhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCCCCChhhhhccccccCCCCCCC
Q 001475 328 RFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQRKLDDLYGLLRFLKSSPFSI 407 (1071)
Q Consensus 328 ~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPiqN~l~DL~~LL~FL~p~~~~~ 407 (1071)
|.++.|.++|+||+|.|||.+|+.+++++.|++.||++||||||||++.|||+|++||.|+++|+
T Consensus 1096 ---------------l~~~~wNYcVLDEGHVikN~ktkl~kavkqL~a~hRLILSGTPIQNnvleLWSLFdFLMPGfLGt 1160 (1549)
T KOG0392|consen 1096 ---------------LIKIDWNYCVLDEGHVIKNSKTKLTKAVKQLRANHRLILSGTPIQNNVLELWSLFDFLMPGFLGT 1160 (1549)
T ss_pred ---------------HHhcccceEEecCcceecchHHHHHHHHHHHhhcceEEeeCCCcccCHHHHHHHHHHhcccccCc
Confidence 88999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhHHHhcCCCcCC------------chhHHHHHHHHHHHHhhhcccccccccCCCCCceEEEEEecCCHHHHHHHHHH
Q 001475 408 SRWWIEVIRDPYENG------------DVGAMEFTHKFFKEIMCRSSKVHVSDELQLPPQEECVSWLTFSPIEEHFYQSQ 475 (1071)
Q Consensus 408 ~~~F~~~~~~p~~~~------------~~~~~~~L~~~L~~~mlRRtK~dV~~el~LPpk~e~vv~v~lS~~Q~~~Y~~~ 475 (1071)
.+.|.++|.+|+... +..+++.||+..=|||+||+|+||+.+ ||||..+..+|+|||.|+++|+.+
T Consensus 1161 EKqFqsrf~kpI~asRd~K~Sske~EaG~lAleaLHKqVLPF~LRRlKedVL~D--LPpKIIQDyyCeLs~lQ~kLY~df 1238 (1549)
T KOG0392|consen 1161 EKQFQSRFGKPILASRDPKSSSKEQEAGVLALEALHKQVLPFLLRRLKEDVLKD--LPPKIIQDYYCELSPLQKKLYRDF 1238 (1549)
T ss_pred HHHHHHHhcchhhhhcCcccchhHHHhhHHHHHHHHHHHHHHHHHHHHHHHHhh--CChhhhhheeeccCHHHHHHHHHH
Confidence 999999999998753 234889999999999999999999887 999999999999999999999988
Q ss_pred HHHHHHHHHHHHHHHHHHHhhccCCCCCCCCCccCcccchhhHHHHHHHHHHHHHHccCCCCCCCCcc----ccc-----
Q 001475 476 HETCVGYAREVIQRLKDNILKRNVPGHASSDALYNPIITHAEAAKLLNSLLKLRQACCHPQVGSSGLR----SLQ----- 546 (1071)
Q Consensus 476 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~il~~L~rLRQiC~HP~L~~~~~~----~~~----- 546 (1071)
.++... ..+...+ |+..+ ..+ ..++|++.|.-||++|+||.|+-.... ...
T Consensus 1239 ~~~~k~----~~~~~~d--------~~~~S------~gt--~~~HvFqaLqYlrKLcnHpaLvlt~~hp~la~i~~~l~~ 1298 (1549)
T KOG0392|consen 1239 VKKAKQ----CVSSQID--------GGEES------LGT--DKTHVFQALQYLRKLCNHPALVLTPVHPDLAAIVSHLAH 1298 (1549)
T ss_pred HHHhcc----ccccccc--------cchhc------cCc--chHHHHHHHHHHHHhcCCcceeeCCCcchHHHHHHHHHH
Confidence 665111 1111000 11111 111 267999999999999999999755311 100
Q ss_pred -CCCC------CHHHHHHHHHHHHHHhhh----------hhhhhHHHHhhhHhhHHHHHHhHHHHHHH---HHHHH----
Q 001475 547 -QSPL------SMDEILMVLIGKTKIEGE----------EALRKLVMALNGLAGIALIEKNLSQAVSL---YKEAM---- 602 (1071)
Q Consensus 547 -~~~~------t~~elL~~Ll~~~~~e~~----------~~~rk~l~~sq~~a~L~ii~~~~~~a~~~---y~~~l---- 602 (1071)
.+.+ ..-..|..|+..|...-. -.+|++|||+|+..||+++++++-++... |-+..
T Consensus 1299 ~~~~LHdi~hspKl~AL~qLL~eCGig~~~~~~~g~~s~vsqHRiLIFcQlK~mlDlVekDL~k~~mpsVtymRLDGSVp 1378 (1549)
T KOG0392|consen 1299 FNSSLHDIQHSPKLSALKQLLSECGIGNNSDSEVGTPSDVSQHRILIFCQLKSMLDLVEKDLFKKYMPSVTYMRLDGSVP 1378 (1549)
T ss_pred hhhhHHHhhhchhHHHHHHHHHHhCCCCCCcccccCcchhccceeEEeeeHHHHHHHHHHHHhhhhcCceeEEEecCCCC
Confidence 0000 111345666665554311 26899999999999999999998776321 32322
Q ss_pred -HHHHHHhhccCCCCCcCc--------eeEeeCC----------cCCchhhhhhh-hhhhcCCCCceEEEeccccCCccc
Q 001475 603 -AVVEEHSEDFRLDPLLNI--------HLHHNLT----------EILPMVANCAT-ELSQNEQHFPGCSEKAFKIHSIET 662 (1071)
Q Consensus 603 -~~~~~~~~~f~~D~~~~~--------~~~~nl~----------~wnp~~~~QA~-R~hRiGQ~~~V~vyrl~t~~tiEE 662 (1071)
+.|.+.+++|+.||-..+ +.+.||+ ||||++|.||+ |||||||||.|+||||||+||+||
T Consensus 1379 p~~R~kiV~~FN~DptIDvLlLTThVGGLGLNLTGADTVVFvEHDWNPMrDLQAMDRAHRIGQKrvVNVyRlItrGTLEE 1458 (1549)
T KOG0392|consen 1379 PGDRQKIVERFNEDPTIDVLLLTTHVGGLGLNLTGADTVVFVEHDWNPMRDLQAMDRAHRIGQKRVVNVYRLITRGTLEE 1458 (1549)
T ss_pred cHHHHHHHHHhcCCCceeEEEEeeeccccccccCCCceEEEEecCCCchhhHHHHHHHHhhcCceeeeeeeehhcccHHH
Confidence 278899999999986433 5589998 99999999999 999999999999999999999999
Q ss_pred cchhHhhhhcc
Q 001475 663 CDENARKCQRV 673 (1071)
Q Consensus 663 ~~~~~~k~k~~ 673 (1071)
+|+.+||=|+=
T Consensus 1459 KVMgLQkFKmn 1469 (1549)
T KOG0392|consen 1459 KVMGLQKFKMN 1469 (1549)
T ss_pred HHhhHHHHhhH
Confidence 99999998874
No 6
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=100.00 E-value=1e-71 Score=644.08 Aligned_cols=375 Identities=21% Similarity=0.273 Sum_probs=294.9
Q ss_pred CCcEEEEeCchhHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 247 TGATLIVCPAPILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 247 ~~~tLIV~P~SLl~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
.||.|||||+|+++||.+||.+|| |+|+|..|+|+..+|...+.... ..-..|||++|||..+.... .+
T Consensus 448 ~gpHLVVvPsSTleNWlrEf~kwC--Psl~Ve~YyGSq~ER~~lR~~i~-~~~~~ydVllTTY~la~~~k--------dD 516 (941)
T KOG0389|consen 448 PGPHLVVVPSSTLENWLREFAKWC--PSLKVEPYYGSQDERRELRERIK-KNKDDYDVLLTTYNLAASSK--------DD 516 (941)
T ss_pred CCCcEEEecchhHHHHHHHHHHhC--CceEEEeccCcHHHHHHHHHHHh-ccCCCccEEEEEeecccCCh--------HH
Confidence 489999999999999999999999 89999999999766533222222 22238999999999877532 12
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCCCCChhhhhccccccCCCCCC
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQRKLDDLYGLLRFLKSSPFS 406 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPiqN~l~DL~~LL~FL~p~~~~ 406 (1071)
| +.|....|++||.||||++||..|.+++.+..++|.+|++|||||+||++.||++||.|+.|..|.
T Consensus 517 R-------------sflk~~~~n~viyDEgHmLKN~~SeRy~~LM~I~An~RlLLTGTPLQNNL~ELiSLL~FvlP~vF~ 583 (941)
T KOG0389|consen 517 R-------------SFLKNQKFNYVIYDEGHMLKNRTSERYKHLMSINANFRLLLTGTPLQNNLKELISLLAFVLPKVFD 583 (941)
T ss_pred H-------------HHHHhccccEEEecchhhhhccchHHHHHhccccccceEEeeCCcccccHHHHHHHHHHHhhHhhh
Confidence 2 457788999999999999999999999999999999999999999999999999999999999998
Q ss_pred Ch-hhhHHHhcCCCc-CCc-------hhHHHHHHHHHHHHhhhcccccccccCCCCCceEEEEEecCCHHHHHHHHHHHH
Q 001475 407 IS-RWWIEVIRDPYE-NGD-------VGAMEFTHKFFKEIMCRSSKVHVSDELQLPPQEECVSWLTFSPIEEHFYQSQHE 477 (1071)
Q Consensus 407 ~~-~~F~~~~~~p~~-~~~-------~~~~~~L~~~L~~~mlRRtK~dV~~el~LPpk~e~vv~v~lS~~Q~~~Y~~~~~ 477 (1071)
+. ..+...|...-. .++ .+.+.+.+.+|+||+|||.|.+|+++ ||||+.++.+|+|++.|+.+|+.+.+
T Consensus 584 ~~~~dl~~if~~k~~~d~d~e~~~l~qerIsrAK~im~PFILRR~K~qVL~~--LPpK~~~Ie~c~mse~Q~~~Y~~~~~ 661 (941)
T KOG0389|consen 584 SSMEDLDVIFKAKKTSDGDIENALLSQERISRAKTIMKPFILRRLKSQVLKQ--LPPKIQRIEYCEMSEKQKQLYDELIE 661 (941)
T ss_pred ccchHHHHHHhccCCccchhhHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh--cCCccceeEeeecchHHHHHHHHHHH
Confidence 54 444444442111 121 33677888999999999999999887 99999999999999999999998766
Q ss_pred HHHHHHHHHHHHHHHHHhhccCCCCCCCCCccCcccchhhHHHHHHHHHHHHHHccCCCCCCCCccc-----c-------
Q 001475 478 TCVGYAREVIQRLKDNILKRNVPGHASSDALYNPIITHAEAAKLLNSLLKLRQACCHPQVGSSGLRS-----L------- 545 (1071)
Q Consensus 478 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~il~~L~rLRQiC~HP~L~~~~~~~-----~------- 545 (1071)
... ....+ ...++ . ... -+.||+||+++|||.|...-... +
T Consensus 662 ~~~-----------~~~~~------~~~ns--~-------~~~-~~vlmqlRK~AnHPLL~R~~Y~de~L~~mak~il~e 714 (941)
T KOG0389|consen 662 LYD-----------VKLNE------VSKNS--E-------LKS-GNVLMQLRKAANHPLLFRSIYTDEKLRKMAKRILNE 714 (941)
T ss_pred HHh-----------hhccc------ccccc--c-------ccc-chHHHHHHHHhcChhHHHHhccHHHHHHHHHHHhCc
Confidence 430 00000 01110 0 001 46899999999999985432211 0
Q ss_pred ---------------------------------cCCCCC----H----HHHHHHHHHHHHHhhhhhhhhHHHHhhhHhhH
Q 001475 546 ---------------------------------QQSPLS----M----DEILMVLIGKTKIEGEEALRKLVMALNGLAGI 584 (1071)
Q Consensus 546 ---------------------------------~~~~~t----~----~elL~~Ll~~~~~e~~~~~rk~l~~sq~~a~L 584 (1071)
..-.+. | -..|..|+.+++.+| ++||+||||+.||
T Consensus 715 ~ay~~~n~qyIfEDm~~msDfelHqLc~~f~~~~~f~L~d~~~mdSgK~r~L~~LLp~~k~~G----~RVLiFSQFTqmL 790 (941)
T KOG0389|consen 715 PAYKKANEQYIFEDMEVMSDFELHQLCCQFRHLSKFQLKDDLWMDSGKCRKLKELLPKIKKKG----DRVLIFSQFTQML 790 (941)
T ss_pred hhhhhcCHHHHHHHHHhhhHHHHHHHHHhcCCCcccccCCchhhhhhhHhHHHHHHHHHhhcC----CEEEEeeHHHHHH
Confidence 000000 0 125678888888887 8999999999999
Q ss_pred HHHHHhHHHHHHHHHHHHH-----HHHHHhhccCCCCCcCc--------eeEeeCC----------cCCchhhhhhh-hh
Q 001475 585 ALIEKNLSQAVSLYKEAMA-----VVEEHSEDFRLDPLLNI--------HLHHNLT----------EILPMVANCAT-EL 640 (1071)
Q Consensus 585 ~ii~~~~~~a~~~y~~~l~-----~~~~~~~~f~~D~~~~~--------~~~~nl~----------~wnp~~~~QA~-R~ 640 (1071)
+|++-.+......|.+..+ .|+..+++|..|...++ +.++||+ ++||.+|.||. ||
T Consensus 791 DILE~~L~~l~~~ylRLDGsTqV~~RQ~lId~Fn~d~difVFLLSTKAGG~GINLt~An~VIihD~dFNP~dD~QAEDRc 870 (941)
T KOG0389|consen 791 DILEVVLDTLGYKYLRLDGSTQVNDRQDLIDEFNTDKDIFVFLLSTKAGGFGINLTCANTVIIHDIDFNPYDDKQAEDRC 870 (941)
T ss_pred HHHHHHHHhcCceEEeecCCccchHHHHHHHhhccCCceEEEEEeeccCcceecccccceEEEeecCCCCcccchhHHHH
Confidence 9999999888777766554 77889999998875443 4456665 69999999999 99
Q ss_pred hhcCCCCceEEEeccccCCccccchhHhhhhccccccC
Q 001475 641 SQNEQHFPGCSEKAFKIHSIETCDENARKCQRVSREEN 678 (1071)
Q Consensus 641 hRiGQ~~~V~vyrl~t~~tiEE~~~~~~k~k~~~~~~~ 678 (1071)
||+||+|+|+||||||++||||.|+.++|+|...+..-
T Consensus 871 HRvGQtkpVtV~rLItk~TIEE~I~~lA~~KL~Le~~l 908 (941)
T KOG0389|consen 871 HRVGQTKPVTVYRLITKSTIEEGILRLAKTKLALEADL 908 (941)
T ss_pred HhhCCcceeEEEEEEecCcHHHHHHHHHHHhhhhhhhh
Confidence 99999999999999999999999999999999998753
No 7
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=100.00 E-value=4.4e-70 Score=679.64 Aligned_cols=366 Identities=20% Similarity=0.253 Sum_probs=293.0
Q ss_pred CCcEEEEeCchhHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 247 TGATLIVCPAPILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 247 ~~~tLIV~P~SLl~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
.+|+|||||+|++.||.+||.+|+ |.+++++|+|....+.... ........+|||||||+++.++.
T Consensus 219 ~gp~LIVvP~SlL~nW~~Ei~kw~--p~l~v~~~~G~~~eR~~~~--~~~~~~~~~dVvITSYe~l~~e~---------- 284 (1033)
T PLN03142 219 TGPHMVVAPKSTLGNWMNEIRRFC--PVLRAVKFHGNPEERAHQR--EELLVAGKFDVCVTSFEMAIKEK---------- 284 (1033)
T ss_pred CCCEEEEeChHHHHHHHHHHHHHC--CCCceEEEeCCHHHHHHHH--HHHhcccCCCcceecHHHHHHHH----------
Confidence 479999999999999999999999 7899999999865431100 01112357999999999998864
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCCCCChhhhhccccccCCCCCC
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQRKLDDLYGLLRFLKSSPFS 406 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPiqN~l~DL~~LL~FL~p~~~~ 406 (1071)
..|..+.|++||+||||+|||+.|+++++++.+.+.+||+|||||++|++.|||+||+||.|+.|+
T Consensus 285 --------------~~L~k~~W~~VIvDEAHrIKN~~Sklskalr~L~a~~RLLLTGTPlqNnl~ELwsLL~FL~P~~f~ 350 (1033)
T PLN03142 285 --------------TALKRFSWRYIIIDEAHRIKNENSLLSKTMRLFSTNYRLLITGTPLQNNLHELWALLNFLLPEIFS 350 (1033)
T ss_pred --------------HHhccCCCCEEEEcCccccCCHHHHHHHHHHHhhcCcEEEEecCCCCCCHHHHHHHHhcCCCCcCC
Confidence 247788999999999999999999999999999999999999999999999999999999999999
Q ss_pred ChhhhHHHhcCCCcCCchhHHHHHHHHHHHHhhhcccccccccCCCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHH
Q 001475 407 ISRWWIEVIRDPYENGDVGAMEFTHKFFKEIMCRSSKVHVSDELQLPPQEECVSWLTFSPIEEHFYQSQHETCVGYAREV 486 (1071)
Q Consensus 407 ~~~~F~~~~~~p~~~~~~~~~~~L~~~L~~~mlRRtK~dV~~el~LPpk~e~vv~v~lS~~Q~~~Y~~~~~~~~~~~~~~ 486 (1071)
+...|...|..+...+....+..|+.+++|||+||+|++|... |||+.+.+++|.||+.|+++|+.++......+
T Consensus 351 s~~~F~~~f~~~~~~~~~e~i~~L~~~L~pf~LRR~KsdV~~~--LPpK~e~iv~v~LS~~Qk~lY~~ll~k~~~~l--- 425 (1033)
T PLN03142 351 SAETFDEWFQISGENDQQEVVQQLHKVLRPFLLRRLKSDVEKG--LPPKKETILKVGMSQMQKQYYKALLQKDLDVV--- 425 (1033)
T ss_pred CHHHHHHHHccccccchHHHHHHHHHHhhHHHhhhhHHHHhhh--CCCceeEEEeeCCCHHHHHHHHHHHHHHHHHH---
Confidence 9999999998766556667889999999999999999999655 99999999999999999999998876432211
Q ss_pred HHHHHHHHhhccCCCCCCCCCccCcccchhhHHHHHHHHHHHHHHccCCCCCCCCcccccC-------CCCCHHHHHHHH
Q 001475 487 IQRLKDNILKRNVPGHASSDALYNPIITHAEAAKLLNSLLKLRQACCHPQVGSSGLRSLQQ-------SPLSMDEILMVL 559 (1071)
Q Consensus 487 ~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~il~~L~rLRQiC~HP~L~~~~~~~~~~-------~~~t~~elL~~L 559 (1071)
. . | .....+++.+++||++||||+|+.+....... .....-.+|+.|
T Consensus 426 -~--------~---g--------------~~~~~LlnilmqLRk~cnHP~L~~~~ep~~~~~~~e~lie~SgKl~lLdkL 479 (1033)
T PLN03142 426 -N--------A---G--------------GERKRLLNIAMQLRKCCNHPYLFQGAEPGPPYTTGEHLVENSGKMVLLDKL 479 (1033)
T ss_pred -h--------c---c--------------ccHHHHHHHHHHHHHHhCCHHhhhcccccCcccchhHHhhhhhHHHHHHHH
Confidence 0 0 0 11346899999999999999997654221100 001122466777
Q ss_pred HHHHHHhhhhhhhhHHHHhhhHhhHHHHHHhHHHHHHHHH---H--HHHHHHHHhhccCCCCCc---Cc-----------
Q 001475 560 IGKTKIEGEEALRKLVMALNGLAGIALIEKNLSQAVSLYK---E--AMAVVEEHSEDFRLDPLL---NI----------- 620 (1071)
Q Consensus 560 l~~~~~e~~~~~rk~l~~sq~~a~L~ii~~~~~~a~~~y~---~--~l~~~~~~~~~f~~D~~~---~~----------- 620 (1071)
+.+++..+ +++|||||++.+|++|++.+......|. + ....+++.++.|+.+... .|
T Consensus 480 L~~Lk~~g----~KVLIFSQft~~LdiLed~L~~~g~~y~rIdGsts~~eRq~~Id~Fn~~~s~~~VfLLSTrAGGlGIN 555 (1033)
T PLN03142 480 LPKLKERD----SRVLIFSQMTRLLDILEDYLMYRGYQYCRIDGNTGGEDRDASIDAFNKPGSEKFVFLLSTRAGGLGIN 555 (1033)
T ss_pred HHHHHhcC----CeEEeehhHHHHHHHHHHHHHHcCCcEEEECCCCCHHHHHHHHHHhccccCCceEEEEeccccccCCc
Confidence 77766555 8999999999999999988765543332 2 223677778888654321 11
Q ss_pred ------eeEeeCCcCCchhhhhhh-hhhhcCCCCceEEEeccccCCccccchhHhhhhccccc
Q 001475 621 ------HLHHNLTEILPMVANCAT-ELSQNEQHFPGCSEKAFKIHSIETCDENARKCQRVSRE 676 (1071)
Q Consensus 621 ------~~~~nl~~wnp~~~~QA~-R~hRiGQ~~~V~vyrl~t~~tiEE~~~~~~k~k~~~~~ 676 (1071)
+|+|++ +|||+++.||+ |||||||+++|.||||+++|||||+|.+.+.+|.....
T Consensus 556 Lt~Ad~VIiyD~-dWNP~~d~QAidRaHRIGQkk~V~VyRLIt~gTIEEkIlera~~Kl~Ld~ 617 (1033)
T PLN03142 556 LATADIVILYDS-DWNPQVDLQAQDRAHRIGQKKEVQVFRFCTEYTIEEKVIERAYKKLALDA 617 (1033)
T ss_pred hhhCCEEEEeCC-CCChHHHHHHHHHhhhcCCCceEEEEEEEeCCcHHHHHHHHHHHHHHHHH
Confidence 334444 59999999999 99999999999999999999999999999998887653
No 8
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=100.00 E-value=6e-68 Score=583.39 Aligned_cols=393 Identities=28% Similarity=0.376 Sum_probs=299.9
Q ss_pred CcEEEEeCchhHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcchh
Q 001475 248 GATLIVCPAPILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGDR 327 (1071)
Q Consensus 248 ~~tLIV~P~SLl~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~~ 327 (1071)
.|||||||.-.+.||.+||.+|+. +++++++|||.++. ....++..||+|+|||.++.+.+..- +.
T Consensus 232 a~tLVvaP~VAlmQW~nEI~~~T~-gslkv~~YhG~~R~-------~nikel~~YDvVLTty~vvEs~yRk~------~~ 297 (791)
T KOG1002|consen 232 APTLVVAPTVALMQWKNEIERHTS-GSLKVYIYHGAKRD-------KNIKELMNYDVVLTTYAVVESVYRKQ------DY 297 (791)
T ss_pred CCeeEEccHHHHHHHHHHHHHhcc-CceEEEEEeccccc-------CCHHHhhcCcEEEEecHHHHHHHHhc------cc
Confidence 579999999999999999999997 89999999999764 36788999999999999998876431 11
Q ss_pred hhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCCCCChhhhhccccccCCCCCCC
Q 001475 328 RFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQRKLDDLYGLLRFLKSSPFSI 407 (1071)
Q Consensus 328 ~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPiqN~l~DL~~LL~FL~p~~~~~ 407 (1071)
.+.+. .....-+++|+.+.|.||||||||.||+..|.+++++..|.+.+||||||||+||++.|||+|++||+..||..
T Consensus 298 GfrrK-ngv~ke~SlLHsi~~~RiIlDEAH~IK~R~snTArAV~~L~tt~rw~LSGTPLQNrigElySLiRFL~i~Pfsy 376 (791)
T KOG1002|consen 298 GFRRK-NGVDKEKSLLHSIKFYRIILDEAHNIKDRQSNTARAVFALETTYRWCLSGTPLQNRIGELYSLIRFLNINPFSY 376 (791)
T ss_pred ccccc-CCcccccchhhhceeeeeehhhhcccccccccHHHHHHhhHhhhhhhccCCcchhhHHHHHHHHHHHccCcchh
Confidence 11111 11123358899999999999999999999999999999999999999999999999999999999999999864
Q ss_pred h-------------------------------hhhHHHhcCCCcCC-----chhHHHHHHHHHHHHhhhcccccccccCC
Q 001475 408 S-------------------------------RWWIEVIRDPYENG-----DVGAMEFTHKFFKEIMCRSSKVHVSDELQ 451 (1071)
Q Consensus 408 ~-------------------------------~~F~~~~~~p~~~~-----~~~~~~~L~~~L~~~mlRRtK~dV~~el~ 451 (1071)
+ -+|......|+.+- +..+....+.+++.+|+||||-.-++++.
T Consensus 377 yfc~~cdc~~~~~~ftdr~~c~~c~h~~m~h~~~~n~~mlk~IqkfG~eGpGk~af~~~h~llk~ImlrrTkl~RAdDLg 456 (791)
T KOG1002|consen 377 YFCTKCDCASLDWKFTDRMHCDHCSHNIMQHTCFFNHFMLKPIQKFGVEGPGKEAFNNIHTLLKNIMLRRTKLERADDLG 456 (791)
T ss_pred hhhhhccccccceeecccccCCcccchhhhhhhhhcccccccchhhcccCchHHHHHHHHHHHHHHHHHHhhcccccccC
Confidence 3 14455555666552 23355577899999999999999999999
Q ss_pred CCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCCccCcccchhhHHHHHHHHHHHHHH
Q 001475 452 LPPQEECVSWLTFSPIEEHFYQSQHETCVGYAREVIQRLKDNILKRNVPGHASSDALYNPIITHAEAAKLLNSLLKLRQA 531 (1071)
Q Consensus 452 LPpk~e~vv~v~lS~~Q~~~Y~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~il~~L~rLRQi 531 (1071)
|||+...+..=-|+.+|..+|+.+....... ++.+... |.+ -.++++|+.+|+||||+
T Consensus 457 LPPRiv~vRrD~fn~eE~D~YeSLY~dSkrk----fntyiee-------Gvv-----------lNNYAnIF~LitRmRQ~ 514 (791)
T KOG1002|consen 457 LPPRIVTVRRDFFNEEEKDLYESLYKDSKRK----FNTYIEE-------GVV-----------LNNYANIFTLITRMRQA 514 (791)
T ss_pred CCccceeeehhhhhhHHHHHHHHHHHhhHHh----hhhHHhh-------hhh-----------hhhHHHHHHHHHHHHHh
Confidence 9999999999999999999999987654322 2222210 111 13578999999999999
Q ss_pred ccCCCCCCCCc----ccccC------------------C------------------------------CC---------
Q 001475 532 CCHPQVGSSGL----RSLQQ------------------S------------------------------PL--------- 550 (1071)
Q Consensus 532 C~HP~L~~~~~----~~~~~------------------~------------------------------~~--------- 550 (1071)
..||+|+.... ...++ + ++
T Consensus 515 aDHP~LVl~S~~~n~~~enk~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDlse~al 594 (791)
T KOG1002|consen 515 ADHPDLVLYSANANLPDENKGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLSEPAL 594 (791)
T ss_pred ccCcceeeehhhcCCCccccCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccccchhh
Confidence 99999854311 00000 0 00
Q ss_pred -----------------CHHH-----HHHHHHHHHHHhhhh-hhhhHHHHhhhHhhHHHHHHhHHHHHHH---HHHHH--
Q 001475 551 -----------------SMDE-----ILMVLIGKTKIEGEE-ALRKLVMALNGLAGIALIEKNLSQAVSL---YKEAM-- 602 (1071)
Q Consensus 551 -----------------t~~e-----lL~~Ll~~~~~e~~~-~~rk~l~~sq~~a~L~ii~~~~~~a~~~---y~~~l-- 602 (1071)
.|++ -++.|++++.--.+. ---|.++||||+.||++|.-.+..+... +.+.+
T Consensus 595 ek~~l~~Fk~sSIlnRinm~~~qsSTKIEAL~EEl~~l~~rd~t~KsIVFSQFTSmLDLi~~rL~kaGfscVkL~GsMs~ 674 (791)
T KOG1002|consen 595 EKTDLKGFKASSILNRINMDDWQSSTKIEALVEELYFLRERDRTAKSIVFSQFTSMLDLIEWRLGKAGFSCVKLVGSMSP 674 (791)
T ss_pred hhcchhhhhhHHHhhhcchhhhcchhHHHHHHHHHHHHHHcccchhhhhHHHHHHHHHHHHHHhhccCceEEEeccCCCh
Confidence 0110 123333333222111 1237889999999999999988887553 23333
Q ss_pred HHHHHHhhccCCCCCcCc--------eeEeeCC----------cCCchhhhhhh-hhhhcCCCCceEEEeccccCCcccc
Q 001475 603 AVVEEHSEDFRLDPLLNI--------HLHHNLT----------EILPMVANCAT-ELSQNEQHFPGCSEKAFKIHSIETC 663 (1071)
Q Consensus 603 ~~~~~~~~~f~~D~~~~~--------~~~~nl~----------~wnp~~~~QA~-R~hRiGQ~~~V~vyrl~t~~tiEE~ 663 (1071)
..+.+.+..|..|+.-.+ ++-.||+ ||||+++-||+ |.|||||.|||.|.||+-++||||+
T Consensus 675 ~ardatik~F~nd~~c~vfLvSLkAGGVALNLteASqVFmmDPWWNpaVe~Qa~DRiHRIGQ~rPvkvvrf~iEnsiE~k 754 (791)
T KOG1002|consen 675 AARDATIKYFKNDIDCRVFLVSLKAGGVALNLTEASQVFMMDPWWNPAVEWQAQDRIHRIGQYRPVKVVRFCIENSIEEK 754 (791)
T ss_pred HHHHHHHHHhccCCCeEEEEEEeccCceEeeechhceeEeecccccHHHHhhhhhhHHhhcCccceeEEEeehhccHHHH
Confidence 366777788888875333 5666766 89999999999 9999999999999999999999999
Q ss_pred chhHhhhhcccccc
Q 001475 664 DENARKCQRVSREE 677 (1071)
Q Consensus 664 ~~~~~k~k~~~~~~ 677 (1071)
|.++||+|.-.-.+
T Consensus 755 IieLQeKKa~miha 768 (791)
T KOG1002|consen 755 IIELQEKKANMIHA 768 (791)
T ss_pred HHHHHHHHhhhhhh
Confidence 99999998765543
No 9
>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=100.00 E-value=9.4e-68 Score=603.54 Aligned_cols=486 Identities=25% Similarity=0.370 Sum_probs=352.9
Q ss_pred HHhhhhhcCCCCCCCCCccCCCCCcCCCChHHHHHHHHHHHHhhhCCCCCCchhhhccccCCCcccccccCCCcceeeec
Q 001475 11 VLMWQGFMKPLSDQKPMLEEDLPDLLPLLRPYQRRAAYWMVQREKGDSASSSERERSQFFSPLCMPMDFLDTYSTLFYNP 90 (1071)
Q Consensus 11 ~~~~~~~~~p~~~~~~~~~~~~p~L~~~LrpyQ~~av~WMl~rE~~~~~~~~~~~~~~~~~plw~~~~~~~~~~~~y~n~ 90 (1071)
+.+|-+++.-.| .+..+..+|.+++..|.|||+.|+.||+-||..+.
T Consensus 299 ~~ql~~~~e~~P-~et~lte~P~g~~v~LmpHQkaal~Wl~wRE~q~~-------------------------------- 345 (901)
T KOG4439|consen 299 TQQLADATETIP-GETDLTETPDGLKVELMPHQKAALRWLLWRESQPP-------------------------------- 345 (901)
T ss_pred HHHHHHHhhcCC-CcccccCCCCcceeecchhhhhhhhhhcccccCCC--------------------------------
Confidence 344555544422 23455667888999999999999999998887764
Q ss_pred cCCcccCCCCCCCCCccCceeecCCCCCHHHHHHHHHHHccCCCCCCccccccccccchhhhhHHHHhhhhhhhhhcccc
Q 001475 91 FSGSLSLSPDYTSSYVFGGILADEMGLGKTVELLACIFAHRKPASDDSIFIDTAVQVTDDQKVNLRRLKRERVECICGAV 170 (1071)
Q Consensus 91 ~tg~~~~~~~~~~~~~rGGILADEMGLGKTvq~LalIl~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~v~c~c~~~ 170 (1071)
+|||||||||||||+.+|++|+.-.....
T Consensus 346 ----------------~GGILaddmGLGKTlsmislil~qK~~~~----------------------------------- 374 (901)
T KOG4439|consen 346 ----------------SGGILADDMGLGKTLSMISLILHQKAARK----------------------------------- 374 (901)
T ss_pred ----------------CCcccccccccccchHHHHHHHHHHHHHH-----------------------------------
Confidence 49999999999999999999985311000
Q ss_pred cccccccccccccccccccccccccccCCCCCCccchhhhhhhccccccccccccCCccccchhhhhhhccCCCCCCCcE
Q 001475 171 SESRKYKGLWVQCDICDAWQHADCVGYSPRGKKRRSTFELKKHTRKKDMTNIVVRDGEHICQWCDELIEATDSPVATGAT 250 (1071)
Q Consensus 171 ~~~~~~~g~~v~c~~c~~w~h~~cv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~c~~~~~~~~~~~~~~~t 250 (1071)
. .++.+ ....+|
T Consensus 375 ---------------------~--------------------------------~~~~~---------------~~a~~T 386 (901)
T KOG4439|consen 375 ---------------------A--------------------------------REKKG---------------ESASKT 386 (901)
T ss_pred ---------------------h--------------------------------hcccc---------------cccCCe
Confidence 0 00000 011269
Q ss_pred EEEeCchhHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcchhhhh
Q 001475 251 LIVCPAPILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGDRRFM 330 (1071)
Q Consensus 251 LIV~P~SLl~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~~~~~ 330 (1071)
|||||+||+.||..||++-+....|+|++|||.++ +.+.+..+..||||||||..+.+....-.
T Consensus 387 LII~PaSli~qW~~Ev~~rl~~n~LsV~~~HG~n~------r~i~~~~L~~YDvViTTY~lva~~~~~e~---------- 450 (901)
T KOG4439|consen 387 LIICPASLIHQWEAEVARRLEQNALSVYLYHGPNK------REISAKELRKYDVVITTYNLVANKPDDEL---------- 450 (901)
T ss_pred EEeCcHHHHHHHHHHHHHHHhhcceEEEEecCCcc------ccCCHHHHhhcceEEEeeeccccCCchhh----------
Confidence 99999999999999999999878899999999975 24577889999999999999887211000
Q ss_pred hhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCCCCChhhhhccccccCCCCCCChhh
Q 001475 331 RFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQRKLDDLYGLLRFLKSSPFSISRW 410 (1071)
Q Consensus 331 r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPiqN~l~DL~~LL~FL~p~~~~~~~~ 410 (1071)
+. ....++|..+.|.||||||||.|||+.|+.+.+++.|.+.+|||||||||||++-|+|+|+.||+..||++...
T Consensus 451 ---~~-~~~~spL~~I~W~RVILDEAH~IrN~~tq~S~AVC~L~a~~RWclTGTPiqNn~~DvysLlrFLr~~pF~D~~~ 526 (901)
T KOG4439|consen 451 ---EE-GKNSSPLARIAWSRVILDEAHNIRNSNTQCSKAVCKLSAKSRWCLTGTPIQNNLWDVYSLLRFLRCPPFGDLKQ 526 (901)
T ss_pred ---hc-ccCccHHHHhhHHHhhhhhhhhhcccchhHHHHHHHHhhcceeecccCccccchhHHHHHHHHhcCCCcchHHH
Confidence 00 11237899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHhcCCCcCCchhHHHHHHHHHHHHhhhcccccccc---cCCCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHH
Q 001475 411 WIEVIRDPYENGDVGAMEFTHKFFKEIMCRSSKVHVSD---ELQLPPQEECVSWLTFSPIEEHFYQSQHETCVGYAREVI 487 (1071)
Q Consensus 411 F~~~~~~p~~~~~~~~~~~L~~~L~~~mlRRtK~dV~~---el~LPpk~e~vv~v~lS~~Q~~~Y~~~~~~~~~~~~~~~ 487 (1071)
|++.+..+-.. ...++.-+.++.||||||...-. ...||++...++.++|+..|...|+-+.+.. +.++
T Consensus 527 Wke~i~~~s~~----g~~rlnll~K~LmLRRTKdQl~a~~klv~Lp~k~i~l~~leLs~~E~~vY~i~~~as----kk~~ 598 (901)
T KOG4439|consen 527 WKENIDNMSKG----GANRLNLLTKSLMLRRTKDQLQANGKLVNLPEKNIELHELELSGDEAKVYQIMMEAS----KKLF 598 (901)
T ss_pred HHHhccCcccc----chhhhhhhhhhHHhhhhHHhhccccccccCcccceEEEEEeecchHHHHHHHHHHHH----HHHH
Confidence 99988754332 34567888999999999997632 3569999999999999999999999887654 3444
Q ss_pred HHHHHHHhhccCCCCCCC--------CCccCc----------ccchhhHHHHHHHHHHHHHHccCCCCCCCCcccccC--
Q 001475 488 QRLKDNILKRNVPGHASS--------DALYNP----------IITHAEAAKLLNSLLKLRQACCHPQVGSSGLRSLQQ-- 547 (1071)
Q Consensus 488 ~~~~~~~~~~~~~g~~~~--------~~~~~~----------~~~~~~~~~il~~L~rLRQiC~HP~L~~~~~~~~~~-- 547 (1071)
.++...-..++..|.+.+ ...+++ -......+.||..|+||||+||||.+..+++.....
T Consensus 599 kq~L~~~e~~~~~~~~~s~~~~~~~~~e~~~~~~~~pR~~aagsn~~~~s~IL~LLlrLRQ~ccH~~~~k~~ld~~~~~~ 678 (901)
T KOG4439|consen 599 KQFLLQREDRNNDGGYQSRNRFIGGHDEFGNYYNIGPRFLAAGSNFEIMSHILVLLLRLRQACCHFGLLKAALDPEEFQM 678 (901)
T ss_pred HHHHHhhhhhccccCccccchhccccccccccccccchhhhcCCchhhHHHHHHHHHHHHHHhcCcchhccccCHHHhhh
Confidence 443322222222122111 000000 001234567999999999999999775544432110
Q ss_pred -CCC----------------------------------CHHHH---------HHHHHHHHHHhhhhhhhhHHHHhhhHhh
Q 001475 548 -SPL----------------------------------SMDEI---------LMVLIGKTKIEGEEALRKLVMALNGLAG 583 (1071)
Q Consensus 548 -~~~----------------------------------t~~el---------L~~Ll~~~~~e~~~~~rk~l~~sq~~a~ 583 (1071)
+.+ -.+++ +...++.+.......-.++++.||++.+
T Consensus 679 ~g~~~sde~~~e~~~l~el~k~~~T~~~~D~~ed~p~~~~~q~Fe~~r~S~Ki~~~l~~le~i~~~skeK~viVSQwtsv 758 (901)
T KOG4439|consen 679 NGGDDSDEEQLEEDNLAELEKNDETDCSDDNCEDLPTAFPDQAFEPDRPSCKIAMVLEILETILTSSKEKVVIVSQWTSV 758 (901)
T ss_pred cCcchhhhhhhhhhHHHhhhhcccccccccccccccccchhhhcccccchhHHHHHHHHHHHHhhcccceeeehhHHHHH
Confidence 000 00011 1111111122222334689999999999
Q ss_pred HHHHHHhHHHHHHHHHHH-----HHHHHHHhhccCCCCC---------cCceeEeeCC----------cCCchhhhhhh-
Q 001475 584 IALIEKNLSQAVSLYKEA-----MAVVEEHSEDFRLDPL---------LNIHLHHNLT----------EILPMVANCAT- 638 (1071)
Q Consensus 584 L~ii~~~~~~a~~~y~~~-----l~~~~~~~~~f~~D~~---------~~~~~~~nl~----------~wnp~~~~QA~- 638 (1071)
|.++...+......|... ...+++.++.|+...- ..-+++.||. -|||+-|.||.
T Consensus 759 Lniv~~hi~~~g~~y~si~Gqv~vK~Rq~iv~~FN~~k~~~rVmLlSLtAGGVGLNL~GaNHlilvDlHWNPaLEqQAcD 838 (901)
T KOG4439|consen 759 LNIVRKHIQKGGHIYTSITGQVLVKDRQEIVDEFNQEKGGARVMLLSLTAGGVGLNLIGANHLILVDLHWNPALEQQACD 838 (901)
T ss_pred HHHHHHHHhhCCeeeeeecCccchhHHHHHHHHHHhccCCceEEEEEEccCcceeeecccceEEEEecccCHHHHHHHHH
Confidence 999999988877666432 3366666666643321 2224455554 59999999999
Q ss_pred hhhhcCCCCceEEEeccccCCccccchhHhhhhccccc
Q 001475 639 ELSQNEQHFPGCSEKAFKIHSIETCDENARKCQRVSRE 676 (1071)
Q Consensus 639 R~hRiGQ~~~V~vyrl~t~~tiEE~~~~~~k~k~~~~~ 676 (1071)
|.+|+||+|+|+|||++++||||++|..+|.+|.-.-.
T Consensus 839 RIYR~GQkK~V~IhR~~~~gTvEqrV~~LQdkKldlA~ 876 (901)
T KOG4439|consen 839 RIYRMGQKKDVFIHRLMCKGTVEQRVKSLQDKKLDLAK 876 (901)
T ss_pred HHHHhcccCceEEEEEEecCcHHHHHHHHHHHHHHHHh
Confidence 99999999999999999999999999999998865444
No 10
>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]
Probab=100.00 E-value=5.3e-68 Score=601.41 Aligned_cols=357 Identities=24% Similarity=0.310 Sum_probs=295.5
Q ss_pred CCcEEEEeCchhHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccc----hhhhcCCcEEEEeHHHHHhhcccCCCC
Q 001475 247 TGATLIVCPAPILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMD----ISELVGADIVLTTYDVLKEDLSHDSDR 322 (1071)
Q Consensus 247 ~~~tLIV~P~SLl~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~----~~~l~~~dVVItTY~~l~~d~~~~~~~ 322 (1071)
-||+|||+|+|+++||.+||.+|+ |.++++.|.|+...+..-+.... -...+.++||||||.++..|..
T Consensus 617 wGPFLVVtpaStL~NWaqEisrFl--P~~k~lpywGs~~eRkiLrKfw~rKnmY~rna~fhVviTSYQlvVtDek----- 689 (1185)
T KOG0388|consen 617 WGPFLVVTPASTLHNWAQEISRFL--PSFKVLPYWGSPSERKILRKFWNRKNMYRRNAPFHVVITSYQLVVTDEK----- 689 (1185)
T ss_pred CCceEEeehHHHHhHHHHHHHHhC--ccceeecCcCChhhhHHHHHhcchhhhhccCCCceEEEEeeeeeechHH-----
Confidence 489999999999999999999999 89999999999776532222111 2245678999999999998863
Q ss_pred CcchhhhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCCCCChhhhhccccccCC
Q 001475 323 HEGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQRKLDDLYGLLRFLKS 402 (1071)
Q Consensus 323 ~~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPiqN~l~DL~~LL~FL~p 402 (1071)
.|.++.|.++||||||.||+..|.+++.+..+++++|++||||||||+..|||+||+|+.|
T Consensus 690 -------------------y~qkvKWQYMILDEAQAIKSSsS~RWKtLLsF~cRNRLLLTGTPIQNsMqELWALLHFIMP 750 (1185)
T KOG0388|consen 690 -------------------YLQKVKWQYMILDEAQAIKSSSSSRWKTLLSFKCRNRLLLTGTPIQNSMQELWALLHFIMP 750 (1185)
T ss_pred -------------------HHHhhhhhheehhHHHHhhhhhhhHHHHHhhhhccceeeecCCccchHHHHHHHHHHHHhh
Confidence 3889999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCChhhhHHHhcCCCcCC-------chhHHHHHHHHHHHHhhhcccccccccCCCCCceEEEEEecCCHHHHHHHHHH
Q 001475 403 SPFSISRWWIEVIRDPYENG-------DVGAMEFTHKFFKEIMCRSSKVHVSDELQLPPQEECVSWLTFSPIEEHFYQSQ 475 (1071)
Q Consensus 403 ~~~~~~~~F~~~~~~p~~~~-------~~~~~~~L~~~L~~~mlRRtK~dV~~el~LPpk~e~vv~v~lS~~Q~~~Y~~~ 475 (1071)
..|++...|.++|...++.. +...+.+||.+|+||||||.|+||..+ |-.|++..++|+||--|+.+|+.+
T Consensus 751 sLFDshneFseWFSKdIEshAe~~~tlneqqL~RLH~ILKPFMLRRvKkdV~sE--Lg~Kteidv~CdLs~RQ~~lYq~i 828 (1185)
T KOG0388|consen 751 SLFDSHNEFSEWFSKDIESHAEMNTTLNEQQLQRLHAILKPFMLRRVKKDVISE--LGQKTEIDVYCDLSYRQKVLYQEI 828 (1185)
T ss_pred HhhhchHHHHHHHhhhhHhHHHhcCCcCHHHHHHHHHHHhHHHHHHHHHHHHHH--hccceEEEEEechhHHHHHHHHHH
Confidence 99999999999998877653 567889999999999999999999877 999999999999999999999987
Q ss_pred HHHHHHHHHHHHHHHHHHHhhccCCCCCCCCCccCcccchhhHHHHHHHHHHHHHHccCCCCCCCC-------------c
Q 001475 476 HETCVGYAREVIQRLKDNILKRNVPGHASSDALYNPIITHAEAAKLLNSLLKLRQACCHPQVGSSG-------------L 542 (1071)
Q Consensus 476 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~il~~L~rLRQiC~HP~L~~~~-------------~ 542 (1071)
...+. ...+..++++||++||||.|+... +
T Consensus 829 k~~iS-------------------------------------~~E~~~~vmQlrKVCNHPdLFer~e~~s~L~~~V~~nl 871 (1185)
T KOG0388|consen 829 KRSIS-------------------------------------SMEMENLVMQLRKVCNHPDLFERLEPRSGLSLEVSDNL 871 (1185)
T ss_pred HHHhh-------------------------------------HHHHHHHHHHHHHhcCChHHHhhcCCcceeEEEcccCH
Confidence 65432 123445889999999999873210 0
Q ss_pred c--------c----------------------------------ccC----------------CCC---C----------
Q 001475 543 R--------S----------------------------------LQQ----------------SPL---S---------- 551 (1071)
Q Consensus 543 ~--------~----------------------------------~~~----------------~~~---t---------- 551 (1071)
. + +.+ ++. .
T Consensus 872 ~dv~S~Grnpi~ykiP~L~~~d~le~~~fniye~i~~~~g~~~~v~Geg~~~w~~~l~~e~k~G~~~~~n~e~~~Kavtr 951 (1185)
T KOG0388|consen 872 GDVVSFGRNPIDYKIPSLVAKDALEMFRFNIYEMIERINGLRRIVNGEGPNAWYLRLSLEFKYGGYVFRNVEEAGKAVTR 951 (1185)
T ss_pred HHHHhCCCCceeecchHHHHHHHHHHHHHhHHHHHHHHhhhHhhhcCCCcchhcccceeeeccCCcccccHHHHHHHHHH
Confidence 0 0 000 000 0
Q ss_pred --------------------------------------------------------------------HHH---------
Q 001475 552 --------------------------------------------------------------------MDE--------- 554 (1071)
Q Consensus 552 --------------------------------------------------------------------~~e--------- 554 (1071)
|..
T Consensus 952 ~ll~p~~~~~e~~~rvi~~e~~~L~~~~y~y~P~v~apPvLI~~ead~PeId~E~~~~pLn~~i~~Ppm~~FitdSgKL~ 1031 (1185)
T KOG0388|consen 952 NLLNPESSLLESMRRVIDEEAYRLQRHVYCYSPVVAAPPVLISNEADLPEIDLENRHIPLNTTIYVPPMNTFITDSGKLV 1031 (1185)
T ss_pred HhcCcccchhHHHHHHhhHHHHHhhhheeeeccccCCCCeeeecccCCCCCCccccCcccccceecCcHHhhhcccccee
Confidence 000
Q ss_pred HHHHHHHHHHHhhhhhhhhHHHHhhhHhhHHHHHHhHHHHHHHHHHHH-----HHHHHHhhccCC-CCCcCc------ee
Q 001475 555 ILMVLIGKTKIEGEEALRKLVMALNGLAGIALIEKNLSQAVSLYKEAM-----AVVEEHSEDFRL-DPLLNI------HL 622 (1071)
Q Consensus 555 lL~~Ll~~~~~e~~~~~rk~l~~sq~~a~L~ii~~~~~~a~~~y~~~l-----~~~~~~~~~f~~-D~~~~~------~~ 622 (1071)
.|+.|+.+++.+| |+||++.|++.|+++|++++......|-+.. ..+.+.+.+++. |.|.++ +.
T Consensus 1032 ~LDeLL~kLkaeg----HRvL~yfQMTkM~dl~EdYl~yr~Y~ylRLDGSsk~~dRrd~vrDwQ~sdiFvFLLSTRAGGL 1107 (1185)
T KOG0388|consen 1032 VLDELLPKLKAEG----HRVLMYFQMTKMIDLIEDYLVYRGYTYLRLDGSSKASDRRDVVRDWQASDIFVFLLSTRAGGL 1107 (1185)
T ss_pred eHHHHHHHhhcCC----ceEEehhHHHHHHHHHHHHHHhhccceEEecCcchhhHHHHHHhhccCCceEEEEEecccCcc
Confidence 3688889999888 9999999999999999999888777664332 366777888876 334333 55
Q ss_pred EeeCC----------cCCchhhhhhh-hhhhcCCCCceEEEeccccCCccccchhHhhhhc
Q 001475 623 HHNLT----------EILPMVANCAT-ELSQNEQHFPGCSEKAFKIHSIETCDENARKCQR 672 (1071)
Q Consensus 623 ~~nl~----------~wnp~~~~QA~-R~hRiGQ~~~V~vyrl~t~~tiEE~~~~~~k~k~ 672 (1071)
++||+ ||||..|.||+ ||||.|||++|+||||+++|||||++++.+++|.
T Consensus 1108 GINLTAADTViFYdSDWNPT~D~QAMDRAHRLGQTrdvtvyrl~~rgTvEEk~l~rA~qK~ 1168 (1185)
T KOG0388|consen 1108 GINLTAADTVIFYDSDWNPTADQQAMDRAHRLGQTRDVTVYRLITRGTVEEKVLERANQKD 1168 (1185)
T ss_pred cccccccceEEEecCCCCcchhhHHHHHHHhccCccceeeeeecccccHHHHHHHHhhhHH
Confidence 67776 89999999999 9999999999999999999999999999999874
No 11
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=100.00 E-value=1.1e-67 Score=620.51 Aligned_cols=232 Identities=25% Similarity=0.425 Sum_probs=200.1
Q ss_pred CcEEEEeCchhHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcchh
Q 001475 248 GATLIVCPAPILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGDR 327 (1071)
Q Consensus 248 ~~tLIV~P~SLl~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~~ 327 (1071)
||.|||||.|++-||+-|+++|+ |+++++.|.|+.+++...++ .-..-..|.|.||||..+..+..
T Consensus 666 GPHLIVVpTsviLnWEMElKRwc--PglKILTYyGs~kErkeKRq--gW~kPnaFHVCItSYklv~qd~~---------- 731 (1958)
T KOG0391|consen 666 GPHLIVVPTSVILNWEMELKRWC--PGLKILTYYGSHKERKEKRQ--GWAKPNAFHVCITSYKLVFQDLT---------- 731 (1958)
T ss_pred CCceEEeechhhhhhhHHHhhhC--CcceEeeecCCHHHHHHHhh--cccCCCeeEEeehhhHHHHhHHH----------
Confidence 79999999999999999999999 89999999999776533221 11223458899999999999874
Q ss_pred hhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCCCCChhhhhccccccCCCCCCC
Q 001475 328 RFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQRKLDDLYGLLRFLKSSPFSI 407 (1071)
Q Consensus 328 ~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPiqN~l~DL~~LL~FL~p~~~~~ 407 (1071)
.|.+..|.++||||||+|||.+|++++++..+++.+|++|||||+||++.|||+|++||.|..|.+
T Consensus 732 --------------AFkrkrWqyLvLDEaqnIKnfksqrWQAllnfnsqrRLLLtgTPLqNslmELWSLmhFLmP~~f~s 797 (1958)
T KOG0391|consen 732 --------------AFKRKRWQYLVLDEAQNIKNFKSQRWQALLNFNSQRRLLLTGTPLQNSLMELWSLMHFLMPQTFAS 797 (1958)
T ss_pred --------------HHHhhccceeehhhhhhhcchhHHHHHHHhccchhheeeecCCchhhHHHHHHHHHHHhhchhhhh
Confidence 378889999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhHHHhcCCCcC---C----chhHHHHHHHHHHHHhhhcccccccccCCCCCceEEEEEecCCHHHHHHHHHHHHHHH
Q 001475 408 SRWWIEVIRDPYEN---G----DVGAMEFTHKFFKEIMCRSSKVHVSDELQLPPQEECVSWLTFSPIEEHFYQSQHETCV 480 (1071)
Q Consensus 408 ~~~F~~~~~~p~~~---~----~~~~~~~L~~~L~~~mlRRtK~dV~~el~LPpk~e~vv~v~lS~~Q~~~Y~~~~~~~~ 480 (1071)
.+.|+.+|.+|... + +...+.+||++++||+|||+|.||.++ ||.|.|+|++|.||.-|+.+|+.+..+..
T Consensus 798 hd~fk~wfsnPltgmiEgsqeyn~klV~RLHkVlrPfiLRRlK~dVEKQ--lpkKyEHvv~CrLSkRQR~LYDDfmsq~~ 875 (1958)
T KOG0391|consen 798 HDIFKPWFSNPLTGMIEGSQEYNHKLVIRLHKVLRPFILRRLKRDVEKQ--LPKKYEHVVKCRLSKRQRALYDDFMSQPG 875 (1958)
T ss_pred hhhHHHHhcCcchhhcccchhhchHHHHHHHHHhHHHHHHHHHHHHHHh--cchhhhhheeeehhhhHHHHHHHHhhccc
Confidence 99999999998754 2 345778999999999999999999766 99999999999999999999998754311
Q ss_pred HHHHHHHHHHHHHHhhccCCCCCCCCCccCcccchhhHHHHHHHHHHHHHHccCCCC
Q 001475 481 GYAREVIQRLKDNILKRNVPGHASSDALYNPIITHAEAAKLLNSLLKLRQACCHPQV 537 (1071)
Q Consensus 481 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~il~~L~rLRQiC~HP~L 537 (1071)
.. + .+...+..+|++.||+||++||||-|
T Consensus 876 TK-----e-----------------------tLkSGhfmsVlnilmqLrKvCNHPnL 904 (1958)
T KOG0391|consen 876 TK-----E-----------------------TLKSGHFMSVLNILMQLRKVCNHPNL 904 (1958)
T ss_pred hh-----h-----------------------HhhcCchhHHHHHHHHHHHHcCCCCc
Confidence 10 0 11122467899999999999999987
No 12
>KOG0386 consensus Chromatin remodeling complex SWI/SNF, component SWI2 and related ATPases (DNA/RNA helicase superfamily) [Chromatin structure and dynamics; Transcription]
Probab=100.00 E-value=2.2e-65 Score=603.61 Aligned_cols=367 Identities=21% Similarity=0.288 Sum_probs=297.9
Q ss_pred CCcEEEEeCchhHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 247 TGATLIVCPAPILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 247 ~~~tLIV~P~SLl~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
.||.|||||.|++.+|..||.+|+ |++..++|.|....|... .......+|+|++|||+.+.++.
T Consensus 444 ~GP~LvivPlstL~NW~~Ef~kWa--PSv~~i~YkGtp~~R~~l---~~qir~gKFnVLlTtyEyiikdk---------- 508 (1157)
T KOG0386|consen 444 QGPFLIIVPLSTLVNWSSEFPKWA--PSVQKIQYKGTPQQRSGL---TKQQRHGKFNVLLTTYEYIIKDK---------- 508 (1157)
T ss_pred CCCeEEeccccccCCchhhccccc--cceeeeeeeCCHHHHhhH---HHHHhcccceeeeeeHHHhcCCH----------
Confidence 489999999999999999999999 899999999997765332 12223388999999999998863
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHH-hcccCceEEEeCcCCCCChhhhhccccccCCCCC
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMAL-RLYAKHRWCITGTPIQRKLDDLYGLLRFLKSSPF 405 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~-~L~a~~Rw~LTGTPiqN~l~DL~~LL~FL~p~~~ 405 (1071)
..|.++.|.++||||+|++||..++.+..+. ...+.+|++|||||+||++.|||+||+||-|..|
T Consensus 509 --------------~lLsKI~W~yMIIDEGHRmKNa~~KLt~~L~t~y~~q~RLLLTGTPLQN~LpELWaLLNFlLP~IF 574 (1157)
T KOG0386|consen 509 --------------ALLSKISWKYMIIDEGHRMKNAICKLTDTLNTHYRAQRRLLLTGTPLQNNLPELWALLNFLLPNIF 574 (1157)
T ss_pred --------------HHHhccCCcceeecccccccchhhHHHHHhhccccchhhhhhcCChhhhccHHHHHHHHHhccchh
Confidence 4699999999999999999999999999998 6789999999999999999999999999999999
Q ss_pred CChhhhHHHhcCCCcCCc----------hhHHHHHHHHHHHHhhhcccccccccCCCCCceEEEEEecCCHHHHHHHHHH
Q 001475 406 SISRWWIEVIRDPYENGD----------VGAMEFTHKFFKEIMCRSSKVHVSDELQLPPQEECVSWLTFSPIEEHFYQSQ 475 (1071)
Q Consensus 406 ~~~~~F~~~~~~p~~~~~----------~~~~~~L~~~L~~~mlRRtK~dV~~el~LPpk~e~vv~v~lS~~Q~~~Y~~~ 475 (1071)
.+...|..+|..||..-+ .-.+.+||.+|+||++||.|++|..+ ||.|++.++.|.||+.|+.+|..+
T Consensus 575 nS~~~FeqWFN~PFantGek~eLteEEtlLIIrRLHkVLRPFlLRRlKkeVE~~--LPdKve~viKC~mSalQq~lY~~m 652 (1157)
T KOG0386|consen 575 NSCKAFEQWFNQPFANTGEKVELTEEETLLIIRRLHKVLRPFLLRRLKKEVEQE--LPDKVEDVIKCDMSALQQSLYKQM 652 (1157)
T ss_pred hhHhHHHHHhhhhhhhcCCcccccchHHHHHHHHHHHhhhHHHHHhhhHHHhhh--CchhhhHhhheehhhhhHhhhHHH
Confidence 999999999999986532 12668999999999999999999766 999999999999999999999987
Q ss_pred HHHHHHHHHHHHHHHHHHHhhccCCCCCCCCCccCcccchhhHHHHHHHHHHHHHHccCCCCCCCCccccc--CC-----
Q 001475 476 HETCVGYAREVIQRLKDNILKRNVPGHASSDALYNPIITHAEAAKLLNSLLKLRQACCHPQVGSSGLRSLQ--QS----- 548 (1071)
Q Consensus 476 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~il~~L~rLRQiC~HP~L~~~~~~~~~--~~----- 548 (1071)
.+. |....++ .-.+..+..+++.+|.||++||||+++..--.+.. ..
T Consensus 653 ~~~----------------------g~l~~d~----~~g~~g~k~L~N~imqLRKiCNHP~lf~~ve~~~~~~~~~~dL~ 706 (1157)
T KOG0386|consen 653 QNK----------------------GQLLKDT----AKGKKGYKPLFNTIMQLRKLCNHPYLFANVENSYTLHYDIKDLV 706 (1157)
T ss_pred HhC----------------------CCCCcCc----hhccccchhhhhHhHHHHHhcCCchhhhhhccccccccChhHHH
Confidence 532 1111011 00122345789999999999999999732211111 11
Q ss_pred -CCCHHHHHHHHHHHHHHhhhhhhhhHHHHhhhHhhHHHHHHhHHHHHHHHHHHHH-----HHHHHhhccCCC-C--CcC
Q 001475 549 -PLSMDEILMVLIGKTKIEGEEALRKLVMALNGLAGIALIEKNLSQAVSLYKEAMA-----VVEEHSEDFRLD-P--LLN 619 (1071)
Q Consensus 549 -~~t~~elL~~Ll~~~~~e~~~~~rk~l~~sq~~a~L~ii~~~~~~a~~~y~~~l~-----~~~~~~~~f~~D-~--~~~ 619 (1071)
.....++|++++++++.-+ |+|+.|+|++.+++|++++|...-..|....+ .+.+..+.|+.. + +.+
T Consensus 707 R~sGKfELLDRiLPKLkatg----HRVLlF~qMTrlmdimEdyL~~~~~kYlRLDG~TK~~eRg~ll~~FN~Pds~yf~F 782 (1157)
T KOG0386|consen 707 RVSGKFELLDRILPKLKATG----HRVLLFSQMTRLMDILEDYLQIREYKYLRLDGQTKVEERGDLLEIFNAPDSPYFIF 782 (1157)
T ss_pred HhccHHHHHHhhhHHHHhcC----cchhhHHHHHHHHHHHHHHHhhhhhheeeecCCcchhhHHHHHHHhcCCCCceeee
Confidence 1234578888998888877 99999999999999999999988888876554 344455566432 2 111
Q ss_pred c------eeEeeCC----------cCCchhhhhhh-hhhhcCCCCceEEEeccccCCccccchhHhhhhccc
Q 001475 620 I------HLHHNLT----------EILPMVANCAT-ELSQNEQHFPGCSEKAFKIHSIETCDENARKCQRVS 674 (1071)
Q Consensus 620 ~------~~~~nl~----------~wnp~~~~QA~-R~hRiGQ~~~V~vyrl~t~~tiEE~~~~~~k~k~~~ 674 (1071)
+ +.+.||- ||||..|.||+ |||||||+++|.|+|++|.++|||+|+..++.|.--
T Consensus 783 llstragglglNlQtadtviifdsdwnp~~d~qaqdrahrigq~~evRv~rl~tv~sveE~il~~a~~Kl~~ 854 (1157)
T KOG0386|consen 783 LLSTRAGGLGLNLQTADTVIIFDSDWNPHQDLQAQDRAHRIGQKKEVRVLRLITVNSVEEKILAEAFYKLDV 854 (1157)
T ss_pred eeeecccccccchhhcceEEEecCCCCchhHHHHHHHHHHhhchhheeeeeeehhhHHHHHHHHHHHHhcCc
Confidence 1 3444544 79999999999 999999999999999999999999999998877543
No 13
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=100.00 E-value=5.2e-57 Score=538.94 Aligned_cols=370 Identities=16% Similarity=0.173 Sum_probs=281.3
Q ss_pred CCcEEEEeCchhHHHHHHHHHHhcCCCCCeEEEEeCCCCCcccccc--ccchhhhcCCcEEEEeHHHHHhhcccCCCCCc
Q 001475 247 TGATLIVCPAPILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTS--IMDISELVGADIVLTTYDVLKEDLSHDSDRHE 324 (1071)
Q Consensus 247 ~~~tLIV~P~SLl~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~--~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~ 324 (1071)
....|||||++|+.+|.+||.+|..+..+..+.++|..+..-.... .......-.+-|.|.||++++.+..
T Consensus 298 ~~k~lVV~P~sLv~nWkkEF~KWl~~~~i~~l~~~~~~~~~w~~~~sil~~~~~~~~~~vli~sye~~~~~~~------- 370 (776)
T KOG0390|consen 298 INKPLVVAPSSLVNNWKKEFGKWLGNHRINPLDFYSTKKSSWIKLKSILFLGYKQFTTPVLIISYETASDYCR------- 370 (776)
T ss_pred ccccEEEccHHHHHHHHHHHHHhccccccceeeeecccchhhhhhHHHHHhhhhheeEEEEeccHHHHHHHHH-------
Confidence 4578999999999999999999996557888888888653100000 0001112345699999999997653
Q ss_pred chhhhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCCCCChhhhhccccccCCCC
Q 001475 325 GDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQRKLDDLYGLLRFLKSSP 404 (1071)
Q Consensus 325 ~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPiqN~l~DL~~LL~FL~p~~ 404 (1071)
.+....++++|+||||++||..|.+.+++.+|+..+|++|||||+||++.|+|++|+|++|+.
T Consensus 371 -----------------~il~~~~glLVcDEGHrlkN~~s~~~kaL~~l~t~rRVLLSGTp~QNdl~EyFnlL~fvrP~~ 433 (776)
T KOG0390|consen 371 -----------------KILLIRPGLLVCDEGHRLKNSDSLTLKALSSLKTPRRVLLTGTPIQNDLKEYFNLLDFVRPGF 433 (776)
T ss_pred -----------------HHhcCCCCeEEECCCCCccchhhHHHHHHHhcCCCceEEeeCCcccccHHHHHHHHhhcChhh
Confidence 267778999999999999999999999999999999999999999999999999999999999
Q ss_pred CCChhhhHHHhcCCCcCCch-----------hHHHHHHHHHHHHhhhcccccccccCCCCCceEEEEEecCCHHHHHHHH
Q 001475 405 FSISRWWIEVIRDPYENGDV-----------GAMEFTHKFFKEIMCRSSKVHVSDELQLPPQEECVSWLTFSPIEEHFYQ 473 (1071)
Q Consensus 405 ~~~~~~F~~~~~~p~~~~~~-----------~~~~~L~~~L~~~mlRRtK~dV~~el~LPpk~e~vv~v~lS~~Q~~~Y~ 473 (1071)
++....|++.+..|+.+++. +.+..|..+...|++||+-+...+. ||++.++|+.|.+|+.|+++|.
T Consensus 434 Lgs~~sf~k~~~~~i~~~~~~~~s~e~~~~~~rl~eL~~~t~~fi~rrt~~il~k~--LP~k~e~vv~~n~t~~Q~~~~~ 511 (776)
T KOG0390|consen 434 LGSISSFKKKFEIPILRGRDADASEEDREREERLQELRELTNKFILRRTGDILLKY--LPGKYEYVVFCNPTPIQKELYK 511 (776)
T ss_pred ccchHHHHHHhhcccccccCCCcchhhhhhHHHHHHHHHHHHhheeecccchhhhh--CCCceeEEEEeCCcHHHHHHHH
Confidence 99999999999999887432 2367899999999999999777665 9999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCCccCcccchhhHHHHHHHHHHHHHHccCCCCCC------CCccc---
Q 001475 474 SQHETCVGYAREVIQRLKDNILKRNVPGHASSDALYNPIITHAEAAKLLNSLLKLRQACCHPQVGS------SGLRS--- 544 (1071)
Q Consensus 474 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~il~~L~rLRQiC~HP~L~~------~~~~~--- 544 (1071)
.+.+.. . .. . -.+..|..++.|+++|+||.|.. +....
T Consensus 512 ~l~~~~-~--~~---~---------------------------~~~~~l~~~~~L~k~cnhP~L~~~~~~~~~e~~~~~~ 558 (776)
T KOG0390|consen 512 KLLDSM-K--MR---T---------------------------LKGYALELITKLKKLCNHPSLLLLCEKTEKEKAFKNP 558 (776)
T ss_pred HHHHHH-H--hh---h---------------------------hhcchhhHHHHHHHHhcCHHhhcccccccccccccCh
Confidence 986642 0 00 0 01125788999999999999974 10000
Q ss_pred ---ccCC-------CCCHHHHHHHHHHHHHHhhhhhhhhHHHHhhhHhhHHHHHHhHHHHHHH---HHH--HHHHHHHHh
Q 001475 545 ---LQQS-------PLSMDEILMVLIGKTKIEGEEALRKLVMALNGLAGIALIEKNLSQAVSL---YKE--AMAVVEEHS 609 (1071)
Q Consensus 545 ---~~~~-------~~t~~elL~~Ll~~~~~e~~~~~rk~l~~sq~~a~L~ii~~~~~~a~~~---y~~--~l~~~~~~~ 609 (1071)
+... .....-.+..|+.-+..-.++.+.++++-+|.+..|++++..+...... ..+ ....|+..+
T Consensus 559 ~~~~~~~~~~~~~~~~~ks~kl~~L~~ll~~~~ek~~~~~v~Isny~~tldl~e~~~~~~g~~~~rLdG~~~~~qRq~~v 638 (776)
T KOG0390|consen 559 ALLLDPGKLKLDAGDGSKSGKLLVLVFLLEVIREKLLVKSVLISNYTQTLDLFEQLCRWRGYEVLRLDGKTSIKQRQKLV 638 (776)
T ss_pred HhhhcccccccccccchhhhHHHHHHHHHHHHhhhcceEEEEeccHHHHHHHHHHHHhhcCceEEEEcCCCchHHHHHHH
Confidence 0000 0010112223333322333444568888889999999998876655222 222 334788889
Q ss_pred hccCCCCCc-Cc--------eeEeeCC----------cCCchhhhhhh-hhhhcCCCCceEEEeccccCCccccchhHhh
Q 001475 610 EDFRLDPLL-NI--------HLHHNLT----------EILPMVANCAT-ELSQNEQHFPGCSEKAFKIHSIETCDENARK 669 (1071)
Q Consensus 610 ~~f~~D~~~-~~--------~~~~nl~----------~wnp~~~~QA~-R~hRiGQ~~~V~vyrl~t~~tiEE~~~~~~k 669 (1071)
+.|+..+.+ ++ +.++||. +|||++|.||+ ||||+||+|+|.||||++.|||||++.+.|-
T Consensus 639 d~FN~p~~~~~vfLlSsKAgg~GinLiGAsRlil~D~dWNPa~d~QAmaR~~RdGQKk~v~iYrLlatGtiEEk~~qrq~ 718 (776)
T KOG0390|consen 639 DTFNDPESPSFVFLLSSKAGGEGLNLIGASRLILFDPDWNPAVDQQAMARAWRDGQKKPVYIYRLLATGTIEEKIYQRQT 718 (776)
T ss_pred HhccCCCCCceEEEEecccccCceeecccceEEEeCCCCCchhHHHHHHHhccCCCcceEEEEEeecCCCchHHHHHHHH
Confidence 999765544 22 5577776 89999999999 9999999999999999999999999999988
Q ss_pred hhcccc
Q 001475 670 CQRVSR 675 (1071)
Q Consensus 670 ~k~~~~ 675 (1071)
.|....
T Consensus 719 ~K~~lS 724 (776)
T KOG0390|consen 719 HKEGLS 724 (776)
T ss_pred Hhhhhh
Confidence 776554
No 14
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=100.00 E-value=6.5e-53 Score=507.86 Aligned_cols=371 Identities=30% Similarity=0.432 Sum_probs=296.6
Q ss_pred CCCcEEEEeCchhHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcc
Q 001475 246 ATGATLIVCPAPILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEG 325 (1071)
Q Consensus 246 ~~~~tLIV~P~SLl~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~ 325 (1071)
..+.+|||||.+++.||..|+.+...++.+.+++|+| + ......+..||||||||+++..
T Consensus 188 ~~kttLivcp~s~~~qW~~elek~~~~~~l~v~v~~g--r-------~kd~~el~~~dVVltTy~il~~----------- 247 (674)
T KOG1001|consen 188 EFKTTLIVCPTSLLTQWKTELEKVTEEDKLSIYVYHG--R-------TKDKSELNSYDVVLTTYDILKN----------- 247 (674)
T ss_pred ccCceeEecchHHHHHHHHHHhccCCccceEEEEecc--c-------ccccchhcCCceEEeeHHHhhc-----------
Confidence 4578999999999999999998888888999999999 1 1256788999999999999986
Q ss_pred hhhhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCCCCChhhhhccccccCCCCC
Q 001475 326 DRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQRKLDDLYGLLRFLKSSPF 405 (1071)
Q Consensus 326 ~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPiqN~l~DL~~LL~FL~p~~~ 405 (1071)
+++..+.|.|||+||||.++|++++.++++..|.+.+||||||||+||+++|||+++.|+..+||
T Consensus 248 ---------------~~l~~i~w~Riildea~~ikn~~tq~~~a~~~L~a~~RWcLtgtPiqn~~~~lysl~~fl~~~p~ 312 (674)
T KOG1001|consen 248 ---------------SPLVKIKWLRIVLDEAHTIKNKDTQIFKAVCQLDAKYRWCLTGTPIQNNLDELYSLFKFLEIHPY 312 (674)
T ss_pred ---------------ccccceeEEEEEeccccccCCcchHhhhhheeeccceeeeecCChhhhhHHHHHHHHHHhhcCCc
Confidence 24888999999999999999999999999999999999999999999999999999999999999
Q ss_pred CChhhhHHHhcCCCcCCc-hhHHHHHHHHHHHHhhhccccccc---ccCCCCCceEEEEEecCCHHHHHHHHHHHHHHHH
Q 001475 406 SISRWWIEVIRDPYENGD-VGAMEFTHKFFKEIMCRSSKVHVS---DELQLPPQEECVSWLTFSPIEEHFYQSQHETCVG 481 (1071)
Q Consensus 406 ~~~~~F~~~~~~p~~~~~-~~~~~~L~~~L~~~mlRRtK~dV~---~el~LPpk~e~vv~v~lS~~Q~~~Y~~~~~~~~~ 481 (1071)
....+|...+..|+..+. ......++.+++.+|+||+|..-. ..+.|||++..+++++++..|+.+|..+...+..
T Consensus 313 ~~~~~~~~~i~~p~~~~~~~~~~k~l~~~L~~v~lrrtK~~~~~gk~i~~lppk~v~~~~~~~~~~e~~~y~~l~~~~~~ 392 (674)
T KOG1001|consen 313 CDQNYFKLLIQDPDERNKYKEGVKTLQGILKKVMLRRTKEMEVDGKPILELPPKTVFVTEVDLSKSERSAYKALKANSRN 392 (674)
T ss_pred hhhHHHHHHhcChhhhhhHHHHHHHHHHHHHHHHhcccccccccCccccccCcceeEeeeccccHhHHHHHHHHhhhhhh
Confidence 999999999999999888 788889999999999999997432 2357999999999999999999999999877655
Q ss_pred HHHHHHHHHHHHHhhccCCCCCCCCCccCcccchhhHHHHHHHHHHHHHHccCCCCCCCCcccccC--------------
Q 001475 482 YAREVIQRLKDNILKRNVPGHASSDALYNPIITHAEAAKLLNSLLKLRQACCHPQVGSSGLRSLQQ-------------- 547 (1071)
Q Consensus 482 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~il~~L~rLRQiC~HP~L~~~~~~~~~~-------------- 547 (1071)
........ | ....+++.++..+++|||+||||.++.........
T Consensus 393 ~~~~~~~~-----------~-----------~~~~~Y~~~l~~lLrlrq~c~h~~lv~~~~~~~~~~~~~~~~~~~~i~~ 450 (674)
T KOG1001|consen 393 QFSNYANE-----------G-----------TVSSTYAFFLKNLLRLRQACDHSLLVMYEMDSLGDSGSAAALIIRLIVD 450 (674)
T ss_pred HHHHHhhh-----------c-----------hhhhhHHHHHHHHHHHHHHccchHhhhhhhhccccccccchHHHHHHHH
Confidence 44332222 1 01235788999999999999999985422111000
Q ss_pred ------------------CCCCHHHHH------------------------HHHHHH-----------------------
Q 001475 548 ------------------SPLSMDEIL------------------------MVLIGK----------------------- 562 (1071)
Q Consensus 548 ------------------~~~t~~elL------------------------~~Ll~~----------------------- 562 (1071)
....|.... ..++..
T Consensus 451 l~~~~~c~ic~~~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~s~~~~~~~~~~~~~~s~ki~~~~~~ 530 (674)
T KOG1001|consen 451 LSVSHWCHICCDLDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLLSANPLPSIINDLLPESSKIYAFLKI 530 (674)
T ss_pred HhhccccccccccccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHHHhhcccccchhhhccchhhhhHHHHHH
Confidence 000000000 011110
Q ss_pred H-HHhhhhhhhhHHHHhhhHhhHHHHHHhHHHHHHH---HHH--HHHHHHHHhhccCCCCCcCc--------eeEeeCC-
Q 001475 563 T-KIEGEEALRKLVMALNGLAGIALIEKNLSQAVSL---YKE--AMAVVEEHSEDFRLDPLLNI--------HLHHNLT- 627 (1071)
Q Consensus 563 ~-~~e~~~~~rk~l~~sq~~a~L~ii~~~~~~a~~~---y~~--~l~~~~~~~~~f~~D~~~~~--------~~~~nl~- 627 (1071)
+ ..++.+. .++++|+|++.++++++-.+...... |.+ .+..+..-...|..|+.+.+ .+++||.
T Consensus 531 l~~~~~s~~-~kiiifsq~~~~l~l~~~~l~~~~~~~~~~~g~~~~~~r~~s~~~~~~~~~~~vll~Slkag~~glnlt~ 609 (674)
T KOG1001|consen 531 LQAKEMSEQ-PKIVIFSQLIWGLALVCLRLFFKGFVFLRYDGEMLMKIRTKSFTDFPCDPLVTALLMSLKAGKVGLNLTA 609 (674)
T ss_pred HhhccCCCC-CceeeehhHHHHHHHhhhhhhhcccccchhhhhhHHHHHHhhhcccccCccHHHHHHHHHHhhhhhchhh
Confidence 0 1122223 49999999999999999877655443 333 33456666778888887655 4466665
Q ss_pred ---------cCCchhhhhhh-hhhhcCCCCceEEEeccccCCccccchhHhhhhccc
Q 001475 628 ---------EILPMVANCAT-ELSQNEQHFPGCSEKAFKIHSIETCDENARKCQRVS 674 (1071)
Q Consensus 628 ---------~wnp~~~~QA~-R~hRiGQ~~~V~vyrl~t~~tiEE~~~~~~k~k~~~ 674 (1071)
||||+.++||+ |||||||+|+|+|+|++.++||||+++.+|+||+--
T Consensus 610 a~~v~~~d~~wnp~~eeQaidR~hrigq~k~v~v~r~~i~dtveer~l~iq~~K~~~ 666 (674)
T KOG1001|consen 610 ASHVLLMDPWWNPAVEEQAIDRAHRIGQTKPVKVSRFIIKDTVEERILKIQEKKREY 666 (674)
T ss_pred hhHHHhhchhcChHHHHHHHHHHHHhcccceeeeeeehhhhccHHHHHHHHHHHHHH
Confidence 89999999999 999999999999999999999999999999998743
No 15
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=100.00 E-value=6e-53 Score=540.56 Aligned_cols=377 Identities=24% Similarity=0.320 Sum_probs=292.5
Q ss_pred CCcEEEEeCchhHHHHHHHHHHhcCCCCCe-EEEEeCCCCC-ccccccccchhhhc------CCcEEEEeHHHHHh---h
Q 001475 247 TGATLIVCPAPILAQWDAEITRHTRPGSLK-TCIYEGARNS-SLSDTSIMDISELV------GADIVLTTYDVLKE---D 315 (1071)
Q Consensus 247 ~~~tLIV~P~SLl~qW~~Ei~k~~~~~~l~-v~vy~G~~~~-~~~~~~~~~~~~l~------~~dVVItTY~~l~~---d 315 (1071)
.+|+|||||.+++.||.+|+.+|. |.++ +.+|+|.... .. ......... .+|+++|||+.++. +
T Consensus 390 ~~~~liv~p~s~~~nw~~e~~k~~--~~~~~~~~~~g~~~~~~~---~~~~~~~~~~~~~~~~~~v~itty~~l~~~~~~ 464 (866)
T COG0553 390 LGPALIVVPASLLSNWKREFEKFA--PDLRLVLVYHGEKSELDK---KREALRDLLKLHLVIIFDVVITTYELLRRFLVD 464 (866)
T ss_pred CCCeEEEecHHHHHHHHHHHhhhC--ccccceeeeeCCcccccH---HHHHHHHHhhhcccceeeEEechHHHHHHhhhh
Confidence 479999999999999999999999 7888 9999998642 00 001122222 28999999999999 4
Q ss_pred cccCCCCCcchhhhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCCCCChhhhhc
Q 001475 316 LSHDSDRHEGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQRKLDDLYG 395 (1071)
Q Consensus 316 ~~~~~~~~~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPiqN~l~DL~~ 395 (1071)
. ..+..+.|+++|+||||+|||..|..++++..+++.+||+|||||++|++.|||+
T Consensus 465 ~------------------------~~l~~~~~~~~v~DEa~~ikn~~s~~~~~l~~~~~~~~~~LtgTPlen~l~eL~s 520 (866)
T COG0553 465 H------------------------GGLKKIEWDRVVLDEAHRIKNDQSSEGKALQFLKALNRLDLTGTPLENRLGELWS 520 (866)
T ss_pred H------------------------HHHhhceeeeeehhhHHHHhhhhhHHHHHHHHHhhcceeeCCCChHhhhHHHHHH
Confidence 3 3488999999999999999999999999999999999999999999999999999
Q ss_pred ccc-ccCCCCCC-ChhhhHHHhcCCCcCCch--------hHHHHHHHHHHHHhhhccccc--ccccCCCCCceEEEEEec
Q 001475 396 LLR-FLKSSPFS-ISRWWIEVIRDPYENGDV--------GAMEFTHKFFKEIMCRSSKVH--VSDELQLPPQEECVSWLT 463 (1071)
Q Consensus 396 LL~-FL~p~~~~-~~~~F~~~~~~p~~~~~~--------~~~~~L~~~L~~~mlRRtK~d--V~~el~LPpk~e~vv~v~ 463 (1071)
+++ |+.|+.++ +...|...|..|...... ..+..|+.+++||++||+|.+ |..+ ||++.+.++.|+
T Consensus 521 l~~~f~~p~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~f~lrr~k~~~~v~~~--Lp~k~e~~~~~~ 598 (866)
T COG0553 521 LLQEFLNPGLLGTSFAIFTRLFEKPIQAEEDIGPLEARELGIELLRKLLSPFILRRTKEDVEVLKE--LPPKIEKVLECE 598 (866)
T ss_pred HHHHHhCCccccchHHHHHHHHhhhhhhcccccchhhHHHHHHHHHHHHHHHhhcccccchhHHHh--CChhhhhhhhhc
Confidence 999 99999999 568999999988766432 344558899999999999999 6554 999999999999
Q ss_pred CCHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHhhccCCCCCCCCCccCcccchhhHHHHHHHHHHHHHHccCCCCCCC
Q 001475 464 FSPIEEHFYQSQHE---TCVGYAREVIQRLKDNILKRNVPGHASSDALYNPIITHAEAAKLLNSLLKLRQACCHPQVGSS 540 (1071)
Q Consensus 464 lS~~Q~~~Y~~~~~---~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~il~~L~rLRQiC~HP~L~~~ 540 (1071)
+++.|+.+|..... .....+...... .. .. ..... ....+++.+++|||+|+||.++..
T Consensus 599 l~~~q~~~y~~~~~~~~~~~~~~~~~~~~-------~~-----~~----~~~~~--~~~~~l~~~~~lr~~~~~p~l~~~ 660 (866)
T COG0553 599 LSEEQRELYEALLEGAEKNQQLLEDLEKA-------DS-----DE----NRIGD--SELNILALLTRLRQICNHPALVDE 660 (866)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHhh-------cc-----cc----ccccc--hhhHHHHHHHHHHHhccCcccccc
Confidence 99999999999877 322222111110 00 00 00000 256899999999999999999876
Q ss_pred Cc-cccc--------------------CCCCCHHHHHHHHH-HHHHHhhhhhhhhHHHHhhhHhhHHHHHHhHHHHHHH-
Q 001475 541 GL-RSLQ--------------------QSPLSMDEILMVLI-GKTKIEGEEALRKLVMALNGLAGIALIEKNLSQAVSL- 597 (1071)
Q Consensus 541 ~~-~~~~--------------------~~~~t~~elL~~Ll-~~~~~e~~~~~rk~l~~sq~~a~L~ii~~~~~~a~~~- 597 (1071)
+. .... ...+..-..+++++ .....++.. +++++|+|++.++++++..+......
T Consensus 661 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~k~~~l~~ll~~~~~~~~~~--~kvlifsq~t~~l~il~~~l~~~~~~~ 738 (866)
T COG0553 661 GLEATFDRIVLLLREDKDFDYLKKPLIQLSKGKLQALDELLLDKLLEEGHY--HKVLIFSQFTPVLDLLEDYLKALGIKY 738 (866)
T ss_pred ccccccchhhhhhhcccccccccchhhhccchHHHHHHHHHHHHHHhhccc--ccEEEEeCcHHHHHHHHHHHHhcCCcE
Confidence 51 1110 00002335566677 566666621 39999999999999999988777522
Q ss_pred --HHHH--HHHHHHHhhccCCCCC--------cCceeEeeCC----------cCCchhhhhhh-hhhhcCCCCceEEEec
Q 001475 598 --YKEA--MAVVEEHSEDFRLDPL--------LNIHLHHNLT----------EILPMVANCAT-ELSQNEQHFPGCSEKA 654 (1071)
Q Consensus 598 --y~~~--l~~~~~~~~~f~~D~~--------~~~~~~~nl~----------~wnp~~~~QA~-R~hRiGQ~~~V~vyrl 654 (1071)
+.+. ...+++.++.|+.++- ...+++.||+ ||||+++.||+ |||||||+++|.|||+
T Consensus 739 ~~ldG~~~~~~r~~~i~~f~~~~~~~v~lls~kagg~glnLt~a~~vi~~d~~wnp~~~~Qa~dRa~RigQ~~~v~v~r~ 818 (866)
T COG0553 739 VRLDGSTPAKRRQELIDRFNADEEEKVFLLSLKAGGLGLNLTGADTVILFDPWWNPAVELQAIDRAHRIGQKRPVKVYRL 818 (866)
T ss_pred EEEeCCCChhhHHHHHHHhhcCCCCceEEEEecccccceeecccceEEEeccccChHHHHHHHHHHHHhcCcceeEEEEe
Confidence 2333 3567778888887632 1224555555 79999999999 9999999999999999
Q ss_pred cccCCccccchhHhhhhccc
Q 001475 655 FKIHSIETCDENARKCQRVS 674 (1071)
Q Consensus 655 ~t~~tiEE~~~~~~k~k~~~ 674 (1071)
+++|||||+|.+.+..|+-.
T Consensus 819 i~~~tiEe~i~~~~~~K~~l 838 (866)
T COG0553 819 ITRGTIEEKILELQEKKQEL 838 (866)
T ss_pred ecCCcHHHHHHHHHHHHHHH
Confidence 99999999999999998443
No 16
>KOG1015 consensus Transcription regulator XNP/ATRX, DEAD-box superfamily [Transcription]
Probab=100.00 E-value=5.6e-50 Score=465.27 Aligned_cols=385 Identities=17% Similarity=0.212 Sum_probs=274.1
Q ss_pred CCCcEEEEeCchhHHHHHHHHHHhcCC----CCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCC
Q 001475 246 ATGATLIVCPAPILAQWDAEITRHTRP----GSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSD 321 (1071)
Q Consensus 246 ~~~~tLIV~P~SLl~qW~~Ei~k~~~~----~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~ 321 (1071)
.++++|||||.+++.||.+||.+|... ..+.|.-+...++. ..+......+..+..|.|+.|+.++.-......
T Consensus 727 g~ktaLvV~PlNt~~NW~~EFekWm~~~e~~~~leV~eL~~vkr~--e~R~~~L~~W~~~ggVmIiGYdmyRnLa~gr~v 804 (1567)
T KOG1015|consen 727 GFKTALVVCPLNTALNWMNEFEKWMEGLEDDEKLEVSELATVKRP--EERSYMLQRWQEDGGVMIIGYDMYRNLAQGRNV 804 (1567)
T ss_pred CCceEEEEcchHHHHHHHHHHHHhcccccccccceeehhhhccCh--HHHHHHHHHHHhcCCEEEEehHHHHHHhcccch
Confidence 457899999999999999999999942 13445444444331 112233445667789999999999885432111
Q ss_pred CCcchhhhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCCCCChhhhhccccccC
Q 001475 322 RHEGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQRKLDDLYGLLRFLK 401 (1071)
Q Consensus 322 ~~~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPiqN~l~DL~~LL~FL~ 401 (1071)
+.+. .+ ......|..-..|+||+||||.|||..|.+++++..+++.+|++|||||+||+|.|+|.+++|+.
T Consensus 805 ---k~rk-~k-----e~f~k~lvdpGPD~vVCDE~HiLKNeksa~Skam~~irtkRRI~LTGTPLQNNLmEY~CMVnFVK 875 (1567)
T KOG1015|consen 805 ---KSRK-LK-----EIFNKALVDPGPDFVVCDEGHILKNEKSAVSKAMNSIRTKRRIILTGTPLQNNLMEYHCMVNFVK 875 (1567)
T ss_pred ---hhhH-HH-----HHHHHhccCCCCCeEEecchhhhccchHHHHHHHHHHHhheeEEeecCchhhhhHHHHHHHHhcc
Confidence 1111 00 00112356667899999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCChhhhHHHhcCCCcCCch------------hHHHHHHHHHHHHhhhcccccccccCCCCCceEEEEEecCCHHHH
Q 001475 402 SSPFSISRWWIEVIRDPYENGDV------------GAMEFTHKFFKEIMCRSSKVHVSDELQLPPQEECVSWLTFSPIEE 469 (1071)
Q Consensus 402 p~~~~~~~~F~~~~~~p~~~~~~------------~~~~~L~~~L~~~mlRRtK~dV~~el~LPpk~e~vv~v~lS~~Q~ 469 (1071)
|+.+|+...|+++|.+||..|.. ....-|+..|+.++-|+...-+... ||||+++||.|.||+.|.
T Consensus 876 e~lLGs~~EfrNRFvNpI~nGq~~dST~~DVr~Mk~RsHILye~LkgcVqRkDy~Vltk~--LPPK~eyVi~vrltelQ~ 953 (1567)
T KOG1015|consen 876 ENLLGSIKEFRNRFVNPIQNGQCADSTMVDVRVMKKRSHILYEMLKGCVQRKDYTVLTKF--LPPKHEYVIAVRLTELQC 953 (1567)
T ss_pred cccccCcHHHHHhhcCccccCccCCCcHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhccc--CCCceeEEEEEeccHHHH
Confidence 99999999999999999999842 1335688899999999888777665 999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCCccCcccchhhHHHHHHHHHHHHHHccCCCCCC----------
Q 001475 470 HFYQSQHETCVGYAREVIQRLKDNILKRNVPGHASSDALYNPIITHAEAAKLLNSLLKLRQACCHPQVGS---------- 539 (1071)
Q Consensus 470 ~~Y~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~il~~L~rLRQiC~HP~L~~---------- 539 (1071)
.+|+.+++.. . .++ .+..++ +.-...+|.....|++|-+||....
T Consensus 954 ~LYq~yL~h~-~----------------~~G----~d~eg~----~g~~arlf~dfqmlsrIwtHP~~lqL~s~~~enkR 1008 (1567)
T KOG1015|consen 954 KLYQYYLDHL-T----------------GVG----NDSEGG----RGAGARLFQDFQMLSRIWTHPWCLQLDSISKENKR 1008 (1567)
T ss_pred HHHHHHHhhc-c----------------ccC----Cccccc----cchhhhHHHHHHHHHHHhcCCCceeechhhhhhcc
Confidence 9999876621 0 011 111111 1124578999999999999997410
Q ss_pred ---C----Ccc-------------------------c-----cc----------------------CC--------CCC-
Q 001475 540 ---S----GLR-------------------------S-----LQ----------------------QS--------PLS- 551 (1071)
Q Consensus 540 ---~----~~~-------------------------~-----~~----------------------~~--------~~t- 551 (1071)
. .+. + .. .+ +-+
T Consensus 1009 ~~seddm~~fi~D~sde~e~s~~s~d~~~~~ks~~~s~~Desss~~~~~g~~ev~k~k~rk~r~~~~~~~~~~g~~~D~~ 1088 (1567)
T KOG1015|consen 1009 YFSEDDMDEFIADDSDETEMSLSSDDYTKKKKSGKKSKKDESSSGSGSDGDVEVIKVKNRKSRGGGEGNVDETGNNPDVS 1088 (1567)
T ss_pred cccccchhccccCCCccccccccccchhhcccccccccccccccccccCCchhhhhhhhhhccccccCcccccCCCcchH
Confidence 0 000 0 00 00 000
Q ss_pred --HH-------------------HHH-------------HHHHHHHHHhhhhhhhhHHHHhhhHhhHHHHHHhHHHHHHH
Q 001475 552 --MD-------------------EIL-------------MVLIGKTKIEGEEALRKLVMALNGLAGIALIEKNLSQAVSL 597 (1071)
Q Consensus 552 --~~-------------------elL-------------~~Ll~~~~~e~~~~~rk~l~~sq~~a~L~ii~~~~~~a~~~ 597 (1071)
+. +++ ..||-.+...|++-+.++|||||.+.-|++|+..+......
T Consensus 1089 l~ll~dlag~~s~~~d~ppew~kd~v~e~d~~v~~~SgKmiLLleIL~mceeIGDKlLVFSQSL~SLdLIe~fLe~v~r~ 1168 (1567)
T KOG1015|consen 1089 LKLLEDLAGSSSNPSDPPPEWYKDFVTEADAEVLEHSGKMILLLEILRMCEEIGDKLLVFSQSLISLDLIEDFLELVSRE 1168 (1567)
T ss_pred HHHhhcccccccCCCCCchHhHHhhhhhhhhhhhhcCcceehHHHHHHHHHHhcceeEEeecccchhHHHHHHHHhhccc
Confidence 00 011 11333455678888899999999999999999987654322
Q ss_pred -----------------------HH--H--HHHHHHHHhhccCCCCCcCc---------------------eeEeeCCcC
Q 001475 598 -----------------------YK--E--AMAVVEEHSEDFRLDPLLNI---------------------HLHHNLTEI 629 (1071)
Q Consensus 598 -----------------------y~--~--~l~~~~~~~~~f~~D~~~~~---------------------~~~~nl~~w 629 (1071)
|+ + .-..++..++.|+.....+. +|+++- .|
T Consensus 1169 gk~~~d~~~~~~~eGkW~~GkDyyriDGst~s~~R~k~~~~FNdp~NlRaRl~LISTRAGsLGiNLvAANRVIIfDa-sW 1247 (1567)
T KOG1015|consen 1169 GKEDKDKPLIYKGEGKWLRGKDYYRLDGSTTSQSRKKWAEEFNDPTNLRARLFLISTRAGSLGINLVAANRVIIFDA-SW 1247 (1567)
T ss_pred CccccccccccccccceecCCceEEecCcccHHHHHHHHHHhcCcccceeEEEEEeeccCccccceeecceEEEEec-cc
Confidence 11 1 12255666666643222111 333443 49
Q ss_pred Cchhhhhhh-hhhhcCCCCceEEEeccccCCccccchhHhh
Q 001475 630 LPMVANCAT-ELSQNEQHFPGCSEKAFKIHSIETCDENARK 669 (1071)
Q Consensus 630 np~~~~QA~-R~hRiGQ~~~V~vyrl~t~~tiEE~~~~~~k 669 (1071)
||.-|.|++ ||||.||+|||.|||||+.||+||+|...|=
T Consensus 1248 NPSyDtQSIFRvyRfGQtKPvyiYRfiAqGTmEeKIYkRQV 1288 (1567)
T KOG1015|consen 1248 NPSYDTQSIFRVYRFGQTKPVYIYRFIAQGTMEEKIYKRQV 1288 (1567)
T ss_pred CCccchHHHHHHHhhcCcCceeehhhhhcccHHHHHHHHHH
Confidence 999999999 9999999999999999999999999987653
No 17
>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=100.00 E-value=2.5e-46 Score=419.93 Aligned_cols=241 Identities=32% Similarity=0.522 Sum_probs=189.7
Q ss_pred CcEEEEeCchhHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcchh
Q 001475 248 GATLIVCPAPILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGDR 327 (1071)
Q Consensus 248 ~~tLIV~P~SLl~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~~ 327 (1071)
+++|||||++++.||..|+.+|+.++++++++|.|.... ..........++++|+||+++......
T Consensus 59 ~~~LIv~P~~l~~~W~~E~~~~~~~~~~~v~~~~~~~~~-----~~~~~~~~~~~~vvi~ty~~~~~~~~~--------- 124 (299)
T PF00176_consen 59 KKTLIVVPSSLLSQWKEEIEKWFDPDSLRVIIYDGDSER-----RRLSKNQLPKYDVVITTYETLRKARKK--------- 124 (299)
T ss_dssp S-EEEEE-TTTHHHHHHHHHHHSGT-TS-EEEESSSCHH-----HHTTSSSCCCSSEEEEEHHHHH--TST---------
T ss_pred cceeEeeccchhhhhhhhhcccccccccccccccccccc-----ccccccccccceeeecccccccccccc---------
Confidence 469999999999999999999997668999999998611 112344567899999999999911100
Q ss_pred hhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCCCCChhhhhccccccCCCCCCC
Q 001475 328 RFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQRKLDDLYGLLRFLKSSPFSI 407 (1071)
Q Consensus 328 ~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPiqN~l~DL~~LL~FL~p~~~~~ 407 (1071)
.....+..++|++||+||||.+||..|..++++..+.+.++|+|||||++|++.|||++++||+|+.+++
T Consensus 125 ----------~~~~~l~~~~~~~vIvDEaH~~k~~~s~~~~~l~~l~~~~~~lLSgTP~~n~~~dl~~~l~~L~~~~~~~ 194 (299)
T PF00176_consen 125 ----------KDKEDLKQIKWDRVIVDEAHRLKNKDSKRYKALRKLRARYRWLLSGTPIQNSLEDLYSLLRFLNPDPFSD 194 (299)
T ss_dssp ----------HTTHHHHTSEEEEEEETTGGGGTTTTSHHHHHHHCCCECEEEEE-SS-SSSGSHHHHHHHHHHCTTTCSS
T ss_pred ----------ccccccccccceeEEEecccccccccccccccccccccceEEeeccccccccccccccchheeecccccc
Confidence 0013477788999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhHHHhcCCCcCCchhHHHHHHHHHHHHhhhcccccccccCCCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHH
Q 001475 408 SRWWIEVIRDPYENGDVGAMEFTHKFFKEIMCRSSKVHVSDELQLPPQEECVSWLTFSPIEEHFYQSQHETCVGYAREVI 487 (1071)
Q Consensus 408 ~~~F~~~~~~p~~~~~~~~~~~L~~~L~~~mlRRtK~dV~~el~LPpk~e~vv~v~lS~~Q~~~Y~~~~~~~~~~~~~~~ 487 (1071)
...|.+.+..+...........|..+++++++||+++++. ..||++.+.++.++||+.|+.+|+.+.........
T Consensus 195 ~~~f~~~~~~~~~~~~~~~~~~L~~~l~~~~~r~~~~d~~--~~lp~~~~~~~~~~ls~~q~~~Y~~~~~~~~~~~~--- 269 (299)
T PF00176_consen 195 RRSFKKWFYRPDKENSYENIERLRELLSEFMIRRTKKDVE--KELPPKIEHVINVELSPEQRELYNELLKEARENLK--- 269 (299)
T ss_dssp HHHHHHHTHHHHHTHHHHHHHHHHHHHCCCEECHCGGGGC--TTSTCEEEEEEEEGG-HHHHHHHHHHHHHHGGCCT---
T ss_pred chhhhhhhhhhccccccccccccccccchhhhhhhccccc--ccCCceEEEEEEeCCCHHHHHHHHHHHHHHHHHHH---
Confidence 9999998866534445667889999999999999999993 45999999999999999999999987654322110
Q ss_pred HHHHHHHhhccCCCCCCCCCccCcccchhhHHHHHHHHHHHHHHccCCCCC
Q 001475 488 QRLKDNILKRNVPGHASSDALYNPIITHAEAAKLLNSLLKLRQACCHPQVG 538 (1071)
Q Consensus 488 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~il~~L~rLRQiC~HP~L~ 538 (1071)
. ...........++..+++|||+||||.|+
T Consensus 270 ---------~------------~~~~~~~~~~~~~~~~~~lr~~c~hp~l~ 299 (299)
T PF00176_consen 270 ---------Q------------SSRKKSKKLSSLLQILKRLRQVCNHPYLV 299 (299)
T ss_dssp ---------T-------------T--TCHHHHHHHHHHHHHHHHHH-THHC
T ss_pred ---------h------------hcccchhhHHHHHHHHHHHHHHhCCcccC
Confidence 0 00122345788999999999999999874
No 18
>KOG1000 consensus Chromatin remodeling protein HARP/SMARCAL1, DEAD-box superfamily [Chromatin structure and dynamics]
Probab=100.00 E-value=3.2e-41 Score=373.62 Aligned_cols=339 Identities=15% Similarity=0.150 Sum_probs=228.7
Q ss_pred CcEEEEeCchhHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcchh
Q 001475 248 GATLIVCPAPILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGDR 327 (1071)
Q Consensus 248 ~~tLIV~P~SLl~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~~ 327 (1071)
+|.|||||+|+...|.+++.+|++ .-..+.+..+..+. .+.-....-|+|+||+.+....
T Consensus 242 wplliVcPAsvrftWa~al~r~lp-s~~pi~vv~~~~D~--------~~~~~t~~~v~ivSye~ls~l~----------- 301 (689)
T KOG1000|consen 242 WPLLIVCPASVRFTWAKALNRFLP-SIHPIFVVDKSSDP--------LPDVCTSNTVAIVSYEQLSLLH----------- 301 (689)
T ss_pred CcEEEEecHHHhHHHHHHHHHhcc-cccceEEEecccCC--------ccccccCCeEEEEEHHHHHHHH-----------
Confidence 689999999999999999999993 22345555554331 1122233459999999998754
Q ss_pred hhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhc--ccCceEEEeCcCCCCChhhhhccccccCCCCC
Q 001475 328 RFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRL--YAKHRWCITGTPIQRKLDDLYGLLRFLKSSPF 405 (1071)
Q Consensus 328 ~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L--~a~~Rw~LTGTPiqN~l~DL~~LL~FL~p~~~ 405 (1071)
..|..-.|..||+||.|++|+..+++.+++..+ .+.|.++|||||--.++.|||.++..+++-.|
T Consensus 302 -------------~~l~~~~~~vvI~DEsH~Lk~sktkr~Ka~~dllk~akhvILLSGTPavSRP~elytqi~avd~tlf 368 (689)
T KOG1000|consen 302 -------------DILKKEKYRVVIFDESHMLKDSKTKRTKAATDLLKVAKHVILLSGTPAVSRPSELYTQIRAVDHTLF 368 (689)
T ss_pred -------------HHHhcccceEEEEechhhhhccchhhhhhhhhHHHHhhheEEecCCcccCCchhhhhhhhhhccccc
Confidence 246677799999999999999999999999876 58899999999999999999999999999999
Q ss_pred CChhhhHHHhcCCCc------CCchhHHHHHHHHHHH-HhhhcccccccccCCCCCceEEEEEecCCHHHHHHHHHHHHH
Q 001475 406 SISRWWIEVIRDPYE------NGDVGAMEFTHKFFKE-IMCRSSKVHVSDELQLPPQEECVSWLTFSPIEEHFYQSQHET 478 (1071)
Q Consensus 406 ~~~~~F~~~~~~p~~------~~~~~~~~~L~~~L~~-~mlRRtK~dV~~el~LPpk~e~vv~v~lS~~Q~~~Y~~~~~~ 478 (1071)
.++..|-..|++.-. ..+..+.++|+.+|.. +|+||+|.||+.+ ||||...++++ ..+.+-..-+++...
T Consensus 369 p~f~efa~rYCd~k~vr~~~Dykg~tnl~EL~~lL~k~lMIRRlK~dvL~q--LPpKrr~Vv~~-~~gr~da~~~~lv~~ 445 (689)
T KOG1000|consen 369 PNFHEFAIRYCDGKQVRFCFDYKGCTNLEELAALLFKRLMIRRLKADVLKQ--LPPKRREVVYV-SGGRIDARMDDLVKA 445 (689)
T ss_pred ccHHHHHHHhcCccccceeeecCCCCCHHHHHHHHHHHHHHHHHHHHHHhh--CCccceEEEEE-cCCccchHHHHHHHH
Confidence 999999999986422 1233467788877654 7999999999887 99996555544 444443333333322
Q ss_pred HHHHHHHHHHHHHHHHhhccCCCCCCCCCccCcccchhhHHHHHHHHHHHHHHccCCCCCCCCcccccCCCCCHHHHHHH
Q 001475 479 CVGYAREVIQRLKDNILKRNVPGHASSDALYNPIITHAEAAKLLNSLLKLRQACCHPQVGSSGLRSLQQSPLSMDEILMV 558 (1071)
Q Consensus 479 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~il~~L~rLRQiC~HP~L~~~~~~~~~~~~~t~~elL~~ 558 (1071)
....... +.. -.+-...++.-++.- .....-+.+-
T Consensus 446 a~~~t~~-------~~~----------------------e~~~~~l~l~y~~tg----------------iaK~~av~ey 480 (689)
T KOG1000|consen 446 AADYTKV-------NSM----------------------ERKHESLLLFYSLTG----------------IAKAAAVCEY 480 (689)
T ss_pred hhhcchh-------hhh----------------------hhhhHHHHHHHHHhc----------------ccccHHHHHH
Confidence 1110000 000 001111122111110 0000111111
Q ss_pred HHHHHHHhhhhhhhhHHHHhhhHhhHHHHHHhHHHHHHHH---HHHH--HHHHHHhhccCCCCCcCc--------eeEee
Q 001475 559 LIGKTKIEGEEALRKLVMALNGLAGIALIEKNLSQAVSLY---KEAM--AVVEEHSEDFRLDPLLNI--------HLHHN 625 (1071)
Q Consensus 559 Ll~~~~~e~~~~~rk~l~~sq~~a~L~ii~~~~~~a~~~y---~~~l--~~~~~~~~~f~~D~~~~~--------~~~~n 625 (1071)
++..- --+++..+|+|+|..-..+|+-|+.++.....-. .+.. ..++..+..|+.+.--.+ .++..
T Consensus 481 i~~~~-~l~d~~~~KflVFaHH~~vLd~Iq~~~~~r~vg~IRIDGst~s~~R~ll~qsFQ~seev~VAvlsItA~gvGLt 559 (689)
T KOG1000|consen 481 ILENY-FLPDAPPRKFLVFAHHQIVLDTIQVEVNKRKVGSIRIDGSTPSHRRTLLCQSFQTSEEVRVAVLSITAAGVGLT 559 (689)
T ss_pred HHhCc-ccccCCCceEEEEehhHHHHHHHHHHHHHcCCCeEEecCCCCchhHHHHHHHhccccceEEEEEEEeeccccee
Confidence 11100 0033344789999999999999998887664332 2222 145556677777664322 22333
Q ss_pred CC----------cCCchhhhhhh-hhhhcCCCCceEEEeccccCCccccchhHh
Q 001475 626 LT----------EILPMVANCAT-ELSQNEQHFPGCSEKAFKIHSIETCDENAR 668 (1071)
Q Consensus 626 l~----------~wnp~~~~QA~-R~hRiGQ~~~V~vyrl~t~~tiEE~~~~~~ 668 (1071)
++ .|||-+=.||. |+||||||-.|.||=|+++||++|..=.+.
T Consensus 560 ~tAa~~VVFaEL~wnPgvLlQAEDRaHRiGQkssV~v~ylvAKgT~Ddy~Wp~l 613 (689)
T KOG1000|consen 560 LTAASVVVFAELHWNPGVLLQAEDRAHRIGQKSSVFVQYLVAKGTADDYMWPML 613 (689)
T ss_pred eeccceEEEEEecCCCceEEechhhhhhccccceeeEEEEEecCchHHHHHHHH
Confidence 33 69999999999 999999999999999999999999754443
No 19
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=100.00 E-value=1.1e-39 Score=406.55 Aligned_cols=342 Identities=14% Similarity=0.156 Sum_probs=227.3
Q ss_pred CCcEEEEeCchhHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 247 TGATLIVCPAPILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 247 ~~~tLIV~P~SLl~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
.+++|||||++|+.||..|+.+++ ++.+.+|.+..-.... ......+..++++|+||+.++.+...
T Consensus 199 ~~rvLIVvP~sL~~QW~~El~~kF---~l~~~i~~~~~~~~~~---~~~~~pf~~~~~vI~S~~~l~~~~~~-------- 264 (956)
T PRK04914 199 AERVLILVPETLQHQWLVEMLRRF---NLRFSLFDEERYAEAQ---HDADNPFETEQLVICSLDFLRRNKQR-------- 264 (956)
T ss_pred CCcEEEEcCHHHHHHHHHHHHHHh---CCCeEEEcCcchhhhc---ccccCccccCcEEEEEHHHhhhCHHH--------
Confidence 468999999999999999999888 4778888766322110 01113345689999999999874211
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccccCCh---HHHHHHHHHhc--ccCceEEEeCcCCCCChhhhhccccccC
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESN---AAAATEMALRL--YAKHRWCITGTPIQRKLDDLYGLLRFLK 401 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~---~S~~~kal~~L--~a~~Rw~LTGTPiqN~l~DL~~LL~FL~ 401 (1071)
...+....|++||+||||++++. .|+.++.+..| ++.++++|||||+||++.|+|++|+||+
T Consensus 265 -------------~~~l~~~~wdlvIvDEAH~lk~~~~~~s~~y~~v~~La~~~~~~LLLTATP~q~~~~e~falL~lLd 331 (956)
T PRK04914 265 -------------LEQALAAEWDLLVVDEAHHLVWSEEAPSREYQVVEQLAEVIPGVLLLTATPEQLGQESHFARLRLLD 331 (956)
T ss_pred -------------HHHHhhcCCCEEEEechhhhccCCCCcCHHHHHHHHHhhccCCEEEEEcCcccCCcHHHHHhhhhhC
Confidence 01256678999999999999953 46678888887 5789999999999999999999999999
Q ss_pred CCCCCChhhhHHHhcC--CC-------cCCc---hhHHHHHH---------------------------HHH--------
Q 001475 402 SSPFSISRWWIEVIRD--PY-------ENGD---VGAMEFTH---------------------------KFF-------- 434 (1071)
Q Consensus 402 p~~~~~~~~F~~~~~~--p~-------~~~~---~~~~~~L~---------------------------~~L-------- 434 (1071)
|+.|+++..|.+.... |+ ..+. ......|. +++
T Consensus 332 P~~f~~~~~F~~e~~~~~~~a~~v~~l~~~~~~~~~~~~~l~~ll~~~~~~~l~~~~~~~~~~~~~~~~~~i~~L~d~hg 411 (956)
T PRK04914 332 PDRFHDYEAFVEEQQQYRPVADAVQALLAGEKLSDDALNALGELLGEQDIEPLLQAANSDSEEAQAARQELISELLDRHG 411 (956)
T ss_pred CCcCCCHHHHHHHHHhhHHHHHHHHHHhcCCcCCHHHHHHHHHHhcccchhHHHhhhcccccccHHHHHHHHHHHHhhcC
Confidence 9999999999764331 11 0111 11111111 112
Q ss_pred -HHHhhhcccccccccCCCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCCccCccc
Q 001475 435 -KEIMCRSSKVHVSDELQLPPQEECVSWLTFSPIEEHFYQSQHETCVGYAREVIQRLKDNILKRNVPGHASSDALYNPII 513 (1071)
Q Consensus 435 -~~~mlRRtK~dV~~el~LPpk~e~vv~v~lS~~Q~~~Y~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~ 513 (1071)
.++|+|+++++|. ++|++..+.+.+++.+.....+... .. ..... . +
T Consensus 412 ~~rvm~RntR~~v~---~fp~R~~~~~~l~~~~~y~~~~~~~---~~-------~~~~~----~---------------l 459 (956)
T PRK04914 412 TGRVLFRNTRAAVK---GFPKRELHPIPLPLPEQYQTAIKVS---LE-------ARARD----M---------------L 459 (956)
T ss_pred cceEEEeccHHhhc---CCCcCceeEeecCCCHHHHHHHHHh---HH-------HHHHh----h---------------c
Confidence 2688999999985 3899999999999977544333220 00 00000 0 0
Q ss_pred chhhHHHHHHHHHHHHHHccCCCCCCCCcccccCCCCCHHHHHHHHHHHHHHhhhhhhhhHHHHhhhHhhHHHHHHhHHH
Q 001475 514 THAEAAKLLNSLLKLRQACCHPQVGSSGLRSLQQSPLSMDEILMVLIGKTKIEGEEALRKLVMALNGLAGIALIEKNLSQ 593 (1071)
Q Consensus 514 ~~~~~~~il~~L~rLRQiC~HP~L~~~~~~~~~~~~~t~~elL~~Ll~~~~~e~~~~~rk~l~~sq~~a~L~ii~~~~~~ 593 (1071)
.+ ..++.. +... ... . + .-..-+.|..++.. .. ..|+|||++...+.+.|.+.+..
T Consensus 460 ~p---e~~~~~---~~~~--------~~~--~-~-~d~Ki~~L~~~L~~---~~---~~KvLVF~~~~~t~~~L~~~L~~ 515 (956)
T PRK04914 460 YP---EQIYQE---FEDN--------ATW--W-N-FDPRVEWLIDFLKS---HR---SEKVLVICAKAATALQLEQALRE 515 (956)
T ss_pred CH---HHHHHH---Hhhh--------hhc--c-c-cCHHHHHHHHHHHh---cC---CCeEEEEeCcHHHHHHHHHHHhh
Confidence 00 011110 0000 000 0 0 00112333333332 21 36999999999999999988843
Q ss_pred H----HHHHHH--HHHHHHHHhhccCCCC--C---------------cCc--eeEeeCCcCCchhhhhhh-hhhhcCCCC
Q 001475 594 A----VSLYKE--AMAVVEEHSEDFRLDP--L---------------LNI--HLHHNLTEILPMVANCAT-ELSQNEQHF 647 (1071)
Q Consensus 594 a----~~~y~~--~l~~~~~~~~~f~~D~--~---------------~~~--~~~~nl~~wnp~~~~QA~-R~hRiGQ~~ 647 (1071)
. ...|.+ ....+++..+.|+.+. . +.+ +++|++. |||....|++ |+|||||++
T Consensus 516 ~~Gi~~~~ihG~~s~~eR~~~~~~F~~~~~~~~VLIsTdvgseGlNlq~a~~VInfDlP-~nP~~~eQRIGR~~RiGQ~~ 594 (956)
T PRK04914 516 REGIRAAVFHEGMSIIERDRAAAYFADEEDGAQVLLCSEIGSEGRNFQFASHLVLFDLP-FNPDLLEQRIGRLDRIGQKH 594 (956)
T ss_pred ccCeeEEEEECCCCHHHHHHHHHHHhcCCCCccEEEechhhccCCCcccccEEEEecCC-CCHHHHHHHhcccccCCCCc
Confidence 2 222333 3335666667776532 1 222 4566666 9999999999 999999999
Q ss_pred ceEEEeccccCCccccchhHhhhhc
Q 001475 648 PGCSEKAFKIHSIETCDENARKCQR 672 (1071)
Q Consensus 648 ~V~vyrl~t~~tiEE~~~~~~k~k~ 672 (1071)
+|.||.+++++|++|.+....++|.
T Consensus 595 ~V~i~~~~~~~t~~e~i~~~~~~~l 619 (956)
T PRK04914 595 DIQIHVPYLEGTAQERLFRWYHEGL 619 (956)
T ss_pred eEEEEEccCCCCHHHHHHHHHhhhc
Confidence 9999999999999999999887755
No 20
>KOG1016 consensus Predicted DNA helicase, DEAD-box superfamily [General function prediction only]
Probab=100.00 E-value=2.9e-40 Score=377.98 Aligned_cols=394 Identities=17% Similarity=0.227 Sum_probs=261.8
Q ss_pred CCCcEEEEeCchhHHHHHHHHHHhcCC---------CCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhc
Q 001475 246 ATGATLIVCPAPILAQWDAEITRHTRP---------GSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDL 316 (1071)
Q Consensus 246 ~~~~tLIV~P~SLl~qW~~Ei~k~~~~---------~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~ 316 (1071)
.++++|+|+|-.++.||..||..|.++ .++.|+++....+. +..+......+.....|+++.|++++--.
T Consensus 311 ~AKtVL~ivPiNTlQNWlsEfnmWiP~y~sD~~vrpR~F~vf~LnD~~KT-~~~Rakvi~~Wv~~GGVlLvGYemfRLL~ 389 (1387)
T KOG1016|consen 311 KAKTVLVIVPINTLQNWLSEFNMWIPKYFSDTGVRPRSFEVFLLNDGVKT-FDQRAKVIEQWVQTGGVLLVGYEMFRLLI 389 (1387)
T ss_pred ccceEEEEEehHHHHHHHHHhhhhcCCCcccCCCccceeEEEEecCchhh-HHHHHHHHHHHhccCCEEEehHHHHHHHH
Confidence 457899999999999999999999953 13556665544322 11222333456677889999999988654
Q ss_pred ccCCCCCc---c-----------hhhhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhcccCceEEEe
Q 001475 317 SHDSDRHE---G-----------DRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCIT 382 (1071)
Q Consensus 317 ~~~~~~~~---~-----------~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LT 382 (1071)
........ . +....+.+.-|..+.+.|..-..|+||+||+|+|||..+.++.++..+++++|++||
T Consensus 390 lk~~~~~grpkkt~kr~~~~~i~~d~eD~~qe~~~li~~AL~~PGPDlVICDEGHrIKN~~A~iS~aLk~IrtrRRiVLT 469 (1387)
T KOG1016|consen 390 LKTLPKKGRPKKTLKRISSGFIKDDSEDQRQEAYSLIRSALLEPGPDLVICDEGHRIKNITAEISMALKAIRTRRRIVLT 469 (1387)
T ss_pred HhcccccCCccccccccCCcccCCchhhhHHHHHHHHHHHhcCCCCCeEEecCCceeccchHHHHHHHHHhhhceeEEEe
Confidence 32110000 0 000001111223344667788899999999999999999999999999999999999
Q ss_pred CcCCCCChhhhhccccccCCCCCCChhhhHHHhcCCCcCCc-----hh-------HHHHHHHHHHHHhhhcccccccccC
Q 001475 383 GTPIQRKLDDLYGLLRFLKSSPFSISRWWIEVIRDPYENGD-----VG-------AMEFTHKFFKEIMCRSSKVHVSDEL 450 (1071)
Q Consensus 383 GTPiqN~l~DL~~LL~FL~p~~~~~~~~F~~~~~~p~~~~~-----~~-------~~~~L~~~L~~~mlRRtK~dV~~el 450 (1071)
|-|+||++-|.|.+++|++|.++|+...|...|.+||..|. ++ ....|+.++..|+-||+-.-+. +
T Consensus 470 GYPLQNNLlEYwCMVDFVRP~yLGTR~eF~nmFErPI~NGQCvDStPdDvklmryRtHVLhsLl~GFVQRR~HtvLk--~ 547 (1387)
T KOG1016|consen 470 GYPLQNNLLEYWCMVDFVRPKYLGTRKEFINMFERPIKNGQCVDSTPDDVKLMRYRTHVLHSLLKGFVQRRTHTVLK--K 547 (1387)
T ss_pred ccccccchHHHhhhheeccccccchHHHHHHHhhccccCCccccCChhHHHHHHHHHHHHHHHHHHHHHhcchhhHh--h
Confidence 99999999999999999999999999999999999999873 11 3356889999999999987664 4
Q ss_pred CCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCCccCcccchhhHHHHHHHHHHHHH
Q 001475 451 QLPPQEECVSWLTFSPIEEHFYQSQHETCVGYAREVIQRLKDNILKRNVPGHASSDALYNPIITHAEAAKLLNSLLKLRQ 530 (1071)
Q Consensus 451 ~LPpk~e~vv~v~lS~~Q~~~Y~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~il~~L~rLRQ 530 (1071)
-||.+.|+|+.|.+|..||++|+.+.-... + .+.... ++. .+.|.++.---+
T Consensus 548 ~LP~k~EyViLvr~s~iQR~LY~~Fm~d~~----------r-~~~~~~-----------~~~------~NPLkAF~vCcK 599 (1387)
T KOG1016|consen 548 ILPEKKEYVILVRKSQIQRQLYRNFMLDAK----------R-EIAANN-----------DAV------FNPLKAFSVCCK 599 (1387)
T ss_pred hcccccceEEEEeHHHHHHHHHHHHHHHHH----------H-hhcccc-----------ccc------cChHHHHHHHHH
Confidence 499999999999999999999998752211 1 111010 000 012222333344
Q ss_pred HccCCCCCC---------------------CCccc---------------c--------c--C----------------C
Q 001475 531 ACCHPQVGS---------------------SGLRS---------------L--------Q--Q----------------S 548 (1071)
Q Consensus 531 iC~HP~L~~---------------------~~~~~---------------~--------~--~----------------~ 548 (1071)
|-|||.+.- .+... + . + .
T Consensus 600 IWNHPDVLY~~l~k~~~a~e~dl~vee~~~ag~~~~~~P~~~~~~~~s~~laSs~~k~~n~t~kp~~s~~~p~f~ee~~e 679 (1387)
T KOG1016|consen 600 IWNHPDVLYRLLEKKKRAEEDDLRVEEMKFAGLQQQQSPFNSIPSNPSTPLASSTSKSANKTKKPRGSKKAPKFDEEDEE 679 (1387)
T ss_pred hcCChHHHHHHHHHhhhhhhhhhhHHHHhhhcccccCCCCCCCCCCCCCcccchhhhhhcccCCcccCcCCCCccccccc
Confidence 557776410 00000 0 0 0 0
Q ss_pred CCCHHHHHHHHHHHHH-----------------HhhhhhhhhHHHHhhhHhhHHHHHHhHHHHH----------------
Q 001475 549 PLSMDEILMVLIGKTK-----------------IEGEEALRKLVMALNGLAGIALIEKNLSQAV---------------- 595 (1071)
Q Consensus 549 ~~t~~elL~~Ll~~~~-----------------~e~~~~~rk~l~~sq~~a~L~ii~~~~~~a~---------------- 595 (1071)
..+-.+.-.+|..+-. .+....+.++|+|||-+..|++|+..+...-
T Consensus 680 ~~~y~~w~~el~~nYq~gvLen~pk~V~~~~~~des~~~g~kil~fSq~l~~Ld~ieeil~krq~pc~~gdnG~~aqkW~ 759 (1387)
T KOG1016|consen 680 VEKYSDWTFELFENYQEGVLENGPKIVISLEILDESTQIGEKILIFSQNLTALDMIEEILKKRQIPCKDGDNGCPAQKWE 759 (1387)
T ss_pred ccchhhHHHHHHhhhhcccccCCCceEEEEeeeccccccCceEEEeecchhHHHHHHHHHhcccccCCCCCCCCchhhhh
Confidence 0000011111222111 1222334689999999999999987554321
Q ss_pred --HHHH---HHH--HHHHHHhhccCCCCCcC----c-----eeEeeCC----------cCCchhhhhhh-hhhhcCCCCc
Q 001475 596 --SLYK---EAM--AVVEEHSEDFRLDPLLN----I-----HLHHNLT----------EILPMVANCAT-ELSQNEQHFP 648 (1071)
Q Consensus 596 --~~y~---~~l--~~~~~~~~~f~~D~~~~----~-----~~~~nl~----------~wnp~~~~QA~-R~hRiGQ~~~ 648 (1071)
..|- ++. ..++..+.+|+..+-.. + ..++||. -|||--+.||. |++|-||+|+
T Consensus 760 ~n~sy~rldG~t~a~~rekLinqfN~e~~lsWlfllstrag~lGinLIsanr~~ifda~wnpchdaqavcRvyrYGQ~Kp 839 (1387)
T KOG1016|consen 760 KNRSYLRLDGTTSAADREKLINQFNSEPGLSWLFLLSTRAGSLGINLISANRCIIFDACWNPCHDAQAVCRVYRYGQQKP 839 (1387)
T ss_pred hccceecccCCcccchHHHHHHhccCCCCceeeeeehhccccccceeeccceEEEEEeecCccccchhhhhhhhhcCcCc
Confidence 1121 111 14455555654443211 1 3344444 59999999999 9999999999
Q ss_pred eEEEeccccCCccccchhHhhh
Q 001475 649 GCSEKAFKIHSIETCDENARKC 670 (1071)
Q Consensus 649 V~vyrl~t~~tiEE~~~~~~k~ 670 (1071)
..|||||.-.|.|-+|.+.+=.
T Consensus 840 cfvYRlVmD~~lEkkIydRQIs 861 (1387)
T KOG1016|consen 840 CFVYRLVMDNSLEKKIYDRQIS 861 (1387)
T ss_pred eeEEeehhhhhhHHHHHHHHHh
Confidence 9999999999999999887643
No 21
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=100.00 E-value=1e-38 Score=379.37 Aligned_cols=303 Identities=21% Similarity=0.352 Sum_probs=242.0
Q ss_pred CCcEEEEeCchhHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccc-----------------cccchhhhcCCcEEEEeH
Q 001475 247 TGATLIVCPAPILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDT-----------------SIMDISELVGADIVLTTY 309 (1071)
Q Consensus 247 ~~~tLIV~P~SLl~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~-----------------~~~~~~~l~~~dVVItTY 309 (1071)
.+|.||++|.+.+.+|..|+..|+ |++.+..|+|..+.+...+ ..........+.+.+++|
T Consensus 345 ~~P~Lv~ap~sT~~nwe~e~~~wa--p~~~vv~~~G~~k~r~iirepe~s~ed~~~~~~~~i~~~~~~s~~k~~vl~~s~ 422 (696)
T KOG0383|consen 345 PGPPLVVAPLSTIVNWEREFELWA--PSFYVVPYPGTAKSRAIIREPEFSFEDSSIKSSPKISEMKTESSAKFHVLLPSY 422 (696)
T ss_pred CCCceeeccCccccCCCCchhccC--CCcccccCCCCccchhhhhcccccccccccccCCccccccchhhcccccCCCch
Confidence 479999999999999999999999 7899999999876432100 000112335677888888
Q ss_pred HHHHhhcccCCCCCcchhhhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCCCCC
Q 001475 310 DVLKEDLSHDSDRHEGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQRK 389 (1071)
Q Consensus 310 ~~l~~d~~~~~~~~~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPiqN~ 389 (1071)
++...+. +.+..+.|..+|+||+|++||..|...+.+......+++++||||.||+
T Consensus 423 ~~~~~~~------------------------~il~~v~w~~livde~~rlkn~~s~~f~~l~~~~~~~~~lltgtPlqnn 478 (696)
T KOG0383|consen 423 ETIEIDQ------------------------SILFSVQWGLLIVDEAHRLKNKQSKRFRVLTAYPIDSKLLLTGTPLQNN 478 (696)
T ss_pred hhcccCH------------------------HHHhhhhcceeEeechhhcccchhhhhhhccccccchhhhccCCcchhh
Confidence 8877664 4699999999999999999999999999999999999999999999999
Q ss_pred hhhhhccccccCCCCCCChhhhHHHhcCCCcCCchhHHHHHHHHHHHHhhhcccccccccCCCCCceEEEEEecCCHHHH
Q 001475 390 LDDLYGLLRFLKSSPFSISRWWIEVIRDPYENGDVGAMEFTHKFFKEIMCRSSKVHVSDELQLPPQEECVSWLTFSPIEE 469 (1071)
Q Consensus 390 l~DL~~LL~FL~p~~~~~~~~F~~~~~~p~~~~~~~~~~~L~~~L~~~mlRRtK~dV~~el~LPpk~e~vv~v~lS~~Q~ 469 (1071)
+.+|+++|+||.|+.|++..+|.+.|.+-. ..+.++.|+.++.|.|+||.|.||.+. .|+|++.++.+.||+.|+
T Consensus 479 ~~el~~ll~flt~~~~~~~~~f~e~~~d~~---~~~~~~~l~~l~~p~~lrr~k~d~l~~--~P~Kte~i~~~~~~~~Q~ 553 (696)
T KOG0383|consen 479 LEELFNLLNFLTPGRFNSLEWFLEEFHDIS---CEEQIKKLHLLLCPHMLRRLKLDVLKP--MPLKTELIGRVELSPCQK 553 (696)
T ss_pred hHHhhhcccccCcccccchhhhhhhcchhh---HHHHHHhhccccCchhhhhhhhhhccC--CCccceeEEEEecCHHHH
Confidence 999999999999999999999999887533 456788999999999999999999775 999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCCccCcccchhhHHHHHHHHHHHHHHccCCCCCCCCcccccCCC
Q 001475 470 HFYQSQHETCVGYAREVIQRLKDNILKRNVPGHASSDALYNPIITHAEAAKLLNSLLKLRQACCHPQVGSSGLRSLQQSP 549 (1071)
Q Consensus 470 ~~Y~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~il~~L~rLRQiC~HP~L~~~~~~~~~~~~ 549 (1071)
++|..++.+.....+. ......+++.+|.||++||||++... ...+....
T Consensus 554 ~~yk~~~t~n~~~l~~-----------------------------~~~~~s~~n~~mel~K~~~hpy~~~~-~e~~~~~~ 603 (696)
T KOG0383|consen 554 KYYKKILTRNWQGLLA-----------------------------GVHQYSLLNIVMELRKQCNHPYLSPL-EEPLEENG 603 (696)
T ss_pred HHHHHHHcCChHHHhh-----------------------------cchhHHHHHHHHHHHHhhcCcccCcc-ccccccch
Confidence 9999987643321111 11235788999999999999999876 22221111
Q ss_pred ----------CCHHHHHHHHHHHHHHhhhhhhhhHHHHhhhHhhHHHHHHhHHHHHHHHHHHHH-----HHHHHhhccCC
Q 001475 550 ----------LSMDEILMVLIGKTKIEGEEALRKLVMALNGLAGIALIEKNLSQAVSLYKEAMA-----VVEEHSEDFRL 614 (1071)
Q Consensus 550 ----------~t~~elL~~Ll~~~~~e~~~~~rk~l~~sq~~a~L~ii~~~~~~a~~~y~~~l~-----~~~~~~~~f~~ 614 (1071)
+.+-.+|..|+.+++.+| |+|++|+|++.||||+++.+.... .|....+ .+++..++|+.
T Consensus 604 ~~~~~~l~k~~~k~~~l~~~~~~l~~~g----hrvl~~~q~~~~ldlled~~~~~~-~~~r~dG~~~~~~rq~ai~~~n~ 678 (696)
T KOG0383|consen 604 EYLGSALIKASGKLTLLLKMLKKLKSSG----HRVLIFSQMIHMLDLLEDYLTYEG-KYERIDGPITGPERQAAIDRFNA 678 (696)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcc----hhhHHHHHHHHHHHHhHHHHhccC-cceeccCCccchhhhhhccccCC
Confidence 122335566666666665 999999999999999999998887 7776655 56666677764
Q ss_pred C
Q 001475 615 D 615 (1071)
Q Consensus 615 D 615 (1071)
-
T Consensus 679 ~ 679 (696)
T KOG0383|consen 679 P 679 (696)
T ss_pred C
Confidence 3
No 22
>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=2.5e-24 Score=261.28 Aligned_cols=299 Identities=15% Similarity=0.196 Sum_probs=176.2
Q ss_pred CcEEEEeCchh-HHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 248 GATLIVCPAPI-LAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 248 ~~tLIV~P~SL-l~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
+++|||||.+. +.||.+||.+|+.-+...+..|.|..+.. .....+|+|+||+++......... .
T Consensus 299 k~tLILvps~~Lv~QW~~ef~~~~~l~~~~I~~~tg~~k~~----------~~~~~~VvVtTYq~l~~~~~r~~~----~ 364 (732)
T TIGR00603 299 KSCLVLCTSAVSVEQWKQQFKMWSTIDDSQICRFTSDAKER----------FHGEAGVVVSTYSMVAHTGKRSYE----S 364 (732)
T ss_pred CCEEEEeCcHHHHHHHHHHHHHhcCCCCceEEEEecCcccc----------cccCCcEEEEEHHHhhcccccchh----h
Confidence 47999999875 89999999999744456777888864321 123578999999999765321000 0
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCCCCChhhhhcccccc-CCCCC
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQRKLDDLYGLLRFL-KSSPF 405 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPiqN~l~DL~~LL~FL-~p~~~ 405 (1071)
.. ....|....|++||+||+|++.+ ....+.+..+.+.+||+|||||++++ +.+..+.|+ +|..|
T Consensus 365 ~~----------~l~~l~~~~~gLII~DEvH~lpA--~~fr~il~~l~a~~RLGLTATP~ReD--~~~~~L~~LiGP~vy 430 (732)
T TIGR00603 365 EK----------VMEWLTNREWGLILLDEVHVVPA--AMFRRVLTIVQAHCKLGLTATLVRED--DKITDLNFLIGPKLY 430 (732)
T ss_pred hH----------HHHHhccccCCEEEEEccccccH--HHHHHHHHhcCcCcEEEEeecCcccC--CchhhhhhhcCCeee
Confidence 00 00124456899999999999964 34445677789999999999999875 344445444 33322
Q ss_pred CChhhhHHHhcCCCcCCchhHHHHHHHHHHHHhhhcccccccccCCCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHH
Q 001475 406 SISRWWIEVIRDPYENGDVGAMEFTHKFFKEIMCRSSKVHVSDELQLPPQEECVSWLTFSPIEEHFYQSQHETCVGYARE 485 (1071)
Q Consensus 406 ~~~~~F~~~~~~p~~~~~~~~~~~L~~~L~~~mlRRtK~dV~~el~LPpk~e~vv~v~lS~~Q~~~Y~~~~~~~~~~~~~ 485 (1071)
. ..|.+.+. ..-|.+-....++|+|++.+...|.....
T Consensus 431 e--~~~~eLi~--------------------------------~G~LA~~~~~ev~v~~t~~~~~~yl~~~~-------- 468 (732)
T TIGR00603 431 E--ANWMELQK--------------------------------KGFIANVQCAEVWCPMTPEFYREYLRENS-------- 468 (732)
T ss_pred e--cCHHHHHh--------------------------------CCccccceEEEEEecCCHHHHHHHHHhcc--------
Confidence 2 12222111 11256666677999999875433321000
Q ss_pred HHHHHHHHHhhccCCCCCCCCCccCcccchhhHHHHHHHHHHHHHHccCCCCCCCCcccccCCCCCHHHHHHHHHHHHHH
Q 001475 486 VIQRLKDNILKRNVPGHASSDALYNPIITHAEAAKLLNSLLKLRQACCHPQVGSSGLRSLQQSPLSMDEILMVLIGKTKI 565 (1071)
Q Consensus 486 ~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~il~~L~rLRQiC~HP~L~~~~~~~~~~~~~t~~elL~~Ll~~~~~ 565 (1071)
. ....+ +..+| ..-+.+..|+..-
T Consensus 469 -----------------------------~--~k~~l--------~~~np---------------~K~~~~~~Li~~h-- 492 (732)
T TIGR00603 469 -----------------------------R--KRMLL--------YVMNP---------------NKFRACQFLIRFH-- 492 (732)
T ss_pred -----------------------------h--hhhHH--------hhhCh---------------HHHHHHHHHHHHH--
Confidence 0 00000 11122 0113334444322
Q ss_pred hhhhhhhhHHHHhhhHhhHHHHHHhHHHHHHHHHHHHHHHHHHhhccCCCC-CcCc---------------eeEeeCC--
Q 001475 566 EGEEALRKLVMALNGLAGIALIEKNLSQAVSLYKEAMAVVEEHSEDFRLDP-LLNI---------------HLHHNLT-- 627 (1071)
Q Consensus 566 e~~~~~rk~l~~sq~~a~L~ii~~~~~~a~~~y~~~l~~~~~~~~~f~~D~-~~~~---------------~~~~nl~-- 627 (1071)
+...+++|||++.+..+..+...+.............|+...+.|+... ...+ .+.+++.
T Consensus 493 --e~~g~kiLVF~~~~~~l~~~a~~L~~~~I~G~ts~~ER~~il~~Fr~~~~i~vLv~SkVgdeGIDlP~a~vvI~~s~~ 570 (732)
T TIGR00603 493 --EQRGDKIIVFSDNVFALKEYAIKLGKPFIYGPTSQQERMQILQNFQHNPKVNTIFLSKVGDTSIDLPEANVLIQISSH 570 (732)
T ss_pred --hhcCCeEEEEeCCHHHHHHHHHHcCCceEECCCCHHHHHHHHHHHHhCCCccEEEEecccccccCCCCCCEEEEeCCC
Confidence 2245799999999888888877765333233333346677777776432 2211 2222222
Q ss_pred cCCchhhhhhhhhhhcCCCC--------ceEEEeccccCCccccchhHhhhhccccccC
Q 001475 628 EILPMVANCATELSQNEQHF--------PGCSEKAFKIHSIETCDENARKCQRVSREEN 678 (1071)
Q Consensus 628 ~wnp~~~~QA~R~hRiGQ~~--------~V~vyrl~t~~tiEE~~~~~~k~k~~~~~~~ 678 (1071)
.-++....| |++|+++.+ +..+|.|++++|.|+. ..+|||+-.-+..
T Consensus 571 ~gS~~q~iQ--RlGRilR~~~~~~~~~~~A~fY~lVs~dT~E~~--~s~~Rq~fl~~qG 625 (732)
T TIGR00603 571 YGSRRQEAQ--RLGRILRAKKGSDAEEYNAFFYSLVSKDTQEMY--YSTKRQRFLVDQG 625 (732)
T ss_pred CCCHHHHHH--HhcccccCCCCCccccccceEEEEecCCchHHH--HHHHHHHHHHHCC
Confidence 124444444 555555544 3678999999999987 5677777666554
No 23
>PRK13766 Hef nuclease; Provisional
Probab=99.79 E-value=1.5e-18 Score=220.35 Aligned_cols=367 Identities=11% Similarity=0.035 Sum_probs=189.2
Q ss_pred CcEEEEeCc-hhHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 248 GATLIVCPA-PILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 248 ~~tLIV~P~-SLl~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
+++|||||. .++.||.+++.+++..+..++.++.|..... ........++|+|+|++.+..+...
T Consensus 59 ~~vLvl~Pt~~L~~Q~~~~~~~~~~~~~~~v~~~~g~~~~~------~r~~~~~~~~iiv~T~~~l~~~l~~-------- 124 (773)
T PRK13766 59 GKVLILAPTKPLVEQHAEFFRKFLNIPEEKIVVFTGEVSPE------KRAELWEKAKVIVATPQVIENDLIA-------- 124 (773)
T ss_pred CeEEEEeCcHHHHHHHHHHHHHHhCCCCceEEEEeCCCCHH------HHHHHHhCCCEEEECHHHHHHHHHc--------
Confidence 589999998 6889999999999854445888888864321 1123345789999999999887532
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHh---cccCceEEEeCcCCCCChhhhhccccccCCC
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALR---LYAKHRWCITGTPIQRKLDDLYGLLRFLKSS 403 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~---L~a~~Rw~LTGTPiqN~l~DL~~LL~FL~p~ 403 (1071)
..+..-.|+.||+||||++.+..+...-+-.- .+..+.++|||||..+ ...+..++.-|...
T Consensus 125 --------------~~~~~~~~~liVvDEaH~~~~~~~~~~i~~~~~~~~~~~~il~lTaTP~~~-~~~i~~~~~~L~i~ 189 (773)
T PRK13766 125 --------------GRISLEDVSLLIFDEAHRAVGNYAYVYIAERYHEDAKNPLVLGLTASPGSD-EEKIKEVCENLGIE 189 (773)
T ss_pred --------------CCCChhhCcEEEEECCccccccccHHHHHHHHHhcCCCCEEEEEEcCCCCC-HHHHHHHHHhCCce
Confidence 11333468999999999998655433322211 2345689999999876 45555555544433
Q ss_pred CCCChhhh----HHHhcCCC----cCCchhHHHHHHHHHHHHhhhcccccccccCCCCCceEEEEEecCCHHHHHHHHHH
Q 001475 404 PFSISRWW----IEVIRDPY----ENGDVGAMEFTHKFFKEIMCRSSKVHVSDELQLPPQEECVSWLTFSPIEEHFYQSQ 475 (1071)
Q Consensus 404 ~~~~~~~F----~~~~~~p~----~~~~~~~~~~L~~~L~~~mlRRtK~dV~~el~LPpk~e~vv~v~lS~~Q~~~Y~~~ 475 (1071)
.+.....| ...+..+- .-.-+..+..++..+..++-++.+...... .+++....+...++...++.++..+
T Consensus 190 ~v~~~~~~~~~v~~~~~~~~v~~~~v~l~~~~~~i~~~l~~~~~~~l~~l~~~~-~~~~~~~~~~~~~l~~~~~~~~~~l 268 (773)
T PRK13766 190 HVEVRTEDDPDVKPYVHKVKIEWVRVELPEELKEIRDLLNEALKDRLKKLKELG-VIVSISPDVSKKELLGLQKKLQQEI 268 (773)
T ss_pred EEEEcCCCChhHHhhhccceeEEEEeCCcHHHHHHHHHHHHHHHHHHHHHHHCC-CcccCCCCcCHHHHHHHHHHHHHHh
Confidence 22211111 11111110 001234566788888888877766543211 1333322222233333333333322
Q ss_pred HHHHHH--HHHHH---HHHHHHHHhhccCCCCCCCCCccCcccchhhHHHHHHHHHHHHHHccCCCCCCC----------
Q 001475 476 HETCVG--YAREV---IQRLKDNILKRNVPGHASSDALYNPIITHAEAAKLLNSLLKLRQACCHPQVGSS---------- 540 (1071)
Q Consensus 476 ~~~~~~--~~~~~---~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~il~~L~rLRQiC~HP~L~~~---------- 540 (1071)
...-.. ..... +.++..... .+.......+...+.+++..+.++.-...
T Consensus 269 ~~~~~~~~~~~~~~~~~~~l~~~~~----------------~l~~~~~~~~~~y~~~l~~~~~~~~~~~~~~~l~~~~~~ 332 (773)
T PRK13766 269 ANDDSEGYEAISILAEAMKLRHAVE----------------LLETQGVEALRRYLERLREEARSSGGSKASKRLVEDPRF 332 (773)
T ss_pred hcCchHHHHHHHHHHHHHHHHHHHH----------------HHHHhCHHHHHHHHHHHHhhccccCCcHHHHHHHhCHHH
Confidence 110000 00000 000000000 00000011122222223222211110000
Q ss_pred -----CcccccCCCCCHHHHHHHHHHHHHHhhhhhhhhHHHHhhhHhhHHHHHHhHHHHHHH---HHHH--------H--
Q 001475 541 -----GLRSLQQSPLSMDEILMVLIGKTKIEGEEALRKLVMALNGLAGIALIEKNLSQAVSL---YKEA--------M-- 602 (1071)
Q Consensus 541 -----~~~~~~~~~~t~~elL~~Ll~~~~~e~~~~~rk~l~~sq~~a~L~ii~~~~~~a~~~---y~~~--------l-- 602 (1071)
..... .......+.|..++.....+ ....+++||+++....+.|.+.+...... +.+. +
T Consensus 333 ~~~~~~~~~~-~~~~pK~~~L~~il~~~~~~--~~~~kvlIF~~~~~t~~~L~~~L~~~~~~~~~~~g~~~~~~~~~~~~ 409 (773)
T PRK13766 333 RKAVRKAKEL-DIEHPKLEKLREIVKEQLGK--NPDSRIIVFTQYRDTAEKIVDLLEKEGIKAVRFVGQASKDGDKGMSQ 409 (773)
T ss_pred HHHHHHHHhc-ccCChHHHHHHHHHHHHHhc--CCCCeEEEEeCcHHHHHHHHHHHHhCCCceEEEEccccccccCCCCH
Confidence 00000 01112234445555443322 23479999999999999998877432111 1110 1
Q ss_pred HHHHHHhhccCCCCC-----------------cCceeEeeCCcCCchhhhhhhhhhhcCCCCceEEEeccccCCccccch
Q 001475 603 AVVEEHSEDFRLDPL-----------------LNIHLHHNLTEILPMVANCATELSQNEQHFPGCSEKAFKIHSIETCDE 665 (1071)
Q Consensus 603 ~~~~~~~~~f~~D~~-----------------~~~~~~~nl~~wnp~~~~QA~R~hRiGQ~~~V~vyrl~t~~tiEE~~~ 665 (1071)
..+.+..++|+.+.. ...+++|+.. |||..-.| |+||+|+..++.||.|++++|+||...
T Consensus 410 ~~r~~~~~~F~~g~~~vLvaT~~~~eGldi~~~~~VI~yd~~-~s~~r~iQ--R~GR~gR~~~~~v~~l~~~~t~ee~~y 486 (773)
T PRK13766 410 KEQIEILDKFRAGEFNVLVSTSVAEEGLDIPSVDLVIFYEPV-PSEIRSIQ--RKGRTGRQEEGRVVVLIAKGTRDEAYY 486 (773)
T ss_pred HHHHHHHHHHHcCCCCEEEECChhhcCCCcccCCEEEEeCCC-CCHHHHHH--HhcccCcCCCCEEEEEEeCCChHHHHH
Confidence 122334445544322 2225566654 88876444 888888888899999999999999754
Q ss_pred h
Q 001475 666 N 666 (1071)
Q Consensus 666 ~ 666 (1071)
.
T Consensus 487 ~ 487 (773)
T PRK13766 487 W 487 (773)
T ss_pred H
Confidence 3
No 24
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=99.49 E-value=1.3e-12 Score=154.97 Aligned_cols=298 Identities=16% Similarity=0.089 Sum_probs=170.0
Q ss_pred cEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcchh
Q 001475 249 ATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGDR 327 (1071)
Q Consensus 249 ~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~~ 327 (1071)
.||||||.. ++.||.+.+.+++..+ -.+..|.|..... .. .+|+|+||+++.+....
T Consensus 82 ~~Lvlv~~~~L~~Qw~~~~~~~~~~~-~~~g~~~~~~~~~---------~~---~~i~vat~qtl~~~~~l--------- 139 (442)
T COG1061 82 STLVLVPTKELLDQWAEALKKFLLLN-DEIGIYGGGEKEL---------EP---AKVTVATVQTLARRQLL--------- 139 (442)
T ss_pred CEEEEECcHHHHHHHHHHHHHhcCCc-cccceecCceecc---------CC---CcEEEEEhHHHhhhhhh---------
Confidence 499999987 6799999999988321 2456666653321 11 57999999999885210
Q ss_pred hhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhcccCc-eEEEeCcCCCCChhhhhccccccCCCCCC
Q 001475 328 RFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLYAKH-RWCITGTPIQRKLDDLYGLLRFLKSSPFS 406 (1071)
Q Consensus 328 ~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~-Rw~LTGTPiqN~l~DL~~LL~FL~p~~~~ 406 (1071)
..+..-.|+.||+||+|++..+... ..+..+.+.+ +++|||||...+-..+.-+..+++|
T Consensus 140 -------------~~~~~~~~~liI~DE~Hh~~a~~~~--~~~~~~~~~~~~LGLTATp~R~D~~~~~~l~~~~g~---- 200 (442)
T COG1061 140 -------------DEFLGNEFGLIIFDEVHHLPAPSYR--RILELLSAAYPRLGLTATPEREDGGRIGDLFDLIGP---- 200 (442)
T ss_pred -------------hhhcccccCEEEEEccccCCcHHHH--HHHHhhhcccceeeeccCceeecCCchhHHHHhcCC----
Confidence 1133337999999999999765533 2344455555 9999999985442233333333322
Q ss_pred ChhhhHHHhcCCCcCCchhHHHHHHHHHHHHhhhcccccccccCCCCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHH
Q 001475 407 ISRWWIEVIRDPYENGDVGAMEFTHKFFKEIMCRSSKVHVSDELQLPPQEECVSWLTFSPIEEHFYQSQHETCVGYAREV 486 (1071)
Q Consensus 407 ~~~~F~~~~~~p~~~~~~~~~~~L~~~L~~~mlRRtK~dV~~el~LPpk~e~vv~v~lS~~Q~~~Y~~~~~~~~~~~~~~ 486 (1071)
........+..++.-|.|.....+++.++..+...|...........+.
T Consensus 201 ------------------------------~vy~~~~~~li~~g~Lap~~~~~i~~~~t~~~~~~~~~~~~~~~~~~~~- 249 (442)
T COG1061 201 ------------------------------IVYEVSLKELIDEGYLAPYKYVEIKVTLTEDEEREYAKESARFRELLRA- 249 (442)
T ss_pred ------------------------------eEeecCHHHHHhCCCccceEEEEEEeccchHHHHHhhhhhhhhhhhhhh-
Confidence 2222222222223348899999999999999999999754432111000
Q ss_pred HHHHHHHHhhccCCCCCCCCCccCcccchhhHHHHHHHHHHHHHHccCCCCCCCCcccccCCCCCHHHHHHHHHHHHHHh
Q 001475 487 IQRLKDNILKRNVPGHASSDALYNPIITHAEAAKLLNSLLKLRQACCHPQVGSSGLRSLQQSPLSMDEILMVLIGKTKIE 566 (1071)
Q Consensus 487 ~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~il~~L~rLRQiC~HP~L~~~~~~~~~~~~~t~~elL~~Ll~~~~~e 566 (1071)
+ .. ....-..+.+..+ .. .....+..++..-.
T Consensus 250 ----------~--------------------~~--~~~~~~~~~~~~~-------------~~-~~~~~~~~~~~~~~-- 281 (442)
T COG1061 250 ----------R--------------------GT--LRAENEARRIAIA-------------SE-RKIAAVRGLLLKHA-- 281 (442)
T ss_pred ----------h--------------------hh--hhHHHHHHHHhhc-------------cH-HHHHHHHHHHHHhc--
Confidence 0 00 0000001111100 00 00111222221111
Q ss_pred hhhhhhhHHHHhhhHhhHHHHHHhHHHH----HHHHHHHHHHHHHHhhccCCCCCcCcee------EeeCC---------
Q 001475 567 GEEALRKLVMALNGLAGIALIEKNLSQA----VSLYKEAMAVVEEHSEDFRLDPLLNIHL------HHNLT--------- 627 (1071)
Q Consensus 567 ~~~~~rk~l~~sq~~a~L~ii~~~~~~a----~~~y~~~l~~~~~~~~~f~~D~~~~~~~------~~nl~--------- 627 (1071)
...++++|.........|...+... ..........+++..+.|+...+.-+.. +++..
T Consensus 282 ---~~~~~lif~~~~~~a~~i~~~~~~~~~~~~it~~t~~~eR~~il~~fr~g~~~~lv~~~vl~EGvDiP~~~~~i~~~ 358 (442)
T COG1061 282 ---RGDKTLIFASDVEHAYEIAKLFLAPGIVEAITGETPKEEREAILERFRTGGIKVLVTVKVLDEGVDIPDADVLIILR 358 (442)
T ss_pred ---CCCcEEEEeccHHHHHHHHHHhcCCCceEEEECCCCHHHHHHHHHHHHcCCCCEEEEeeeccceecCCCCcEEEEeC
Confidence 2257777877777777777766555 3334444445666667776644332211 23332
Q ss_pred -cCCchhhhhhh-hhhh-cCCCCc--eEEEeccccCCccccchhHhh
Q 001475 628 -EILPMVANCAT-ELSQ-NEQHFP--GCSEKAFKIHSIETCDENARK 669 (1071)
Q Consensus 628 -~wnp~~~~QA~-R~hR-iGQ~~~--V~vyrl~t~~tiEE~~~~~~k 669 (1071)
.=.|....|.. |..| ..++.. +..|-++..++.|+.+.....
T Consensus 359 ~t~S~~~~~Q~lGR~LR~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~ 405 (442)
T COG1061 359 PTGSRRLFIQRLGRGLRPAEGKEDTLALDYSLVPDDLGEEDIARRRR 405 (442)
T ss_pred CCCcHHHHHHHhhhhccCCCCCCceEEEEEEeecCcccccchhhhhh
Confidence 23456677888 9999 566665 777788999998888654433
No 25
>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=99.34 E-value=8.9e-12 Score=129.26 Aligned_cols=123 Identities=24% Similarity=0.287 Sum_probs=71.9
Q ss_pred cEEEEeCc-hhHHHHHHHHHHhcCCCCCeEEEEeCC---CCC-----ccccccccchhhhcCCcEEEEeHHHHHhhcccC
Q 001475 249 ATLIVCPA-PILAQWDAEITRHTRPGSLKTCIYEGA---RNS-----SLSDTSIMDISELVGADIVLTTYDVLKEDLSHD 319 (1071)
Q Consensus 249 ~tLIV~P~-SLl~qW~~Ei~k~~~~~~l~v~vy~G~---~~~-----~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~ 319 (1071)
++|||||. +|+.||.+++..+.. .......... ... ................++++++|+.+.......
T Consensus 52 ~~l~~~p~~~l~~Q~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~ 129 (184)
T PF04851_consen 52 KVLIVAPNISLLEQWYDEFDDFGS--EKYNFFEKSIKPAYDSKEFISIQDDISDKSESDNNDKDIILTTYQSLQSDIKEE 129 (184)
T ss_dssp EEEEEESSHHHHHHHHHHHHHHST--TSEEEEE--GGGCCE-SEEETTTTEEEHHHHHCBSS-SEEEEEHHHHHHHHHH-
T ss_pred ceeEecCHHHHHHHHHHHHHHhhh--hhhhhcccccccccccccccccccccccccccccccccchhhHHHHHHhhcccc
Confidence 79999998 688999999988873 2222211111 000 000001112234567889999999998875321
Q ss_pred CCCCcchhhhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCC
Q 001475 320 SDRHEGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPI 386 (1071)
Q Consensus 320 ~~~~~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPi 386 (1071)
.... .... ....+..-.+++||+||||+..+... ++.+....+.+++.|||||.
T Consensus 130 ~~~~-~~~~----------~~~~~~~~~~~~vI~DEaH~~~~~~~--~~~i~~~~~~~~l~lTATp~ 183 (184)
T PF04851_consen 130 KKID-ESAR----------RSYKLLKNKFDLVIIDEAHHYPSDSS--YREIIEFKAAFILGLTATPF 183 (184)
T ss_dssp -------------------GCHHGGGGSESEEEEETGGCTHHHHH--HHHHHHSSCCEEEEEESS-S
T ss_pred cccc-cchh----------hhhhhccccCCEEEEehhhhcCCHHH--HHHHHcCCCCeEEEEEeCcc
Confidence 1100 0000 00124455688999999999975443 55555588899999999995
No 26
>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=1.5e-11 Score=120.41 Aligned_cols=111 Identities=18% Similarity=0.118 Sum_probs=77.7
Q ss_pred CCcEEEEeCchhH-HHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcc
Q 001475 247 TGATLIVCPAPIL-AQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEG 325 (1071)
Q Consensus 247 ~~~tLIV~P~SLl-~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~ 325 (1071)
.++++|+||...+ .||.+++.++... ...+.++++...... .........+|+++||+.+.......
T Consensus 30 ~~~~lv~~p~~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~-----~~~~~~~~~~i~i~t~~~~~~~~~~~------ 97 (144)
T cd00046 30 GGQVLVLAPTRELANQVAERLKELFGE-GIKVGYLIGGTSIKQ-----QEKLLSGKTDIVVGTPGRLLDELERL------ 97 (144)
T ss_pred CCCEEEEcCcHHHHHHHHHHHHHHhhC-CcEEEEEecCcchhH-----HHHHhcCCCCEEEECcHHHHHHHHcC------
Confidence 3689999999865 5667778887732 577777777643221 01223467899999999988765321
Q ss_pred hhhhhhhcccCCCccccccccccceEEeccccccCChHHHHH---HHHHhcccCceEEEeCcC
Q 001475 326 DRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAAT---EMALRLYAKHRWCITGTP 385 (1071)
Q Consensus 326 ~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~---kal~~L~a~~Rw~LTGTP 385 (1071)
.+....|++||+||+|.+.+...... ...........+++||||
T Consensus 98 ----------------~~~~~~~~~iiiDE~h~~~~~~~~~~~~~~~~~~~~~~~~i~~saTp 144 (144)
T cd00046 98 ----------------KLSLKKLDLLILDEAHRLLNQGFGLLGLKILLKLPKDRQVLLLSATP 144 (144)
T ss_pred ----------------CcchhcCCEEEEeCHHHHhhcchHHHHHHHHhhCCccceEEEEeccC
Confidence 13345799999999999988765443 333446778899999999
No 27
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=99.31 E-value=1.9e-11 Score=127.20 Aligned_cols=128 Identities=20% Similarity=0.209 Sum_probs=80.7
Q ss_pred CcEEEEeC-chhHHHHHHHHHHhcCCCC-CeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcc
Q 001475 248 GATLIVCP-APILAQWDAEITRHTRPGS-LKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEG 325 (1071)
Q Consensus 248 ~~tLIV~P-~SLl~qW~~Ei~k~~~~~~-l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~ 325 (1071)
+++|||+| .++..||..++.++..... ....++.+..... .........++++++||+.+.......
T Consensus 55 ~~~l~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~v~~~t~~~l~~~~~~~------ 123 (201)
T smart00487 55 KRVLVLVPTRELAEQWAEELKKLGPSLGLKVVGLYGGDSKRE-----QLRKLESGKTDILVTTPGRLLDLLEND------ 123 (201)
T ss_pred CcEEEEeCCHHHHHHHHHHHHHHhccCCeEEEEEeCCcchHH-----HHHHHhcCCCCEEEeChHHHHHHHHcC------
Confidence 57999999 5678999999999884322 4455666653210 011111123399999999998876421
Q ss_pred hhhhhhhcccCCCccccccccccceEEeccccccCC-hHHHH-HHHHHhc-ccCceEEEeCcCCCC---Chhhhhccccc
Q 001475 326 DRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVES-NAAAA-TEMALRL-YAKHRWCITGTPIQR---KLDDLYGLLRF 399 (1071)
Q Consensus 326 ~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN-~~S~~-~kal~~L-~a~~Rw~LTGTPiqN---~l~DL~~LL~F 399 (1071)
.+....|+++|+||+|.+.+ ..... ...+..+ ...+++++||||..+ ...+++.-..+
T Consensus 124 ----------------~~~~~~~~~iIiDE~h~~~~~~~~~~~~~~~~~~~~~~~~v~~saT~~~~~~~~~~~~~~~~~~ 187 (201)
T smart00487 124 ----------------LLELSNVDLVILDEAHRLLDGGFGDQLEKLLKLLPKNVQLLLLSATPPEEIENLLELFLNDPVF 187 (201)
T ss_pred ----------------CcCHhHCCEEEEECHHHHhcCCcHHHHHHHHHhCCccceEEEEecCCchhHHHHHHHhcCCCEE
Confidence 13345688999999999985 33333 3333444 478899999999643 33344443334
Q ss_pred cCC
Q 001475 400 LKS 402 (1071)
Q Consensus 400 L~p 402 (1071)
+.+
T Consensus 188 ~~~ 190 (201)
T smart00487 188 IDV 190 (201)
T ss_pred EeC
Confidence 433
No 28
>PHA02558 uvsW UvsW helicase; Provisional
Probab=99.19 E-value=1.8e-10 Score=139.18 Aligned_cols=99 Identities=18% Similarity=0.273 Sum_probs=69.8
Q ss_pred cEEEEeCch-hHHHHHHHHHHhcCCCCCeE-EEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 249 ATLIVCPAP-ILAQWDAEITRHTRPGSLKT-CIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 249 ~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v-~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
++|||||.. |+.||.+++.+|...+...+ .++.|.... ...+|+|+|++.+.+...
T Consensus 160 ~vLilvpt~eL~~Q~~~~l~~~~~~~~~~~~~i~~g~~~~-------------~~~~I~VaT~qsl~~~~~--------- 217 (501)
T PHA02558 160 KVLIIVPTTSLVTQMIDDFVDYRLFPREAMHKIYSGTAKD-------------TDAPIVVSTWQSAVKQPK--------- 217 (501)
T ss_pred eEEEEECcHHHHHHHHHHHHHhccccccceeEEecCcccC-------------CCCCEEEeeHHHHhhchh---------
Confidence 799999985 88999999999874333333 445554221 347899999999865321
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhc-ccCceEEEeCcCCC
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRL-YAKHRWCITGTPIQ 387 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L-~a~~Rw~LTGTPiq 387 (1071)
..+ -.|+.||+||||++.... ....+..+ ++.++++|||||..
T Consensus 218 --------------~~~--~~~~~iIvDEaH~~~~~~--~~~il~~~~~~~~~lGLTATp~~ 261 (501)
T PHA02558 218 --------------EWF--DQFGMVIVDECHLFTGKS--LTSIITKLDNCKFKFGLTGSLRD 261 (501)
T ss_pred --------------hhc--cccCEEEEEchhcccchh--HHHHHHhhhccceEEEEeccCCC
Confidence 011 257899999999997543 34455566 57899999999954
No 29
>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair]
Probab=99.11 E-value=1.3e-10 Score=131.13 Aligned_cols=128 Identities=21% Similarity=0.338 Sum_probs=87.9
Q ss_pred CcEEEEeCchh-HHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 248 GATLIVCPAPI-LAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 248 ~~tLIV~P~SL-l~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
+.+||+|-+++ +.||...|..|..-..-.+..|....+.+ .-..++||||||.++..--.. ....
T Consensus 346 K~clvLcts~VSVeQWkqQfk~wsti~d~~i~rFTsd~Ke~----------~~~~~gvvvsTYsMva~t~kR----S~ea 411 (776)
T KOG1123|consen 346 KSCLVLCTSAVSVEQWKQQFKQWSTIQDDQICRFTSDAKER----------FPSGAGVVVTTYSMVAYTGKR----SHEA 411 (776)
T ss_pred ccEEEEecCccCHHHHHHHHHhhcccCccceEEeecccccc----------CCCCCcEEEEeeehhhhcccc----cHHH
Confidence 57899999886 89999999999854445677777765543 224578999999998653211 1011
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCCCCChhhhhccccccCCC
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQRKLDDLYGLLRFLKSS 403 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPiqN~l~DL~~LL~FL~p~ 403 (1071)
.. +...|....|..+|+||.|.+ |.....+.+.-+.+..++.||+|-+.. +|=..=|+||-.+
T Consensus 412 ek----------~m~~l~~~EWGllllDEVHvv--PA~MFRRVlsiv~aHcKLGLTATLvRE--DdKI~DLNFLIGP 474 (776)
T KOG1123|consen 412 EK----------IMDFLRGREWGLLLLDEVHVV--PAKMFRRVLSIVQAHCKLGLTATLVRE--DDKITDLNFLIGP 474 (776)
T ss_pred HH----------HHHHHhcCeeeeEEeehhccc--hHHHHHHHHHHHHHHhhccceeEEeec--cccccccceeecc
Confidence 11 113477789999999999999 443444445556899999999998864 3334445776433
No 30
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=99.00 E-value=2.7e-09 Score=138.09 Aligned_cols=116 Identities=14% Similarity=0.054 Sum_probs=66.2
Q ss_pred CcEEEEeCch-hHHHHHHHHHHhcCCCCCeE-EEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcc
Q 001475 248 GATLIVCPAP-ILAQWDAEITRHTRPGSLKT-CIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEG 325 (1071)
Q Consensus 248 ~~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v-~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~ 325 (1071)
+++|||||.. |+.||.++|..+..++...+ .+|....- .....-....|+|+||.++.+........
T Consensus 464 ~rVLfLvDR~~L~~Qa~~~F~~~~~~~~~~~~~i~~i~~L--------~~~~~~~~~~I~iaTiQtl~~~~~~~~~~--- 532 (1123)
T PRK11448 464 RRILFLVDRSALGEQAEDAFKDTKIEGDQTFASIYDIKGL--------EDKFPEDETKVHVATVQGMVKRILYSDDP--- 532 (1123)
T ss_pred CeEEEEecHHHHHHHHHHHHHhcccccccchhhhhchhhh--------hhhcccCCCCEEEEEHHHHHHhhhccccc---
Confidence 5799999965 88999999998752221111 12211100 00111235789999999997764221000
Q ss_pred hhhhhhhcccCCCccccccccccceEEeccccccCChH----------------HHHHHHHHhcccCceEEEeCcCCCC
Q 001475 326 DRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA----------------AAATEMALRLYAKHRWCITGTPIQR 388 (1071)
Q Consensus 326 ~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~----------------S~~~kal~~L~a~~Rw~LTGTPiqN 388 (1071)
. ..+.--.|++||+||||+.-... ...++.+....-..+++|||||..+
T Consensus 533 ----------~----~~~~~~~fdlIIiDEaHRs~~~d~~~~~~~~~~~~~~~~~~~yr~iL~yFdA~~IGLTATP~r~ 597 (1123)
T PRK11448 533 ----------M----DKPPVDQYDCIIVDEAHRGYTLDKEMSEGELQFRDQLDYVSKYRRVLDYFDAVKIGLTATPALH 597 (1123)
T ss_pred ----------c----ccCCCCcccEEEEECCCCCCccccccccchhccchhhhHHHHHHHHHhhcCccEEEEecCCccc
Confidence 0 00122468899999999953100 1223333332224789999999853
No 31
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=98.99 E-value=2.1e-08 Score=115.20 Aligned_cols=128 Identities=16% Similarity=0.130 Sum_probs=89.3
Q ss_pred CcEEEEeCc-hhHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 248 GATLIVCPA-PILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 248 ~~tLIV~P~-SLl~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
|.+|+++|+ .|+.|=..-+.+.+.-|.-.+..+.|.-+.. .....+.+..|++.|-.++.+|+..
T Consensus 59 ~kvlfLAPTKPLV~Qh~~~~~~v~~ip~~~i~~ltGev~p~------~R~~~w~~~kVfvaTPQvveNDl~~-------- 124 (542)
T COG1111 59 GKVLFLAPTKPLVLQHAEFCRKVTGIPEDEIAALTGEVRPE------EREELWAKKKVFVATPQVVENDLKA-------- 124 (542)
T ss_pred CeEEEecCCchHHHHHHHHHHHHhCCChhheeeecCCCChH------HHHHHHhhCCEEEeccHHHHhHHhc--------
Confidence 469999996 5899999999999976778889999974321 1234567788999999999999853
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccccCChH--HHHHHHHHhcccC-ceEEEeCcCCCCChhhhhccccccCCC
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA--AAATEMALRLYAK-HRWCITGTPIQRKLDDLYGLLRFLKSS 403 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~--S~~~kal~~L~a~-~Rw~LTGTPiqN~l~DL~~LL~FL~p~ 403 (1071)
..+.--.+..+|+||||+--+.. ...++....-... +.++||+||= ++.+.+...++=|+.+
T Consensus 125 --------------Grid~~dv~~lifDEAHRAvGnyAYv~Va~~y~~~~k~~~ilgLTASPG-s~~ekI~eV~~nLgIe 189 (542)
T COG1111 125 --------------GRIDLDDVSLLIFDEAHRAVGNYAYVFVAKEYLRSAKNPLILGLTASPG-SDLEKIQEVVENLGIE 189 (542)
T ss_pred --------------CccChHHceEEEechhhhccCcchHHHHHHHHHHhccCceEEEEecCCC-CCHHHHHHHHHhCCcc
Confidence 22444568899999999964433 2333333333333 5789999995 3455555555555554
Q ss_pred C
Q 001475 404 P 404 (1071)
Q Consensus 404 ~ 404 (1071)
.
T Consensus 190 ~ 190 (542)
T COG1111 190 K 190 (542)
T ss_pred e
Confidence 3
No 32
>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=98.76 E-value=1.3e-07 Score=100.41 Aligned_cols=111 Identities=21% Similarity=0.176 Sum_probs=75.1
Q ss_pred CcEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhh-cCCcEEEEeHHHHHhhcccCCCCCcc
Q 001475 248 GATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISEL-VGADIVLTTYDVLKEDLSHDSDRHEG 325 (1071)
Q Consensus 248 ~~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l-~~~dVVItTY~~l~~d~~~~~~~~~~ 325 (1071)
..+|||||.. ++.||...+.++.....+++..++|...... ..... ...+|+|+|.+.+...+...
T Consensus 70 ~~viii~p~~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~iiv~T~~~l~~~l~~~------ 137 (203)
T cd00268 70 PQALILAPTRELALQIAEVARKLGKHTNLKVVVIYGGTSIDK------QIRKLKRGPHIVVATPGRLLDLLERG------ 137 (203)
T ss_pred ceEEEEcCCHHHHHHHHHHHHHHhccCCceEEEEECCCCHHH------HHHHhcCCCCEEEEChHHHHHHHHcC------
Confidence 4699999976 7789999999998656788888888644211 11222 37899999998887654321
Q ss_pred hhhhhhhcccCCCccccccccccceEEeccccccCChH-HH-HHHHHHhcc-cCceEEEeCcCC
Q 001475 326 DRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA-AA-ATEMALRLY-AKHRWCITGTPI 386 (1071)
Q Consensus 326 ~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~-S~-~~kal~~L~-a~~Rw~LTGTPi 386 (1071)
.+.--.++++|+||+|.+.+.. .. .......+. ....+++|+||-
T Consensus 138 ----------------~~~~~~l~~lIvDE~h~~~~~~~~~~~~~~~~~l~~~~~~~~~SAT~~ 185 (203)
T cd00268 138 ----------------KLDLSKVKYLVLDEADRMLDMGFEDQIREILKLLPKDRQTLLFSATMP 185 (203)
T ss_pred ----------------CCChhhCCEEEEeChHHhhccChHHHHHHHHHhCCcccEEEEEeccCC
Confidence 0112246889999999986543 22 222333444 466799999987
No 33
>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=98.69 E-value=1e-07 Score=118.84 Aligned_cols=110 Identities=16% Similarity=0.161 Sum_probs=64.9
Q ss_pred CcEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 248 GATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 248 ~~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
.++|||||.. |..||.++|.++.. . .+ .+.... ........-...+|+|||+.++........
T Consensus 294 ~~vl~lvdR~~L~~Q~~~~f~~~~~--~-~~---~~~~s~----~~L~~~l~~~~~~iivtTiQk~~~~~~~~~------ 357 (667)
T TIGR00348 294 PKVFFVVDRRELDYQLMKEFQSLQK--D-CA---ERIESI----AELKRLLEKDDGGIIITTIQKFDKKLKEEE------ 357 (667)
T ss_pred CeEEEEECcHHHHHHHHHHHHhhCC--C-CC---cccCCH----HHHHHHHhCCCCCEEEEEhHHhhhhHhhhh------
Confidence 4799999976 78999999999872 1 00 111100 000000111246799999999986321100
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHH-HhcccCceEEEeCcCCCC
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMA-LRLYAKHRWCITGTPIQR 388 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal-~~L~a~~Rw~LTGTPiqN 388 (1071)
..+ .......+||+||||+..... ..+.+ ..++...++++||||+..
T Consensus 358 -------~~~------~~~~~~~lvIvDEaHrs~~~~--~~~~l~~~~p~a~~lGfTaTP~~~ 405 (667)
T TIGR00348 358 -------EKF------PVDRKEVVVIFDEAHRSQYGE--LAKNLKKALKNASFFGFTGTPIFK 405 (667)
T ss_pred -------hcc------CCCCCCEEEEEEcCccccchH--HHHHHHhhCCCCcEEEEeCCCccc
Confidence 000 001112379999999875432 33444 357778999999999864
No 34
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=98.67 E-value=1.7e-07 Score=116.47 Aligned_cols=112 Identities=14% Similarity=0.229 Sum_probs=73.8
Q ss_pred cEEEEeCchh-HHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcchh
Q 001475 249 ATLIVCPAPI-LAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGDR 327 (1071)
Q Consensus 249 ~tLIV~P~SL-l~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~~ 327 (1071)
.+||++|... ..||.+++.+++.+-.+++.+++|........ ........++.||||.|+..+.....
T Consensus 286 qvlilaPT~~LA~Q~~~~~~~l~~~~gi~v~lltg~~~~~~r~-~~~~~i~~g~~~IiVgT~~ll~~~~~---------- 354 (630)
T TIGR00643 286 QVALMAPTEILAEQHYNSLRNLLAPLGIEVALLTGSLKGKRRK-ELLETIASGQIHLVVGTHALIQEKVE---------- 354 (630)
T ss_pred cEEEECCHHHHHHHHHHHHHHHhcccCcEEEEEecCCCHHHHH-HHHHHHhCCCCCEEEecHHHHhcccc----------
Confidence 6899999874 58999999999854368999999874422100 00111122467999999988764321
Q ss_pred hhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhcc---cCceEEEeCcCCCCCh
Q 001475 328 RFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLY---AKHRWCITGTPIQRKL 390 (1071)
Q Consensus 328 ~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~---a~~Rw~LTGTPiqN~l 390 (1071)
+. ...+||+||+|++.- .+......... ..+.+++|+||+...+
T Consensus 355 ---------------~~--~l~lvVIDEaH~fg~--~qr~~l~~~~~~~~~~~~l~~SATp~prtl 401 (630)
T TIGR00643 355 ---------------FK--RLALVIIDEQHRFGV--EQRKKLREKGQGGFTPHVLVMSATPIPRTL 401 (630)
T ss_pred ---------------cc--ccceEEEechhhccH--HHHHHHHHhcccCCCCCEEEEeCCCCcHHH
Confidence 22 357899999999742 22222323333 5678999999987543
No 35
>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=98.57 E-value=3.7e-07 Score=93.55 Aligned_cols=117 Identities=18% Similarity=0.177 Sum_probs=78.1
Q ss_pred CcEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhh-hcCCcEEEEeHHHHHhhcccCCCCCcc
Q 001475 248 GATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISE-LVGADIVLTTYDVLKEDLSHDSDRHEG 325 (1071)
Q Consensus 248 ~~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~-l~~~dVVItTY~~l~~d~~~~~~~~~~ 325 (1071)
+.+||++|.. ++.|=.+++.+++....+++..++|..... ...... ....+|+|+|++.+........
T Consensus 45 ~~~lii~P~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~ilv~T~~~l~~~~~~~~----- 114 (169)
T PF00270_consen 45 ARVLIIVPTRALAEQQFERLRKFFSNTNVRVVLLHGGQSIS-----EDQREVLSNQADILVTTPEQLLDLISNGK----- 114 (169)
T ss_dssp SEEEEEESSHHHHHHHHHHHHHHTTTTTSSEEEESTTSCHH-----HHHHHHHHTTSSEEEEEHHHHHHHHHTTS-----
T ss_pred ceEEEEeeccccccccccccccccccccccccccccccccc-----ccccccccccccccccCcchhhccccccc-----
Confidence 3799999965 788999999999965568888887764311 011122 2469999999999988664200
Q ss_pred hhhhhhhcccCCCccccccccccceEEeccccccCCh--HHHHHHHHHhc---ccCceEEEeCcCCCCChhh
Q 001475 326 DRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESN--AAAATEMALRL---YAKHRWCITGTPIQRKLDD 392 (1071)
Q Consensus 326 ~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~--~S~~~kal~~L---~a~~Rw~LTGTPiqN~l~D 392 (1071)
..+ ...++||+||+|.+-.. .......+..+ .....+++|+||- .++++
T Consensus 115 ---------------~~~--~~~~~iViDE~h~l~~~~~~~~~~~i~~~~~~~~~~~~i~~SAT~~-~~~~~ 168 (169)
T PF00270_consen 115 ---------------INI--SRLSLIVIDEAHHLSDETFRAMLKSILRRLKRFKNIQIILLSATLP-SNVEK 168 (169)
T ss_dssp ---------------STG--TTESEEEEETHHHHHHTTHHHHHHHHHHHSHTTTTSEEEEEESSST-HHHHH
T ss_pred ---------------ccc--ccceeeccCcccccccccHHHHHHHHHHHhcCCCCCcEEEEeeCCC-hhHhh
Confidence 002 23688999999998652 22233333333 2366899999998 55554
No 36
>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1
Probab=98.56 E-value=3.8e-06 Score=92.92 Aligned_cols=145 Identities=18% Similarity=0.254 Sum_probs=91.3
Q ss_pred CCcEEEEeHHHHHhhcccCCCCCcchhhhhhhcccCCCcccccccc-cc------ceEEeccccccCChHH------HHH
Q 001475 301 GADIVLTTYDVLKEDLSHDSDRHEGDRRFMRFQKRYPVIPTLLTRI-FW------WRICLDEAQMVESNAA------AAT 367 (1071)
Q Consensus 301 ~~dVVItTY~~l~~d~~~~~~~~~~~~~~~r~~kr~~~~~s~L~~i-~w------~rVIlDEAH~iKN~~S------~~~ 367 (1071)
..+|+.+||.+|.......... . +-|.++ .| .+||+||+|..||..+ ++.
T Consensus 136 ~~GvlF~TYs~L~~~~~~~~~~------~-----------sRl~ql~~W~g~dfdgvivfDEcH~akn~~~~~~~~sk~g 198 (303)
T PF13872_consen 136 KEGVLFSTYSTLISESQSGGKY------R-----------SRLDQLVDWCGEDFDGVIVFDECHKAKNLSSGSKKPSKTG 198 (303)
T ss_pred CCCccchhHHHHHhHHhccCCc------c-----------chHHHHHHHHhcCCCceEEeccchhcCCCCccCccccHHH
Confidence 4679999999999875321000 0 111111 22 3789999999999754 566
Q ss_pred HHHHhc----ccCceEEEeCcCCCCChhhhhcccc--ccCC-CCCCChhhhHHHhcCCCcCCchhHHHHHHHHHHH--Hh
Q 001475 368 EMALRL----YAKHRWCITGTPIQRKLDDLYGLLR--FLKS-SPFSISRWWIEVIRDPYENGDVGAMEFTHKFFKE--IM 438 (1071)
Q Consensus 368 kal~~L----~a~~Rw~LTGTPiqN~l~DL~~LL~--FL~p-~~~~~~~~F~~~~~~p~~~~~~~~~~~L~~~L~~--~m 438 (1071)
.++..| +.-+.+-.|+|.... +..|--+-+ +-.+ .+|.++..|...+. +++..+++.+..-|+. .+
T Consensus 199 ~avl~LQ~~LP~ARvvY~SATgase-p~NmaYm~RLGLWG~gtpf~~~~~f~~a~~----~gGv~amE~vA~dlKa~G~y 273 (303)
T PF13872_consen 199 IAVLELQNRLPNARVVYASATGASE-PRNMAYMSRLGLWGPGTPFPDFDDFLEAME----KGGVGAMEMVAMDLKARGMY 273 (303)
T ss_pred HHHHHHHHhCCCCcEEEecccccCC-CceeeeeeeccccCCCCCCCCHHHHHHHHH----hcCchHHHHHHHHHHhcchh
Confidence 666655 334567799998743 333322212 1112 24667677766554 4566666666655543 55
Q ss_pred hhcccccccccCCCCCceEEEEEecCCHHHHHHHHH
Q 001475 439 CRSSKVHVSDELQLPPQEECVSWLTFSPIEEHFYQS 474 (1071)
Q Consensus 439 lRRtK~dV~~el~LPpk~e~vv~v~lS~~Q~~~Y~~ 474 (1071)
++|. +++-.-...++.++||+.+.++|+.
T Consensus 274 iaR~-------LSf~gvef~~~e~~l~~~~~~~Yd~ 302 (303)
T PF13872_consen 274 IARQ-------LSFEGVEFEIEEVPLTPEQIKMYDA 302 (303)
T ss_pred eeee-------cccCCceEEEEEecCCHHHHHHhcC
Confidence 6664 4566777899999999999999984
No 37
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=98.49 E-value=1.1e-05 Score=98.31 Aligned_cols=126 Identities=16% Similarity=0.140 Sum_probs=81.2
Q ss_pred CCcEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcc
Q 001475 247 TGATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEG 325 (1071)
Q Consensus 247 ~~~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~ 325 (1071)
.+.+++.+|.. |+.|=..++.....+ ..+....|....+. .........+|++.|-.++.+++......
T Consensus 106 ~~KiVF~aP~~pLv~QQ~a~~~~~~~~--~~~T~~l~~~~~~~-----~r~~i~~s~~vff~TpQil~ndL~~~~~~--- 175 (746)
T KOG0354|consen 106 KGKVVFLAPTRPLVNQQIACFSIYLIP--YSVTGQLGDTVPRS-----NRGEIVASKRVFFRTPQILENDLKSGLHD--- 175 (746)
T ss_pred cceEEEeeCCchHHHHHHHHHhhccCc--ccceeeccCccCCC-----chhhhhcccceEEeChHhhhhhccccccc---
Confidence 36899999986 667766888888853 55555555533221 12245567899999999999998642110
Q ss_pred hhhhhhhcccCCCccccccccccceEEecccccc-CChH-HHHHHHHHhcc--cCceEEEeCcCCCCChhhhhccccccC
Q 001475 326 DRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMV-ESNA-AAATEMALRLY--AKHRWCITGTPIQRKLDDLYGLLRFLK 401 (1071)
Q Consensus 326 ~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~i-KN~~-S~~~kal~~L~--a~~Rw~LTGTPiqN~l~DL~~LL~FL~ 401 (1071)
. --.|-.+|+||||+- ||.. +...+....++ ...-++||+||= ++.+...+.+.=|.
T Consensus 176 ----------------~--ls~fs~iv~DE~Hra~kn~~Y~~Vmr~~l~~k~~~~qILgLTASpG-~~~~~v~~~I~~L~ 236 (746)
T KOG0354|consen 176 ----------------E--LSDFSLIVFDECHRTSKNHPYNNIMREYLDLKNQGNQILGLTASPG-SKLEQVQNVIDNLC 236 (746)
T ss_pred ----------------c--cceEEEEEEcccccccccccHHHHHHHHHHhhhccccEEEEecCCC-ccHHHHHHHHHhhh
Confidence 0 135789999999995 4432 44444444443 336788999997 55555555444333
No 38
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=98.44 E-value=1.4e-06 Score=109.17 Aligned_cols=110 Identities=17% Similarity=0.250 Sum_probs=72.4
Q ss_pred cEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcchh
Q 001475 249 ATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGDR 327 (1071)
Q Consensus 249 ~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~~ 327 (1071)
.+||++|.. |..|+.+.+.+++.+-++++.+++|........ ........+..||||+|...+.....
T Consensus 312 q~lilaPT~~LA~Q~~~~l~~l~~~~~i~v~ll~G~~~~~~r~-~~~~~l~~g~~~IvVgT~~ll~~~v~---------- 380 (681)
T PRK10917 312 QAALMAPTEILAEQHYENLKKLLEPLGIRVALLTGSLKGKERR-EILEAIASGEADIVIGTHALIQDDVE---------- 380 (681)
T ss_pred eEEEEeccHHHHHHHHHHHHHHHhhcCcEEEEEcCCCCHHHHH-HHHHHHhCCCCCEEEchHHHhcccch----------
Confidence 589999987 558999999999854458899999975421100 00111122468999999987754321
Q ss_pred hhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhc-ccCceEEEeCcCCCCC
Q 001475 328 RFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRL-YAKHRWCITGTPIQRK 389 (1071)
Q Consensus 328 ~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L-~a~~Rw~LTGTPiqN~ 389 (1071)
+. +...||+||+|++.- .....+... ...+.+++|+||++..
T Consensus 381 ---------------~~--~l~lvVIDE~Hrfg~---~qr~~l~~~~~~~~iL~~SATp~prt 423 (681)
T PRK10917 381 ---------------FH--NLGLVIIDEQHRFGV---EQRLALREKGENPHVLVMTATPIPRT 423 (681)
T ss_pred ---------------hc--ccceEEEechhhhhH---HHHHHHHhcCCCCCEEEEeCCCCHHH
Confidence 22 346799999999832 222233333 2467899999998654
No 39
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=98.38 E-value=1.7e-06 Score=104.95 Aligned_cols=106 Identities=16% Similarity=0.130 Sum_probs=68.5
Q ss_pred CcEEEEeC-chhHHHHHHHHHHhcCCCCCeEEEE-eCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcc
Q 001475 248 GATLIVCP-APILAQWDAEITRHTRPGSLKTCIY-EGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEG 325 (1071)
Q Consensus 248 ~~tLIV~P-~SLl~qW~~Ei~k~~~~~~l~v~vy-~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~ 325 (1071)
+++|.++= .+|+.|=..++.+|.+ .-.++.. .+.. ....+.|.|.||.++.........
T Consensus 216 KRVLFLaDR~~Lv~QA~~af~~~~P--~~~~~n~i~~~~-------------~~~s~~i~lsTyqt~~~~~~~~~~---- 276 (875)
T COG4096 216 KRVLFLADRNALVDQAYGAFEDFLP--FGTKMNKIEDKK-------------GDTSSEIYLSTYQTMTGRIEQKED---- 276 (875)
T ss_pred heeeEEechHHHHHHHHHHHHHhCC--Cccceeeeeccc-------------CCcceeEEEeehHHHHhhhhcccc----
Confidence 57898886 5688999999999994 3333222 2221 112578999999999987643110
Q ss_pred hhhhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCCCC
Q 001475 326 DRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQR 388 (1071)
Q Consensus 326 ~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPiqN 388 (1071)
...++..-+||.||+||||+-- .+..+.+...-...+.+||+||-..
T Consensus 277 -------------~~~~f~~g~FDlIvIDEaHRgi---~~~~~~I~dYFdA~~~gLTATP~~~ 323 (875)
T COG4096 277 -------------EYRRFGPGFFDLIVIDEAHRGI---YSEWSSILDYFDAATQGLTATPKET 323 (875)
T ss_pred -------------ccccCCCCceeEEEechhhhhH---HhhhHHHHHHHHHHHHhhccCcccc
Confidence 0123555679999999999831 1222344444445566789999773
No 40
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=98.34 E-value=4.4e-06 Score=99.66 Aligned_cols=118 Identities=16% Similarity=0.070 Sum_probs=74.1
Q ss_pred CcEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 248 GATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 248 ~~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
..+||++|.. |..|+.+.+..+.....+++..+.|...... ........+||+|+|.+.+...+..
T Consensus 74 ~~~lil~Pt~eLa~Q~~~~~~~l~~~~~~~v~~~~gg~~~~~-----~~~~l~~~~~IlV~Tp~rl~~~~~~-------- 140 (434)
T PRK11192 74 PRILILTPTRELAMQVADQARELAKHTHLDIATITGGVAYMN-----HAEVFSENQDIVVATPGRLLQYIKE-------- 140 (434)
T ss_pred ceEEEECCcHHHHHHHHHHHHHHHccCCcEEEEEECCCCHHH-----HHHHhcCCCCEEEEChHHHHHHHHc--------
Confidence 3699999987 7789998888887555688888887643210 0111224679999999988765432
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccccCChH--HHHHHHHHhcc-cCceEEEeCcCCCCChhh
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA--AAATEMALRLY-AKHRWCITGTPIQRKLDD 392 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~--S~~~kal~~L~-a~~Rw~LTGTPiqN~l~D 392 (1071)
..+..-....||+||||++-... ......+..+. ....+++|+|+-...+.+
T Consensus 141 --------------~~~~~~~v~~lViDEah~~l~~~~~~~~~~i~~~~~~~~q~~~~SAT~~~~~~~~ 195 (434)
T PRK11192 141 --------------ENFDCRAVETLILDEADRMLDMGFAQDIETIAAETRWRKQTLLFSATLEGDAVQD 195 (434)
T ss_pred --------------CCcCcccCCEEEEECHHHHhCCCcHHHHHHHHHhCccccEEEEEEeecCHHHHHH
Confidence 01222346789999999875432 22222223333 234588999985433333
No 41
>PRK10689 transcription-repair coupling factor; Provisional
Probab=98.32 E-value=2.9e-06 Score=110.82 Aligned_cols=112 Identities=17% Similarity=0.164 Sum_probs=72.1
Q ss_pred CcEEEEeCchh-HHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 248 GATLIVCPAPI-LAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 248 ~~tLIV~P~SL-l~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
..+||+||... ..|..+.+.+.+..-.+++.++.|....... ............||||+|++.+..++.
T Consensus 650 ~qvlvLvPT~eLA~Q~~~~f~~~~~~~~v~i~~l~g~~s~~e~-~~il~~l~~g~~dIVVgTp~lL~~~v~--------- 719 (1147)
T PRK10689 650 KQVAVLVPTTLLAQQHYDNFRDRFANWPVRIEMLSRFRSAKEQ-TQILAEAAEGKIDILIGTHKLLQSDVK--------- 719 (1147)
T ss_pred CeEEEEeCcHHHHHHHHHHHHHhhccCCceEEEEECCCCHHHH-HHHHHHHHhCCCCEEEECHHHHhCCCC---------
Confidence 36999999985 5799999998764334677777775332100 000001112468999999987754321
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhcc-cCceEEEeCcCCCCCh
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLY-AKHRWCITGTPIQRKL 390 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~-a~~Rw~LTGTPiqN~l 390 (1071)
+ -...+||+||+|++... ....+..+. ....+++|+||++..+
T Consensus 720 ----------------~--~~L~lLVIDEahrfG~~---~~e~lk~l~~~~qvLl~SATpiprtl 763 (1147)
T PRK10689 720 ----------------W--KDLGLLIVDEEHRFGVR---HKERIKAMRADVDILTLTATPIPRTL 763 (1147)
T ss_pred ----------------H--hhCCEEEEechhhcchh---HHHHHHhcCCCCcEEEEcCCCCHHHH
Confidence 1 24678999999999432 233445554 4578999999998654
No 42
>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=98.31 E-value=4e-06 Score=107.23 Aligned_cols=112 Identities=17% Similarity=0.172 Sum_probs=71.6
Q ss_pred CcEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 248 GATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 248 ~~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
..+||+||.. |..|..+.|.+++..-.+++.+++|....... ......-..+..||||+|...+..++.
T Consensus 501 ~qvlvLvPT~~LA~Q~~~~f~~~~~~~~i~v~~Lsg~~~~~e~-~~~~~~l~~g~~dIVIGTp~ll~~~v~--------- 570 (926)
T TIGR00580 501 KQVAVLVPTTLLAQQHFETFKERFANFPVTIELLSRFRSAKEQ-NEILKELASGKIDILIGTHKLLQKDVK--------- 570 (926)
T ss_pred CeEEEEeCcHHHHHHHHHHHHHHhccCCcEEEEEeccccHHHH-HHHHHHHHcCCceEEEchHHHhhCCCC---------
Confidence 3689999988 55899999999885434677777775321100 000011112368999999976644321
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhcc-cCceEEEeCcCCCCCh
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLY-AKHRWCITGTPIQRKL 390 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~-a~~Rw~LTGTPiqN~l 390 (1071)
+. +..+||+||+|++.- .....+..+. ....+++|+||++..+
T Consensus 571 ----------------f~--~L~llVIDEahrfgv---~~~~~L~~~~~~~~vL~~SATpiprtl 614 (926)
T TIGR00580 571 ----------------FK--DLGLLIIDEEQRFGV---KQKEKLKELRTSVDVLTLSATPIPRTL 614 (926)
T ss_pred ----------------cc--cCCEEEeecccccch---hHHHHHHhcCCCCCEEEEecCCCHHHH
Confidence 22 346899999999842 2233445554 4578999999987654
No 43
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=98.29 E-value=9.8e-06 Score=97.29 Aligned_cols=111 Identities=15% Similarity=0.113 Sum_probs=71.0
Q ss_pred cEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcchh
Q 001475 249 ATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGDR 327 (1071)
Q Consensus 249 ~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~~ 327 (1071)
.+|||||.- |..||.+++.++.....+++....|...... ........+||+|+|.+.+.......
T Consensus 77 ~aLil~PtreLa~Qi~~~~~~~~~~~~~~~~~~~gg~~~~~-----~~~~l~~~~~IiV~TP~rL~~~~~~~-------- 143 (456)
T PRK10590 77 RALILTPTRELAAQIGENVRDYSKYLNIRSLVVFGGVSINP-----QMMKLRGGVDVLVATPGRLLDLEHQN-------- 143 (456)
T ss_pred eEEEEeCcHHHHHHHHHHHHHHhccCCCEEEEEECCcCHHH-----HHHHHcCCCcEEEEChHHHHHHHHcC--------
Confidence 589999986 6789999999987545677766666532110 01112346899999999987654210
Q ss_pred hhhhhcccCCCccccccccccceEEeccccccCChH--HHHHHHHHhccc-CceEEEeCcCC
Q 001475 328 RFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA--AAATEMALRLYA-KHRWCITGTPI 386 (1071)
Q Consensus 328 ~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~--S~~~kal~~L~a-~~Rw~LTGTPi 386 (1071)
.+.--..++||+||||++-... ......+..+.. ...+++|+|+-
T Consensus 144 --------------~~~l~~v~~lViDEah~ll~~~~~~~i~~il~~l~~~~q~l~~SAT~~ 191 (456)
T PRK10590 144 --------------AVKLDQVEILVLDEADRMLDMGFIHDIRRVLAKLPAKRQNLLFSATFS 191 (456)
T ss_pred --------------CcccccceEEEeecHHHHhccccHHHHHHHHHhCCccCeEEEEeCCCc
Confidence 1122246789999999875432 222333444543 34789999963
No 44
>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=98.28 E-value=4.7e-06 Score=100.44 Aligned_cols=129 Identities=12% Similarity=0.133 Sum_probs=78.4
Q ss_pred CcEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 248 GATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 248 ~~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
+.+|||+|.- |+.||...+... .+.+..+.|....... ...........++|+++|.+.+......
T Consensus 52 ~~~lVi~P~~~L~~dq~~~l~~~----gi~~~~l~~~~~~~~~-~~i~~~~~~~~~~il~~TPe~l~~~~~~-------- 118 (470)
T TIGR00614 52 GITLVISPLISLMEDQVLQLKAS----GIPATFLNSSQSKEQQ-KNVLTDLKDGKIKLLYVTPEKCSASNRL-------- 118 (470)
T ss_pred CcEEEEecHHHHHHHHHHHHHHc----CCcEEEEeCCCCHHHH-HHHHHHHhcCCCCEEEECHHHHcCchhH--------
Confidence 4689999975 778888888754 3666666665332100 0000111235689999999988653210
Q ss_pred hhhhhhcccCCCccccc-cccccceEEeccccccCChH-------HHHHHHHHhcccCceEEEeCcCCCCChhhhhcccc
Q 001475 327 RRFMRFQKRYPVIPTLL-TRIFWWRICLDEAQMVESNA-------AAATEMALRLYAKHRWCITGTPIQRKLDDLYGLLR 398 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L-~~i~w~rVIlDEAH~iKN~~-------S~~~kal~~L~a~~Rw~LTGTPiqN~l~DL~~LL~ 398 (1071)
. ..+ ......+||+||||.+-... .........++....+++||||-.....|+...+.
T Consensus 119 ---~----------~~l~~~~~i~~iViDEaH~i~~~g~~fr~~~~~l~~l~~~~~~~~~l~lTAT~~~~~~~di~~~l~ 185 (470)
T TIGR00614 119 ---L----------QTLEERKGITLIAVDEAHCISQWGHDFRPDYKALGSLKQKFPNVPIMALTATASPSVREDILRQLN 185 (470)
T ss_pred ---H----------HHHHhcCCcCEEEEeCCcccCccccccHHHHHHHHHHHHHcCCCceEEEecCCCHHHHHHHHHHcC
Confidence 0 012 23457899999999985422 11112222345667899999998877777777665
Q ss_pred ccCC
Q 001475 399 FLKS 402 (1071)
Q Consensus 399 FL~p 402 (1071)
+-.|
T Consensus 186 l~~~ 189 (470)
T TIGR00614 186 LKNP 189 (470)
T ss_pred CCCC
Confidence 5444
No 45
>PRK02362 ski2-like helicase; Provisional
Probab=98.22 E-value=1.4e-05 Score=101.63 Aligned_cols=115 Identities=19% Similarity=0.203 Sum_probs=74.1
Q ss_pred CcEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 248 GATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 248 ~~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
+.+|+|+|.- |+.|+.+++.++.. ..+++.++.|.... ....+..+||+|+|++.+..-.....
T Consensus 68 ~kal~i~P~raLa~q~~~~~~~~~~-~g~~v~~~tGd~~~--------~~~~l~~~~IiV~Tpek~~~llr~~~------ 132 (737)
T PRK02362 68 GKALYIVPLRALASEKFEEFERFEE-LGVRVGISTGDYDS--------RDEWLGDNDIIVATSEKVDSLLRNGA------ 132 (737)
T ss_pred CcEEEEeChHHHHHHHHHHHHHhhc-CCCEEEEEeCCcCc--------cccccCCCCEEEECHHHHHHHHhcCh------
Confidence 4699999975 88999999998753 35889999887432 12334678999999998755432100
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccccCChH-HHHHHH-HHhc----ccCceEEEeCcCCCCChhhhhc
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA-AAATEM-ALRL----YAKHRWCITGTPIQRKLDDLYG 395 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~-S~~~ka-l~~L----~a~~Rw~LTGTPiqN~l~DL~~ 395 (1071)
..+ -...+||+||+|++.+.. ...... +.++ .....+++|+|+- +..|+..
T Consensus 133 --------------~~l--~~v~lvViDE~H~l~d~~rg~~le~il~rl~~~~~~~qii~lSATl~--n~~~la~ 189 (737)
T PRK02362 133 --------------PWL--DDITCVVVDEVHLIDSANRGPTLEVTLAKLRRLNPDLQVVALSATIG--NADELAD 189 (737)
T ss_pred --------------hhh--hhcCEEEEECccccCCCcchHHHHHHHHHHHhcCCCCcEEEEcccCC--CHHHHHH
Confidence 001 135889999999997532 222222 2233 2345688999963 3555543
No 46
>PRK01172 ski2-like helicase; Provisional
Probab=98.21 E-value=1.5e-05 Score=100.46 Aligned_cols=114 Identities=14% Similarity=0.109 Sum_probs=71.3
Q ss_pred CcEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 248 GATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 248 ~~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
+.+++|+|.- |..|+.+++.++.. -..++..+.|.... ....+..+||+|+|++.+..-..+.
T Consensus 66 ~k~v~i~P~raLa~q~~~~~~~l~~-~g~~v~~~~G~~~~--------~~~~~~~~dIiv~Tpek~~~l~~~~------- 129 (674)
T PRK01172 66 LKSIYIVPLRSLAMEKYEELSRLRS-LGMRVKISIGDYDD--------PPDFIKRYDVVILTSEKADSLIHHD------- 129 (674)
T ss_pred CcEEEEechHHHHHHHHHHHHHHhh-cCCeEEEEeCCCCC--------ChhhhccCCEEEECHHHHHHHHhCC-------
Confidence 4688999975 77899999998653 35778777776432 2233467899999999876543210
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccccCChH-HHHHHHH----Hhcc-cCceEEEeCcCCCCChhhhh
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA-AAATEMA----LRLY-AKHRWCITGTPIQRKLDDLY 394 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~-S~~~kal----~~L~-a~~Rw~LTGTPiqN~l~DL~ 394 (1071)
+..--..++||+||+|++.+.. ......+ +.+. ....+++|+|+- +..++-
T Consensus 130 ---------------~~~l~~v~lvViDEaH~l~d~~rg~~le~ll~~~~~~~~~~riI~lSATl~--n~~~la 186 (674)
T PRK01172 130 ---------------PYIINDVGLIVADEIHIIGDEDRGPTLETVLSSARYVNPDARILALSATVS--NANELA 186 (674)
T ss_pred ---------------hhHHhhcCEEEEecchhccCCCccHHHHHHHHHHHhcCcCCcEEEEeCccC--CHHHHH
Confidence 0111246889999999996432 2222222 2233 235688999963 345543
No 47
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=98.20 E-value=1.2e-05 Score=96.61 Aligned_cols=111 Identities=22% Similarity=0.172 Sum_probs=71.7
Q ss_pred cEEEEeCch-hHHHHHHHHHHhcCC-CCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 249 ATLIVCPAP-ILAQWDAEITRHTRP-GSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 249 ~tLIV~P~S-Ll~qW~~Ei~k~~~~-~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
.+||+||.- |..||.++++++... +.+++..+.|....... ........+|+|+|.+.+...+..
T Consensus 74 ~~lil~PtreLa~Q~~~~~~~~~~~~~~~~v~~~~Gg~~~~~~-----~~~l~~~~~IvV~Tp~rl~~~l~~-------- 140 (460)
T PRK11776 74 QALVLCPTRELADQVAKEIRRLARFIPNIKVLTLCGGVPMGPQ-----IDSLEHGAHIIVGTPGRILDHLRK-------- 140 (460)
T ss_pred eEEEEeCCHHHHHHHHHHHHHHHhhCCCcEEEEEECCCChHHH-----HHHhcCCCCEEEEChHHHHHHHHc--------
Confidence 489999986 778999999987632 36888888776432100 011124679999999998776532
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccccCChH--HHHHHHHHhccc-CceEEEeCcCC
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA--AAATEMALRLYA-KHRWCITGTPI 386 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~--S~~~kal~~L~a-~~Rw~LTGTPi 386 (1071)
..+.--.+..||+||||.+-+.. ......+..++. ...+++|+|+.
T Consensus 141 --------------~~~~l~~l~~lViDEad~~l~~g~~~~l~~i~~~~~~~~q~ll~SAT~~ 189 (460)
T PRK11776 141 --------------GTLDLDALNTLVLDEADRMLDMGFQDAIDAIIRQAPARRQTLLFSATYP 189 (460)
T ss_pred --------------CCccHHHCCEEEEECHHHHhCcCcHHHHHHHHHhCCcccEEEEEEecCc
Confidence 01222356889999999875432 233334444443 45688999973
No 48
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=98.16 E-value=2.6e-05 Score=95.12 Aligned_cols=112 Identities=13% Similarity=0.078 Sum_probs=70.8
Q ss_pred CcEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 248 GATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 248 ~~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
..+|||+|.. |..|+.+++..+...-.+++..+.|...... ........++|+|+|.+.+..-+...
T Consensus 197 ~~aLIL~PTreLa~Qi~~~~~~l~~~~~~~~~~~~gG~~~~~-----q~~~l~~~~~IiV~TPgrL~~~l~~~------- 264 (518)
T PLN00206 197 PLAMVLTPTRELCVQVEDQAKVLGKGLPFKTALVVGGDAMPQ-----QLYRIQQGVELIVGTPGRLIDLLSKH------- 264 (518)
T ss_pred ceEEEEeCCHHHHHHHHHHHHHHhCCCCceEEEEECCcchHH-----HHHHhcCCCCEEEECHHHHHHHHHcC-------
Confidence 3699999986 7789999999887433455554444322110 00111245799999999887654310
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccccCCh--HHHHHHHHHhcccCceEEEeCcCC
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESN--AAAATEMALRLYAKHRWCITGTPI 386 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~--~S~~~kal~~L~a~~Rw~LTGTPi 386 (1071)
.+.--...+||+||||.+-.. .....+.+..+.....+++|+|.-
T Consensus 265 ---------------~~~l~~v~~lViDEad~ml~~gf~~~i~~i~~~l~~~q~l~~SATl~ 311 (518)
T PLN00206 265 ---------------DIELDNVSVLVLDEVDCMLERGFRDQVMQIFQALSQPQVLLFSATVS 311 (518)
T ss_pred ---------------CccchheeEEEeecHHHHhhcchHHHHHHHHHhCCCCcEEEEEeeCC
Confidence 011123567999999987542 334445555666778899999963
No 49
>PTZ00424 helicase 45; Provisional
Probab=98.15 E-value=2.2e-05 Score=92.51 Aligned_cols=111 Identities=16% Similarity=0.065 Sum_probs=69.5
Q ss_pred CcEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhh-hcCCcEEEEeHHHHHhhcccCCCCCcc
Q 001475 248 GATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISE-LVGADIVLTTYDVLKEDLSHDSDRHEG 325 (1071)
Q Consensus 248 ~~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~-l~~~dVVItTY~~l~~d~~~~~~~~~~ 325 (1071)
..+|||+|.. |..|+.+.+..+.....+.+....|..... ..... ....+|+|+|.+.+.......
T Consensus 97 ~~~lil~Pt~~L~~Q~~~~~~~~~~~~~~~~~~~~g~~~~~------~~~~~~~~~~~Ivv~Tp~~l~~~l~~~------ 164 (401)
T PTZ00424 97 CQALILAPTRELAQQIQKVVLALGDYLKVRCHACVGGTVVR------DDINKLKAGVHMVVGTPGRVYDMIDKR------ 164 (401)
T ss_pred ceEEEECCCHHHHHHHHHHHHHHhhhcCceEEEEECCcCHH------HHHHHHcCCCCEEEECcHHHHHHHHhC------
Confidence 4689999976 668998888887743445555555543211 01111 234689999999876654210
Q ss_pred hhhhhhhcccCCCccccccccccceEEeccccccCC--hHHHHHHHHHhccc-CceEEEeCcCC
Q 001475 326 DRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVES--NAAAATEMALRLYA-KHRWCITGTPI 386 (1071)
Q Consensus 326 ~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN--~~S~~~kal~~L~a-~~Rw~LTGTPi 386 (1071)
.+.--.+++||+||||.+-. ........+..+.. ...+++|+|+.
T Consensus 165 ----------------~~~l~~i~lvViDEah~~~~~~~~~~~~~i~~~~~~~~~~i~~SAT~~ 212 (401)
T PTZ00424 165 ----------------HLRVDDLKLFILDEADEMLSRGFKGQIYDVFKKLPPDVQVALFSATMP 212 (401)
T ss_pred ----------------CcccccccEEEEecHHHHHhcchHHHHHHHHhhCCCCcEEEEEEecCC
Confidence 11223468899999998754 22444555555643 45788999963
No 50
>COG1204 Superfamily II helicase [General function prediction only]
Probab=98.13 E-value=1.4e-05 Score=100.41 Aligned_cols=122 Identities=14% Similarity=0.125 Sum_probs=81.6
Q ss_pred CcEEEEeCc-hhHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 248 GATLIVCPA-PILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 248 ~~tLIV~P~-SLl~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
++.+-|||. +|..+=.+|+.+|- .-.++|.++.|.... ....+..+||+||||+.+-.-..+.
T Consensus 77 ~k~vYivPlkALa~Ek~~~~~~~~-~~GirV~~~TgD~~~--------~~~~l~~~~ViVtT~EK~Dsl~R~~------- 140 (766)
T COG1204 77 GKVVYIVPLKALAEEKYEEFSRLE-ELGIRVGISTGDYDL--------DDERLARYDVIVTTPEKLDSLTRKR------- 140 (766)
T ss_pred CcEEEEeChHHHHHHHHHHhhhHH-hcCCEEEEecCCccc--------chhhhccCCEEEEchHHhhHhhhcC-------
Confidence 588999996 57788888888444 236999999998543 4567899999999999986644321
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccccCCh-HH-----HHHHHHHhcccCceEEEeCcCCCCChhhhhcccccc
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESN-AA-----AATEMALRLYAKHRWCITGTPIQRKLDDLYGLLRFL 400 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~-~S-----~~~kal~~L~a~~Rw~LTGTPiqN~l~DL~~LL~FL 400 (1071)
+......+.||+||+|.+... .. -.+++...-....-++||+| ++ |..| +-.||
T Consensus 141 ---------------~~~~~~V~lvViDEiH~l~d~~RG~~lE~iv~r~~~~~~~~rivgLSAT-lp-N~~e---vA~wL 200 (766)
T COG1204 141 ---------------PSWIEEVDLVVIDEIHLLGDRTRGPVLESIVARMRRLNELIRIVGLSAT-LP-NAEE---VADWL 200 (766)
T ss_pred ---------------cchhhcccEEEEeeeeecCCcccCceehhHHHHHHhhCcceEEEEEeee-cC-CHHH---HHHHh
Confidence 123345688999999999877 32 22322222222356789999 22 2333 34566
Q ss_pred CCCCC
Q 001475 401 KSSPF 405 (1071)
Q Consensus 401 ~p~~~ 405 (1071)
+..++
T Consensus 201 ~a~~~ 205 (766)
T COG1204 201 NAKLV 205 (766)
T ss_pred CCccc
Confidence 65544
No 51
>PTZ00110 helicase; Provisional
Probab=98.11 E-value=2.7e-05 Score=95.42 Aligned_cols=110 Identities=12% Similarity=0.109 Sum_probs=69.5
Q ss_pred cEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcchh
Q 001475 249 ATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGDR 327 (1071)
Q Consensus 249 ~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~~ 327 (1071)
.+|||||.. |..|+.+++.++.....+++.+..|...... .........+|+|+|.+.|...+...
T Consensus 205 ~~LIL~PTreLa~Qi~~~~~~~~~~~~i~~~~~~gg~~~~~-----q~~~l~~~~~IlVaTPgrL~d~l~~~-------- 271 (545)
T PTZ00110 205 IVLVLAPTRELAEQIREQCNKFGASSKIRNTVAYGGVPKRG-----QIYALRRGVEILIACPGRLIDFLESN-------- 271 (545)
T ss_pred EEEEECChHHHHHHHHHHHHHHhcccCccEEEEeCCCCHHH-----HHHHHHcCCCEEEECHHHHHHHHHcC--------
Confidence 489999986 7789999999998554566665555432110 01112245799999999887654320
Q ss_pred hhhhhcccCCCccccccccccceEEeccccccCChH--HHHHHHHHhccc-CceEEEeCcC
Q 001475 328 RFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA--AAATEMALRLYA-KHRWCITGTP 385 (1071)
Q Consensus 328 ~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~--S~~~kal~~L~a-~~Rw~LTGTP 385 (1071)
.+.--...+||+||||++-... ....+.+..+.. ...+++|+|.
T Consensus 272 --------------~~~l~~v~~lViDEAd~mld~gf~~~i~~il~~~~~~~q~l~~SAT~ 318 (545)
T PTZ00110 272 --------------VTNLRRVTYLVLDEADRMLDMGFEPQIRKIVSQIRPDRQTLMWSATW 318 (545)
T ss_pred --------------CCChhhCcEEEeehHHhhhhcchHHHHHHHHHhCCCCCeEEEEEeCC
Confidence 0111246789999999876532 233344444543 4567889995
No 52
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=98.09 E-value=4.1e-05 Score=91.11 Aligned_cols=111 Identities=17% Similarity=0.126 Sum_probs=71.1
Q ss_pred CcEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhh-hcCCcEEEEeHHHHHhhcccCCCCCcc
Q 001475 248 GATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISE-LVGADIVLTTYDVLKEDLSHDSDRHEG 325 (1071)
Q Consensus 248 ~~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~-l~~~dVVItTY~~l~~d~~~~~~~~~~ 325 (1071)
..+|||||.. |..||.+++.++.....+++..+.|...... .... ....||+|+|.+.+...+..
T Consensus 84 ~~~lil~PtreLa~Qi~~~~~~l~~~~~~~v~~~~gg~~~~~------~~~~l~~~~~IlV~TP~~l~~~l~~------- 150 (423)
T PRK04837 84 PRALIMAPTRELAVQIHADAEPLAQATGLKLGLAYGGDGYDK------QLKVLESGVDILIGTTGRLIDYAKQ------- 150 (423)
T ss_pred ceEEEECCcHHHHHHHHHHHHHHhccCCceEEEEECCCCHHH------HHHHhcCCCCEEEECHHHHHHHHHc-------
Confidence 3689999987 6789999998887655688888877643210 1111 23579999999998765431
Q ss_pred hhhhhhhcccCCCccccccccccceEEeccccccCChH--HHHHHHHHhccc---CceEEEeCcCC
Q 001475 326 DRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA--AAATEMALRLYA---KHRWCITGTPI 386 (1071)
Q Consensus 326 ~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~--S~~~kal~~L~a---~~Rw~LTGTPi 386 (1071)
..+.--.+.+||+||||.+-+.. ......+..+.. ...+++|+|+-
T Consensus 151 ---------------~~~~l~~v~~lViDEad~l~~~~f~~~i~~i~~~~~~~~~~~~~l~SAT~~ 201 (423)
T PRK04837 151 ---------------NHINLGAIQVVVLDEADRMFDLGFIKDIRWLFRRMPPANQRLNMLFSATLS 201 (423)
T ss_pred ---------------CCcccccccEEEEecHHHHhhcccHHHHHHHHHhCCCccceeEEEEeccCC
Confidence 01222346789999999875432 222233344432 23478899964
No 53
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=98.07 E-value=2.3e-05 Score=97.28 Aligned_cols=128 Identities=16% Similarity=0.130 Sum_probs=76.4
Q ss_pred CcEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 248 GATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 248 ~~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
+.+|||+|.. |+.||.+.+... .+.+..+.+....... ............+++++|.+.+..+...
T Consensus 66 g~tlVisPl~sL~~dqv~~l~~~----gi~~~~~~s~~~~~~~-~~~~~~~~~g~~~il~~tPe~l~~~~~~-------- 132 (607)
T PRK11057 66 GLTLVVSPLISLMKDQVDQLLAN----GVAAACLNSTQTREQQ-LEVMAGCRTGQIKLLYIAPERLMMDNFL-------- 132 (607)
T ss_pred CCEEEEecHHHHHHHHHHHHHHc----CCcEEEEcCCCCHHHH-HHHHHHHhCCCCcEEEEChHHhcChHHH--------
Confidence 4689999975 778888888764 3556666554321100 0000111224678999998887643110
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccccCChH-------HHHHHHHHhcccCceEEEeCcCCCCChhhhhccccc
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA-------AAATEMALRLYAKHRWCITGTPIQRKLDDLYGLLRF 399 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~-------S~~~kal~~L~a~~Rw~LTGTPiqN~l~DL~~LL~F 399 (1071)
..+......+||+||||.+-... .........+.....+++|+|+-.....++...+.+
T Consensus 133 --------------~~l~~~~l~~iVIDEaH~i~~~G~~fr~~y~~L~~l~~~~p~~~~v~lTAT~~~~~~~di~~~l~l 198 (607)
T PRK11057 133 --------------EHLAHWNPALLAVDEAHCISQWGHDFRPEYAALGQLRQRFPTLPFMALTATADDTTRQDIVRLLGL 198 (607)
T ss_pred --------------HHHhhCCCCEEEEeCccccccccCcccHHHHHHHHHHHhCCCCcEEEEecCCChhHHHHHHHHhCC
Confidence 12344467899999999985422 111222223445668999999988776777766654
Q ss_pred cCC
Q 001475 400 LKS 402 (1071)
Q Consensus 400 L~p 402 (1071)
-+|
T Consensus 199 ~~~ 201 (607)
T PRK11057 199 NDP 201 (607)
T ss_pred CCe
Confidence 433
No 54
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=98.05 E-value=4.6e-05 Score=94.57 Aligned_cols=110 Identities=15% Similarity=0.144 Sum_probs=69.3
Q ss_pred cEEEEeCch-hHHHHHHHHHHhcCC-CCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 249 ATLIVCPAP-ILAQWDAEITRHTRP-GSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 249 ~tLIV~P~S-Ll~qW~~Ei~k~~~~-~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
.+|||||.. |..||.+++.++... +.+++..++|...... .........+|||+|.+.+...+..
T Consensus 76 ~~LIL~PTreLa~Qv~~~l~~~~~~~~~i~v~~~~gG~~~~~-----q~~~l~~~~~IVVgTPgrl~d~l~r-------- 142 (629)
T PRK11634 76 QILVLAPTRELAVQVAEAMTDFSKHMRGVNVVALYGGQRYDV-----QLRALRQGPQIVVGTPGRLLDHLKR-------- 142 (629)
T ss_pred eEEEEeCcHHHHHHHHHHHHHHHhhcCCceEEEEECCcCHHH-----HHHHhcCCCCEEEECHHHHHHHHHc--------
Confidence 589999986 678999999887632 3577777666533110 0011123578999999998765432
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccccCChH--HHHHHHHHhccc-CceEEEeCcC
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA--AAATEMALRLYA-KHRWCITGTP 385 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~--S~~~kal~~L~a-~~Rw~LTGTP 385 (1071)
..+.--....|||||||.+-+.. ......+..++. ...+++|+|.
T Consensus 143 --------------~~l~l~~l~~lVlDEAd~ml~~gf~~di~~Il~~lp~~~q~llfSAT~ 190 (629)
T PRK11634 143 --------------GTLDLSKLSGLVLDEADEMLRMGFIEDVETIMAQIPEGHQTALFSATM 190 (629)
T ss_pred --------------CCcchhhceEEEeccHHHHhhcccHHHHHHHHHhCCCCCeEEEEEccC
Confidence 11222245679999999764332 333444455654 3458889995
No 55
>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=98.04 E-value=2.8e-05 Score=96.46 Aligned_cols=127 Identities=17% Similarity=0.200 Sum_probs=79.6
Q ss_pred CcEEEEeCc-hhHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 248 GATLIVCPA-PILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 248 ~~tLIV~P~-SLl~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
+.++||+|. +|+.++.+.+... .+.+..++|....... ...........++|+++|.+.+......
T Consensus 54 g~~lVisPl~sL~~dq~~~l~~~----gi~~~~~~s~~~~~~~-~~~~~~l~~~~~~il~~tpe~l~~~~~~-------- 120 (591)
T TIGR01389 54 GLTVVISPLISLMKDQVDQLRAA----GVAAAYLNSTLSAKEQ-QDIEKALVNGELKLLYVAPERLEQDYFL-------- 120 (591)
T ss_pred CcEEEEcCCHHHHHHHHHHHHHc----CCcEEEEeCCCCHHHH-HHHHHHHhCCCCCEEEEChhHhcChHHH--------
Confidence 468999996 4778898888774 3667777765322100 0001111235689999999987653210
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccccCChH-------HHHHHHHHhcccCceEEEeCcCCCCChhhhhccccc
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA-------AAATEMALRLYAKHRWCITGTPIQRKLDDLYGLLRF 399 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~-------S~~~kal~~L~a~~Rw~LTGTPiqN~l~DL~~LL~F 399 (1071)
..+......+||+||||.+.... .+.......+.....+++|+|+......++...+.+
T Consensus 121 --------------~~l~~~~l~~iViDEaH~i~~~g~~frp~y~~l~~l~~~~~~~~vi~lTAT~~~~~~~~i~~~l~~ 186 (591)
T TIGR01389 121 --------------NMLQRIPIALVAVDEAHCVSQWGHDFRPEYQRLGSLAERFPQVPRIALTATADAETRQDIRELLRL 186 (591)
T ss_pred --------------HHHhcCCCCEEEEeCCcccccccCccHHHHHHHHHHHHhCCCCCEEEEEeCCCHHHHHHHHHHcCC
Confidence 12444578899999999985321 122233334555568999999988777777776654
Q ss_pred cC
Q 001475 400 LK 401 (1071)
Q Consensus 400 L~ 401 (1071)
-.
T Consensus 187 ~~ 188 (591)
T TIGR01389 187 AD 188 (591)
T ss_pred CC
Confidence 33
No 56
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=98.02 E-value=5.9e-05 Score=91.11 Aligned_cols=113 Identities=15% Similarity=0.106 Sum_probs=70.7
Q ss_pred CcEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 248 GATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 248 ~~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
..+|||+|.. |..||.+++..+...-++++..++|...... ..........+|+|+|.+.|.......
T Consensus 163 ~~aLil~PtreLa~Q~~~~~~~l~~~~~~~v~~~~gg~~~~~----~~~~~~~~~~~Iiv~TP~~Ll~~~~~~------- 231 (475)
T PRK01297 163 PRALIIAPTRELVVQIAKDAAALTKYTGLNVMTFVGGMDFDK----QLKQLEARFCDILVATPGRLLDFNQRG------- 231 (475)
T ss_pred ceEEEEeCcHHHHHHHHHHHHHhhccCCCEEEEEEccCChHH----HHHHHhCCCCCEEEECHHHHHHHHHcC-------
Confidence 4689999986 7789999998887544678888887643210 001111245799999999986533210
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccccCChH--HHHHHHHHhcc---cCceEEEeCcCC
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA--AAATEMALRLY---AKHRWCITGTPI 386 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~--S~~~kal~~L~---a~~Rw~LTGTPi 386 (1071)
.+.--...+||+||+|.+.+.. ....+.+..+. ....+++|+|..
T Consensus 232 ---------------~~~l~~l~~lViDEah~l~~~~~~~~l~~i~~~~~~~~~~q~i~~SAT~~ 281 (475)
T PRK01297 232 ---------------EVHLDMVEVMVLDEADRMLDMGFIPQVRQIIRQTPRKEERQTLLFSATFT 281 (475)
T ss_pred ---------------CcccccCceEEechHHHHHhcccHHHHHHHHHhCCCCCCceEEEEEeecC
Confidence 0111245789999999986532 22333333332 235788999953
No 57
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=97.97 E-value=1.9e-06 Score=107.76 Aligned_cols=107 Identities=12% Similarity=-0.025 Sum_probs=77.8
Q ss_pred HHhhhhhhhhHHHHhhhHhhHHHHHHhHHHHHHHHHHHH--HHHHHHhhccC-CCCC----cCceeEeeCC---------
Q 001475 564 KIEGEEALRKLVMALNGLAGIALIEKNLSQAVSLYKEAM--AVVEEHSEDFR-LDPL----LNIHLHHNLT--------- 627 (1071)
Q Consensus 564 ~~e~~~~~rk~l~~sq~~a~L~ii~~~~~~a~~~y~~~l--~~~~~~~~~f~-~D~~----~~~~~~~nl~--------- 627 (1071)
..+.++.+.++++|+|+...++.++..+.........-. ....+-...|. +|-| .....+.||.
T Consensus 1214 ~iK~k~~qekvIvfsqws~~ldV~e~~~~~N~I~~~~~~~t~d~~dc~~~fk~I~clll~~~~~~~GLNL~eA~Hvfl~e 1293 (1394)
T KOG0298|consen 1214 YIKFKNEQEKVIVFSQWSVVLDVKELRYLMNLIKKQLDGETEDFDDCIICFKSIDCLLLFVSKGSKGLNLIEATHVFLVE 1293 (1394)
T ss_pred HHhccCcCceEEEEEehHHHHHHHHHHHHhhhhHhhhccCCcchhhhhhhcccceEEEEEeccCcccccHHhhhhhheec
Confidence 345566678999999999999999988776655443322 23333333342 2222 1113455554
Q ss_pred -cCCchhhhhhh-hhhhcCCCCceEEEeccccCCccccchhHhhh
Q 001475 628 -EILPMVANCAT-ELSQNEQHFPGCSEKAFKIHSIETCDENARKC 670 (1071)
Q Consensus 628 -~wnp~~~~QA~-R~hRiGQ~~~V~vyrl~t~~tiEE~~~~~~k~ 670 (1071)
=.||..+.||+ |+|||||++++.|||+|-.+||||.|+.+.+-
T Consensus 1294 PiLN~~~E~QAigRvhRiGQ~~pT~V~~fiv~~TvEe~Il~l~~~ 1338 (1394)
T KOG0298|consen 1294 PILNPGDEAQAIGRVHRIGQKRPTFVHRFIVNETVEENILSLITS 1338 (1394)
T ss_pred cccCchHHHhhhhhhhhcccccchhhhhhhhccchHHHHHHHhhh
Confidence 48999999999 99999999999999999999999999888654
No 58
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.97 E-value=9.1e-05 Score=91.23 Aligned_cols=111 Identities=14% Similarity=0.133 Sum_probs=70.3
Q ss_pred CcEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhh-hcCCcEEEEeHHHHHhhcccCCCCCcc
Q 001475 248 GATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISE-LVGADIVLTTYDVLKEDLSHDSDRHEG 325 (1071)
Q Consensus 248 ~~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~-l~~~dVVItTY~~l~~d~~~~~~~~~~ 325 (1071)
..+|||||.- |..|+.+++.++...-.+++..++|..... ..... ...+||||+|.+.|...+....
T Consensus 85 ~raLIl~PTreLa~Qi~~~~~~l~~~~~i~v~~l~Gg~~~~------~q~~~l~~~~dIiV~TP~rL~~~l~~~~----- 153 (572)
T PRK04537 85 PRALILAPTRELAIQIHKDAVKFGADLGLRFALVYGGVDYD------KQRELLQQGVDVIIATPGRLIDYVKQHK----- 153 (572)
T ss_pred ceEEEEeCcHHHHHHHHHHHHHHhccCCceEEEEECCCCHH------HHHHHHhCCCCEEEECHHHHHHHHHhcc-----
Confidence 3699999986 678999999999865567887777764321 01111 2357999999998876542100
Q ss_pred hhhhhhhcccCCCccccccccccceEEeccccccCChH--HHHHHHHHhcc---cCceEEEeCcC
Q 001475 326 DRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA--AAATEMALRLY---AKHRWCITGTP 385 (1071)
Q Consensus 326 ~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~--S~~~kal~~L~---a~~Rw~LTGTP 385 (1071)
.+.--...+|||||||.+-... ......+..+. ....+++|+|.
T Consensus 154 ----------------~~~l~~v~~lViDEAh~lld~gf~~~i~~il~~lp~~~~~q~ll~SATl 202 (572)
T PRK04537 154 ----------------VVSLHACEICVLDEADRMFDLGFIKDIRFLLRRMPERGTRQTLLFSATL 202 (572)
T ss_pred ----------------ccchhheeeeEecCHHHHhhcchHHHHHHHHHhcccccCceEEEEeCCc
Confidence 0111235679999999874322 22233334444 24568899995
No 59
>PRK00254 ski2-like helicase; Provisional
Probab=97.96 E-value=0.0001 Score=93.59 Aligned_cols=115 Identities=17% Similarity=0.171 Sum_probs=75.0
Q ss_pred CcEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 248 GATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 248 ~~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
+.+|+|+|.. ++.|+.+++.+|.. -.+++..++|.... ....+..+||+|+|++.+..-..+..
T Consensus 69 ~~~l~l~P~~aLa~q~~~~~~~~~~-~g~~v~~~~Gd~~~--------~~~~~~~~~IiV~Tpe~~~~ll~~~~------ 133 (720)
T PRK00254 69 GKAVYLVPLKALAEEKYREFKDWEK-LGLRVAMTTGDYDS--------TDEWLGKYDIIIATAEKFDSLLRHGS------ 133 (720)
T ss_pred CeEEEEeChHHHHHHHHHHHHHHhh-cCCEEEEEeCCCCC--------chhhhccCCEEEEcHHHHHHHHhCCc------
Confidence 4689999975 77899999988652 35888888887432 12335678999999998765432100
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccccCCh--HHHHHHHHHhcc-cCceEEEeCcCCCCChhhhhc
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESN--AAAATEMALRLY-AKHRWCITGTPIQRKLDDLYG 395 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~--~S~~~kal~~L~-a~~Rw~LTGTPiqN~l~DL~~ 395 (1071)
..+ -...+||+||+|.+.+. .......+..+. ....+++|+|+- +..|+-.
T Consensus 134 --------------~~l--~~l~lvViDE~H~l~~~~rg~~le~il~~l~~~~qiI~lSATl~--n~~~la~ 187 (720)
T PRK00254 134 --------------SWI--KDVKLVVADEIHLIGSYDRGATLEMILTHMLGRAQILGLSATVG--NAEELAE 187 (720)
T ss_pred --------------hhh--hcCCEEEEcCcCccCCccchHHHHHHHHhcCcCCcEEEEEccCC--CHHHHHH
Confidence 012 24578999999999643 233333444443 356788999963 2555543
No 60
>PRK09401 reverse gyrase; Reviewed
Probab=97.89 E-value=0.00012 Score=96.15 Aligned_cols=88 Identities=14% Similarity=0.104 Sum_probs=56.9
Q ss_pred CcEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhh--hcCCcEEEEeHHHHHhhcccCCCCCc
Q 001475 248 GATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISE--LVGADIVLTTYDVLKEDLSHDSDRHE 324 (1071)
Q Consensus 248 ~~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~--l~~~dVVItTY~~l~~d~~~~~~~~~ 324 (1071)
..+|||||.. |+.||.+.+.++.....+.+.+..|......... ...... -..+||+|+|.+.+...+.
T Consensus 124 ~~alIL~PTreLa~Qi~~~l~~l~~~~~~~~~~~~g~~~~~~~ek-~~~~~~l~~~~~~IlV~Tp~rL~~~~~------- 195 (1176)
T PRK09401 124 KKSYIIFPTRLLVEQVVEKLEKFGEKVGCGVKILYYHSSLKKKEK-EEFLERLKEGDFDILVTTSQFLSKNFD------- 195 (1176)
T ss_pred CeEEEEeccHHHHHHHHHHHHHHhhhcCceEEEEEccCCcchhHH-HHHHHHHhcCCCCEEEECHHHHHHHHH-------
Confidence 4699999987 6789999999998544555544444321100000 001111 2458999999999887642
Q ss_pred chhhhhhhcccCCCccccccccccceEEeccccccC
Q 001475 325 GDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVE 360 (1071)
Q Consensus 325 ~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iK 360 (1071)
.+....++.||+||||++-
T Consensus 196 -----------------~l~~~~~~~lVvDEaD~~L 214 (1176)
T PRK09401 196 -----------------ELPKKKFDFVFVDDVDAVL 214 (1176)
T ss_pred -----------------hccccccCEEEEEChHHhh
Confidence 1334458999999999863
No 61
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=97.89 E-value=4.4e-05 Score=91.92 Aligned_cols=112 Identities=18% Similarity=0.238 Sum_probs=79.9
Q ss_pred cEEEEeCchhH-HHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcchh
Q 001475 249 ATLIVCPAPIL-AQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGDR 327 (1071)
Q Consensus 249 ~tLIV~P~SLl-~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~~ 327 (1071)
-+...+|+.++ .|=...+.+|+.+-+++|....|+-+.... ......-..+..||||=|+..+...+..
T Consensus 313 Q~ALMAPTEILA~QH~~~~~~~l~~~~i~V~lLtG~~kgk~r-~~~l~~l~~G~~~ivVGTHALiQd~V~F--------- 382 (677)
T COG1200 313 QAALMAPTEILAEQHYESLRKWLEPLGIRVALLTGSLKGKAR-KEILEQLASGEIDIVVGTHALIQDKVEF--------- 382 (677)
T ss_pred eeEEeccHHHHHHHHHHHHHHHhhhcCCeEEEeecccchhHH-HHHHHHHhCCCCCEEEEcchhhhcceee---------
Confidence 36678999977 699999999997667999999998543211 1111222346689999999988776532
Q ss_pred hhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhc-c-cCceEEEeCcCCCCChh
Q 001475 328 RFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRL-Y-AKHRWCITGTPIQRKLD 391 (1071)
Q Consensus 328 ~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L-~-a~~Rw~LTGTPiqN~l~ 391 (1071)
-+..+||+||=|+..- .....++.- . ..|.++||+|||+..+.
T Consensus 383 ------------------~~LgLVIiDEQHRFGV---~QR~~L~~KG~~~Ph~LvMTATPIPRTLA 427 (677)
T COG1200 383 ------------------HNLGLVIIDEQHRFGV---HQRLALREKGEQNPHVLVMTATPIPRTLA 427 (677)
T ss_pred ------------------cceeEEEEeccccccH---HHHHHHHHhCCCCCcEEEEeCCCchHHHH
Confidence 1356899999999962 333444433 3 47999999999999764
No 62
>PRK05580 primosome assembly protein PriA; Validated
Probab=97.80 E-value=0.00017 Score=90.56 Aligned_cols=108 Identities=12% Similarity=0.017 Sum_probs=65.9
Q ss_pred CcEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 248 GATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 248 ~~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
+.+||++|.. +..||.+.+.+++ ..++.+++|......... ..........+|||.|.+.+..
T Consensus 191 ~~vLvLvPt~~L~~Q~~~~l~~~f---g~~v~~~~s~~s~~~r~~-~~~~~~~g~~~IVVgTrsal~~------------ 254 (679)
T PRK05580 191 KQALVLVPEIALTPQMLARFRARF---GAPVAVLHSGLSDGERLD-EWRKAKRGEAKVVIGARSALFL------------ 254 (679)
T ss_pred CeEEEEeCcHHHHHHHHHHHHHHh---CCCEEEEECCCCHHHHHH-HHHHHHcCCCCEEEeccHHhcc------------
Confidence 4699999986 7799999999988 368888988643210000 0011122457899999866532
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccccCC--hHHHHH--H---HHH-hcccCceEEEeCcCCCC
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVES--NAAAAT--E---MAL-RLYAKHRWCITGTPIQR 388 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN--~~S~~~--k---al~-~L~a~~Rw~LTGTPiqN 388 (1071)
++. +...||+||+|...- .....+ + ..+ .......+++|+||...
T Consensus 255 ---------------p~~--~l~liVvDEeh~~s~~~~~~p~y~~r~va~~ra~~~~~~~il~SATps~~ 307 (679)
T PRK05580 255 ---------------PFK--NLGLIIVDEEHDSSYKQQEGPRYHARDLAVVRAKLENIPVVLGSATPSLE 307 (679)
T ss_pred ---------------ccc--CCCEEEEECCCccccccCcCCCCcHHHHHHHHhhccCCCEEEEcCCCCHH
Confidence 122 367899999997532 111111 1 111 23345678889999643
No 63
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=97.69 E-value=0.00025 Score=90.49 Aligned_cols=114 Identities=18% Similarity=0.201 Sum_probs=72.5
Q ss_pred CcEEEEeCchhH-HHHHHHHHHhcCC--CCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCc
Q 001475 248 GATLIVCPAPIL-AQWDAEITRHTRP--GSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHE 324 (1071)
Q Consensus 248 ~~tLIV~P~SLl-~qW~~Ei~k~~~~--~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~ 324 (1071)
...|+|-|..-+ ..=.+.+.++... ..+++.+|+|....... ..-.-...||+||||+++-..+-...+.
T Consensus 116 a~AL~lYPtnALa~DQ~~rl~~~~~~~~~~v~~~~y~Gdt~~~~r-----~~~~~~pp~IllTNpdMLh~~llr~~~~-- 188 (851)
T COG1205 116 ARALLLYPTNALANDQAERLRELISDLPGKVTFGRYTGDTPPEER-----RAIIRNPPDILLTNPDMLHYLLLRNHDA-- 188 (851)
T ss_pred ccEEEEechhhhHhhHHHHHHHHHHhCCCcceeeeecCCCChHHH-----HHHHhCCCCEEEeCHHHHHHHhccCcch--
Confidence 378999998755 4346667777642 25788999998543210 1222457899999999987744221110
Q ss_pred chhhhhhhcccCCCccccccccccceEEeccccccCChH-HHHHHHHHhcccC--------ceEEEeCc
Q 001475 325 GDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA-AAATEMALRLYAK--------HRWCITGT 384 (1071)
Q Consensus 325 ~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~-S~~~kal~~L~a~--------~Rw~LTGT 384 (1071)
+ ....-++.+||+||+|..+..- |..+-.+++|.-. .-++.|+|
T Consensus 189 ----~------------~~~~~~Lk~lVvDElHtYrGv~GS~vA~llRRL~~~~~~~~~~~q~i~~SAT 241 (851)
T COG1205 189 ----W------------LWLLRNLKYLVVDELHTYRGVQGSEVALLLRRLLRRLRRYGSPLQIICTSAT 241 (851)
T ss_pred ----H------------HHHHhcCcEEEEecceeccccchhHHHHHHHHHHHHHhccCCCceEEEEecc
Confidence 0 0112238899999999987644 6677777776422 33777877
No 64
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.67 E-value=0.00081 Score=79.90 Aligned_cols=107 Identities=22% Similarity=0.297 Sum_probs=72.9
Q ss_pred cEEEEeCch-hHHHHHHHHHHhcCCCCC-eEEEEeCCCCCccccccccchhhhc-CCcEEEEeHHHHHhhcccCCCCCcc
Q 001475 249 ATLIVCPAP-ILAQWDAEITRHTRPGSL-KTCIYEGARNSSLSDTSIMDISELV-GADIVLTTYDVLKEDLSHDSDRHEG 325 (1071)
Q Consensus 249 ~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l-~v~vy~G~~~~~~~~~~~~~~~~l~-~~dVVItTY~~l~~d~~~~~~~~~~ 325 (1071)
.+||++|.- |..|-..++.++.....+ .+++|-|.... .+...+. ..||||+|-..+...+...
T Consensus 167 ~vLVL~PTRELA~QV~~~~~~~~~~~~~~~~cvyGG~~~~-------~Q~~~l~~gvdiviaTPGRl~d~le~g------ 233 (519)
T KOG0331|consen 167 IVLVLAPTRELAVQVQAEAREFGKSLRLRSTCVYGGAPKG-------PQLRDLERGVDVVIATPGRLIDLLEEG------ 233 (519)
T ss_pred eEEEEcCcHHHHHHHHHHHHHHcCCCCccEEEEeCCCCcc-------HHHHHHhcCCcEEEeCChHHHHHHHcC------
Confidence 499999998 778999999999966556 45666666443 2334444 4999999999998876431
Q ss_pred hhhhhhhcccCCCccccccccccceEEeccccccCC--hHHHHHHHHHhcc-cCc-eEEEeCc
Q 001475 326 DRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVES--NAAAATEMALRLY-AKH-RWCITGT 384 (1071)
Q Consensus 326 ~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN--~~S~~~kal~~L~-a~~-Rw~LTGT 384 (1071)
.+.--...++|||||.++-. ...+.-+.+..+. ... .++-|+|
T Consensus 234 ----------------~~~l~~v~ylVLDEADrMldmGFe~qI~~Il~~i~~~~rQtlm~saT 280 (519)
T KOG0331|consen 234 ----------------SLNLSRVTYLVLDEADRMLDMGFEPQIRKILSQIPRPDRQTLMFSAT 280 (519)
T ss_pred ----------------CccccceeEEEeccHHhhhccccHHHHHHHHHhcCCCcccEEEEeee
Confidence 12223467899999998743 3466777777773 332 4555555
No 65
>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=97.67 E-value=0.00045 Score=80.38 Aligned_cols=125 Identities=10% Similarity=0.015 Sum_probs=68.8
Q ss_pred cEEEEeCch-hHHHHHHHHHHhcC----CCCCeEEEEeCCCCCc---cc-------ccc-----ccchhhhcCCcEEEEe
Q 001475 249 ATLIVCPAP-ILAQWDAEITRHTR----PGSLKTCIYEGARNSS---LS-------DTS-----IMDISELVGADIVLTT 308 (1071)
Q Consensus 249 ~tLIV~P~S-Ll~qW~~Ei~k~~~----~~~l~v~vy~G~~~~~---~~-------~~~-----~~~~~~l~~~dVVItT 308 (1071)
++++|+|.. +..+|.+.+.+++. .....+..+.|..... .. ... ..........+|++|+
T Consensus 41 ~~~~~~P~~aL~~~~~~~~~~~~~~~~~~~~~~v~~~~g~~~~d~~~~~~~~~~~~~g~~~~~~~r~~~~~~~p~illT~ 120 (357)
T TIGR03158 41 DTIALYPTNALIEDQTEAIKEFVDVFKPERDVNLLHVSKATLKDIKEYANDKVGSSKGEKLYNLLRNPIGTSTPIILLTN 120 (357)
T ss_pred CEEEEeChHHHHHHHHHHHHHHHHhcCCCCCceEEEecCCchHHHHHhhhhhcccCccchhhhhHHHHHhcCCCCEEEec
Confidence 579999965 77899888888872 1246777888862211 00 000 0000112467899999
Q ss_pred HHHHHhhcccCCCCCcchhhhhhhcccCCCccccccccccceEEeccccccCChHH-------HHHHHHHhcc-cCceEE
Q 001475 309 YDVLKEDLSHDSDRHEGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAA-------AATEMALRLY-AKHRWC 380 (1071)
Q Consensus 309 Y~~l~~d~~~~~~~~~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S-------~~~kal~~L~-a~~Rw~ 380 (1071)
++.+..-...... ++........-...+||+||+|.+..... .....+.... ....++
T Consensus 121 p~~l~~llr~~~~--------------~~~~~~~~~~~~~~~iV~DE~H~~~~~~~~~~~~~l~~~~~~~~~~~~~~~i~ 186 (357)
T TIGR03158 121 PDIFVYLTRFAYI--------------DRGDIAAGFYTKFSTVIFDEFHLYDAKQLVGMLFLLAYMQLIRFFECRRKFVF 186 (357)
T ss_pred HHHHHHHHhhhcc--------------CcccchhhhhcCCCEEEEecccccCcccchhhhhhhHHHHHHHhhhcCCcEEE
Confidence 9988653221000 00000001123578999999999875321 1112222222 357789
Q ss_pred EeCcCCC
Q 001475 381 ITGTPIQ 387 (1071)
Q Consensus 381 LTGTPiq 387 (1071)
+||||-.
T Consensus 187 lSAT~~~ 193 (357)
T TIGR03158 187 LSATPDP 193 (357)
T ss_pred EecCCCH
Confidence 9999854
No 66
>PRK13767 ATP-dependent helicase; Provisional
Probab=97.67 E-value=0.00044 Score=89.31 Aligned_cols=112 Identities=20% Similarity=0.127 Sum_probs=65.2
Q ss_pred cEEEEeCch-hHHHHHH-------HHHHhc-----CCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhh
Q 001475 249 ATLIVCPAP-ILAQWDA-------EITRHT-----RPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKED 315 (1071)
Q Consensus 249 ~tLIV~P~S-Ll~qW~~-------Ei~k~~-----~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d 315 (1071)
.+|+|+|.- |..|+.+ ++.+++ ..+.+++.+++|....... ........+|+|||.+.+...
T Consensus 86 ~~LyIsPtraLa~di~~~L~~~l~~i~~~~~~~g~~~~~i~v~v~~Gdt~~~~r-----~~~l~~~p~IlVtTPE~L~~l 160 (876)
T PRK13767 86 YCLYVSPLRALNNDIHRNLEEPLTEIREIAKERGEELPEIRVAIRTGDTSSYEK-----QKMLKKPPHILITTPESLAIL 160 (876)
T ss_pred EEEEEcCHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCeeEEEEcCCCCHHHH-----HHHHhCCCCEEEecHHHHHHH
Confidence 589999975 5567665 333443 1236788999997532110 001113578999999998654
Q ss_pred cccCCCCCcchhhhhhhcccCCCccccccccccceEEeccccccCChH--HHHHHHHHhc---c--cCceEEEeCcC
Q 001475 316 LSHDSDRHEGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA--AAATEMALRL---Y--AKHRWCITGTP 385 (1071)
Q Consensus 316 ~~~~~~~~~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~--S~~~kal~~L---~--a~~Rw~LTGTP 385 (1071)
+... .+ ...|. ....||+||+|.+-+.. ......+.+| . ...++++|+|+
T Consensus 161 l~~~--------~~----------~~~l~--~l~~VVIDE~H~l~~~~RG~~l~~~L~rL~~l~~~~~q~IglSATl 217 (876)
T PRK13767 161 LNSP--------KF----------REKLR--TVKWVIVDEIHSLAENKRGVHLSLSLERLEELAGGEFVRIGLSATI 217 (876)
T ss_pred hcCh--------hH----------HHHHh--cCCEEEEechhhhccCccHHHHHHHHHHHHHhcCCCCeEEEEeccc
Confidence 3210 00 00122 34679999999986432 2222233332 2 35689999996
No 67
>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=97.61 E-value=0.00068 Score=85.96 Aligned_cols=112 Identities=18% Similarity=0.189 Sum_probs=68.4
Q ss_pred cEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcchh
Q 001475 249 ATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGDR 327 (1071)
Q Consensus 249 ~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~~ 327 (1071)
..|||+|.- |..|=..++.++. ...+++.+|+|...... ........+|||||.+.+....-.. + .
T Consensus 83 ~aL~l~PtraLa~q~~~~l~~l~-~~~i~v~~~~Gdt~~~~------r~~i~~~~~IivtTPd~L~~~~L~~---~---~ 149 (742)
T TIGR03817 83 TALYLAPTKALAADQLRAVRELT-LRGVRPATYDGDTPTEE------RRWAREHARYVLTNPDMLHRGILPS---H---A 149 (742)
T ss_pred EEEEEcChHHHHHHHHHHHHHhc-cCCeEEEEEeCCCCHHH------HHHHhcCCCEEEEChHHHHHhhccc---h---h
Confidence 689999986 5567777888876 34688999999754210 0111234789999999886432110 0 0
Q ss_pred hhhhhcccCCCccccccccccceEEeccccccCCh-HHHHHHHHHhcc--------cCceEEEeCcC
Q 001475 328 RFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESN-AAAATEMALRLY--------AKHRWCITGTP 385 (1071)
Q Consensus 328 ~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~-~S~~~kal~~L~--------a~~Rw~LTGTP 385 (1071)
.+. ..|. +-.+||+||||.+.+. .+.....+.+|. ....+++|+|.
T Consensus 150 ~~~----------~~l~--~l~~vViDEah~~~g~fg~~~~~il~rL~ri~~~~g~~~q~i~~SATi 204 (742)
T TIGR03817 150 RWA----------RFLR--RLRYVVIDECHSYRGVFGSHVALVLRRLRRLCARYGASPVFVLASATT 204 (742)
T ss_pred HHH----------HHHh--cCCEEEEeChhhccCccHHHHHHHHHHHHHHHHhcCCCCEEEEEecCC
Confidence 000 0122 3478999999998652 344444444442 13578899993
No 68
>COG4889 Predicted helicase [General function prediction only]
Probab=97.57 E-value=9.8e-05 Score=89.29 Aligned_cols=116 Identities=21% Similarity=0.168 Sum_probs=61.3
Q ss_pred CcEEEEeCc-hhHHHHHHHHHHhcCCCCCeEEEEeCCCCCcccccc--------------------ccchhhhcCCcEEE
Q 001475 248 GATLIVCPA-PILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTS--------------------IMDISELVGADIVL 306 (1071)
Q Consensus 248 ~~tLIV~P~-SLl~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~--------------------~~~~~~l~~~dVVI 306 (1071)
..+|.+||+ +|+.|=.+|...-..- .++........+...+... .........--||.
T Consensus 207 ~~iL~LvPSIsLLsQTlrew~~~~~l-~~~a~aVcSD~kvsrs~eDik~sdl~~p~sT~~~~il~~~~~~~k~~~~~vvF 285 (1518)
T COG4889 207 ARILFLVPSISLLSQTLREWTAQKEL-DFRASAVCSDDKVSRSAEDIKASDLPIPVSTDLEDILSEMEHRQKANGLTVVF 285 (1518)
T ss_pred hheEeecchHHHHHHHHHHHhhccCc-cceeEEEecCccccccccccccccCCCCCcccHHHHHHHHHHhhccCCcEEEE
Confidence 478999997 5788877776554421 2444444333322111000 00000112233778
Q ss_pred EeHHHHHhhcccCCCCCcchhhhhhhcccCCCccccccccccceEEeccccccCChH------HHHHH--HHHhcccCce
Q 001475 307 TTYDVLKEDLSHDSDRHEGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA------AAATE--MALRLYAKHR 378 (1071)
Q Consensus 307 tTY~~l~~d~~~~~~~~~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~------S~~~k--al~~L~a~~R 378 (1071)
.||..+-.-... ...---.|+.||+||||+--... |..++ .-..+++..|
T Consensus 286 sTYQSl~~i~eA----------------------Qe~G~~~fDliicDEAHRTtGa~~a~dd~saFt~vHs~~niKa~kR 343 (1518)
T COG4889 286 STYQSLPRIKEA----------------------QEAGLDEFDLIICDEAHRTTGATLAGDDKSAFTRVHSDQNIKAAKR 343 (1518)
T ss_pred EcccchHHHHHH----------------------HHcCCCCccEEEecchhccccceecccCcccceeecCcchhHHHHh
Confidence 888776542110 01222358999999999853221 11111 1123677889
Q ss_pred EEEeCcCC
Q 001475 379 WCITGTPI 386 (1071)
Q Consensus 379 w~LTGTPi 386 (1071)
+-+|+||-
T Consensus 344 lYmTATPk 351 (1518)
T COG4889 344 LYMTATPK 351 (1518)
T ss_pred hhcccCch
Confidence 99999994
No 69
>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=97.51 E-value=0.0007 Score=67.39 Aligned_cols=101 Identities=15% Similarity=0.107 Sum_probs=57.1
Q ss_pred CcEEEEeCchhHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcchh
Q 001475 248 GATLIVCPAPILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGDR 327 (1071)
Q Consensus 248 ~~tLIV~P~SLl~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~~ 327 (1071)
+.+||+.|.-++ .+|+.+... ...+. |+..-. ........-|-+++|.++......
T Consensus 34 ~rvLvL~PTRvv---a~em~~aL~--~~~~~-~~t~~~---------~~~~~g~~~i~vMc~at~~~~~~~--------- 89 (148)
T PF07652_consen 34 LRVLVLAPTRVV---AEEMYEALK--GLPVR-FHTNAR---------MRTHFGSSIIDVMCHATYGHFLLN--------- 89 (148)
T ss_dssp --EEEEESSHHH---HHHHHHHTT--TSSEE-EESTTS---------S----SSSSEEEEEHHHHHHHHHT---------
T ss_pred CeEEEecccHHH---HHHHHHHHh--cCCcc-cCceee---------eccccCCCcccccccHHHHHHhcC---------
Confidence 589999999877 456666663 34432 222211 112335566889999998775421
Q ss_pred hhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHH-hcc---cCceEEEeCcCCC
Q 001475 328 RFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMAL-RLY---AKHRWCITGTPIQ 387 (1071)
Q Consensus 328 ~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~-~L~---a~~Rw~LTGTPiq 387 (1071)
+....+|++||+||+|.. ++.|.++.... .+. ....+.+|+||--
T Consensus 90 --------------p~~~~~yd~II~DEcH~~-Dp~sIA~rg~l~~~~~~g~~~~i~mTATPPG 138 (148)
T PF07652_consen 90 --------------PCRLKNYDVIIMDECHFT-DPTSIAARGYLRELAESGEAKVIFMTATPPG 138 (148)
T ss_dssp --------------SSCTTS-SEEEECTTT---SHHHHHHHHHHHHHHHTTS-EEEEEESS-TT
T ss_pred --------------cccccCccEEEEeccccC-CHHHHhhheeHHHhhhccCeeEEEEeCCCCC
Confidence 233468999999999996 45555544332 222 1357889999954
No 70
>PHA02653 RNA helicase NPH-II; Provisional
Probab=97.48 E-value=0.0026 Score=79.32 Aligned_cols=103 Identities=11% Similarity=0.088 Sum_probs=58.2
Q ss_pred CcEEEEeCch-hHHHHHHHHHHhcCC---CCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCC
Q 001475 248 GATLIVCPAP-ILAQWDAEITRHTRP---GSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRH 323 (1071)
Q Consensus 248 ~~tLIV~P~S-Ll~qW~~Ei~k~~~~---~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~ 323 (1071)
++++|++|.- +..|...++.+.... +..++.+..|...... ........+++|.|.......
T Consensus 223 ~~ilvt~PrreLa~qi~~~i~~~vg~~~~~g~~v~v~~Gg~~~~~------~~t~~k~~~Ilv~T~~L~l~~-------- 288 (675)
T PHA02653 223 RPIVLSLPRVALVRLHSITLLKSLGFDEIDGSPISLKYGSIPDEL------INTNPKPYGLVFSTHKLTLNK-------- 288 (675)
T ss_pred cEEEEECcHHHHHHHHHHHHHHHhCccccCCceEEEEECCcchHH------hhcccCCCCEEEEeCcccccc--------
Confidence 5799999986 557888888775521 2345555455432110 011122568888874321110
Q ss_pred cchhhhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhcc-c-CceEEEeCcC
Q 001475 324 EGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLY-A-KHRWCITGTP 385 (1071)
Q Consensus 324 ~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~-a-~~Rw~LTGTP 385 (1071)
| -....||+||||..-...-.....++.+. . ...+++|+|+
T Consensus 289 -------------------L--~~v~~VVIDEaHEr~~~~DllL~llk~~~~~~rq~ILmSATl 331 (675)
T PHA02653 289 -------------------L--FDYGTVIIDEVHEHDQIGDIIIAVARKHIDKIRSLFLMTATL 331 (675)
T ss_pred -------------------c--ccCCEEEccccccCccchhHHHHHHHHhhhhcCEEEEEccCC
Confidence 1 24678999999997544433333333332 2 2568999996
No 71
>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=97.47 E-value=0.00041 Score=84.07 Aligned_cols=107 Identities=11% Similarity=0.005 Sum_probs=67.6
Q ss_pred CcEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 248 GATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 248 ~~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
+.+|||+|.. |..|+.+.+++.+ ..++.+++|.-....... ........+.+|||+|...+..
T Consensus 26 ~~vLvlvP~i~L~~Q~~~~l~~~f---~~~v~vlhs~~~~~er~~-~~~~~~~g~~~IVVGTrsalf~------------ 89 (505)
T TIGR00595 26 KSVLVLVPEIALTPQMIQRFKYRF---GSQVAVLHSGLSDSEKLQ-AWRKVKNGEILVVIGTRSALFL------------ 89 (505)
T ss_pred CeEEEEeCcHHHHHHHHHHHHHHh---CCcEEEEECCCCHHHHHH-HHHHHHcCCCCEEECChHHHcC------------
Confidence 4699999975 7789999999988 357888888633211000 0011123467899999887632
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccccC--ChHHH------HHHHHHhcccCceEEEeCcCCC
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVE--SNAAA------ATEMALRLYAKHRWCITGTPIQ 387 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iK--N~~S~------~~kal~~L~a~~Rw~LTGTPiq 387 (1071)
++. +.++||+||.|... ..... .+...........+++|+||..
T Consensus 90 ---------------p~~--~l~lIIVDEeh~~sykq~~~p~y~ar~~a~~ra~~~~~~vil~SATPsl 141 (505)
T TIGR00595 90 ---------------PFK--NLGLIIVDEEHDSSYKQEEGPRYHARDVAVYRAKKFNCPVVLGSATPSL 141 (505)
T ss_pred ---------------ccc--CCCEEEEECCCccccccccCCCCcHHHHHHHHHHhcCCCEEEEeCCCCH
Confidence 122 35899999999853 22211 1122223455678899999974
No 72
>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=97.29 E-value=0.00087 Score=77.84 Aligned_cols=120 Identities=13% Similarity=0.093 Sum_probs=67.3
Q ss_pred CcEEEEeCc-hhHHHHHHHHHHhcCCCCCeEEEEeCCCCCcc----ccc-cc--------cchhhhcCCcEEEEeHHHHH
Q 001475 248 GATLIVCPA-PILAQWDAEITRHTRPGSLKTCIYEGARNSSL----SDT-SI--------MDISELVGADIVLTTYDVLK 313 (1071)
Q Consensus 248 ~~tLIV~P~-SLl~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~----~~~-~~--------~~~~~l~~~dVVItTY~~l~ 313 (1071)
+.+++|+|. +++.|+.+.+..++ +. ++..++|...... .+. .. .........+|+++|.+.+.
T Consensus 30 ~~ii~v~P~~~L~~q~~~~l~~~f--~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~v~T~~~l~ 106 (358)
T TIGR01587 30 DRVIIALPTRATINAMYRRAKELF--GS-NLGLLHSSSSFKRIKEMGDSEEFEHLFPLYIHSNDKLFLDPITVCTIDQVL 106 (358)
T ss_pred CeEEEEeehHHHHHHHHHHHHHHh--Cc-ccEEeeccHHHHHHhccCCchhHHHHHHHHhhchhhhhhCCeeeCCHHHHH
Confidence 468999996 57899999999987 32 4555565422100 000 00 00111235779999999987
Q ss_pred hhcccCCCCCcchhhhhhhcccCCCccccccccccceEEeccccccCChH-HHHHHHHHhcc--cCceEEEeCcCC
Q 001475 314 EDLSHDSDRHEGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA-AAATEMALRLY--AKHRWCITGTPI 386 (1071)
Q Consensus 314 ~d~~~~~~~~~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~-S~~~kal~~L~--a~~Rw~LTGTPi 386 (1071)
..+..... . . .-.+..+.-.+||+||+|.+.... ......+..+. ....+++|+|+-
T Consensus 107 ~~~~~~~~----~--~----------~~~~~~~~~~~iViDE~h~~~~~~~~~l~~~l~~l~~~~~~~i~~SATlp 166 (358)
T TIGR01587 107 KSVFGEFG----H--Y----------EFTLASIANSLLIFDEVHFYDEYTLALILAVLEVLKDNDVPILLMSATLP 166 (358)
T ss_pred HHHhcccc----h--H----------HHHHHHhcCCEEEEeCCCCCCHHHHHHHHHHHHHHHHcCCCEEEEecCch
Confidence 65432000 0 0 001233334789999999987532 22333333333 345688999964
No 73
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=97.28 E-value=0.0016 Score=83.62 Aligned_cols=131 Identities=15% Similarity=0.148 Sum_probs=70.9
Q ss_pred CcEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCcccccccc-chhhhcCCcEEEEeHHHHHhhcccCCCCCcc
Q 001475 248 GATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIM-DISELVGADIVLTTYDVLKEDLSHDSDRHEG 325 (1071)
Q Consensus 248 ~~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~-~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~ 325 (1071)
+.+|||+|.- |+.+....+... .+++..+.|............ .......++|+++|-+.+...-..
T Consensus 501 GiTLVISPLiSLmqDQV~~L~~~----GI~Aa~L~s~~s~~eq~~ilr~l~s~~g~~~ILyvTPERL~~~d~l------- 569 (1195)
T PLN03137 501 GITLVISPLVSLIQDQIMNLLQA----NIPAASLSAGMEWAEQLEILQELSSEYSKYKLLYVTPEKVAKSDSL------- 569 (1195)
T ss_pred CcEEEEeCHHHHHHHHHHHHHhC----CCeEEEEECCCCHHHHHHHHHHHHhcCCCCCEEEEChHHhhcchHH-------
Confidence 4699999975 655444444432 366666655432110000000 001225789999999987642100
Q ss_pred hhhhhhhcccCCCcccccc-ccccceEEeccccccCChHH---HHHH----HHHhcccCceEEEeCcCCCCChhhhhccc
Q 001475 326 DRRFMRFQKRYPVIPTLLT-RIFWWRICLDEAQMVESNAA---AATE----MALRLYAKHRWCITGTPIQRKLDDLYGLL 397 (1071)
Q Consensus 326 ~~~~~r~~kr~~~~~s~L~-~i~w~rVIlDEAH~iKN~~S---~~~k----al~~L~a~~Rw~LTGTPiqN~l~DL~~LL 397 (1071)
.+.. ..+. .....+||+||||.+-.... .-++ ....+.....++||+|...+-..|+...|
T Consensus 570 ----l~~L-------~~L~~~~~LslIVIDEAHcVSqWGhDFRpdYr~L~~Lr~~fp~vPilALTATAT~~V~eDI~~~L 638 (1195)
T PLN03137 570 ----LRHL-------ENLNSRGLLARFVIDEAHCVSQWGHDFRPDYQGLGILKQKFPNIPVLALTATATASVKEDVVQAL 638 (1195)
T ss_pred ----HHHH-------HhhhhccccceeccCcchhhhhcccchHHHHHHHHHHHHhCCCCCeEEEEecCCHHHHHHHHHHc
Confidence 0000 0011 12357899999999754221 1112 22234566789999999888777777666
Q ss_pred ccc
Q 001475 398 RFL 400 (1071)
Q Consensus 398 ~FL 400 (1071)
...
T Consensus 639 ~l~ 641 (1195)
T PLN03137 639 GLV 641 (1195)
T ss_pred CCC
Confidence 543
No 74
>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=97.23 E-value=0.0017 Score=80.98 Aligned_cols=118 Identities=18% Similarity=0.132 Sum_probs=64.9
Q ss_pred cEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCC-CCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 249 ATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGA-RNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 249 ~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~-~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
.++||+|.. |..||.+++..+...-++++.+..+. ...... .........+||+++|.+.+..++-...-.
T Consensus 113 ~V~VVTpn~yLA~Rdae~m~~l~~~LGLsv~~~~~~s~~~~~~---~~~rr~~y~~dIvygTp~~LgfDyLrD~l~---- 185 (762)
T TIGR03714 113 GAMLVTTNDYLAKRDAEEMGPVYEWLGLTVSLGVVDDPDEEYD---ANEKRKIYNSDIVYTTNSALGFDYLIDNLA---- 185 (762)
T ss_pred ceEEeCCCHHHHHHHHHHHHHHHhhcCCcEEEEECCCCccccC---HHHHHHhCCCCEEEECchhhhhhHHHHHhh----
Confidence 589999987 66788877766553225666554332 111110 001122246899999999986543210000
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCCCCChhhhhccc
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQRKLDDLYGLL 397 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPiqN~l~DL~~LL 397 (1071)
..+ ..+..-...++|+||||.+--.. +...+++||.|-.. .++|...
T Consensus 186 -----~~~------~~~~~r~l~~~IVDEaDsILiDe-----------artpliisg~~~~~--~~~y~~~ 232 (762)
T TIGR03714 186 -----SNK------EGKFLRPFNYVIVDEVDSVLLDS-----------AQTPLVISGAPRVQ--SNLYHIA 232 (762)
T ss_pred -----cch------hhcccccCcEEEEecHhhHhhcc-----------CcCCeeeeCCCccc--hHHHHHH
Confidence 000 00122256789999999873222 44567888876433 3455544
No 75
>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=97.15 E-value=0.0013 Score=86.86 Aligned_cols=86 Identities=15% Similarity=0.164 Sum_probs=55.8
Q ss_pred CcEEEEeCch-hHHHHHHHHHHhcCCCCCe---EEEEeCCCCCccccccccchhhh--cCCcEEEEeHHHHHhhcccCCC
Q 001475 248 GATLIVCPAP-ILAQWDAEITRHTRPGSLK---TCIYEGARNSSLSDTSIMDISEL--VGADIVLTTYDVLKEDLSHDSD 321 (1071)
Q Consensus 248 ~~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~---v~vy~G~~~~~~~~~~~~~~~~l--~~~dVVItTY~~l~~d~~~~~~ 321 (1071)
..+|||+|.. |..|+.+++.+++..-.++ +..|+|...... +......+ ..+||||+|...+...+..
T Consensus 122 ~~vLIL~PTreLa~Qi~~~l~~l~~~~~i~~~~i~~~~Gg~~~~e---~~~~~~~l~~~~~dIlV~Tp~rL~~~~~~--- 195 (1171)
T TIGR01054 122 KRCYIILPTTLLVIQVAEKISSLAEKAGVGTVNIGAYHSRLPTKE---KKEFMERIENGDFDILITTTMFLSKNYDE--- 195 (1171)
T ss_pred CeEEEEeCHHHHHHHHHHHHHHHHHhcCCceeeeeeecCCCCHHH---HHHHHHHHhcCCCCEEEECHHHHHHHHHH---
Confidence 3689999987 6689999999988432333 335777532110 00001111 3589999999998765421
Q ss_pred CCcchhhhhhhcccCCCccccccccccceEEeccccccCC
Q 001475 322 RHEGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVES 361 (1071)
Q Consensus 322 ~~~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN 361 (1071)
+.. .++.+|+||||.+-.
T Consensus 196 ---------------------l~~-~~~~iVvDEaD~~L~ 213 (1171)
T TIGR01054 196 ---------------------LGP-KFDFIFVDDVDALLK 213 (1171)
T ss_pred ---------------------hcC-CCCEEEEeChHhhhh
Confidence 222 789999999998743
No 76
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.11 E-value=0.0017 Score=75.18 Aligned_cols=97 Identities=14% Similarity=0.165 Sum_probs=70.2
Q ss_pred CCCcEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCc
Q 001475 246 ATGATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHE 324 (1071)
Q Consensus 246 ~~~~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~ 324 (1071)
.+=+.+||+|.- |..|-.++|.+|+..-++.|....|...-.....+..........||+|+|-..|..++....
T Consensus 214 ~~LRavVivPtr~L~~QV~~~f~~~~~~tgL~V~~~sgq~sl~~E~~qL~~~~~~~~~DIlVaTPGRLVDHl~~~k---- 289 (620)
T KOG0350|consen 214 KRLRAVVIVPTRELALQVYDTFKRLNSGTGLAVCSLSGQNSLEDEARQLASDPPECRIDILVATPGRLVDHLNNTK---- 289 (620)
T ss_pred cceEEEEEeeHHHHHHHHHHHHHHhccCCceEEEecccccchHHHHHHHhcCCCccccceEEcCchHHHHhccCCC----
Confidence 445789999987 557999999999987789999999986544332223333333467999999999998875321
Q ss_pred chhhhhhhcccCCCccccccccccceEEeccccccCChH
Q 001475 325 GDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA 363 (1071)
Q Consensus 325 ~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~ 363 (1071)
.+.--+-.++|+|||.++-+..
T Consensus 290 -----------------~f~Lk~LrfLVIDEADRll~qs 311 (620)
T KOG0350|consen 290 -----------------SFDLKHLRFLVIDEADRLLDQS 311 (620)
T ss_pred -----------------CcchhhceEEEechHHHHHHHH
Confidence 2333345679999999997644
No 77
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=97.06 E-value=0.0042 Score=78.99 Aligned_cols=155 Identities=13% Similarity=0.090 Sum_probs=80.4
Q ss_pred CcEEEEeCch-hHHHHHHHH-----HHhcC----CCCCeEEEEeCCCCCcccccccc-chhhh---c-----CCcEEEEe
Q 001475 248 GATLIVCPAP-ILAQWDAEI-----TRHTR----PGSLKTCIYEGARNSSLSDTSIM-DISEL---V-----GADIVLTT 308 (1071)
Q Consensus 248 ~~tLIV~P~S-Ll~qW~~Ei-----~k~~~----~~~l~v~vy~G~~~~~~~~~~~~-~~~~l---~-----~~dVVItT 308 (1071)
..+|||||.. +.....+=+ +.|+. ...++..+|.+.++......... ....+ . .-.|+|+|
T Consensus 90 ~~fii~vp~~aI~egv~~~l~s~~~k~hF~~~y~~~~~~~~~~~S~k~~k~gr~~~~~~i~~Fa~~~~~~~~~I~Ilv~n 169 (986)
T PRK15483 90 FKFIIVVPTPAIKEGTRNFIQSDYAKQHFSQFYENTRIELYVINAGDKKKSGRKNFPAQLSNFVKASRQNSNTIHVLLIN 169 (986)
T ss_pred cEEEEEeCCHHHHHHHHHHhhHHHHHHHHHHHcCCceeEEEEEecCcccccccccChHHHHHHHhccccCCCceEEEEEe
Confidence 4799999985 444443332 24442 12377788886542111000000 10111 1 35699999
Q ss_pred HHHHHhhcccCCCCCcchhhhhhhcccCCCccccccc--cccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCC
Q 001475 309 YDVLKEDLSHDSDRHEGDRRFMRFQKRYPVIPTLLTR--IFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPI 386 (1071)
Q Consensus 309 Y~~l~~d~~~~~~~~~~~~~~~r~~kr~~~~~s~L~~--i~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPi 386 (1071)
-+.+.++...... .++... ... ..|+.. -.=-.||+||+|++... .+..+++..++..+.+--|+|--
T Consensus 170 iqa~n~~~~~~~~---~D~~l~--~g~----~~p~~~i~~~~PivIiDEPh~~~~~-~k~~~~i~~lnpl~~lrysAT~~ 239 (986)
T PRK15483 170 AGMLNSASMTRDD---YDQTLL--GGF----TSPVDALAATRPVVIIDEPHRFPRD-NKFYQAIEALKPQMIIRFGATFP 239 (986)
T ss_pred hHHhcccccccch---hhhhhc--cCC----CChHHHHHhCCCEEEEECCCCCCcc-hHHHHHHHhcCcccEEEEeeecC
Confidence 9999765210000 000000 000 011111 11236999999999652 34668889999999888999954
Q ss_pred C-------C--ChhhhhccccccCCCCCCChhhhHHHhcC
Q 001475 387 Q-------R--KLDDLYGLLRFLKSSPFSISRWWIEVIRD 417 (1071)
Q Consensus 387 q-------N--~l~DL~~LL~FL~p~~~~~~~~F~~~~~~ 417 (1071)
. | ...|.|+++-=|+ ....|...+..
T Consensus 240 ~~~~~~g~~~~~~~d~~NlvY~Ld-----avdAyn~~LVK 274 (986)
T PRK15483 240 DITEGKGKNKCTRKDYYNLQFDLN-----AVDSFNDGLVK 274 (986)
T ss_pred CccccccccccccccccCceeecC-----HHHHHHhCCcc
Confidence 3 1 1224666655443 34555555543
No 78
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=97.02 E-value=0.0028 Score=80.89 Aligned_cols=113 Identities=19% Similarity=0.187 Sum_probs=72.6
Q ss_pred CcEEEEeCchhH-HHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 248 GATLIVCPAPIL-AQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 248 ~~tLIV~P~SLl-~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
+-+-|+||+.|+ .|=.+-|..-+.+=.++|-+...-....- .......-..++.||||=|+..|.+++..
T Consensus 644 KQVAvLVPTTlLA~QHy~tFkeRF~~fPV~I~~LSRF~s~kE-~~~il~~la~G~vDIvIGTHrLL~kdv~F-------- 714 (1139)
T COG1197 644 KQVAVLVPTTLLAQQHYETFKERFAGFPVRIEVLSRFRSAKE-QKEILKGLAEGKVDIVIGTHRLLSKDVKF-------- 714 (1139)
T ss_pred CeEEEEcccHHhHHHHHHHHHHHhcCCCeeEEEecccCCHHH-HHHHHHHHhcCCccEEEechHhhCCCcEE--------
Confidence 458899999987 46566665555221244444443322110 01111222346899999999999988642
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhccc-CceEEEeCcCCCCChh
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLYA-KHRWCITGTPIQRKLD 391 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~a-~~Rw~LTGTPiqN~l~ 391 (1071)
-+-.+||+||=|+..= +.-..++.|++ .+.+-||+|||+..+.
T Consensus 715 -------------------kdLGLlIIDEEqRFGV---k~KEkLK~Lr~~VDvLTLSATPIPRTL~ 758 (1139)
T COG1197 715 -------------------KDLGLLIIDEEQRFGV---KHKEKLKELRANVDVLTLSATPIPRTLN 758 (1139)
T ss_pred -------------------ecCCeEEEechhhcCc---cHHHHHHHHhccCcEEEeeCCCCcchHH
Confidence 1246899999999863 33456777765 5889999999998763
No 79
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=96.90 E-value=0.0053 Score=77.08 Aligned_cols=125 Identities=18% Similarity=0.179 Sum_probs=76.7
Q ss_pred cEEEEeCchhHH-HHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcchh
Q 001475 249 ATLIVCPAPILA-QWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGDR 327 (1071)
Q Consensus 249 ~tLIV~P~SLl~-qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~~ 327 (1071)
.+|-|.|.-.+. --.+-+..|...-++.|.+-||....... ....-.-.||+|||-++|.-.+...
T Consensus 75 ~~lYIsPLkALn~Di~~rL~~~~~~~G~~v~vRhGDT~~~er-----~r~~~~PPdILiTTPEsL~lll~~~-------- 141 (814)
T COG1201 75 YALYISPLKALNNDIRRRLEEPLRELGIEVAVRHGDTPQSEK-----QKMLKNPPHILITTPESLAILLNSP-------- 141 (814)
T ss_pred EEEEeCcHHHHHHHHHHHHHHHHHHcCCccceecCCCChHHh-----hhccCCCCcEEEeChhHHHHHhcCH--------
Confidence 578889975443 23333333332236888888887543221 1122345889999999998876420
Q ss_pred hhhhhcccCCCccccccccccceEEeccccccCChH--HHHHHHHHhcc----cCceEEEeCcCCCCChhhhhccccccC
Q 001475 328 RFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA--AAATEMALRLY----AKHRWCITGTPIQRKLDDLYGLLRFLK 401 (1071)
Q Consensus 328 ~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~--S~~~kal~~L~----a~~Rw~LTGTPiqN~l~DL~~LL~FL~ 401 (1071)
.. ...|..+ ..||+||.|.+.+.+ ++.+-.+.+|. --.|++||+| +.+..-+.+||.
T Consensus 142 ~~----------r~~l~~v--r~VIVDEiHel~~sKRG~~Lsl~LeRL~~l~~~~qRIGLSAT-----V~~~~~varfL~ 204 (814)
T COG1201 142 KF----------RELLRDV--RYVIVDEIHALAESKRGVQLALSLERLRELAGDFQRIGLSAT-----VGPPEEVAKFLV 204 (814)
T ss_pred HH----------HHHhcCC--cEEEeehhhhhhccccchhhhhhHHHHHhhCcccEEEeehhc-----cCCHHHHHHHhc
Confidence 11 1224444 459999999997654 55665555553 3579999999 345555566666
Q ss_pred CC
Q 001475 402 SS 403 (1071)
Q Consensus 402 p~ 403 (1071)
+.
T Consensus 205 g~ 206 (814)
T COG1201 205 GF 206 (814)
T ss_pred CC
Confidence 54
No 80
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=96.88 E-value=0.0029 Score=78.96 Aligned_cols=136 Identities=15% Similarity=0.194 Sum_probs=79.8
Q ss_pred cEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcchh
Q 001475 249 ATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGDR 327 (1071)
Q Consensus 249 ~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~~ 327 (1071)
.++-|+|.- |..--.+-+.+.+.+=+++|.-+.|.... ...+..+.+|+|||-+.+----... .++
T Consensus 166 KiVYIaPmKALa~Em~~~~~kkl~~~gi~v~ELTGD~ql--------~~tei~~tqiiVTTPEKwDvvTRk~----~~d- 232 (1230)
T KOG0952|consen 166 KIVYIAPMKALAAEMVDKFSKKLAPLGISVRELTGDTQL--------TKTEIADTQIIVTTPEKWDVVTRKS----VGD- 232 (1230)
T ss_pred eEEEEechHHHHHHHHHHHhhhcccccceEEEecCcchh--------hHHHHHhcCEEEecccceeeeeeee----ccc-
Confidence 578889964 44444444444443336899999998542 3445788999999977532110000 000
Q ss_pred hhhhhcccCCCccccccccccceEEeccccccCChHHHHHH-----HHHh----cccCceEEEeCcCCCCChhhhhcccc
Q 001475 328 RFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATE-----MALR----LYAKHRWCITGTPIQRKLDDLYGLLR 398 (1071)
Q Consensus 328 ~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~k-----al~~----L~a~~Rw~LTGTPiqN~l~DL~~LL~ 398 (1071)
+.|. -.-.+||+||.|.+........+ .++. ...-+-++||+| ++| +-.+..
T Consensus 233 -------------~~l~-~~V~LviIDEVHlLhd~RGpvlEtiVaRtlr~vessqs~IRivgLSAT-lPN----~eDvA~ 293 (1230)
T KOG0952|consen 233 -------------SALF-SLVRLVIIDEVHLLHDDRGPVLETIVARTLRLVESSQSMIRIVGLSAT-LPN----YEDVAR 293 (1230)
T ss_pred -------------hhhh-hheeeEEeeeehhhcCcccchHHHHHHHHHHHHHhhhhheEEEEeecc-CCC----HHHHHH
Confidence 0111 12467999999999887744433 3322 123455789999 233 344567
Q ss_pred ccCCCCCCChhhhHHHhc
Q 001475 399 FLKSSPFSISRWWIEVIR 416 (1071)
Q Consensus 399 FL~p~~~~~~~~F~~~~~ 416 (1071)
||+..++.....|...|.
T Consensus 294 fL~vn~~~glfsFd~~yR 311 (1230)
T KOG0952|consen 294 FLRVNPYAGLFSFDQRYR 311 (1230)
T ss_pred HhcCCCccceeeeccccc
Confidence 888876665555555543
No 81
>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=96.32 E-value=0.034 Score=70.39 Aligned_cols=117 Identities=14% Similarity=0.017 Sum_probs=61.0
Q ss_pred cEEEEeCch-hHHHHHHHHHHhcCC-----------------------CCCeEEEEeCCCCCccccccccchhh-hcCCc
Q 001475 249 ATLIVCPAP-ILAQWDAEITRHTRP-----------------------GSLKTCIYEGARNSSLSDTSIMDISE-LVGAD 303 (1071)
Q Consensus 249 ~tLIV~P~S-Ll~qW~~Ei~k~~~~-----------------------~~l~v~vy~G~~~~~~~~~~~~~~~~-l~~~d 303 (1071)
..+.+||.- |..|=.+++.++... ..+++..+.|..... ..... -...+
T Consensus 64 rLv~~vPtReLa~Qi~~~~~~~~k~l~~~~~~~~~~~~~~~~~~~~~~~~l~v~~l~GG~~~~------~q~~~l~~~p~ 137 (844)
T TIGR02621 64 RLVYVVNRRTVVDQVTEEAEKIGERLPDVPEVEAALWALCSTRPEKKDRPLAISTLRGQFADN------DEWMLDPHRPA 137 (844)
T ss_pred eEEEeCchHHHHHHHHHHHHHHHHHhcccchhhhhhhhhhccccccccCCeEEEEEECCCChH------HHHHhcCCCCc
Confidence 344466875 567888888777631 136666656653221 11111 23568
Q ss_pred EEEEeHHHHHhhcccCCCCCcchhhhhhhcccCCCc--ccccc---ccccceEEeccccccCChHHHHHHHHHhc--cc-
Q 001475 304 IVLTTYDVLKEDLSHDSDRHEGDRRFMRFQKRYPVI--PTLLT---RIFWWRICLDEAQMVESNAAAATEMALRL--YA- 375 (1071)
Q Consensus 304 VVItTY~~l~~d~~~~~~~~~~~~~~~r~~kr~~~~--~s~L~---~i~w~rVIlDEAH~iKN~~S~~~kal~~L--~a- 375 (1071)
|||.|.+.+.+..-. .-|... ..|+. --.-.++|+||||..........+.+..+ ..
T Consensus 138 IIVgT~D~i~sr~L~---------------~gYg~~~~~~pi~ag~L~~v~~LVLDEADLd~gF~~~l~~Il~~l~rp~~ 202 (844)
T TIGR02621 138 VIVGTVDMIGSRLLF---------------SGYGCGFKSRPLHAGFLGQDALIVHDEAHLEPAFQELLKQIMNEQQRPPD 202 (844)
T ss_pred EEEECHHHHcCCccc---------------cccccccccccchhhhhccceEEEEehhhhccccHHHHHHHHHhcccCcc
Confidence 999998777654310 000000 01111 12246899999994333333333333332 22
Q ss_pred ---CceEEEeCcCC
Q 001475 376 ---KHRWCITGTPI 386 (1071)
Q Consensus 376 ---~~Rw~LTGTPi 386 (1071)
...+++|+|+-
T Consensus 203 ~rprQtLLFSAT~p 216 (844)
T TIGR02621 203 FLPLRVVELTATSR 216 (844)
T ss_pred cccceEEEEecCCC
Confidence 25789999974
No 82
>PRK14701 reverse gyrase; Provisional
Probab=96.18 E-value=0.016 Score=78.74 Aligned_cols=87 Identities=15% Similarity=0.197 Sum_probs=55.9
Q ss_pred cEEEEeCch-hHHHHHHHHHHhcCC--CCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcc
Q 001475 249 ATLIVCPAP-ILAQWDAEITRHTRP--GSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEG 325 (1071)
Q Consensus 249 ~tLIV~P~S-Ll~qW~~Ei~k~~~~--~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~ 325 (1071)
.+|||+|.. |+.|..+.+..++.. ...++..++|....... ...........+||+|+|-+.+...+..
T Consensus 124 ~aLVl~PTreLa~Qi~~~l~~l~~~~~~~v~v~~~~g~~s~~e~-~~~~~~l~~g~~dILV~TPgrL~~~~~~------- 195 (1638)
T PRK14701 124 KCYIILPTTLLVKQTVEKIESFCEKANLDVRLVYYHSNLRKKEK-EEFLERIENGDFDILVTTAQFLARNFPE------- 195 (1638)
T ss_pred eEEEEECHHHHHHHHHHHHHHHHhhcCCceeEEEEeCCCCHHHH-HHHHHHHhcCCCCEEEECCchhHHhHHH-------
Confidence 689999986 678999999987732 13566778776432100 0000011123689999999877654321
Q ss_pred hhhhhhhcccCCCccccccccccceEEeccccccC
Q 001475 326 DRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVE 360 (1071)
Q Consensus 326 ~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iK 360 (1071)
+....++++|+||||.+-
T Consensus 196 -----------------l~~~~i~~iVVDEAD~ml 213 (1638)
T PRK14701 196 -----------------MKHLKFDFIFVDDVDAFL 213 (1638)
T ss_pred -----------------HhhCCCCEEEEECceecc
Confidence 222568899999999873
No 83
>PF11496 HDA2-3: Class II histone deacetylase complex subunits 2 and 3; InterPro: IPR021006 This entry contains the class II histone deacetylase complex subunits HDA2 and HDA3 is found in fungi. The member from Schizosaccharomyces pombe (Fission yeast) is referred to as Ccq1 in Q10432 from SWISSPROT. These proteins associate with HDA1 to generate the activity of the HDA1 histone deacetylase complex. HDA1 interacts with itself and with the HDA2-HDA3 subcomplex to form a probable tetramer and these interactions are necessary for catalytic activity. The HDA1 histone deacetylase complex is responsible for the deacetylation of lysine residues on the N-terminal part of the core histones (H2A, H2B, H3 and H4). Histone deacetylation gives a tag for epigenetic repression and plays an important role in transcriptional regulation, cell cycle progression and developmental events. HDA2 and HDA3 have a conserved coiled-coil domain towards their C terminus []. ; PDB: 3HGQ_C 3HGT_B.
Probab=96.11 E-value=0.0027 Score=71.52 Aligned_cols=200 Identities=13% Similarity=0.036 Sum_probs=95.0
Q ss_pred eEEEEEecCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCCccCcccchhhHHHHHHHHHHHHHHccCC
Q 001475 456 EECVSWLTFSPIEEHFYQSQHETCVGYAREVIQRLKDNILKRNVPGHASSDALYNPIITHAEAAKLLNSLLKLRQACCHP 535 (1071)
Q Consensus 456 ~e~vv~v~lS~~Q~~~Y~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~il~~L~rLRQiC~HP 535 (1071)
.++.+.++|++.|+++|+.+.........+.++... ..+..++.........+-..+.+|+.+|+||
T Consensus 4 ~~y~lP~pmt~~QKdl~e~iislh~~~il~~~~~~~-------------~~~~i~~~~~~~~~~~~~~~~~nl~~V~~HP 70 (297)
T PF11496_consen 4 GEYYLPTPMTSFQKDLYEQIISLHYSDILKFCETND-------------SSESIDSLLDESLVQSMELLIENLRLVANHP 70 (297)
T ss_dssp SEEEEEE---HHHHHHHHHHHHHTHHHHHHHHHSTT-------------T--HHHH-------HHHHHHHHHHHHHHH-G
T ss_pred ceEEEecCccHHHHHHHHHHHHHHHHHHHHHHcccC-------------ccccccchhhhhhHHHHHHHHHHHHHhccCc
Confidence 367899999999999999988766554444332210 0000000111123456777888999999999
Q ss_pred CCCCCCcccccCCCC----------CHHHHHHHHHHHHHHh-hhhhhhhHHHHhhhHhhHHHHHHhHHHHHHHH------
Q 001475 536 QVGSSGLRSLQQSPL----------SMDEILMVLIGKTKIE-GEEALRKLVMALNGLAGIALIEKNLSQAVSLY------ 598 (1071)
Q Consensus 536 ~L~~~~~~~~~~~~~----------t~~elL~~Ll~~~~~e-~~~~~rk~l~~sq~~a~L~ii~~~~~~a~~~y------ 598 (1071)
+|.-.-..+.+-..+ +.-.+|..|++.+... -.+..-+++|.++....++++|..+-.....|
T Consensus 71 ~LlvdH~mPk~ll~~e~~~~~~~tS~KF~~L~~Li~~li~~~~~~~~~~ilIv~~~~k~ldllE~~llGk~~~~kr~sg~ 150 (297)
T PF11496_consen 71 SLLVDHYMPKQLLLSEPAEWLAYTSGKFQFLNDLIDSLIDRDRREYPLHILIVSRSGKELDLLEGLLLGKKLNYKRYSGE 150 (297)
T ss_dssp GGT--TT--S-S-STTHHHHHHHT-HHHHHHHHHHHHH-----TTSSEEEEEEE-STHHHHHHHHHHTTSSSEEEESSS-
T ss_pred cccccccCccccccchHHHHHHHcCchHHHHHHHHHHHHhhhcccCCceEEEEecCccHHHHHHHHHccCCeeEEecCCC
Confidence 985433311111111 1223566676665221 12223688888999999999998654432222
Q ss_pred ---HHHHHHH---------------H-HHhhc-----cCCCCCc------------CceeEeeCCcCCchhhhhhh-hhh
Q 001475 599 ---KEAMAVV---------------E-EHSED-----FRLDPLL------------NIHLHHNLTEILPMVANCAT-ELS 641 (1071)
Q Consensus 599 ---~~~l~~~---------------~-~~~~~-----f~~D~~~------------~~~~~~nl~~wnp~~~~QA~-R~h 641 (1071)
.+..... . ..... +..+.+. .+.+-++. .+++..+.... |.+
T Consensus 151 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~ts~~l~~~~~~~~~~~~~d~IIsfD~-~~d~~~p~i~~lR~~ 229 (297)
T PF11496_consen 151 SLYDEKHKVPKNGNTESNSSNNSKKKDKGSLSVWIHLITSDQLYNNKPPLLSNYNFDLIISFDP-SFDTSLPSIEQLRTQ 229 (297)
T ss_dssp -S--S---S----------------------SEEEEEEESS---TTTS--TT-S-EEEEEE-SS-T--TTSHHHHHHH--
T ss_pred CCcCccccCCcccccccccccccccccccccceEEEEecCccccccCCCccccCCcCEEEEecC-CCCCCChHHHHHHhh
Confidence 1111100 0 00000 0111111 12333333 37777665555 555
Q ss_pred hcCCCCceEEEeccccCCccccchhHhhh
Q 001475 642 QNEQHFPGCSEKAFKIHSIETCDENARKC 670 (1071)
Q Consensus 642 RiGQ~~~V~vyrl~t~~tiEE~~~~~~k~ 670 (1071)
--.+ +.+=|+|||..+|||-.+++..+.
T Consensus 230 ~~~~-~~~PiirLv~~nSiEHi~L~~~~~ 257 (297)
T PF11496_consen 230 NRRN-RLCPIIRLVPSNSIEHIELCFPKS 257 (297)
T ss_dssp ------S--EEEEEETTSHHHHHHHHTTT
T ss_pred cCCC-CCCcEEEEeeCCCHHHHHHHccCc
Confidence 4333 889999999999999999888664
No 84
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=95.95 E-value=0.03 Score=70.69 Aligned_cols=89 Identities=15% Similarity=0.059 Sum_probs=53.6
Q ss_pred CcEEEEeCchhHH----HHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCC
Q 001475 248 GATLIVCPAPILA----QWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRH 323 (1071)
Q Consensus 248 ~~tLIV~P~SLl~----qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~ 323 (1071)
..++||+|+..+. .|...+-++. .+++.++.|..... .........||++.|...+.-|.-...-..
T Consensus 120 ~~v~VvTpt~~LA~qd~e~~~~l~~~l---Gl~v~~i~g~~~~~------~~r~~~y~~dIvygT~~~l~fDyLrd~~~~ 190 (790)
T PRK09200 120 KGVHLITVNDYLAKRDAEEMGQVYEFL---GLTVGLNFSDIDDA------SEKKAIYEADIIYTTNSELGFDYLRDNLAD 190 (790)
T ss_pred CCeEEEeCCHHHHHHHHHHHHHHHhhc---CCeEEEEeCCCCcH------HHHHHhcCCCEEEECCccccchhHHhcccc
Confidence 4689999998652 5777777777 68998887764310 012233458999999666643321100000
Q ss_pred cchhhhhhhcccCCCccccccccccceEEeccccccC
Q 001475 324 EGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVE 360 (1071)
Q Consensus 324 ~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iK 360 (1071)
. +.....-...++|+|||+.+-
T Consensus 191 ~---------------~~~~~~r~~~~~IvDEaDsiL 212 (790)
T PRK09200 191 S---------------KEDKVQRPLNYAIIDEIDSIL 212 (790)
T ss_pred c---------------hhhhcccccceEEEeccccce
Confidence 0 011223457889999999873
No 85
>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=95.85 E-value=0.0093 Score=74.16 Aligned_cols=100 Identities=8% Similarity=-0.057 Sum_probs=58.6
Q ss_pred CHHHHHHHHHHHHHHhhhhhhhhHHHHhhhHhhHHHHHHhHHHHHHH---HHHHHHHHHHHhhccCC-------------
Q 001475 551 SMDEILMVLIGKTKIEGEEALRKLVMALNGLAGIALIEKNLSQAVSL---YKEAMAVVEEHSEDFRL------------- 614 (1071)
Q Consensus 551 t~~elL~~Ll~~~~~e~~~~~rk~l~~sq~~a~L~ii~~~~~~a~~~---y~~~l~~~~~~~~~f~~------------- 614 (1071)
+..+-...+++.+.. ..+.++.+|||++....-..+.+.+...... +...-..++..+-.|..
T Consensus 386 t~~~k~~ai~~~i~~-~~~~grpvLV~t~si~~se~ls~~L~~~gi~~~~Lna~q~~rEa~ii~~ag~~g~VtIATnmAg 464 (745)
T TIGR00963 386 TEEEKWKAVVDEIKE-RHAKGQPVLVGTTSVEKSELLSNLLKERGIPHNVLNAKNHEREAEIIAQAGRKGAVTIATNMAG 464 (745)
T ss_pred CHHHHHHHHHHHHHH-HHhcCCCEEEEeCcHHHHHHHHHHHHHcCCCeEEeeCChHHHHHHHHHhcCCCceEEEEecccc
Confidence 455555566555433 3456799999999999998888877664221 11111122322222221
Q ss_pred ---CCCc-------CceeEeeCCcCCchhhhhhh-hhhhcCCCCceEE
Q 001475 615 ---DPLL-------NIHLHHNLTEILPMVANCAT-ELSQNEQHFPGCS 651 (1071)
Q Consensus 615 ---D~~~-------~~~~~~nl~~wnp~~~~QA~-R~hRiGQ~~~V~v 651 (1071)
|.-. -+|+...-..=++..++|.. |++|-|++=....
T Consensus 465 RGtDI~l~~V~~~GGl~VI~t~~p~s~ri~~q~~GRtGRqG~~G~s~~ 512 (745)
T TIGR00963 465 RGTDIKLEEVKELGGLYVIGTERHESRRIDNQLRGRSGRQGDPGSSRF 512 (745)
T ss_pred CCcCCCccchhhcCCcEEEecCCCCcHHHHHHHhccccCCCCCcceEE
Confidence 1111 23554444446888999999 9999997644333
No 86
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=95.84 E-value=0.04 Score=71.86 Aligned_cols=115 Identities=19% Similarity=0.138 Sum_probs=65.9
Q ss_pred cEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcchh
Q 001475 249 ATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGDR 327 (1071)
Q Consensus 249 ~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~~ 327 (1071)
.+++|+=-- |-.|=.++|..+.. ...... ..... ......-.-....|||||-..+.......
T Consensus 305 ~v~fvvDR~dLd~Q~~~~f~~~~~--~~~~~~--~~~s~----~~Lk~~l~~~~~~ii~TTIQKf~~~~~~~-------- 368 (962)
T COG0610 305 KVLFVVDRKDLDDQTSDEFQSFGK--VAFNDP--KAEST----SELKELLEDGKGKIIVTTIQKFNKAVKED-------- 368 (962)
T ss_pred eEEEEechHHHHHHHHHHHHHHHH--hhhhcc--cccCH----HHHHHHHhcCCCcEEEEEecccchhhhcc--------
Confidence 355555544 56799999999872 222111 11111 00111111114569999999887765321
Q ss_pred hhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCCCCChhh
Q 001475 328 RFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQRKLDD 392 (1071)
Q Consensus 328 ~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPiqN~l~D 392 (1071)
......-...+||+||||+--.+... ..+-..++.-.-++.|||||...-.+
T Consensus 369 ------------~~~~~~~~~ivvI~DEaHRSQ~G~~~-~~~~~~~~~a~~~gFTGTPi~~~d~~ 420 (962)
T COG0610 369 ------------ELELLKRKNVVVIIDEAHRSQYGELA-KLLKKALKKAIFIGFTGTPIFKEDKD 420 (962)
T ss_pred ------------cccccCCCcEEEEEechhhccccHHH-HHHHHHhccceEEEeeCCcccccccc
Confidence 01124456788999999998655432 12223455577789999999865443
No 87
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=95.61 E-value=0.18 Score=54.08 Aligned_cols=36 Identities=22% Similarity=0.262 Sum_probs=22.2
Q ss_pred ccceEEeccccccCChHHHHHHHHHh-cccCceEEEeCcCCC
Q 001475 347 FWWRICLDEAQMVESNAAAATEMALR-LYAKHRWCITGTPIQ 387 (1071)
Q Consensus 347 ~w~rVIlDEAH~iKN~~S~~~kal~~-L~a~~Rw~LTGTPiq 387 (1071)
.|+.||+|||-.+.-+. ++.. ..+..+++|-|=|-|
T Consensus 192 ~~d~vIvDEAsq~~e~~-----~l~~l~~~~~~~vlvGD~~Q 228 (236)
T PF13086_consen 192 KFDVVIVDEASQITEPE-----ALIPLSRAPKRIVLVGDPKQ 228 (236)
T ss_dssp --SEEEETTGGGS-HHH-----HHHHHTTTBSEEEEEE-TTS
T ss_pred cCCEEEEeCCCCcchHH-----HHHHHHHhCCEEEEECChhh
Confidence 79999999998874322 2222 334489999997766
No 88
>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=95.61 E-value=0.072 Score=69.16 Aligned_cols=41 Identities=22% Similarity=0.298 Sum_probs=28.5
Q ss_pred hcCCcEEEEeHHHHHhhcccCCCCCcchhhhhhhcccCCCccccccccccceEEeccccccCC
Q 001475 299 LVGADIVLTTYDVLKEDLSHDSDRHEGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVES 361 (1071)
Q Consensus 299 l~~~dVVItTY~~l~~d~~~~~~~~~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN 361 (1071)
...+|||||+|..+..+..... ..+. ....+|+||||++..
T Consensus 414 a~~AdivItNHa~L~~~~~~~~--------------------~ilp--~~~~lIiDEAH~L~d 454 (850)
T TIGR01407 414 AEQAQILITNHAYLITRLVDNP--------------------ELFP--SFRDLIIDEAHHLPD 454 (850)
T ss_pred HhcCCEEEecHHHHHHHhhccc--------------------ccCC--CCCEEEEECcchHHH
Confidence 4578999999999988753210 1122 236899999999954
No 89
>PRK09694 helicase Cas3; Provisional
Probab=95.13 E-value=0.13 Score=66.21 Aligned_cols=75 Identities=15% Similarity=0.037 Sum_probs=42.9
Q ss_pred CcEEEEeHHHHHhhcccCCCCCcchhhhhhhcccCCCccccccccccceEEeccccccCChHHHHHH-HHHhcc--cCce
Q 001475 302 ADIVLTTYDVLKEDLSHDSDRHEGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATE-MALRLY--AKHR 378 (1071)
Q Consensus 302 ~dVVItTY~~l~~d~~~~~~~~~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~k-al~~L~--a~~R 378 (1071)
.+|+|+|.+.+..-.-... ..+.+ +..+.=.+||+||+|.+-...+.... .+..+. ....
T Consensus 411 api~V~TiDQlL~a~l~~k------h~~lR-----------~~~La~svvIiDEVHAyD~ym~~lL~~~L~~l~~~g~~v 473 (878)
T PRK09694 411 GQIGVCTIDQVLISVLPVK------HRFIR-----------GFGLGRSVLIVDEVHAYDAYMYGLLEAVLKAQAQAGGSV 473 (878)
T ss_pred CCEEEcCHHHHHHHHHccc------hHHHH-----------HHhhccCeEEEechhhCCHHHHHHHHHHHHHHHhcCCcE
Confidence 6899999988775432100 00000 11233457999999999654444333 333332 3567
Q ss_pred EEEeCcCCCCChhhh
Q 001475 379 WCITGTPIQRKLDDL 393 (1071)
Q Consensus 379 w~LTGTPiqN~l~DL 393 (1071)
++||+|+-..-..+|
T Consensus 474 IllSATLP~~~r~~L 488 (878)
T PRK09694 474 ILLSATLPATLKQKL 488 (878)
T ss_pred EEEeCCCCHHHHHHH
Confidence 999999855433333
No 90
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=95.01 E-value=0.11 Score=69.75 Aligned_cols=119 Identities=19% Similarity=0.164 Sum_probs=68.4
Q ss_pred CcEEEEeCchhH-HHHHHHHHH-----------hc-CCCCCeEEEEeCCCCCccccccccchhhh-cCCcEEEEeHHHHH
Q 001475 248 GATLIVCPAPIL-AQWDAEITR-----------HT-RPGSLKTCIYEGARNSSLSDTSIMDISEL-VGADIVLTTYDVLK 313 (1071)
Q Consensus 248 ~~tLIV~P~SLl-~qW~~Ei~k-----------~~-~~~~l~v~vy~G~~~~~~~~~~~~~~~~l-~~~dVVItTY~~l~ 313 (1071)
..+|+|+|.--+ .|=.++++. +. ....++|.+++|...... ....+ ...||+|||.+.+.
T Consensus 38 ~raLYISPLKALa~Dv~~~L~~pl~~i~~~~~~~g~~~~~i~V~vrtGDt~~~e------R~rll~~ppdILVTTPEsL~ 111 (1490)
T PRK09751 38 SRILYISPIKALGTDVQRNLQIPLKGIADERRRRGETEVNLRVGIRTGDTPAQE------RSKLTRNPPDILITTPESLY 111 (1490)
T ss_pred CEEEEEeChHHHHHHHHHHHHHHHHhhhhhhhhcccccCceEEEEEECCCCHHH------HHHHhcCCCCEEEecHHHHH
Confidence 369999998644 333333332 11 113588999999754311 01111 35799999999987
Q ss_pred hhcccCCCCCcchhhhhhhcccCCCccccccccccceEEeccccccCChH--HHHHHHHHhcc-----cCceEEEeCcCC
Q 001475 314 EDLSHDSDRHEGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA--AAATEMALRLY-----AKHRWCITGTPI 386 (1071)
Q Consensus 314 ~d~~~~~~~~~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~--S~~~kal~~L~-----a~~Rw~LTGTPi 386 (1071)
..+... . ...|.. -..||+||+|.+.+.+ +.....+.+|. ...+|++|+|-
T Consensus 112 ~LLtsk------~-------------r~~L~~--Vr~VIVDE~H~L~g~kRG~~Lel~LeRL~~l~~~~~QrIgLSATI- 169 (1490)
T PRK09751 112 LMLTSR------A-------------RETLRG--VETVIIDEVHAVAGSKRGAHLALSLERLDALLHTSAQRIGLSATV- 169 (1490)
T ss_pred HHHhhh------h-------------hhhhcc--CCEEEEecHHHhcccccccHHHHHHHHHHHhCCCCCeEEEEEeeC-
Confidence 643210 0 011322 4679999999997542 33333443332 24689999995
Q ss_pred CCChhhhhc
Q 001475 387 QRKLDDLYG 395 (1071)
Q Consensus 387 qN~l~DL~~ 395 (1071)
++++++-.
T Consensus 170 -~n~eevA~ 177 (1490)
T PRK09751 170 -RSASDVAA 177 (1490)
T ss_pred -CCHHHHHH
Confidence 23555543
No 91
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=94.35 E-value=0.28 Score=60.00 Aligned_cols=108 Identities=20% Similarity=0.211 Sum_probs=73.0
Q ss_pred EEEEeCch-hHHHHHHHHHHhcCCC-CCeEEEEeCCCCCccccccccchhhhc-CCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 250 TLIVCPAP-ILAQWDAEITRHTRPG-SLKTCIYEGARNSSLSDTSIMDISELV-GADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 250 tLIV~P~S-Ll~qW~~Ei~k~~~~~-~l~v~vy~G~~~~~~~~~~~~~~~~l~-~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
.||++|.- |..|=.+++.++.... .+++..+.|..... .....+. ..||||.|-..+...+...
T Consensus 102 aLil~PTRELA~Qi~~~~~~~~~~~~~~~~~~i~GG~~~~------~q~~~l~~~~~ivVaTPGRllD~i~~~------- 168 (513)
T COG0513 102 ALILAPTRELAVQIAEELRKLGKNLGGLRVAVVYGGVSIR------KQIEALKRGVDIVVATPGRLLDLIKRG------- 168 (513)
T ss_pred eEEECCCHHHHHHHHHHHHHHHhhcCCccEEEEECCCCHH------HHHHHHhcCCCEEEECccHHHHHHHcC-------
Confidence 99999998 6689999999988644 57776666653221 1122233 3999999999988665421
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccccCChH--HHHHHHHHhccc-CceEEEeCcC
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA--AAATEMALRLYA-KHRWCITGTP 385 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~--S~~~kal~~L~a-~~Rw~LTGTP 385 (1071)
.|.--....+|+|||-++-+.. ......+..++. ...++.|+|-
T Consensus 169 ---------------~l~l~~v~~lVlDEADrmLd~Gf~~~i~~I~~~~p~~~qtllfSAT~ 215 (513)
T COG0513 169 ---------------KLDLSGVETLVLDEADRMLDMGFIDDIEKILKALPPDRQTLLFSATM 215 (513)
T ss_pred ---------------CcchhhcCEEEeccHhhhhcCCCHHHHHHHHHhCCcccEEEEEecCC
Confidence 1344456789999999986653 344455555654 5567788884
No 92
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=94.13 E-value=1.3 Score=55.82 Aligned_cols=40 Identities=15% Similarity=0.102 Sum_probs=31.8
Q ss_pred eeEeeCCcCCchhhhhhh-hhhhcCCCCceEEEeccccCCcc
Q 001475 621 HLHHNLTEILPMVANCAT-ELSQNEQHFPGCSEKAFKIHSIE 661 (1071)
Q Consensus 621 ~~~~nl~~wnp~~~~QA~-R~hRiGQ~~~V~vyrl~t~~tiE 661 (1071)
|-+-+..+.+|----|-. ||+|-|=....+|. ++.++.++
T Consensus 685 hDG~efR~L~PGEytQMAGRAGRRGlD~tGTVi-i~~~~~vp 725 (1248)
T KOG0947|consen 685 HDGNEFRELLPGEYTQMAGRAGRRGLDETGTVI-IMCKDSVP 725 (1248)
T ss_pred ccCcceeecCChhHHhhhccccccccCcCceEE-EEecCCCC
Confidence 667777799999888888 99999988888887 55555543
No 93
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=94.09 E-value=0.23 Score=56.65 Aligned_cols=111 Identities=13% Similarity=0.099 Sum_probs=76.9
Q ss_pred cEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcchh
Q 001475 249 ATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGDR 327 (1071)
Q Consensus 249 ~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~~ 327 (1071)
..||++|.- |-.|-...++.....-++++.+..|..... .....-..+.+|+|.|-..|...+.....
T Consensus 131 ~~lVLtPtRELA~QI~e~fe~Lg~~iglr~~~lvGG~~m~-----~q~~~L~kkPhilVaTPGrL~dhl~~Tkg------ 199 (476)
T KOG0330|consen 131 FALVLTPTRELAQQIAEQFEALGSGIGLRVAVLVGGMDMM-----LQANQLSKKPHILVATPGRLWDHLENTKG------ 199 (476)
T ss_pred eEEEecCcHHHHHHHHHHHHHhccccCeEEEEEecCchHH-----HHHHHhhcCCCEEEeCcHHHHHHHHhccC------
Confidence 479999998 556878888888655578998888874321 12233446788999999999887642111
Q ss_pred hhhhhcccCCCccccccccccceEEeccccccCChH--HHHHHHHHhcccCce-EEEeCcC
Q 001475 328 RFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA--AAATEMALRLYAKHR-WCITGTP 385 (1071)
Q Consensus 328 ~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~--S~~~kal~~L~a~~R-w~LTGTP 385 (1071)
+.--.-..+|+|||.++-|.+ -..-+.+..++...+ ++.|+|-
T Consensus 200 ---------------f~le~lk~LVlDEADrlLd~dF~~~ld~ILk~ip~erqt~LfsATM 245 (476)
T KOG0330|consen 200 ---------------FSLEQLKFLVLDEADRLLDMDFEEELDYILKVIPRERQTFLFSATM 245 (476)
T ss_pred ---------------ccHHHhHHHhhchHHhhhhhhhHHHHHHHHHhcCccceEEEEEeec
Confidence 112234568999999998765 566677788877655 5567773
No 94
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=94.07 E-value=0.3 Score=62.25 Aligned_cols=103 Identities=16% Similarity=0.104 Sum_probs=60.0
Q ss_pred cEEEEeCchhH----HHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCc
Q 001475 249 ATLIVCPAPIL----AQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHE 324 (1071)
Q Consensus 249 ~tLIV~P~SLl----~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~ 324 (1071)
+++||+|+.-+ .+|...+.+++ ++++....|..... ...... ..|||+.|-..+.-|+-......
T Consensus 137 ~v~IVTpTrELA~Qdae~m~~L~k~l---GLsV~~i~GG~~~~------eq~~~y-~~DIVygTPgRLgfDyLrd~~~~- 205 (970)
T PRK12899 137 PVHLVTVNDYLAQRDCEWVGSVLRWL---GLTTGVLVSGSPLE------KRKEIY-QCDVVYGTASEFGFDYLRDNSIA- 205 (970)
T ss_pred CeEEEeCCHHHHHHHHHHHHHHHhhc---CCeEEEEeCCCCHH------HHHHHc-CCCEEEECCChhHHHHhhCCCCC-
Confidence 47899998643 46888888877 48886666543211 011122 58999999888744432111000
Q ss_pred chhhhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCC
Q 001475 325 GDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPI 386 (1071)
Q Consensus 325 ~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPi 386 (1071)
........-.+..+|+|||..+-- -.|+.-+++||.+-
T Consensus 206 -------------~~~~~~vqr~~~~~IIDEADsmLi-----------DEArTPLIISg~~~ 243 (970)
T PRK12899 206 -------------TRKEEQVGRGFYFAIIDEVDSILI-----------DEARTPLIISGPGE 243 (970)
T ss_pred -------------cCHHHhhcccccEEEEechhhhhh-----------hccCCceeeeCCCc
Confidence 000112334688999999987631 23455577887653
No 95
>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=94.03 E-value=0.4 Score=59.59 Aligned_cols=43 Identities=23% Similarity=0.222 Sum_probs=29.4
Q ss_pred hcCCcEEEEeHHHHHhhcccCCCCCcchhhhhhhcccCCCccccccccccceEEeccccccCChH
Q 001475 299 LVGADIVLTTYDVLKEDLSHDSDRHEGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA 363 (1071)
Q Consensus 299 l~~~dVVItTY~~l~~d~~~~~~~~~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~ 363 (1071)
...+|||||++..|..+.... . ..|. ..+.||+||||.+....
T Consensus 180 a~~AdivItNHalL~~~~~~~----------------~----~iLP--~~~~lIiDEAH~L~d~A 222 (636)
T TIGR03117 180 ARRCRILFCTHAMLGLAFRDK----------------W----GLLP--QPDILIVDEAHLFEQNI 222 (636)
T ss_pred cccCCEEEECHHHHHHHhhhh----------------c----CCCC--CCCEEEEeCCcchHHHH
Confidence 467899999999988753110 0 1122 36899999999996433
No 96
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=93.09 E-value=0.45 Score=55.96 Aligned_cols=122 Identities=17% Similarity=0.181 Sum_probs=76.2
Q ss_pred CCCCcEEEEeCchh----HHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCC
Q 001475 245 VATGATLIVCPAPI----LAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDS 320 (1071)
Q Consensus 245 ~~~~~tLIV~P~SL----l~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~ 320 (1071)
+++-++||+||.-= +.+-...+..|+ ++.|....|.-..+ .....--...||||.|-..|..++....
T Consensus 250 ~~~TRVLVL~PTRELaiQv~sV~~qlaqFt---~I~~~L~vGGL~lk-----~QE~~LRs~PDIVIATPGRlIDHlrNs~ 321 (691)
T KOG0338|consen 250 VAATRVLVLVPTRELAIQVHSVTKQLAQFT---DITVGLAVGGLDLK-----AQEAVLRSRPDIVIATPGRLIDHLRNSP 321 (691)
T ss_pred CcceeEEEEeccHHHHHHHHHHHHHHHhhc---cceeeeeecCccHH-----HHHHHHhhCCCEEEecchhHHHHhccCC
Confidence 35568999999863 356677788888 68888877763321 1112223578999999999988775321
Q ss_pred CCCcchhhhhhhcccCCCccccccccccceEEeccccccCChH--HHHHHHHHhc-ccCceEEEeCcCCCCChhhhhcc
Q 001475 321 DRHEGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA--AAATEMALRL-YAKHRWCITGTPIQRKLDDLYGL 396 (1071)
Q Consensus 321 ~~~~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~--S~~~kal~~L-~a~~Rw~LTGTPiqN~l~DL~~L 396 (1071)
. +.--...++|+|||.++-... ......+... +.+..++.|+|- ...+.||.++
T Consensus 322 s---------------------f~ldsiEVLvlDEADRMLeegFademnEii~lcpk~RQTmLFSATM-teeVkdL~sl 378 (691)
T KOG0338|consen 322 S---------------------FNLDSIEVLVLDEADRMLEEGFADEMNEIIRLCPKNRQTMLFSATM-TEEVKDLASL 378 (691)
T ss_pred C---------------------ccccceeEEEechHHHHHHHHHHHHHHHHHHhccccccceeehhhh-HHHHHHHHHh
Confidence 1 222235679999999874322 2333333332 234458889884 3446666553
No 97
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=93.07 E-value=0.5 Score=60.38 Aligned_cols=131 Identities=15% Similarity=0.016 Sum_probs=64.4
Q ss_pred CcEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 248 GATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 248 ~~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
...+.|.|.. ++.+=.+.+..++..+......++|......... +.. ..-+.++++++........... ..
T Consensus 247 ~r~i~vlP~~t~ie~~~~r~~~~~~~~~~~~~~~h~~~~~~~~~~----~~~--~~~~~~~~~ds~~~~~~~~~~~--~~ 318 (733)
T COG1203 247 SRVIYVLPFRTIIEDMYRRAKEIFGLFSVIGKSLHSSSKEPLLLE----PDQ--DILLTLTTNDSYKKLLLALIVV--TP 318 (733)
T ss_pred ceEEEEccHHHHHHHHHHHHHhhhcccccccccccccccchhhhc----ccc--ccceeEEecccccceecccccc--CH
Confidence 4566777765 5678888888877322222222455533211100 000 1115555555554433211100 00
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccccCCh-HHHH-HHHHHhcc--cCceEEEeCcCCC
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESN-AAAA-TEMALRLY--AKHRWCITGTPIQ 387 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~-~S~~-~kal~~L~--a~~Rw~LTGTPiq 387 (1071)
-........+...+. +..+.-..||+||+|.+-.. .+.. ..++..+. ....+++|||+-+
T Consensus 319 ~~~~~~~~~~~~~~~-~~~l~~S~vIlDE~h~~~~~~~~~~l~~~i~~l~~~g~~ill~SATlP~ 382 (733)
T COG1203 319 IQILIFSVKGFKFEF-LALLLTSLVILDEVHLYADETMLAALLALLEALAEAGVPVLLMSATLPP 382 (733)
T ss_pred hHhhhhhccccchHH-HHHHHhhchhhccHHhhcccchHHHHHHHHHHHHhCCCCEEEEecCCCH
Confidence 000111111122223 55567788999999998766 3332 33333343 5778999999743
No 98
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=93.00 E-value=0.28 Score=58.15 Aligned_cols=119 Identities=13% Similarity=0.196 Sum_probs=76.4
Q ss_pred cEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcchh
Q 001475 249 ATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGDR 327 (1071)
Q Consensus 249 ~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~~ 327 (1071)
..|||.|.- |..|--+-+.+......+..-.+-|.... ......+...+|+|+|-..|..+.+...
T Consensus 143 GalIISPTRELA~QtFevL~kvgk~h~fSaGLiiGG~~~------k~E~eRi~~mNILVCTPGRLLQHmde~~------- 209 (758)
T KOG0343|consen 143 GALIISPTRELALQTFEVLNKVGKHHDFSAGLIIGGKDV------KFELERISQMNILVCTPGRLLQHMDENP------- 209 (758)
T ss_pred eeEEecchHHHHHHHHHHHHHHhhccccccceeecCchh------HHHHHhhhcCCeEEechHHHHHHhhhcC-------
Confidence 589999987 44576666555443335666555555432 2234556788999999999998876421
Q ss_pred hhhhhcccCCCccccccccccceEEeccccccCChH--HHHHHHHHhcc-cCceEEEeCcCCCCChhhhhc
Q 001475 328 RFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA--AAATEMALRLY-AKHRWCITGTPIQRKLDDLYG 395 (1071)
Q Consensus 328 ~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~--S~~~kal~~L~-a~~Rw~LTGTPiqN~l~DL~~ 395 (1071)
.|..-.-.++|||||.++-... ...-..+..|+ .+..++.|+||..+ +.||.-
T Consensus 210 --------------~f~t~~lQmLvLDEADR~LDMGFk~tL~~Ii~~lP~~RQTLLFSATqt~s-vkdLaR 265 (758)
T KOG0343|consen 210 --------------NFSTSNLQMLVLDEADRMLDMGFKKTLNAIIENLPKKRQTLLFSATQTKS-VKDLAR 265 (758)
T ss_pred --------------CCCCCcceEEEeccHHHHHHHhHHHHHHHHHHhCChhheeeeeecccchh-HHHHHH
Confidence 1444456789999999975433 22223344554 35678899998754 566544
No 99
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=92.94 E-value=0.57 Score=58.27 Aligned_cols=116 Identities=18% Similarity=0.070 Sum_probs=62.4
Q ss_pred CcEEEEeCchhHH----HHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCC
Q 001475 248 GATLIVCPAPILA----QWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRH 323 (1071)
Q Consensus 248 ~~tLIV~P~SLl~----qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~ 323 (1071)
..++||+|+--+. +|...+-++. .+++.+..|.... .........||++.|-..+.-|+-.+.-..
T Consensus 145 ~~v~VvTptreLA~qdae~~~~l~~~l---Glsv~~i~gg~~~-------~~r~~~y~~dIvygT~~e~~FDyLrd~~~~ 214 (656)
T PRK12898 145 LPVHVITVNDYLAERDAELMRPLYEAL---GLTVGCVVEDQSP-------DERRAAYGADITYCTNKELVFDYLRDRLAL 214 (656)
T ss_pred CeEEEEcCcHHHHHHHHHHHHHHHhhc---CCEEEEEeCCCCH-------HHHHHHcCCCEEEECCCchhhhhccccccc
Confidence 3699999998653 5777776666 5888776665321 012233467999999776665543322111
Q ss_pred c--ch--h-hhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcC
Q 001475 324 E--GD--R-RFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTP 385 (1071)
Q Consensus 324 ~--~~--~-~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTP 385 (1071)
. .+ + ........+. ....+..-.++++|+||+..+-=. .+..-+++||.|
T Consensus 215 ~~~~~~~~~~~~~l~~~~~-~~~~~v~r~~~~aIvDEvDSiLiD-----------eartpliis~~~ 269 (656)
T PRK12898 215 GQRASDARLALESLHGRSS-RSTQLLLRGLHFAIVDEADSVLID-----------EARTPLIISAPA 269 (656)
T ss_pred cccccchhhhhhhhccccC-chhhhcccccceeEeecccceeec-----------cCCCceEEECCC
Confidence 0 00 0 0000000000 012233457889999999876211 234456777743
No 100
>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=92.85 E-value=0.4 Score=61.59 Aligned_cols=43 Identities=14% Similarity=0.138 Sum_probs=30.3
Q ss_pred hhhh-hhhhcCCCCceEEEeccccCCccccchhHhhhhccccccCCCCC
Q 001475 635 NCAT-ELSQNEQHFPGCSEKAFKIHSIETCDENARKCQRVSREENSDFT 682 (1071)
Q Consensus 635 ~QA~-R~hRiGQ~~~V~vyrl~t~~tiEE~~~~~~k~k~~~~~~~~~~~ 682 (1071)
.+|. |++|.|-.++...|||+++...+ .-+....+|...++++
T Consensus 312 asa~QR~GRAGR~~~G~cyrL~t~~~~~-----~l~~~~~PEI~r~~L~ 355 (819)
T TIGR01970 312 ASATQRAGRAGRLEPGVCYRLWSEEQHQ-----RLPAQDEPEILQADLS 355 (819)
T ss_pred HHHHhhhhhcCCCCCCEEEEeCCHHHHH-----hhhcCCCcceeccCcH
Confidence 4566 99999999999999999976432 2244456666655554
No 101
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=92.85 E-value=0.38 Score=56.99 Aligned_cols=86 Identities=21% Similarity=0.212 Sum_probs=58.7
Q ss_pred CcEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 248 GATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 248 ~~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
...||++|+. |+.|=.+|.+|+.-...++..+.+|....+. ....-...+||+++|-..|..-+....
T Consensus 153 P~~lIlapTReL~~Qi~nea~k~~~~s~~~~~~~ygg~~~~~-----q~~~~~~gcdIlvaTpGrL~d~~e~g~------ 221 (482)
T KOG0335|consen 153 PRALILAPTRELVDQIYNEARKFSYLSGMKSVVVYGGTDLGA-----QLRFIKRGCDILVATPGRLKDLIERGK------ 221 (482)
T ss_pred CceEEEeCcHHHhhHHHHHHHhhcccccceeeeeeCCcchhh-----hhhhhccCccEEEecCchhhhhhhcce------
Confidence 4689999987 8899999999998555666666555533221 122334679999999999877553210
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccccC
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVE 360 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iK 360 (1071)
-.|..+. ++|||||.++-
T Consensus 222 --------------i~l~~~k--~~vLDEADrMl 239 (482)
T KOG0335|consen 222 --------------ISLDNCK--FLVLDEADRML 239 (482)
T ss_pred --------------eehhhCc--EEEecchHHhh
Confidence 0133333 89999999864
No 102
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=92.84 E-value=0.26 Score=62.41 Aligned_cols=87 Identities=18% Similarity=0.285 Sum_probs=60.5
Q ss_pred CcEEEEeCch-hHHHHHHHHHHhcCCC-CCeEEE-EeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCc
Q 001475 248 GATLIVCPAP-ILAQWDAEITRHTRPG-SLKTCI-YEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHE 324 (1071)
Q Consensus 248 ~~tLIV~P~S-Ll~qW~~Ei~k~~~~~-~l~v~v-y~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~ 324 (1071)
+.++||+|+. |+.|=.+-|.++.... ++++.+ |||.-..... ......-..++|||+|||-..|.+.+.
T Consensus 126 kr~yii~PT~~Lv~Q~~~kl~~~~e~~~~~~~~~~yh~~l~~~ek-ee~le~i~~gdfdIlitTs~FL~k~~e------- 197 (1187)
T COG1110 126 KRVYIIVPTTTLVRQVYERLKKFAEDAGSLDVLVVYHSALPTKEK-EEALERIESGDFDILITTSQFLSKRFE------- 197 (1187)
T ss_pred CeEEEEecCHHHHHHHHHHHHHHHhhcCCcceeeeeccccchHHH-HHHHHHHhcCCccEEEEeHHHHHhhHH-------
Confidence 5799999987 5689999999998432 355544 8987322110 011122234579999999999998764
Q ss_pred chhhhhhhcccCCCccccccccccceEEecccccc
Q 001475 325 GDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMV 359 (1071)
Q Consensus 325 ~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~i 359 (1071)
.|.+.+|+.|++|.+..+
T Consensus 198 -----------------~L~~~kFdfifVDDVDA~ 215 (1187)
T COG1110 198 -----------------ELSKLKFDFIFVDDVDAI 215 (1187)
T ss_pred -----------------HhcccCCCEEEEccHHHH
Confidence 367788999999988763
No 103
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=92.78 E-value=0.59 Score=60.13 Aligned_cols=43 Identities=16% Similarity=0.160 Sum_probs=29.8
Q ss_pred hhhh-hhhhcCCCCceEEEeccccCCccccchhHhhhhccccccCCCCC
Q 001475 635 NCAT-ELSQNEQHFPGCSEKAFKIHSIETCDENARKCQRVSREENSDFT 682 (1071)
Q Consensus 635 ~QA~-R~hRiGQ~~~V~vyrl~t~~tiEE~~~~~~k~k~~~~~~~~~~~ 682 (1071)
.+|+ |++|-|-..+...|||.++...+. ....-++|...++++
T Consensus 315 asa~QR~GRaGR~~~G~cyrL~t~~~~~~-----l~~~~~PEI~r~dL~ 358 (812)
T PRK11664 315 ASMTQRAGRAGRLEPGICLHLYSKEQAER-----AAAQSEPEILHSDLS 358 (812)
T ss_pred hhhhhhccccCCCCCcEEEEecCHHHHhh-----CccCCCCceeccchH
Confidence 3566 999999999999999999875432 123445555544444
No 104
>KOG1513 consensus Nuclear helicase MOP-3/SNO (DEAD-box superfamily) [Transcription; Signal transduction mechanisms]
Probab=92.71 E-value=0.81 Score=56.30 Aligned_cols=149 Identities=16% Similarity=0.207 Sum_probs=83.4
Q ss_pred CCcEEEEeHHHHHhhcccCCCCCcchhhhhhhcccCCCcccccccc---cc-ceEEeccccccCC-------hHHHHHHH
Q 001475 301 GADIVLTTYDVLKEDLSHDSDRHEGDRRFMRFQKRYPVIPTLLTRI---FW-WRICLDEAQMVES-------NAAAATEM 369 (1071)
Q Consensus 301 ~~dVVItTY~~l~~d~~~~~~~~~~~~~~~r~~kr~~~~~s~L~~i---~w-~rVIlDEAH~iKN-------~~S~~~ka 369 (1071)
+-.|+..||..|..+.... +.+...|+. .|.++ .| .+||+||+|+.|| ..|++.++
T Consensus 368 krGViFaTYtaLIGEs~~~-----~~kyrtR~r--------QllqW~Ge~feGvIvfDECHkAKNL~p~~~~k~TKtG~t 434 (1300)
T KOG1513|consen 368 KRGVIFATYTALIGESQGK-----GGKYRTRFR--------QLLQWCGEDFEGVIVFDECHKAKNLVPTAGAKSTKTGKT 434 (1300)
T ss_pred cceeEEEeeHhhhhhcccc-----CchHHHHHH--------HHHHHhhhccceeEEehhhhhhcccccccCCCcCcccHh
Confidence 4569999999998875421 111111110 11111 12 3789999999999 34677777
Q ss_pred HHhcc----cCceEEEeCcCCCCChhhhhccccccCCCC------CCChhhhHHHhcCCCcCCchhHHHHHH--HHHHHH
Q 001475 370 ALRLY----AKHRWCITGTPIQRKLDDLYGLLRFLKSSP------FSISRWWIEVIRDPYENGDVGAMEFTH--KFFKEI 437 (1071)
Q Consensus 370 l~~L~----a~~Rw~LTGTPiqN~l~DL~~LL~FL~p~~------~~~~~~F~~~~~~p~~~~~~~~~~~L~--~~L~~~ 437 (1071)
+..|+ -.+.+--|+|-. .|=.++.-..+.+. |.++..|...+. +.+.++++-.. -.++..
T Consensus 435 VLdLQk~LP~ARVVYASATGA----sEPrNMaYM~RLGlWGegtaf~eF~eFi~AvE----kRGvGAMEIVAMDMK~rGm 506 (1300)
T KOG1513|consen 435 VLDLQKKLPNARVVYASATGA----SEPRNMAYMVRLGLWGEGTAFPEFEEFIHAVE----KRGVGAMEIVAMDMKLRGM 506 (1300)
T ss_pred HHHHHHhCCCceEEEeeccCC----CCcchhhhhhhhccccCCCcCccHHHHHHHHH----hcCCceeeeeehhhhhhhh
Confidence 77653 334444566632 22223333333343 555566655544 33333332111 112222
Q ss_pred hhhcccccccccCCCCCceEEEEEecCCHHHHHHHHHHHH
Q 001475 438 MCRSSKVHVSDELQLPPQEECVSWLTFSPIEEHFYQSQHE 477 (1071)
Q Consensus 438 mlRRtK~dV~~el~LPpk~e~vv~v~lS~~Q~~~Y~~~~~ 477 (1071)
.+ +.+|++-.-...+..|+||++=++.|+.-.+
T Consensus 507 Yi-------ARQLSFkgVsFrieEv~ls~eF~k~Yn~a~~ 539 (1300)
T KOG1513|consen 507 YI-------ARQLSFKGVSFRIEEVPLSKEFRKVYNRAAE 539 (1300)
T ss_pred hh-------hhhccccCceEEEEecccCHHHHHHHHHHHH
Confidence 22 2256678888899999999999999997544
No 105
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=92.65 E-value=0.26 Score=59.44 Aligned_cols=36 Identities=22% Similarity=0.372 Sum_probs=27.8
Q ss_pred CCcEEEEeCchh-HHHHHHHHHHhcCCCCCeEEEEeCCCCC
Q 001475 247 TGATLIVCPAPI-LAQWDAEITRHTRPGSLKTCIYEGARNS 286 (1071)
Q Consensus 247 ~~~tLIV~P~SL-l~qW~~Ei~k~~~~~~l~v~vy~G~~~~ 286 (1071)
.+|+||++|+.+ ++|-...|.+- .|+|+.....+++
T Consensus 454 ~~~VLvcApSNiAVDqLaeKIh~t----gLKVvRl~aksRE 490 (935)
T KOG1802|consen 454 AGPVLVCAPSNIAVDQLAEKIHKT----GLKVVRLCAKSRE 490 (935)
T ss_pred CCceEEEcccchhHHHHHHHHHhc----CceEeeeehhhhh
Confidence 379999999986 68988888764 4888877665443
No 106
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=92.60 E-value=0.31 Score=62.00 Aligned_cols=86 Identities=21% Similarity=0.108 Sum_probs=52.3
Q ss_pred cEEEEeCchhH----HHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCc
Q 001475 249 ATLIVCPAPIL----AQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHE 324 (1071)
Q Consensus 249 ~tLIV~P~SLl----~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~ 324 (1071)
.++||+|+--+ .+|...+-+++ .+++.+..|..... .....-..||++.|-..|.-|+-......
T Consensus 125 ~V~VvTpn~yLA~qd~e~m~~l~~~l---GLtv~~i~gg~~~~-------~r~~~y~~dIvygT~grlgfDyLrd~~~~- 193 (896)
T PRK13104 125 GVHIVTVNDYLAKRDSQWMKPIYEFL---GLTVGVIYPDMSHK-------EKQEAYKADIVYGTNNEYGFDYLRDNMAF- 193 (896)
T ss_pred CEEEEcCCHHHHHHHHHHHHHHhccc---CceEEEEeCCCCHH-------HHHHHhCCCEEEECChhhhHHHHhcCCcc-
Confidence 58999998744 35777777777 58887777653211 11122358999999888744432111000
Q ss_pred chhhhhhhcccCCCccccccccccceEEecccccc
Q 001475 325 GDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMV 359 (1071)
Q Consensus 325 ~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~i 359 (1071)
.......-...++|+|||+.+
T Consensus 194 --------------~~~~~v~r~l~~~IvDEaDsi 214 (896)
T PRK13104 194 --------------SLTDKVQRELNFAIVDEVDSI 214 (896)
T ss_pred --------------chHhhhccccceEEeccHhhh
Confidence 000122346789999999987
No 107
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=92.53 E-value=2.1 Score=48.49 Aligned_cols=39 Identities=13% Similarity=0.141 Sum_probs=25.6
Q ss_pred ccceEEecccccc---CChHHHHHHHHHh-c-ccCceEEEeCcCCC
Q 001475 347 FWWRICLDEAQMV---ESNAAAATEMALR-L-YAKHRWCITGTPIQ 387 (1071)
Q Consensus 347 ~w~rVIlDEAH~i---KN~~S~~~kal~~-L-~a~~Rw~LTGTPiq 387 (1071)
.||.+|+||.... .|+ + ...++.. . .....+.||+||..
T Consensus 202 aFD~liIDEVDAFP~~~d~-~-L~~Av~~ark~~g~~IylTATp~k 245 (441)
T COG4098 202 AFDLLIIDEVDAFPFSDDQ-S-LQYAVKKARKKEGATIYLTATPTK 245 (441)
T ss_pred hccEEEEeccccccccCCH-H-HHHHHHHhhcccCceEEEecCChH
Confidence 4899999999974 332 2 2233332 2 34578999999973
No 108
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=91.54 E-value=0.068 Score=43.65 Aligned_cols=30 Identities=40% Similarity=1.026 Sum_probs=24.3
Q ss_pred hcccccccccccccccccccccccccccccccCC
Q 001475 166 ICGAVSESRKYKGLWVQCDICDAWQHADCVGYSP 199 (1071)
Q Consensus 166 ~c~~~~~~~~~~g~~v~c~~c~~w~h~~cv~~~~ 199 (1071)
+|+.. ...+.+|+|+.|+.|.|..|++...
T Consensus 4 vC~~~----~~~~~~i~C~~C~~~~H~~C~~~~~ 33 (51)
T PF00628_consen 4 VCGQS----DDDGDMIQCDSCNRWYHQECVGPPE 33 (51)
T ss_dssp TTTSS----CTTSSEEEBSTTSCEEETTTSTSSH
T ss_pred CCCCc----CCCCCeEEcCCCChhhCcccCCCCh
Confidence 66662 2367899999999999999998765
No 109
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=90.13 E-value=1.1 Score=56.33 Aligned_cols=24 Identities=33% Similarity=0.624 Sum_probs=19.8
Q ss_pred CceeecCCCCCHHHHHHHHHHHcc
Q 001475 108 GGILADEMGLGKTVELLACIFAHR 131 (1071)
Q Consensus 108 GGILADEMGLGKTvq~LalIl~~~ 131 (1071)
.|+|-+-.|.|||+-.|+-.++..
T Consensus 42 ~~llESPTGTGKSLsLLCS~LAW~ 65 (945)
T KOG1132|consen 42 NGLLESPTGTGKSLSLLCSTLAWQ 65 (945)
T ss_pred hhhccCCCCCCccHHHHHHHHHHH
Confidence 578888899999999888776653
No 110
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=89.57 E-value=0.54 Score=57.55 Aligned_cols=130 Identities=15% Similarity=0.181 Sum_probs=82.0
Q ss_pred CCcEEEEeCc-hhHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcc
Q 001475 247 TGATLIVCPA-PILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEG 325 (1071)
Q Consensus 247 ~~~tLIV~P~-SLl~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~ 325 (1071)
.|.||||.|. ||+..=.+.+... .+++...++.-... ..............+++..+-+.+....-
T Consensus 57 ~G~TLVVSPLiSLM~DQV~~l~~~----Gi~A~~lnS~l~~~-e~~~v~~~l~~g~~klLyisPErl~~~~f-------- 123 (590)
T COG0514 57 EGLTLVVSPLISLMKDQVDQLEAA----GIRAAYLNSTLSRE-ERQQVLNQLKSGQLKLLYISPERLMSPRF-------- 123 (590)
T ss_pred CCCEEEECchHHHHHHHHHHHHHc----CceeehhhcccCHH-HHHHHHHHHhcCceeEEEECchhhcChHH--------
Confidence 5899999996 4554444555443 26666666552211 00111122233458899999998877521
Q ss_pred hhhhhhhcccCCCccccccccccceEEeccccccCChH-------HHHHHHHHhcccCceEEEeCcCCCCChhhhhcccc
Q 001475 326 DRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA-------AAATEMALRLYAKHRWCITGTPIQRKLDDLYGLLR 398 (1071)
Q Consensus 326 ~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~-------S~~~kal~~L~a~~Rw~LTGTPiqN~l~DL~~LL~ 398 (1071)
...|......++++||||.+-... .........+.-.-+++||+|--+.-..|+...|.
T Consensus 124 --------------~~~L~~~~i~l~vIDEAHCiSqWGhdFRP~Y~~lg~l~~~~~~~p~~AlTATA~~~v~~DI~~~L~ 189 (590)
T COG0514 124 --------------LELLKRLPISLVAIDEAHCISQWGHDFRPDYRRLGRLRAGLPNPPVLALTATATPRVRDDIREQLG 189 (590)
T ss_pred --------------HHHHHhCCCceEEechHHHHhhcCCccCHhHHHHHHHHhhCCCCCEEEEeCCCChHHHHHHHHHhc
Confidence 123567788999999999985432 33444444555567899999987777788888777
Q ss_pred ccCCC
Q 001475 399 FLKSS 403 (1071)
Q Consensus 399 FL~p~ 403 (1071)
.=.+.
T Consensus 190 l~~~~ 194 (590)
T COG0514 190 LQDAN 194 (590)
T ss_pred CCCcc
Confidence 55553
No 111
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=89.50 E-value=0.84 Score=58.18 Aligned_cols=88 Identities=16% Similarity=0.068 Sum_probs=54.7
Q ss_pred CcEEEEeCchhHH----HHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCC
Q 001475 248 GATLIVCPAPILA----QWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRH 323 (1071)
Q Consensus 248 ~~tLIV~P~SLl~----qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~ 323 (1071)
+.+-||+|+-.+. +|...+-+++ .++|.+..+..... .....-.+||++.|...+.-|+-.+.-..
T Consensus 124 ~~VhvvT~ndyLA~RD~e~m~~l~~~l---Gl~v~~i~~~~~~~-------err~~Y~~dI~YGT~~e~gFDYLrD~~~~ 193 (913)
T PRK13103 124 KGVHVVTVNDYLARRDANWMRPLYEFL---GLSVGIVTPFQPPE-------EKRAAYAADITYGTNNEFGFDYLRDNMAF 193 (913)
T ss_pred CCEEEEeCCHHHHHHHHHHHHHHhccc---CCEEEEECCCCCHH-------HHHHHhcCCEEEEcccccccchhhcccee
Confidence 4688999998763 5777777766 68998887753221 12233448999999888644332111000
Q ss_pred cchhhhhhhcccCCCccccccccccceEEeccccccC
Q 001475 324 EGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVE 360 (1071)
Q Consensus 324 ~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iK 360 (1071)
.......-.++++|+||+|.+-
T Consensus 194 ---------------~~~~~vqr~l~~aIVDEvDsiL 215 (913)
T PRK13103 194 ---------------SLDDKFQRELNFAVIDEVDSIL 215 (913)
T ss_pred ---------------chhhhcccccceeEechhhhee
Confidence 0012334568899999999873
No 112
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=89.04 E-value=2.3 Score=55.24 Aligned_cols=99 Identities=15% Similarity=0.145 Sum_probs=59.9
Q ss_pred EEEEeC-chhHHHHHHHHHHhcCCCCC--eEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 250 TLIVCP-APILAQWDAEITRHTRPGSL--KTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 250 tLIV~P-~SLl~qW~~Ei~k~~~~~~l--~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
+.-..| +.|..|=.+++..-+ +.. -+-++.|.-. -..++.++++|-+.|++.+.....
T Consensus 165 viYTsPIKALsNQKyrdl~~~f--gdv~~~vGL~TGDv~------------IN~~A~clvMTTEILRnMlyrg~~----- 225 (1041)
T COG4581 165 VIYTSPIKALSNQKYRDLLAKF--GDVADMVGLMTGDVS------------INPDAPCLVMTTEILRNMLYRGSE----- 225 (1041)
T ss_pred eEeccchhhhhhhHHHHHHHHh--hhhhhhccceeccee------------eCCCCceEEeeHHHHHHHhccCcc-----
Confidence 333445 456667777776666 322 2355666532 234567888888999998754211
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccccCChH-HHHHHHH-Hhcc-cCceEEEeCc
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA-AAATEMA-LRLY-AKHRWCITGT 384 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~-S~~~kal-~~L~-a~~Rw~LTGT 384 (1071)
.+. .-..||+||.|.|.... .-.++-+ ..+. ...-++||+|
T Consensus 226 ---------------~~~--~i~~ViFDEvHyi~D~eRG~VWEE~Ii~lP~~v~~v~LSAT 269 (1041)
T COG4581 226 ---------------SLR--DIEWVVFDEVHYIGDRERGVVWEEVIILLPDHVRFVFLSAT 269 (1041)
T ss_pred ---------------ccc--ccceEEEEeeeeccccccchhHHHHHHhcCCCCcEEEEeCC
Confidence 122 23569999999998765 3333333 2333 3467889999
No 113
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=88.28 E-value=2.8 Score=55.97 Aligned_cols=62 Identities=18% Similarity=0.059 Sum_probs=39.3
Q ss_pred CCcEEEEeHHHHHhhcccCCCCCcchhhhhhhcccCCCccccccccccceEEecccc-ccCChHHHHHHHHHhc----cc
Q 001475 301 GADIVLTTYDVLKEDLSHDSDRHEGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQ-MVESNAAAATEMALRL----YA 375 (1071)
Q Consensus 301 ~~dVVItTY~~l~~d~~~~~~~~~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH-~iKN~~S~~~kal~~L----~a 375 (1071)
...|+++|...|...+... ++ --.++.||||||| +.-|..-... .++.+ +.
T Consensus 163 ~t~I~v~TpG~LL~~l~~d----------------------~~-Ls~~~~IIIDEAHERsLn~DfLLg-~Lk~lL~~rpd 218 (1294)
T PRK11131 163 NTMVKLMTDGILLAEIQQD----------------------RL-LMQYDTIIIDEAHERSLNIDFILG-YLKELLPRRPD 218 (1294)
T ss_pred CCCEEEEChHHHHHHHhcC----------------------Cc-cccCcEEEecCccccccccchHHH-HHHHhhhcCCC
Confidence 4679999999999876421 11 2357899999999 4555442221 23322 12
Q ss_pred CceEEEeCcCC
Q 001475 376 KHRWCITGTPI 386 (1071)
Q Consensus 376 ~~Rw~LTGTPi 386 (1071)
...+++|+|.-
T Consensus 219 lKvILmSATid 229 (1294)
T PRK11131 219 LKVIITSATID 229 (1294)
T ss_pred ceEEEeeCCCC
Confidence 35688999973
No 114
>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=88.06 E-value=4.6 Score=50.81 Aligned_cols=41 Identities=17% Similarity=0.126 Sum_probs=27.8
Q ss_pred cccccccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCCC
Q 001475 342 LLTRIFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQ 387 (1071)
Q Consensus 342 ~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPiq 387 (1071)
.|....|+.||+|||-.+-.+.+- -.|....+++|-|=|.|
T Consensus 356 ~l~~~~Fd~vIIDEAsQ~~ep~~l-----ipl~~~~~~vLvGD~~Q 396 (637)
T TIGR00376 356 GLKGWEFDVAVIDEASQAMEPSCL-----IPLLKARKLILAGDHKQ 396 (637)
T ss_pred hhccCCCCEEEEECccccchHHHH-----HHHhhCCeEEEecChhh
Confidence 366788999999999666555321 11222348899998877
No 115
>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=87.45 E-value=0.22 Score=48.19 Aligned_cols=32 Identities=6% Similarity=-0.238 Sum_probs=25.1
Q ss_pred eeEeeCCcCCchhhhhhh-hhhhcCCCCceEEE
Q 001475 621 HLHHNLTEILPMVANCAT-ELSQNEQHFPGCSE 652 (1071)
Q Consensus 621 ~~~~nl~~wnp~~~~QA~-R~hRiGQ~~~V~vy 652 (1071)
++.+--.+|++....|+. |++|.||+..|.+|
T Consensus 99 ~vi~~~~~~~~~~~~Q~~GR~~R~~~~~~~~~~ 131 (131)
T cd00079 99 VVINYDLPWSPSSYLQRIGRAGRAGQKGTAILL 131 (131)
T ss_pred EEEEeCCCCCHHHheecccccccCCCCceEEeC
Confidence 333333469999999999 99999998877664
No 116
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=87.36 E-value=1.7 Score=52.69 Aligned_cols=40 Identities=18% Similarity=0.203 Sum_probs=25.7
Q ss_pred ccccccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCCC
Q 001475 343 LTRIFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQ 387 (1071)
Q Consensus 343 L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPiq 387 (1071)
+....|+.||+|||-..--+.+ +-.+ -...+++|.|-|.|
T Consensus 354 ~~~~~fD~vIIDEaaQamE~~c--Wipv---lk~kk~ILaGDp~Q 393 (649)
T KOG1803|consen 354 LRKRTFDLVIIDEAAQAMEPQC--WIPV---LKGKKFILAGDPKQ 393 (649)
T ss_pred hcccCCCEEEEehhhhhccchh--hhHH---hcCCceEEeCCccc
Confidence 4456699999999854433222 2222 23348999999977
No 117
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=87.20 E-value=1.7 Score=55.43 Aligned_cols=86 Identities=16% Similarity=0.105 Sum_probs=52.5
Q ss_pred cEEEEeCchhHH----HHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCc
Q 001475 249 ATLIVCPAPILA----QWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHE 324 (1071)
Q Consensus 249 ~tLIV~P~SLl~----qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~ 324 (1071)
.+-||+|+..+. +|...+-+++ .+++.+..|..... .....-..||++.|...+.-|+-......
T Consensus 124 ~V~IvTpn~yLA~rd~e~~~~l~~~L---Glsv~~i~~~~~~~-------er~~~y~~dI~ygT~~elgfDyLrd~~~~- 192 (830)
T PRK12904 124 GVHVVTVNDYLAKRDAEWMGPLYEFL---GLSVGVILSGMSPE-------ERREAYAADITYGTNNEFGFDYLRDNMVF- 192 (830)
T ss_pred CEEEEecCHHHHHHHHHHHHHHHhhc---CCeEEEEcCCCCHH-------HHHHhcCCCeEEECCcchhhhhhhccccc-
Confidence 456999998653 5777777777 68888877753221 11112348999999888855542211100
Q ss_pred chhhhhhhcccCCCccccccccccceEEecccccc
Q 001475 325 GDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMV 359 (1071)
Q Consensus 325 ~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~i 359 (1071)
....+..-.+.++|||||..+
T Consensus 193 --------------~~~~~~~r~~~~aIvDEaDsi 213 (830)
T PRK12904 193 --------------SLEERVQRGLNYAIVDEVDSI 213 (830)
T ss_pred --------------chhhhcccccceEEEechhhh
Confidence 001233446788999999876
No 118
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=86.69 E-value=2.5 Score=48.70 Aligned_cols=107 Identities=19% Similarity=0.325 Sum_probs=73.5
Q ss_pred CcEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhh-cCCcEEEEeHHHHHhhcccCCCCCcc
Q 001475 248 GATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISEL-VGADIVLTTYDVLKEDLSHDSDRHEG 325 (1071)
Q Consensus 248 ~~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l-~~~dVVItTY~~l~~d~~~~~~~~~~ 325 (1071)
-.+||+.|.. |..|-+-|..++.-.+.-.+++|.|.++.. ...++ ...+|+|.|-..|..-...
T Consensus 295 p~~lvl~ptreLalqie~e~~kysyng~ksvc~ygggnR~e-------qie~lkrgveiiiatPgrlndL~~~------- 360 (629)
T KOG0336|consen 295 PGVLVLTPTRELALQIEGEVKKYSYNGLKSVCVYGGGNRNE-------QIEDLKRGVEIIIATPGRLNDLQMD------- 360 (629)
T ss_pred CceEEEeccHHHHHHHHhHHhHhhhcCcceEEEecCCCchh-------HHHHHhcCceEEeeCCchHhhhhhc-------
Confidence 3589999987 556888888888766777888888876532 33333 4688999998877653321
Q ss_pred hhhhhhhcccCCCccccccccccceEEeccccccCCh--HHHHHHHHHhcccCceEEEeC
Q 001475 326 DRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESN--AAAATEMALRLYAKHRWCITG 383 (1071)
Q Consensus 326 ~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~--~S~~~kal~~L~a~~Rw~LTG 383 (1071)
....--..-++|||||.++-.. .-+..+.+..++.++--+||.
T Consensus 361 ---------------n~i~l~siTYlVlDEADrMLDMgFEpqIrkilldiRPDRqtvmTS 405 (629)
T KOG0336|consen 361 ---------------NVINLASITYLVLDEADRMLDMGFEPQIRKILLDIRPDRQTVMTS 405 (629)
T ss_pred ---------------CeeeeeeeEEEEecchhhhhcccccHHHHHHhhhcCCcceeeeec
Confidence 1112223468999999987543 367778888888777666654
No 119
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the KOG1131 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 5'-3' helicase subunit RAD3 [Transcription; Replication, recombination and repair]
Probab=85.33 E-value=1.5 Score=51.82 Aligned_cols=28 Identities=36% Similarity=0.347 Sum_probs=23.0
Q ss_pred CceeecCCCCCHHHHHHHHHHHccCCCC
Q 001475 108 GGILADEMGLGKTVELLACIFAHRKPAS 135 (1071)
Q Consensus 108 GGILADEMGLGKTvq~LalIl~~~~~~~ 135 (1071)
-|+|-.--|.|||+..|++|.+.+...+
T Consensus 37 h~llEMPSGTGKTvsLLSli~aYq~~~p 64 (755)
T KOG1131|consen 37 HCLLEMPSGTGKTVSLLSLIIAYQLHYP 64 (755)
T ss_pred cEEEECCCCCCcchHHHHHHHHHHHhCC
Confidence 4688778899999999999998765554
No 121
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=85.26 E-value=4.3 Score=52.93 Aligned_cols=105 Identities=11% Similarity=0.222 Sum_probs=63.0
Q ss_pred cEEEEeC-chhHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHH---HHhhcccCCCCCc
Q 001475 249 ATLIVCP-APILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDV---LKEDLSHDSDRHE 324 (1071)
Q Consensus 249 ~tLIV~P-~SLl~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~---l~~d~~~~~~~~~ 324 (1071)
...-|+| .+|+.-|...|.++..+=.++|.-..|.... ....+....|+++|-+. +.+. .
T Consensus 366 KIVYIAPmKaLvqE~VgsfSkRla~~GI~V~ElTgD~~l--------~~~qieeTqVIV~TPEK~DiITRk--------~ 429 (1674)
T KOG0951|consen 366 KIVYIAPMKALVQEMVGSFSKRLAPLGITVLELTGDSQL--------GKEQIEETQVIVTTPEKWDIITRK--------S 429 (1674)
T ss_pred eEEEEeeHHHHHHHHHHHHHhhccccCcEEEEecccccc--------hhhhhhcceeEEeccchhhhhhcc--------c
Confidence 4556677 5788999999999996555666666666432 23444556677777543 2222 1
Q ss_pred chhhhhhhcccCCCccccccccccceEEecccccc---CChH--HHHHHHHHhcc----cCceEEEeCc
Q 001475 325 GDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMV---ESNA--AAATEMALRLY----AKHRWCITGT 384 (1071)
Q Consensus 325 ~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~i---KN~~--S~~~kal~~L~----a~~Rw~LTGT 384 (1071)
+++.+. --...+|+||.|++ +++. |..++..++.. ...-.+||+|
T Consensus 430 gdraY~---------------qlvrLlIIDEIHLLhDdRGpvLESIVaRt~r~ses~~e~~RlVGLSAT 483 (1674)
T KOG0951|consen 430 GDRAYE---------------QLVRLLIIDEIHLLHDDRGPVLESIVARTFRRSESTEEGSRLVGLSAT 483 (1674)
T ss_pred CchhHH---------------HHHHHHhhhhhhhcccccchHHHHHHHHHHHHhhhcccCceeeeeccc
Confidence 111111 12456899999999 4433 33444444432 3345789999
No 122
>PRK14873 primosome assembly protein PriA; Provisional
Probab=85.10 E-value=2.6 Score=53.05 Aligned_cols=107 Identities=8% Similarity=-0.047 Sum_probs=64.3
Q ss_pred CcEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 248 GATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 248 ~~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
+.+||++|.. +..|+..-++..+ +.-.+.+||+.-........+ .....++.+|||=|...+-.-
T Consensus 189 k~vLvLvPEi~lt~q~~~rl~~~f--~~~~v~~lhS~l~~~~R~~~w-~~~~~G~~~IViGtRSAvFaP----------- 254 (665)
T PRK14873 189 RGALVVVPDQRDVDRLEAALRALL--GAGDVAVLSAGLGPADRYRRW-LAVLRGQARVVVGTRSAVFAP----------- 254 (665)
T ss_pred CeEEEEecchhhHHHHHHHHHHHc--CCCcEEEECCCCCHHHHHHHH-HHHhCCCCcEEEEcceeEEec-----------
Confidence 5799999975 7799999999999 446788899864322111111 112235677998777654322
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccc--cCChHHHHH--H-H--HH-hcccCceEEEeCcCC
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQM--VESNAAAAT--E-M--AL-RLYAKHRWCITGTPI 386 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~--iKN~~S~~~--k-a--l~-~L~a~~Rw~LTGTPi 386 (1071)
+. +..+||+||=|- .|...+..+ + . .+ .+..-.-++-|+||-
T Consensus 255 ----------------~~--~LgLIIvdEEhd~sykq~~~p~yhaRdvA~~Ra~~~~~~lvLgSaTPS 304 (665)
T PRK14873 255 ----------------VE--DLGLVAIWDDGDDLLAEPRAPYPHAREVALLRAHQHGCALLIGGHART 304 (665)
T ss_pred ----------------cC--CCCEEEEEcCCchhhcCCCCCCccHHHHHHHHHHHcCCcEEEECCCCC
Confidence 22 357899999885 444332221 1 1 11 123344556699984
No 123
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=84.82 E-value=2.2 Score=53.46 Aligned_cols=123 Identities=12% Similarity=0.084 Sum_probs=64.4
Q ss_pred CcEEEEeCchhHH----HHHHHHHHhc-----CCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhc--
Q 001475 248 GATLIVCPAPILA----QWDAEITRHT-----RPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDL-- 316 (1071)
Q Consensus 248 ~~tLIV~P~SLl~----qW~~Ei~k~~-----~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~-- 316 (1071)
..++||||+..+. +=-+++..|+ ..-.+..++|..... ......-....|+|.+.+.+.++-
T Consensus 105 ~KFIivVPs~AIkeGv~~~s~~~~ehF~k~~Yent~~e~~i~~~~~~-------~~~~~~~~~~~vLl~~~~Afnk~~in 177 (985)
T COG3587 105 FKFIIVVPSLAIKEGVFLTSKETTEHFFKSEYENTRLESYIYDEDIE-------KFKFKSNNKPCVLLIFVSAFNKEEIN 177 (985)
T ss_pred eeEEEEeccHHHHhhhHHHHHHHHHHHhhhhccCcceeEEeechHHH-------HHhhccCCCceEEEEehhhhcccccc
Confidence 3689999985432 2234455555 222456666652210 011122234558888888887762
Q ss_pred -ccCCCCCcchhhhhhhcccCCCcccccccc--ccceEEeccccccCChHHHHHHHHHhcccCceEEEeCc
Q 001475 317 -SHDSDRHEGDRRFMRFQKRYPVIPTLLTRI--FWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGT 384 (1071)
Q Consensus 317 -~~~~~~~~~~~~~~r~~kr~~~~~s~L~~i--~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGT 384 (1071)
....... +....-.....+|+..+ .=-.||+||-|++... .+++.++..+..-.-+=-.+|
T Consensus 178 an~iN~~s------~~~~~~~~~~~spvd~la~~rPIvIvDEPh~f~~~-~k~~~~i~~l~pl~ilRfgAT 241 (985)
T COG3587 178 ANMINSES------MENTNLFNGATSPVDALASMRPIVIVDEPHRFLGD-DKTYGAIKQLNPLLILRFGAT 241 (985)
T ss_pred ccccchhh------hcccCccccccCHHHHHHhcCCEEEecChhhcccc-hHHHHHHHhhCceEEEEeccc
Confidence 1111000 00000000001121111 1236999999999865 788889999988776666676
No 124
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=84.76 E-value=11 Score=39.99 Aligned_cols=39 Identities=23% Similarity=0.193 Sum_probs=24.8
Q ss_pred ccceEEeccccccCChHHHHHHHHHhccc-CceEEEeCcCCC
Q 001475 347 FWWRICLDEAQMVESNAAAATEMALRLYA-KHRWCITGTPIQ 387 (1071)
Q Consensus 347 ~w~rVIlDEAH~iKN~~S~~~kal~~L~a-~~Rw~LTGTPiq 387 (1071)
..++||+|||.++.+. .....+..+.. ..++++.|-|-|
T Consensus 93 ~~~vliVDEasmv~~~--~~~~ll~~~~~~~~klilvGD~~Q 132 (196)
T PF13604_consen 93 KKDVLIVDEASMVDSR--QLARLLRLAKKSGAKLILVGDPNQ 132 (196)
T ss_dssp STSEEEESSGGG-BHH--HHHHHHHHS-T-T-EEEEEE-TTS
T ss_pred cccEEEEecccccCHH--HHHHHHHHHHhcCCEEEEECCcch
Confidence 3568999999999643 33444444443 679999999876
No 125
>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=84.64 E-value=1.9 Score=50.22 Aligned_cols=17 Identities=29% Similarity=0.268 Sum_probs=14.6
Q ss_pred ccccceEEeccccccCC
Q 001475 345 RIFWWRICLDEAQMVES 361 (1071)
Q Consensus 345 ~i~w~rVIlDEAH~iKN 361 (1071)
.-.++.||+||||++..
T Consensus 81 ~~~~DviivDEAqrl~~ 97 (352)
T PF09848_consen 81 KNKYDVIIVDEAQRLRT 97 (352)
T ss_pred CCcCCEEEEehhHhhhh
Confidence 34689999999999976
No 126
>PF06733 DEAD_2: DEAD_2; InterPro: IPR010614 This represents a conserved region within a number of RAD3-like DNA-binding helicases that are seemingly ubiquitous - members include proteins of eukaryotic, bacterial and archaeal origin. RAD3 is involved in nucleotide excision repair, and forms part of the transcription factor TFIIH in yeast [].; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 3CRV_A 3CRW_1 2VL7_A 4A15_A 2VSF_A.
Probab=83.24 E-value=0.76 Score=47.75 Aligned_cols=44 Identities=25% Similarity=0.271 Sum_probs=27.9
Q ss_pred hhhcCCcEEEEeHHHHHhhcccCCCCCcchhhhhhhcccCCCccccc-cccccceEEeccccccCC
Q 001475 297 SELVGADIVLTTYDVLKEDLSHDSDRHEGDRRFMRFQKRYPVIPTLL-TRIFWWRICLDEAQMVES 361 (1071)
Q Consensus 297 ~~l~~~dVVItTY~~l~~d~~~~~~~~~~~~~~~r~~kr~~~~~s~L-~~i~w~rVIlDEAH~iKN 361 (1071)
.....+||||++|..+-.+.... ... ....-..||+||||.|.+
T Consensus 115 ~~~~~adivi~~y~yl~~~~~~~---------------------~~~~~~~~~~ivI~DEAHNL~~ 159 (174)
T PF06733_consen 115 ELAKNADIVICNYNYLFDPSIRK---------------------SLFGIDLKDNIVIFDEAHNLED 159 (174)
T ss_dssp HCGGG-SEEEEETHHHHSHHHHH---------------------HHCT--CCCEEEEETTGGGCGG
T ss_pred HhcccCCEEEeCHHHHhhHHHHh---------------------hhccccccCcEEEEecccchHH
Confidence 44567999999999987753210 001 123346799999999964
No 127
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=82.13 E-value=3.8 Score=49.30 Aligned_cols=124 Identities=17% Similarity=0.141 Sum_probs=76.1
Q ss_pred CCCcEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCc
Q 001475 246 ATGATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHE 324 (1071)
Q Consensus 246 ~~~~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~ 324 (1071)
..+.+|.+||.- |..|=.++|.+-..+=.+++.+-.|..+-+.... ........++|||+-||+-+---+....
T Consensus 260 ~g~KmlfLvPLVALANQKy~dF~~rYs~LglkvairVG~srIk~~~~-pv~~~t~~dADIIVGTYEGiD~lLRtg~---- 334 (830)
T COG1202 260 GGKKMLFLVPLVALANQKYEDFKERYSKLGLKVAIRVGMSRIKTREE-PVVVDTSPDADIIVGTYEGIDYLLRTGK---- 334 (830)
T ss_pred CCCeEEEEehhHHhhcchHHHHHHHhhcccceEEEEechhhhcccCC-ccccCCCCCCcEEEeechhHHHHHHcCC----
Confidence 357899999986 4567788888777555688878778765432211 1233455789999999997644332100
Q ss_pred chhhhhhhcccCCCccccccccccceEEeccccccCChH--HHHHHHHHhcc----cCceEEEeCcCCCCChhhhhc
Q 001475 325 GDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA--AAATEMALRLY----AKHRWCITGTPIQRKLDDLYG 395 (1071)
Q Consensus 325 ~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~--S~~~kal~~L~----a~~Rw~LTGTPiqN~l~DL~~ 395 (1071)
.+ -+...||+||.|++.... ...--.+.+|+ .-..+.||+|- .|+.||-.
T Consensus 335 -----------------~l--gdiGtVVIDEiHtL~deERG~RLdGLI~RLr~l~~~AQ~i~LSATV--gNp~elA~ 390 (830)
T COG1202 335 -----------------DL--GDIGTVVIDEIHTLEDEERGPRLDGLIGRLRYLFPGAQFIYLSATV--GNPEELAK 390 (830)
T ss_pred -----------------cc--cccceEEeeeeeeccchhcccchhhHHHHHHHhCCCCeEEEEEeec--CChHHHHH
Confidence 01 235789999999997622 22223333332 34557788882 33444443
No 128
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=81.94 E-value=6.5 Score=46.37 Aligned_cols=110 Identities=20% Similarity=0.192 Sum_probs=65.1
Q ss_pred cEEEEeCch-hHHHHH---HHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCc
Q 001475 249 ATLIVCPAP-ILAQWD---AEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHE 324 (1071)
Q Consensus 249 ~tLIV~P~S-Ll~qW~---~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~ 324 (1071)
..|||.|+- |..|-. ..|..|+ +.++...+.|...... -...-.-....|+|.|-+.|..-+.+-..
T Consensus 81 galIIsPTRELa~QI~~V~~~F~~~l--~~l~~~l~vGG~~v~~----Di~~fkee~~nIlVgTPGRL~di~~~~~~--- 151 (567)
T KOG0345|consen 81 GALIISPTRELARQIREVAQPFLEHL--PNLNCELLVGGRSVEE----DIKTFKEEGPNILVGTPGRLLDILQREAE--- 151 (567)
T ss_pred eEEEecCcHHHHHHHHHHHHHHHHhh--hccceEEEecCccHHH----HHHHHHHhCCcEEEeCchhHHHHHhchhh---
Confidence 579999986 334443 3444554 6788888888744211 01111223466999999888766543111
Q ss_pred chhhhhhhcccCCCccccccccccceEEeccccccCChH--HHHHHHHHhcccCceEE-EeCc
Q 001475 325 GDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA--AAATEMALRLYAKHRWC-ITGT 384 (1071)
Q Consensus 325 ~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~--S~~~kal~~L~a~~Rw~-LTGT 384 (1071)
.+.--.-..+|+|||.++-... ...-..+..|+..+|-+ .|+|
T Consensus 152 -----------------~l~~rsLe~LVLDEADrLldmgFe~~~n~ILs~LPKQRRTGLFSAT 197 (567)
T KOG0345|consen 152 -----------------KLSFRSLEILVLDEADRLLDMGFEASVNTILSFLPKQRRTGLFSAT 197 (567)
T ss_pred -----------------hccccccceEEecchHhHhcccHHHHHHHHHHhcccccccccccch
Confidence 1222345789999999985433 44455566666666543 3454
No 129
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=79.73 E-value=5.9 Score=47.37 Aligned_cols=109 Identities=16% Similarity=0.207 Sum_probs=63.6
Q ss_pred EEEEeCch-hHHHHHHHHHHhcCCCCCe-E-EEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 250 TLIVCPAP-ILAQWDAEITRHTRPGSLK-T-CIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 250 tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~-v-~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
.|||||.- |..|-.+-+.+...+-..- . ++..|.++..- ...--...+|+|-|-..|..++.+....
T Consensus 214 ALVivPTREL~~Q~y~~~qKLl~~~hWIVPg~lmGGEkkKSE------KARLRKGiNILIgTPGRLvDHLknT~~i---- 283 (708)
T KOG0348|consen 214 ALVIVPTRELALQIYETVQKLLKPFHWIVPGVLMGGEKKKSE------KARLRKGINILIGTPGRLVDHLKNTKSI---- 283 (708)
T ss_pred EEEEechHHHHHHHHHHHHHHhcCceEEeeceeecccccccH------HHHHhcCceEEEcCchHHHHHHhccchh----
Confidence 69999987 6788888888887532111 1 22333332210 1111234679999999998887543221
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccccCC-----hHHHHHHHHHhcc---c--------CceEEEeCcC
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVES-----NAAAATEMALRLY---A--------KHRWCITGTP 385 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN-----~~S~~~kal~~L~---a--------~~Rw~LTGTP 385 (1071)
.+.. -..||+|||.+|-. .-++..+++..++ + .-+++||+|-
T Consensus 284 ---------------~~s~--LRwlVlDEaDrlleLGfekdit~Il~~v~~~~~~e~~~~~lp~q~q~mLlSATL 341 (708)
T KOG0348|consen 284 ---------------KFSR--LRWLVLDEADRLLELGFEKDITQILKAVHSIQNAECKDPKLPHQLQNMLLSATL 341 (708)
T ss_pred ---------------eeee--eeEEEecchhHHHhccchhhHHHHHHHHhhccchhcccccccHHHHhHhhhhhh
Confidence 1223 34499999999742 2356666664321 1 2356778874
No 130
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=79.72 E-value=4.4 Score=48.51 Aligned_cols=112 Identities=16% Similarity=0.158 Sum_probs=68.0
Q ss_pred cEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcchh
Q 001475 249 ATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGDR 327 (1071)
Q Consensus 249 ~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~~ 327 (1071)
-.|||+|.- |..|-.+-|..-+..+.+++..+.|.-... ....--....||||.|-..|-.-+.... .
T Consensus 265 ~~LV~tPTRELa~QV~~Hl~ai~~~t~i~v~si~GGLavq-----KQqRlL~~~p~IVVATPGRlweli~e~n------~ 333 (731)
T KOG0347|consen 265 IALVVTPTRELAHQVKQHLKAIAEKTQIRVASITGGLAVQ-----KQQRLLNQRPDIVVATPGRLWELIEEDN------T 333 (731)
T ss_pred eeEEecChHHHHHHHHHHHHHhccccCeEEEEeechhHHH-----HHHHHHhcCCCEEEecchHHHHHHHhhh------h
Confidence 479999987 678888888888877789998888862211 0011112368899999988876553211 0
Q ss_pred hhhhhcccCCCccccccccccceEEeccccccC--ChHHHHHHHHHhcc------cCceEEEeCc
Q 001475 328 RFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVE--SNAAAATEMALRLY------AKHRWCITGT 384 (1071)
Q Consensus 328 ~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iK--N~~S~~~kal~~L~------a~~Rw~LTGT 384 (1071)
.+. + +. .-..+|||||.++- +.-.-.++.+..|. -...++.|+|
T Consensus 334 -~l~---~-------~k--~vkcLVlDEaDRmvekghF~Els~lL~~L~e~~~~~qrQTlVFSAT 385 (731)
T KOG0347|consen 334 -HLG---N-------FK--KVKCLVLDEADRMVEKGHFEELSKLLKHLNEEQKNRQRQTLVFSAT 385 (731)
T ss_pred -hhh---h-------hh--hceEEEEccHHHHhhhccHHHHHHHHHHhhhhhcccccceEEEEEE
Confidence 000 0 11 13468999999873 33334444444443 1234677777
No 131
>PRK04296 thymidine kinase; Provisional
Probab=79.66 E-value=9.2 Score=40.38 Aligned_cols=36 Identities=19% Similarity=0.076 Sum_probs=22.7
Q ss_pred ccceEEeccccccCChHHHHHHHHHhcc-cCceEEEeCc
Q 001475 347 FWWRICLDEAQMVESNAAAATEMALRLY-AKHRWCITGT 384 (1071)
Q Consensus 347 ~w~rVIlDEAH~iKN~~S~~~kal~~L~-a~~Rw~LTGT 384 (1071)
.+++||+||+|.+.. .+....+..+. ....+++||-
T Consensus 78 ~~dvviIDEaq~l~~--~~v~~l~~~l~~~g~~vi~tgl 114 (190)
T PRK04296 78 KIDCVLIDEAQFLDK--EQVVQLAEVLDDLGIPVICYGL 114 (190)
T ss_pred CCCEEEEEccccCCH--HHHHHHHHHHHHcCCeEEEEec
Confidence 578999999999843 23344444433 4456667663
No 132
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=79.53 E-value=7 Score=49.09 Aligned_cols=102 Identities=14% Similarity=0.074 Sum_probs=61.2
Q ss_pred CcEEEEeCchhH----HHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCC
Q 001475 248 GATLIVCPAPIL----AQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRH 323 (1071)
Q Consensus 248 ~~tLIV~P~SLl----~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~ 323 (1071)
+.+-||+|+..+ .+|...+-+++ .++|....+..... .....-.+||+-+|-..+.-|+-.+.-..
T Consensus 120 ~~VhvvT~NdyLA~RDae~m~~ly~~L---GLsvg~i~~~~~~~-------err~aY~~DItYgTn~e~gFDyLRDnm~~ 189 (764)
T PRK12326 120 RRVHVITVNDYLARRDAEWMGPLYEAL---GLTVGWITEESTPE-------ERRAAYACDVTYASVNEIGFDVLRDQLVT 189 (764)
T ss_pred CCeEEEcCCHHHHHHHHHHHHHHHHhc---CCEEEEECCCCCHH-------HHHHHHcCCCEEcCCcccccccchhhhcc
Confidence 578899999876 36888888888 68998877653211 12233467887776555544432211000
Q ss_pred cchhhhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcC
Q 001475 324 EGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTP 385 (1071)
Q Consensus 324 ~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTP 385 (1071)
.+.....-.++.+|+||+..+-=. .+..-+++||.+
T Consensus 190 ---------------~~~~~v~R~~~faIVDEvDSiLID-----------eArtPLiISg~~ 225 (764)
T PRK12326 190 ---------------DVADLVSPNPDVAIIDEADSVLVD-----------EALVPLVLAGST 225 (764)
T ss_pred ---------------ChHhhcCCccceeeecchhhheec-----------cccCceeeeCCC
Confidence 001233446889999999865211 245567787754
No 133
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=79.02 E-value=5.9 Score=50.87 Aligned_cols=102 Identities=16% Similarity=0.120 Sum_probs=61.1
Q ss_pred CcEEEEeCchhH----HHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCC
Q 001475 248 GATLIVCPAPIL----AQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRH 323 (1071)
Q Consensus 248 ~~tLIV~P~SLl----~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~ 323 (1071)
..+.||+|+--+ ..|...+-+|+ +++|.+..|.... ......-.+||+..|-..+.-|+-.+.-.
T Consensus 124 ~~VhIvT~ndyLA~RD~e~m~~l~~~l---Glsv~~i~~~~~~-------~~r~~~Y~~dI~YgT~~e~gfDyLrdnm~- 192 (908)
T PRK13107 124 KGVHVITVNDYLARRDAENNRPLFEFL---GLTVGINVAGLGQ-------QEKKAAYNADITYGTNNEFGFDYLRDNMA- 192 (908)
T ss_pred CCEEEEeCCHHHHHHHHHHHHHHHHhc---CCeEEEecCCCCH-------HHHHhcCCCCeEEeCCCcccchhhhccCc-
Confidence 358999998744 47999999998 6888766554221 01112225789998877664443221100
Q ss_pred cchhhhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcC
Q 001475 324 EGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTP 385 (1071)
Q Consensus 324 ~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTP 385 (1071)
..+..+..-.++.+|+||+..+--.. |+.-+++||.+
T Consensus 193 --------------~~~~~~vqr~~~~aIvDEvDsiLiDE-----------ArtPLIISg~~ 229 (908)
T PRK13107 193 --------------FSPQERVQRPLHYALIDEVDSILIDE-----------ARTPLIISGAA 229 (908)
T ss_pred --------------cchhhhhccccceeeecchhhhcccc-----------CCCceeecCCC
Confidence 00112334567899999998764322 34456777743
No 134
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=78.00 E-value=4.2 Score=48.15 Aligned_cols=110 Identities=23% Similarity=0.221 Sum_probs=64.3
Q ss_pred cEEEEeCchhH-HHHHHHHHHhcCC-CCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 249 ATLIVCPAPIL-AQWDAEITRHTRP-GSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 249 ~tLIV~P~SLl-~qW~~Ei~k~~~~-~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
.+|||||.--+ .|-..|.++-... ++..|.+.-|..+.+.. .........|+|.|-..|..++.....
T Consensus 156 ~vlIi~PTRELA~Q~~~eak~Ll~~h~~~~v~~viGG~~~~~e-----~~kl~k~~niliATPGRLlDHlqNt~~----- 225 (543)
T KOG0342|consen 156 GVLIICPTRELAMQIFAEAKELLKYHESITVGIVIGGNNFSVE-----ADKLVKGCNILIATPGRLLDHLQNTSG----- 225 (543)
T ss_pred eEEEecccHHHHHHHHHHHHHHHhhCCCcceEEEeCCccchHH-----HHHhhccccEEEeCCchHHhHhhcCCc-----
Confidence 58999999854 5877776665532 36777666665443221 111123677999999999887754211
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccccCChH--HHHHHHHHhcc-cCceEEEeCc
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA--AAATEMALRLY-AKHRWCITGT 384 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~--S~~~kal~~L~-a~~Rw~LTGT 384 (1071)
+.--.-..+|+|||.++-... --.-+.+..+. -...++.|+|
T Consensus 226 ----------------f~~r~~k~lvlDEADrlLd~GF~~di~~Ii~~lpk~rqt~LFSAT 270 (543)
T KOG0342|consen 226 ----------------FLFRNLKCLVLDEADRLLDIGFEEDVEQIIKILPKQRQTLLFSAT 270 (543)
T ss_pred ----------------chhhccceeEeecchhhhhcccHHHHHHHHHhccccceeeEeeCC
Confidence 222223789999999974322 12222233333 2344666776
No 135
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=75.86 E-value=11 Score=44.88 Aligned_cols=110 Identities=18% Similarity=0.185 Sum_probs=65.3
Q ss_pred CCCcE-EEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeC-CCCCccccccccchhhh-cCCcEEEEeHHHHHhhcccCCC
Q 001475 246 ATGAT-LIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEG-ARNSSLSDTSIMDISEL-VGADIVLTTYDVLKEDLSHDSD 321 (1071)
Q Consensus 246 ~~~~t-LIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G-~~~~~~~~~~~~~~~~l-~~~dVVItTY~~l~~d~~~~~~ 321 (1071)
..+|+ ||+||+- +..|-..|.++|...-.++++..+| .... .+...+ ..+.||++|-+.|...+.--
T Consensus 294 g~gPi~vilvPTrela~Qi~~eaKkf~K~ygl~~v~~ygGgsk~-------eQ~k~Lk~g~EivVaTPgRlid~VkmK-- 364 (731)
T KOG0339|consen 294 GEGPIGVILVPTRELASQIFSEAKKFGKAYGLRVVAVYGGGSKW-------EQSKELKEGAEIVVATPGRLIDMVKMK-- 364 (731)
T ss_pred CCCCeEEEEeccHHHHHHHHHHHHHhhhhccceEEEeecCCcHH-------HHHHhhhcCCeEEEechHHHHHHHHhh--
Confidence 34665 5567865 7789999999997655777765554 4321 111222 56789999999887765310
Q ss_pred CCcchhhhhhhcccCCCccccccccccceEEeccccccCChH--HHHHHHHHhcccC-ceEEEeCc
Q 001475 322 RHEGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA--AAATEMALRLYAK-HRWCITGT 384 (1071)
Q Consensus 322 ~~~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~--S~~~kal~~L~a~-~Rw~LTGT 384 (1071)
...-.+-.++|+|||.++-... .+.-.....++.+ ..++.++|
T Consensus 365 --------------------atn~~rvS~LV~DEadrmfdmGfe~qVrSI~~hirpdrQtllFsaT 410 (731)
T KOG0339|consen 365 --------------------ATNLSRVSYLVLDEADRMFDMGFEPQVRSIKQHIRPDRQTLLFSAT 410 (731)
T ss_pred --------------------cccceeeeEEEEechhhhhccccHHHHHHHHhhcCCcceEEEeecc
Confidence 0112234579999999875432 2322233345444 34555665
No 136
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=74.67 E-value=7.2 Score=46.59 Aligned_cols=86 Identities=21% Similarity=0.257 Sum_probs=57.6
Q ss_pred cEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcchh
Q 001475 249 ATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGDR 327 (1071)
Q Consensus 249 ~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~~ 327 (1071)
..+|++|.- |..|-..|-.+|..+-.++++...|...-. .....-...++|||.|-..|-.-+..
T Consensus 324 yaiilaptReLaqqIeeEt~kf~~~lg~r~vsvigg~s~E-----Eq~fqls~gceiviatPgrLid~Len--------- 389 (673)
T KOG0333|consen 324 YAIILAPTRELAQQIEEETNKFGKPLGIRTVSVIGGLSFE-----EQGFQLSMGCEIVIATPGRLIDSLEN--------- 389 (673)
T ss_pred eeeeechHHHHHHHHHHHHHHhcccccceEEEEecccchh-----hhhhhhhccceeeecCchHHHHHHHH---------
Confidence 468889987 567999999999976667777666653210 11223335688999998887665421
Q ss_pred hhhhhcccCCCccccccccccceEEeccccccCC
Q 001475 328 RFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVES 361 (1071)
Q Consensus 328 ~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN 361 (1071)
-.|..-.--+||+|||.++-.
T Consensus 390 -------------r~lvl~qctyvvldeadrmiD 410 (673)
T KOG0333|consen 390 -------------RYLVLNQCTYVVLDEADRMID 410 (673)
T ss_pred -------------HHHHhccCceEeccchhhhhc
Confidence 113334567899999998643
No 137
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=74.32 E-value=1.9 Score=48.72 Aligned_cols=44 Identities=16% Similarity=0.200 Sum_probs=29.6
Q ss_pred hhhcCCcEEEEeHHHHHhhcccCCCCCcchhhhhhhcccCCCccccccccccceEEeccccccCC
Q 001475 297 SELVGADIVLTTYDVLKEDLSHDSDRHEGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVES 361 (1071)
Q Consensus 297 ~~l~~~dVVItTY~~l~~d~~~~~~~~~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN 361 (1071)
.....+||||++|..|..+.... .. . ....-..||+||||++..
T Consensus 207 ~~~~~Adivi~ny~yll~~~~r~---------~~----------~--~~l~~~~lIiDEAHnL~d 250 (289)
T smart00489 207 KAIEFANVVVLPYQYLLDPKIRQ---------AL----------S--IELKDSIVIFDEAHNLDN 250 (289)
T ss_pred HHhhcCCEEEECHHHHhcHHHHH---------Hh----------c--ccccccEEEEeCccChHH
Confidence 34578999999999997754210 00 0 011357899999999953
No 138
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=74.32 E-value=1.9 Score=48.72 Aligned_cols=44 Identities=16% Similarity=0.200 Sum_probs=29.6
Q ss_pred hhhcCCcEEEEeHHHHHhhcccCCCCCcchhhhhhhcccCCCccccccccccceEEeccccccCC
Q 001475 297 SELVGADIVLTTYDVLKEDLSHDSDRHEGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVES 361 (1071)
Q Consensus 297 ~~l~~~dVVItTY~~l~~d~~~~~~~~~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN 361 (1071)
.....+||||++|..|..+.... .. . ....-..||+||||++..
T Consensus 207 ~~~~~Adivi~ny~yll~~~~r~---------~~----------~--~~l~~~~lIiDEAHnL~d 250 (289)
T smart00488 207 KAIEFANVVVLPYQYLLDPKIRQ---------AL----------S--IELKDSIVIFDEAHNLDN 250 (289)
T ss_pred HHhhcCCEEEECHHHHhcHHHHH---------Hh----------c--ccccccEEEEeCccChHH
Confidence 34578999999999997754210 00 0 011357899999999953
No 139
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=73.02 E-value=2.6 Score=53.56 Aligned_cols=47 Identities=23% Similarity=0.236 Sum_probs=33.2
Q ss_pred hhhcCCcEEEEeHHHHHhhcccCCCCCcchhhhhhhcccCCCccccccccccceEEeccccccCCh
Q 001475 297 SELVGADIVLTTYDVLKEDLSHDSDRHEGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESN 362 (1071)
Q Consensus 297 ~~l~~~dVVItTY~~l~~d~~~~~~~~~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~ 362 (1071)
.....+|||||++..|..|+.... ...|.......+|+||||++...
T Consensus 215 ~~a~~AdivVtNH~LLladl~~~~-------------------~~iLp~~~~~~lViDEAH~L~d~ 261 (697)
T PRK11747 215 REIDEADVVVANHDLVLADLELGG-------------------GVVLPDPENLLYVLDEGHHLPDV 261 (697)
T ss_pred HHHhhCCEEEECcHHHHhhhhccC-------------------CcccCCCCCCEEEEECccchHHH
Confidence 345789999999999998863100 01233345788999999999643
No 140
>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=72.87 E-value=14 Score=49.70 Aligned_cols=83 Identities=23% Similarity=0.253 Sum_probs=48.6
Q ss_pred HHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhhhHhhhhhhhccccCCCCCcccccCccccchhhhhchhhHHHhHHHHHH
Q 001475 978 KQLHILEAMRKEYA-NARSLATAQAQFLRAHDEIRMATTRLHLKEDDNDTSVDALSPDELASASVTNSSEKFISMTLLSQ 1056 (1071)
Q Consensus 978 ~~l~~le~~rkE~~-~~r~l~~a~~~~l~A~DEL~ma~~Rlrlr~~~e~~~~~~i~~~ev~~~~~~~~~~k~~a~~~l~~ 1056 (1071)
.|-.+++..|.++. .+..+.....+.|.++.++. .+| +.......... -.++..+...|...-|++..-..+
T Consensus 1119 ~f~~~~~~~~~~l~~~~~~~~~~~~~~l~~~~~~~---~~l--~~~~~~~~~~~--~~di~~ql~~L~~~~f~~~~~~~~ 1191 (1283)
T TIGR01967 1119 DFAALLAQVRAELAPEVERIAKQLEEILVLFGNIR---KRL--KGKIDPTQAKA--LSDIKAQLDKLVYQGFVRTTGPQR 1191 (1283)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHh--ccCCChhhhhH--HHHHHHHHHHhccCCccccCCHHH
Confidence 44455555665554 55666666777777777773 233 21111011111 136777777777777877777777
Q ss_pred hhccccccccc
Q 001475 1057 VKGKLRYLKVS 1067 (1071)
Q Consensus 1057 ~~gql~YL~~~ 1067 (1071)
+.-=-|||+.+
T Consensus 1192 l~~~pRYl~A~ 1202 (1283)
T TIGR01967 1192 LSHLPRYLKAM 1202 (1283)
T ss_pred HhHhHHHHHHH
Confidence 76667777765
No 141
>KOG1844 consensus PHD Zn-finger proteins [General function prediction only]
Probab=71.30 E-value=1.9 Score=52.84 Aligned_cols=37 Identities=41% Similarity=0.886 Sum_probs=31.9
Q ss_pred hhhhhhcccccccccccccccccccccccccccccccCCC
Q 001475 161 ERVECICGAVSESRKYKGLWVQCDICDAWQHADCVGYSPR 200 (1071)
Q Consensus 161 ~~v~c~c~~~~~~~~~~g~~v~c~~c~~w~h~~cv~~~~~ 200 (1071)
....|+||...+. .|..++|+.|..|+|..|+|+-..
T Consensus 85 ~~~~c~c~~~~~~---~g~~i~c~~c~~Wqh~~C~g~~~~ 121 (508)
T KOG1844|consen 85 EISRCDCGLEDDM---EGLMIQCDWCGRWQHKICCGSFKS 121 (508)
T ss_pred cccccccccccCC---CceeeCCcccCcccCceeeeecCC
Confidence 4578999988775 788999999999999999997653
No 142
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=71.27 E-value=8.6 Score=49.06 Aligned_cols=87 Identities=15% Similarity=0.063 Sum_probs=52.6
Q ss_pred CcEEEEeCchhHH----HHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCC
Q 001475 248 GATLIVCPAPILA----QWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRH 323 (1071)
Q Consensus 248 ~~tLIV~P~SLl~----qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~ 323 (1071)
+.+-||+|+..+. .|...+-+++ .++|....|..... .....-.+||+-+|-..+.-|+-.+.-..
T Consensus 122 ~~v~vvT~neyLA~Rd~e~~~~~~~~L---Gl~vg~i~~~~~~~-------~r~~~y~~dI~Y~t~~e~gfDyLRD~m~~ 191 (796)
T PRK12906 122 KGVHVVTVNEYLSSRDATEMGELYRWL---GLTVGLNLNSMSPD-------EKRAAYNCDITYSTNSELGFDYLRDNMVV 191 (796)
T ss_pred CCeEEEeccHHHHHhhHHHHHHHHHhc---CCeEEEeCCCCCHH-------HHHHHhcCCCeecCCccccccchhhcccc
Confidence 4688899998763 6777787777 58888877653211 22344567888777665554432211000
Q ss_pred cchhhhhhhcccCCCccccccccccceEEecccccc
Q 001475 324 EGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMV 359 (1071)
Q Consensus 324 ~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~i 359 (1071)
. +..+..-.++.+|+||+..+
T Consensus 192 ~---------------~~~~v~r~~~~aIvDEvDSi 212 (796)
T PRK12906 192 Y---------------KEQMVQRPLNYAIVDEVDSI 212 (796)
T ss_pred c---------------hhhhhccCcceeeeccchhe
Confidence 0 01233346788888988765
No 143
>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=69.55 E-value=29 Score=44.24 Aligned_cols=100 Identities=14% Similarity=0.099 Sum_probs=53.6
Q ss_pred CcEEEEe-CchhHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 248 GATLIVC-PAPILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 248 ~~tLIV~-P~SLl~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
..+|||. =.|+..+-..-+++.-- -.+..|....... -....++-+++..+.+-+...
T Consensus 79 ~~VLvVShRrSL~~sL~~rf~~~~l---~gFv~Y~d~~~~~---------i~~~~~~rLivqIdSL~R~~~--------- 137 (824)
T PF02399_consen 79 KSVLVVSHRRSLTKSLAERFKKAGL---SGFVNYLDSDDYI---------IDGRPYDRLIVQIDSLHRLDG--------- 137 (824)
T ss_pred CeEEEEEhHHHHHHHHHHHHhhcCC---Ccceeeecccccc---------ccccccCeEEEEehhhhhccc---------
Confidence 4677774 34566665555544321 1344455442211 111357889999998866421
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccccCCh----H----HHHHHHHHhc--ccCceEEEeCc
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESN----A----AAATEMALRL--YAKHRWCITGT 384 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~----~----S~~~kal~~L--~a~~Rw~LTGT 384 (1071)
..+. .||.|||||+-.+-+. + ......+..+ ++++.+++-||
T Consensus 138 --------------~~l~--~yDvVIIDEv~svL~qL~S~Tm~~~~~v~~~L~~lI~~ak~VI~~DA~ 189 (824)
T PF02399_consen 138 --------------SLLD--RYDVVIIDEVMSVLNQLFSPTMRQREEVDNLLKELIRNAKTVIVMDAD 189 (824)
T ss_pred --------------cccc--ccCEEEEehHHHHHHHHhHHHHhhHHHHHHHHHHHHHhCCeEEEecCC
Confidence 1122 3899999998643221 1 1122222222 47888888887
No 144
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=68.47 E-value=8.5 Score=46.23 Aligned_cols=30 Identities=17% Similarity=0.196 Sum_probs=23.5
Q ss_pred CcEEEEeCch-hHHHHHHHHHHhcCCCCCeE
Q 001475 248 GATLIVCPAP-ILAQWDAEITRHTRPGSLKT 277 (1071)
Q Consensus 248 ~~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v 277 (1071)
+||||++|.- |..|-..|++.|++......
T Consensus 58 rPtLV~AhNKTLAaQLy~Efk~fFP~NaVEY 88 (663)
T COG0556 58 RPTLVLAHNKTLAAQLYSEFKEFFPENAVEY 88 (663)
T ss_pred CCeEEEecchhHHHHHHHHHHHhCcCcceEE
Confidence 6999999976 55799999999995433333
No 145
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=66.54 E-value=21 Score=45.31 Aligned_cols=60 Identities=12% Similarity=0.046 Sum_probs=34.6
Q ss_pred ccceEEeccccccCChH-HHHHHHHHhcccCceEEEeCcCCCCChhhhhccccccCCCCCC
Q 001475 347 FWWRICLDEAQMVESNA-AAATEMALRLYAKHRWCITGTPIQRKLDDLYGLLRFLKSSPFS 406 (1071)
Q Consensus 347 ~w~rVIlDEAH~iKN~~-S~~~kal~~L~a~~Rw~LTGTPiqN~l~DL~~LL~FL~p~~~~ 406 (1071)
.|.++||||+|++.+.. ....+.+..-....+++|+.|=.+.=+.-|.+-...++..++.
T Consensus 119 r~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~KIp~TIrSRCq~f~Fk~Ls 179 (830)
T PRK07003 119 RFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIPVTVLSRCLQFNLKQMP 179 (830)
T ss_pred CceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhhccchhhhheEEEecCCcC
Confidence 57899999999996432 1222222233456788888886554444444444334334433
No 146
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=65.95 E-value=26 Score=40.28 Aligned_cols=120 Identities=19% Similarity=0.167 Sum_probs=69.5
Q ss_pred cEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccch-hhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 249 ATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDI-SELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 249 ~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~-~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
-.||+.|.. +..|-.+.|.---.+-.+++.++.|.... .... .-..+.++||+|-+.+...+....+.
T Consensus 77 FalvlTPTrELA~QiaEQF~alGk~l~lK~~vivGG~d~------i~qa~~L~~rPHvVvatPGRlad~l~sn~~~---- 146 (442)
T KOG0340|consen 77 FALVLTPTRELALQIAEQFIALGKLLNLKVSVIVGGTDM------IMQAAILSDRPHVVVATPGRLADHLSSNLGV---- 146 (442)
T ss_pred eEEEecchHHHHHHHHHHHHHhcccccceEEEEEccHHH------hhhhhhcccCCCeEecCccccccccccCCcc----
Confidence 479999987 55677766655444457888888776432 1122 22346789999998877654321100
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccccCChH-HHHHHHHH-hcccC-ceEEEeCcCCCCChhhh
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA-AAATEMAL-RLYAK-HRWCITGTPIQRKLDDL 393 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~-S~~~kal~-~L~a~-~Rw~LTGTPiqN~l~DL 393 (1071)
....+. +-..+|+|||.++-+.. ....+.+. .++.. -.+++|+| |.+.+.++
T Consensus 147 ------------~~~~~~--rlkflVlDEADrvL~~~f~d~L~~i~e~lP~~RQtLlfSAT-itd~i~ql 201 (442)
T KOG0340|consen 147 ------------CSWIFQ--RLKFLVLDEADRVLAGCFPDILEGIEECLPKPRQTLLFSAT-ITDTIKQL 201 (442)
T ss_pred ------------chhhhh--ceeeEEecchhhhhccchhhHHhhhhccCCCccceEEEEee-hhhHHHHh
Confidence 001121 23568999999987653 22222222 24443 67899998 33334443
No 147
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=65.55 E-value=4.1 Score=39.50 Aligned_cols=35 Identities=23% Similarity=0.272 Sum_probs=26.5
Q ss_pred ceEEeccccccCChHHHHHHHHHhc--ccCceEEEeCcC
Q 001475 349 WRICLDEAQMVESNAAAATEMALRL--YAKHRWCITGTP 385 (1071)
Q Consensus 349 ~rVIlDEAH~iKN~~S~~~kal~~L--~a~~Rw~LTGTP 385 (1071)
..||+||+|.+. +......++.+ .....+++.|||
T Consensus 89 ~~lviDe~~~l~--~~~~l~~l~~l~~~~~~~vvl~G~~ 125 (131)
T PF13401_consen 89 VLLVIDEADHLF--SDEFLEFLRSLLNESNIKVVLVGTP 125 (131)
T ss_dssp EEEEEETTHHHH--THHHHHHHHHHTCSCBEEEEEEESS
T ss_pred eEEEEeChHhcC--CHHHHHHHHHHHhCCCCeEEEEECh
Confidence 689999999994 24455555555 567789999999
No 148
>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=65.34 E-value=37 Score=37.98 Aligned_cols=87 Identities=18% Similarity=0.053 Sum_probs=49.8
Q ss_pred CcEEEEeCchhH----HHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCC
Q 001475 248 GATLIVCPAPIL----AQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRH 323 (1071)
Q Consensus 248 ~~tLIV~P~SLl----~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~ 323 (1071)
+++=||+.+.-+ .+|...+-+++ ++.|-...+.... ......-..||+-+|-..+.-|+-.+.-..
T Consensus 119 ~~V~vvT~NdyLA~RD~~~~~~~y~~L---Glsv~~~~~~~~~-------~~r~~~Y~~dI~Y~t~~~~~fD~Lrd~~~~ 188 (266)
T PF07517_consen 119 KGVHVVTSNDYLAKRDAEEMRPFYEFL---GLSVGIITSDMSS-------EERREAYAADIVYGTNSEFGFDYLRDNLAL 188 (266)
T ss_dssp S-EEEEESSHHHHHHHHHHHHHHHHHT---T--EEEEETTTEH-------HHHHHHHHSSEEEEEHHHHHHHHHHHTT-S
T ss_pred CCcEEEeccHHHhhccHHHHHHHHHHh---hhccccCccccCH-------HHHHHHHhCcccccccchhhHHHHHHHHhh
Confidence 467777777655 37999999998 6888666654221 112234467899888777776542211000
Q ss_pred cchhhhhhhcccCCCccccccccccceEEecccccc
Q 001475 324 EGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMV 359 (1071)
Q Consensus 324 ~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~i 359 (1071)
.+.....-.++.+|+||+..+
T Consensus 189 ---------------~~~~~~~r~~~~~ivDEvDs~ 209 (266)
T PF07517_consen 189 ---------------SKNEQVQRGFDFAIVDEVDSI 209 (266)
T ss_dssp ---------------SGGG--SSSSSEEEECTHHHH
T ss_pred ---------------ccchhccCCCCEEEEeccceE
Confidence 001123356789999998764
No 149
>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=63.87 E-value=6.6 Score=42.10 Aligned_cols=42 Identities=29% Similarity=0.206 Sum_probs=22.6
Q ss_pred ccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCCCCCh
Q 001475 347 FWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQRKL 390 (1071)
Q Consensus 347 ~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPiqN~l 390 (1071)
....||+||||.+.. ...-..+.++....+++++|=|.|.+.
T Consensus 119 ~~~~iIvDEaQN~t~--~~~k~ilTR~g~~skii~~GD~~Q~D~ 160 (205)
T PF02562_consen 119 DNAFIIVDEAQNLTP--EELKMILTRIGEGSKIIITGDPSQIDL 160 (205)
T ss_dssp -SEEEEE-SGGG--H--HHHHHHHTTB-TT-EEEEEE-------
T ss_pred cceEEEEecccCCCH--HHHHHHHcccCCCcEEEEecCceeecC
Confidence 458899999999853 344445667888899999999988654
No 150
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=63.77 E-value=24 Score=45.54 Aligned_cols=87 Identities=16% Similarity=0.164 Sum_probs=52.6
Q ss_pred CcEEEEeCchhH----HHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCC
Q 001475 248 GATLIVCPAPIL----AQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRH 323 (1071)
Q Consensus 248 ~~tLIV~P~SLl----~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~ 323 (1071)
+.+-||.+.--+ ..|...+-+|+ .+.|-+..+.... ......-.+||+-+|-..+.-|+-.+.-.
T Consensus 127 kgVhVVTvNdYLA~RDae~m~~vy~~L---GLtvg~i~~~~~~-------~err~aY~~DItYgTn~e~gFDYLRDnm~- 195 (939)
T PRK12902 127 KGVHVVTVNDYLARRDAEWMGQVHRFL---GLSVGLIQQDMSP-------EERKKNYACDITYATNSELGFDYLRDNMA- 195 (939)
T ss_pred CCeEEEeCCHHHHHhHHHHHHHHHHHh---CCeEEEECCCCCh-------HHHHHhcCCCeEEecCCcccccchhhhhc-
Confidence 467888887644 48999999999 6888776543211 12233446888888766554433211100
Q ss_pred cchhhhhhhcccCCCccccccccccceEEecccccc
Q 001475 324 EGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMV 359 (1071)
Q Consensus 324 ~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~i 359 (1071)
..+.....-.++++|+||+..|
T Consensus 196 --------------~~~~~~vqR~~~faIVDEvDSI 217 (939)
T PRK12902 196 --------------TDISEVVQRPFNYCVIDEVDSI 217 (939)
T ss_pred --------------ccccccccCccceEEEecccce
Confidence 0001233456788999999876
No 151
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=62.51 E-value=28 Score=43.82 Aligned_cols=34 Identities=29% Similarity=0.316 Sum_probs=26.3
Q ss_pred CcEEEEeHHHHHhhcccCCCCCcchhhhhhhcccCCCccccccccccceEEeccccc
Q 001475 302 ADIVLTTYDVLKEDLSHDSDRHEGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQM 358 (1071)
Q Consensus 302 ~dVVItTY~~l~~d~~~~~~~~~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~ 358 (1071)
-.|-.+|-++|.+++.++ +.-..+..||+||||.
T Consensus 350 T~IkFMTDGVLLrEi~~D-----------------------flL~kYSvIIlDEAHE 383 (1172)
T KOG0926|consen 350 TSIKFMTDGVLLREIEND-----------------------FLLTKYSVIILDEAHE 383 (1172)
T ss_pred ceeEEecchHHHHHHHHh-----------------------HhhhhceeEEechhhh
Confidence 348889999999987542 4445678999999996
No 152
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=62.08 E-value=3.7 Score=46.03 Aligned_cols=48 Identities=38% Similarity=0.863 Sum_probs=36.7
Q ss_pred hhhhhhccccccccccccccccccc--cc-ccccccccccCCCCCCccchhhhhhhccccccccccccCCccccchhhhh
Q 001475 161 ERVECICGAVSESRKYKGLWVQCDI--CD-AWQHADCVGYSPRGKKRRSTFELKKHTRKKDMTNIVVRDGEHICQWCDEL 237 (1071)
Q Consensus 161 ~~v~c~c~~~~~~~~~~g~~v~c~~--c~-~w~h~~cv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~c~~~ 237 (1071)
+..-|+|-.++ .|..|.||- |. .|.|..|||....+ -+...|+.|...
T Consensus 218 e~~yC~Cnqvs-----yg~Mi~CDn~~C~~eWFH~~CVGL~~~P------------------------kgkWyC~~C~~~ 268 (274)
T KOG1973|consen 218 EPTYCICNQVS-----YGKMIGCDNPGCPIEWFHFTCVGLKTKP------------------------KGKWYCPRCKAE 268 (274)
T ss_pred CCEEEEecccc-----cccccccCCCCCCcceEEEeccccccCC------------------------CCcccchhhhhh
Confidence 45678888554 367899997 99 89999999987543 345889999753
No 153
>KOG4284 consensus DEAD box protein [Transcription]
Probab=61.27 E-value=31 Score=42.47 Aligned_cols=123 Identities=17% Similarity=0.195 Sum_probs=81.1
Q ss_pred CCCCCCCcEEEEeCchhH-HHHHHHHHHhcCC-CCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccC
Q 001475 242 DSPVATGATLIVCPAPIL-AQWDAEITRHTRP-GSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHD 319 (1071)
Q Consensus 242 ~~~~~~~~tLIV~P~SLl-~qW~~Ei~k~~~~-~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~ 319 (1071)
......--.+||+|.-=+ -|-.+-|.+.++. .+++..+|-|..... .+...+.+..|||-|-+.+..-+..
T Consensus 88 ~~~~~~~q~~Iv~PTREiaVQI~~tv~~v~~sf~g~~csvfIGGT~~~------~d~~rlk~~rIvIGtPGRi~qL~el- 160 (980)
T KOG4284|consen 88 DSRSSHIQKVIVTPTREIAVQIKETVRKVAPSFTGARCSVFIGGTAHK------LDLIRLKQTRIVIGTPGRIAQLVEL- 160 (980)
T ss_pred CcccCcceeEEEecchhhhhHHHHHHHHhcccccCcceEEEecCchhh------hhhhhhhhceEEecCchHHHHHHHh-
Confidence 333444568999999844 5777777766621 368899999875432 2445667777999999888765432
Q ss_pred CCCCcchhhhhhhcccCCCccccccccccceEEeccccccCChHH---HHHHHHHhccc-CceEEEeCcCCCCChhhh
Q 001475 320 SDRHEGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAA---AATEMALRLYA-KHRWCITGTPIQRKLDDL 393 (1071)
Q Consensus 320 ~~~~~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S---~~~kal~~L~a-~~Rw~LTGTPiqN~l~DL 393 (1071)
..+.--+.++.|||||..+-...| .....+..|+. +..+++|+|=-+| |+++
T Consensus 161 ---------------------~~~n~s~vrlfVLDEADkL~~t~sfq~~In~ii~slP~~rQv~a~SATYp~n-Ldn~ 216 (980)
T KOG4284|consen 161 ---------------------GAMNMSHVRLFVLDEADKLMDTESFQDDINIIINSLPQIRQVAAFSATYPRN-LDNL 216 (980)
T ss_pred ---------------------cCCCccceeEEEeccHHhhhchhhHHHHHHHHHHhcchhheeeEEeccCchh-HHHH
Confidence 123344567899999999865443 34555666754 5667899995554 4444
No 154
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=59.61 E-value=56 Score=42.23 Aligned_cols=40 Identities=15% Similarity=0.092 Sum_probs=29.7
Q ss_pred ccccccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCCC
Q 001475 343 LTRIFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQ 387 (1071)
Q Consensus 343 L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPiq 387 (1071)
+..-.||++|+|||-.|--|- .+.-|.-..+++|-|-+.|
T Consensus 792 f~~R~FD~cIiDEASQI~lP~-----~LgPL~~s~kFVLVGDh~Q 831 (1100)
T KOG1805|consen 792 FVNRQFDYCIIDEASQILLPL-----CLGPLSFSNKFVLVGDHYQ 831 (1100)
T ss_pred hhccccCEEEEccccccccch-----hhhhhhhcceEEEeccccc
Confidence 555679999999998885543 3445667788899887655
No 155
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=59.27 E-value=93 Score=39.78 Aligned_cols=107 Identities=14% Similarity=0.073 Sum_probs=65.6
Q ss_pred CcEEEEeCc-hhHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcch
Q 001475 248 GATLIVCPA-PILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 248 ~~tLIV~P~-SLl~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~ 326 (1071)
+.+||++|. ++..|-.+.|+..+ + .++.++|+.=..+.... .......++..|||=|-+.+-.-
T Consensus 246 kqvLvLVPEI~Ltpq~~~rf~~rF--g-~~v~vlHS~Ls~~er~~-~W~~~~~G~~~vVIGtRSAlF~P----------- 310 (730)
T COG1198 246 KQVLVLVPEIALTPQLLARFKARF--G-AKVAVLHSGLSPGERYR-VWRRARRGEARVVIGTRSALFLP----------- 310 (730)
T ss_pred CEEEEEeccccchHHHHHHHHHHh--C-CChhhhcccCChHHHHH-HHHHHhcCCceEEEEechhhcCc-----------
Confidence 579999996 58899999999998 3 88888887632211000 11112235677898777665442
Q ss_pred hhhhhhcccCCCccccccccccceEEeccccc--cCChHHHHHH-----HHH-hcccCceEEEeCcCCC
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQM--VESNAAAATE-----MAL-RLYAKHRWCITGTPIQ 387 (1071)
Q Consensus 327 ~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~--iKN~~S~~~k-----al~-~L~a~~Rw~LTGTPiq 387 (1071)
|. +-..||+||=|- .|..+..++. ..+ ....--.++-|+||--
T Consensus 311 ----------------f~--~LGLIIvDEEHD~sYKq~~~prYhARdvA~~Ra~~~~~pvvLgSATPSL 361 (730)
T COG1198 311 ----------------FK--NLGLIIVDEEHDSSYKQEDGPRYHARDVAVLRAKKENAPVVLGSATPSL 361 (730)
T ss_pred ----------------hh--hccEEEEeccccccccCCcCCCcCHHHHHHHHHHHhCCCEEEecCCCCH
Confidence 22 246899999995 4544422221 111 2334456778999953
No 156
>PRK10536 hypothetical protein; Provisional
Probab=58.07 E-value=9.2 Score=42.41 Aligned_cols=41 Identities=29% Similarity=0.187 Sum_probs=33.3
Q ss_pred cceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCCCCCh
Q 001475 348 WWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQRKL 390 (1071)
Q Consensus 348 w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPiqN~l 390 (1071)
-..||+||||++.- ......+.++....+++++|-|-|.++
T Consensus 177 ~~~vIvDEaqn~~~--~~~k~~ltR~g~~sk~v~~GD~~QiD~ 217 (262)
T PRK10536 177 NAVVILDEAQNVTA--AQMKMFLTRLGENVTVIVNGDITQCDL 217 (262)
T ss_pred CCEEEEechhcCCH--HHHHHHHhhcCCCCEEEEeCChhhccC
Confidence 37899999999964 455566778899999999999988654
No 157
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=57.80 E-value=8.8 Score=45.19 Aligned_cols=77 Identities=22% Similarity=0.462 Sum_probs=43.7
Q ss_pred hhhcccccccccccccccccccccccccccccccCCCCCCccchhhhhhhccccccccccccCCccccchhhhhhhccCC
Q 001475 164 ECICGAVSESRKYKGLWVQCDICDAWQHADCVGYSPRGKKRRSTFELKKHTRKKDMTNIVVRDGEHICQWCDELIEATDS 243 (1071)
Q Consensus 164 ~c~c~~~~~~~~~~g~~v~c~~c~~w~h~~cv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~c~~~~~~~~~ 243 (1071)
.|+|..-+. ..-.-.|+.|+.|+-|-|.+|---...... ....+..+...+..|.|..|..
T Consensus 131 C~iC~kfD~-~~n~~~Wi~Cd~CgH~cH~dCALr~~~i~~-----------G~s~~g~~g~~d~~f~C~~C~~------- 191 (446)
T PF07227_consen 131 CCICSKFDD-NKNTCSWIGCDVCGHWCHLDCALRHELIGT-----------GPSVKGSIGTLDMQFHCRACGK------- 191 (446)
T ss_pred ccccCCccc-CCCCeeEEeccCCCceehhhhhcccccccC-----------CccCCCCCccCceEEEccCCCC-------
Confidence 345655322 222347999999999999999532211000 0000111112477899999975
Q ss_pred CCCCCcEEEEeCchhHHHHHHHHHHhc
Q 001475 244 PVATGATLIVCPAPILAQWDAEITRHT 270 (1071)
Q Consensus 244 ~~~~~~tLIV~P~SLl~qW~~Ei~k~~ 270 (1071)
++-++..|.+-|....
T Consensus 192 -----------~seLlG~vk~vf~~ca 207 (446)
T PF07227_consen 192 -----------TSELLGFVKKVFQTCA 207 (446)
T ss_pred -----------hhhHHHHHHHHHHHHH
Confidence 2456777777776554
No 158
>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=57.57 E-value=33 Score=38.00 Aligned_cols=20 Identities=25% Similarity=0.082 Sum_probs=15.5
Q ss_pred CceeecCCCCCHHHHHHHHH
Q 001475 108 GGILADEMGLGKTVELLACI 127 (1071)
Q Consensus 108 GGILADEMGLGKTvq~LalI 127 (1071)
.-||.=.+|.|||..+-++.
T Consensus 44 ~vll~GppGtGKTtlA~~ia 63 (261)
T TIGR02881 44 HMIFKGNPGTGKTTVARILG 63 (261)
T ss_pred eEEEEcCCCCCHHHHHHHHH
Confidence 34678889999999886654
No 159
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=57.08 E-value=53 Score=41.38 Aligned_cols=60 Identities=12% Similarity=0.059 Sum_probs=31.0
Q ss_pred ccceEEeccccccCChH-HHHHHHHHhcccCceEEEeCcCCCCChhhhhccccccCCCCCC
Q 001475 347 FWWRICLDEAQMVESNA-AAATEMALRLYAKHRWCITGTPIQRKLDDLYGLLRFLKSSPFS 406 (1071)
Q Consensus 347 ~w~rVIlDEAH~iKN~~-S~~~kal~~L~a~~Rw~LTGTPiqN~l~DL~~LL~FL~p~~~~ 406 (1071)
.+.++|+||+|++-... ....+.+..-....+++++.|=...-+.-+.+-...+...++.
T Consensus 118 k~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~~kIp~TIlSRCq~feFkpLs 178 (702)
T PRK14960 118 RFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKLPITVISRCLQFTLRPLA 178 (702)
T ss_pred CcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECChHhhhHHHHHhhheeeccCCC
Confidence 46789999999995321 1222233333345578887764333333333333333333333
No 160
>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=56.42 E-value=6.2 Score=50.44 Aligned_cols=64 Identities=22% Similarity=0.220 Sum_probs=40.2
Q ss_pred HHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcchhhhhhhcccCCCcccc
Q 001475 263 DAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGDRRFMRFQKRYPVIPTL 342 (1071)
Q Consensus 263 ~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~~~~~r~~kr~~~~~s~ 342 (1071)
.+|+.++. ....++.|...+ .....+||||.+|..+-..... . ..
T Consensus 171 iEdL~~~g--~~~~~CPY~~sr------------~~~~~advIi~pYnyl~dp~~r---------~------------~~ 215 (705)
T TIGR00604 171 IEDLVEYG--ELLGLCPYFATR------------KMLPFANIVLLPYQYLLDPKIR---------S------------AV 215 (705)
T ss_pred HHHHHHhc--ccCCCCccHHHH------------HhhhcCCEEEechHHhcCHHHH---------H------------Hh
Confidence 35566655 345666666553 4457899999999988643210 0 01
Q ss_pred ccccccceEEeccccccCC
Q 001475 343 LTRIFWWRICLDEAQMVES 361 (1071)
Q Consensus 343 L~~i~w~rVIlDEAH~iKN 361 (1071)
-..+.-..||+||||+|-+
T Consensus 216 ~~~l~~~ivI~DEAHNL~d 234 (705)
T TIGR00604 216 SIELKDSIVIFDEAHNLDN 234 (705)
T ss_pred hcccccCEEEEECccchHH
Confidence 1123347899999999964
No 161
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=56.22 E-value=7.8 Score=51.06 Aligned_cols=43 Identities=33% Similarity=0.407 Sum_probs=31.1
Q ss_pred hhhcCCcEEEEeHHHHHhhcccCCCCCcchhhhhhhcccCCCccccccccccceEEeccccccCC
Q 001475 297 SELVGADIVLTTYDVLKEDLSHDSDRHEGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVES 361 (1071)
Q Consensus 297 ~~l~~~dVVItTY~~l~~d~~~~~~~~~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN 361 (1071)
.....+|||||++..|..++.... ..|. .++.+|+||||++..
T Consensus 427 ~~a~~AdivItNHalLl~dl~~~~--------------------~ilp--~~~~lViDEAH~l~d 469 (928)
T PRK08074 427 NRAKFADLVITNHALLLTDLTSEE--------------------PLLP--SYEHIIIDEAHHFEE 469 (928)
T ss_pred HHHhcCCEEEECHHHHHHHHhhhc--------------------ccCC--CCCeEEEECCchHHH
Confidence 345789999999999998863100 1121 368999999999964
No 162
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=55.00 E-value=5.6 Score=43.19 Aligned_cols=48 Identities=38% Similarity=0.864 Sum_probs=37.3
Q ss_pred hhhhhhhccccccccccccccccccc--ccc-cccccccccCCCCCCccchhhhhhhccccccccccccCCccccchhhh
Q 001475 160 RERVECICGAVSESRKYKGLWVQCDI--CDA-WQHADCVGYSPRGKKRRSTFELKKHTRKKDMTNIVVRDGEHICQWCDE 236 (1071)
Q Consensus 160 ~~~v~c~c~~~~~~~~~~g~~v~c~~--c~~-w~h~~cv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~c~~ 236 (1071)
.+.+.|.|..++. |.-|.||. |.. |.|-.|||....+ .+...|+.|..
T Consensus 219 ~e~lYCfCqqvSy-----GqMVaCDn~nCkrEWFH~~CVGLk~pP------------------------KG~WYC~eCk~ 269 (271)
T COG5034 219 GEELYCFCQQVSY-----GQMVACDNANCKREWFHLECVGLKEPP------------------------KGKWYCPECKK 269 (271)
T ss_pred CceeEEEeccccc-----ccceecCCCCCchhheeccccccCCCC------------------------CCcEeCHHhHh
Confidence 3678899998875 67899985 655 9999999986533 45688999964
No 163
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=52.76 E-value=9.2 Score=49.62 Aligned_cols=40 Identities=18% Similarity=0.121 Sum_probs=29.7
Q ss_pred hhcCCcEEEEeHHHHHhhcccCCCCCcchhhhhhhcccCCCccccccccccceEEeccccccC
Q 001475 298 ELVGADIVLTTYDVLKEDLSHDSDRHEGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVE 360 (1071)
Q Consensus 298 ~l~~~dVVItTY~~l~~d~~~~~~~~~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iK 360 (1071)
....+|||||++..|..+.... ..+ -.++.||+||||.+.
T Consensus 410 ~a~~AdivItNHall~~~~~~~---------------------~~~--p~~~~lIiDEAH~l~ 449 (820)
T PRK07246 410 KAKTARLLITNHAYFLTRVQDD---------------------KDF--ARNKVLVFDEAQKLM 449 (820)
T ss_pred HHHhCCEEEEchHHHHHHHhhc---------------------cCC--CCCCEEEEECcchhH
Confidence 3567999999999998875210 001 147899999999996
No 164
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=52.20 E-value=35 Score=43.92 Aligned_cols=87 Identities=18% Similarity=0.134 Sum_probs=50.4
Q ss_pred CcEEEEeCchhH----HHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCC
Q 001475 248 GATLIVCPAPIL----AQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRH 323 (1071)
Q Consensus 248 ~~tLIV~P~SLl----~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~ 323 (1071)
+++-||+|..-+ ..|...+-+|+ .+.|-+..+.... ......-.+||+-+|-..+.-|+-.+.-..
T Consensus 118 ~~VhVvT~NdyLA~RD~e~m~pvy~~L---GLsvg~i~~~~~~-------~err~aY~~DItYgTn~e~gFDyLRDnm~~ 187 (870)
T CHL00122 118 KGVHIVTVNDYLAKRDQEWMGQIYRFL---GLTVGLIQEGMSS-------EERKKNYLKDITYVTNSELGFDYLRDNMAL 187 (870)
T ss_pred CceEEEeCCHHHHHHHHHHHHHHHHHc---CCceeeeCCCCCh-------HHHHHhcCCCCEecCCccccccchhhccCc
Confidence 568888887654 47999999999 5888766553221 111223346777666544443332111000
Q ss_pred cchhhhhhhcccCCCccccccccccceEEecccccc
Q 001475 324 EGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMV 359 (1071)
Q Consensus 324 ~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~i 359 (1071)
.+.....-.++++|+||+..+
T Consensus 188 ---------------~~~~~v~r~~~faIVDEvDSi 208 (870)
T CHL00122 188 ---------------SLSDVVQRPFNYCIIDEVDSI 208 (870)
T ss_pred ---------------ChHHhhccccceeeeecchhh
Confidence 001223446789999999876
No 165
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=52.14 E-value=57 Score=39.80 Aligned_cols=20 Identities=25% Similarity=0.204 Sum_probs=15.0
Q ss_pred CceeecCCCCCHHHHHHHHH
Q 001475 108 GGILADEMGLGKTVELLACI 127 (1071)
Q Consensus 108 GGILADEMGLGKTvq~LalI 127 (1071)
.=||.-..|.|||-.+..+.
T Consensus 37 a~Lf~Gp~G~GKTT~ArilA 56 (491)
T PRK14964 37 SILLVGASGVGKTTCARIIS 56 (491)
T ss_pred eEEEECCCCccHHHHHHHHH
Confidence 34677788999999776654
No 166
>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=51.66 E-value=82 Score=34.44 Aligned_cols=65 Identities=15% Similarity=0.225 Sum_probs=36.7
Q ss_pred cEEEEeCchhHHHHHHHHHHhcCCCC--CeEEEEeCCCCCccccccccch-----hhhcCCcEEEEeHHHHHh
Q 001475 249 ATLIVCPAPILAQWDAEITRHTRPGS--LKTCIYEGARNSSLSDTSIMDI-----SELVGADIVLTTYDVLKE 314 (1071)
Q Consensus 249 ~tLIV~P~SLl~qW~~Ei~k~~~~~~--l~v~vy~G~~~~~~~~~~~~~~-----~~l~~~dVVItTY~~l~~ 314 (1071)
=+-+|||.+++.|=.+-+...+. +- -+++.+.-++............ .-.....|++++-+.+.+
T Consensus 72 LvrviVpk~Ll~q~~~~L~~~lg-~l~~r~i~~lpFsR~~~~~~~~~~~~~~l~~~~~~~~gill~~PEhilS 143 (229)
T PF12340_consen 72 LVRVIVPKALLEQMRQMLRSRLG-GLLNRRIYHLPFSRSTPLTPETLEKIRQLLEECMRSGGILLATPEHILS 143 (229)
T ss_pred EEEEEcCHHHHHHHHHHHHHHHH-HHhCCeeEEecccCCCCCCHHHHHHHHHHHHHHHHcCCEEEeChHHHHH
Confidence 36788999999998888877762 22 2344444443332211100000 112466799998887654
No 167
>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]
Probab=51.04 E-value=28 Score=43.62 Aligned_cols=68 Identities=16% Similarity=0.267 Sum_probs=44.5
Q ss_pred hhHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcchhhhhhhcccC
Q 001475 257 PILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGDRRFMRFQKRY 336 (1071)
Q Consensus 257 SLl~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~~~~~r~~kr~ 336 (1071)
+|-.|=.+|+..-+ + .|-...|.- .-..++.-+|+|-+.|++.+...+
T Consensus 183 ALSNQKYREl~~EF--~--DVGLMTGDV------------TInP~ASCLVMTTEILRsMLYRGS---------------- 230 (1041)
T KOG0948|consen 183 ALSNQKYRELLEEF--K--DVGLMTGDV------------TINPDASCLVMTTEILRSMLYRGS---------------- 230 (1041)
T ss_pred hhcchhHHHHHHHh--c--ccceeecce------------eeCCCCceeeeHHHHHHHHHhccc----------------
Confidence 34457778877666 2 334444541 222456688999999999875422
Q ss_pred CCccccccccccceEEeccccccCCh
Q 001475 337 PVIPTLLTRIFWWRICLDEAQMVESN 362 (1071)
Q Consensus 337 ~~~~s~L~~i~w~rVIlDEAH~iKN~ 362 (1071)
..+..+.| ||+||.|+++..
T Consensus 231 ----EvmrEVaW--VIFDEIHYMRDk 250 (1041)
T KOG0948|consen 231 ----EVMREVAW--VIFDEIHYMRDK 250 (1041)
T ss_pred ----hHhheeee--EEeeeehhcccc
Confidence 23566666 899999999864
No 168
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=50.73 E-value=47 Score=43.17 Aligned_cols=38 Identities=18% Similarity=0.171 Sum_probs=22.0
Q ss_pred ccceEEeccccccCChHH-HHHHHHHhcccCceEEEeCc
Q 001475 347 FWWRICLDEAQMVESNAA-AATEMALRLYAKHRWCITGT 384 (1071)
Q Consensus 347 ~w~rVIlDEAH~iKN~~S-~~~kal~~L~a~~Rw~LTGT 384 (1071)
.|.++||||+|++-.... .+.+.+........++|+.|
T Consensus 120 ~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt 158 (824)
T PRK07764 120 RYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATT 158 (824)
T ss_pred CceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeC
Confidence 588999999999953221 12223333345556666543
No 169
>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=49.24 E-value=14 Score=32.29 Aligned_cols=17 Identities=6% Similarity=-0.228 Sum_probs=16.1
Q ss_pred cCCchhhhhhh-hhhhcC
Q 001475 628 EILPMVANCAT-ELSQNE 644 (1071)
Q Consensus 628 ~wnp~~~~QA~-R~hRiG 644 (1071)
.||+....|+. ||+|+|
T Consensus 61 ~~~~~~~~Q~~GR~~R~g 78 (78)
T PF00271_consen 61 PWSPEEYIQRIGRAGRIG 78 (78)
T ss_dssp ESSHHHHHHHHTTSSTTT
T ss_pred CCCHHHHHHHhhcCCCCC
Confidence 59999999999 999998
No 170
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=47.70 E-value=94 Score=38.19 Aligned_cols=38 Identities=13% Similarity=0.134 Sum_probs=22.1
Q ss_pred ccceEEeccccccCChH-HHHHHHHHhcccCceEEEeCc
Q 001475 347 FWWRICLDEAQMVESNA-AAATEMALRLYAKHRWCITGT 384 (1071)
Q Consensus 347 ~w~rVIlDEAH~iKN~~-S~~~kal~~L~a~~Rw~LTGT 384 (1071)
.|.++|+||+|++-... ....+.+..-....++++..|
T Consensus 119 ~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fIlatt 157 (509)
T PRK14958 119 RFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILATT 157 (509)
T ss_pred CcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEEEEEC
Confidence 57899999999995322 112222222334556666555
No 171
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=44.99 E-value=68 Score=40.05 Aligned_cols=20 Identities=25% Similarity=0.268 Sum_probs=15.6
Q ss_pred eeecCCCCCHHHHHHHHHHH
Q 001475 110 ILADEMGLGKTVELLACIFA 129 (1071)
Q Consensus 110 ILADEMGLGKTvq~LalIl~ 129 (1071)
||.=..|.|||-.+.++.-+
T Consensus 42 Lf~Gp~G~GKtt~A~~lak~ 61 (576)
T PRK14965 42 LFTGARGVGKTSTARILAKA 61 (576)
T ss_pred EEECCCCCCHHHHHHHHHHh
Confidence 55567899999998887644
No 172
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=43.14 E-value=37 Score=39.90 Aligned_cols=105 Identities=21% Similarity=0.159 Sum_probs=65.8
Q ss_pred CcEEEEeCch-hHHHH---HHHHHHhcCCCCCeEE-EEeCCCCCccccccccchhhh-cCCcEEEEeHHHHHhhcccCCC
Q 001475 248 GATLIVCPAP-ILAQW---DAEITRHTRPGSLKTC-IYEGARNSSLSDTSIMDISEL-VGADIVLTTYDVLKEDLSHDSD 321 (1071)
Q Consensus 248 ~~tLIV~P~S-Ll~qW---~~Ei~k~~~~~~l~v~-vy~G~~~~~~~~~~~~~~~~l-~~~dVVItTY~~l~~d~~~~~~ 321 (1071)
-+.||+.|+. |..|= ..++.+++ .++.. .|+|.+.+. ....+ .+.||||.|-..+..-...
T Consensus 91 ~RalilsptreLa~qtlkvvkdlgrgt---~lr~s~~~ggD~~ee-------qf~~l~~npDii~ATpgr~~h~~ve--- 157 (529)
T KOG0337|consen 91 LRALILSPTRELALQTLKVVKDLGRGT---KLRQSLLVGGDSIEE-------QFILLNENPDIIIATPGRLLHLGVE--- 157 (529)
T ss_pred cceeeccCcHHHHHHHHHHHHHhcccc---chhhhhhcccchHHH-------HHHHhccCCCEEEecCceeeeeehh---
Confidence 3789999987 44454 45555555 57765 566654321 22233 3789999887765432110
Q ss_pred CCcchhhhhhhcccCCCccccccccccceEEeccccccCC--hHHHHHHHHHhccc-CceEEEeCc
Q 001475 322 RHEGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVES--NAAAATEMALRLYA-KHRWCITGT 384 (1071)
Q Consensus 322 ~~~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN--~~S~~~kal~~L~a-~~Rw~LTGT 384 (1071)
-.|.--.-.+||+|||.+|-. ..-+..+.+.+++. ...+++|||
T Consensus 158 -------------------m~l~l~sveyVVfdEadrlfemgfqeql~e~l~rl~~~~QTllfSat 204 (529)
T KOG0337|consen 158 -------------------MTLTLSSVEYVVFDEADRLFEMGFQEQLHEILSRLPESRQTLLFSAT 204 (529)
T ss_pred -------------------eeccccceeeeeehhhhHHHhhhhHHHHHHHHHhCCCcceEEEEecc
Confidence 012233456899999999743 34667778888864 467889999
No 173
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=42.21 E-value=1.2e+02 Score=37.29 Aligned_cols=23 Identities=30% Similarity=0.211 Sum_probs=18.4
Q ss_pred cCceeecCCCCCHHHHHHHHHHH
Q 001475 107 FGGILADEMGLGKTVELLACIFA 129 (1071)
Q Consensus 107 rGGILADEMGLGKTvq~LalIl~ 129 (1071)
++.||.-..|.|||-.+-.+.-.
T Consensus 44 ~a~Lf~Gp~G~GKTT~ArilAk~ 66 (507)
T PRK06645 44 GGYLLTGIRGVGKTTSARIIAKA 66 (507)
T ss_pred ceEEEECCCCCCHHHHHHHHHHH
Confidence 36688899999999988777643
No 174
>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]
Probab=41.62 E-value=48 Score=42.83 Aligned_cols=77 Identities=14% Similarity=0.064 Sum_probs=49.1
Q ss_pred CCcEEEEeHHHHHhhcccCCCCCcchhhhhhhcccCCCccccccccccceEEeccccccCChH-HHHHHHHHhcccCceE
Q 001475 301 GADIVLTTYDVLKEDLSHDSDRHEGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA-AAATEMALRLYAKHRW 379 (1071)
Q Consensus 301 ~~dVVItTY~~l~~d~~~~~~~~~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~-S~~~kal~~L~a~~Rw 379 (1071)
.+.|.||--+.+..-+-..+. ..-..-+..+||+||.|.|.|.. +.....+..+-..--+
T Consensus 605 nCQVLITvPecleslLlspp~-------------------~q~~cerIRyiIfDEVH~iG~~ed~l~~Eqll~li~CP~L 665 (1330)
T KOG0949|consen 605 NCQVLITVPECLESLLLSPPH-------------------HQKFCERIRYIIFDEVHLIGNEEDGLLWEQLLLLIPCPFL 665 (1330)
T ss_pred hceEEEEchHHHHHHhcCchh-------------------hhhhhhcceEEEechhhhccccccchHHHHHHHhcCCCee
Confidence 466888887777665432000 00111235789999999999876 5566666666666778
Q ss_pred EEeCcCCCCChhhhhcccc
Q 001475 380 CITGTPIQRKLDDLYGLLR 398 (1071)
Q Consensus 380 ~LTGTPiqN~l~DL~~LL~ 398 (1071)
+|++| ++++..++..++
T Consensus 666 ~LSAT--igN~~l~qkWln 682 (1330)
T KOG0949|consen 666 VLSAT--IGNPNLFQKWLN 682 (1330)
T ss_pred EEecc--cCCHHHHHHHHH
Confidence 99999 455665555444
No 175
>TIGR00269 conserved hypothetical protein TIGR00269.
Probab=41.30 E-value=45 Score=31.66 Aligned_cols=62 Identities=21% Similarity=0.408 Sum_probs=39.4
Q ss_pred chhHHHHHhHHHHHHHH----HHHHHHHHHHHHhhhcCCChHhhhhccccccccCCCCCCcccccccc
Q 001475 812 SGLTYHIQSSLDQLEAS----RKTLLDRLLEIDQTMEKPKEEDMDRMRHCRICYGVGDGPICVHCELD 875 (1071)
Q Consensus 812 ~gL~~~l~~~l~~L~~~----R~~~~~~l~~l~~~~~~p~~~~ve~~~~C~~c~~~~~~~~C~~C~~~ 875 (1071)
.+..-.+..+|++|++. +.+++.++..+....... ... .....|..|-....|.+|.+|.+.
T Consensus 36 ~a~R~~~k~~L~~LE~~~P~~k~~i~~s~~~~~~~~~~~-~~~-~~~~~C~~CG~pss~~iC~~C~l~ 101 (104)
T TIGR00269 36 LSVRARIRDFLYDLENKKPGVKFSVLRGFEKLIPLLKEL-SEQ-EDLRRCERCGEPTSGRICKACKFL 101 (104)
T ss_pred CCchHHHHHHHHHHHHHCcChHHHHHHHHHHHHHHhhcc-ccc-ccCCcCCcCcCcCCccccHhhhhh
Confidence 34455677777777764 455566665555432210 011 125679999888889999999875
No 176
>PF13173 AAA_14: AAA domain
Probab=40.53 E-value=30 Score=33.72 Aligned_cols=39 Identities=18% Similarity=0.116 Sum_probs=25.4
Q ss_pred cceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCCC
Q 001475 348 WWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQ 387 (1071)
Q Consensus 348 w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPiq 387 (1071)
-.+|++||+|.+.+..... +.+..-....++++||.-..
T Consensus 62 ~~~i~iDEiq~~~~~~~~l-k~l~d~~~~~~ii~tgS~~~ 100 (128)
T PF13173_consen 62 KKYIFIDEIQYLPDWEDAL-KFLVDNGPNIKIILTGSSSS 100 (128)
T ss_pred CcEEEEehhhhhccHHHHH-HHHHHhccCceEEEEccchH
Confidence 4569999999998654332 22222224579999998543
No 177
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=38.68 E-value=96 Score=38.59 Aligned_cols=20 Identities=25% Similarity=0.232 Sum_probs=15.2
Q ss_pred eeecCCCCCHHHHHHHHHHH
Q 001475 110 ILADEMGLGKTVELLACIFA 129 (1071)
Q Consensus 110 ILADEMGLGKTvq~LalIl~ 129 (1071)
|++=..|.|||..+-.+.-+
T Consensus 42 Lf~Gp~GtGKTt~Ak~lAka 61 (559)
T PRK05563 42 LFSGPRGTGKTSAAKIFAKA 61 (559)
T ss_pred EEECCCCCCHHHHHHHHHHH
Confidence 55667899999988776543
No 178
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=38.36 E-value=51 Score=36.15 Aligned_cols=62 Identities=21% Similarity=0.231 Sum_probs=40.8
Q ss_pred cEEEEeCch-hHHHHHHHHHHhcC-CCCCeEEEEeCCCCCccccccccchhhhc-CCcEEEEeHHHHHhhc
Q 001475 249 ATLIVCPAP-ILAQWDAEITRHTR-PGSLKTCIYEGARNSSLSDTSIMDISELV-GADIVLTTYDVLKEDL 316 (1071)
Q Consensus 249 ~tLIV~P~S-Ll~qW~~Ei~k~~~-~~~l~v~vy~G~~~~~~~~~~~~~~~~l~-~~dVVItTY~~l~~d~ 316 (1071)
.+||+|-+. |..|-.+|..+|.. -|+.+|.+|.|.-... .+.+.+. ...||+-|-..+..-.
T Consensus 112 svlvmchtrelafqi~~ey~rfskymP~vkvaVFfGG~~Ik------kdee~lk~~PhivVgTPGrilALv 176 (387)
T KOG0329|consen 112 SVLVMCHTRELAFQISKEYERFSKYMPSVKVSVFFGGLFIK------KDEELLKNCPHIVVGTPGRILALV 176 (387)
T ss_pred EEEEEeccHHHHHHHHHHHHHHHhhCCCceEEEEEcceecc------ccHHHHhCCCeEEEcCcHHHHHHH
Confidence 578888776 56799999877754 2789999988863321 1222222 3558888877765543
No 179
>PF07496 zf-CW: CW-type Zinc Finger; InterPro: IPR011124 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a CW-type zinc finger motif, named for its conserved cysteine and tryptophan residues. It is predicted to be a highly specialised mononuclear four-cysteine (C4) zinc finger that plays a role in DNA binding and/or promoting protein-protein interactions in complicated eukaryotic processes including chromatin methylation status and early embryonic development. Weak homology to members of IPR001965 from INTERPRO further evidences these predictions. The domain is found exclusively in vertebrates, vertebrate-infecting parasites and higher plants []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2RR4_A 2E61_A 2L7P_A.
Probab=37.32 E-value=11 Score=30.85 Aligned_cols=15 Identities=47% Similarity=1.247 Sum_probs=9.8
Q ss_pred ccccccccccccccc
Q 001475 179 LWVQCDICDAWQHAD 193 (1071)
Q Consensus 179 ~~v~c~~c~~w~h~~ 193 (1071)
.||||+.|..|+...
T Consensus 2 ~WVQCd~C~KWR~lp 16 (50)
T PF07496_consen 2 YWVQCDSCLKWRRLP 16 (50)
T ss_dssp EEEE-TTT--EEEE-
T ss_pred eEEECCCCCceeeCC
Confidence 499999999999864
No 180
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=37.13 E-value=86 Score=41.13 Aligned_cols=109 Identities=16% Similarity=0.160 Sum_probs=59.7
Q ss_pred cEEEEeCc-hhH---HHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCc
Q 001475 249 ATLIVCPA-PIL---AQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHE 324 (1071)
Q Consensus 249 ~tLIV~P~-SLl---~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~ 324 (1071)
++=||... .|. ..|+.-+-+|. +|.|-+....... ......-.+||+-.|-..+.-|+-.+.-
T Consensus 181 gVHvVTvNDYLA~RDaewm~p~y~fl---GLtVg~i~~~~~~-------~~Rr~aY~~DItYgTn~EfGFDYLRDnm--- 247 (1025)
T PRK12900 181 GVHVVTVNDYLAQRDKEWMNPVFEFH---GLSVGVILNTMRP-------EERREQYLCDITYGTNNEFGFDYLRDNM--- 247 (1025)
T ss_pred CcEEEeechHhhhhhHHHHHHHHHHh---CCeeeeeCCCCCH-------HHHHHhCCCcceecCCCccccccchhcc---
Confidence 34444443 343 48999999999 5888655332111 0122334577776665544444322110
Q ss_pred chhhhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCCCCChhhhh
Q 001475 325 GDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQRKLDDLY 394 (1071)
Q Consensus 325 ~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPiqN~l~DL~ 394 (1071)
...+..+.+-.+.+.||||+..|-= =.|+.-+++|| |+.+...++|
T Consensus 248 ------------a~~~~~~vqR~~~faIVDEvDSvLI-----------DeARTPLIISg-p~~~~~~~~y 293 (1025)
T PRK12900 248 ------------AGTPEEMVQRDFYFAIVDEVDSVLI-----------DEARTPLIISG-PVPNADNSKF 293 (1025)
T ss_pred ------------ccchhhhhccCCceEEEechhhhhh-----------ccccCceEEeC-CCCCcchHHH
Confidence 0112335566789999999987621 13556688998 4444433333
No 181
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=36.79 E-value=18 Score=44.81 Aligned_cols=56 Identities=21% Similarity=0.310 Sum_probs=37.8
Q ss_pred CCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcchhhhhhhcccCCCccccccccccceEEe
Q 001475 274 SLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGDRRFMRFQKRYPVIPTLLTRIFWWRICL 353 (1071)
Q Consensus 274 ~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~~~~~r~~kr~~~~~s~L~~i~w~rVIl 353 (1071)
.++.+.|+|+++ ....+++|+-.|..|..+...- +.=..+.=.+||+
T Consensus 308 ~~~~CPYY~SR~------------avp~aqlV~LPYQ~LL~~stR~---------------------slgI~LkdsIvIi 354 (821)
T KOG1133|consen 308 ELRGCPYYASRR------------AVPQAQLVTLPYQLLLHESTRK---------------------SLGISLKDSIVII 354 (821)
T ss_pred hcCCCCchhhhh------------ccccccEEeccHHHHHhHHHHH---------------------hcCccccccEEEE
Confidence 467777887743 3467899999999998764210 1112234468999
Q ss_pred ccccccCCh
Q 001475 354 DEAQMVESN 362 (1071)
Q Consensus 354 DEAH~iKN~ 362 (1071)
||||.+-+.
T Consensus 355 DEAHNlidt 363 (821)
T KOG1133|consen 355 DEAHNLIDT 363 (821)
T ss_pred echhHHHHH
Confidence 999998553
No 182
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=36.60 E-value=64 Score=40.94 Aligned_cols=31 Identities=16% Similarity=0.103 Sum_probs=24.2
Q ss_pred CcEEEEeCchh-HHHHHHHHHHhcCCCCCeEEEE
Q 001475 248 GATLIVCPAPI-LAQWDAEITRHTRPGSLKTCIY 280 (1071)
Q Consensus 248 ~~tLIV~P~SL-l~qW~~Ei~k~~~~~~l~v~vy 280 (1071)
+|+|||+|.-. ..||.+|++.|+ |.-.|..|
T Consensus 55 ~p~Lvi~~n~~~A~ql~~el~~f~--p~~~V~~f 86 (655)
T TIGR00631 55 RPTLVIAHNKTLAAQLYNEFKEFF--PENAVEYF 86 (655)
T ss_pred CCEEEEECCHHHHHHHHHHHHHhC--CCCeEEEE
Confidence 58999999874 579999999999 44445544
No 183
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=36.57 E-value=79 Score=37.50 Aligned_cols=22 Identities=23% Similarity=0.233 Sum_probs=17.4
Q ss_pred CceeecCCCCCHHHHHHHHHHH
Q 001475 108 GGILADEMGLGKTVELLACIFA 129 (1071)
Q Consensus 108 GGILADEMGLGKTvq~LalIl~ 129 (1071)
+=|+.-..|.|||..+.++...
T Consensus 38 a~Lf~Gp~G~GKt~lA~~lA~~ 59 (394)
T PRK07940 38 AWLFTGPPGSGRSVAARAFAAA 59 (394)
T ss_pred EEEEECCCCCcHHHHHHHHHHH
Confidence 4467788999999999887644
No 184
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=36.44 E-value=73 Score=41.50 Aligned_cols=57 Identities=30% Similarity=0.513 Sum_probs=34.8
Q ss_pred EEEEeCch-hHHHHHHHHHHhcCCCCCeE-EEEeCCCCCccccccccchhhh-cCCcEEEEeHHHHH
Q 001475 250 TLIVCPAP-ILAQWDAEITRHTRPGSLKT-CIYEGARNSSLSDTSIMDISEL-VGADIVLTTYDVLK 313 (1071)
Q Consensus 250 tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v-~vy~G~~~~~~~~~~~~~~~~l-~~~dVVItTY~~l~ 313 (1071)
.||+||.- +..|-.+++.+|+..-++++ .+|.|+.... ....+ ...+|||.|-..+.
T Consensus 441 ~li~aPtrela~QI~r~~~kf~k~l~ir~v~vygg~~~~~-------qiaelkRg~eIvV~tpGRmi 500 (997)
T KOG0334|consen 441 ALILAPTRELAMQIHREVRKFLKLLGIRVVCVYGGSGISQ-------QIAELKRGAEIVVCTPGRMI 500 (997)
T ss_pred EEEEcCCHHHHHHHHHHHHHHHhhcCceEEEecCCccHHH-------HHHHHhcCCceEEeccchhh
Confidence 68889986 66677777777765445555 5666664432 12222 23778888865543
No 185
>PF08824 Serine_rich: Serine rich protein interaction domain; InterPro: IPR014928 This is a serine rich protein that is found in the docking protein p130(cas) (Crk-associated substrate). The protein folds into a four helix bundle which is associated with protein-protein interactions []. ; PDB: 2L81_A 1Z23_A.
Probab=36.30 E-value=66 Score=33.11 Aligned_cols=119 Identities=18% Similarity=0.219 Sum_probs=71.6
Q ss_pred HHHHHHHHHHHHHHHHHhhhhc-ccCChHHHHHHHHhhcCCCchHHHHHHHHHHhhcccccc-ccccccccccCcchhHH
Q 001475 739 SVAQQEFRKSYMQVCNALDDRE-KQYSAWWLEALHHAEGNKDFSAELIRKIEEAISGSLNKS-RALRTASRYRSISGLTY 816 (1071)
Q Consensus 739 ~~~~~~~~~~~~~v~~~~~~~~-~~~~~ww~~~l~~~~~~~~~~~~l~~~i~~~~~~~~~~~-~~~~~~~~~~~~~gL~~ 816 (1071)
.+|-..+.+-..+|+.+.+.+. .-.+.|=. ...++.+=+....-+.+|+..+.....+. +...-+....+ ++|.-
T Consensus 4 d~A~e~L~~LQ~~v~~sVs~L~~fvs~~WR~--~~~le~~i~~Ir~a~~~v~~sl~~fl~FArga~~NA~~~~D-~~L~~ 80 (159)
T PF08824_consen 4 DAAMETLSRLQQEVESSVSNLMSFVSSNWRS--PESLERHINEIRAAVDRVRASLREFLDFARGALANASNLSD-RNLQA 80 (159)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHCSSTT---CCCHHTTCCHHHHHHHHHHHHHHHHHHHHHHHHCCHTTTTS--HHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhcCCCCC--hHHHhhhHHHHHHHHHHHHHHHHHHHHHHhHHHHHHccccc-hhHHH
Confidence 3444555555556655555442 22244432 33344554444455677777776655543 23333334444 89999
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHHhhh----------cCCChHhhhhccccccc
Q 001475 817 HIQSSLDQLEASRKTLLDRLLEIDQTM----------EKPKEEDMDRMRHCRIC 860 (1071)
Q Consensus 817 ~l~~~l~~L~~~R~~~~~~l~~l~~~~----------~~p~~~~ve~~~~C~~c 860 (1071)
-|..+|..|+.+++.+.+.-++|+..- .+++++++++-.+|..-
T Consensus 81 kL~~qLq~l~ds~qiL~~~~q~Ld~~~Wsl~~La~~k~~~~~DdLDrfVmvaR~ 134 (159)
T PF08824_consen 81 KLRRQLQPLEDSYQILLQTSQALDSCNWSLDVLARDKPQNKPDDLDRFVMVART 134 (159)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHTTTSHHHHTT--SS-TCHHHHHHHHHHCC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHhcCCCCCCcchHHHHHHHHHh
Confidence 999999999999999999998886421 22466788887777553
No 186
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=35.93 E-value=1.1e+02 Score=38.28 Aligned_cols=20 Identities=25% Similarity=0.260 Sum_probs=16.0
Q ss_pred eeecCCCCCHHHHHHHHHHH
Q 001475 110 ILADEMGLGKTVELLACIFA 129 (1071)
Q Consensus 110 ILADEMGLGKTvq~LalIl~ 129 (1071)
||.-..|.|||..+..+.-.
T Consensus 42 Lf~GPpG~GKTtiArilAk~ 61 (624)
T PRK14959 42 LFSGTRGVGKTTIARIFAKA 61 (624)
T ss_pred EEECCCCCCHHHHHHHHHHh
Confidence 56778899999998877644
No 187
>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=35.88 E-value=94 Score=38.67 Aligned_cols=55 Identities=13% Similarity=0.009 Sum_probs=37.6
Q ss_pred ccccccccceEEeccccccC-------ChHHHHHHHHHhcccCceEEEeCcCCCCChhhhhc
Q 001475 341 TLLTRIFWWRICLDEAQMVE-------SNAAAATEMALRLYAKHRWCITGTPIQRKLDDLYG 395 (1071)
Q Consensus 341 s~L~~i~w~rVIlDEAH~iK-------N~~S~~~kal~~L~a~~Rw~LTGTPiqN~l~DL~~ 395 (1071)
+.|....-.+|++||....- ++-..+.+-........++++..||...+...++.
T Consensus 128 ~~l~s~~~r~~~~DEvD~~p~~~~~eGdp~~la~~R~~tf~~~~K~~~~STPt~~~~~~I~~ 189 (557)
T PF05876_consen 128 SNLRSRPARYLLLDEVDRYPDDVGGEGDPVELAEKRTKTFGSNRKILRISTPTIEGTSRIER 189 (557)
T ss_pred cccccCCcCEEEEechhhccccCccCCCHHHHHHHHHhhhccCcEEEEeCCCCCCCCCHHHH
Confidence 45778888999999999872 23333333344455678999999998775444333
No 188
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=35.50 E-value=1.3e+02 Score=40.29 Aligned_cols=103 Identities=15% Similarity=0.218 Sum_probs=63.6
Q ss_pred CcEEEEeCchhH-----HHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCC
Q 001475 248 GATLIVCPAPIL-----AQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDR 322 (1071)
Q Consensus 248 ~~tLIV~P~SLl-----~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~ 322 (1071)
+...-|+|...+ .-|..-|.+-. .+++....|.... +...+...+|+|.|.+.+..-. +
T Consensus 1187 ~~~vyi~p~~~i~~~~~~~w~~~f~~~~---G~~~~~l~ge~s~--------~lkl~~~~~vii~tpe~~d~lq-~---- 1250 (1674)
T KOG0951|consen 1187 GRAVYIAPLEEIADEQYRDWEKKFSKLL---GLRIVKLTGETSL--------DLKLLQKGQVIISTPEQWDLLQ-S---- 1250 (1674)
T ss_pred eEEEEecchHHHHHHHHHHHHHhhcccc---CceEEecCCcccc--------chHHhhhcceEEechhHHHHHh-h----
Confidence 456677787644 45777776654 5777777776543 4456677889999988765421 0
Q ss_pred CcchhhhhhhcccCCCccccccccccceEEeccccccCChHHH-------HHHHHHhcccCceEEEeCcCCCC
Q 001475 323 HEGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAA-------ATEMALRLYAKHRWCITGTPIQR 388 (1071)
Q Consensus 323 ~~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~-------~~kal~~L~a~~Rw~LTGTPiqN 388 (1071)
. -.-+..|.||.|++.....+ ...++..+-...|.+--.|-+.|
T Consensus 1251 --------------------i--Q~v~l~i~d~lh~igg~~g~v~evi~S~r~ia~q~~k~ir~v~ls~~lan 1301 (1674)
T KOG0951|consen 1251 --------------------I--QQVDLFIVDELHLIGGVYGAVYEVICSMRYIASQLEKKIRVVALSSSLAN 1301 (1674)
T ss_pred --------------------h--hhcceEeeehhhhhcccCCceEEEEeeHHHHHHHHHhheeEEEeehhhcc
Confidence 0 12366899999999854322 44455556556665544444433
No 189
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=35.50 E-value=1.1e+02 Score=40.50 Aligned_cols=100 Identities=17% Similarity=0.129 Sum_probs=55.7
Q ss_pred HHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcchhhhhhhcccCCCc
Q 001475 260 AQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGDRRFMRFQKRYPVI 339 (1071)
Q Consensus 260 ~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~~~~~~r~~kr~~~~ 339 (1071)
..|+..+-+|. .|.|-+.....-. .......-.+||+-+|-..+.-|+-.+.-. ..
T Consensus 227 aewmgply~fL---GLsvg~i~~~~~~------~~~rr~aY~~DItYgTn~EfGFDYLRDnm~---------------~~ 282 (1112)
T PRK12901 227 SEWMGPLYEFH---GLSVDCIDKHQPN------SEARRKAYNADITYGTNNEFGFDYLRDNMA---------------HS 282 (1112)
T ss_pred HHHHHHHHHHh---CCceeecCCCCCC------HHHHHHhCCCcceecCCCccccccchhccc---------------cc
Confidence 48999999999 5888765432100 011223345777766655544443221100 01
Q ss_pred cccccccccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCCCCChhhhhc
Q 001475 340 PTLLTRIFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQRKLDDLYG 395 (1071)
Q Consensus 340 ~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPiqN~l~DL~~ 395 (1071)
+..+.+-.+.+.|+||+..|-= =.|+--+++||. ..+.-.++|.
T Consensus 283 ~~~~vqR~~~fAIVDEvDSILI-----------DEARTPLIISGp-~~~~~~~~y~ 326 (1112)
T PRK12901 283 PEDLVQRKHNYAIVDEVDSVLI-----------DDARTPLIISGP-VPKGDDQEFE 326 (1112)
T ss_pred hHhhhCcCCceeEeechhhhhh-----------ccccCcEEEeCC-CCCccHHHHH
Confidence 1234556788999999987521 135556889984 4444344443
No 190
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=34.76 E-value=1.5e+02 Score=33.18 Aligned_cols=110 Identities=18% Similarity=0.122 Sum_probs=65.7
Q ss_pred CcEEEEeCch-hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhh-cCCcEEEEeHHHHHhhcccCCCCCcc
Q 001475 248 GATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISEL-VGADIVLTTYDVLKEDLSHDSDRHEG 325 (1071)
Q Consensus 248 ~~tLIV~P~S-Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l-~~~dVVItTY~~l~~d~~~~~~~~~~ 325 (1071)
--.||+.|.- |-.|-.+-|.....+-++.++..-|.+.... +...+ -...+|.-|-..+...+..
T Consensus 96 tQ~lilsPTRELa~Qi~~vi~alg~~mnvq~hacigg~n~ge------dikkld~G~hvVsGtPGrv~dmikr------- 162 (400)
T KOG0328|consen 96 TQALILSPTRELAVQIQKVILALGDYMNVQCHACIGGKNLGE------DIKKLDYGQHVVSGTPGRVLDMIKR------- 162 (400)
T ss_pred eeEEEecChHHHHHHHHHHHHHhcccccceEEEEecCCccch------hhhhhcccceEeeCCCchHHHHHHh-------
Confidence 3589999987 4457666666555333556666666544221 11111 1223555554444433321
Q ss_pred hhhhhhhcccCCCccccccccccceEEeccccccCC--hHHHHHHHHHhcc-cCceEEEeCcC
Q 001475 326 DRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVES--NAAAATEMALRLY-AKHRWCITGTP 385 (1071)
Q Consensus 326 ~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN--~~S~~~kal~~L~-a~~Rw~LTGTP 385 (1071)
..|.--.-.++|||||..+-| .+.+.+...+.|+ +...+++|+|-
T Consensus 163 ---------------~~L~tr~vkmlVLDEaDemL~kgfk~Qiydiyr~lp~~~Qvv~~SATl 210 (400)
T KOG0328|consen 163 ---------------RSLRTRAVKMLVLDEADEMLNKGFKEQIYDIYRYLPPGAQVVLVSATL 210 (400)
T ss_pred ---------------ccccccceeEEEeccHHHHHHhhHHHHHHHHHHhCCCCceEEEEeccC
Confidence 124444567899999998755 4477888888887 66778889984
No 191
>TIGR00596 rad1 DNA repair protein (rad1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford Universit
Probab=34.05 E-value=2.2e+02 Score=37.03 Aligned_cols=65 Identities=12% Similarity=0.044 Sum_probs=41.1
Q ss_pred cCCcEEEEeHHHHHhhcccCCCCCcchhhhhhhcccCCCccccccccccceEEeccccccCChHHHHHHHHHhcc----c
Q 001475 300 VGADIVLTTYDVLKEDLSHDSDRHEGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLY----A 375 (1071)
Q Consensus 300 ~~~dVVItTY~~l~~d~~~~~~~~~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S~~~kal~~L~----a 375 (1071)
....|++.|-.++..|+-. ..+.--....||+||||++.... .-+-.++..+ .
T Consensus 6 ~~ggi~~~T~rIl~~DlL~----------------------~ri~~~~itgiiv~~Ahr~~~~~-~eaFI~rlyr~~n~~ 62 (814)
T TIGR00596 6 LEGGIFSITSRILVVDLLT----------------------GIIPPELITGILVLRADRIIESS-QEAFILRLYRQKNKT 62 (814)
T ss_pred hcCCEEEEechhhHhHHhc----------------------CCCCHHHccEEEEeecccccccc-cHHHHHHHHHHhCCC
Confidence 4566888999999888632 11222346789999999996433 3333334443 3
Q ss_pred CceEEEeCcCCC
Q 001475 376 KHRWCITGTPIQ 387 (1071)
Q Consensus 376 ~~Rw~LTGTPiq 387 (1071)
.+..++|..|-.
T Consensus 63 gfIkafSdsP~~ 74 (814)
T TIGR00596 63 GFIKAFSDNPEA 74 (814)
T ss_pred cceEEecCCCcc
Confidence 445678888754
No 192
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=33.45 E-value=1.2e+02 Score=37.90 Aligned_cols=20 Identities=30% Similarity=0.328 Sum_probs=16.1
Q ss_pred eeecCCCCCHHHHHHHHHHH
Q 001475 110 ILADEMGLGKTVELLACIFA 129 (1071)
Q Consensus 110 ILADEMGLGKTvq~LalIl~ 129 (1071)
|+.=+.|.|||..+.++.-+
T Consensus 42 Lf~Gp~G~GKTt~Ar~lAk~ 61 (563)
T PRK06647 42 IFSGPRGVGKTSSARAFARC 61 (563)
T ss_pred EEECCCCCCHHHHHHHHHHh
Confidence 56668899999998887644
No 193
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=33.40 E-value=22 Score=40.81 Aligned_cols=41 Identities=27% Similarity=0.187 Sum_probs=29.8
Q ss_pred cceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCCCCCh
Q 001475 348 WWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQRKL 390 (1071)
Q Consensus 348 w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPiqN~l 390 (1071)
=..||+||||+ ..-.+.-..+.+|-...+..+||.+.|=++
T Consensus 244 dAfVIlDEaQN--tT~~QmKMfLTRiGf~skmvItGD~tQiDL 284 (348)
T COG1702 244 DAFVILDEAQN--TTVGQMKMFLTRIGFESKMVITGDITQIDL 284 (348)
T ss_pred CeEEEEecccc--cchhhhceeeeeecCCceEEEEcCcccccC
Confidence 35799999998 222333344567889999999999988654
No 194
>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=33.14 E-value=84 Score=35.46 Aligned_cols=20 Identities=25% Similarity=0.180 Sum_probs=15.4
Q ss_pred CceeecCCCCCHHHHHHHHH
Q 001475 108 GGILADEMGLGKTVELLACI 127 (1071)
Q Consensus 108 GGILADEMGLGKTvq~LalI 127 (1071)
+=+|--++|.|||..|-++.
T Consensus 60 ~vll~G~pGTGKT~lA~~ia 79 (284)
T TIGR02880 60 HMSFTGNPGTGKTTVALRMA 79 (284)
T ss_pred eEEEEcCCCCCHHHHHHHHH
Confidence 34677799999999886654
No 195
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=32.71 E-value=33 Score=39.74 Aligned_cols=40 Identities=25% Similarity=0.182 Sum_probs=29.9
Q ss_pred ccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCCCC
Q 001475 347 FWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQR 388 (1071)
Q Consensus 347 ~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPiqN 388 (1071)
+=..||+||||.+.-. ..-..+.+.-...+++|||-|-|-
T Consensus 351 ~~~FiIIDEaQNLTph--eikTiltR~G~GsKIVl~gd~aQi 390 (436)
T COG1875 351 PDSFIIIDEAQNLTPH--ELKTILTRAGEGSKIVLTGDPAQI 390 (436)
T ss_pred ccceEEEehhhccCHH--HHHHHHHhccCCCEEEEcCCHHHc
Confidence 3457999999999533 333455667788999999999874
No 196
>CHL00181 cbbX CbbX; Provisional
Probab=32.25 E-value=1.1e+02 Score=34.47 Aligned_cols=18 Identities=28% Similarity=0.281 Sum_probs=15.2
Q ss_pred eeecCCCCCHHHHHHHHH
Q 001475 110 ILADEMGLGKTVELLACI 127 (1071)
Q Consensus 110 ILADEMGLGKTvq~LalI 127 (1071)
+|-=.+|.|||..|-++.
T Consensus 63 ll~G~pGtGKT~lAr~la 80 (287)
T CHL00181 63 SFTGSPGTGKTTVALKMA 80 (287)
T ss_pred EEECCCCCCHHHHHHHHH
Confidence 677789999999887765
No 197
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional
Probab=32.22 E-value=2.1e+02 Score=36.14 Aligned_cols=38 Identities=16% Similarity=0.066 Sum_probs=22.0
Q ss_pred ccceEEeccccccCChH-HHHHHHHHhcccCceEEEeCc
Q 001475 347 FWWRICLDEAQMVESNA-AAATEMALRLYAKHRWCITGT 384 (1071)
Q Consensus 347 ~w~rVIlDEAH~iKN~~-S~~~kal~~L~a~~Rw~LTGT 384 (1071)
.+.+||+||+|++.... ....+.+........++++.|
T Consensus 121 ~~KVvIIdea~~Ls~~a~naLLK~LEepp~~tifIL~tt 159 (614)
T PRK14971 121 KYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFILATT 159 (614)
T ss_pred CcEEEEEECcccCCHHHHHHHHHHHhCCCCCeEEEEEeC
Confidence 57789999999994321 111222222334556777666
No 198
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=31.96 E-value=16 Score=43.55 Aligned_cols=53 Identities=25% Similarity=0.519 Sum_probs=34.1
Q ss_pred hhhhhcccccccccccccccccccccccccccccccCCCCCCccchhhhhhhccccccccccccCCccccchhhh
Q 001475 162 RVECICGAVSESRKYKGLWVQCDICDAWQHADCVGYSPRGKKRRSTFELKKHTRKKDMTNIVVRDGEHICQWCDE 236 (1071)
Q Consensus 162 ~v~c~c~~~~~~~~~~g~~v~c~~c~~w~h~~cv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~c~~ 236 (1071)
.+.|.||....+ + ..|||+.|..|.|..|..---+... ...+...|.|..|..
T Consensus 171 c~vC~~g~~~~~---N-rmlqC~~C~~~fHq~Chqp~i~~~l------------------~~D~~~~w~C~~C~~ 223 (464)
T KOG4323|consen 171 CSVCYCGGPGAG---N-RMLQCDKCRQWYHQACHQPLIKDEL------------------AGDPFYEWFCDVCNR 223 (464)
T ss_pred eeeeecCCcCcc---c-eeeeecccccHHHHHhccCCCCHhh------------------ccCccceEeehhhcc
Confidence 344555554443 2 6799999999999999743222111 122567889999975
No 199
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=31.72 E-value=1.2e+02 Score=39.30 Aligned_cols=67 Identities=4% Similarity=-0.039 Sum_probs=38.0
Q ss_pred HHHHHccCCCCCCCCcccccCC------CCCHHHHHHHHHHHHHHhhhhhhhhHHHHhhhHhhHHHHHHhHHHH
Q 001475 527 KLRQACCHPQVGSSGLRSLQQS------PLSMDEILMVLIGKTKIEGEEALRKLVMALNGLAGIALIEKNLSQA 594 (1071)
Q Consensus 527 rLRQiC~HP~L~~~~~~~~~~~------~~t~~elL~~Ll~~~~~e~~~~~rk~l~~sq~~a~L~ii~~~~~~a 594 (1071)
.++++-+.+-+.-.+-.+..+. -.|.++-...+++.+. ++.+.++-+||.+.....-..|...|...
T Consensus 377 Ef~~iY~l~Vv~IPTnkP~~R~D~~d~iy~t~~~K~~Aii~ei~-~~~~~gqPVLVgT~SIe~SE~ls~~L~~~ 449 (925)
T PRK12903 377 EFIDIYNMRVNVVPTNKPVIRKDEPDSIFGTKHAKWKAVVKEVK-RVHKKGQPILIGTAQVEDSETLHELLLEA 449 (925)
T ss_pred HHHHHhCCCEEECCCCCCeeeeeCCCcEEEcHHHHHHHHHHHHH-HHHhcCCCEEEEeCcHHHHHHHHHHHHHC
Confidence 4566666665543333322211 1355566666665554 33456788888877777777776666554
No 200
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=30.80 E-value=2e+02 Score=36.11 Aligned_cols=20 Identities=30% Similarity=0.275 Sum_probs=15.7
Q ss_pred eeecCCCCCHHHHHHHHHHH
Q 001475 110 ILADEMGLGKTVELLACIFA 129 (1071)
Q Consensus 110 ILADEMGLGKTvq~LalIl~ 129 (1071)
|+.=..|.|||..|.++.-.
T Consensus 42 Lf~GP~GvGKTTlA~~lAk~ 61 (605)
T PRK05896 42 IFSGPRGIGKTSIAKIFAKA 61 (605)
T ss_pred EEECCCCCCHHHHHHHHHHH
Confidence 55667899999998887644
No 201
>PHA00673 acetyltransferase domain containing protein
Probab=30.51 E-value=78 Score=32.44 Aligned_cols=45 Identities=13% Similarity=0.040 Sum_probs=36.6
Q ss_pred ccceEEeccccccCChHHHHHHHHHhc---ccCceEEEeCcCCCCChh
Q 001475 347 FWWRICLDEAQMVESNAAAATEMALRL---YAKHRWCITGTPIQRKLD 391 (1071)
Q Consensus 347 ~w~rVIlDEAH~iKN~~S~~~kal~~L---~a~~Rw~LTGTPiqN~l~ 391 (1071)
.-+-|++|+.|+=+.-.++..+.+... ..-++|-+|+||-.|.++
T Consensus 87 ~Ie~l~V~~~~RGqGIG~~Ll~~A~~~Ar~~Gc~~lyis~~p~~~tv~ 134 (154)
T PHA00673 87 TTESIFVAAAHRPGGAGMALLRATEALARDLGATGLYVSGPTEGRLVQ 134 (154)
T ss_pred EEEEEEEChhccCCCHHHHHHHHHHHHHHHCCCCEEEEecCCCccchH
Confidence 356799999999998888877776653 467899999999999764
No 202
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=30.45 E-value=2.6e+02 Score=36.59 Aligned_cols=26 Identities=12% Similarity=0.157 Sum_probs=22.2
Q ss_pred hhh-hhhhcCCCCceEEEeccccCCcc
Q 001475 636 CAT-ELSQNEQHFPGCSEKAFKIHSIE 661 (1071)
Q Consensus 636 QA~-R~hRiGQ~~~V~vyrl~t~~tiE 661 (1071)
.|. |++|-|-+.+...|||.+++..+
T Consensus 364 sA~QRaGRAGR~~pGicyRLyse~~~~ 390 (845)
T COG1643 364 SADQRAGRAGRTGPGICYRLYSEEDFL 390 (845)
T ss_pred hhhhhccccccCCCceEEEecCHHHHH
Confidence 455 99999999999999999986544
No 203
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]
Probab=30.37 E-value=65 Score=37.06 Aligned_cols=56 Identities=21% Similarity=0.194 Sum_probs=37.7
Q ss_pred ccccccceEEeccccccCC------hHHHHHHHH-HhcccCceEEEeCcCCCCChhhhhcccc
Q 001475 343 LTRIFWWRICLDEAQMVES------NAAAATEMA-LRLYAKHRWCITGTPIQRKLDDLYGLLR 398 (1071)
Q Consensus 343 L~~i~w~rVIlDEAH~iKN------~~S~~~kal-~~L~a~~Rw~LTGTPiqN~l~DL~~LL~ 398 (1071)
+..-.|.+|.+||.|.... +.-+....+ +.++...-+.||+|...|-++|...+|.
T Consensus 211 ~~~~~~~~iaidevhccsqwghdfr~dy~~l~ilkrqf~~~~iigltatatn~vl~d~k~il~ 273 (695)
T KOG0353|consen 211 LEAGFFKLIAIDEVHCCSQWGHDFRPDYKALGILKRQFKGAPIIGLTATATNHVLDDAKDILC 273 (695)
T ss_pred hhcceeEEEeecceeehhhhCcccCcchHHHHHHHHhCCCCceeeeehhhhcchhhHHHHHHh
Confidence 4445688899999997532 122222222 3466777899999999998887766553
No 204
>PF13245 AAA_19: Part of AAA domain
Probab=30.12 E-value=77 Score=28.24 Aligned_cols=19 Identities=37% Similarity=0.305 Sum_probs=14.9
Q ss_pred ecCCCCCHHHHHHHHHHHc
Q 001475 112 ADEMGLGKTVELLACIFAH 130 (1071)
Q Consensus 112 ADEMGLGKTvq~LalIl~~ 130 (1071)
-=-+|-|||-.++.++...
T Consensus 16 ~g~pGtGKT~~~~~~i~~l 34 (76)
T PF13245_consen 16 QGPPGTGKTTTLAARIAEL 34 (76)
T ss_pred ECCCCCCHHHHHHHHHHHH
Confidence 3458999999998888653
No 205
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=30.09 E-value=3.2e+02 Score=33.61 Aligned_cols=20 Identities=25% Similarity=0.366 Sum_probs=15.6
Q ss_pred eeecCCCCCHHHHHHHHHHH
Q 001475 110 ILADEMGLGKTVELLACIFA 129 (1071)
Q Consensus 110 ILADEMGLGKTvq~LalIl~ 129 (1071)
+|.=..|.|||..+.++...
T Consensus 40 Lf~GppGtGKTTlA~~lA~~ 59 (504)
T PRK14963 40 LFSGPRGVGKTTTARLIAMA 59 (504)
T ss_pred EEECCCCCCHHHHHHHHHHH
Confidence 55667899999998877643
No 206
>COG4224 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.88 E-value=33 Score=30.30 Aligned_cols=20 Identities=20% Similarity=0.386 Sum_probs=16.4
Q ss_pred HHHHHHHHHhhhhhhhhHHH
Q 001475 721 TVCENLKQKYLSGFSVKLSV 740 (1071)
Q Consensus 721 ~~~~~~~~~y~~~~~~~~~~ 740 (1071)
++-+.||+.||+.|-..+..
T Consensus 27 ~eQ~~LR~eYl~~fr~~vk~ 46 (77)
T COG4224 27 KEQAKLRREYLESFRGQVKN 46 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 66788999999998877655
No 207
>PF13871 Helicase_C_4: Helicase_C-like
Probab=28.95 E-value=43 Score=37.65 Aligned_cols=55 Identities=9% Similarity=-0.107 Sum_probs=40.8
Q ss_pred CCcCceeEeeCCcCCchhhhhhh-hhhhcCCCCceEEEeccccCCc-cccchhHhhhhc
Q 001475 616 PLLNIHLHHNLTEILPMVANCAT-ELSQNEQHFPGCSEKAFKIHSI-ETCDENARKCQR 672 (1071)
Q Consensus 616 ~~~~~~~~~nl~~wnp~~~~QA~-R~hRiGQ~~~V~vyrl~t~~ti-EE~~~~~~k~k~ 672 (1071)
.-+++|+.+-+. |..-...|-. |+||-||..+. .|++++.+.- |........|+.
T Consensus 86 qr~Rv~i~le~p-wsad~aiQ~~GR~hRsnQ~~~P-~y~~l~t~~~gE~Rfas~va~rL 142 (278)
T PF13871_consen 86 QRRRVHITLELP-WSADKAIQQFGRTHRSNQVSAP-EYRFLVTDLPGERRFASTVARRL 142 (278)
T ss_pred CCceEEEEeeCC-CCHHHHHHHhccccccccccCC-EEEEeecCCHHHHHHHHHHHHHH
Confidence 356778888888 9999999999 99999999875 5666665554 555555555543
No 208
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=28.53 E-value=2.7e+02 Score=31.83 Aligned_cols=109 Identities=14% Similarity=0.075 Sum_probs=64.9
Q ss_pred CCCcEEEEeCch----hHHHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCC
Q 001475 246 ATGATLIVCPAP----ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSD 321 (1071)
Q Consensus 246 ~~~~tLIV~P~S----Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~ 321 (1071)
..=-.+|+||.. -.+|-..|+.+|. .++|.+-.|....+.. ...-.....++|.|-..+..-....
T Consensus 152 ~~IQ~~ilVPtrelALQtSqvc~~lskh~---~i~vmvttGGT~lrDD-----I~Rl~~~VH~~vgTPGRIlDL~~Kg-- 221 (459)
T KOG0326|consen 152 NVIQAIILVPTRELALQTSQVCKELSKHL---GIKVMVTTGGTSLRDD-----IMRLNQTVHLVVGTPGRILDLAKKG-- 221 (459)
T ss_pred cceeEEEEeecchhhHHHHHHHHHHhccc---CeEEEEecCCcccccc-----eeeecCceEEEEcCChhHHHHHhcc--
Confidence 334689999964 2468899999999 5999998887543211 0111123457777777655433210
Q ss_pred CCcchhhhhhhcccCCCccccccccccceEEeccccccCChH--HHHHHHHHhcccC-ceEEEeCc
Q 001475 322 RHEGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA--AAATEMALRLYAK-HRWCITGT 384 (1071)
Q Consensus 322 ~~~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~--S~~~kal~~L~a~-~Rw~LTGT 384 (1071)
.-.--+-..+|+|||..+-+.. ....+.+.-|+.. .-++-|+|
T Consensus 222 --------------------Va~ls~c~~lV~DEADKlLs~~F~~~~e~li~~lP~~rQillySAT 267 (459)
T KOG0326|consen 222 --------------------VADLSDCVILVMDEADKLLSVDFQPIVEKLISFLPKERQILLYSAT 267 (459)
T ss_pred --------------------cccchhceEEEechhhhhhchhhhhHHHHHHHhCCccceeeEEecc
Confidence 0111134578999999987765 2333444455543 34555666
No 209
>PLN03025 replication factor C subunit; Provisional
Probab=28.24 E-value=79 Score=36.18 Aligned_cols=58 Identities=14% Similarity=0.107 Sum_probs=33.3
Q ss_pred ccceEEeccccccCChHHH-HHHHHHhcccCceEEEeCcCCCCChhhhhccccccCCCC
Q 001475 347 FWWRICLDEAQMVESNAAA-ATEMALRLYAKHRWCITGTPIQRKLDDLYGLLRFLKSSP 404 (1071)
Q Consensus 347 ~w~rVIlDEAH~iKN~~S~-~~kal~~L~a~~Rw~LTGTPiqN~l~DL~~LL~FL~p~~ 404 (1071)
.|..||+||+|.+-..... ..+.+.......++++++++...-+..|-+-...+...+
T Consensus 99 ~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SRc~~i~f~~ 157 (319)
T PLN03025 99 RHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAIVRFSR 157 (319)
T ss_pred CeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHhhhcccCCC
Confidence 4789999999998532211 112222234557788888876554455554443333333
No 210
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=27.79 E-value=2e+02 Score=36.32 Aligned_cols=20 Identities=20% Similarity=0.192 Sum_probs=16.5
Q ss_pred eeecCCCCCHHHHHHHHHHH
Q 001475 110 ILADEMGLGKTVELLACIFA 129 (1071)
Q Consensus 110 ILADEMGLGKTvq~LalIl~ 129 (1071)
||.-+.|.|||..+.++.-.
T Consensus 42 Lf~Gp~G~GKttlA~~lAk~ 61 (620)
T PRK14948 42 LFTGPRGTGKTSSARILAKS 61 (620)
T ss_pred EEECCCCCChHHHHHHHHHH
Confidence 66778999999999887754
No 211
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=27.13 E-value=1.2e+02 Score=39.65 Aligned_cols=86 Identities=19% Similarity=0.282 Sum_probs=52.5
Q ss_pred CCcEEEEeCch-hH----HHHHHHHHHhcCCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCC
Q 001475 247 TGATLIVCPAP-IL----AQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSD 321 (1071)
Q Consensus 247 ~~~tLIV~P~S-Ll----~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~ 321 (1071)
.+.+.+|+|.- ++ .-|..-+ ..+++++.-..|.... +.....+.+++|||.+..-........
T Consensus 973 ~~kvvyIap~kalvker~~Dw~~r~----~~~g~k~ie~tgd~~p--------d~~~v~~~~~~ittpek~dgi~Rsw~~ 1040 (1230)
T KOG0952|consen 973 GSKVVYIAPDKALVKERSDDWSKRD----ELPGIKVIELTGDVTP--------DVKAVREADIVITTPEKWDGISRSWQT 1040 (1230)
T ss_pred CccEEEEcCCchhhcccccchhhhc----ccCCceeEeccCccCC--------ChhheecCceEEcccccccCccccccc
Confidence 35788888864 33 3454433 2246888887776443 456678899999999876543221100
Q ss_pred CCcchhhhhhhcccCCCccccccccccceEEeccccccCChHH
Q 001475 322 RHEGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAA 364 (1071)
Q Consensus 322 ~~~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~S 364 (1071)
.+| +. ....+|+||.|.++....
T Consensus 1041 ------------r~~------v~--~v~~iv~de~hllg~~rg 1063 (1230)
T KOG0952|consen 1041 ------------RKY------VQ--SVSLIVLDEIHLLGEDRG 1063 (1230)
T ss_pred ------------hhh------hc--cccceeecccccccCCCc
Confidence 011 11 245689999999986543
No 212
>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=25.51 E-value=1.5e+02 Score=36.39 Aligned_cols=51 Identities=14% Similarity=0.080 Sum_probs=32.6
Q ss_pred hHHHHHHHHHHhcCCCCCeEEEEeCCCCCcccc-ccccchhhhcCCcEEEEeHH
Q 001475 258 ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSD-TSIMDISELVGADIVLTTYD 310 (1071)
Q Consensus 258 Ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~-~~~~~~~~l~~~dVVItTY~ 310 (1071)
=.+...+|+.+.+ |..++..+++....+... ......-.-.++||+|.|--
T Consensus 270 Gte~~~e~l~~~f--p~~~v~~~d~d~~~~~~~~~~~l~~f~~g~~~ILVgT~~ 321 (505)
T TIGR00595 270 GTEQVEEELAKLF--PGARIARIDSDTTSRKGAHEALLNQFANGKADILIGTQM 321 (505)
T ss_pred cHHHHHHHHHhhC--CCCcEEEEecccccCccHHHHHHHHHhcCCCCEEEeCcc
Confidence 4678889999999 789999999875432210 11112222356889988764
No 213
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=24.62 E-value=46 Score=28.61 Aligned_cols=22 Identities=9% Similarity=-0.035 Sum_probs=17.7
Q ss_pred eEeeCCcCCchhhhhhh-hhhhcC
Q 001475 622 LHHNLTEILPMVANCAT-ELSQNE 644 (1071)
Q Consensus 622 ~~~nl~~wnp~~~~QA~-R~hRiG 644 (1071)
+.+.. +|++....|+. |++|+|
T Consensus 60 i~~~~-~~~~~~~~Q~~gR~~R~g 82 (82)
T smart00490 60 IIYDL-PWSPASYIQRIGRAGRAG 82 (82)
T ss_pred EEeCC-CCCHHHHHHhhcccccCC
Confidence 33444 59999999999 999987
No 214
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=24.54 E-value=47 Score=42.06 Aligned_cols=44 Identities=27% Similarity=0.268 Sum_probs=29.8
Q ss_pred cCCcEEEEeHHHHHhhcccCCCCCcchhhhhhhcccCCCccccccccccceEEeccccccCChH
Q 001475 300 VGADIVLTTYDVLKEDLSHDSDRHEGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNA 363 (1071)
Q Consensus 300 ~~~dVVItTY~~l~~d~~~~~~~~~~~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~~ 363 (1071)
..+|+||++|..+..+....... .. -..-..+|+||||.+-+.-
T Consensus 193 ~~ad~vv~nh~~~~~~~~~~~~~-------------------~~-~p~~~v~v~DEAH~l~d~a 236 (654)
T COG1199 193 ENADLVVTNHALLLADVALEESR-------------------IL-LPENDVVVFDEAHNLPDIA 236 (654)
T ss_pred hhCCEEEEccHHHHhHHHhhhhh-------------------cc-CCcccEEEEeccccchHHH
Confidence 57899999999998865321100 00 1235689999999997543
No 215
>KOG3259 consensus Peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=24.21 E-value=61 Score=32.55 Aligned_cols=60 Identities=12% Similarity=0.009 Sum_probs=36.1
Q ss_pred cCCCcccccccCCCcceeeeccCCcccCCCCCCCCCccCceeecCCCCCHHHHHHHHHHHccC
Q 001475 70 FSPLCMPMDFLDTYSTLFYNPFSGSLSLSPDYTSSYVFGGILADEMGLGKTVELLACIFAHRK 132 (1071)
Q Consensus 70 ~~plw~~~~~~~~~~~~y~n~~tg~~~~~~~~~~~~~rGGILADEMGLGKTvq~LalIl~~~~ 132 (1071)
+.|.|.....-..+..+|||++|+.-.-+++.......| .-.||-=.-|.++-|+..|..
T Consensus 7 LP~~Wekr~Srs~gr~YyfN~~T~~SqWe~P~~t~~~~~---~~~~~~p~~Vr~sHlLVKH~~ 66 (163)
T KOG3259|consen 7 LPPGWEKRMSRSSGRPYYFNTETNESQWERPSGTSKSGG---KIGQGEPARVRCSHLLVKHKG 66 (163)
T ss_pred CCchhheeccccCCCcceeccccchhhccCCCccccccc---cccCCCccceeEEEEEEcccc
Confidence 446787666667788999999999865544443333233 333343455566556655533
No 216
>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=23.73 E-value=4.2e+02 Score=34.31 Aligned_cols=39 Identities=26% Similarity=0.176 Sum_probs=26.6
Q ss_pred ccceEEeccccccCChHHHHHHHHHh-cccCceEEEeCcCCC
Q 001475 347 FWWRICLDEAQMVESNAAAATEMALR-LYAKHRWCITGTPIQ 387 (1071)
Q Consensus 347 ~w~rVIlDEAH~iKN~~S~~~kal~~-L~a~~Rw~LTGTPiq 387 (1071)
..++||||||-++.... ....+.. .....+++|-|=|-|
T Consensus 439 ~~~llIvDEasMv~~~~--~~~Ll~~~~~~~~kliLVGD~~Q 478 (744)
T TIGR02768 439 DKDVLVIDEAGMVGSRQ--MARVLKEAEEAGAKVVLVGDPEQ 478 (744)
T ss_pred CCcEEEEECcccCCHHH--HHHHHHHHHhcCCEEEEECChHH
Confidence 46889999999996543 3333332 346788999886544
No 217
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=23.69 E-value=3.6e+02 Score=34.08 Aligned_cols=20 Identities=30% Similarity=0.295 Sum_probs=15.8
Q ss_pred eeecCCCCCHHHHHHHHHHH
Q 001475 110 ILADEMGLGKTVELLACIFA 129 (1071)
Q Consensus 110 ILADEMGLGKTvq~LalIl~ 129 (1071)
|+.-..|.|||..+..+.-.
T Consensus 42 Lf~Gp~GvGKttlA~~lAk~ 61 (620)
T PRK14954 42 IFSGLRGVGKTTAARVFAKA 61 (620)
T ss_pred EEECCCCCCHHHHHHHHHHH
Confidence 56678899999988877643
No 218
>PF05979 DUF896: Bacterial protein of unknown function (DUF896); InterPro: IPR009242 This family consists of several short, hypothetical bacterial proteins of unknown function. They may be involved in the bacterial SOS response [].; PDB: 2HEP_A 3BHP_C 2JVD_A.
Probab=23.16 E-value=40 Score=29.29 Aligned_cols=20 Identities=25% Similarity=0.423 Sum_probs=16.4
Q ss_pred HHHHHHHHHhhhhhhhhHHH
Q 001475 721 TVCENLKQKYLSGFSVKLSV 740 (1071)
Q Consensus 721 ~~~~~~~~~y~~~~~~~~~~ 740 (1071)
++-+.||+.||..|-+++..
T Consensus 25 ~Eq~~LR~eYl~~fR~~~~~ 44 (65)
T PF05979_consen 25 AEQAELRQEYLQNFRGNFRS 44 (65)
T ss_dssp HHHHHHHHHHHHTTHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 66778999999998877655
No 219
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=23.04 E-value=1.6e+02 Score=37.75 Aligned_cols=62 Identities=15% Similarity=0.066 Sum_probs=38.7
Q ss_pred EEEEeCchhHHHHHHHHHHhcCCCCCeEEEEeCCCCCccc-cccccchhhhcCCcEEEEeHHHHHh
Q 001475 250 TLIVCPAPILAQWDAEITRHTRPGSLKTCIYEGARNSSLS-DTSIMDISELVGADIVLTTYDVLKE 314 (1071)
Q Consensus 250 tLIV~P~SLl~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~-~~~~~~~~~l~~~dVVItTY~~l~~ 314 (1071)
+|+.+=. =.+.=.+|+.+++ |..++..+++....+.. ..........+++||+|-|--....
T Consensus 485 ~L~~~G~-GterieeeL~~~F--P~~rv~r~d~Dtt~~k~~~~~~l~~~~~ge~dILiGTQmiaKG 547 (730)
T COG1198 485 HLRAVGP-GTERIEEELKRLF--PGARIIRIDSDTTRRKGALEDLLDQFANGEADILIGTQMIAKG 547 (730)
T ss_pred eeEEecc-cHHHHHHHHHHHC--CCCcEEEEccccccchhhHHHHHHHHhCCCCCeeecchhhhcC
Confidence 3444433 2456688899999 88999999987554321 1112223344689999987665544
No 220
>PRK01631 hypothetical protein; Provisional
Probab=22.86 E-value=53 Score=29.42 Aligned_cols=20 Identities=25% Similarity=0.303 Sum_probs=15.7
Q ss_pred HHHHHHHHHhhhhhhhhHHH
Q 001475 721 TVCENLKQKYLSGFSVKLSV 740 (1071)
Q Consensus 721 ~~~~~~~~~y~~~~~~~~~~ 740 (1071)
++-..||+.||..|-+.+.+
T Consensus 26 ~Eq~~LR~eYl~~fR~~~~~ 45 (76)
T PRK01631 26 QEQQMLRQNYTQTFRGSLDS 45 (76)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 67788999999987666554
No 221
>PF08807 DUF1798: Bacterial domain of unknown function (DUF1798); InterPro: IPR014913 This family contains many hypothetical proteins. The structure of one of them has been solved and it adopts an all alpha helical fold. ; PDB: 2HUJ_A 2ETS_A 2HFI_A 2IM8_B.
Probab=22.71 E-value=2.2e+02 Score=27.63 Aligned_cols=100 Identities=23% Similarity=0.261 Sum_probs=61.5
Q ss_pred hhHHHHHHHHHHHhhhhhhhhHH-HHHHHHHHHHHHHHHHhhhhcccCChHHHHHHHHhhcC--CCc-hHH---HHHHHH
Q 001475 717 ASLITVCENLKQKYLSGFSVKLS-VAQQEFRKSYMQVCNALDDREKQYSAWWLEALHHAEGN--KDF-SAE---LIRKIE 789 (1071)
Q Consensus 717 ~~l~~~~~~~~~~y~~~~~~~~~-~~~~~~~~~~~~v~~~~~~~~~~~~~ww~~~l~~~~~~--~~~-~~~---l~~~i~ 789 (1071)
..|.+.++++...|.....++.. .--++.+|..++|...+++ |=..|+.||... +-. ..+ ++..|+
T Consensus 3 ~qL~~~~~~~~~~y~~~k~~~~e~DF~~~VKPf~d~vd~~l~~-------w~~~a~~~i~~~rP~Y~~~~Qi~~~~eni~ 75 (111)
T PF08807_consen 3 EQLIEENEEAEQRYQEVKEEGKEYDFYEEVKPFADEVDQLLEE-------WKEYALEWIKEERPKYMHEQQIESTIENIE 75 (111)
T ss_dssp HHHHHHHHHHHHHHHHHHHST----TTTTHHHHHHHHHHHHHH-------HHHHHHHHHHHC--TTS-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHhcCCCCChhhhccchhHHHHHHHHH-------HHHHHHHHHHhcCCCCCCHHHHHHHHHHHH
Confidence 35889999999999987543333 3556778888999888876 888999999763 222 222 334444
Q ss_pred HH-hhccccccccccccccccCcchhHHHHHhHHHHHH
Q 001475 790 EA-ISGSLNKSRALRTASRYRSISGLTYHIQSSLDQLE 826 (1071)
Q Consensus 790 ~~-~~~~~~~~~~~~~~~~~~~~~gL~~~l~~~l~~L~ 826 (1071)
.. +.+..+.....+. ...+.+..|+|..-+++|+
T Consensus 76 ~lsVq~f~~~ts~KrF---~e~~kSV~Y~L~~i~~~ie 110 (111)
T PF08807_consen 76 ELSVQCFFPKTSKKRF---KEKIKSVQYTLQNILEEIE 110 (111)
T ss_dssp HHHHHTTHTTS-HHHH---HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHhCCCcchhHH---HHHHHHHHHHHHHHHHHhc
Confidence 33 4444433222221 2334566788888777765
No 222
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=22.68 E-value=24 Score=26.85 Aligned_cols=22 Identities=32% Similarity=0.610 Sum_probs=14.7
Q ss_pred cccccccccccccccccccCCC
Q 001475 179 LWVQCDICDAWQHADCVGYSPR 200 (1071)
Q Consensus 179 ~~v~c~~c~~w~h~~cv~~~~~ 200 (1071)
..++|+.|+..-|..|.|....
T Consensus 3 ~ll~C~~C~v~VH~~CYGv~~~ 24 (36)
T PF13831_consen 3 PLLFCDNCNVAVHQSCYGVSEV 24 (36)
T ss_dssp EEEE-SSS--EEEHHHHT-SS-
T ss_pred ceEEeCCCCCcCChhhCCcccC
Confidence 3589999999999999997654
No 223
>PRK02539 hypothetical protein; Provisional
Probab=22.66 E-value=53 Score=30.02 Aligned_cols=20 Identities=15% Similarity=0.436 Sum_probs=16.4
Q ss_pred HHHHHHHHHhhhhhhhhHHH
Q 001475 721 TVCENLKQKYLSGFSVKLSV 740 (1071)
Q Consensus 721 ~~~~~~~~~y~~~~~~~~~~ 740 (1071)
++-+.||+.||..|-.++..
T Consensus 27 ~Eq~~LR~eYl~~fR~~~~~ 46 (85)
T PRK02539 27 VEQAKLREEYIEGYRRSVRH 46 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 67788999999988777665
No 224
>PF12387 Peptidase_C74: Pestivirus NS2 peptidase; InterPro: IPR022120 The pestivirus NS2 peptidase is responsible for single cleavage between NS2 and NS3 of the Bovine viral diarrhea virus 1 polyprotein, a cleavage that is correlated with cytopathogenicity []. The peptidase is activated by its interaction with 'J-domain protein interacting with viral protein' - Jiv. ; GO: 0003968 RNA-directed RNA polymerase activity, 0004197 cysteine-type endopeptidase activity, 0004252 serine-type endopeptidase activity, 0016817 hydrolase activity, acting on acid anhydrides, 0017111 nucleoside-triphosphatase activity, 0070008 serine-type exopeptidase activity
Probab=22.22 E-value=77 Score=32.58 Aligned_cols=65 Identities=20% Similarity=0.424 Sum_probs=34.2
Q ss_pred cCcchhH--HHHHhHHHHHH---HHHHHHHHHHHHHHhhhcCCChHhhhh------ccccccc---cCC-CCCCcccccc
Q 001475 809 RSISGLT--YHIQSSLDQLE---ASRKTLLDRLLEIDQTMEKPKEEDMDR------MRHCRIC---YGV-GDGPICVHCE 873 (1071)
Q Consensus 809 ~~~~gL~--~~l~~~l~~L~---~~R~~~~~~l~~l~~~~~~p~~~~ve~------~~~C~~c---~~~-~~~~~C~~C~ 873 (1071)
....||+ |+|+..+.+|- +-|.+++.+--+=.....-|+---|-+ ..+|-+| -.+ -+|..|+-|-
T Consensus 103 eE~kGlKKFflLS~R~r~LiiKHKVrNe~v~~Wf~EeEvyGmpKi~~iika~tLsk~~hcilCtvCe~r~w~g~~CPKCG 182 (200)
T PF12387_consen 103 EESKGLKKFFLLSGRVRNLIIKHKVRNETVASWFGEEEVYGMPKIITIIKAATLSKSKHCILCTVCEGREWKGGNCPKCG 182 (200)
T ss_pred hhhcCcceeeeehhHHHHHHHHhHhhhHHHHHHcccccccCcchhhhhhhHHhccCCCceEEEeeeecCccCCCCCCccc
Confidence 3455665 88888888884 566666665532222222243322222 3445544 322 2566788873
No 225
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=21.97 E-value=1.2e+02 Score=37.11 Aligned_cols=90 Identities=20% Similarity=0.226 Sum_probs=57.1
Q ss_pred cEEEEeCch-hHHHHHHHHHHhc--CCCCCeEEEEeCCCCCccccccccchhhhcCCcEEEEeHHHHHhhcccCCCCCcc
Q 001475 249 ATLIVCPAP-ILAQWDAEITRHT--RPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEG 325 (1071)
Q Consensus 249 ~tLIV~P~S-Ll~qW~~Ei~k~~--~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dVVItTY~~l~~d~~~~~~~~~~ 325 (1071)
..+||.|.- |..|=..|..+.. ...++++.-+....... .......-..||++|.|--.+...+......
T Consensus 211 ~a~Il~ptreLa~Qi~re~~k~~~~~~t~~~a~~~~~~~~~~----qk~a~~~~~k~dili~TP~ri~~~~~~~~~~--- 283 (593)
T KOG0344|consen 211 RALILSPTRELAAQIYREMRKYSIDEGTSLRAAQFSKPAYPS----QKPAFLSDEKYDILISTPMRIVGLLGLGKLN--- 283 (593)
T ss_pred EEEEecchHHHHHHHHHHHHhcCCCCCCchhhhhcccccchh----hccchhHHHHHHHHhcCHHHHHHHhcCCCcc---
Confidence 578999975 7789999999987 33344444433332111 1223344467899999988888776432110
Q ss_pred hhhhhhhcccCCCccccccccccceEEeccccccCCh
Q 001475 326 DRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESN 362 (1071)
Q Consensus 326 ~~~~~r~~kr~~~~~s~L~~i~w~rVIlDEAH~iKN~ 362 (1071)
-.|..+.| +|+|||.++-++
T Consensus 284 ---------------idl~~V~~--lV~dEaD~lfe~ 303 (593)
T KOG0344|consen 284 ---------------IDLSKVEW--LVVDEADLLFEP 303 (593)
T ss_pred ---------------chhheeee--EeechHHhhhCh
Confidence 12445544 788999999888
No 226
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=21.64 E-value=4.8e+02 Score=30.17 Aligned_cols=21 Identities=24% Similarity=0.200 Sum_probs=16.7
Q ss_pred eeecCCCCCHHHHHHHHHHHc
Q 001475 110 ILADEMGLGKTVELLACIFAH 130 (1071)
Q Consensus 110 ILADEMGLGKTvq~LalIl~~ 130 (1071)
++.-..|.|||..+.++....
T Consensus 26 Lf~G~~G~GK~~~A~~~A~~l 46 (328)
T PRK05707 26 LLHGPAGIGKRALAERLAAAL 46 (328)
T ss_pred eeECCCCCCHHHHHHHHHHHH
Confidence 456678999999998887654
No 227
>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=21.63 E-value=83 Score=39.36 Aligned_cols=39 Identities=21% Similarity=0.173 Sum_probs=31.6
Q ss_pred ccceEEeccccccCChHHHHHHHHHhcccCceEEEeCcCCC
Q 001475 347 FWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQ 387 (1071)
Q Consensus 347 ~w~rVIlDEAH~iKN~~S~~~kal~~L~a~~Rw~LTGTPiq 387 (1071)
.+++||+|||-|+-.+ ...+.+..++...|++|.|=|-|
T Consensus 259 ~~dvlIiDEaSMvd~~--l~~~ll~al~~~~rlIlvGD~~Q 297 (586)
T TIGR01447 259 PLDVLVVDEASMVDLP--LMAKLLKALPPNTKLILLGDKNQ 297 (586)
T ss_pred cccEEEEcccccCCHH--HHHHHHHhcCCCCEEEEECChhh
Confidence 5899999999999643 45566777888899999997765
No 228
>COG4646 DNA methylase [Transcription / DNA replication, recombination, and repair]
Probab=21.24 E-value=43 Score=39.66 Aligned_cols=31 Identities=23% Similarity=0.535 Sum_probs=27.5
Q ss_pred cCceEEEeCcCCCCChhhhhccccccCCCCC
Q 001475 375 AKHRWCITGTPIQRKLDDLYGLLRFLKSSPF 405 (1071)
Q Consensus 375 a~~Rw~LTGTPiqN~l~DL~~LL~FL~p~~~ 405 (1071)
+++-.+.||||+.|.+.|+|++-++|.++.+
T Consensus 473 G~~L~l~sgTpi~ntlgem~~vqRyl~~~al 503 (637)
T COG4646 473 GRALVLASGTPITNTLGEMFSVQRYLGAGAL 503 (637)
T ss_pred CCeEEecCCCchhhhHHhhhhhhhhcCccHH
Confidence 4666889999999999999999999999853
No 229
>PRK01546 hypothetical protein; Provisional
Probab=21.10 E-value=60 Score=29.32 Aligned_cols=20 Identities=25% Similarity=0.522 Sum_probs=16.4
Q ss_pred HHHHHHHHHhhhhhhhhHHH
Q 001475 721 TVCENLKQKYLSGFSVKLSV 740 (1071)
Q Consensus 721 ~~~~~~~~~y~~~~~~~~~~ 740 (1071)
++-+.||+.||..|-.++.+
T Consensus 28 ~Eq~~LR~eYl~~fR~~~~~ 47 (79)
T PRK01546 28 RERQSLREQYLKGFRQNMLN 47 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 67788999999988776665
Done!