Query 037641
Match_columns 208
No_of_seqs 132 out of 1463
Neff 7.1
Searched_HMMs 46136
Date Fri Mar 29 03:00:53 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037641.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/037641hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1803 DNA helicase [Replicat 100.0 8.4E-36 1.8E-40 273.5 10.6 182 4-196 193-421 (649)
2 KOG1802 RNA helicase nonsense 100.0 3.7E-34 8.1E-39 264.2 11.6 166 20-194 435-630 (935)
3 KOG1805 DNA replication helica 100.0 6.4E-32 1.4E-36 257.3 12.7 178 5-197 677-860 (1100)
4 TIGR00376 DNA helicase, putati 100.0 3E-29 6.6E-34 237.9 13.1 158 19-196 182-422 (637)
5 PF13086 AAA_11: AAA domain; P 100.0 9.4E-28 2E-32 197.4 11.9 151 19-176 26-236 (236)
6 KOG1804 RNA helicase [RNA proc 99.9 3.3E-25 7.1E-30 211.0 2.1 178 23-208 341-525 (775)
7 COG1112 Superfamily I DNA and 99.7 8.6E-17 1.9E-21 154.6 11.4 165 24-196 309-551 (767)
8 KOG1807 Helicases [Replication 99.4 2.3E-13 5E-18 128.7 2.7 92 104-199 696-789 (1025)
9 PF13604 AAA_30: AAA domain; P 99.2 1.4E-11 3E-16 101.5 6.0 47 129-176 93-140 (196)
10 KOG1801 tRNA-splicing endonucl 99.2 1.4E-11 3E-16 120.5 5.9 86 106-194 514-599 (827)
11 TIGR01447 recD exodeoxyribonuc 99.1 5.2E-10 1.1E-14 105.9 11.1 47 128-175 258-304 (586)
12 PRK10875 recD exonuclease V su 99.1 4.4E-10 9.4E-15 106.9 9.8 46 129-175 265-310 (615)
13 KOG1806 DEAD box containing he 99.0 3.9E-10 8.4E-15 109.6 3.8 90 105-194 966-1062(1320)
14 KOG1804 RNA helicase [RNA proc 98.9 1.1E-09 2.4E-14 105.4 3.2 167 23-192 154-326 (775)
15 TIGR02768 TraA_Ti Ti-type conj 98.7 8.3E-08 1.8E-12 93.4 8.8 108 19-176 377-486 (744)
16 TIGR01448 recD_rel helicase, p 98.6 1.6E-07 3.4E-12 91.2 8.8 113 19-175 347-461 (720)
17 PRK13889 conjugal transfer rel 98.6 1E-07 2.2E-12 94.9 7.0 107 18-174 370-478 (988)
18 PRK13826 Dtr system oriT relax 98.5 3.6E-07 7.9E-12 91.6 8.4 108 19-176 406-515 (1102)
19 PRK14712 conjugal transfer nic 98.3 2.5E-06 5.4E-11 88.2 8.1 48 129-176 930-977 (1623)
20 PRK13709 conjugal transfer nic 98.2 2.8E-06 6E-11 88.7 8.2 47 129-175 1062-1108(1747)
21 TIGR02760 TraI_TIGR conjugativ 98.1 8.7E-06 1.9E-10 86.4 8.1 46 129-174 1112-1157(1960)
22 TIGR02760 TraI_TIGR conjugativ 98.1 1.3E-05 2.8E-10 85.1 9.3 120 20-176 456-576 (1960)
23 PF07652 Flavi_DEAD: Flaviviru 98.1 2.9E-05 6.2E-10 61.2 8.6 105 15-151 12-116 (148)
24 PF05970 PIF1: PIF1-like helic 98.0 9.3E-06 2E-10 72.9 6.3 38 16-54 28-66 (364)
25 cd00046 DEXDc DEAD-like helica 97.8 0.00025 5.5E-09 52.2 10.2 109 18-146 11-120 (144)
26 PF13245 AAA_19: Part of AAA d 97.4 0.0004 8.7E-09 48.7 5.5 41 18-58 18-62 (76)
27 PF01443 Viral_helicase1: Vira 97.2 0.00023 4.9E-09 58.9 2.7 46 129-176 62-107 (234)
28 smart00487 DEXDc DEAD-like hel 97.1 0.0045 9.7E-08 48.3 9.0 130 20-168 34-172 (201)
29 PF00176 SNF2_N: SNF2 family N 96.8 0.002 4.3E-08 54.8 5.1 134 16-172 34-178 (299)
30 KOG0385 Chromatin remodeling c 96.6 0.0066 1.4E-07 59.0 7.4 132 16-168 195-329 (971)
31 PLN03142 Probable chromatin-re 96.5 0.0097 2.1E-07 60.2 8.2 134 16-170 197-333 (1033)
32 PRK04914 ATP-dependent helicas 96.5 0.022 4.9E-07 57.2 10.5 136 16-172 178-321 (956)
33 PRK10536 hypothetical protein; 96.4 0.0036 7.7E-08 54.0 3.6 40 130-170 177-216 (262)
34 KOG0389 SNF2 family DNA-depend 96.3 0.009 2E-07 58.2 6.5 135 16-169 427-565 (941)
35 COG4096 HsdR Type I site-speci 96.3 0.013 2.8E-07 57.4 7.6 92 24-142 201-298 (875)
36 COG4098 comFA Superfamily II D 96.3 0.018 4E-07 51.5 7.8 88 16-139 125-212 (441)
37 PF04851 ResIII: Type III rest 96.3 0.013 2.8E-07 45.9 6.2 120 20-151 35-168 (184)
38 PHA02558 uvsW UvsW helicase; P 96.1 0.055 1.2E-06 50.6 10.7 97 21-146 140-239 (501)
39 cd00268 DEADc DEAD-box helicas 96.0 0.079 1.7E-06 42.7 9.7 112 20-150 46-164 (203)
40 TIGR00603 rad25 DNA repair hel 96.0 0.09 1.9E-06 51.5 11.5 119 21-168 284-413 (732)
41 PHA03368 DNA packaging termina 95.9 0.081 1.8E-06 51.2 10.6 121 17-166 264-389 (738)
42 COG1111 MPH1 ERCC4-like helica 95.8 0.044 9.6E-07 51.1 8.3 107 23-151 42-153 (542)
43 PRK11664 ATP-dependent RNA hel 95.7 0.061 1.3E-06 53.4 9.3 89 38-149 48-137 (812)
44 TIGR01970 DEAH_box_HrpB ATP-de 95.6 0.074 1.6E-06 52.8 9.3 90 37-149 44-134 (819)
45 PRK13766 Hef nuclease; Provisi 95.6 0.12 2.5E-06 50.7 10.7 109 21-151 40-153 (773)
46 COG1061 SSL2 DNA or RNA helica 95.5 0.052 1.1E-06 50.1 7.5 96 21-145 66-162 (442)
47 PF00270 DEAD: DEAD/DEAH box h 95.5 0.075 1.6E-06 41.2 7.4 103 21-143 25-133 (169)
48 PRK11448 hsdR type I restricti 95.4 0.042 9.1E-07 56.3 7.3 103 20-142 443-553 (1123)
49 KOG0387 Transcription-coupled 95.4 0.14 3.1E-06 50.1 10.3 65 105-170 314-379 (923)
50 PF02562 PhoH: PhoH-like prote 94.9 0.023 5E-07 47.3 3.0 63 103-172 99-161 (205)
51 PF09848 DUF2075: Uncharacteri 94.7 0.12 2.6E-06 46.0 7.4 44 17-60 8-53 (352)
52 PRK10917 ATP-dependent DNA hel 94.7 0.094 2E-06 51.0 7.2 101 20-140 292-394 (681)
53 PF00580 UvrD-helicase: UvrD/R 94.5 0.023 5E-07 48.4 2.2 44 17-61 23-68 (315)
54 TIGR00643 recG ATP-dependent D 94.4 0.15 3.3E-06 49.1 7.6 99 20-140 266-368 (630)
55 PHA03372 DNA packaging termina 94.3 0.27 5.9E-06 47.2 9.0 122 18-166 213-336 (668)
56 KOG1807 Helicases [Replication 94.2 0.064 1.4E-06 52.5 4.7 55 19-74 402-462 (1025)
57 PHA03333 putative ATPase subun 93.8 0.54 1.2E-05 45.9 10.0 132 16-168 196-333 (752)
58 TIGR00595 priA primosomal prot 93.8 0.26 5.6E-06 46.3 7.8 94 21-141 8-105 (505)
59 COG1875 NYN ribonuclease and A 93.6 0.052 1.1E-06 49.1 2.5 40 131-171 353-392 (436)
60 PF00580 UvrD-helicase: UvrD/R 93.5 0.13 2.8E-06 43.8 4.8 58 128-193 255-312 (315)
61 PRK11192 ATP-dependent RNA hel 93.4 0.56 1.2E-05 42.7 9.3 104 21-143 49-161 (434)
62 PF02399 Herpes_ori_bp: Origin 93.4 0.18 3.9E-06 49.8 6.2 43 17-60 56-100 (824)
63 TIGR00580 mfd transcription-re 93.3 0.26 5.6E-06 49.7 7.3 99 20-140 482-584 (926)
64 PRK11634 ATP-dependent RNA hel 92.9 0.52 1.1E-05 45.5 8.5 104 20-144 53-164 (629)
65 PTZ00424 helicase 45; Provisio 92.8 0.85 1.8E-05 40.7 9.3 105 20-143 75-184 (401)
66 COG0507 RecD ATP-dependent exo 92.7 0.062 1.4E-06 52.1 2.0 47 129-176 407-453 (696)
67 PRK05580 primosome assembly pr 92.5 0.79 1.7E-05 44.7 9.1 94 21-141 173-270 (679)
68 PRK10590 ATP-dependent RNA hel 92.4 0.74 1.6E-05 42.4 8.5 86 39-145 76-165 (456)
69 PRK04837 ATP-dependent RNA hel 92.3 0.83 1.8E-05 41.5 8.7 88 38-144 83-172 (423)
70 PRK09401 reverse gyrase; Revie 92.3 0.42 9.1E-06 49.4 7.3 107 21-142 106-214 (1176)
71 PRK02362 ski2-like helicase; P 92.0 1.4 3.1E-05 43.1 10.5 100 21-144 50-152 (737)
72 COG3972 Superfamily I DNA and 91.8 0.96 2.1E-05 42.7 8.3 134 16-169 182-334 (660)
73 TIGR01587 cas3_core CRISPR-ass 91.7 0.32 6.9E-06 42.9 5.1 43 21-63 10-54 (358)
74 PRK10689 transcription-repair 91.5 0.65 1.4E-05 47.9 7.7 99 20-140 631-733 (1147)
75 PRK01172 ski2-like helicase; P 90.7 2.5 5.5E-05 40.9 10.6 100 21-144 48-150 (674)
76 PRK14873 primosome assembly pr 90.6 2 4.3E-05 41.9 9.7 89 25-139 177-267 (665)
77 PRK11776 ATP-dependent RNA hel 90.6 1.1 2.3E-05 41.3 7.6 107 20-144 51-162 (460)
78 KOG1002 Nucleotide excision re 90.5 1.3 2.9E-05 41.8 8.0 125 21-170 215-358 (791)
79 TIGR00348 hsdR type I site-spe 90.3 3.1 6.6E-05 40.5 10.8 121 21-166 274-402 (667)
80 TIGR00609 recB exodeoxyribonuc 90.1 0.37 7.9E-06 49.4 4.4 48 13-61 15-65 (1087)
81 PRK04537 ATP-dependent RNA hel 90.1 1 2.2E-05 43.0 7.2 88 38-144 84-174 (572)
82 TIGR00963 secA preprotein tran 90.1 1.4 3.1E-05 43.4 8.2 112 20-151 79-198 (745)
83 PHA02533 17 large terminase pr 90.0 5.7 0.00012 37.8 12.0 124 15-167 82-210 (534)
84 COG1074 RecB ATP-dependent exo 89.9 0.27 5.9E-06 50.6 3.3 43 17-60 26-71 (1139)
85 PRK11054 helD DNA helicase IV; 89.7 0.47 1E-05 46.3 4.6 40 24-63 225-266 (684)
86 TIGR01073 pcrA ATP-dependent D 89.4 0.43 9.2E-06 46.7 4.1 41 23-63 32-74 (726)
87 TIGR01075 uvrD DNA helicase II 89.3 0.42 9E-06 46.7 4.0 40 24-63 33-74 (715)
88 KOG0390 DNA repair protein, SN 89.3 2.8 6.1E-05 41.5 9.5 137 16-169 272-417 (776)
89 PRK10919 ATP-dependent DNA hel 89.2 0.45 9.8E-06 46.3 4.1 40 24-63 31-72 (672)
90 TIGR01054 rgy reverse gyrase. 89.0 1 2.2E-05 46.7 6.6 105 21-143 104-213 (1171)
91 TIGR03714 secA2 accessory Sec 88.9 2 4.3E-05 42.5 8.2 120 20-167 93-223 (762)
92 PRK14701 reverse gyrase; Provi 88.8 1.2 2.6E-05 47.6 7.1 107 21-143 105-214 (1638)
93 TIGR01074 rep ATP-dependent DN 88.5 0.49 1.1E-05 45.6 3.8 41 23-63 29-71 (664)
94 PRK11773 uvrD DNA-dependent he 88.1 0.53 1.2E-05 46.1 3.8 40 24-63 38-79 (721)
95 KOG0331 ATP-dependent RNA heli 87.9 2.4 5.1E-05 40.1 7.7 101 21-143 139-253 (519)
96 COG1200 RecG RecG-like helicas 87.9 2 4.2E-05 41.8 7.3 100 21-140 294-395 (677)
97 PRK12898 secA preprotein trans 87.9 3.4 7.3E-05 40.3 9.0 40 20-59 126-165 (656)
98 TIGR03817 DECH_helic helicase/ 87.2 3.6 7.9E-05 40.6 9.0 41 21-61 62-104 (742)
99 PRK04296 thymidine kinase; Pro 87.0 0.93 2E-05 36.8 4.1 41 128-169 77-118 (190)
100 PRK12899 secA preprotein trans 86.9 3.4 7.3E-05 41.8 8.5 112 20-151 117-237 (970)
101 PRK13104 secA preprotein trans 86.6 2.8 6.1E-05 42.1 7.8 111 20-150 105-223 (896)
102 PRK10919 ATP-dependent DNA hel 86.3 1 2.2E-05 43.9 4.5 41 128-169 206-246 (672)
103 TIGR01967 DEAH_box_HrpA ATP-de 86.2 4.6 9.9E-05 42.3 9.4 89 38-149 111-200 (1283)
104 PTZ00110 helicase; Provisional 86.0 3 6.6E-05 39.5 7.5 105 21-144 178-292 (545)
105 PRK13709 conjugal transfer nic 85.3 0.93 2E-05 48.6 4.0 38 131-170 502-541 (1747)
106 PRK09200 preprotein translocas 85.2 2.7 5.8E-05 41.8 6.9 106 21-145 102-215 (790)
107 PRK11131 ATP-dependent RNA hel 84.0 3.6 7.8E-05 43.0 7.4 88 39-149 119-207 (1294)
108 KOG0354 DEAD-box like helicase 83.4 8.5 0.00018 38.0 9.3 45 102-146 150-196 (746)
109 PRK11054 helD DNA helicase IV; 82.4 1.9 4E-05 42.2 4.5 40 129-169 430-471 (684)
110 PLN00206 DEAD-box ATP-dependen 81.9 10 0.00023 35.6 9.2 39 105-143 245-284 (518)
111 PRK10876 recB exonuclease V su 81.9 1.9 4.1E-05 44.8 4.5 38 23-60 32-79 (1181)
112 TIGR01075 uvrD DNA helicase II 81.8 2.2 4.7E-05 41.8 4.7 40 128-168 207-246 (715)
113 COG1204 Superfamily II helicas 81.4 16 0.00035 36.4 10.6 85 38-144 76-161 (766)
114 PRK01297 ATP-dependent RNA hel 81.2 7.2 0.00016 36.0 7.8 106 20-144 134-252 (475)
115 TIGR02784 addA_alphas double-s 80.7 1.9 4.1E-05 44.5 4.1 42 128-169 390-441 (1141)
116 PRK13909 putative recombinatio 80.4 1.8 3.9E-05 43.6 3.7 42 128-169 327-376 (910)
117 PHA02653 RNA helicase NPH-II; 80.3 7.8 0.00017 37.9 7.9 25 38-62 222-246 (675)
118 COG1643 HrpA HrpA-like helicas 79.3 7.7 0.00017 39.0 7.6 91 38-151 94-185 (845)
119 PRK11773 uvrD DNA-dependent he 79.3 3.3 7.1E-05 40.6 5.1 40 128-168 212-251 (721)
120 COG0210 UvrD Superfamily I DNA 79.0 2.6 5.6E-05 40.5 4.2 45 18-63 26-72 (655)
121 TIGR02785 addA_Gpos recombinat 78.6 2.6 5.7E-05 43.9 4.3 41 129-169 388-430 (1232)
122 COG1198 PriA Primosomal protei 78.2 5.9 0.00013 39.1 6.4 88 25-139 234-323 (730)
123 TIGR01074 rep ATP-dependent DN 78.1 3.6 7.9E-05 39.7 4.9 40 128-168 205-244 (664)
124 TIGR01547 phage_term_2 phage t 77.7 12 0.00026 33.6 7.9 46 17-62 11-57 (396)
125 TIGR01073 pcrA ATP-dependent D 77.2 3.3 7E-05 40.6 4.4 40 128-168 208-247 (726)
126 PRK00254 ski2-like helicase; P 77.1 11 0.00024 36.9 8.0 101 21-144 50-153 (720)
127 PF05127 Helicase_RecD: Helica 76.4 2.2 4.7E-05 34.7 2.5 24 39-62 27-50 (177)
128 KOG0335 ATP-dependent RNA heli 76.2 15 0.00033 34.4 8.2 110 16-143 120-240 (482)
129 PRK12904 preprotein translocas 73.8 16 0.00034 36.8 8.0 106 20-145 104-217 (830)
130 COG1110 Reverse gyrase [DNA re 73.4 14 0.0003 37.9 7.6 100 23-139 110-213 (1187)
131 PRK13107 preprotein translocas 72.7 8.5 0.00018 38.8 5.9 38 20-57 105-142 (908)
132 TIGR03158 cas3_cyano CRISPR-as 72.3 20 0.00044 31.9 7.9 110 20-138 24-154 (357)
133 PRK10876 recB exonuclease V su 71.6 5 0.00011 41.8 4.2 41 128-169 376-418 (1181)
134 KOG0922 DEAH-box RNA helicase 70.9 15 0.00032 35.8 6.9 118 40-195 97-217 (674)
135 KOG0388 SNF2 family DNA-depend 70.5 11 0.00024 37.4 6.0 138 16-169 595-736 (1185)
136 PRK13103 secA preprotein trans 70.0 21 0.00046 36.1 8.0 104 21-145 106-218 (913)
137 COG0513 SrmB Superfamily II DN 69.9 20 0.00044 33.7 7.6 107 20-144 76-189 (513)
138 KOG0330 ATP-dependent RNA heli 68.4 7.9 0.00017 35.6 4.3 130 17-167 108-245 (476)
139 PF09949 DUF2183: Uncharacteri 67.0 3.4 7.5E-05 30.4 1.5 26 156-181 63-88 (100)
140 TIGR00609 recB exodeoxyribonuc 66.3 8.2 0.00018 39.8 4.5 41 128-169 295-337 (1087)
141 PRK12326 preprotein translocas 66.0 24 0.00052 35.0 7.3 112 20-151 101-220 (764)
142 KOG0920 ATP-dependent RNA heli 64.9 26 0.00057 35.6 7.5 44 18-62 199-243 (924)
143 PF03354 Terminase_1: Phage Te 63.6 77 0.0017 29.4 10.1 44 19-62 34-78 (477)
144 PRK14712 conjugal transfer nic 63.0 7.1 0.00015 41.8 3.4 38 131-171 370-409 (1623)
145 TIGR00614 recQ_fam ATP-depende 62.1 8.5 0.00018 35.6 3.4 37 21-60 37-73 (470)
146 KOG0987 DNA helicase PIF1/RRM3 61.6 4.7 0.0001 38.3 1.7 45 131-176 218-271 (540)
147 cd00561 CobA_CobO_BtuR ATP:cor 61.0 12 0.00027 29.8 3.7 40 127-166 93-137 (159)
148 PRK13909 putative recombinatio 60.5 15 0.00033 37.1 5.1 48 14-62 5-53 (910)
149 PRK13767 ATP-dependent helicas 59.9 13 0.00027 37.5 4.4 40 21-60 58-106 (876)
150 KOG0392 SNF2 family DNA-depend 58.2 34 0.00074 36.0 7.0 145 16-193 1003-1155(1549)
151 KOG1123 RNA polymerase II tran 56.7 33 0.00071 32.9 6.2 78 38-140 345-433 (776)
152 TIGR00580 mfd transcription-re 55.9 1.1E+02 0.0024 31.2 10.3 124 23-172 647-776 (926)
153 PRK14958 DNA polymerase III su 54.1 10 0.00022 35.8 2.6 49 128-176 118-169 (509)
154 KOG4439 RNA polymerase II tran 53.5 8.3 0.00018 38.0 1.9 69 101-170 426-505 (901)
155 TIGR00708 cobA cob(I)alamin ad 53.4 21 0.00046 28.9 3.9 40 127-167 95-140 (173)
156 PRK12906 secA preprotein trans 52.7 43 0.00093 33.6 6.7 39 21-59 104-142 (796)
157 KOG0386 Chromatin remodeling c 52.6 15 0.00032 37.6 3.5 62 105-168 492-556 (1157)
158 KOG0384 Chromodomain-helicase 52.3 54 0.0012 34.4 7.3 134 16-168 398-537 (1373)
159 TIGR02784 addA_alphas double-s 52.3 25 0.00055 36.4 5.2 46 16-62 19-65 (1141)
160 COG1074 RecB ATP-dependent exo 51.6 21 0.00046 37.1 4.6 41 128-169 377-421 (1139)
161 PRK08769 DNA polymerase III su 51.5 13 0.00028 33.0 2.6 49 128-176 112-163 (319)
162 COG1111 MPH1 ERCC4-like helica 50.4 1.8E+02 0.0038 27.8 9.9 94 25-139 353-453 (542)
163 KOG0953 Mitochondrial RNA heli 48.2 9.4 0.0002 36.7 1.3 76 106-192 259-340 (700)
164 KOG0391 SNF2 family DNA-depend 47.7 33 0.00071 36.2 5.0 43 125-168 733-777 (1958)
165 PRK05986 cob(I)alamin adenolsy 47.6 20 0.00044 29.5 3.0 40 127-166 113-157 (191)
166 COG1197 Mfd Transcription-repa 47.6 72 0.0016 33.3 7.4 100 17-139 625-726 (1139)
167 PRK11057 ATP-dependent DNA hel 46.1 77 0.0017 30.5 7.2 37 21-60 51-87 (607)
168 PF06733 DEAD_2: DEAD_2; Inte 45.8 6.1 0.00013 31.3 -0.3 41 101-142 114-158 (174)
169 smart00489 DEXDc3 DEAD-like he 44.9 20 0.00044 31.0 2.8 45 93-138 198-245 (289)
170 smart00488 DEXDc2 DEAD-like he 44.9 20 0.00044 31.0 2.8 45 93-138 198-245 (289)
171 COG0210 UvrD Superfamily I DNA 44.3 35 0.00075 32.8 4.6 41 128-169 212-252 (655)
172 KOG0350 DEAD-box ATP-dependent 44.2 83 0.0018 30.1 6.7 43 106-151 270-319 (620)
173 PRK07246 bifunctional ATP-depe 44.0 16 0.00034 36.6 2.2 37 20-57 274-310 (820)
174 PRK09751 putative ATP-dependen 43.7 81 0.0017 34.0 7.3 115 20-143 6-138 (1490)
175 TIGR01389 recQ ATP-dependent D 41.8 1.2E+02 0.0025 29.0 7.7 37 21-60 39-75 (591)
176 PF00265 TK: Thymidine kinase; 41.4 31 0.00068 27.7 3.2 34 129-164 76-110 (176)
177 COG1202 Superfamily II helicas 41.2 83 0.0018 30.8 6.3 104 20-143 242-352 (830)
178 KOG0781 Signal recognition par 40.9 37 0.00081 32.2 4.0 45 127-176 464-511 (587)
179 PF13173 AAA_14: AAA domain 40.8 36 0.00079 25.2 3.4 36 129-166 61-98 (128)
180 PRK14969 DNA polymerase III su 39.9 31 0.00067 32.7 3.4 49 128-176 118-169 (527)
181 PF15609 PRTase_2: Phosphoribo 39.7 32 0.0007 28.4 3.1 32 18-49 130-161 (191)
182 TIGR02785 addA_Gpos recombinat 39.3 42 0.0009 35.2 4.5 38 24-61 30-68 (1232)
183 cd06533 Glyco_transf_WecG_TagA 39.2 1.1E+02 0.0025 24.2 6.2 48 20-68 29-76 (171)
184 PF02572 CobA_CobO_BtuR: ATP:c 38.7 47 0.001 26.8 3.8 42 126-167 93-139 (172)
185 PRK11747 dinG ATP-dependent DN 38.7 28 0.00061 34.1 3.0 54 93-146 206-263 (697)
186 COG1444 Predicted P-loop ATPas 38.2 34 0.00073 34.0 3.4 61 131-202 325-398 (758)
187 PRK06964 DNA polymerase III su 37.8 36 0.00077 30.5 3.3 50 127-176 130-182 (342)
188 PRK08058 DNA polymerase III su 37.4 27 0.00059 30.8 2.5 49 128-176 109-160 (329)
189 KOG0923 mRNA splicing factor A 37.0 64 0.0014 31.9 5.0 27 37-63 309-335 (902)
190 PF13177 DNA_pol3_delta2: DNA 36.8 32 0.00069 27.0 2.6 49 128-176 101-152 (162)
191 KOG1132 Helicase of the DEAD s 36.8 1.6E+02 0.0036 29.9 7.8 34 39-72 111-144 (945)
192 PRK12323 DNA polymerase III su 36.5 26 0.00057 34.4 2.4 49 127-176 122-174 (700)
193 KOG2108 3'-5' DNA helicase [Re 36.3 18 0.00039 36.2 1.3 38 129-169 441-478 (853)
194 PRK07994 DNA polymerase III su 35.9 33 0.00071 33.5 2.9 47 128-176 118-169 (647)
195 PF03808 Glyco_tran_WecB: Glyc 35.5 1.3E+02 0.0028 23.8 6.0 47 21-68 32-78 (172)
196 PRK08691 DNA polymerase III su 35.4 43 0.00093 33.1 3.6 49 128-176 118-169 (709)
197 KOG0989 Replication factor C, 35.4 51 0.0011 29.5 3.8 50 126-176 126-179 (346)
198 PRK10113 cell division modulat 35.2 27 0.0006 24.0 1.6 24 156-179 42-65 (80)
199 PRK06871 DNA polymerase III su 35.2 35 0.00076 30.4 2.8 50 127-176 105-157 (325)
200 PRK10689 transcription-repair 35.1 1.7E+02 0.0037 30.7 8.1 96 25-145 798-895 (1147)
201 PRK05707 DNA polymerase III su 34.9 41 0.00089 29.8 3.2 49 128-176 105-156 (328)
202 PRK07399 DNA polymerase III su 33.9 38 0.00082 29.9 2.8 48 128-176 123-173 (314)
203 COG1199 DinG Rad3-related DNA 33.6 65 0.0014 31.0 4.6 41 20-60 44-85 (654)
204 TIGR01407 dinG_rel DnaQ family 33.5 35 0.00077 34.2 2.8 38 20-57 274-311 (850)
205 COG1702 PhoH Phosphate starvat 33.4 35 0.00075 30.8 2.5 44 131-176 245-291 (348)
206 KOG4284 DEAD box protein [Tran 32.6 27 0.00059 34.4 1.7 46 101-146 138-184 (980)
207 PRK14951 DNA polymerase III su 32.4 37 0.00081 33.0 2.7 48 128-176 123-174 (618)
208 COG0279 GmhA Phosphoheptose is 32.0 64 0.0014 26.2 3.5 35 16-52 21-55 (176)
209 COG0553 HepA Superfamily II DN 31.2 84 0.0018 30.7 5.0 132 15-166 366-510 (866)
210 PLN03025 replication factor C 31.1 54 0.0012 28.5 3.3 38 25-62 21-58 (319)
211 PRK05917 DNA polymerase III su 31.1 50 0.0011 29.0 3.1 49 128-176 94-145 (290)
212 TIGR01407 dinG_rel DnaQ family 31.0 83 0.0018 31.6 5.0 44 100-143 410-454 (850)
213 PF05876 Terminase_GpA: Phage 30.8 50 0.0011 31.6 3.2 105 16-142 42-147 (557)
214 PRK12902 secA preprotein trans 30.7 1.7E+02 0.0037 30.0 6.9 37 21-61 109-145 (939)
215 PF03823 Neurokinin_B: Neuroki 30.4 26 0.00056 23.2 0.8 13 183-195 46-58 (59)
216 TIGR03117 cas_csf4 CRISPR-asso 30.2 95 0.0021 30.3 5.0 39 20-58 26-66 (636)
217 PRK14961 DNA polymerase III su 29.7 46 0.00099 29.7 2.7 49 128-176 118-169 (363)
218 TIGR02802 Pal_lipo peptidoglyc 29.6 64 0.0014 23.0 3.0 37 13-49 6-42 (104)
219 COG4889 Predicted helicase [Ge 29.4 37 0.00081 34.8 2.1 37 106-142 280-317 (1518)
220 KOG0329 ATP-dependent RNA heli 29.3 54 0.0012 28.8 2.9 107 16-144 88-200 (387)
221 PRK08451 DNA polymerase III su 29.0 62 0.0013 30.9 3.5 49 128-176 116-167 (535)
222 KOG0952 DNA/RNA helicase MER3/ 28.6 2.8E+02 0.0061 29.1 8.0 43 101-144 206-253 (1230)
223 smart00577 CPDc catalytic doma 28.6 80 0.0017 24.1 3.6 61 106-166 60-124 (148)
224 PF14419 SPOUT_MTase_2: AF2226 28.2 2.1E+02 0.0045 23.2 5.7 79 6-89 62-142 (173)
225 PF13401 AAA_22: AAA domain; P 28.1 58 0.0012 23.6 2.6 36 131-166 89-125 (131)
226 KOG0342 ATP-dependent RNA heli 27.7 2.7E+02 0.0058 26.6 7.2 37 104-143 203-244 (543)
227 PRK07993 DNA polymerase III su 27.6 49 0.0011 29.4 2.5 50 127-176 106-158 (334)
228 PF00165 HTH_AraC: Bacterial r 27.4 34 0.00075 20.3 1.0 21 174-194 11-31 (42)
229 PF03237 Terminase_6: Terminas 27.3 1.1E+02 0.0023 26.1 4.5 41 16-56 6-46 (384)
230 PRK07003 DNA polymerase III su 27.3 70 0.0015 32.2 3.6 49 128-176 118-169 (830)
231 PF04364 DNA_pol3_chi: DNA pol 27.2 1.5E+02 0.0032 22.7 4.8 36 23-60 16-51 (137)
232 PRK14956 DNA polymerase III su 26.1 59 0.0013 30.7 2.8 49 128-176 120-171 (484)
233 PF02374 ArsA_ATPase: Anion-tr 25.9 1E+02 0.0022 27.0 4.1 38 19-56 10-49 (305)
234 COG0470 HolB ATPase involved i 25.2 60 0.0013 27.6 2.5 49 128-176 108-159 (325)
235 PHA01813 hypothetical protein 24.8 19 0.00042 23.3 -0.5 27 181-207 19-46 (58)
236 PRK05563 DNA polymerase III su 24.8 71 0.0015 30.5 3.1 38 25-62 24-62 (559)
237 TIGR00696 wecB_tagA_cpsF bacte 24.5 2.9E+02 0.0063 22.2 6.3 47 21-68 32-78 (177)
238 PRK05818 DNA polymerase III su 24.4 65 0.0014 27.9 2.5 49 128-176 87-138 (261)
239 PRK07276 DNA polymerase III su 24.3 75 0.0016 27.8 2.9 49 128-176 103-154 (290)
240 PRK07414 cob(I)yrinic acid a,c 24.3 1.2E+02 0.0026 24.7 3.9 40 127-166 113-157 (178)
241 TIGR00678 holB DNA polymerase 24.0 66 0.0014 25.4 2.4 49 128-176 95-146 (188)
242 PRK05728 DNA polymerase III su 23.9 2E+02 0.0044 22.1 5.1 35 24-60 17-51 (142)
243 PRK08074 bifunctional ATP-depe 23.3 58 0.0013 33.1 2.3 38 20-57 286-324 (928)
244 PRK09112 DNA polymerase III su 23.3 90 0.0019 28.0 3.3 50 127-176 139-191 (351)
245 TIGR01091 upp uracil phosphori 22.7 1.4E+02 0.0031 24.4 4.3 44 21-67 134-177 (207)
246 PF08445 FR47: FR47-like prote 22.7 2.1E+02 0.0045 19.8 4.5 34 24-58 41-75 (86)
247 PRK06090 DNA polymerase III su 22.6 71 0.0015 28.3 2.5 50 127-176 106-158 (319)
248 PF02863 Arg_repressor_C: Argi 22.6 83 0.0018 21.2 2.3 45 16-60 19-69 (70)
249 CHL00181 cbbX CbbX; Provisiona 22.6 1.1E+02 0.0024 26.5 3.6 39 131-169 124-173 (287)
250 TIGR03172 probable selenium-de 22.1 1.1E+02 0.0024 25.9 3.4 24 24-49 13-36 (232)
251 COG4178 ABC-type uncharacteriz 21.7 96 0.0021 30.2 3.3 44 128-171 532-578 (604)
252 KOG0338 ATP-dependent RNA heli 21.5 5.3E+02 0.011 25.1 8.0 34 107-143 303-341 (691)
253 PF04413 Glycos_transf_N: 3-De 21.5 86 0.0019 25.3 2.6 36 24-59 36-71 (186)
254 COG4820 EutJ Ethanolamine util 21.4 52 0.0011 27.8 1.3 25 184-208 242-266 (277)
255 PF13155 Toprim_2: Toprim-like 21.4 2.1E+02 0.0045 19.7 4.4 46 18-63 27-72 (96)
256 PRK05564 DNA polymerase III su 20.8 85 0.0018 27.2 2.6 49 128-176 92-143 (313)
257 PRK08074 bifunctional ATP-depe 20.6 1.5E+02 0.0034 30.1 4.7 43 99-143 424-469 (928)
258 COG1519 KdtA 3-deoxy-D-manno-o 20.4 1.7E+02 0.0036 27.2 4.4 37 24-60 64-100 (419)
259 PRK14948 DNA polymerase III su 20.3 81 0.0018 30.6 2.6 38 25-62 24-62 (620)
260 PRK14970 DNA polymerase III su 20.2 1E+02 0.0023 27.2 3.1 39 24-62 24-63 (367)
No 1
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=100.00 E-value=8.4e-36 Score=273.51 Aligned_cols=182 Identities=25% Similarity=0.337 Sum_probs=138.9
Q ss_pred hHHHHHHhhcccCCCCchh----HHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCC
Q 037641 4 IAQFELQMRNNSDNLSKTG----LVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDG 79 (208)
Q Consensus 4 ~~~~~~~~~~~~~~~~~t~----~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~ 79 (208)
..+|.+.-++.....|.+| .|++|+|.|++++ ++|||||||||.||||+.+||. ..+..++|+|.+.|.+++
T Consensus 193 Av~~~~~~k~l~~I~GPPGTGKT~TlvEiI~qlvk~--~k~VLVcaPSn~AVdNiverl~--~~~~~l~R~g~paRl~~~ 268 (649)
T KOG1803|consen 193 AVSFAINNKDLLIIHGPPGTGKTRTLVEIISQLVKQ--KKRVLVCAPSNVAVDNIVERLT--HLKLNLVRVGHPARLLES 268 (649)
T ss_pred HHHHHhccCCceEeeCCCCCCceeeHHHHHHHHHHc--CCeEEEEcCchHHHHHHHHHhc--ccccchhhcCchhhhhhh
Confidence 3456666666666666654 3899999999998 6899999999999999999998 356789999999887655
Q ss_pred CCchhhc-cccccC------------------CCc---------cC--c-------c--h----HHHhccCcEEEEcccc
Q 037641 80 VPVDILP-LCLYEG------------------GEC---------FQ--L-------P--S----LQELMRFRVIFSTFTS 116 (208)
Q Consensus 80 ~~~~l~~-~~~~~~------------------~~~---------~~--~-------~--~----~~~l~~~~Vv~~T~~~ 116 (208)
+.+.-.. ..+..+ ... .. + . + ++.+.+++||++|..+
T Consensus 269 ~~~~sld~~~~t~d~~~~~~~~sk~~d~~~~~~~~tk~~~~~~~~~~~i~~lrkdl~kre~~~v~eii~n~~VVfaTl~g 348 (649)
T KOG1803|consen 269 VADHSLDLLSNTKDNSQNAKDISKDIDILFQKNTKTKNDKLRKGIRKEIKLLRKDLRKRERKTVKEIISNSRVVFATLGG 348 (649)
T ss_pred hhhhHHHHHHhcCchhhhhhhhHHHHHHHhhhhhcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccceEEEeccc
Confidence 4221000 000000 000 00 0 0 0 1336789999999999
Q ss_pred cchhhcCCCCCCCCcEEEEecCCCCCchhhhHHHhhcccCCceEEEEcCCCCCCcceechHHhhCCCCccHHHHHHcCCC
Q 037641 117 SFRLHNEGIPAGHFSHIFLLDASSATEPETMIALTNLANEHTTVILTGTPNNRTSWVRSDIARKNGLRVSHFERLHATKT 196 (208)
Q Consensus 117 a~~l~~~~~~~~~Fd~vIIDEAsQa~Epe~liPL~~l~~~~~~vVLvGD~~QL~P~V~s~~a~~~gl~~SLfeRL~~~~~ 196 (208)
|+.. ......||+||||||+||+||+||||+. +.+++||+|||+||||+|.|+.|...||+.|+||||.+.+.
T Consensus 349 a~~~---~~~~~~fD~vIIDEaaQamE~~cWipvl----k~kk~ILaGDp~QLpP~v~S~~a~~~gl~~Sl~erlae~~~ 421 (649)
T KOG1803|consen 349 ALDR---LLRKRTFDLVIIDEAAQAMEPQCWIPVL----KGKKFILAGDPKQLPPTVLSDKAKRGGLQVSLLERLAEKFG 421 (649)
T ss_pred hhhh---hhcccCCCEEEEehhhhhccchhhhHHh----cCCceEEeCCcccCCcccccchhhhccchhhHHHHHHHHcc
Confidence 8752 2344579999999999999999999999 57899999999999999999999999999999999987654
No 2
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=100.00 E-value=3.7e-34 Score=264.24 Aligned_cols=166 Identities=27% Similarity=0.302 Sum_probs=128.1
Q ss_pred chhH--HHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCch--------------
Q 037641 20 KTGL--VVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVD-------------- 83 (208)
Q Consensus 20 ~t~~--Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~-------------- 83 (208)
+||+ |.+++|+|+.+.. ..+||||||||.|||+|++|+++ .+.+++|+-+.+|+.-+-+-.
T Consensus 435 GTGKTvtsa~IVyhl~~~~-~~~VLvcApSNiAVDqLaeKIh~--tgLKVvRl~aksRE~~~S~vs~L~lh~~~~~~~~p 511 (935)
T KOG1802|consen 435 GTGKTVTSATIVYHLARQH-AGPVLVCAPSNIAVDQLAEKIHK--TGLKVVRLCAKSREDIESDVSFLSLHEQLRNMDKP 511 (935)
T ss_pred CCCceehhHHHHHHHHHhc-CCceEEEcccchhHHHHHHHHHh--cCceEeeeehhhhhhccCCccHHHHHHHHhccCcH
Confidence 4666 4567899999884 57999999999999999999997 358899999988864221111
Q ss_pred -hhcccccc-CCCccC---------c---chHHHhccCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCCchhhhHH
Q 037641 84 -ILPLCLYE-GGECFQ---------L---PSLQELMRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSATEPETMIA 149 (208)
Q Consensus 84 -l~~~~~~~-~~~~~~---------~---~~~~~l~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~Epe~liP 149 (208)
++.....+ +++... . ...+.+.++.||||||.+||.. .+....|..|+||||.|++|||+|||
T Consensus 512 ELq~l~klkde~gelS~sD~~k~~~lk~~~e~ell~~AdVIccTcv~Agd~---rl~~~kfr~VLiDEaTQatEpe~LiP 588 (935)
T KOG1802|consen 512 ELQKLLKLKDEGGELSSSDEKKYRKLKRAAEKELLNQADVICCTCVGAGDR---RLSKFKFRTVLIDEATQATEPECLIP 588 (935)
T ss_pred HHHHHHhhhhhcccccchhhHHHHHHHHHHHHHHHhhcCEEEEecccccch---hhccccccEEEEecccccCCcchhhh
Confidence 11100000 111111 0 1234578999999999999953 34445799999999999999999999
Q ss_pred HhhcccCCceEEEEcCCCCCCcceechHHhhCCCCccHHHHHHcC
Q 037641 150 LTNLANEHTTVILTGTPNNRTSWVRSDIARKNGLRVSHFERLHAT 194 (208)
Q Consensus 150 L~~l~~~~~~vVLvGD~~QL~P~V~s~~a~~~gl~~SLfeRL~~~ 194 (208)
|. + .++++||||||+||+|+|..+.+...||+.||||||+..
T Consensus 589 lv-l--G~kq~VlVGDh~QLgpvi~~kK~a~Agl~qsLferli~l 630 (935)
T KOG1802|consen 589 LV-L--GAKQLVLVGDHKQLGPVIMCKKAATAGLSQSLFERLISL 630 (935)
T ss_pred hh-h--cceeEEEeccccccCceeeeHHHHHhHHHHHHHHHHHhc
Confidence 99 4 579999999999999999999999999999999999754
No 3
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=99.97 E-value=6.4e-32 Score=257.27 Aligned_cols=178 Identities=17% Similarity=0.144 Sum_probs=141.8
Q ss_pred HHHHHHhhccc---CCCCchhH--HHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCC
Q 037641 5 AQFELQMRNNS---DNLSKTGL--VVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDG 79 (208)
Q Consensus 5 ~~~~~~~~~~~---~~~~~t~~--Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~ 79 (208)
|-+-+-..+.| .++.+||+ ||+.+|.-|+.. |++||+++.||.|||||+-||.+. +..++|+|+.++
T Consensus 677 A~~k~L~aedy~LI~GMPGTGKTTtI~~LIkiL~~~--gkkVLLtsyThsAVDNILiKL~~~--~i~~lRLG~~~k---- 748 (1100)
T KOG1805|consen 677 ALLKALAAEDYALILGMPGTGKTTTISLLIKILVAL--GKKVLLTSYTHSAVDNILIKLKGF--GIYILRLGSEEK---- 748 (1100)
T ss_pred HHHHHHhccchheeecCCCCCchhhHHHHHHHHHHc--CCeEEEEehhhHHHHHHHHHHhcc--CcceeecCCccc----
Confidence 33334444443 35566775 788888888886 789999999999999999999973 355899998765
Q ss_pred CCchhhccccccCCCccCcch-HHHhccCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCCchhhhHHHhhcccCCc
Q 037641 80 VPVDILPLCLYEGGECFQLPS-LQELMRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSATEPETMIALTNLANEHT 158 (208)
Q Consensus 80 ~~~~l~~~~~~~~~~~~~~~~-~~~l~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~Epe~liPL~~l~~~~~ 158 (208)
++++++.+|..+....-.... ++.+....||+|||-+.+.+ -|...+||++|||||+|..+|-+|.||. . +.
T Consensus 749 ih~~v~e~~~~~~~s~ks~~~l~~~~~~~~IVa~TClgi~~p---lf~~R~FD~cIiDEASQI~lP~~LgPL~-~---s~ 821 (1100)
T KOG1805|consen 749 IHPDVEEFTLTNETSEKSYADLKKFLDQTSIVACTCLGINHP---LFVNRQFDYCIIDEASQILLPLCLGPLS-F---SN 821 (1100)
T ss_pred cchHHHHHhcccccchhhHHHHHHHhCCCcEEEEEccCCCch---hhhccccCEEEEccccccccchhhhhhh-h---cc
Confidence 788899888633221111222 34577899999999998854 3556789999999999999999999999 4 47
Q ss_pred eEEEEcCCCCCCcceechHHhhCCCCccHHHHHHcCCCC
Q 037641 159 TVILTGTPNNRTSWVRSDIARKNGLRVSHFERLHATKTY 197 (208)
Q Consensus 159 ~vVLvGD~~QL~P~V~s~~a~~~gl~~SLfeRL~~~~~y 197 (208)
+|||||||.||||.|+|..|++.|++.|||+||.+.+|=
T Consensus 822 kFVLVGDh~QLpPLV~s~ear~~Gl~~SLFkrL~e~hpe 860 (1100)
T KOG1805|consen 822 KFVLVGDHYQLPPLVRSSEARQEGLSESLFKRLSEKHPE 860 (1100)
T ss_pred eEEEecccccCCccccchhhhhcCcchHHHHHHhhhCch
Confidence 999999999999999999999999999999999987663
No 4
>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=99.96 E-value=3e-29 Score=237.93 Aligned_cols=158 Identities=27% Similarity=0.304 Sum_probs=116.5
Q ss_pred CchhH--HHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccc------
Q 037641 19 SKTGL--VVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLY------ 90 (208)
Q Consensus 19 ~~t~~--Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~------ 90 (208)
.+||+ |++++|.++++. +.+||+|||||.|||+++++|.+. +..++|+|.+.|....+ .++++.
T Consensus 182 PGTGKT~t~~~ii~~~~~~--g~~VLv~a~sn~Avd~l~e~l~~~--~~~vvRlg~~~r~~~~~----~~~sl~~~~~~~ 253 (637)
T TIGR00376 182 PGTGKTRTLVELIRQLVKR--GLRVLVTAPSNIAVDNLLERLALC--DQKIVRLGHPARLLKSN----KQHSLDYLIENH 253 (637)
T ss_pred CCCCHHHHHHHHHHHHHHc--CCCEEEEcCcHHHHHHHHHHHHhC--CCcEEEeCCchhcchhH----HhccHHHHHhcC
Confidence 34665 588999999886 669999999999999999999874 57899999987733221 111000
Q ss_pred ------------------------cCC----CccC-----------------------------------------cc--
Q 037641 91 ------------------------EGG----ECFQ-----------------------------------------LP-- 99 (208)
Q Consensus 91 ------------------------~~~----~~~~-----------------------------------------~~-- 99 (208)
++. ..+. ..
T Consensus 254 ~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 333 (637)
T TIGR00376 254 PKYQIVADIREKIDELIEERNKKLKPSPQKRRGLSDIKILRKALKKREARGIESLKIASMAEWIETNKSIDRLLKLLPEI 333 (637)
T ss_pred hhHHHHHHHHHHHHHHHHHHHhhccchHhHhhccchHHHHHHHHhhhhhcccchhhhHHHHHHHHhhhhhHHHHHHHHHH
Confidence 000 0000 00
Q ss_pred ----hHHHhccCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCCchhhhHHHhhcccCCceEEEEcCCCCCCcceec
Q 037641 100 ----SLQELMRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSATEPETMIALTNLANEHTTVILTGTPNNRTSWVRS 175 (208)
Q Consensus 100 ----~~~~l~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~Epe~liPL~~l~~~~~~vVLvGD~~QL~P~V~s 175 (208)
..+.+.+++|+++|+.+. .+....||+||||||+|++||++|+||. +.+++||||||+||||+|.+
T Consensus 334 ~~~~~~~il~~a~v~~st~~~~------~l~~~~Fd~vIIDEAsQ~~ep~~lipl~----~~~~~vLvGD~~QLpP~v~s 403 (637)
T TIGR00376 334 EERIENEILAESDVVQSTNSSA------GLKGWEFDVAVIDEASQAMEPSCLIPLL----KARKLILAGDHKQLPPTILS 403 (637)
T ss_pred HHHHHHHHHhhCCEEEeccCcH------hhccCCCCEEEEECccccchHHHHHHHh----hCCeEEEecChhhcCCcccc
Confidence 012366788888875432 2345689999999999999999999998 35799999999999999998
Q ss_pred hHHhhCCCCccHHHHHHcCCC
Q 037641 176 DIARKNGLRVSHFERLHATKT 196 (208)
Q Consensus 176 ~~a~~~gl~~SLfeRL~~~~~ 196 (208)
.. ..|++.||||||++.++
T Consensus 404 ~~--~~~l~~SlferL~~~~~ 422 (637)
T TIGR00376 404 HD--AEELELTLFERLIKEYP 422 (637)
T ss_pred cc--ccccchhHHHHHHHhCC
Confidence 65 45899999999998644
No 5
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=99.95 E-value=9.4e-28 Score=197.42 Aligned_cols=151 Identities=24% Similarity=0.344 Sum_probs=87.2
Q ss_pred CchhHH--HHHHHHHHH------HcCCCCeEEEECCChHHHHHHHHHhhh------hCCCCCeEEEeccccCCCCCCchh
Q 037641 19 SKTGLV--VREAVLEIY------KRSSKCRILVCAPINRTGDVLMRSLKK------KIPKSDMFRANAAFREVDGVPVDI 84 (208)
Q Consensus 19 ~~t~~T--ive~i~ql~------~~~~~~rILV~A~SN~AvD~l~~rL~~------~~~~~~i~Rv~~~~r~~~~~~~~l 84 (208)
.+||+| ++.++..++ ...++.+||+||+||.|+|++++++.+ ......++|++.... ..++++
T Consensus 26 PGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~~~~~~~~~~~~~~ir~~~~~~---~~~~~~ 102 (236)
T PF13086_consen 26 PGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKKLLDEDGKVYKPKIIRLGSEEE---KIHEDL 102 (236)
T ss_dssp TTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC--------TT--EEE---GGT---TS--TT
T ss_pred CCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHhhccccccccccchhhhccccc---cccccc
Confidence 456764 777777773 356789999999999999999999998 234577999998761 122223
Q ss_pred hcccccc---C----------------------------CCccCcc---------------hHHHhccCcEEEEcccccc
Q 037641 85 LPLCLYE---G----------------------------GECFQLP---------------SLQELMRFRVIFSTFTSSF 118 (208)
Q Consensus 85 ~~~~~~~---~----------------------------~~~~~~~---------------~~~~l~~~~Vv~~T~~~a~ 118 (208)
.+++... . ...+... ....++.++||+||++++.
T Consensus 103 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~vi~~T~~~~~ 182 (236)
T PF13086_consen 103 QKFSLESKLEQRFESKLKRLREQLEELQQKIRLSELKEEKKKLKKSIKRLRKELEKIREELRRFILKEADVIFTTLSSAA 182 (236)
T ss_dssp GGGBHHHHHHTTT-----------THHHCHHHHHHHHHHHCCSSCHHHHHHHHHHHHHHHHHHHHHHT-SEEEEETCGGG
T ss_pred ccccccccccccccccchhhhHHHHHHHHhhhhhhhhhhhhhcchhcccccccccccccchhhhhcccccccccccccch
Confidence 3332100 0 0000000 0123678999999999885
Q ss_pred hhhcCCCCCCCCcEEEEecCCCCCchhhhHHHhhcccCCceEEEEcCCCCCCcceech
Q 037641 119 RLHNEGIPAGHFSHIFLLDASSATEPETMIALTNLANEHTTVILTGTPNNRTSWVRSD 176 (208)
Q Consensus 119 ~l~~~~~~~~~Fd~vIIDEAsQa~Epe~liPL~~l~~~~~~vVLvGD~~QL~P~V~s~ 176 (208)
......+ ...||+||||||||++||++|+||.. ..+++||+|||+||||+++|+
T Consensus 183 ~~~~~~~-~~~~d~vIvDEAsq~~e~~~l~~l~~---~~~~~vlvGD~~QLpP~v~s~ 236 (236)
T PF13086_consen 183 SPFLSNF-KEKFDVVIVDEASQITEPEALIPLSR---APKRIVLVGDPKQLPPVVKSE 236 (236)
T ss_dssp -CCGTT------SEEEETTGGGS-HHHHHHHHTT---TBSEEEEEE-TTS-----S--
T ss_pred hhHhhhh-cccCCEEEEeCCCCcchHHHHHHHHH---hCCEEEEECChhhcCCeeCCC
Confidence 4321111 12799999999999999999999972 238999999999999999874
No 6
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=99.90 E-value=3.3e-25 Score=211.04 Aligned_cols=178 Identities=24% Similarity=0.277 Sum_probs=134.1
Q ss_pred HHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhC--CCCCeEEEeccccCCCCCCchhhccccccCCCccCcch
Q 037641 23 LVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKI--PKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQLPS 100 (208)
Q Consensus 23 ~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~--~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~~~ 100 (208)
.|+++++.|+....+..+|++|||+|+|.|.+..|+.... ......+++...+.....-..+..++. +...
T Consensus 341 ~n~~~a~~~v~~~~~~~~il~~~p~~a~~k~~~~rl~~p~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~-------~~e~ 413 (775)
T KOG1804|consen 341 ENYREAIAIVSFTSPHFYILVCAPSNASGKQPAHRLHYPLTFSTARGEDVRAKSSTAWYNNAEVSEVVE-------KVEE 413 (775)
T ss_pred cchHHHHHHHHhcchHHHhhcccccccccccccccccccccccccccccccccchhHHhhhHHHHHHHH-------HHHH
Confidence 4889999999988889999999999999999999985311 001111222211110000011111111 1111
Q ss_pred HHHhccCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCCchhhhHHHhhcccCCceEEEEcCCCCCCcceechHHhh
Q 037641 101 LQELMRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSATEPETMIALTNLANEHTTVILTGTPNNRTSWVRSDIARK 180 (208)
Q Consensus 101 ~~~l~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~Epe~liPL~~l~~~~~~vVLvGD~~QL~P~V~s~~a~~ 180 (208)
...+...+++++||++++.+...++.-++|.++++|||+|++|||++||+..+.. ..++||.|||+||+|++.|..|.+
T Consensus 414 ~~~~~~~~i~i~t~~sag~~~~~g~~v~~f~hil~DeAg~stEpe~lv~i~~~~~-~~~vvLsgdh~Qlgpv~~s~~A~~ 492 (775)
T KOG1804|consen 414 LRKVWPYRWGITTCTSAGCVTSYGFQVGHFRHILVDEAGVSTEPELLVPGKQFRQ-PFQVVLSGDHTQLGPVSKSARAEE 492 (775)
T ss_pred HhhccceEEEEeeccceeeeecccccccceeeeeecccccccCcccccccccccc-eeEEEEccCcccccccccchhhhh
Confidence 2235568999999999999888888889999999999999999999999996653 459999999999999999999999
Q ss_pred CCCCccHHHHHHcCCCC-----CCCCCcccccC
Q 037641 181 NGLRVSHFERLHATKTY-----SNFNPMFITML 208 (208)
Q Consensus 181 ~gl~~SLfeRL~~~~~y-----~~~~~~~~t~l 208 (208)
+|+++|||||++.+.-| .+||++++|+|
T Consensus 493 ~gl~rsLler~l~r~~~~~~~~g~~~~l~~t~l 525 (775)
T KOG1804|consen 493 LGLDRSLLERALTRAQSLVAVVGDYNALCSTGL 525 (775)
T ss_pred hcccHHHHHHHHHHHhhccccCCCcccccchhh
Confidence 99999999999987544 46999999976
No 7
>COG1112 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]
Probab=99.70 E-value=8.6e-17 Score=154.59 Aligned_cols=165 Identities=27% Similarity=0.286 Sum_probs=114.6
Q ss_pred HHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhc-----------------
Q 037641 24 VVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILP----------------- 86 (208)
Q Consensus 24 Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~----------------- 86 (208)
++.+.+.+..... ..+++.|+++|.++|..+.++.+........|++.+.+...........
T Consensus 309 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~ 387 (767)
T COG1112 309 TILELIIELLENN-KLKILPTAESNAAVDNLLRRLKRTVIKVELLRIGHPSRVLKKLKLDTLEELLEKHEIPGNKIAALD 387 (767)
T ss_pred HHHHHHHHHHHhc-ccceEEecCcccchhhHHHHHHhhccccceEEcCCcchhhhhhhhhHHHHHHHhcccccchhHHHH
Confidence 5667777777764 6799999999999999999999865555567776654322111000000
Q ss_pred -----ccccc------------------------CCC---ccC-----------------cc------------hHHHhc
Q 037641 87 -----LCLYE------------------------GGE---CFQ-----------------LP------------SLQELM 105 (208)
Q Consensus 87 -----~~~~~------------------------~~~---~~~-----------------~~------------~~~~l~ 105 (208)
+.... ... .+. .+ ......
T Consensus 388 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~ 467 (767)
T COG1112 388 KVIRELREEGERIIREIAKLRERLERKRLDKISHLNVALRGILPALNKSEALWISLEEKQKKILKELRRLKKKAVTKILE 467 (767)
T ss_pred HHHHHHhhhhhccceecHHHHhhhhhhHHHHHHHhhhhhcchhHHHHHHHHHHHhhhhhHHhHHHHHhHhHHHHHHHHHH
Confidence 00000 000 000 00 001123
Q ss_pred cCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCCchhhhHHHhhcccCCceEEEEcCCCCCCcceechHHhhCCCCc
Q 037641 106 RFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSATEPETMIALTNLANEHTTVILTGTPNNRTSWVRSDIARKNGLRV 185 (208)
Q Consensus 106 ~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~Epe~liPL~~l~~~~~~vVLvGD~~QL~P~V~s~~a~~~gl~~ 185 (208)
.+++++||+++++.- .+....||++|||||+|+++|.+++|+.. ++++|++|||+||||++.+......++..
T Consensus 468 ~~~~~~~~~~~a~~~---~~~~~~fd~viiDEAsQ~~~~~~~~~l~~----~~~~il~GD~kQL~p~~~~~~~~~~~~~~ 540 (767)
T COG1112 468 AADVVLSTLSIAGFS---ILKKYEFDYVIIDEASQATEPSALIALSR----AKKVILVGDHKQLPPTVFFKESSPEGLSA 540 (767)
T ss_pred hcCeEEEeccchhHH---HhcccccCEEEEcchhcccchhHHHhHhh----cCeEEEecCCccCCCeecchhhcccchhH
Confidence 456999999988742 22333799999999999999999999993 68999999999999999987666778999
Q ss_pred cHHHHHHcCCC
Q 037641 186 SHFERLHATKT 196 (208)
Q Consensus 186 SLfeRL~~~~~ 196 (208)
|+|+|+.+.++
T Consensus 541 slf~~~~~~~~ 551 (767)
T COG1112 541 SLFERLIDNGP 551 (767)
T ss_pred hHHHHHHHhCC
Confidence 99999998764
No 8
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=99.36 E-value=2.3e-13 Score=128.66 Aligned_cols=92 Identities=24% Similarity=0.238 Sum_probs=75.6
Q ss_pred hccCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCCchhhhHHHhhcccCCceEEEEcCCCCCCcceec-hHHhhCC
Q 037641 104 LMRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSATEPETMIALTNLANEHTTVILTGTPNNRTSWVRS-DIARKNG 182 (208)
Q Consensus 104 l~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~Epe~liPL~~l~~~~~~vVLvGD~~QL~P~V~s-~~a~~~g 182 (208)
++.++||++|..+++++... +..-...+|||.||+...|+.++-++. +..+++|||||||||.|.... +.++.+|
T Consensus 696 lR~a~vigmTTTgaaryr~i-lekv~pkivivEEAAEVlEahiIaal~---p~~EhviLIGDHKQLrP~~~vy~L~q~fn 771 (1025)
T KOG1807|consen 696 LREADVIGMTTTGAARYRFI-LEKVQPKIVIVEEAAEVLEAHIIAALT---PHTEHVILIGDHKQLRPFSGVYKLPQIFN 771 (1025)
T ss_pred hhccceeeeechhHHHHHHH-HHHhCCcEEEEhhHhHHhhcchhhhhc---ccceeEEEecchhhcCCCcchhhHhHhcc
Confidence 67899999999999986432 233457899999999999999866665 457999999999999999764 4677799
Q ss_pred CCccHHHHHHcC-CCCCC
Q 037641 183 LRVSHFERLHAT-KTYSN 199 (208)
Q Consensus 183 l~~SLfeRL~~~-~~y~~ 199 (208)
|++||||||++. -||.+
T Consensus 772 L~iSlFERLVe~glpfsr 789 (1025)
T KOG1807|consen 772 LSISLFERLVEAGLPFSR 789 (1025)
T ss_pred hhHHHHHHHHHcCCChhh
Confidence 999999999986 55765
No 9
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=99.23 E-value=1.4e-11 Score=101.46 Aligned_cols=47 Identities=21% Similarity=0.218 Sum_probs=32.5
Q ss_pred CCcEEEEecCCCCCchhhhHHHhhccc-CCceEEEEcCCCCCCcceech
Q 037641 129 HFSHIFLLDASSATEPETMIALTNLAN-EHTTVILTGTPNNRTSWVRSD 176 (208)
Q Consensus 129 ~Fd~vIIDEAsQa~Epe~liPL~~l~~-~~~~vVLvGD~~QL~P~V~s~ 176 (208)
.++++|||||||+..+....=+. ... ...++||+|||+||||+-.+.
T Consensus 93 ~~~vliVDEasmv~~~~~~~ll~-~~~~~~~klilvGD~~QL~pV~~g~ 140 (196)
T PF13604_consen 93 KKDVLIVDEASMVDSRQLARLLR-LAKKSGAKLILVGDPNQLPPVGAGS 140 (196)
T ss_dssp STSEEEESSGGG-BHHHHHHHHH-HS-T-T-EEEEEE-TTSHHHCSTTC
T ss_pred cccEEEEecccccCHHHHHHHHH-HHHhcCCEEEEECCcchhcCCcCCc
Confidence 57899999999998766533333 333 367999999999999996654
No 10
>KOG1801 consensus tRNA-splicing endonuclease positive effector (SEN1) [RNA processing and modification]
Probab=99.21 E-value=1.4e-11 Score=120.52 Aligned_cols=86 Identities=23% Similarity=0.172 Sum_probs=74.9
Q ss_pred cCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCCchhhhHHHhhcccCCceEEEEcCCCCCCcceechHHhhCCCCc
Q 037641 106 RFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSATEPETMIALTNLANEHTTVILTGTPNNRTSWVRSDIARKNGLRV 185 (208)
Q Consensus 106 ~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~Epe~liPL~~l~~~~~~vVLvGD~~QL~P~V~s~~a~~~gl~~ 185 (208)
++.+|+||++++++..... ....||.++||||+|+.||++++||. +. ...+.+|+||+.|||++|.|..+..++++.
T Consensus 514 ~a~~i~~t~~~~~~~~~~~-~~~p~~~vviDeaaq~~e~~s~~PL~-l~-g~~~~~lvgd~~qlP~~V~s~~~~~~k~~~ 590 (827)
T KOG1801|consen 514 EAALIVPTTRGSRIVLTLY-GGPPLDTVVIDEAAQKYEPSSLEPLQ-LA-GYQHCILVGDLAQLPATVHSSPAGCFKYMT 590 (827)
T ss_pred cceeEeecccccceEeecc-cCCCceEEEEehhhhhcCccchhhhh-hc-CCceEEEecccccCChhhccchhccccchh
Confidence 8899999999887632221 34579999999999999999999999 54 568999999999999999999999999999
Q ss_pred cHHHHHHcC
Q 037641 186 SHFERLHAT 194 (208)
Q Consensus 186 SLfeRL~~~ 194 (208)
|+|+||...
T Consensus 591 slf~rl~l~ 599 (827)
T KOG1801|consen 591 SLFERLELA 599 (827)
T ss_pred hHHHHHHHc
Confidence 999999754
No 11
>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=99.10 E-value=5.2e-10 Score=105.94 Aligned_cols=47 Identities=21% Similarity=0.142 Sum_probs=35.8
Q ss_pred CCCcEEEEecCCCCCchhhhHHHhhcccCCceEEEEcCCCCCCcceec
Q 037641 128 GHFSHIFLLDASSATEPETMIALTNLANEHTTVILTGTPNNRTSWVRS 175 (208)
Q Consensus 128 ~~Fd~vIIDEAsQa~Epe~liPL~~l~~~~~~vVLvGD~~QL~P~V~s 175 (208)
..+|+||||||||...+.. -.|....+...|+||+||+.||||+-..
T Consensus 258 l~~dvlIiDEaSMvd~~l~-~~ll~al~~~~rlIlvGD~~QLpsV~~G 304 (586)
T TIGR01447 258 LPLDVLVVDEASMVDLPLM-AKLLKALPPNTKLILLGDKNQLPSVEAG 304 (586)
T ss_pred CcccEEEEcccccCCHHHH-HHHHHhcCCCCEEEEECChhhCCCCCCC
Confidence 3689999999999997643 2233233457899999999999999443
No 12
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=99.09 E-value=4.4e-10 Score=106.88 Aligned_cols=46 Identities=22% Similarity=0.257 Sum_probs=35.6
Q ss_pred CCcEEEEecCCCCCchhhhHHHhhcccCCceEEEEcCCCCCCcceec
Q 037641 129 HFSHIFLLDASSATEPETMIALTNLANEHTTVILTGTPNNRTSWVRS 175 (208)
Q Consensus 129 ~Fd~vIIDEAsQa~Epe~liPL~~l~~~~~~vVLvGD~~QL~P~V~s 175 (208)
.+|++||||||+..-+...-=+..+ +...|+||+||+.||||+=..
T Consensus 265 ~~dvlIvDEaSMvd~~lm~~ll~al-~~~~rlIlvGD~~QL~sV~~G 310 (615)
T PRK10875 265 HLDVLVVDEASMVDLPMMARLIDAL-PPHARVIFLGDRDQLASVEAG 310 (615)
T ss_pred CCCeEEEChHhcccHHHHHHHHHhc-ccCCEEEEecchhhcCCCCCC
Confidence 6899999999999866543333323 457899999999999999443
No 13
>KOG1806 consensus DEAD box containing helicases [Replication, recombination and repair]
Probab=98.96 E-value=3.9e-10 Score=109.61 Aligned_cols=90 Identities=19% Similarity=0.244 Sum_probs=71.4
Q ss_pred ccCcEEEEcccccchhhcCCCCCC-CCcEEEEecCCCCCchhhhHHHhhcccC-----CceEEEEcCCCCCCcceec-hH
Q 037641 105 MRFRVIFSTFTSSFRLHNEGIPAG-HFSHIFLLDASSATEPETMIALTNLANE-----HTTVILTGTPNNRTSWVRS-DI 177 (208)
Q Consensus 105 ~~~~Vv~~T~~~a~~l~~~~~~~~-~Fd~vIIDEAsQa~Epe~liPL~~l~~~-----~~~vVLvGD~~QL~P~V~s-~~ 177 (208)
++++||.|||..++.-.......+ .||-+++.|++|..|-++-+|+...... -++.|++|||.|+||++.+ +.
T Consensus 966 kqakiiamtcthaalkr~el~~lgf~ydnl~mEesaqile~etfiplLlq~p~dg~~rlkr~iligdhhqlPPv~~n~af 1045 (1320)
T KOG1806|consen 966 KQAKIIAMTCTHAALRRGDLVKLGFKYDNLLMEESAQILEIETFIPLLLQNPQDGHNRLKRWILIGDHHQLPPVVKNQAF 1045 (1320)
T ss_pred ccceeeecccCChhhChhhHhhhceeechhhhhhccCCcccccccHHHhcCCcchhhHhhheeecccccccCCcccchHH
Confidence 578999999998763222111222 4899999999999999999999954432 3799999999999999965 56
Q ss_pred HhhCCCCccHHHHHHcC
Q 037641 178 ARKNGLRVSHFERLHAT 194 (208)
Q Consensus 178 a~~~gl~~SLfeRL~~~ 194 (208)
++...++.|||.|+.+.
T Consensus 1046 qkysnm~qslf~r~vRl 1062 (1320)
T KOG1806|consen 1046 QKYSNMEQSLFTRLVRL 1062 (1320)
T ss_pred HHHhcchhhhhhcceec
Confidence 77778999999999875
No 14
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=98.86 E-value=1.1e-09 Score=105.39 Aligned_cols=167 Identities=25% Similarity=0.441 Sum_probs=123.2
Q ss_pred HHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhh-hC----CCCCeEEEeccccCCCCCCchhhcccc-ccCCCcc
Q 037641 23 LVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKK-KI----PKSDMFRANAAFREVDGVPVDILPLCL-YEGGECF 96 (208)
Q Consensus 23 ~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~-~~----~~~~i~Rv~~~~r~~~~~~~~l~~~~~-~~~~~~~ 96 (208)
.+++..+.+.+... ..++++|.|++.++|........ .+ +....+|+.+..|.+.+.++.+..||. +.+...|
T Consensus 154 ~~~~~~~~~~~~~~-~~k~~~~l~~~~~~~~~ir~y~~~~v~~~~~~~~~~r~~~~~r~l~~~~pvv~~~~~if~~~~~~ 232 (775)
T KOG1804|consen 154 LELAQAVKSLLQQE-EAKILILLHSESAADIYIREYLHPYVEEGLPEATPLRVYSRKRPLAQVNPVVLQYCFIFDSHITF 232 (775)
T ss_pred eeecchhhcccccc-cccceEeechhHHHHHHHHHhhcccccccccccccccceeecccccccCCceeeeeeeccchhhh
Confidence 35556666666654 57899999999999998887653 22 223345999888887777777777763 3333445
Q ss_pred CcchHHHhccCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCCchhhhHHHhhcccCCceEEEEcCCCCCCcceech
Q 037641 97 QLPSLQELMRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSATEPETMIALTNLANEHTTVILTGTPNNRTSWVRSD 176 (208)
Q Consensus 97 ~~~~~~~l~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~Epe~liPL~~l~~~~~~vVLvGD~~QL~P~V~s~ 176 (208)
..|....+.+++|++.|...+.-....+...+.|.+.+.|||+|+++++.+.||+ ++...++++|+|||.||-|.+.+.
T Consensus 233 ~~pq~~~~~~Hrv~~~~~~~s~~~~~l~~~~~~~t~~~~~eaae~~~~~~l~P~~-~~~~~~~~~L~~~~~ql~~~l~s~ 311 (775)
T KOG1804|consen 233 RRPQVEDLFKHRVVVVTLSQSQYLTPLGLPVGFFTHILLDEAAQAMECELLMPLA-LPSSGTRIVLAGPHLQLTPFLNSV 311 (775)
T ss_pred ccchhhhhcccceeEeecceeecccccCCCCCceeeeeHHHHHhcCCceeecccc-cCCCCceeeecccccccccchhhh
Confidence 5566666667999999988766554555667899999999999999999999999 777889999999999999999876
Q ss_pred HHhhCCCCccHHHHHH
Q 037641 177 IARKNGLRVSHFERLH 192 (208)
Q Consensus 177 ~a~~~gl~~SLfeRL~ 192 (208)
......+. ++..|+.
T Consensus 312 ~~~~~~~~-~~~~~~~ 326 (775)
T KOG1804|consen 312 AREEQALH-LLLCRLP 326 (775)
T ss_pred hhhhhhhh-hcccccc
Confidence 55433333 3334433
No 15
>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=98.65 E-value=8.3e-08 Score=93.41 Aligned_cols=108 Identities=13% Similarity=0.115 Sum_probs=66.2
Q ss_pred CchhH-HHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccC
Q 037641 19 SKTGL-VVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQ 97 (208)
Q Consensus 19 ~~t~~-Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~ 97 (208)
.+||+ |++..+.+++.. .+.+|.+||||+.|++.+-+.. |...+ ++ ..+.. . +
T Consensus 377 aGTGKTtll~~i~~~~~~-~g~~V~~~ApTg~Aa~~L~~~~------------g~~a~---Ti----~~~~~-~----~- 430 (744)
T TIGR02768 377 AGTGKSTMLKAAREAWEA-AGYRVIGAALSGKAAEGLQAES------------GIESR---TL----ASLEY-A----W- 430 (744)
T ss_pred CCCCHHHHHHHHHHHHHh-CCCeEEEEeCcHHHHHHHHhcc------------CCcee---eH----HHHHh-h----h-
Confidence 44666 477888887776 4789999999999998875321 11111 01 11100 0 0
Q ss_pred cchHHHhccCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCCchhhhHHHhhc-ccCCceEEEEcCCCCCCcceech
Q 037641 98 LPSLQELMRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSATEPETMIALTNL-ANEHTTVILTGTPNNRTSWVRSD 176 (208)
Q Consensus 98 ~~~~~~l~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~Epe~liPL~~l-~~~~~~vVLvGD~~QL~P~V~s~ 176 (208)
. .+ .-.....|++||||||++.-... --|... .....++||+||+.|||||--..
T Consensus 431 -------~-----------~~-----~~~~~~~~llIvDEasMv~~~~~-~~Ll~~~~~~~~kliLVGD~~QLpsVgaG~ 486 (744)
T TIGR02768 431 -------A-----------NG-----RDLLSDKDVLVIDEAGMVGSRQM-ARVLKEAEEAGAKVVLVGDPEQLQPIEAGA 486 (744)
T ss_pred -------c-----------cC-----cccCCCCcEEEEECcccCCHHHH-HHHHHHHHhcCCEEEEECChHHccccccCc
Confidence 0 00 00113579999999999875543 222221 12468999999999999986543
No 16
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=98.59 E-value=1.6e-07 Score=91.18 Aligned_cols=113 Identities=15% Similarity=0.147 Sum_probs=66.7
Q ss_pred CchhH-HHHHHHHHHHHcCC-CCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCcc
Q 037641 19 SKTGL-VVREAVLEIYKRSS-KCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECF 96 (208)
Q Consensus 19 ~~t~~-Tive~i~ql~~~~~-~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~ 96 (208)
.+||+ |++..+++++.... ..+|++||||+.|++.+.+..- .... ++ ..+..+..+. .
T Consensus 347 pGTGKTt~l~~i~~~~~~~~~~~~v~l~ApTg~AA~~L~e~~g------------~~a~---Ti----h~lL~~~~~~-~ 406 (720)
T TIGR01448 347 PGTGKTTITRAIIELAEELGGLLPVGLAAPTGRAAKRLGEVTG------------LTAS---TI----HRLLGYGPDT-F 406 (720)
T ss_pred CCCCHHHHHHHHHHHHHHcCCCceEEEEeCchHHHHHHHHhcC------------Cccc---cH----HHHhhccCCc-c
Confidence 34665 66778888777542 2789999999999996544321 0110 11 1111111000 0
Q ss_pred CcchHHHhccCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCCchhhhHHHhhcccCCceEEEEcCCCCCCcceec
Q 037641 97 QLPSLQELMRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSATEPETMIALTNLANEHTTVILTGTPNNRTSWVRS 175 (208)
Q Consensus 97 ~~~~~~~l~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~Epe~liPL~~l~~~~~~vVLvGD~~QL~P~V~s 175 (208)
. .. ... .....|++||||||+...+.. .-|........++||+||+.||||+-..
T Consensus 407 --~------------------~~--~~~-~~~~~~llIvDEaSMvd~~~~-~~Ll~~~~~~~rlilvGD~~QLpsV~~G 461 (720)
T TIGR01448 407 --R------------------HN--HLE-DPIDCDLLIVDESSMMDTWLA-LSLLAALPDHARLLLVGDTDQLPSVGPG 461 (720)
T ss_pred --c------------------hh--hhh-ccccCCEEEEeccccCCHHHH-HHHHHhCCCCCEEEEECccccccCCCCC
Confidence 0 00 000 113579999999999986543 3333223356899999999999998543
No 17
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=98.58 E-value=1e-07 Score=94.87 Aligned_cols=107 Identities=15% Similarity=0.080 Sum_probs=65.0
Q ss_pred CCchhHH-HHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCcc
Q 037641 18 LSKTGLV-VREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECF 96 (208)
Q Consensus 18 ~~~t~~T-ive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~ 96 (208)
..+|||| +..++.+++.. .+.+|++||||+.|+.+|-+. . |..++. +..+.. .|
T Consensus 370 ~AGTGKTT~l~~~~~~~e~-~G~~V~~~ApTGkAA~~L~e~----t--------Gi~a~T-------I~sll~-----~~ 424 (988)
T PRK13889 370 YAGTGKSAMLGVAREAWEA-AGYEVRGAALSGIAAENLEGG----S--------GIASRT-------IASLEH-----GW 424 (988)
T ss_pred CCCCCHHHHHHHHHHHHHH-cCCeEEEecCcHHHHHHHhhc----c--------Ccchhh-------HHHHHh-----hh
Confidence 3446764 67778887776 478999999999999886431 1 111111 111100 00
Q ss_pred CcchHHHhccCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCCchhhhHHHhhcc-cCCceEEEEcCCCCCCccee
Q 037641 97 QLPSLQELMRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSATEPETMIALTNLA-NEHTTVILTGTPNNRTSWVR 174 (208)
Q Consensus 97 ~~~~~~~l~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~Epe~liPL~~l~-~~~~~vVLvGD~~QL~P~V~ 174 (208)
. . +. ......|++||||||++.-... --|.... ....++||+||+.|||||=-
T Consensus 425 ~--------~-----------~~-----~~l~~~~vlIVDEASMv~~~~m-~~LL~~a~~~garvVLVGD~~QLpsV~a 478 (988)
T PRK13889 425 G--------Q-----------GR-----DLLTSRDVLVIDEAGMVGTRQL-ERVLSHAADAGAKVVLVGDPQQLQAIEA 478 (988)
T ss_pred c--------c-----------cc-----cccccCcEEEEECcccCCHHHH-HHHHHhhhhCCCEEEEECCHHHcCCCCC
Confidence 0 0 00 0112468999999999875543 2233222 34689999999999999833
No 18
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=98.49 E-value=3.6e-07 Score=91.58 Aligned_cols=108 Identities=13% Similarity=0.171 Sum_probs=66.0
Q ss_pred CchhH-HHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccc-cccCCCcc
Q 037641 19 SKTGL-VVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLC-LYEGGECF 96 (208)
Q Consensus 19 ~~t~~-Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~-~~~~~~~~ 96 (208)
.+||| |+...+.+++.. .|.+|+.+|||+.|+..|-+.. .+ ..+. +..+. .+..
T Consensus 406 AGTGKTt~l~~~~~~~e~-~G~~V~g~ApTgkAA~~L~e~~--Gi----------~a~T-------Ias~ll~~~~---- 461 (1102)
T PRK13826 406 AGAGKTTMMKAAREAWEA-AGYRVVGGALAGKAAEGLEKEA--GI----------QSRT-------LSSWELRWNQ---- 461 (1102)
T ss_pred CCCCHHHHHHHHHHHHHH-cCCeEEEEcCcHHHHHHHHHhh--CC----------Ceee-------HHHHHhhhcc----
Confidence 34665 667778887776 4789999999999998864321 11 1111 11110 0000
Q ss_pred CcchHHHhccCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCCchhhhHHHhhcccCCceEEEEcCCCCCCcceech
Q 037641 97 QLPSLQELMRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSATEPETMIALTNLANEHTTVILTGTPNNRTSWVRSD 176 (208)
Q Consensus 97 ~~~~~~~l~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~Epe~liPL~~l~~~~~~vVLvGD~~QL~P~V~s~ 176 (208)
+. . +-..-+++||||||++.-....-=+........++||+||+.||||+-...
T Consensus 462 ---------------------~~---~--~l~~~~vlVIDEAsMv~~~~m~~Ll~~~~~~garvVLVGD~~QL~~V~aG~ 515 (1102)
T PRK13826 462 ---------------------GR---D--QLDNKTVFVLDEAGMVASRQMALFVEAVTRAGAKLVLVGDPEQLQPIEAGA 515 (1102)
T ss_pred ---------------------Cc---c--CCCCCcEEEEECcccCCHHHHHHHHHHHHhcCCEEEEECCHHHcCCCCCCc
Confidence 00 0 112357999999999976654322221222468999999999999986543
No 19
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=98.26 E-value=2.5e-06 Score=88.21 Aligned_cols=48 Identities=10% Similarity=0.106 Sum_probs=34.5
Q ss_pred CCcEEEEecCCCCCchhhhHHHhhcccCCceEEEEcCCCCCCcceech
Q 037641 129 HFSHIFLLDASSATEPETMIALTNLANEHTTVILTGTPNNRTSWVRSD 176 (208)
Q Consensus 129 ~Fd~vIIDEAsQa~Epe~liPL~~l~~~~~~vVLvGD~~QL~P~V~s~ 176 (208)
..+++||||||++.-....--+..+.....++||+||+.||||+--..
T Consensus 930 ~~~llIVDEASMV~~~~m~~ll~~~~~~garvVLVGD~~QL~sV~aG~ 977 (1623)
T PRK14712 930 SNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQ 977 (1623)
T ss_pred CCcEEEEEccccccHHHHHHHHHhhhhCCCEEEEEcchhhcCCCCCCH
Confidence 458999999999987554222221222357999999999999986544
No 20
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=98.24 E-value=2.8e-06 Score=88.68 Aligned_cols=47 Identities=11% Similarity=0.096 Sum_probs=33.8
Q ss_pred CCcEEEEecCCCCCchhhhHHHhhcccCCceEEEEcCCCCCCcceec
Q 037641 129 HFSHIFLLDASSATEPETMIALTNLANEHTTVILTGTPNNRTSWVRS 175 (208)
Q Consensus 129 ~Fd~vIIDEAsQa~Epe~liPL~~l~~~~~~vVLvGD~~QL~P~V~s 175 (208)
..+++||||||++.-....-=+........++||+||+.||||+--.
T Consensus 1062 ~~~llIVDEaSMv~~~~m~~Ll~~~~~~garvVLVGD~~QL~sV~aG 1108 (1747)
T PRK13709 1062 SNTLFLLDESSMVGNTDMARAYALIAAGGGRAVSSGDTDQLQAIAPG 1108 (1747)
T ss_pred CCcEEEEEccccccHHHHHHHHHhhhcCCCEEEEecchHhcCCCCCC
Confidence 45899999999988655433222122235799999999999998543
No 21
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=98.08 E-value=8.7e-06 Score=86.36 Aligned_cols=46 Identities=11% Similarity=0.028 Sum_probs=33.0
Q ss_pred CCcEEEEecCCCCCchhhhHHHhhcccCCceEEEEcCCCCCCccee
Q 037641 129 HFSHIFLLDASSATEPETMIALTNLANEHTTVILTGTPNNRTSWVR 174 (208)
Q Consensus 129 ~Fd~vIIDEAsQa~Epe~liPL~~l~~~~~~vVLvGD~~QL~P~V~ 174 (208)
.-+++||||||++.-....--+........++||+||+.||+|+=.
T Consensus 1112 ~~~v~ivDEasMv~~~~~~~l~~~~~~~~ak~vlvGD~~QL~sV~a 1157 (1960)
T TIGR02760 1112 RNTLFILDESSMVSNFQLTHATELVQKSGSRAVSLGDIAQLQSLAA 1157 (1960)
T ss_pred cccEEEEEccccccHHHHHHHHHhccCCCCEEEEeCChhhcCCCCC
Confidence 3589999999998865443222211234589999999999999743
No 22
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=98.08 E-value=1.3e-05 Score=85.08 Aligned_cols=120 Identities=13% Similarity=0.153 Sum_probs=68.9
Q ss_pred chhH-HHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccCc
Q 037641 20 KTGL-VVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQL 98 (208)
Q Consensus 20 ~t~~-Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~ 98 (208)
+||+ |++..+.++++. .|.+|.++|||..|+..|.+..-. ... .++.-+.. ... +..
T Consensus 456 GTGKTt~l~~l~~~~~~-~G~~V~~lAPTgrAA~~L~e~~g~--~A~-------------Ti~~~l~~--l~~-~~~--- 513 (1960)
T TIGR02760 456 GTGSTEIAQLLLHLASE-QGYEIQIITAGSLSAQELRQKIPR--LAS-------------TFITWVKN--LFN-DDQ--- 513 (1960)
T ss_pred CCCHHHHHHHHHHHHHh-cCCeEEEEeCCHHHHHHHHHHhcc--hhh-------------hHHHHHHh--hcc-ccc---
Confidence 3664 677888888876 478999999999999987765321 000 01100100 000 000
Q ss_pred chHHHhccCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCCchhhhHHHhhcccCCceEEEEcCCCCCCcceech
Q 037641 99 PSLQELMRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSATEPETMIALTNLANEHTTVILTGTPNNRTSWVRSD 176 (208)
Q Consensus 99 ~~~~~l~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~Epe~liPL~~l~~~~~~vVLvGD~~QL~P~V~s~ 176 (208)
..|..+ .+ ....+...-|++||||||++.-.+..-=+........++||+||+.||+|+=-.+
T Consensus 514 ------------~~tv~~--fl-~~~~~l~~~~vlIVDEAsMl~~~~~~~Ll~~a~~~garvVlvGD~~QL~sV~aG~ 576 (1960)
T TIGR02760 514 ------------DHTVQG--LL-DKSSPFSNKDIFVVDEANKLSNNELLKLIDKAEQHNSKLILLNDSAQRQGMSAGS 576 (1960)
T ss_pred ------------chhHHH--hh-cccCCCCCCCEEEEECCCCCCHHHHHHHHHHHhhcCCEEEEEcChhhcCccccch
Confidence 000000 00 0011112468999999999987665332321223468999999999999974433
No 23
>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain. The domain is related to the DEAD/DEAH box helicase domain which is found in a large family of ATPases.; GO: 0005524 ATP binding, 0008026 ATP-dependent helicase activity, 0019079 viral genome replication; PDB: 2QEQ_A 2V6J_A 2V6I_A 8OHM_A 4A92_B 1JR6_A 1HEI_A 1ONB_A 1A1V_A 1YMF_A ....
Probab=98.05 E-value=2.9e-05 Score=61.21 Aligned_cols=105 Identities=20% Similarity=0.164 Sum_probs=67.6
Q ss_pred cCCCCchhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCC
Q 037641 15 SDNLSKTGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGE 94 (208)
Q Consensus 15 ~~~~~~t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~ 94 (208)
|-+.|||...+.+++.+.+.+ +.|+||.+||-..++++.+-|.. . .+|+....+.. ..
T Consensus 12 hpGaGKTr~vlp~~~~~~i~~--~~rvLvL~PTRvva~em~~aL~~----~-~~~~~t~~~~~-------~~-------- 69 (148)
T PF07652_consen 12 HPGAGKTRRVLPEIVREAIKR--RLRVLVLAPTRVVAEEMYEALKG----L-PVRFHTNARMR-------TH-------- 69 (148)
T ss_dssp -TTSSTTTTHHHHHHHHHHHT--T--EEEEESSHHHHHHHHHHTTT----S-SEEEESTTSS------------------
T ss_pred CCCCCCcccccHHHHHHHHHc--cCeEEEecccHHHHHHHHHHHhc----C-CcccCceeeec-------cc--------
Confidence 567899999999999999996 78999999999999998777653 2 26777543310 00
Q ss_pred ccCcchHHHhccCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCCchhhhHHHh
Q 037641 95 CFQLPSLQELMRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSATEPETMIALT 151 (208)
Q Consensus 95 ~~~~~~~~~l~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~Epe~liPL~ 151 (208)
-....|-+.|-++.++..........||+||+|||-- +.|+++....
T Consensus 70 ---------~g~~~i~vMc~at~~~~~~~p~~~~~yd~II~DEcH~-~Dp~sIA~rg 116 (148)
T PF07652_consen 70 ---------FGSSIIDVMCHATYGHFLLNPCRLKNYDVIIMDECHF-TDPTSIAARG 116 (148)
T ss_dssp ----------SSSSEEEEEHHHHHHHHHTSSCTTS-SEEEECTTT---SHHHHHHHH
T ss_pred ---------cCCCcccccccHHHHHHhcCcccccCccEEEEecccc-CCHHHHhhhe
Confidence 0123556655555444333333456899999999965 6788765433
No 24
>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins. The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].
Probab=98.03 E-value=9.3e-06 Score=72.85 Aligned_cols=38 Identities=18% Similarity=0.271 Sum_probs=29.5
Q ss_pred CCCCchhHH-HHHHHHHHHHcCCCCeEEEECCChHHHHHH
Q 037641 16 DNLSKTGLV-VREAVLEIYKRSSKCRILVCAPINRTGDVL 54 (208)
Q Consensus 16 ~~~~~t~~T-ive~i~ql~~~~~~~rILV~A~SN~AvD~l 54 (208)
.+.++||+| +..++.+.++. .+..|++||||-.|+-++
T Consensus 28 ~G~~GtGKs~l~~~i~~~~~~-~~~~~~~~a~tg~AA~~i 66 (364)
T PF05970_consen 28 TGPAGTGKSFLIKAIIDYLRS-RGKKVLVTAPTGIAAFNI 66 (364)
T ss_pred EcCCCCChhHHHHHHHHHhcc-ccceEEEecchHHHHHhc
Confidence 356778974 55677777665 478999999999999886
No 25
>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=97.85 E-value=0.00025 Score=52.25 Aligned_cols=109 Identities=12% Similarity=0.020 Sum_probs=63.6
Q ss_pred CCchhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccC
Q 037641 18 LSKTGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQ 97 (208)
Q Consensus 18 ~~~t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~ 97 (208)
.|||.. +...+.++....+..++++++|++..++...+++.+......-+++..... . ..
T Consensus 11 ~GKT~~-~~~~~~~~~~~~~~~~~lv~~p~~~l~~~~~~~~~~~~~~~~~~~~~~~~~------------------~-~~ 70 (144)
T cd00046 11 SGKTLA-ALLPILELLDSLKGGQVLVLAPTRELANQVAERLKELFGEGIKVGYLIGGT------------------S-IK 70 (144)
T ss_pred CchhHH-HHHHHHHHHhcccCCCEEEEcCcHHHHHHHHHHHHHHhhCCcEEEEEecCc------------------c-hh
Confidence 344443 334555555544578999999999999999998887543211111111000 0 00
Q ss_pred cchHHHhccCcEEEEcccccchhhc-CCCCCCCCcEEEEecCCCCCchhh
Q 037641 98 LPSLQELMRFRVIFSTFTSSFRLHN-EGIPAGHFSHIFLLDASSATEPET 146 (208)
Q Consensus 98 ~~~~~~l~~~~Vv~~T~~~a~~l~~-~~~~~~~Fd~vIIDEAsQa~Epe~ 146 (208)
...........|+++|-........ .......++++|||||-....+..
T Consensus 71 ~~~~~~~~~~~i~i~t~~~~~~~~~~~~~~~~~~~~iiiDE~h~~~~~~~ 120 (144)
T cd00046 71 QQEKLLSGKTDIVVGTPGRLLDELERLKLSLKKLDLLILDEAHRLLNQGF 120 (144)
T ss_pred HHHHHhcCCCCEEEECcHHHHHHHHcCCcchhcCCEEEEeCHHHHhhcch
Confidence 0001123567889998875543222 112345799999999988877654
No 26
>PF13245 AAA_19: Part of AAA domain
Probab=97.41 E-value=0.0004 Score=48.70 Aligned_cols=41 Identities=27% Similarity=0.344 Sum_probs=32.8
Q ss_pred CCchhHH--HHHHHHHHHHc--CCCCeEEEECCChHHHHHHHHHh
Q 037641 18 LSKTGLV--VREAVLEIYKR--SSKCRILVCAPINRTGDVLMRSL 58 (208)
Q Consensus 18 ~~~t~~T--ive~i~ql~~~--~~~~rILV~A~SN~AvD~l~~rL 58 (208)
-.+|||| +++++..++.. .++.+|||+++||.|+|++.+|+
T Consensus 18 ~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 18 PPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAADELRERL 62 (76)
T ss_pred CCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHHHHHHHHH
Confidence 3456654 77888888843 34789999999999999999999
No 27
>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases. Some of the members are found in positive-strand single stranded RNA viruses. The helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis [].; GO: 0004386 helicase activity
Probab=97.20 E-value=0.00023 Score=58.91 Aligned_cols=46 Identities=22% Similarity=0.302 Sum_probs=33.4
Q ss_pred CCcEEEEecCCCCCchhhhHHHhhcccCCceEEEEcCCCCCCcceech
Q 037641 129 HFSHIFLLDASSATEPETMIALTNLANEHTTVILTGTPNNRTSWVRSD 176 (208)
Q Consensus 129 ~Fd~vIIDEAsQa~Epe~liPL~~l~~~~~~vVLvGD~~QL~P~V~s~ 176 (208)
.++++||||+....--+.+. ++.. .+.+.++++|||.|.+..-.++
T Consensus 62 ~~~~liiDE~~~~~~g~l~~-l~~~-~~~~~~~l~GDp~Q~~~~~~~~ 107 (234)
T PF01443_consen 62 SYDTLIIDEAQLLPPGYLLL-LLSL-SPAKNVILFGDPLQIPYISRND 107 (234)
T ss_pred cCCEEEEeccccCChHHHHH-HHhh-ccCcceEEEECchhccCCcccc
Confidence 58999999999876333333 4422 3567999999999998775544
No 28
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=97.09 E-value=0.0045 Score=48.35 Aligned_cols=130 Identities=18% Similarity=0.188 Sum_probs=69.5
Q ss_pred chhHHHH--HHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccC
Q 037641 20 KTGLVVR--EAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQ 97 (208)
Q Consensus 20 ~t~~Tiv--e~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~ 97 (208)
++|+|.+ ..+.+.+...+..++|+++|++..++.+..++.+........+...... ...
T Consensus 34 GsGKT~~~~~~~~~~~~~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~--------------- 94 (201)
T smart00487 34 GSGKTLAALLPALEALKRGKGKRVLVLVPTRELAEQWAEELKKLGPSLGLKVVGLYGG----DSK--------------- 94 (201)
T ss_pred CCchhHHHHHHHHHHhcccCCCcEEEEeCCHHHHHHHHHHHHHHhccCCeEEEEEeCC----cch---------------
Confidence 3556553 3445555554458999999999999999988886543222111111000 000
Q ss_pred cchHHHh-ccC-cEEEEcccccchhhcC-CCCCCCCcEEEEecCCCCCc-h--hhhHHHhhcc-cCCceEEEEcCCCC
Q 037641 98 LPSLQEL-MRF-RVIFSTFTSSFRLHNE-GIPAGHFSHIFLLDASSATE-P--ETMIALTNLA-NEHTTVILTGTPNN 168 (208)
Q Consensus 98 ~~~~~~l-~~~-~Vv~~T~~~a~~l~~~-~~~~~~Fd~vIIDEAsQa~E-p--e~liPL~~l~-~~~~~vVLvGD~~Q 168 (208)
....+.+ ... .|+++|.......... ......++++|||||....+ . +.+..+.... +....+++.|.+-+
T Consensus 95 ~~~~~~~~~~~~~v~~~t~~~l~~~~~~~~~~~~~~~~iIiDE~h~~~~~~~~~~~~~~~~~~~~~~~~v~~saT~~~ 172 (201)
T smart00487 95 REQLRKLESGKTDILVTTPGRLLDLLENDLLELSNVDLVILDEAHRLLDGGFGDQLEKLLKLLPKNVQLLLLSATPPE 172 (201)
T ss_pred HHHHHHHhcCCCCEEEeChHHHHHHHHcCCcCHhHCCEEEEECHHHHhcCCcHHHHHHHHHhCCccceEEEEecCCch
Confidence 0011111 223 8888886543332221 12345789999999988774 1 2233333221 23455666666543
No 29
>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=96.81 E-value=0.002 Score=54.84 Aligned_cols=134 Identities=15% Similarity=0.169 Sum_probs=70.5
Q ss_pred CCCCchhHHHHHHHHHHHHcCCCC---eEEEECCChHHHHHHHHHhhhhCCC--CCeEEEeccccCCCCCCchhhccccc
Q 037641 16 DNLSKTGLVVREAVLEIYKRSSKC---RILVCAPINRTGDVLMRSLKKKIPK--SDMFRANAAFREVDGVPVDILPLCLY 90 (208)
Q Consensus 16 ~~~~~t~~Tive~i~ql~~~~~~~---rILV~A~SN~AvD~l~~rL~~~~~~--~~i~Rv~~~~r~~~~~~~~l~~~~~~ 90 (208)
+++|||-.++ .++..+....+.. ++||++|+ ..+++....+.+...+ ..++.+.... . ....
T Consensus 34 ~GlGKT~~~i-~~~~~l~~~~~~~~~~~~LIv~P~-~l~~~W~~E~~~~~~~~~~~v~~~~~~~-------~-~~~~--- 100 (299)
T PF00176_consen 34 MGLGKTITAI-ALISYLKNEFPQRGEKKTLIVVPS-SLLSQWKEEIEKWFDPDSLRVIIYDGDS-------E-RRRL--- 100 (299)
T ss_dssp TTSSHHHHHH-HHHHHHHHCCTTSS-S-EEEEE-T-TTHHHHHHHHHHHSGT-TS-EEEESSSC-------H-HHHT---
T ss_pred CCCCchhhhh-hhhhhhhhccccccccceeEeecc-chhhhhhhhhcccccccccccccccccc-------c-cccc---
Confidence 4555553322 3344455544433 59999999 6778888888876532 2333222211 0 0000
Q ss_pred cCCCccCcchHHHhccCcEEEEcccccchh----hcCCCCCCCCcEEEEecCCCCCchhhhH--HHhhcccCCceEEEEc
Q 037641 91 EGGECFQLPSLQELMRFRVIFSTFTSSFRL----HNEGIPAGHFSHIFLLDASSATEPETMI--ALTNLANEHTTVILTG 164 (208)
Q Consensus 91 ~~~~~~~~~~~~~l~~~~Vv~~T~~~a~~l----~~~~~~~~~Fd~vIIDEAsQa~Epe~li--PL~~l~~~~~~vVLvG 164 (208)
.........|+++|....... ....+....|+.||||||..+..+.+-. .+..+. ...+++|-|
T Consensus 101 ---------~~~~~~~~~vvi~ty~~~~~~~~~~~~~~l~~~~~~~vIvDEaH~~k~~~s~~~~~l~~l~-~~~~~lLSg 170 (299)
T PF00176_consen 101 ---------SKNQLPKYDVVITTYETLRKARKKKDKEDLKQIKWDRVIVDEAHRLKNKDSKRYKALRKLR-ARYRWLLSG 170 (299)
T ss_dssp ---------TSSSCCCSSEEEEEHHHHH--TSTHTTHHHHTSEEEEEEETTGGGGTTTTSHHHHHHHCCC-ECEEEEE-S
T ss_pred ---------cccccccceeeeccccccccccccccccccccccceeEEEecccccccccccccccccccc-cceEEeecc
Confidence 001124567888887765510 0011223469999999998885444422 233222 457899999
Q ss_pred CCCCCCcc
Q 037641 165 TPNNRTSW 172 (208)
Q Consensus 165 D~~QL~P~ 172 (208)
-|.+-.|.
T Consensus 171 TP~~n~~~ 178 (299)
T PF00176_consen 171 TPIQNSLE 178 (299)
T ss_dssp S-SSSGSH
T ss_pred cccccccc
Confidence 98887654
No 30
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=96.61 E-value=0.0066 Score=59.02 Aligned_cols=132 Identities=17% Similarity=0.178 Sum_probs=86.2
Q ss_pred CCCCchhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCc
Q 037641 16 DNLSKTGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGEC 95 (208)
Q Consensus 16 ~~~~~t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~ 95 (208)
|+||||=.||.=+.+-....+-..+-||++| -...||....+.+..|....+++.....+. ..+..
T Consensus 195 MGLGKTlQtIs~l~yl~~~~~~~GPfLVi~P-~StL~NW~~Ef~rf~P~l~~~~~~Gdk~eR----~~~~r--------- 260 (971)
T KOG0385|consen 195 MGLGKTLQTISLLGYLKGRKGIPGPFLVIAP-KSTLDNWMNEFKRFTPSLNVVVYHGDKEER----AALRR--------- 260 (971)
T ss_pred cccchHHHHHHHHHHHHHhcCCCCCeEEEee-HhhHHHHHHHHHHhCCCcceEEEeCCHHHH----HHHHH---------
Confidence 7899999988765554443433458999999 567899999998877777766665421100 00000
Q ss_pred cCcchHHHh--ccCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCCchhhhHH-HhhcccCCceEEEEcCCCC
Q 037641 96 FQLPSLQEL--MRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSATEPETMIA-LTNLANEHTTVILTGTPNN 168 (208)
Q Consensus 96 ~~~~~~~~l--~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~Epe~liP-L~~l~~~~~~vVLvGD~~Q 168 (208)
..+ ....|+++|.-.+-+-.+ .+..-+|.++|||||-...-+.+.+- +....+..-++.+.|-|-|
T Consensus 261 ------~~~~~~~fdV~iTsYEi~i~dk~-~lk~~~W~ylvIDEaHRiKN~~s~L~~~lr~f~~~nrLLlTGTPLQ 329 (971)
T KOG0385|consen 261 ------DIMLPGRFDVCITSYEIAIKDKS-FLKKFNWRYLVIDEAHRIKNEKSKLSKILREFKTDNRLLLTGTPLQ 329 (971)
T ss_pred ------HhhccCCCceEeehHHHHHhhHH-HHhcCCceEEEechhhhhcchhhHHHHHHHHhcccceeEeeCCccc
Confidence 001 146899988876654211 12345799999999999888776443 3322334679999999988
No 31
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=96.51 E-value=0.0097 Score=60.16 Aligned_cols=134 Identities=15% Similarity=0.171 Sum_probs=78.0
Q ss_pred CCCCchhHHHHHHHHHHHH-cCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCC
Q 037641 16 DNLSKTGLVVREAVLEIYK-RSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGE 94 (208)
Q Consensus 16 ~~~~~t~~Tive~i~ql~~-~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~ 94 (208)
|+||||-.||+ ++..+.. .....++||++|.. -+++....+.+..+...++.+....... ..+....
T Consensus 197 MGLGKTlQaIa-lL~~L~~~~~~~gp~LIVvP~S-lL~nW~~Ei~kw~p~l~v~~~~G~~~eR----~~~~~~~------ 264 (1033)
T PLN03142 197 MGLGKTLQTIS-LLGYLHEYRGITGPHMVVAPKS-TLGNWMNEIRRFCPVLRAVKFHGNPEER----AHQREEL------ 264 (1033)
T ss_pred CCccHHHHHHH-HHHHHHHhcCCCCCEEEEeChH-HHHHHHHHHHHHCCCCceEEEeCCHHHH----HHHHHHH------
Confidence 67777766553 2333332 22346899999964 4788888887766555554443321100 0000000
Q ss_pred ccCcchHHHhccCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCCchhhhHH--HhhcccCCceEEEEcCCCCCC
Q 037641 95 CFQLPSLQELMRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSATEPETMIA--LTNLANEHTTVILTGTPNNRT 170 (208)
Q Consensus 95 ~~~~~~~~~l~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~Epe~liP--L~~l~~~~~~vVLvGD~~QL~ 170 (208)
-......|+++|...+.... ..+....|++||||||-...-+.+... +..+ ....+++|-|=|-|-.
T Consensus 265 -------~~~~~~dVvITSYe~l~~e~-~~L~k~~W~~VIvDEAHrIKN~~Sklskalr~L-~a~~RLLLTGTPlqNn 333 (1033)
T PLN03142 265 -------LVAGKFDVCVTSFEMAIKEK-TALKRFSWRYIIIDEAHRIKNENSLLSKTMRLF-STNYRLLITGTPLQNN 333 (1033)
T ss_pred -------hcccCCCcceecHHHHHHHH-HHhccCCCCEEEEcCccccCCHHHHHHHHHHHh-hcCcEEEEecCCCCCC
Confidence 00124678888877654321 123445799999999998887766433 2222 2457899999998843
No 32
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=96.47 E-value=0.022 Score=57.23 Aligned_cols=136 Identities=14% Similarity=0.102 Sum_probs=70.6
Q ss_pred CCCCchhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCc
Q 037641 16 DNLSKTGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGEC 95 (208)
Q Consensus 16 ~~~~~t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~ 95 (208)
++||||=.+ .-++.+++......||||.+|+. =..+....+.+.++ .. +.+....+.. .+.. ...+.
T Consensus 178 vGLGKTIeA-glil~~l~~~g~~~rvLIVvP~s-L~~QW~~El~~kF~-l~-~~i~~~~~~~--------~~~~-~~~~p 244 (956)
T PRK04914 178 VGLGKTIEA-GMIIHQQLLTGRAERVLILVPET-LQHQWLVEMLRRFN-LR-FSLFDEERYA--------EAQH-DADNP 244 (956)
T ss_pred CcCcHHHHH-HHHHHHHHHcCCCCcEEEEcCHH-HHHHHHHHHHHHhC-CC-eEEEcCcchh--------hhcc-cccCc
Confidence 345554222 12234455555557999999974 45677666665442 11 2222222110 0000 00011
Q ss_pred cCcchHHHhccCcEEEEcccccchh--hcCCCCCCCCcEEEEecCCCCC----chhh-hHHHhhccc-CCceEEEEcCCC
Q 037641 96 FQLPSLQELMRFRVIFSTFTSSFRL--HNEGIPAGHFSHIFLLDASSAT----EPET-MIALTNLAN-EHTTVILTGTPN 167 (208)
Q Consensus 96 ~~~~~~~~l~~~~Vv~~T~~~a~~l--~~~~~~~~~Fd~vIIDEAsQa~----Epe~-liPL~~l~~-~~~~vVLvGD~~ 167 (208)
....++++|+......- ....+....||+||||||-.+. .|+. +--+..++. ....+.|-|=|.
T Consensus 245 --------f~~~~~vI~S~~~l~~~~~~~~~l~~~~wdlvIvDEAH~lk~~~~~~s~~y~~v~~La~~~~~~LLLTATP~ 316 (956)
T PRK04914 245 --------FETEQLVICSLDFLRRNKQRLEQALAAEWDLLVVDEAHHLVWSEEAPSREYQVVEQLAEVIPGVLLLTATPE 316 (956)
T ss_pred --------cccCcEEEEEHHHhhhCHHHHHHHhhcCCCEEEEechhhhccCCCCcCHHHHHHHHHhhccCCEEEEEcCcc
Confidence 12467888877644321 0112334579999999999875 2322 112222221 236799999999
Q ss_pred CCCcc
Q 037641 168 NRTSW 172 (208)
Q Consensus 168 QL~P~ 172 (208)
|.++.
T Consensus 317 q~~~~ 321 (956)
T PRK04914 317 QLGQE 321 (956)
T ss_pred cCCcH
Confidence 97764
No 33
>PRK10536 hypothetical protein; Provisional
Probab=96.35 E-value=0.0036 Score=53.96 Aligned_cols=40 Identities=28% Similarity=0.338 Sum_probs=32.9
Q ss_pred CcEEEEecCCCCCchhhhHHHhhcccCCceEEEEcCCCCCC
Q 037641 130 FSHIFLLDASSATEPETMIALTNLANEHTTVILTGTPNNRT 170 (208)
Q Consensus 130 Fd~vIIDEAsQa~Epe~liPL~~l~~~~~~vVLvGD~~QL~ 170 (208)
-++||||||..++-.+.-.-|.++. ...++|++||+.|..
T Consensus 177 ~~~vIvDEaqn~~~~~~k~~ltR~g-~~sk~v~~GD~~QiD 216 (262)
T PRK10536 177 NAVVILDEAQNVTAAQMKMFLTRLG-ENVTVIVNGDITQCD 216 (262)
T ss_pred CCEEEEechhcCCHHHHHHHHhhcC-CCCEEEEeCChhhcc
Confidence 3899999999999777666666554 689999999999985
No 34
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=96.33 E-value=0.009 Score=58.19 Aligned_cols=135 Identities=16% Similarity=0.164 Sum_probs=81.3
Q ss_pred CCCCchhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCc
Q 037641 16 DNLSKTGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGEC 95 (208)
Q Consensus 16 ~~~~~t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~ 95 (208)
|+||||=.+|+=..+ |...+...+=||+.||- ..+|+++.+.+..|...+.-.+....+. .+++...
T Consensus 427 MGLGKTiQvIaFlay-Lkq~g~~gpHLVVvPsS-TleNWlrEf~kwCPsl~Ve~YyGSq~ER----~~lR~~i------- 493 (941)
T KOG0389|consen 427 MGLGKTIQVIAFLAY-LKQIGNPGPHLVVVPSS-TLENWLREFAKWCPSLKVEPYYGSQDER----RELRERI------- 493 (941)
T ss_pred ccCcchhHHHHHHHH-HHHcCCCCCcEEEecch-hHHHHHHHHHHhCCceEEEeccCcHHHH----HHHHHHH-------
Confidence 788988776532222 22322344677888864 5899999999887766555444322110 1111100
Q ss_pred cCcchHHHhccCcEEEEcccccchhh-cC-CCCCCCCcEEEEecCCCCCc--hhhhHHHhhcccCCceEEEEcCCCCC
Q 037641 96 FQLPSLQELMRFRVIFSTFTSSFRLH-NE-GIPAGHFSHIFLLDASSATE--PETMIALTNLANEHTTVILTGTPNNR 169 (208)
Q Consensus 96 ~~~~~~~~l~~~~Vv~~T~~~a~~l~-~~-~~~~~~Fd~vIIDEAsQa~E--pe~liPL~~l~~~~~~vVLvGD~~QL 169 (208)
.+.-..+.|+++|...++.-. .. -|....|++||.||+-...- .+-+--|+.+. ..-|+.|.|-|-|-
T Consensus 494 -----~~~~~~ydVllTTY~la~~~kdDRsflk~~~~n~viyDEgHmLKN~~SeRy~~LM~I~-An~RlLLTGTPLQN 565 (941)
T KOG0389|consen 494 -----KKNKDDYDVLLTTYNLAASSKDDRSFLKNQKFNYVIYDEGHMLKNRTSERYKHLMSIN-ANFRLLLTGTPLQN 565 (941)
T ss_pred -----hccCCCccEEEEEeecccCChHHHHHHHhccccEEEecchhhhhccchHHHHHhcccc-ccceEEeeCCcccc
Confidence 011125799999998655211 11 13456899999999988654 34455555443 45899999999883
No 35
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=96.33 E-value=0.013 Score=57.39 Aligned_cols=92 Identities=15% Similarity=0.162 Sum_probs=63.1
Q ss_pred HHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccCcchHHH
Q 037641 24 VVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQLPSLQE 103 (208)
Q Consensus 24 Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~~~~~~ 103 (208)
|.+.+|-+|++.+--+|||-.|..|.=+|.-.....+.+|....+-.-.. + . +
T Consensus 201 TAiaii~rL~r~~~~KRVLFLaDR~~Lv~QA~~af~~~~P~~~~~n~i~~-~---------------~-~---------- 253 (875)
T COG4096 201 TAIAIIDRLIKSGWVKRVLFLADRNALVDQAYGAFEDFLPFGTKMNKIED-K---------------K-G---------- 253 (875)
T ss_pred eHHHHHHHHHhcchhheeeEEechHHHHHHHHHHHHHhCCCccceeeeec-c---------------c-C----------
Confidence 56788999999877799999999999999988887776654432211100 0 0 0
Q ss_pred hccCcEEEEcccccch-h-----hcCCCCCCCCcEEEEecCCCCC
Q 037641 104 LMRFRVIFSTFTSSFR-L-----HNEGIPAGHFSHIFLLDASSAT 142 (208)
Q Consensus 104 l~~~~Vv~~T~~~a~~-l-----~~~~~~~~~Fd~vIIDEAsQa~ 142 (208)
-..++|.+||+.+.-. . ....++.++||.||||||-...
T Consensus 254 ~~s~~i~lsTyqt~~~~~~~~~~~~~~f~~g~FDlIvIDEaHRgi 298 (875)
T COG4096 254 DTSSEIYLSTYQTMTGRIEQKEDEYRRFGPGFFDLIVIDEAHRGI 298 (875)
T ss_pred CcceeEEEeehHHHHhhhhccccccccCCCCceeEEEechhhhhH
Confidence 0135788888875322 1 1234677899999999998753
No 36
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=96.31 E-value=0.018 Score=51.53 Aligned_cols=88 Identities=14% Similarity=0.202 Sum_probs=58.7
Q ss_pred CCCCchhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCc
Q 037641 16 DNLSKTGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGEC 95 (208)
Q Consensus 16 ~~~~~t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~ 95 (208)
-++|||.+ +.+.|-+.+.+ |.+|.+.+|-=.-+-++.-||...+.+-.|-=++.. ++
T Consensus 125 ~GaGKTEM-if~~i~~al~~--G~~vciASPRvDVclEl~~Rlk~aF~~~~I~~Lyg~-------------------S~- 181 (441)
T COG4098 125 TGAGKTEM-IFQGIEQALNQ--GGRVCIASPRVDVCLELYPRLKQAFSNCDIDLLYGD-------------------SD- 181 (441)
T ss_pred cCCCchhh-hHHHHHHHHhc--CCeEEEecCcccchHHHHHHHHHhhccCCeeeEecC-------------------Cc-
Confidence 36788888 77888888886 789999999877777777777765543333222221 11
Q ss_pred cCcchHHHhccCcEEEEcccccchhhcCCCCCCCCcEEEEecCC
Q 037641 96 FQLPSLQELMRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDAS 139 (208)
Q Consensus 96 ~~~~~~~~l~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAs 139 (208)
.. -.+++|++|...--++ ...||++||||.-
T Consensus 182 ------~~-fr~plvVaTtHQLlrF------k~aFD~liIDEVD 212 (441)
T COG4098 182 ------SY-FRAPLVVATTHQLLRF------KQAFDLLIIDEVD 212 (441)
T ss_pred ------hh-ccccEEEEehHHHHHH------HhhccEEEEeccc
Confidence 01 1268888887654332 2479999999975
No 37
>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=96.27 E-value=0.013 Score=45.86 Aligned_cols=120 Identities=13% Similarity=0.092 Sum_probs=59.8
Q ss_pred chhHHHHHH--HHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccC
Q 037641 20 KTGLVVREA--VLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQ 97 (208)
Q Consensus 20 ~t~~Tive~--i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~ 97 (208)
++|+|++-+ +.++.. ++++.+|+..-++.....+.........+........ .. ..... .......
T Consensus 35 GsGKT~~~~~~~~~l~~-----~~l~~~p~~~l~~Q~~~~~~~~~~~~~~~~~~~~~~~-----~~-~~~~~-~~~~~~~ 102 (184)
T PF04851_consen 35 GSGKTIIALALILELAR-----KVLIVAPNISLLEQWYDEFDDFGSEKYNFFEKSIKPA-----YD-SKEFI-SIQDDIS 102 (184)
T ss_dssp TSSHHHHHHHHHHHHHC-----EEEEEESSHHHHHHHHHHHHHHSTTSEEEEE--GGGC-----CE--SEEE-TTTTEEE
T ss_pred CCCcChhhhhhhhcccc-----ceeEecCHHHHHHHHHHHHHHhhhhhhhhcccccccc-----cc-ccccc-ccccccc
Confidence 456666654 555554 8999999999999988888543322222222111100 00 00000 0001111
Q ss_pred cchHHHhccCcEEEEcccccchhhcC------------CCCCCCCcEEEEecCCCCCchhhhHHHh
Q 037641 98 LPSLQELMRFRVIFSTFTSSFRLHNE------------GIPAGHFSHIFLLDASSATEPETMIALT 151 (208)
Q Consensus 98 ~~~~~~l~~~~Vv~~T~~~a~~l~~~------------~~~~~~Fd~vIIDEAsQa~Epe~liPL~ 151 (208)
...........++++|.......... ......||+||+|||-....-+.+=-+.
T Consensus 103 ~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~vI~DEaH~~~~~~~~~~i~ 168 (184)
T PF04851_consen 103 DKSESDNNDKDIILTTYQSLQSDIKEEKKIDESARRSYKLLKNKFDLVIIDEAHHYPSDSSYREII 168 (184)
T ss_dssp HHHHHCBSS-SEEEEEHHHHHHHHHH---------GCHHGGGGSESEEEEETGGCTHHHHHHHHHH
T ss_pred cccccccccccchhhHHHHHHhhcccccccccchhhhhhhccccCCEEEEehhhhcCCHHHHHHHH
Confidence 11112234567787777654322110 0122478999999999887655333333
No 38
>PHA02558 uvsW UvsW helicase; Provisional
Probab=96.14 E-value=0.055 Score=50.58 Aligned_cols=97 Identities=13% Similarity=0.199 Sum_probs=57.2
Q ss_pred hhHHHHHHHH-HHHHcCCCCeEEEECCChHHHHHHHHHhhhhCC--CCCeEEEeccccCCCCCCchhhccccccCCCccC
Q 037641 21 TGLVVREAVL-EIYKRSSKCRILVCAPINRTGDVLMRSLKKKIP--KSDMFRANAAFREVDGVPVDILPLCLYEGGECFQ 97 (208)
Q Consensus 21 t~~Tive~i~-ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~--~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~ 97 (208)
.|+|++.+.+ ..+......++||.+||..-++.+.+++.+... ...+.-+. . +.. .
T Consensus 140 sGKT~i~~~l~~~~~~~~~~~vLilvpt~eL~~Q~~~~l~~~~~~~~~~~~~i~-------------------~-g~~-~ 198 (501)
T PHA02558 140 AGKSLIQYLLSRYYLENYEGKVLIIVPTTSLVTQMIDDFVDYRLFPREAMHKIY-------------------S-GTA-K 198 (501)
T ss_pred CCHHHHHHHHHHHHHhcCCCeEEEEECcHHHHHHHHHHHHHhccccccceeEEe-------------------c-Ccc-c
Confidence 5677765433 222222334999999999999999999886321 11110010 0 000 0
Q ss_pred cchHHHhccCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCCchhh
Q 037641 98 LPSLQELMRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSATEPET 146 (208)
Q Consensus 98 ~~~~~~l~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~Epe~ 146 (208)
-....|+++|..+..+..... ...|++||||||-.+..+..
T Consensus 199 ------~~~~~I~VaT~qsl~~~~~~~--~~~~~~iIvDEaH~~~~~~~ 239 (501)
T PHA02558 199 ------DTDAPIVVSTWQSAVKQPKEW--FDQFGMVIVDECHLFTGKSL 239 (501)
T ss_pred ------CCCCCEEEeeHHHHhhchhhh--ccccCEEEEEchhcccchhH
Confidence 024689999976544321111 24799999999999887543
No 39
>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=96.00 E-value=0.079 Score=42.69 Aligned_cols=112 Identities=11% Similarity=0.090 Sum_probs=60.8
Q ss_pred chhHHHH---HHHHHHHHc--CCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCC
Q 037641 20 KTGLVVR---EAVLEIYKR--SSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGE 94 (208)
Q Consensus 20 ~t~~Tiv---e~i~ql~~~--~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~ 94 (208)
++|+|++ .++..+... .++.+++|++|+..-+......+.+...... .++... .++.
T Consensus 46 G~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~~~L~~q~~~~~~~~~~~~~-~~~~~~-----------------~~~~ 107 (203)
T cd00268 46 GSGKTAAFLIPILEKLDPSPKKDGPQALILAPTRELALQIAEVARKLGKHTN-LKVVVI-----------------YGGT 107 (203)
T ss_pred CCcHHHHHHHHHHHHHHhhcccCCceEEEEcCCHHHHHHHHHHHHHHhccCC-ceEEEE-----------------ECCC
Confidence 4566654 334444444 3567999999999999988877765322111 111110 0000
Q ss_pred ccCcchHHHh-ccCcEEEEcccccchh-hcCCCCCCCCcEEEEecCCCCCchhhhHHH
Q 037641 95 CFQLPSLQEL-MRFRVIFSTFTSSFRL-HNEGIPAGHFSHIFLLDASSATEPETMIAL 150 (208)
Q Consensus 95 ~~~~~~~~~l-~~~~Vv~~T~~~a~~l-~~~~~~~~~Fd~vIIDEAsQa~Epe~liPL 150 (208)
. .....+.+ .+.+|+++|....... ....+....++++|||||-.+.+....-.+
T Consensus 108 ~-~~~~~~~~~~~~~iiv~T~~~l~~~l~~~~~~~~~l~~lIvDE~h~~~~~~~~~~~ 164 (203)
T cd00268 108 S-IDKQIRKLKRGPHIVVATPGRLLDLLERGKLDLSKVKYLVLDEADRMLDMGFEDQI 164 (203)
T ss_pred C-HHHHHHHhcCCCCEEEEChHHHHHHHHcCCCChhhCCEEEEeChHHhhccChHHHH
Confidence 0 00111223 3678999996543221 111223346899999999987765543333
No 40
>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=95.96 E-value=0.09 Score=51.52 Aligned_cols=119 Identities=17% Similarity=0.071 Sum_probs=68.6
Q ss_pred hhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhC--CCCCeEEEeccccCCCCCCchhhccccccCCCccCc
Q 037641 21 TGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKI--PKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQL 98 (208)
Q Consensus 21 t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~--~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~ 98 (208)
+|+|++.+..- .. -++++||.+||...+++..+.+.+.. +...+.++.+..+ ..
T Consensus 284 aGKTlvai~aa-~~--l~k~tLILvps~~Lv~QW~~ef~~~~~l~~~~I~~~tg~~k------------------~~--- 339 (732)
T TIGR00603 284 AGKSLVGVTAA-CT--VKKSCLVLCTSAVSVEQWKQQFKMWSTIDDSQICRFTSDAK------------------ER--- 339 (732)
T ss_pred CChHHHHHHHH-HH--hCCCEEEEeCcHHHHHHHHHHHHHhcCCCCceEEEEecCcc------------------cc---
Confidence 67788765332 12 24689999999999999999998742 2233333222110 00
Q ss_pred chHHHhccCcEEEEcccccchhh---------cCCCCCCCCcEEEEecCCCCCchhhhHHHhhcccCCceEEEEcCCCC
Q 037641 99 PSLQELMRFRVIFSTFTSSFRLH---------NEGIPAGHFSHIFLLDASSATEPETMIALTNLANEHTTVILTGTPNN 168 (208)
Q Consensus 99 ~~~~~l~~~~Vv~~T~~~a~~l~---------~~~~~~~~Fd~vIIDEAsQa~Epe~liPL~~l~~~~~~vVLvGD~~Q 168 (208)
....+.|+++|..+..... ...+....|++||+|||-.+.-+..---+..+ ....++-|-|=|.+
T Consensus 340 ----~~~~~~VvVtTYq~l~~~~~r~~~~~~~l~~l~~~~~gLII~DEvH~lpA~~fr~il~~l-~a~~RLGLTATP~R 413 (732)
T TIGR00603 340 ----FHGEAGVVVSTYSMVAHTGKRSYESEKVMEWLTNREWGLILLDEVHVVPAAMFRRVLTIV-QAHCKLGLTATLVR 413 (732)
T ss_pred ----cccCCcEEEEEHHHhhcccccchhhhHHHHHhccccCCEEEEEccccccHHHHHHHHHhc-CcCcEEEEeecCcc
Confidence 0123689999987653210 11234457999999999988544332112211 12346777766653
No 41
>PHA03368 DNA packaging terminase subunit 1; Provisional
Probab=95.90 E-value=0.081 Score=51.22 Aligned_cols=121 Identities=16% Similarity=0.256 Sum_probs=69.8
Q ss_pred CCCchhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCC---CeEEEeccccCCCCCCchhhccccccCC
Q 037641 17 NLSKTGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKS---DMFRANAAFREVDGVPVDILPLCLYEGG 93 (208)
Q Consensus 17 ~~~~t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~---~i~Rv~~~~r~~~~~~~~l~~~~~~~~~ 93 (208)
.-|||.... -.|.-++...+|.+|+++||.....+.+.+++...+..+ ..+|.-. + +.+ -+.. .++
T Consensus 264 R~GKTwivv-~iI~~ll~s~~Gi~IgytAH~~~ts~~vF~eI~~~le~~f~~~~v~~vk------G--e~I-~i~f-~nG 332 (738)
T PHA03368 264 RHGKTWFLV-PLIALALATFRGIKIGYTAHIRKATEPVFEEIGARLRQWFGASRVDHVK------G--ETI-SFSF-PDG 332 (738)
T ss_pred cCCchhhHH-HHHHHHHHhCCCCEEEEEcCcHHHHHHHHHHHHHHHhhhcchhheeeec------C--cEE-EEEe-cCC
Confidence 447777644 333335555579999999999999999999998754311 1121110 0 001 0110 001
Q ss_pred CccCcchHHHhccCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCCch--hhhHHHhhcccCCceEEEEcCC
Q 037641 94 ECFQLPSLQELMRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSATEP--ETMIALTNLANEHTTVILTGTP 166 (208)
Q Consensus 94 ~~~~~~~~~~l~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~Ep--e~liPL~~l~~~~~~vVLvGD~ 166 (208)
....|.+.+|...+ ..+...||.+|||||.-.+.. +.++|+.+.. ..++|++.=|
T Consensus 333 -----------~kstI~FaSarntN-----siRGqtfDLLIVDEAqFIk~~al~~ilp~l~~~--n~k~I~ISS~ 389 (738)
T PHA03368 333 -----------SRSTIVFASSHNTN-----GIRGQDFNLLFVDEANFIRPDAVQTIMGFLNQT--NCKIIFVSST 389 (738)
T ss_pred -----------CccEEEEEeccCCC-----CccCCcccEEEEechhhCCHHHHHHHHHHHhcc--CccEEEEecC
Confidence 01255555442111 234457999999999998863 3467877432 5677777544
No 42
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=95.83 E-value=0.044 Score=51.12 Aligned_cols=107 Identities=13% Similarity=0.064 Sum_probs=66.8
Q ss_pred HHHHHHHH--HHHHcCCCCeEEEECCChHHHHHHHHHhhhhC--CCCCeEEEeccccCCCCCCchhhccccccCCCccCc
Q 037641 23 LVVREAVL--EIYKRSSKCRILVCAPINRTGDVLMRSLKKKI--PKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQL 98 (208)
Q Consensus 23 ~Tive~i~--ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~--~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~ 98 (208)
+|++.++. ..+...++ +||..|||--=|..-++.+.+.+ +++.+.=+... +++ .
T Consensus 42 KT~IA~~V~~~~l~~~~~-kvlfLAPTKPLV~Qh~~~~~~v~~ip~~~i~~ltGe------v~p---------------~ 99 (542)
T COG1111 42 KTFIAAMVIANRLRWFGG-KVLFLAPTKPLVLQHAEFCRKVTGIPEDEIAALTGE------VRP---------------E 99 (542)
T ss_pred HHHHHHHHHHHHHHhcCC-eEEEecCCchHHHHHHHHHHHHhCCChhheeeecCC------CCh---------------H
Confidence 45555433 23444455 99999999999999888888743 33333322111 111 1
Q ss_pred chHHHhccCcEEEEcccccch-hhcCCCCCCCCcEEEEecCCCCCchhhhHHHh
Q 037641 99 PSLQELMRFRVIFSTFTSSFR-LHNEGIPAGHFSHIFLLDASSATEPETMIALT 151 (208)
Q Consensus 99 ~~~~~l~~~~Vv~~T~~~a~~-l~~~~~~~~~Fd~vIIDEAsQa~Epe~liPL~ 151 (208)
.+.+...+++|+++|-...-+ +..-.++...|+++|+|||-.|+---.+.=++
T Consensus 100 ~R~~~w~~~kVfvaTPQvveNDl~~Grid~~dv~~lifDEAHRAvGnyAYv~Va 153 (542)
T COG1111 100 EREELWAKKKVFVATPQVVENDLKAGRIDLDDVSLLIFDEAHRAVGNYAYVFVA 153 (542)
T ss_pred HHHHHHhhCCEEEeccHHHHhHHhcCccChHHceEEEechhhhccCcchHHHHH
Confidence 123345678999999876432 22223344579999999999999876666555
No 43
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=95.70 E-value=0.061 Score=53.38 Aligned_cols=89 Identities=10% Similarity=0.041 Sum_probs=52.1
Q ss_pred CCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccCcchHHHhccCcEEEEccccc
Q 037641 38 KCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQLPSLQELMRFRVIFSTFTSS 117 (208)
Q Consensus 38 ~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~Vv~~T~~~a 117 (208)
+.+|+|+.|+..|+-.++.++.+.++...-..+|...|..+. . -.+.+|+++|-...
T Consensus 48 ~~~ilvlqPrR~aA~qia~rva~~l~~~~g~~VGy~vr~~~~-----------~------------~~~t~I~v~T~G~L 104 (812)
T PRK11664 48 NGKIIMLEPRRLAARNVAQRLAEQLGEKPGETVGYRMRAESK-----------V------------GPNTRLEVVTEGIL 104 (812)
T ss_pred CCeEEEECChHHHHHHHHHHHHHHhCcccCceEEEEecCccc-----------c------------CCCCcEEEEChhHH
Confidence 459999999999999999999876543211233322221000 0 02347888886433
Q ss_pred chhhcCCCCCCCCcEEEEecCCC-CCchhhhHH
Q 037641 118 FRLHNEGIPAGHFSHIFLLDASS-ATEPETMIA 149 (208)
Q Consensus 118 ~~l~~~~~~~~~Fd~vIIDEAsQ-a~Epe~liP 149 (208)
-++......-..+++||||||-. ..+.+.+..
T Consensus 105 lr~l~~d~~L~~v~~IIlDEaHER~l~~Dl~L~ 137 (812)
T PRK11664 105 TRMIQRDPELSGVGLVILDEFHERSLQADLALA 137 (812)
T ss_pred HHHHhhCCCcCcCcEEEEcCCCccccccchHHH
Confidence 22222222235799999999987 444444333
No 44
>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=95.56 E-value=0.074 Score=52.81 Aligned_cols=90 Identities=10% Similarity=0.032 Sum_probs=53.4
Q ss_pred CCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccCcchHHHhccCcEEEEcccc
Q 037641 37 SKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQLPSLQELMRFRVIFSTFTS 116 (208)
Q Consensus 37 ~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~Vv~~T~~~ 116 (208)
.+.+|+|+.|+..|+..++.|+.+.++...-..+|...|..+ . .-.+.+|+++|-..
T Consensus 44 ~~~~ilvlqPrR~aA~qiA~rva~~~~~~~g~~VGy~vr~~~----------------~-------~s~~t~I~v~T~G~ 100 (819)
T TIGR01970 44 IGGKIIMLEPRRLAARSAAQRLASQLGEAVGQTVGYRVRGEN----------------K-------VSRRTRLEVVTEGI 100 (819)
T ss_pred cCCeEEEEeCcHHHHHHHHHHHHHHhCCCcCcEEEEEEcccc----------------c-------cCCCCcEEEECCcH
Confidence 356999999999999999999987653211112332211100 0 00235788888643
Q ss_pred cchhhcCCCCCCCCcEEEEecCCC-CCchhhhHH
Q 037641 117 SFRLHNEGIPAGHFSHIFLLDASS-ATEPETMIA 149 (208)
Q Consensus 117 a~~l~~~~~~~~~Fd~vIIDEAsQ-a~Epe~liP 149 (208)
..+.......-..+++||||||-. ..+.+.+..
T Consensus 101 Llr~l~~d~~L~~v~~VIiDEaHER~L~~Dl~L~ 134 (819)
T TIGR01970 101 LTRMIQDDPELDGVGALIFDEFHERSLDADLGLA 134 (819)
T ss_pred HHHHHhhCcccccCCEEEEeccchhhhccchHHH
Confidence 322221122235799999999994 666554443
No 45
>PRK13766 Hef nuclease; Provisional
Probab=95.55 E-value=0.12 Score=50.72 Aligned_cols=109 Identities=14% Similarity=0.084 Sum_probs=62.8
Q ss_pred hhHHHHHH--HHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCC--CCeEEEeccccCCCCCCchhhccccccCCCcc
Q 037641 21 TGLVVREA--VLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPK--SDMFRANAAFREVDGVPVDILPLCLYEGGECF 96 (208)
Q Consensus 21 t~~Tive~--i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~--~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~ 96 (208)
.|+|++.+ +...+. .++.++||.+||..-++...+.+.+.++. ..+..+... .+.
T Consensus 40 ~GKT~~a~~~i~~~l~-~~~~~vLvl~Pt~~L~~Q~~~~~~~~~~~~~~~v~~~~g~------~~~-------------- 98 (773)
T PRK13766 40 LGKTAIALLVIAERLH-KKGGKVLILAPTKPLVEQHAEFFRKFLNIPEEKIVVFTGE------VSP-------------- 98 (773)
T ss_pred ccHHHHHHHHHHHHHH-hCCCeEEEEeCcHHHHHHHHHHHHHHhCCCCceEEEEeCC------CCH--------------
Confidence 34565442 333343 46789999999999998888888764321 122212110 000
Q ss_pred CcchHHHhccCcEEEEcccccch-hhcCCCCCCCCcEEEEecCCCCCchhhhHHHh
Q 037641 97 QLPSLQELMRFRVIFSTFTSSFR-LHNEGIPAGHFSHIFLLDASSATEPETMIALT 151 (208)
Q Consensus 97 ~~~~~~~l~~~~Vv~~T~~~a~~-l~~~~~~~~~Fd~vIIDEAsQa~Epe~liPL~ 151 (208)
....+...+++|+++|...... +....+....|++||||||-.+........++
T Consensus 99 -~~r~~~~~~~~iiv~T~~~l~~~l~~~~~~~~~~~liVvDEaH~~~~~~~~~~i~ 153 (773)
T PRK13766 99 -EKRAELWEKAKVIVATPQVIENDLIAGRISLEDVSLLIFDEAHRAVGNYAYVYIA 153 (773)
T ss_pred -HHHHHHHhCCCEEEECHHHHHHHHHcCCCChhhCcEEEEECCccccccccHHHHH
Confidence 0112234567999999754322 11223344579999999999887655443333
No 46
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=95.48 E-value=0.052 Score=50.10 Aligned_cols=96 Identities=22% Similarity=0.157 Sum_probs=58.6
Q ss_pred hhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccCcch
Q 037641 21 TGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQLPS 100 (208)
Q Consensus 21 t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~~~ 100 (208)
.|+|++.+-.-- .. +.++||++|+..-++...+++.+..... ..+..+. +..
T Consensus 66 aGKT~va~~~~~-~~--~~~~Lvlv~~~~L~~Qw~~~~~~~~~~~----------------~~~g~~~----~~~----- 117 (442)
T COG1061 66 AGKTVVAAEAIA-EL--KRSTLVLVPTKELLDQWAEALKKFLLLN----------------DEIGIYG----GGE----- 117 (442)
T ss_pred CCHHHHHHHHHH-Hh--cCCEEEEECcHHHHHHHHHHHHHhcCCc----------------cccceec----Cce-----
Confidence 567877643211 11 2349999999999999998888754211 0011111 000
Q ss_pred HHHhccCcEEEEcccccchh-hcCCCCCCCCcEEEEecCCCCCchh
Q 037641 101 LQELMRFRVIFSTFTSSFRL-HNEGIPAGHFSHIFLLDASSATEPE 145 (208)
Q Consensus 101 ~~~l~~~~Vv~~T~~~a~~l-~~~~~~~~~Fd~vIIDEAsQa~Epe 145 (208)
+......|+++|..+..+. ....+..+.|+.||+|||-++.-+.
T Consensus 118 -~~~~~~~i~vat~qtl~~~~~l~~~~~~~~~liI~DE~Hh~~a~~ 162 (442)
T COG1061 118 -KELEPAKVTVATVQTLARRQLLDEFLGNEFGLIIFDEVHHLPAPS 162 (442)
T ss_pred -eccCCCcEEEEEhHHHhhhhhhhhhcccccCEEEEEccccCCcHH
Confidence 0011157999999887753 2234455689999999999987544
No 47
>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=95.46 E-value=0.075 Score=41.15 Aligned_cols=103 Identities=15% Similarity=0.221 Sum_probs=59.8
Q ss_pred hhHHHHHH--HHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCC--CCeEEEeccccCCCCCCchhhccccccCCCcc
Q 037641 21 TGLVVREA--VLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPK--SDMFRANAAFREVDGVPVDILPLCLYEGGECF 96 (208)
Q Consensus 21 t~~Tive~--i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~--~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~ 96 (208)
+|+|.+-. +++.+...+..++++.+|+..-++....++.+.... .....+.. +...
T Consensus 25 sGKT~~~~~~~l~~~~~~~~~~~lii~P~~~l~~q~~~~~~~~~~~~~~~~~~~~~--------------------~~~~ 84 (169)
T PF00270_consen 25 SGKTLAYILPALNRLQEGKDARVLIIVPTRALAEQQFERLRKFFSNTNVRVVLLHG--------------------GQSI 84 (169)
T ss_dssp SSHHHHHHHHHHHHHHTTSSSEEEEEESSHHHHHHHHHHHHHHTTTTTSSEEEEST--------------------TSCH
T ss_pred CccHHHHHHHHHhhhccCCCceEEEEeecccccccccccccccccccccccccccc--------------------cccc
Confidence 44555543 444444434469999999999999999999875432 11111100 0000
Q ss_pred CcchHHHh-ccCcEEEEcccccchhhcC-CCCCCCCcEEEEecCCCCCc
Q 037641 97 QLPSLQEL-MRFRVIFSTFTSSFRLHNE-GIPAGHFSHIFLLDASSATE 143 (208)
Q Consensus 97 ~~~~~~~l-~~~~Vv~~T~~~a~~l~~~-~~~~~~Fd~vIIDEAsQa~E 143 (208)
.......+ .++.|+++|......+... .....+++++||||+-....
T Consensus 85 ~~~~~~~~~~~~~ilv~T~~~l~~~~~~~~~~~~~~~~iViDE~h~l~~ 133 (169)
T PF00270_consen 85 SEDQREVLSNQADILVTTPEQLLDLISNGKINISRLSLIVIDEAHHLSD 133 (169)
T ss_dssp HHHHHHHHHTTSSEEEEEHHHHHHHHHTTSSTGTTESEEEEETHHHHHH
T ss_pred cccccccccccccccccCcchhhccccccccccccceeeccCccccccc
Confidence 00111223 3589999998765443332 11223489999999987654
No 48
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=95.45 E-value=0.042 Score=56.28 Aligned_cols=103 Identities=15% Similarity=0.108 Sum_probs=59.0
Q ss_pred chhHHHH--HHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccC
Q 037641 20 KTGLVVR--EAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQ 97 (208)
Q Consensus 20 ~t~~Tiv--e~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~ 97 (208)
+||+|.+ .++.++++.....|||+.++++.=++.....+........ ..+. ++ +....
T Consensus 443 GSGKT~tai~li~~L~~~~~~~rVLfLvDR~~L~~Qa~~~F~~~~~~~~-~~~~-------~i------~~i~~------ 502 (1123)
T PRK11448 443 GTGKTRTAIALMYRLLKAKRFRRILFLVDRSALGEQAEDAFKDTKIEGD-QTFA-------SI------YDIKG------ 502 (1123)
T ss_pred CCCHHHHHHHHHHHHHhcCccCeEEEEecHHHHHHHHHHHHHhcccccc-cchh-------hh------hchhh------
Confidence 3666654 5677777766668999999999988888887765311000 0000 00 00000
Q ss_pred cchHHHhccCcEEEEcccccchh-hc-----CCCCCCCCcEEEEecCCCCC
Q 037641 98 LPSLQELMRFRVIFSTFTSSFRL-HN-----EGIPAGHFSHIFLLDASSAT 142 (208)
Q Consensus 98 ~~~~~~l~~~~Vv~~T~~~a~~l-~~-----~~~~~~~Fd~vIIDEAsQa~ 142 (208)
......-.+.+|++||..+..+. .. ..+..++||+||||||-.+.
T Consensus 503 L~~~~~~~~~~I~iaTiQtl~~~~~~~~~~~~~~~~~~fdlIIiDEaHRs~ 553 (1123)
T PRK11448 503 LEDKFPEDETKVHVATVQGMVKRILYSDDPMDKPPVDQYDCIIVDEAHRGY 553 (1123)
T ss_pred hhhhcccCCCCEEEEEHHHHHHhhhccccccccCCCCcccEEEEECCCCCC
Confidence 00000012478999998764321 11 11345689999999999863
No 49
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]
Probab=95.39 E-value=0.14 Score=50.12 Aligned_cols=65 Identities=15% Similarity=0.276 Sum_probs=47.0
Q ss_pred ccCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCCchhhhHHHhhcc-cCCceEEEEcCCCCCC
Q 037641 105 MRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSATEPETMIALTNLA-NEHTTVILTGTPNNRT 170 (208)
Q Consensus 105 ~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~Epe~liPL~~l~-~~~~~vVLvGD~~QL~ 170 (208)
....|+++|...-. .....+....|+++|.||+-...-|.+=+.++... ....||||-|-|.|-.
T Consensus 314 ~~~~ilitty~~~r-~~~d~l~~~~W~y~ILDEGH~IrNpns~islackki~T~~RiILSGTPiQNn 379 (923)
T KOG0387|consen 314 TDGGILITTYDGFR-IQGDDLLGILWDYVILDEGHRIRNPNSKISLACKKIRTVHRIILSGTPIQNN 379 (923)
T ss_pred ccCcEEEEehhhhc-ccCcccccccccEEEecCcccccCCccHHHHHHHhccccceEEeeCccccch
Confidence 34568888876532 22233445679999999999999999877777332 2468999999998853
No 50
>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=94.88 E-value=0.023 Score=47.29 Aligned_cols=63 Identities=17% Similarity=0.189 Sum_probs=32.2
Q ss_pred HhccCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCCchhhhHHHhhcccCCceEEEEcCCCCCCcc
Q 037641 103 ELMRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSATEPETMIALTNLANEHTTVILTGTPNNRTSW 172 (208)
Q Consensus 103 ~l~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~Epe~liPL~~l~~~~~~vVLvGD~~QL~P~ 172 (208)
.+.+..|-+........ ..+ .-.+||||||=.++-.+.-.-|.++. +..++|+.||+.|..-.
T Consensus 99 ~~~~~~Ie~~~~~~iRG---rt~---~~~~iIvDEaQN~t~~~~k~ilTR~g-~~skii~~GD~~Q~D~~ 161 (205)
T PF02562_consen 99 LIQNGKIEIEPLAFIRG---RTF---DNAFIIVDEAQNLTPEELKMILTRIG-EGSKIIITGDPSQIDLP 161 (205)
T ss_dssp HHHTTSEEEEEGGGGTT-----B----SEEEEE-SGGG--HHHHHHHHTTB--TT-EEEEEE--------
T ss_pred HhhcCeEEEEehhhhcC---ccc---cceEEEEecccCCCHHHHHHHHcccC-CCcEEEEecCceeecCC
Confidence 35567777766543211 111 23789999998888666666666553 67999999999998543
No 51
>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=94.74 E-value=0.12 Score=46.02 Aligned_cols=44 Identities=18% Similarity=0.111 Sum_probs=29.8
Q ss_pred CCCchhHHHHHH--HHHHHHcCCCCeEEEECCChHHHHHHHHHhhh
Q 037641 17 NLSKTGLVVREA--VLEIYKRSSKCRILVCAPINRTGDVLMRSLKK 60 (208)
Q Consensus 17 ~~~~t~~Tive~--i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~ 60 (208)
+-.+||+|++.. +.++.....+.++++.++++.-.+.+-..+.+
T Consensus 8 G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~~n~~l~~~l~~~l~~ 53 (352)
T PF09848_consen 8 GGAGTGKTVLALNLAKELQNSEEGKKVLYLCGNHPLRNKLREQLAK 53 (352)
T ss_pred ecCCcCHHHHHHHHHHHhhccccCCceEEEEecchHHHHHHHHHhh
Confidence 456799999864 34442233567788888888777777777765
No 52
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=94.71 E-value=0.094 Score=50.98 Aligned_cols=101 Identities=11% Similarity=0.128 Sum_probs=56.8
Q ss_pred chhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccCcc
Q 037641 20 KTGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQLP 99 (208)
Q Consensus 20 ~t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~~ 99 (208)
++|+|++-++.-+.....+.++|+.|||..=+....+++.+.++... ++++.-.. +.+..-+ ..
T Consensus 292 GSGKT~va~~~il~~~~~g~q~lilaPT~~LA~Q~~~~l~~l~~~~~-i~v~ll~G---~~~~~~r------------~~ 355 (681)
T PRK10917 292 GSGKTVVAALAALAAIEAGYQAALMAPTEILAEQHYENLKKLLEPLG-IRVALLTG---SLKGKER------------RE 355 (681)
T ss_pred CCcHHHHHHHHHHHHHHcCCeEEEEeccHHHHHHHHHHHHHHHhhcC-cEEEEEcC---CCCHHHH------------HH
Confidence 46788876543332223478999999999999999999887543211 22221100 0000000 00
Q ss_pred hHHHhc--cCcEEEEcccccchhhcCCCCCCCCcEEEEecCCC
Q 037641 100 SLQELM--RFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASS 140 (208)
Q Consensus 100 ~~~~l~--~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQ 140 (208)
..+.+. +..||++|-.. + .......++++||||||-.
T Consensus 356 ~~~~l~~g~~~IvVgT~~l---l-~~~v~~~~l~lvVIDE~Hr 394 (681)
T PRK10917 356 ILEAIASGEADIVIGTHAL---I-QDDVEFHNLGLVIIDEQHR 394 (681)
T ss_pred HHHHHhCCCCCEEEchHHH---h-cccchhcccceEEEechhh
Confidence 112222 47899998532 2 1122335789999999975
No 53
>PF00580 UvrD-helicase: UvrD/REP helicase N-terminal domain; InterPro: IPR000212 Members of this family are helicases that catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. THe family includes both Rep and UvrD helcases. The Rep family helicases are composed of four structural domains []. The Rep proteins function as dimers.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 1UAA_B 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A 1QHG_A 1PJR_A ....
Probab=94.50 E-value=0.023 Score=48.43 Aligned_cols=44 Identities=18% Similarity=0.179 Sum_probs=34.6
Q ss_pred CCCchhHHHHHHHHHHHHcC--CCCeEEEECCChHHHHHHHHHhhhh
Q 037641 17 NLSKTGLVVREAVLEIYKRS--SKCRILVCAPINRTGDVLMRSLKKK 61 (208)
Q Consensus 17 ~~~~t~~Tive~i~ql~~~~--~~~rILV~A~SN~AvD~l~~rL~~~ 61 (208)
+-|||. |+++.|..++... +..+||+.++||.|++.+-+|+.+.
T Consensus 23 GSGKT~-~l~~ri~~ll~~~~~~~~~Il~lTft~~aa~e~~~ri~~~ 68 (315)
T PF00580_consen 23 GSGKTT-TLLERIAYLLYEGGVPPERILVLTFTNAAAQEMRERIREL 68 (315)
T ss_dssp TSSHHH-HHHHHHHHHHHTSSSTGGGEEEEESSHHHHHHHHHHHHHH
T ss_pred CCCchH-HHHHHHHHhhccccCChHHheecccCHHHHHHHHHHHHHh
Confidence 445554 4777788887654 5679999999999999999998764
No 54
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=94.37 E-value=0.15 Score=49.09 Aligned_cols=99 Identities=10% Similarity=0.166 Sum_probs=56.5
Q ss_pred chhHHHHHH--HHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccC
Q 037641 20 KTGLVVREA--VLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQ 97 (208)
Q Consensus 20 ~t~~Tive~--i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~ 97 (208)
++|+|++-+ +++.+. .+.++++.+||..=+..+.+.+.+.++... +++..... +++..- +
T Consensus 266 GSGKT~va~l~il~~~~--~g~qvlilaPT~~LA~Q~~~~~~~l~~~~g-i~v~lltg---~~~~~~------------r 327 (630)
T TIGR00643 266 GSGKTLVAALAMLAAIE--AGYQVALMAPTEILAEQHYNSLRNLLAPLG-IEVALLTG---SLKGKR------------R 327 (630)
T ss_pred CCcHHHHHHHHHHHHHH--cCCcEEEECCHHHHHHHHHHHHHHHhcccC-cEEEEEec---CCCHHH------------H
Confidence 467888764 444444 477999999999999999988876543211 12211000 000000 0
Q ss_pred cchHHHhc--cCcEEEEcccccchhhcCCCCCCCCcEEEEecCCC
Q 037641 98 LPSLQELM--RFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASS 140 (208)
Q Consensus 98 ~~~~~~l~--~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQ 140 (208)
....+.+. +.+||++|-.. + ...+....+++||||||-.
T Consensus 328 ~~~~~~i~~g~~~IiVgT~~l---l-~~~~~~~~l~lvVIDEaH~ 368 (630)
T TIGR00643 328 KELLETIASGQIHLVVGTHAL---I-QEKVEFKRLALVIIDEQHR 368 (630)
T ss_pred HHHHHHHhCCCCCEEEecHHH---H-hccccccccceEEEechhh
Confidence 00112222 46899998542 2 1223345789999999875
No 55
>PHA03372 DNA packaging terminase subunit 1; Provisional
Probab=94.34 E-value=0.27 Score=47.21 Aligned_cols=122 Identities=10% Similarity=0.140 Sum_probs=73.0
Q ss_pred CCchhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccC
Q 037641 18 LSKTGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQ 97 (208)
Q Consensus 18 ~~~t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~ 97 (208)
=|||-+ ++-+|.-+++...|-+|.++||-.-+..-+..++...+..+ ....+.. ....... .|.
T Consensus 213 HGKTWf-~VpiIsllL~s~~gI~IGYvAHqKhvs~~Vf~EI~~~lrrw-----F~~~~vi-~~k~~tI---------~~s 276 (668)
T PHA03372 213 HGKTWF-IIPIISFLLKNIIGISIGYVAHQKHVSQFVLKEVEFRCRRM-----FPRKHTI-ENKDNVI---------SID 276 (668)
T ss_pred CCceeh-HHHHHHHHHHhhcCceEEEEeeHHHHHHHHHHHHHHHHhhh-----cCcccee-eecCcEE---------EEe
Confidence 366766 55677777887789999999999988888777776433211 1111100 0000000 111
Q ss_pred cchHHHhccCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCCch--hhhHHHhhcccCCceEEEEcCC
Q 037641 98 LPSLQELMRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSATEP--ETMIALTNLANEHTTVILTGTP 166 (208)
Q Consensus 98 ~~~~~~l~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~Ep--e~liPL~~l~~~~~~vVLvGD~ 166 (208)
.|. .+..++++||.... ..+.+.|+.+|||||.-.... .+++|+++. +..|+|++--|
T Consensus 277 ~pg----~Kst~~fasc~n~N-----siRGQ~fnll~VDEA~FI~~~a~~tilgfm~q--~~~KiIfISS~ 336 (668)
T PHA03372 277 HRG----AKSTALFASCYNTN-----SIRGQNFHLLLVDEAHFIKKDAFNTILGFLAQ--NTTKIIFISST 336 (668)
T ss_pred cCC----CcceeeehhhccCc-----cccCCCCCEEEEehhhccCHHHHHHhhhhhcc--cCceEEEEeCC
Confidence 121 12346666665433 345668999999999997743 236676643 46888988544
No 56
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=94.23 E-value=0.064 Score=52.46 Aligned_cols=55 Identities=22% Similarity=0.230 Sum_probs=41.5
Q ss_pred CchhHHHHH--HHHHHHHcC----CCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccc
Q 037641 19 SKTGLVVRE--AVLEIYKRS----SKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAF 74 (208)
Q Consensus 19 ~~t~~Tive--~i~ql~~~~----~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~ 74 (208)
++||+|.+. +|-.++... ...+|||++.||.|+|++++++.. .....++|+|+..
T Consensus 402 pGTgkt~vtlkav~tLL~n~s~~~~~epIlvvC~Tnhavdq~ligiy~-~qrpsImr~gsr~ 462 (1025)
T KOG1807|consen 402 PGTGKTLVTLKAVDTLLLNSSGYTEPEPILVVCLTNHAVDQYLIGIYY-HQRPSIMRQGSRF 462 (1025)
T ss_pred CCCCceeehHHHHHHHHhcccccccccceeeeehhhHHHHHHHHHHHh-cCCceEEEecccc
Confidence 457777664 455565542 236999999999999999999985 3467899999854
No 57
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=93.82 E-value=0.54 Score=45.89 Aligned_cols=132 Identities=11% Similarity=0.068 Sum_probs=65.6
Q ss_pred CCCCchhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCC-
Q 037641 16 DNLSKTGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGE- 94 (208)
Q Consensus 16 ~~~~~t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~- 94 (208)
-+-|||..... ++..+. ...+.+|+|+||.-..+..+..++.+.+..... .++.... ..+.. .+.+.
T Consensus 196 RqrGKS~iVgi-~l~~La-~f~Gi~IlvTAH~~~ts~evF~rv~~~le~lg~------~~~fp~~-~~iv~---vkgg~E 263 (752)
T PHA03333 196 RRCGKTTIMAI-ILAAMI-SFLEIDIVVQAQRKTMCLTLYNRVETVVHAYQH------KPWFPEE-FKIVT---LKGTDE 263 (752)
T ss_pred cCCCcHHHHHH-HHHHHH-HhcCCeEEEECCChhhHHHHHHHHHHHHHHhcc------ccccCCC-ceEEE---eeCCee
Confidence 35566655321 222222 223789999999999999999998765421110 0000000 00000 00000
Q ss_pred --ccCcchHHHhccCcEEEEc-ccccchhhcCCCCCCCCcEEEEecCCCCCchh--hhHHHhhcccCCceEEEEcCCCC
Q 037641 95 --CFQLPSLQELMRFRVIFST-FTSSFRLHNEGIPAGHFSHIFLLDASSATEPE--TMIALTNLANEHTTVILTGTPNN 168 (208)
Q Consensus 95 --~~~~~~~~~l~~~~Vv~~T-~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~Epe--~liPL~~l~~~~~~vVLvGD~~Q 168 (208)
.|..|....+....|.+++ +..+ .+...||.+|||||+....+. .++|+... ...+++++--|..
T Consensus 264 ~I~f~~p~gak~G~sti~F~Ars~~s-------~RG~~~DLLIVDEAAfI~~~~l~aIlP~l~~--~~~k~IiISS~~~ 333 (752)
T PHA03333 264 NLEYISDPAAKEGKTTAHFLASSPNA-------ARGQNPDLVIVDEAAFVNPGALLSVLPLMAV--KGTKQIHISSPVD 333 (752)
T ss_pred EEEEecCcccccCcceeEEecccCCC-------cCCCCCCEEEEECcccCCHHHHHHHHHHHcc--CCCceEEEeCCCC
Confidence 1112211111113444432 2222 233468999999999987643 37777733 3466777655543
No 58
>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=93.79 E-value=0.26 Score=46.33 Aligned_cols=94 Identities=14% Similarity=0.197 Sum_probs=56.5
Q ss_pred hhHHHH--HHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccCc
Q 037641 21 TGLVVR--EAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQL 98 (208)
Q Consensus 21 t~~Tiv--e~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~ 98 (208)
.|+|.+ .++.+.+.. +.++||.+|+..=+..+..++.+.++ ..+..+.+. +++. ..+
T Consensus 8 sGKT~v~l~~i~~~l~~--g~~vLvlvP~i~L~~Q~~~~l~~~f~-~~v~vlhs~------~~~~-er~----------- 66 (505)
T TIGR00595 8 SGKTEVYLQAIEKVLAL--GKSVLVLVPEIALTPQMIQRFKYRFG-SQVAVLHSG------LSDS-EKL----------- 66 (505)
T ss_pred CCHHHHHHHHHHHHHHc--CCeEEEEeCcHHHHHHHHHHHHHHhC-CcEEEEECC------CCHH-HHH-----------
Confidence 345554 455566554 77999999999999999999987653 233322221 1110 000
Q ss_pred chHHHh--ccCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCC
Q 037641 99 PSLQEL--MRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSA 141 (208)
Q Consensus 99 ~~~~~l--~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa 141 (208)
..+..+ .+++||++|-+... .+..++++|||||+...
T Consensus 67 ~~~~~~~~g~~~IVVGTrsalf------~p~~~l~lIIVDEeh~~ 105 (505)
T TIGR00595 67 QAWRKVKNGEILVVIGTRSALF------LPFKNLGLIIVDEEHDS 105 (505)
T ss_pred HHHHHHHcCCCCEEECChHHHc------CcccCCCEEEEECCCcc
Confidence 112222 35789999865432 23457899999998543
No 59
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=93.56 E-value=0.052 Score=49.12 Aligned_cols=40 Identities=25% Similarity=0.440 Sum_probs=28.8
Q ss_pred cEEEEecCCCCCchhhhHHHhhcccCCceEEEEcCCCCCCc
Q 037641 131 SHIFLLDASSATEPETMIALTNLANEHTTVILTGTPNNRTS 171 (208)
Q Consensus 131 d~vIIDEAsQa~Epe~liPL~~l~~~~~~vVLvGD~~QL~P 171 (208)
..||||||-- .+|.-+--+..=+.++.|+|+.||+-|..-
T Consensus 353 ~FiIIDEaQN-LTpheikTiltR~G~GsKIVl~gd~aQiD~ 392 (436)
T COG1875 353 SFIIIDEAQN-LTPHELKTILTRAGEGSKIVLTGDPAQIDT 392 (436)
T ss_pred ceEEEehhhc-cCHHHHHHHHHhccCCCEEEEcCCHHHcCC
Confidence 4599999855 456554444433457899999999999953
No 60
>PF00580 UvrD-helicase: UvrD/REP helicase N-terminal domain; InterPro: IPR000212 Members of this family are helicases that catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. THe family includes both Rep and UvrD helcases. The Rep family helicases are composed of four structural domains []. The Rep proteins function as dimers.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 1UAA_B 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A 1QHG_A 1PJR_A ....
Probab=93.47 E-value=0.13 Score=43.83 Aligned_cols=58 Identities=17% Similarity=0.324 Sum_probs=35.0
Q ss_pred CCCcEEEEecCCCCCchhhhHHHhhcccCCceEEEEcCCCCCCcceechHHhhCCCCccHHHHHHc
Q 037641 128 GHFSHIFLLDASSATEPETMIALTNLANEHTTVILTGTPNNRTSWVRSDIARKNGLRVSHFERLHA 193 (208)
Q Consensus 128 ~~Fd~vIIDEAsQa~Epe~liPL~~l~~~~~~vVLvGD~~QL~P~V~s~~a~~~gl~~SLfeRL~~ 193 (208)
..|++|+|||+=-.+....- -|..+.+...+++++||++|== -+ =.|-+.++|.++.+
T Consensus 255 ~~~~~i~IDE~QD~s~~Q~~-il~~l~~~~~~~~~vGD~~QsI---Y~----frga~~~~~~~~~~ 312 (315)
T PF00580_consen 255 QRYDHILIDEFQDTSPLQLR-ILKKLFKNPENLFIVGDPNQSI---YG----FRGADPELFEEFKE 312 (315)
T ss_dssp HHSSEEEESSGGG-BHHHHH-HHHHHHTTTTTEEEEE-GGG-----GG----GGTB-THHHHHHHH
T ss_pred hhCCeEEeEccccCCHHHHH-HHHHHHHhhceeEEeCCCCcce---ee----cCCCCHHHHHHHHh
Confidence 36999999999887765542 2333444555799999999942 11 12556667766654
No 61
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=93.45 E-value=0.56 Score=42.66 Aligned_cols=104 Identities=13% Similarity=0.166 Sum_probs=55.0
Q ss_pred hhHHHHHH--HHHHHHc-----CCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCC
Q 037641 21 TGLVVREA--VLEIYKR-----SSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGG 93 (208)
Q Consensus 21 t~~Tive~--i~ql~~~-----~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~ 93 (208)
+|+|++-+ +++.+.. .++.++||++||..-+..+.+.+........ ++++... ++
T Consensus 49 sGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~Pt~eLa~Q~~~~~~~l~~~~~-~~v~~~~-----------------gg 110 (434)
T PRK11192 49 TGKTAAFLLPALQHLLDFPRRKSGPPRILILTPTRELAMQVADQARELAKHTH-LDIATIT-----------------GG 110 (434)
T ss_pred ChHHHHHHHHHHHHHhhccccCCCCceEEEECCcHHHHHHHHHHHHHHHccCC-cEEEEEE-----------------CC
Confidence 56787643 2333221 1246899999999988888777654321111 1121100 00
Q ss_pred CccCcchHHHh-ccCcEEEEcccccchh-hcCCCCCCCCcEEEEecCCCCCc
Q 037641 94 ECFQLPSLQEL-MRFRVIFSTFTSSFRL-HNEGIPAGHFSHIFLLDASSATE 143 (208)
Q Consensus 94 ~~~~~~~~~~l-~~~~Vv~~T~~~a~~l-~~~~~~~~~Fd~vIIDEAsQa~E 143 (208)
..+. ...+.+ .+.+|+++|-.....+ ....+....+++||||||-.+.+
T Consensus 111 ~~~~-~~~~~l~~~~~IlV~Tp~rl~~~~~~~~~~~~~v~~lViDEah~~l~ 161 (434)
T PRK11192 111 VAYM-NHAEVFSENQDIVVATPGRLLQYIKEENFDCRAVETLILDEADRMLD 161 (434)
T ss_pred CCHH-HHHHHhcCCCCEEEEChHHHHHHHHcCCcCcccCCEEEEECHHHHhC
Confidence 0000 011122 3568999996432222 12233445689999999987665
No 62
>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=93.42 E-value=0.18 Score=49.75 Aligned_cols=43 Identities=19% Similarity=0.158 Sum_probs=30.7
Q ss_pred CCCchhHH--HHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhh
Q 037641 17 NLSKTGLV--VREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKK 60 (208)
Q Consensus 17 ~~~~t~~T--ive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~ 60 (208)
.-.+|||| +.+-+.+.+. .++.+||+.++-..=+..++.|+..
T Consensus 56 SpMGTGKTtaLi~wLk~~l~-~~~~~VLvVShRrSL~~sL~~rf~~ 100 (824)
T PF02399_consen 56 SPMGTGKTTALIRWLKDALK-NPDKSVLVVSHRRSLTKSLAERFKK 100 (824)
T ss_pred CCCCCCcHHHHHHHHHHhcc-CCCCeEEEEEhHHHHHHHHHHHHhh
Confidence 34456655 3444444433 3789999999999999999999876
No 63
>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=93.33 E-value=0.26 Score=49.68 Aligned_cols=99 Identities=11% Similarity=0.116 Sum_probs=55.6
Q ss_pred chhHHHHHHH--HHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccC
Q 037641 20 KTGLVVREAV--LEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQ 97 (208)
Q Consensus 20 ~t~~Tive~i--~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~ 97 (208)
++|+|++-+. .+.+. .+.+++|.+||..=+....+.+.+.+.... +++..-++. .+. .. .
T Consensus 482 GsGKT~val~a~l~al~--~g~qvlvLvPT~~LA~Q~~~~f~~~~~~~~-i~v~~Lsg~---~~~-----------~e-~ 543 (926)
T TIGR00580 482 GFGKTEVAMRAAFKAVL--DGKQVAVLVPTTLLAQQHFETFKERFANFP-VTIELLSRF---RSA-----------KE-Q 543 (926)
T ss_pred CccHHHHHHHHHHHHHH--hCCeEEEEeCcHHHHHHHHHHHHHHhccCC-cEEEEEecc---ccH-----------HH-H
Confidence 3567877543 33333 367999999999999999888887543221 233221110 000 00 0
Q ss_pred cchHHHhc--cCcEEEEcccccchhhcCCCCCCCCcEEEEecCCC
Q 037641 98 LPSLQELM--RFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASS 140 (208)
Q Consensus 98 ~~~~~~l~--~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQ 140 (208)
....+.+. +.+||++|-. +....+...++.++|||||-.
T Consensus 544 ~~~~~~l~~g~~dIVIGTp~----ll~~~v~f~~L~llVIDEahr 584 (926)
T TIGR00580 544 NEILKELASGKIDILIGTHK----LLQKDVKFKDLGLLIIDEEQR 584 (926)
T ss_pred HHHHHHHHcCCceEEEchHH----HhhCCCCcccCCEEEeecccc
Confidence 00012222 4689999853 222233345789999999854
No 64
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=92.92 E-value=0.52 Score=45.53 Aligned_cols=104 Identities=13% Similarity=0.118 Sum_probs=56.8
Q ss_pred chhHHHHHH--HHHHH-HcCCCCeEEEECCChHHHHHHHHHhhhh---CCCCCeEEEeccccCCCCCCchhhccccccCC
Q 037641 20 KTGLVVREA--VLEIY-KRSSKCRILVCAPINRTGDVLMRSLKKK---IPKSDMFRANAAFREVDGVPVDILPLCLYEGG 93 (208)
Q Consensus 20 ~t~~Tive~--i~ql~-~~~~~~rILV~A~SN~AvD~l~~rL~~~---~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~ 93 (208)
.||+|++=. +++.+ ....+.++||.+||..-+..+.+.+.+. +++..++-++..
T Consensus 53 GsGKT~af~lpll~~l~~~~~~~~~LIL~PTreLa~Qv~~~l~~~~~~~~~i~v~~~~gG-------------------- 112 (629)
T PRK11634 53 GSGKTAAFSLPLLHNLDPELKAPQILVLAPTRELAVQVAEAMTDFSKHMRGVNVVALYGG-------------------- 112 (629)
T ss_pred CCcHHHHHHHHHHHHhhhccCCCeEEEEeCcHHHHHHHHHHHHHHHhhcCCceEEEEECC--------------------
Confidence 367887643 22222 2233568999999999998887776643 222222222111
Q ss_pred CccCcchHHHh-ccCcEEEEcccccchhh-cCCCCCCCCcEEEEecCCCCCch
Q 037641 94 ECFQLPSLQEL-MRFRVIFSTFTSSFRLH-NEGIPAGHFSHIFLLDASSATEP 144 (208)
Q Consensus 94 ~~~~~~~~~~l-~~~~Vv~~T~~~a~~l~-~~~~~~~~Fd~vIIDEAsQa~Ep 144 (208)
..+. ...+.+ ...+||++|-.....+. ...+....+.+||+|||-.+...
T Consensus 113 ~~~~-~q~~~l~~~~~IVVgTPgrl~d~l~r~~l~l~~l~~lVlDEAd~ml~~ 164 (629)
T PRK11634 113 QRYD-VQLRALRQGPQIVVGTPGRLLDHLKRGTLDLSKLSGLVLDEADEMLRM 164 (629)
T ss_pred cCHH-HHHHHhcCCCCEEEECHHHHHHHHHcCCcchhhceEEEeccHHHHhhc
Confidence 1010 011112 34789999975433221 11233356889999999876543
No 65
>PTZ00424 helicase 45; Provisional
Probab=92.84 E-value=0.85 Score=40.75 Aligned_cols=105 Identities=13% Similarity=0.198 Sum_probs=54.2
Q ss_pred chhHHHHHH--HHHHHH-cCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCcc
Q 037641 20 KTGLVVREA--VLEIYK-RSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECF 96 (208)
Q Consensus 20 ~t~~Tive~--i~ql~~-~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~ 96 (208)
++|+|++-. +++.+. ...+.++|+.+||..=+..+...+........ ++.... .. +...
T Consensus 75 GsGKT~~~~l~~l~~~~~~~~~~~~lil~Pt~~L~~Q~~~~~~~~~~~~~-~~~~~~----------------~g-~~~~ 136 (401)
T PTZ00424 75 GTGKTATFVIAALQLIDYDLNACQALILAPTRELAQQIQKVVLALGDYLK-VRCHAC----------------VG-GTVV 136 (401)
T ss_pred CChHHHHHHHHHHHHhcCCCCCceEEEECCCHHHHHHHHHHHHHHhhhcC-ceEEEE----------------EC-CcCH
Confidence 367887643 334333 22467899999998887776665544211000 111100 00 0000
Q ss_pred CcchHHHh-ccCcEEEEcccccchhh-cCCCCCCCCcEEEEecCCCCCc
Q 037641 97 QLPSLQEL-MRFRVIFSTFTSSFRLH-NEGIPAGHFSHIFLLDASSATE 143 (208)
Q Consensus 97 ~~~~~~~l-~~~~Vv~~T~~~a~~l~-~~~~~~~~Fd~vIIDEAsQa~E 143 (208)
....+.+ ...+|+++|-.....+. ...+....++++|||||-...+
T Consensus 137 -~~~~~~~~~~~~Ivv~Tp~~l~~~l~~~~~~l~~i~lvViDEah~~~~ 184 (401)
T PTZ00424 137 -RDDINKLKAGVHMVVGTPGRVYDMIDKRHLRVDDLKLFILDEADEMLS 184 (401)
T ss_pred -HHHHHHHcCCCCEEEECcHHHHHHHHhCCcccccccEEEEecHHHHHh
Confidence 0111222 34689999975433221 1122345789999999976544
No 66
>COG0507 RecD ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]
Probab=92.74 E-value=0.062 Score=52.14 Aligned_cols=47 Identities=17% Similarity=0.118 Sum_probs=35.3
Q ss_pred CCcEEEEecCCCCCchhhhHHHhhcccCCceEEEEcCCCCCCcceech
Q 037641 129 HFSHIFLLDASSATEPETMIALTNLANEHTTVILTGTPNNRTSWVRSD 176 (208)
Q Consensus 129 ~Fd~vIIDEAsQa~Epe~liPL~~l~~~~~~vVLvGD~~QL~P~V~s~ 176 (208)
..|.+||||+++...-.......+. ....++|++||+.||+|+.-..
T Consensus 407 ~~d~~iiDe~~ml~~~~~~~l~~~i-~~~a~~i~vGD~~ql~~v~~g~ 453 (696)
T COG0507 407 DGDLLIIDEASMLDTSLAFGLLSAI-GKLAKVILVGDVDQLPSVGAGA 453 (696)
T ss_pred ccceeEEehhhhHHHHHhhhhhccc-ccCCeEEEeCCHHhcCCCCCCc
Confidence 3599999999999873333332322 3578999999999999997765
No 67
>PRK05580 primosome assembly protein PriA; Validated
Probab=92.45 E-value=0.79 Score=44.69 Aligned_cols=94 Identities=12% Similarity=0.170 Sum_probs=56.8
Q ss_pred hhHHHHH--HHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccCc
Q 037641 21 TGLVVRE--AVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQL 98 (208)
Q Consensus 21 t~~Tive--~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~ 98 (208)
+|+|.+- ++.+.+.. +.++||.+||..=++.+.+++.+.++ ..+..+.+. .+.. ..+
T Consensus 173 SGKT~v~l~~i~~~l~~--g~~vLvLvPt~~L~~Q~~~~l~~~fg-~~v~~~~s~------~s~~-~r~----------- 231 (679)
T PRK05580 173 SGKTEVYLQAIAEVLAQ--GKQALVLVPEIALTPQMLARFRARFG-APVAVLHSG------LSDG-ERL----------- 231 (679)
T ss_pred ChHHHHHHHHHHHHHHc--CCeEEEEeCcHHHHHHHHHHHHHHhC-CCEEEEECC------CCHH-HHH-----------
Confidence 4567654 45555554 67999999999999999999987653 233323221 1100 000
Q ss_pred chHHHh--ccCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCC
Q 037641 99 PSLQEL--MRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSA 141 (208)
Q Consensus 99 ~~~~~l--~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa 141 (208)
..+..+ .+.+||++|-+... .+..++..|||||+...
T Consensus 232 ~~~~~~~~g~~~IVVgTrsal~------~p~~~l~liVvDEeh~~ 270 (679)
T PRK05580 232 DEWRKAKRGEAKVVIGARSALF------LPFKNLGLIIVDEEHDS 270 (679)
T ss_pred HHHHHHHcCCCCEEEeccHHhc------ccccCCCEEEEECCCcc
Confidence 011222 34689999965422 23457899999998643
No 68
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=92.40 E-value=0.74 Score=42.44 Aligned_cols=86 Identities=13% Similarity=0.150 Sum_probs=48.1
Q ss_pred CeEEEECCChHHHHHHHHHhhhhCCCC--CeEEEeccccCCCCCCchhhccccccCCCccCcchHHHh-ccCcEEEEccc
Q 037641 39 CRILVCAPINRTGDVLMRSLKKKIPKS--DMFRANAAFREVDGVPVDILPLCLYEGGECFQLPSLQEL-MRFRVIFSTFT 115 (208)
Q Consensus 39 ~rILV~A~SN~AvD~l~~rL~~~~~~~--~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~~~~~~l-~~~~Vv~~T~~ 115 (208)
.++||.+||..-+..+.+.+.+..... ....+.. +..+ .+....+ ...+|+++|-.
T Consensus 76 ~~aLil~PtreLa~Qi~~~~~~~~~~~~~~~~~~~g--------------------g~~~-~~~~~~l~~~~~IiV~TP~ 134 (456)
T PRK10590 76 VRALILTPTRELAAQIGENVRDYSKYLNIRSLVVFG--------------------GVSI-NPQMMKLRGGVDVLVATPG 134 (456)
T ss_pred ceEEEEeCcHHHHHHHHHHHHHHhccCCCEEEEEEC--------------------CcCH-HHHHHHHcCCCcEEEEChH
Confidence 479999999999888888776532111 1111100 0000 0111112 35689999965
Q ss_pred ccchhh-cCCCCCCCCcEEEEecCCCCCchh
Q 037641 116 SSFRLH-NEGIPAGHFSHIFLLDASSATEPE 145 (208)
Q Consensus 116 ~a~~l~-~~~~~~~~Fd~vIIDEAsQa~Epe 145 (208)
....+. ...+....++++|||||-.+.+..
T Consensus 135 rL~~~~~~~~~~l~~v~~lViDEah~ll~~~ 165 (456)
T PRK10590 135 RLLDLEHQNAVKLDQVEILVLDEADRMLDMG 165 (456)
T ss_pred HHHHHHHcCCcccccceEEEeecHHHHhccc
Confidence 432221 112233568999999998876644
No 69
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=92.35 E-value=0.83 Score=41.51 Aligned_cols=88 Identities=16% Similarity=0.246 Sum_probs=47.7
Q ss_pred CCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccCcchHHHh-ccCcEEEEcccc
Q 037641 38 KCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQLPSLQEL-MRFRVIFSTFTS 116 (208)
Q Consensus 38 ~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~~~~~~l-~~~~Vv~~T~~~ 116 (208)
+.++||.+||..-+..+...+........ ++++... .+..+. ...+.+ ...+|+++|-..
T Consensus 83 ~~~~lil~PtreLa~Qi~~~~~~l~~~~~-~~v~~~~-----------------gg~~~~-~~~~~l~~~~~IlV~TP~~ 143 (423)
T PRK04837 83 QPRALIMAPTRELAVQIHADAEPLAQATG-LKLGLAY-----------------GGDGYD-KQLKVLESGVDILIGTTGR 143 (423)
T ss_pred CceEEEECCcHHHHHHHHHHHHHHhccCC-ceEEEEE-----------------CCCCHH-HHHHHhcCCCCEEEECHHH
Confidence 46899999999999888766543211111 1221100 000000 011222 246899999754
Q ss_pred cchhhc-CCCCCCCCcEEEEecCCCCCch
Q 037641 117 SFRLHN-EGIPAGHFSHIFLLDASSATEP 144 (208)
Q Consensus 117 a~~l~~-~~~~~~~Fd~vIIDEAsQa~Ep 144 (208)
...+.. ..+....+.++|||||-.+.+.
T Consensus 144 l~~~l~~~~~~l~~v~~lViDEad~l~~~ 172 (423)
T PRK04837 144 LIDYAKQNHINLGAIQVVVLDEADRMFDL 172 (423)
T ss_pred HHHHHHcCCcccccccEEEEecHHHHhhc
Confidence 333221 1233457899999999876553
No 70
>PRK09401 reverse gyrase; Reviewed
Probab=92.29 E-value=0.42 Score=49.41 Aligned_cols=107 Identities=14% Similarity=0.185 Sum_probs=56.2
Q ss_pred hhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccCcch
Q 037641 21 TGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQLPS 100 (208)
Q Consensus 21 t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~~~ 100 (208)
+|+|.+-++..+.....+.++||.+||..=++.+..++.+...... +++...... ..++. +. ....
T Consensus 106 sGKT~f~l~~~~~l~~~g~~alIL~PTreLa~Qi~~~l~~l~~~~~-~~~~~~~g~-~~~~~-----------~e-k~~~ 171 (1176)
T PRK09401 106 VGKTTFGLVMSLYLAKKGKKSYIIFPTRLLVEQVVEKLEKFGEKVG-CGVKILYYH-SSLKK-----------KE-KEEF 171 (1176)
T ss_pred CCHHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHHHHhhhcC-ceEEEEEcc-CCcch-----------hH-HHHH
Confidence 4456543332222223478999999999999999999886432111 111000000 00000 00 0001
Q ss_pred HHHhc--cCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCC
Q 037641 101 LQELM--RFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSAT 142 (208)
Q Consensus 101 ~~~l~--~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~ 142 (208)
.+.+. ..+|+++|-........ .+....|+++|||||-.+.
T Consensus 172 ~~~l~~~~~~IlV~Tp~rL~~~~~-~l~~~~~~~lVvDEaD~~L 214 (1176)
T PRK09401 172 LERLKEGDFDILVTTSQFLSKNFD-ELPKKKFDFVFVDDVDAVL 214 (1176)
T ss_pred HHHHhcCCCCEEEECHHHHHHHHH-hccccccCEEEEEChHHhh
Confidence 12232 47899999654332211 3444569999999997665
No 71
>PRK02362 ski2-like helicase; Provisional
Probab=92.05 E-value=1.4 Score=43.14 Aligned_cols=100 Identities=10% Similarity=0.110 Sum_probs=56.4
Q ss_pred hhHHHHHH--HHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccCc
Q 037641 21 TGLVVREA--VLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQL 98 (208)
Q Consensus 21 t~~Tive~--i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~ 98 (208)
.|+|++-. +++.+. ++.++++++|+-.=++....++.+ +.... +|++..... +.
T Consensus 50 SGKTlia~lail~~l~--~~~kal~i~P~raLa~q~~~~~~~-~~~~g-~~v~~~tGd-------------------~~- 105 (737)
T PRK02362 50 SGKTLIAELAMLKAIA--RGGKALYIVPLRALASEKFEEFER-FEELG-VRVGISTGD-------------------YD- 105 (737)
T ss_pred chHHHHHHHHHHHHHh--cCCcEEEEeChHHHHHHHHHHHHH-hhcCC-CEEEEEeCC-------------------cC-
Confidence 56788753 344333 467999999999888888888764 21111 233221100 00
Q ss_pred chHHHhccCcEEEEcccccchhhcCC-CCCCCCcEEEEecCCCCCch
Q 037641 99 PSLQELMRFRVIFSTFTSSFRLHNEG-IPAGHFSHIFLLDASSATEP 144 (208)
Q Consensus 99 ~~~~~l~~~~Vv~~T~~~a~~l~~~~-~~~~~Fd~vIIDEAsQa~Ep 144 (208)
...+.+.+..|+++|......+.... ..-..++++|||||-...++
T Consensus 106 ~~~~~l~~~~IiV~Tpek~~~llr~~~~~l~~v~lvViDE~H~l~d~ 152 (737)
T PRK02362 106 SRDEWLGDNDIIVATSEKVDSLLRNGAPWLDDITCVVVDEVHLIDSA 152 (737)
T ss_pred ccccccCCCCEEEECHHHHHHHHhcChhhhhhcCEEEEECccccCCC
Confidence 00122345789999965332221111 01236899999999987654
No 72
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=91.75 E-value=0.96 Score=42.67 Aligned_cols=134 Identities=16% Similarity=0.169 Sum_probs=73.2
Q ss_pred CCCCchhHHHHHHH--HHHHHcCCCCeEEEECCChHHHHHHHHHhhhh-------C-CC--CCeEEEeccccCCCCCCch
Q 037641 16 DNLSKTGLVVREAV--LEIYKRSSKCRILVCAPINRTGDVLMRSLKKK-------I-PK--SDMFRANAAFREVDGVPVD 83 (208)
Q Consensus 16 ~~~~~t~~Tive~i--~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~-------~-~~--~~i~Rv~~~~r~~~~~~~~ 83 (208)
.+|-+.|+|++=+. ..++..+|+.||+++..|..=.-. ..++... . +. ..++|-+++.-.-+.....
T Consensus 182 rGLAGSGKT~~La~Kaa~lh~knPd~~I~~Tfftk~L~s~-~r~lv~~F~f~~~e~~pdW~~~l~~h~wgG~t~~g~y~~ 260 (660)
T COG3972 182 RGLAGSGKTELLAHKAAELHSKNPDSRIAFTFFTKILAST-MRTLVPEFFFMRVEKQPDWGTKLFCHNWGGLTKEGFYGM 260 (660)
T ss_pred hcccCCCchhHHHHHHHHHhcCCCCceEEEEeehHHHHHH-HHHHHHHHHHHHhhcCCCccceEEEeccCCCCCCcchHH
Confidence 45666777776554 357778899999999997665444 3333321 1 22 3466766643211111111
Q ss_pred hhcccccc------CCCccCcchHHHhccCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCCchhhhHHHhhcc-cC
Q 037641 84 ILPLCLYE------GGECFQLPSLQELMRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSATEPETMIALTNLA-NE 156 (208)
Q Consensus 84 l~~~~~~~------~~~~~~~~~~~~l~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~Epe~liPL~~l~-~~ 156 (208)
....|.+. .+..|+-.=++.+.. .-...-+|+|+|||+- ..|...+-|.-+. +.
T Consensus 261 ~~~~~~~~~~~fsg~g~~F~~aC~eli~~-----------------~~~~~~yD~ilIDE~Q--DFP~~F~~Lcf~~tkd 321 (660)
T COG3972 261 YRYICHYYEIPFSGFGNGFDAACKELIAD-----------------INNKKAYDYILIDESQ--DFPQSFIDLCFMVTKD 321 (660)
T ss_pred HHHHhcccccccCCCCcchHHHHHHHHHh-----------------hhccccccEEEecccc--cCCHHHHHHHHHHhcC
Confidence 11111111 011122111111111 0013468999999985 4588877777333 34
Q ss_pred CceEEEEcCCCCC
Q 037641 157 HTTVILTGTPNNR 169 (208)
Q Consensus 157 ~~~vVLvGD~~QL 169 (208)
.|++|.+||..|-
T Consensus 322 ~KrlvyAyDelQn 334 (660)
T COG3972 322 KKRLVYAYDELQN 334 (660)
T ss_pred cceEEEehHhhhc
Confidence 6899999999997
No 73
>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=91.73 E-value=0.32 Score=42.91 Aligned_cols=43 Identities=19% Similarity=0.202 Sum_probs=30.6
Q ss_pred hhHHHHH--HHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCC
Q 037641 21 TGLVVRE--AVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIP 63 (208)
Q Consensus 21 t~~Tive--~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~ 63 (208)
.|+|.+- .++..+.+.++.|++++.|+...++.+.+++.+.++
T Consensus 10 sGKT~~~~~~~l~~~~~~~~~~ii~v~P~~~L~~q~~~~l~~~f~ 54 (358)
T TIGR01587 10 YGKTEAALLWALHSIKSQKADRVIIALPTRATINAMYRRAKELFG 54 (358)
T ss_pred CCHHHHHHHHHHHHHhhCCCCeEEEEeehHHHHHHHHHHHHHHhC
Confidence 3455443 233334445678999999999999999999987543
No 74
>PRK10689 transcription-repair coupling factor; Provisional
Probab=91.53 E-value=0.65 Score=47.92 Aligned_cols=99 Identities=11% Similarity=0.113 Sum_probs=54.0
Q ss_pred chhHHHHHH--HHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccC
Q 037641 20 KTGLVVREA--VLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQ 97 (208)
Q Consensus 20 ~t~~Tive~--i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~ 97 (208)
++|+|.+-+ +...+. .+.++||.+||..=+..+...+.+.+.... +++..-++.. +. . + .
T Consensus 631 GsGKT~val~aa~~~~~--~g~qvlvLvPT~eLA~Q~~~~f~~~~~~~~-v~i~~l~g~~---s~--------~--e--~ 692 (1147)
T PRK10689 631 GFGKTEVAMRAAFLAVE--NHKQVAVLVPTTLLAQQHYDNFRDRFANWP-VRIEMLSRFR---SA--------K--E--Q 692 (1147)
T ss_pred CcCHHHHHHHHHHHHHH--cCCeEEEEeCcHHHHHHHHHHHHHhhccCC-ceEEEEECCC---CH--------H--H--H
Confidence 466787643 222233 478999999999988888888776443211 2222211100 00 0 0 0
Q ss_pred cchHHHh--ccCcEEEEcccccchhhcCCCCCCCCcEEEEecCCC
Q 037641 98 LPSLQEL--MRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASS 140 (208)
Q Consensus 98 ~~~~~~l--~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQ 140 (208)
....+.+ ...+||++|-.. + ...+....++++|||||-.
T Consensus 693 ~~il~~l~~g~~dIVVgTp~l---L-~~~v~~~~L~lLVIDEahr 733 (1147)
T PRK10689 693 TQILAEAAEGKIDILIGTHKL---L-QSDVKWKDLGLLIVDEEHR 733 (1147)
T ss_pred HHHHHHHHhCCCCEEEECHHH---H-hCCCCHhhCCEEEEechhh
Confidence 0001122 246899999632 1 2223345789999999844
No 75
>PRK01172 ski2-like helicase; Provisional
Probab=90.68 E-value=2.5 Score=40.88 Aligned_cols=100 Identities=11% Similarity=0.125 Sum_probs=53.8
Q ss_pred hhHHHHH--HHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccCc
Q 037641 21 TGLVVRE--AVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQL 98 (208)
Q Consensus 21 t~~Tive--~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~ 98 (208)
.|||++. ++++.+.. +.++++++|+..=++.....+.+. .... ++++.... + +..
T Consensus 48 SGKTl~a~lail~~l~~--~~k~v~i~P~raLa~q~~~~~~~l-~~~g-~~v~~~~G------------------~-~~~ 104 (674)
T PRK01172 48 AGKTLIAYSAIYETFLA--GLKSIYIVPLRSLAMEKYEELSRL-RSLG-MRVKISIG------------------D-YDD 104 (674)
T ss_pred chHHHHHHHHHHHHHHh--CCcEEEEechHHHHHHHHHHHHHH-hhcC-CeEEEEeC------------------C-CCC
Confidence 4577753 23444443 568999999998888877776542 1100 11211000 0 000
Q ss_pred chHHHhccCcEEEEcccccchhhcCC-CCCCCCcEEEEecCCCCCch
Q 037641 99 PSLQELMRFRVIFSTFTSSFRLHNEG-IPAGHFSHIFLLDASSATEP 144 (208)
Q Consensus 99 ~~~~~l~~~~Vv~~T~~~a~~l~~~~-~~~~~Fd~vIIDEAsQa~Ep 144 (208)
..+.+...+|+++|-.....+.... ..-..+++||||||-...++
T Consensus 105 -~~~~~~~~dIiv~Tpek~~~l~~~~~~~l~~v~lvViDEaH~l~d~ 150 (674)
T PRK01172 105 -PPDFIKRYDVVILTSEKADSLIHHDPYIINDVGLIVADEIHIIGDE 150 (674)
T ss_pred -ChhhhccCCEEEECHHHHHHHHhCChhHHhhcCEEEEecchhccCC
Confidence 0122456789999974332221111 11246899999999987643
No 76
>PRK14873 primosome assembly protein PriA; Provisional
Probab=90.62 E-value=2 Score=41.90 Aligned_cols=89 Identities=18% Similarity=0.172 Sum_probs=58.6
Q ss_pred HHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccCcchHHHh
Q 037641 25 VREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQLPSLQEL 104 (208)
Q Consensus 25 ive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~~~~~~l 104 (208)
..++|.+.+.. |+.+||..|...-+..+..++.+.+++..+..+.+. +.+ -.+|.. +..+
T Consensus 177 yl~~i~~~l~~--Gk~vLvLvPEi~lt~q~~~rl~~~f~~~~v~~lhS~------l~~-~~R~~~-----------w~~~ 236 (665)
T PRK14873 177 LAAAAAATLRA--GRGALVVVPDQRDVDRLEAALRALLGAGDVAVLSAG------LGP-ADRYRR-----------WLAV 236 (665)
T ss_pred HHHHHHHHHHc--CCeEEEEecchhhHHHHHHHHHHHcCCCcEEEECCC------CCH-HHHHHH-----------HHHH
Confidence 44677777775 778999999999999999999987764555554431 111 011211 1112
Q ss_pred --ccCcEEEEcccccchhhcCCCCCCCCcEEEEecCC
Q 037641 105 --MRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDAS 139 (208)
Q Consensus 105 --~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAs 139 (208)
.+++||+.|-++... +-.....|||||=.
T Consensus 237 ~~G~~~IViGtRSAvFa------P~~~LgLIIvdEEh 267 (665)
T PRK14873 237 LRGQARVVVGTRSAVFA------PVEDLGLVAIWDDG 267 (665)
T ss_pred hCCCCcEEEEcceeEEe------ccCCCCEEEEEcCC
Confidence 347899999887543 33356788888854
No 77
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=90.61 E-value=1.1 Score=41.30 Aligned_cols=107 Identities=14% Similarity=0.176 Sum_probs=55.2
Q ss_pred chhHHHHHH--HHHHHHc-CCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCcc
Q 037641 20 KTGLVVREA--VLEIYKR-SSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECF 96 (208)
Q Consensus 20 ~t~~Tive~--i~ql~~~-~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~ 96 (208)
++|+|++-. +++.+.. ..+.++||.+||-.-++.+.+.+.+......-+++..... ..+ +
T Consensus 51 GsGKT~a~~lpil~~l~~~~~~~~~lil~PtreLa~Q~~~~~~~~~~~~~~~~v~~~~G---g~~--------------~ 113 (460)
T PRK11776 51 GSGKTAAFGLGLLQKLDVKRFRVQALVLCPTRELADQVAKEIRRLARFIPNIKVLTLCG---GVP--------------M 113 (460)
T ss_pred CCcHHHHHHHHHHHHhhhccCCceEEEEeCCHHHHHHHHHHHHHHHhhCCCcEEEEEEC---CCC--------------h
Confidence 366776532 3333322 2245799999999999988876654211110112211000 000 0
Q ss_pred CcchHHHh-ccCcEEEEcccccchhhc-CCCCCCCCcEEEEecCCCCCch
Q 037641 97 QLPSLQEL-MRFRVIFSTFTSSFRLHN-EGIPAGHFSHIFLLDASSATEP 144 (208)
Q Consensus 97 ~~~~~~~l-~~~~Vv~~T~~~a~~l~~-~~~~~~~Fd~vIIDEAsQa~Ep 144 (208)
....+.+ ...+|+++|-.....+.. ..+....++++|+|||-.+.+.
T Consensus 114 -~~~~~~l~~~~~IvV~Tp~rl~~~l~~~~~~l~~l~~lViDEad~~l~~ 162 (460)
T PRK11776 114 -GPQIDSLEHGAHIIVGTPGRILDHLRKGTLDLDALNTLVLDEADRMLDM 162 (460)
T ss_pred -HHHHHHhcCCCCEEEEChHHHHHHHHcCCccHHHCCEEEEECHHHHhCc
Confidence 0011122 357899999654332211 1223346899999999876543
No 78
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=90.55 E-value=1.3 Score=41.76 Aligned_cols=125 Identities=18% Similarity=0.270 Sum_probs=68.6
Q ss_pred hhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCC-CCeEEEeccccCCCCCCchhhccccccCCCccCcc
Q 037641 21 TGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPK-SDMFRANAAFREVDGVPVDILPLCLYEGGECFQLP 99 (208)
Q Consensus 21 t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~-~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~~ 99 (208)
-|+|| ++|.-++....+.+-||.||+ .|+-.....+..+-.+ .+++-.....| ..
T Consensus 215 MGKTI-QtIaLllae~~ra~tLVvaP~-VAlmQW~nEI~~~T~gslkv~~YhG~~R----------------------~~ 270 (791)
T KOG1002|consen 215 MGKTI-QTIALLLAEVDRAPTLVVAPT-VALMQWKNEIERHTSGSLKVYIYHGAKR----------------------DK 270 (791)
T ss_pred cchHH-HHHHHHHhccccCCeeEEccH-HHHHHHHHHHHHhccCceEEEEEecccc----------------------cC
Confidence 44555 444445555556789999995 5666666666654221 11111111111 12
Q ss_pred hHHHhccCcEEEEcccccch-h--hcCCC-------------CCCCCcEEEEecCCCCCchhh--hHHHhhcccCCceEE
Q 037641 100 SLQELMRFRVIFSTFTSSFR-L--HNEGI-------------PAGHFSHIFLLDASSATEPET--MIALTNLANEHTTVI 161 (208)
Q Consensus 100 ~~~~l~~~~Vv~~T~~~a~~-l--~~~~~-------------~~~~Fd~vIIDEAsQa~Epe~--liPL~~l~~~~~~vV 161 (208)
..+++.++.+|++|....-. + ...++ ....|-.||+|||--..+-.+ --++.++. ...++.
T Consensus 271 nikel~~YDvVLTty~vvEs~yRk~~~GfrrKngv~ke~SlLHsi~~~RiIlDEAH~IK~R~snTArAV~~L~-tt~rw~ 349 (791)
T KOG1002|consen 271 NIKELMNYDVVLTTYAVVESVYRKQDYGFRRKNGVDKEKSLLHSIKFYRIILDEAHNIKDRQSNTARAVFALE-TTYRWC 349 (791)
T ss_pred CHHHhhcCcEEEEecHHHHHHHHhccccccccCCcccccchhhhceeeeeehhhhcccccccccHHHHHHhhH-hhhhhh
Confidence 24667788888888763311 1 11121 123588899999987665332 11222222 357899
Q ss_pred EEcCCCCCC
Q 037641 162 LTGTPNNRT 170 (208)
Q Consensus 162 LvGD~~QL~ 170 (208)
|-|-|-|-.
T Consensus 350 LSGTPLQNr 358 (791)
T KOG1002|consen 350 LSGTPLQNR 358 (791)
T ss_pred ccCCcchhh
Confidence 999998854
No 79
>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=90.33 E-value=3.1 Score=40.54 Aligned_cols=121 Identities=14% Similarity=0.119 Sum_probs=65.8
Q ss_pred hhHHHH--HHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccCc
Q 037641 21 TGLVVR--EAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQL 98 (208)
Q Consensus 21 t~~Tiv--e~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~ 98 (208)
+|+|++ .++..++...+..+||+.+|+..=++.+...+.+... ..+.++++ . ..+.
T Consensus 274 sGKT~t~~~la~~l~~~~~~~~vl~lvdR~~L~~Q~~~~f~~~~~-~~~~~~~s-------~-~~L~------------- 331 (667)
T TIGR00348 274 SGKTLTMLFAARKALELLKNPKVFFVVDRRELDYQLMKEFQSLQK-DCAERIES-------I-AELK------------- 331 (667)
T ss_pred CCccHHHHHHHHHHHhhcCCCeEEEEECcHHHHHHHHHHHHhhCC-CCCcccCC-------H-HHHH-------------
Confidence 556554 4566677666678999999999999998888776321 11111111 0 0111
Q ss_pred chHHHh--ccCcEEEEcccccchhhc---CCCCCCCCc-EEEEecCCCCCchhhhHHHhhcccCCceEEEEcCC
Q 037641 99 PSLQEL--MRFRVIFSTFTSSFRLHN---EGIPAGHFS-HIFLLDASSATEPETMIALTNLANEHTTVILTGTP 166 (208)
Q Consensus 99 ~~~~~l--~~~~Vv~~T~~~a~~l~~---~~~~~~~Fd-~vIIDEAsQa~Epe~liPL~~l~~~~~~vVLvGD~ 166 (208)
+.+ ...+|+++|..+...... ..++...++ +||||||-.+.-....--+...-+....+-|.|=|
T Consensus 332 ---~~l~~~~~~iivtTiQk~~~~~~~~~~~~~~~~~~~lvIvDEaHrs~~~~~~~~l~~~~p~a~~lGfTaTP 402 (667)
T TIGR00348 332 ---RLLEKDDGGIIITTIQKFDKKLKEEEEKFPVDRKEVVVIFDEAHRSQYGELAKNLKKALKNASFFGFTGTP 402 (667)
T ss_pred ---HHHhCCCCCEEEEEhHHhhhhHhhhhhccCCCCCCEEEEEEcCccccchHHHHHHHhhCCCCcEEEEeCCC
Confidence 111 136899999887653111 112222233 89999997765444322221111234455555555
No 80
>TIGR00609 recB exodeoxyribonuclease V, beta subunit. All proteins in this family for which functions are known are DNA-DNA helicases that are used as part of an exonuclease-helicase complex (made up of RecBCD homologs) that function to generate substrates for the initiation of recombination and recombinational repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=90.10 E-value=0.37 Score=49.42 Aligned_cols=48 Identities=19% Similarity=0.245 Sum_probs=36.2
Q ss_pred cccCCCCchhHHHHHHHHHHHHcC---CCCeEEEECCChHHHHHHHHHhhhh
Q 037641 13 NNSDNLSKTGLVVREAVLEIYKRS---SKCRILVCAPINRTGDVLMRSLKKK 61 (208)
Q Consensus 13 ~~~~~~~~t~~Tive~i~ql~~~~---~~~rILV~A~SN~AvD~l~~rL~~~ 61 (208)
+++-+-||| .||+..++.++... +-.+|||.+-||.|+.++-+|+-+.
T Consensus 15 eAsAGtGKT-~ti~~~~lrll~~~~~~~~~~iLvvTFT~aAt~el~~RIr~r 65 (1087)
T TIGR00609 15 EASAGTGKT-FTIAQLYLRLLLEGGPLTVEEILVVTFTNAATEELKTRIRGR 65 (1087)
T ss_pred EECCCCCHH-HHHHHHHHHHHhcCCCCChhhEEEEehhHHHHHHHHHHHHHH
Confidence 344444554 46889998888742 3479999999999999999998753
No 81
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=90.09 E-value=1 Score=42.96 Aligned_cols=88 Identities=15% Similarity=0.084 Sum_probs=48.0
Q ss_pred CCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccCcchHHHh-ccCcEEEEcccc
Q 037641 38 KCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQLPSLQEL-MRFRVIFSTFTS 116 (208)
Q Consensus 38 ~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~~~~~~l-~~~~Vv~~T~~~ 116 (208)
+.++||.+||..-+..+...+.+...... +++..... +..+. ...+.+ ...+||++|-..
T Consensus 84 ~~raLIl~PTreLa~Qi~~~~~~l~~~~~-i~v~~l~G-----------------g~~~~-~q~~~l~~~~dIiV~TP~r 144 (572)
T PRK04537 84 DPRALILAPTRELAIQIHKDAVKFGADLG-LRFALVYG-----------------GVDYD-KQRELLQQGVDVIIATPGR 144 (572)
T ss_pred CceEEEEeCcHHHHHHHHHHHHHHhccCC-ceEEEEEC-----------------CCCHH-HHHHHHhCCCCEEEECHHH
Confidence 36899999999999998887665321111 12211100 00000 111222 246899999643
Q ss_pred cchhhcC--CCCCCCCcEEEEecCCCCCch
Q 037641 117 SFRLHNE--GIPAGHFSHIFLLDASSATEP 144 (208)
Q Consensus 117 a~~l~~~--~~~~~~Fd~vIIDEAsQa~Ep 144 (208)
...+... .+....++++|||||-.+.+.
T Consensus 145 L~~~l~~~~~~~l~~v~~lViDEAh~lld~ 174 (572)
T PRK04537 145 LIDYVKQHKVVSLHACEICVLDEADRMFDL 174 (572)
T ss_pred HHHHHHhccccchhheeeeEecCHHHHhhc
Confidence 3222111 122345788999999877654
No 82
>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=90.05 E-value=1.4 Score=43.37 Aligned_cols=112 Identities=9% Similarity=0.010 Sum_probs=60.7
Q ss_pred chhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccCcc
Q 037641 20 KTGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQLP 99 (208)
Q Consensus 20 ~t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~~ 99 (208)
++|+|++-++--++....+..++|+|||..=+....+.+.+...... ++++.-.. ..+ ..
T Consensus 79 GeGKTLva~lpa~l~aL~G~~V~VvTpt~~LA~qdae~~~~l~~~LG-Lsv~~i~g---~~~----------------~~ 138 (745)
T TIGR00963 79 GEGKTLTATLPAYLNALTGKGVHVVTVNDYLAQRDAEWMGQVYRFLG-LSVGLILS---GMS----------------PE 138 (745)
T ss_pred CCccHHHHHHHHHHHHHhCCCEEEEcCCHHHHHHHHHHHHHHhccCC-CeEEEEeC---CCC----------------HH
Confidence 46689988766555544578899999987655555554443211111 22221100 000 01
Q ss_pred hHHHhccCcEEEEcccccch--hhcC------CCCCCCCcEEEEecCCCCCchhhhHHHh
Q 037641 100 SLQELMRFRVIFSTFTSSFR--LHNE------GIPAGHFSHIFLLDASSATEPETMIALT 151 (208)
Q Consensus 100 ~~~~l~~~~Vv~~T~~~a~~--l~~~------~~~~~~Fd~vIIDEAsQa~Epe~liPL~ 151 (208)
..+....+.|+.+|-+-.+. +... .+....+.++|||||-.+..=+.--||.
T Consensus 139 ~r~~~y~~dIvyGT~~rlgfDyLrd~~~~~~~~~~~r~l~~aIIDEaDs~LIDeaRtpLi 198 (745)
T TIGR00963 139 ERREAYACDITYGTNNELGFDYLRDNMAHSKEEKVQRPFHFAIIDEVDSILIDEARTPLI 198 (745)
T ss_pred HHHHhcCCCEEEECCCchhhHHHhcccccchhhhhccccceeEeecHHHHhHHhhhhHHh
Confidence 12223347899999774321 1111 1123468999999987766544444554
No 83
>PHA02533 17 large terminase protein; Provisional
Probab=90.00 E-value=5.7 Score=37.78 Aligned_cols=124 Identities=14% Similarity=0.128 Sum_probs=66.4
Q ss_pred cCCCCchhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCC-CeEEEeccccCCCCCCchhhccccccCC
Q 037641 15 SDNLSKTGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKS-DMFRANAAFREVDGVPVDILPLCLYEGG 93 (208)
Q Consensus 15 ~~~~~~t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~-~i~Rv~~~~r~~~~~~~~l~~~~~~~~~ 93 (208)
....|||....+-++...+. .++..|+++||+-..+..+..++...+... .+++.+. .+. . .
T Consensus 82 aRq~GKStl~a~~al~~a~~-~~~~~v~i~A~~~~QA~~vF~~ik~~ie~~P~l~~~~i-~~~--------------~-~ 144 (534)
T PHA02533 82 SRQLGKTTVVAIFLLHYVCF-NKDKNVGILAHKASMAAEVLDRTKQAIELLPDFLQPGI-VEW--------------N-K 144 (534)
T ss_pred cCcCChHHHHHHHHHHHHHh-CCCCEEEEEeCCHHHHHHHHHHHHHHHHhCHHHhhcce-eec--------------C-c
Confidence 35667776654434434433 467899999999999999998887532111 0111100 000 0 0
Q ss_pred CccCcchHHHhccCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCCch----hhhHHHhhcccCCceEEEEcCCC
Q 037641 94 ECFQLPSLQELMRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSATEP----ETMIALTNLANEHTTVILTGTPN 167 (208)
Q Consensus 94 ~~~~~~~~~~l~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~Ep----e~liPL~~l~~~~~~vVLvGD~~ 167 (208)
..... -..+.|.+.|... . .....+++.+++||++..... ..+.|...- ....++++++=|.
T Consensus 145 ~~I~l-----~NGS~I~~lss~~-~-----t~rG~~~~~liiDE~a~~~~~~e~~~ai~p~las-g~~~r~iiiSTp~ 210 (534)
T PHA02533 145 GSIEL-----ENGSKIGAYASSP-D-----AVRGNSFAMIYIDECAFIPNFIDFWLAIQPVISS-GRSSKIIITSTPN 210 (534)
T ss_pred cEEEe-----CCCCEEEEEeCCC-C-----ccCCCCCceEEEeccccCCCHHHHHHHHHHHHHc-CCCceEEEEECCC
Confidence 00000 0234454444332 1 123346889999999987654 246666522 1235677776664
No 84
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=89.85 E-value=0.27 Score=50.58 Aligned_cols=43 Identities=21% Similarity=0.268 Sum_probs=32.4
Q ss_pred CCCchhHHHHHHHHHHHHcC---CCCeEEEECCChHHHHHHHHHhhh
Q 037641 17 NLSKTGLVVREAVLEIYKRS---SKCRILVCAPINRTGDVLMRSLKK 60 (208)
Q Consensus 17 ~~~~t~~Tive~i~ql~~~~---~~~rILV~A~SN~AvD~l~~rL~~ 60 (208)
+-||| .||++.+++++... .-.+|||.+.||.|+-++-.|+.+
T Consensus 26 GSGKT-~vL~~r~lrlLl~~~~~~v~~ILvvTFT~aAa~Emk~RI~~ 71 (1139)
T COG1074 26 GTGKT-FVLAERVLRLLLEGGPLDVDEILVVTFTKAAAAEMKERIRD 71 (1139)
T ss_pred CCCch-hHHHHHHHHHHhhcCCCChhHeeeeeccHHHHHHHHHHHHH
Confidence 33443 46888888877652 236999999999999999888765
No 85
>PRK11054 helD DNA helicase IV; Provisional
Probab=89.65 E-value=0.47 Score=46.34 Aligned_cols=40 Identities=13% Similarity=0.144 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHc--CCCCeEEEECCChHHHHHHHHHhhhhCC
Q 037641 24 VVREAVLEIYKR--SSKCRILVCAPINRTGDVLMRSLKKKIP 63 (208)
Q Consensus 24 Tive~i~ql~~~--~~~~rILV~A~SN~AvD~l~~rL~~~~~ 63 (208)
|+++.+..++.. .++.+||+.|.|+.|++.+-+|+.+.++
T Consensus 225 vl~~r~ayLl~~~~~~~~~IL~ltft~~AA~em~eRL~~~lg 266 (684)
T PRK11054 225 VLVARAGWLLARGQAQPEQILLLAFGRQAAEEMDERIRERLG 266 (684)
T ss_pred HHHHHHHHHHHhCCCCHHHeEEEeccHHHHHHHHHHHHHhcC
Confidence 466666666654 2457999999999999999999987664
No 86
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=89.39 E-value=0.43 Score=46.68 Aligned_cols=41 Identities=12% Similarity=0.175 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHc--CCCCeEEEECCChHHHHHHHHHhhhhCC
Q 037641 23 LVVREAVLEIYKR--SSKCRILVCAPINRTGDVLMRSLKKKIP 63 (208)
Q Consensus 23 ~Tive~i~ql~~~--~~~~rILV~A~SN~AvD~l~~rL~~~~~ 63 (208)
.||++-|..++.. .+..+||+.+.||.|++++-+|+.+.++
T Consensus 32 ~~l~~ria~Li~~~~i~P~~IL~lTFT~kAA~em~~Rl~~~~~ 74 (726)
T TIGR01073 32 RVLTHRIAHLIAEKNVAPWNILAITFTNKAAREMKERVEKLLG 74 (726)
T ss_pred HHHHHHHHHHHHcCCCCHHHeeeeeccHHHHHHHHHHHHHHhc
Confidence 3577888888864 2447999999999999999999987554
No 87
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=89.30 E-value=0.42 Score=46.71 Aligned_cols=40 Identities=10% Similarity=0.126 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHc--CCCCeEEEECCChHHHHHHHHHhhhhCC
Q 037641 24 VVREAVLEIYKR--SSKCRILVCAPINRTGDVLMRSLKKKIP 63 (208)
Q Consensus 24 Tive~i~ql~~~--~~~~rILV~A~SN~AvD~l~~rL~~~~~ 63 (208)
||+.-|..++.. .+..+||+.+.||.|++++-+|+.+.++
T Consensus 33 ~L~~Ria~Li~~~~v~p~~IL~lTFTnkAA~em~~Rl~~~~~ 74 (715)
T TIGR01075 33 VLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRHRIGALLG 74 (715)
T ss_pred HHHHHHHHHHHcCCCCHHHeEeeeccHHHHHHHHHHHHHHhc
Confidence 588888888863 3557999999999999999999987654
No 88
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=89.26 E-value=2.8 Score=41.49 Aligned_cols=137 Identities=16% Similarity=0.180 Sum_probs=75.5
Q ss_pred CCCCchhHHHHHHHHHHHHcCCC-----CeEEEECCChHHHHHHHHHhhhhCC--CCCeEEEeccccCCCCCCchhhccc
Q 037641 16 DNLSKTGLVVREAVLEIYKRSSK-----CRILVCAPINRTGDVLMRSLKKKIP--KSDMFRANAAFREVDGVPVDILPLC 88 (208)
Q Consensus 16 ~~~~~t~~Tive~i~ql~~~~~~-----~rILV~A~SN~AvD~l~~rL~~~~~--~~~i~Rv~~~~r~~~~~~~~l~~~~ 88 (208)
+++|||-.+| ..|..++++.|+ .+.||+||+- =+.+.-..+.+... ....++++...+. ..-......
T Consensus 272 ~GlGKTlq~I-sflwtlLrq~P~~~~~~~k~lVV~P~s-Lv~nWkkEF~KWl~~~~i~~l~~~~~~~~---~w~~~~sil 346 (776)
T KOG0390|consen 272 PGLGKTLQCI-SFIWTLLRQFPQAKPLINKPLVVAPSS-LVNNWKKEFGKWLGNHRINPLDFYSTKKS---SWIKLKSIL 346 (776)
T ss_pred CCcchHHHHH-HHHHHHHHhCcCccccccccEEEccHH-HHHHHHHHHHHhccccccceeeeecccch---hhhhhHHHH
Confidence 6777777755 566678899999 9999999963 35565555655433 2344555543332 000000000
Q ss_pred cccCCCccCcchHHHhccCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCCc--hhhhHHHhhcccCCceEEEEcCC
Q 037641 89 LYEGGECFQLPSLQELMRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSATE--PETMIALTNLANEHTTVILTGTP 166 (208)
Q Consensus 89 ~~~~~~~~~~~~~~~l~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~E--pe~liPL~~l~~~~~~vVLvGD~ 166 (208)
.. ....| ...|..-..-++...+ ..+-...++++|.||+-...- .-++-.|..+. ..+||+|-|-|
T Consensus 347 ~~-~~~~~---------~~~vli~sye~~~~~~-~~il~~~~glLVcDEGHrlkN~~s~~~kaL~~l~-t~rRVLLSGTp 414 (776)
T KOG0390|consen 347 FL-GYKQF---------TTPVLIISYETASDYC-RKILLIRPGLLVCDEGHRLKNSDSLTLKALSSLK-TPRRVLLTGTP 414 (776)
T ss_pred Hh-hhhhe---------eEEEEeccHHHHHHHH-HHHhcCCCCeEEECCCCCccchhhHHHHHHHhcC-CCceEEeeCCc
Confidence 00 00001 0111111111111111 112345799999999987654 44566777554 46999999999
Q ss_pred CCC
Q 037641 167 NNR 169 (208)
Q Consensus 167 ~QL 169 (208)
.|-
T Consensus 415 ~QN 417 (776)
T KOG0390|consen 415 IQN 417 (776)
T ss_pred ccc
Confidence 884
No 89
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=89.21 E-value=0.45 Score=46.26 Aligned_cols=40 Identities=8% Similarity=0.164 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHc--CCCCeEEEECCChHHHHHHHHHhhhhCC
Q 037641 24 VVREAVLEIYKR--SSKCRILVCAPINRTGDVLMRSLKKKIP 63 (208)
Q Consensus 24 Tive~i~ql~~~--~~~~rILV~A~SN~AvD~l~~rL~~~~~ 63 (208)
||+.-|..++.. .+..+||+.+.||.|++++-+|+.+.++
T Consensus 31 vL~~Ria~Li~~~~v~p~~IL~lTFT~kAA~em~~Rl~~~l~ 72 (672)
T PRK10919 31 VITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQTLG 72 (672)
T ss_pred HHHHHHHHHHHhcCCCHHHeeeEechHHHHHHHHHHHHHHhC
Confidence 588888888853 3457999999999999999999987654
No 90
>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=88.99 E-value=1 Score=46.67 Aligned_cols=105 Identities=11% Similarity=0.090 Sum_probs=55.9
Q ss_pred hhHHHHHHH-HHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCC--CCeEEEeccccCCCCCCchhhccccccCCCccC
Q 037641 21 TGLVVREAV-LEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPK--SDMFRANAAFREVDGVPVDILPLCLYEGGECFQ 97 (208)
Q Consensus 21 t~~Tive~i-~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~--~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~ 97 (208)
+|+|..-+. .+.+. ..+.++||.+||..=+..+..++.+.... ....+++.-.- .++..-+
T Consensus 104 sGKT~f~l~~~~~l~-~~g~~vLIL~PTreLa~Qi~~~l~~l~~~~~i~~~~i~~~~G---g~~~~e~------------ 167 (1171)
T TIGR01054 104 VGKTTFGLAMSLFLA-KKGKRCYIILPTTLLVIQVAEKISSLAEKAGVGTVNIGAYHS---RLPTKEK------------ 167 (1171)
T ss_pred CCHHHHHHHHHHHHH-hcCCeEEEEeCHHHHHHHHHHHHHHHHHhcCCceeeeeeecC---CCCHHHH------------
Confidence 445553332 22233 24789999999999999998888764321 12222211000 0100000
Q ss_pred cchHHHhc--cCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCCc
Q 037641 98 LPSLQELM--RFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSATE 143 (208)
Q Consensus 98 ~~~~~~l~--~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~E 143 (208)
....+.+. ..+|+++|-........ .+.. +|+++|||||-.+.+
T Consensus 168 ~~~~~~l~~~~~dIlV~Tp~rL~~~~~-~l~~-~~~~iVvDEaD~~L~ 213 (1171)
T TIGR01054 168 KEFMERIENGDFDILITTTMFLSKNYD-ELGP-KFDFIFVDDVDALLK 213 (1171)
T ss_pred HHHHHHHhcCCCCEEEECHHHHHHHHH-HhcC-CCCEEEEeChHhhhh
Confidence 00012222 37899999654332211 1222 799999999988765
No 91
>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=88.87 E-value=2 Score=42.54 Aligned_cols=120 Identities=9% Similarity=0.076 Sum_probs=64.4
Q ss_pred chhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhh---hCCCCCeEEEeccccCCCCCCchhhccccccCCCcc
Q 037641 20 KTGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKK---KIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECF 96 (208)
Q Consensus 20 ~t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~---~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~ 96 (208)
++|+|++-++--++....+..++|++|+..=+....+.+.+ .++ ..+.-..... . ....
T Consensus 93 GeGKTLta~Lpa~l~aL~g~~V~VVTpn~yLA~Rdae~m~~l~~~LG-Lsv~~~~~~s-----~------------~~~~ 154 (762)
T TIGR03714 93 GEGKTLTATMPLYLNALTGKGAMLVTTNDYLAKRDAEEMGPVYEWLG-LTVSLGVVDD-----P------------DEEY 154 (762)
T ss_pred CcchHHHHHHHHHHHhhcCCceEEeCCCHHHHHHHHHHHHHHHhhcC-CcEEEEECCC-----C------------cccc
Confidence 46789988776555555678899999987655555544432 221 1111000000 0 0001
Q ss_pred CcchHHHhccCcEEEEcccccch--hhc------CCCCCCCCcEEEEecCCCCCchhhhHHHhhcccCCceEEEEcCCC
Q 037641 97 QLPSLQELMRFRVIFSTFTSSFR--LHN------EGIPAGHFSHIFLLDASSATEPETMIALTNLANEHTTVILTGTPN 167 (208)
Q Consensus 97 ~~~~~~~l~~~~Vv~~T~~~a~~--l~~------~~~~~~~Fd~vIIDEAsQa~Epe~liPL~~l~~~~~~vVLvGD~~ 167 (208)
.....+....+.|+.+|-...+. +.. .......+.++|||||=.+..=|.- ..+|+.|.+.
T Consensus 155 ~~~~rr~~y~~dIvygTp~~LgfDyLrD~l~~~~~~~~~r~l~~~IVDEaDsILiDear----------tpliisg~~~ 223 (762)
T TIGR03714 155 DANEKRKIYNSDIVYTTNSALGFDYLIDNLASNKEGKFLRPFNYVIVDEVDSVLLDSAQ----------TPLVISGAPR 223 (762)
T ss_pred CHHHHHHhCCCCEEEECchhhhhhHHHHHhhcchhhcccccCcEEEEecHhhHhhccCc----------CCeeeeCCCc
Confidence 11112334568999999876532 111 0111246889999999887543322 3456666654
No 92
>PRK14701 reverse gyrase; Provisional
Probab=88.82 E-value=1.2 Score=47.58 Aligned_cols=107 Identities=13% Similarity=0.115 Sum_probs=57.0
Q ss_pred hhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCC-eEEEeccccCCCCCCchhhccccccCCCccCcc
Q 037641 21 TGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSD-MFRANAAFREVDGVPVDILPLCLYEGGECFQLP 99 (208)
Q Consensus 21 t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~-i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~~ 99 (208)
+|+|++-.+..+....++.++||.+||..=+..+..++........ -+++..... .++.. . +..
T Consensus 105 sGKTl~~~~~al~~~~~g~~aLVl~PTreLa~Qi~~~l~~l~~~~~~~v~v~~~~g---~~s~~----------e--~~~ 169 (1638)
T PRK14701 105 MGKSTFGAFIALFLALKGKKCYIILPTTLLVKQTVEKIESFCEKANLDVRLVYYHS---NLRKK----------E--KEE 169 (1638)
T ss_pred CCHHHHHHHHHHHHHhcCCeEEEEECHHHHHHHHHHHHHHHHhhcCCceeEEEEeC---CCCHH----------H--HHH
Confidence 5577754444444434577999999999999988888875321100 012111000 00000 0 000
Q ss_pred hHHHhc--cCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCCc
Q 037641 100 SLQELM--RFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSATE 143 (208)
Q Consensus 100 ~~~~l~--~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~E 143 (208)
..+.+. +.+|+++|......... .+...+|+++|||||-.+.+
T Consensus 170 ~~~~l~~g~~dILV~TPgrL~~~~~-~l~~~~i~~iVVDEAD~ml~ 214 (1638)
T PRK14701 170 FLERIENGDFDILVTTAQFLARNFP-EMKHLKFDFIFVDDVDAFLK 214 (1638)
T ss_pred HHHHHhcCCCCEEEECCchhHHhHH-HHhhCCCCEEEEECceeccc
Confidence 112232 36899999643222111 11225799999999987753
No 93
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=88.51 E-value=0.49 Score=45.61 Aligned_cols=41 Identities=10% Similarity=0.129 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHHc--CCCCeEEEECCChHHHHHHHHHhhhhCC
Q 037641 23 LVVREAVLEIYKR--SSKCRILVCAPINRTGDVLMRSLKKKIP 63 (208)
Q Consensus 23 ~Tive~i~ql~~~--~~~~rILV~A~SN~AvD~l~~rL~~~~~ 63 (208)
.||+.-|..++.. .+..+||+.+.||.|++++-+|+.+.++
T Consensus 29 ~~L~~ri~~ll~~~~~~p~~IL~vTFt~~Aa~em~~Rl~~~l~ 71 (664)
T TIGR01074 29 RVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKERVAKTLG 71 (664)
T ss_pred HHHHHHHHHHHHhcCCCHHHeEEEeccHHHHHHHHHHHHHHhC
Confidence 3588888888853 3457999999999999999999987664
No 94
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=88.11 E-value=0.53 Score=46.06 Aligned_cols=40 Identities=10% Similarity=0.163 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHc--CCCCeEEEECCChHHHHHHHHHhhhhCC
Q 037641 24 VVREAVLEIYKR--SSKCRILVCAPINRTGDVLMRSLKKKIP 63 (208)
Q Consensus 24 Tive~i~ql~~~--~~~~rILV~A~SN~AvD~l~~rL~~~~~ 63 (208)
||+.-|..++.. .+..+||+.+.||.|++++-+|+.+.++
T Consensus 38 vl~~Ria~Li~~~~v~p~~IL~lTFT~kAA~Em~~Rl~~~~~ 79 (721)
T PRK11773 38 VLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMRHRIEQLLG 79 (721)
T ss_pred HHHHHHHHHHHcCCCChhHeEeeeccHHHHHHHHHHHHHHhc
Confidence 577888888753 3557999999999999999999987654
No 95
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=87.91 E-value=2.4 Score=40.15 Aligned_cols=101 Identities=19% Similarity=0.251 Sum_probs=59.8
Q ss_pred hhHHHHH---HHHHHHH------cCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhcccccc
Q 037641 21 TGLVVRE---AVLEIYK------RSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYE 91 (208)
Q Consensus 21 t~~Tive---~i~ql~~------~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~ 91 (208)
+|+|++= +|.++.. +..+.++||-+||-.-+-.+..-..+...... ++.-|.|-
T Consensus 139 SGKTLay~lP~i~~l~~~~~~~~~~~~P~vLVL~PTRELA~QV~~~~~~~~~~~~-----------------~~~~cvyG 201 (519)
T KOG0331|consen 139 SGKTLAYLLPAIVHLNNEQGKLSRGDGPIVLVLAPTRELAVQVQAEAREFGKSLR-----------------LRSTCVYG 201 (519)
T ss_pred CcchhhhhhHHHHHHHhccccccCCCCCeEEEEcCcHHHHHHHHHHHHHHcCCCC-----------------ccEEEEeC
Confidence 5567654 3444443 23367899999999999888777665321111 22233332
Q ss_pred CCCccCcchHHHhcc-CcEEEEcccccchhhc----CCCCCCCCcEEEEecCCCCCc
Q 037641 92 GGECFQLPSLQELMR-FRVIFSTFTSSFRLHN----EGIPAGHFSHIFLLDASSATE 143 (208)
Q Consensus 92 ~~~~~~~~~~~~l~~-~~Vv~~T~~~a~~l~~----~~~~~~~Fd~vIIDEAsQa~E 143 (208)
+.-.-++.+.+++ +.|+++|- +++.. .......+.++++|||=++..
T Consensus 202 --G~~~~~Q~~~l~~gvdiviaTP---GRl~d~le~g~~~l~~v~ylVLDEADrMld 253 (519)
T KOG0331|consen 202 --GAPKGPQLRDLERGVDVVIATP---GRLIDLLEEGSLNLSRVTYLVLDEADRMLD 253 (519)
T ss_pred --CCCccHHHHHHhcCCcEEEeCC---hHHHHHHHcCCccccceeEEEeccHHhhhc
Confidence 1112244555554 88999986 44321 122334789999999998763
No 96
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=87.90 E-value=2 Score=41.77 Aligned_cols=100 Identities=13% Similarity=0.173 Sum_probs=62.5
Q ss_pred hhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccCcch
Q 037641 21 TGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQLPS 100 (208)
Q Consensus 21 t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~~~ 100 (208)
-|+|+|.++.-+..-..|..+..-|||..=+....+.+.+.+++.. +||+.-.-. + + ++. +...
T Consensus 294 SGKTvVA~laml~ai~~G~Q~ALMAPTEILA~QH~~~~~~~l~~~~-i~V~lLtG~---~----k-------gk~-r~~~ 357 (677)
T COG1200 294 SGKTVVALLAMLAAIEAGYQAALMAPTEILAEQHYESLRKWLEPLG-IRVALLTGS---L----K-------GKA-RKEI 357 (677)
T ss_pred CCHHHHHHHHHHHHHHcCCeeEEeccHHHHHHHHHHHHHHHhhhcC-CeEEEeecc---c----c-------hhH-HHHH
Confidence 6899998766555444588999999999999999999888765544 566542111 1 0 000 0001
Q ss_pred HHHh--ccCcEEEEcccccchhhcCCCCCCCCcEEEEecCCC
Q 037641 101 LQEL--MRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASS 140 (208)
Q Consensus 101 ~~~l--~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQ 140 (208)
.+.+ .+.+||+.|-+ +.+.......+-.|||||=-.
T Consensus 358 l~~l~~G~~~ivVGTHA----LiQd~V~F~~LgLVIiDEQHR 395 (677)
T COG1200 358 LEQLASGEIDIVVGTHA----LIQDKVEFHNLGLVIIDEQHR 395 (677)
T ss_pred HHHHhCCCCCEEEEcch----hhhcceeecceeEEEEecccc
Confidence 1122 34789998843 333344445678899999644
No 97
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=87.85 E-value=3.4 Score=40.27 Aligned_cols=40 Identities=5% Similarity=-0.064 Sum_probs=28.5
Q ss_pred chhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhh
Q 037641 20 KTGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLK 59 (208)
Q Consensus 20 ~t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~ 59 (208)
++|+|++-++--+.....+..++|.|||..=+....+.+.
T Consensus 126 GeGKTla~~lp~~~~al~G~~v~VvTptreLA~qdae~~~ 165 (656)
T PRK12898 126 GEGKTLTATLPAGTAALAGLPVHVITVNDYLAERDAELMR 165 (656)
T ss_pred CCCcHHHHHHHHHHHhhcCCeEEEEcCcHHHHHHHHHHHH
Confidence 3668998887766666668899999998665554444444
No 98
>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=87.22 E-value=3.6 Score=40.57 Aligned_cols=41 Identities=17% Similarity=0.246 Sum_probs=29.9
Q ss_pred hhHHHHHH--HHHHHHcCCCCeEEEECCChHHHHHHHHHhhhh
Q 037641 21 TGLVVREA--VLEIYKRSSKCRILVCAPINRTGDVLMRSLKKK 61 (208)
Q Consensus 21 t~~Tive~--i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~ 61 (208)
+|||++-. +++.+...++.++|+.+||..=+.....++.+.
T Consensus 62 SGKTla~~LPiL~~l~~~~~~~aL~l~PtraLa~q~~~~l~~l 104 (742)
T TIGR03817 62 SGKSLAYQLPVLSALADDPRATALYLAPTKALAADQLRAVREL 104 (742)
T ss_pred CcHHHHHHHHHHHHHhhCCCcEEEEEcChHHHHHHHHHHHHHh
Confidence 57888754 344444456789999999998888888887753
No 99
>PRK04296 thymidine kinase; Provisional
Probab=86.96 E-value=0.93 Score=36.80 Aligned_cols=41 Identities=15% Similarity=0.233 Sum_probs=26.8
Q ss_pred CCCcEEEEecCCCCCchhhhHHHhhc-ccCCceEEEEcCCCCC
Q 037641 128 GHFSHIFLLDASSATEPETMIALTNL-ANEHTTVILTGTPNNR 169 (208)
Q Consensus 128 ~~Fd~vIIDEAsQa~Epe~liPL~~l-~~~~~~vVLvGD~~QL 169 (208)
+.+|+|||||| |....+-+..+... ......+++.|=..+.
T Consensus 77 ~~~dvviIDEa-q~l~~~~v~~l~~~l~~~g~~vi~tgl~~~~ 118 (190)
T PRK04296 77 EKIDCVLIDEA-QFLDKEQVVQLAEVLDDLGIPVICYGLDTDF 118 (190)
T ss_pred CCCCEEEEEcc-ccCCHHHHHHHHHHHHHcCCeEEEEecCccc
Confidence 46899999999 54444434444433 3456788888866443
No 100
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=86.87 E-value=3.4 Score=41.82 Aligned_cols=112 Identities=11% Similarity=0.059 Sum_probs=55.9
Q ss_pred chhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccCcc
Q 037641 20 KTGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQLP 99 (208)
Q Consensus 20 ~t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~~ 99 (208)
+||+|++-++--+.....+..++|.+||..=+....+.+.+...... ++++. .+. +.. ..
T Consensus 117 GeGKTLAf~LP~l~~aL~g~~v~IVTpTrELA~Qdae~m~~L~k~lG-LsV~~----------------i~G-G~~--~~ 176 (970)
T PRK12899 117 GEGKTLTAVMPLYLNALTGKPVHLVTVNDYLAQRDCEWVGSVLRWLG-LTTGV----------------LVS-GSP--LE 176 (970)
T ss_pred CCChHHHHHHHHHHHHhhcCCeEEEeCCHHHHHHHHHHHHHHHhhcC-CeEEE----------------EeC-CCC--HH
Confidence 46778876654333332355689999976644444433332110000 12221 000 000 01
Q ss_pred hHHHhccCcEEEEcccccc-hhhcCC-CC-------CCCCcEEEEecCCCCCchhhhHHHh
Q 037641 100 SLQELMRFRVIFSTFTSSF-RLHNEG-IP-------AGHFSHIFLLDASSATEPETMIALT 151 (208)
Q Consensus 100 ~~~~l~~~~Vv~~T~~~a~-~l~~~~-~~-------~~~Fd~vIIDEAsQa~Epe~liPL~ 151 (208)
.....-.+.||++|-.-.| .+.... +. ...|.++|||||=.+..=|.-.||.
T Consensus 177 eq~~~y~~DIVygTPgRLgfDyLrd~~~~~~~~~~vqr~~~~~IIDEADsmLiDEArTPLI 237 (970)
T PRK12899 177 KRKEIYQCDVVYGTASEFGFDYLRDNSIATRKEEQVGRGFYFAIIDEVDSILIDEARTPLI 237 (970)
T ss_pred HHHHHcCCCEEEECCChhHHHHhhCCCCCcCHHHhhcccccEEEEechhhhhhhccCCcee
Confidence 1111124789999976542 121111 11 1357899999999987666555554
No 101
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=86.59 E-value=2.8 Score=42.10 Aligned_cols=111 Identities=9% Similarity=0.040 Sum_probs=57.2
Q ss_pred chhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccCcc
Q 037641 20 KTGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQLP 99 (208)
Q Consensus 20 ~t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~~ 99 (208)
++|+|++-++--++....+..|+|++||..=+-...+.+.+...... ++++.-.. ..+ ..
T Consensus 105 GeGKTL~a~Lpa~~~al~G~~V~VvTpn~yLA~qd~e~m~~l~~~lG-Ltv~~i~g---g~~----------------~~ 164 (896)
T PRK13104 105 GEGKTLVATLPAYLNAISGRGVHIVTVNDYLAKRDSQWMKPIYEFLG-LTVGVIYP---DMS----------------HK 164 (896)
T ss_pred CCCchHHHHHHHHHHHhcCCCEEEEcCCHHHHHHHHHHHHHHhcccC-ceEEEEeC---CCC----------------HH
Confidence 46688887766555544577899999986555444444433211111 12221000 000 01
Q ss_pred hHHHhccCcEEEEcccccch--hhcC-CCC-----CCCCcEEEEecCCCCCchhhhHHH
Q 037641 100 SLQELMRFRVIFSTFTSSFR--LHNE-GIP-----AGHFSHIFLLDASSATEPETMIAL 150 (208)
Q Consensus 100 ~~~~l~~~~Vv~~T~~~a~~--l~~~-~~~-----~~~Fd~vIIDEAsQa~Epe~liPL 150 (208)
..+..-.++|+.+|-.-.+. +.+. .+. ...+.++|||||=.+.-=|.-.||
T Consensus 165 ~r~~~y~~dIvygT~grlgfDyLrd~~~~~~~~~v~r~l~~~IvDEaDsiLIDeArtPL 223 (896)
T PRK13104 165 EKQEAYKADIVYGTNNEYGFDYLRDNMAFSLTDKVQRELNFAIVDEVDSILIDEARTPL 223 (896)
T ss_pred HHHHHhCCCEEEECChhhhHHHHhcCCccchHhhhccccceEEeccHhhhhhhccCCce
Confidence 11222357899999765421 1111 111 136889999999876544333333
No 102
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=86.25 E-value=1 Score=43.90 Aligned_cols=41 Identities=5% Similarity=0.126 Sum_probs=29.3
Q ss_pred CCCcEEEEecCCCCCchhhhHHHhhcccCCceEEEEcCCCCC
Q 037641 128 GHFSHIFLLDASSATEPETMIALTNLANEHTTVILTGTPNNR 169 (208)
Q Consensus 128 ~~Fd~vIIDEAsQa~Epe~liPL~~l~~~~~~vVLvGD~~QL 169 (208)
..|++|+|||.=-...... --|..+.....++++|||+.|-
T Consensus 206 ~~~~~ilVDE~QDtn~~Q~-~ll~~l~~~~~~l~~VGD~~Qs 246 (672)
T PRK10919 206 NKIRYLLVDEYQDTNTSQY-ELVKLLVGSRARFTVVGDDDQS 246 (672)
T ss_pred hcCCEEEEEchhcCCHHHH-HHHHHHHcCCCEEEEEcCCccc
Confidence 4799999999977765443 2233344445789999999995
No 103
>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=86.24 E-value=4.6 Score=42.30 Aligned_cols=89 Identities=10% Similarity=0.009 Sum_probs=52.9
Q ss_pred CCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccCcchHHHhccCcEEEEccccc
Q 037641 38 KCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQLPSLQELMRFRVIFSTFTSS 117 (208)
Q Consensus 38 ~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~Vv~~T~~~a 117 (208)
..+|+++-|.-.|+-.++.|+.+.++..-=-.||-..|.-+.+ -.+.+|+++|-...
T Consensus 111 ~~~I~~tQPRRlAA~svA~RvA~elg~~lG~~VGY~vR~~~~~-----------------------s~~T~I~~~TdGiL 167 (1283)
T TIGR01967 111 HGLIGHTQPRRLAARTVAQRIAEELGTPLGEKVGYKVRFHDQV-----------------------SSNTLVKLMTDGIL 167 (1283)
T ss_pred CceEecCCccHHHHHHHHHHHHHHhCCCcceEEeeEEcCCccc-----------------------CCCceeeeccccHH
Confidence 3589999999999999999999876422111233222211100 02357888776432
Q ss_pred chhhcCCCCCCCCcEEEEecCC-CCCchhhhHH
Q 037641 118 FRLHNEGIPAGHFSHIFLLDAS-SATEPETMIA 149 (208)
Q Consensus 118 ~~l~~~~~~~~~Fd~vIIDEAs-Qa~Epe~liP 149 (208)
-+.....-.-..+++||||||- ...+...++.
T Consensus 168 Lr~l~~d~~L~~~~~IIIDEaHERsL~~D~LL~ 200 (1283)
T TIGR01967 168 LAETQQDRFLSRYDTIIIDEAHERSLNIDFLLG 200 (1283)
T ss_pred HHHhhhCcccccCcEEEEcCcchhhccchhHHH
Confidence 2211111112479999999999 4777777665
No 104
>PTZ00110 helicase; Provisional
Probab=85.97 E-value=3 Score=39.49 Aligned_cols=105 Identities=12% Similarity=0.110 Sum_probs=55.2
Q ss_pred hhHHHHHH---HHHHHHc-----CCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccC
Q 037641 21 TGLVVREA---VLEIYKR-----SSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEG 92 (208)
Q Consensus 21 t~~Tive~---i~ql~~~-----~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~ 92 (208)
+|+|++-+ +.++... ..+.++||.+||..=+..+...+.+...... +|.. +.+.
T Consensus 178 SGKTlaylLP~l~~i~~~~~~~~~~gp~~LIL~PTreLa~Qi~~~~~~~~~~~~-i~~~----------------~~~g- 239 (545)
T PTZ00110 178 SGKTLAFLLPAIVHINAQPLLRYGDGPIVLVLAPTRELAEQIREQCNKFGASSK-IRNT----------------VAYG- 239 (545)
T ss_pred ChHHHHHHHHHHHHHHhcccccCCCCcEEEEECChHHHHHHHHHHHHHHhcccC-ccEE----------------EEeC-
Confidence 56787643 3444432 2356899999999888887777665321110 1110 1111
Q ss_pred CCccCcchHHH-hccCcEEEEcccccchhhcC-CCCCCCCcEEEEecCCCCCch
Q 037641 93 GECFQLPSLQE-LMRFRVIFSTFTSSFRLHNE-GIPAGHFSHIFLLDASSATEP 144 (208)
Q Consensus 93 ~~~~~~~~~~~-l~~~~Vv~~T~~~a~~l~~~-~~~~~~Fd~vIIDEAsQa~Ep 144 (208)
+.. ....... .....|+++|-.....+... ......+++||||||-.+.+.
T Consensus 240 g~~-~~~q~~~l~~~~~IlVaTPgrL~d~l~~~~~~l~~v~~lViDEAd~mld~ 292 (545)
T PTZ00110 240 GVP-KRGQIYALRRGVEILIACPGRLIDFLESNVTNLRRVTYLVLDEADRMLDM 292 (545)
T ss_pred CCC-HHHHHHHHHcCCCEEEECHHHHHHHHHcCCCChhhCcEEEeehHHhhhhc
Confidence 000 0011112 23578999996533222111 112246899999999877653
No 105
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=85.29 E-value=0.93 Score=48.60 Aligned_cols=38 Identities=13% Similarity=0.183 Sum_probs=28.3
Q ss_pred cEEEEecCCCCCchhh--hHHHhhcccCCceEEEEcCCCCCC
Q 037641 131 SHIFLLDASSATEPET--MIALTNLANEHTTVILTGTPNNRT 170 (208)
Q Consensus 131 d~vIIDEAsQa~Epe~--liPL~~l~~~~~~vVLvGD~~QL~ 170 (208)
+++|||||++..--+. |+-++. ....|+||+||.+|++
T Consensus 502 ~ilIVDEAg~lsar~m~~Ll~~A~--~~~arvVllgd~~Q~a 541 (1747)
T PRK13709 502 STLIVDQAEKLSLKETLTLLDGAA--RHNVQVLILDSGQRTG 541 (1747)
T ss_pred cEEEEECCCcCCHHHHHHHHHHHH--HhCCEEEEECCccccc
Confidence 5999999999875444 333332 2458999999999996
No 106
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=85.19 E-value=2.7 Score=41.84 Aligned_cols=106 Identities=7% Similarity=-0.036 Sum_probs=57.7
Q ss_pred hhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccCcch
Q 037641 21 TGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQLPS 100 (208)
Q Consensus 21 t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~~~ 100 (208)
+|+|++-++--++....|..++|+|||..=+-...+.+.+...... ++++.-.. +..+ ...
T Consensus 102 eGKTL~a~lp~~l~al~G~~v~VvTpt~~LA~qd~e~~~~l~~~lG-l~v~~i~g-----------------~~~~-~~~ 162 (790)
T PRK09200 102 EGKTLTATMPLYLNALEGKGVHLITVNDYLAKRDAEEMGQVYEFLG-LTVGLNFS-----------------DIDD-ASE 162 (790)
T ss_pred CcchHHHHHHHHHHHHcCCCeEEEeCCHHHHHHHHHHHHHHHhhcC-CeEEEEeC-----------------CCCc-HHH
Confidence 5689988776665555688999999987655555555443211100 22221100 0000 111
Q ss_pred HHHhccCcEEEEcccccch--hhcC-C-----CCCCCCcEEEEecCCCCCchh
Q 037641 101 LQELMRFRVIFSTFTSSFR--LHNE-G-----IPAGHFSHIFLLDASSATEPE 145 (208)
Q Consensus 101 ~~~l~~~~Vv~~T~~~a~~--l~~~-~-----~~~~~Fd~vIIDEAsQa~Epe 145 (208)
++....+.|+++|-+--+. +... . .....+.++|||||=.+.-=|
T Consensus 163 r~~~y~~dIvygT~~~l~fDyLrd~~~~~~~~~~~r~~~~~IvDEaDsiLiDe 215 (790)
T PRK09200 163 KKAIYEADIIYTTNSELGFDYLRDNLADSKEDKVQRPLNYAIIDEIDSILLDE 215 (790)
T ss_pred HHHhcCCCEEEECCccccchhHHhccccchhhhcccccceEEEeccccceecc
Confidence 2334568899999764421 1110 0 112468899999998765333
No 107
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=84.05 E-value=3.6 Score=43.03 Aligned_cols=88 Identities=8% Similarity=-0.037 Sum_probs=50.4
Q ss_pred CeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccCcchHHHhccCcEEEEcccccc
Q 037641 39 CRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQLPSLQELMRFRVIFSTFTSSF 118 (208)
Q Consensus 39 ~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~Vv~~T~~~a~ 118 (208)
.+|.++-|--.|+-.++.|+.+.++..---.+|-..| + . +. .-.+.+|+++|-...-
T Consensus 119 g~I~~TQPRRlAArsLA~RVA~El~~~lG~~VGY~vr-----------f---~--~~-------~s~~t~I~v~TpG~LL 175 (1294)
T PRK11131 119 GLIGHTQPRRLAARTVANRIAEELETELGGCVGYKVR-----------F---N--DQ-------VSDNTMVKLMTDGILL 175 (1294)
T ss_pred CceeeCCCcHHHHHHHHHHHHHHHhhhhcceeceeec-----------C---c--cc-------cCCCCCEEEEChHHHH
Confidence 4788888999999999999988664210001121111 0 0 00 0024689998864332
Q ss_pred hhhcCCCCCCCCcEEEEecCC-CCCchhhhHH
Q 037641 119 RLHNEGIPAGHFSHIFLLDAS-SATEPETMIA 149 (208)
Q Consensus 119 ~l~~~~~~~~~Fd~vIIDEAs-Qa~Epe~liP 149 (208)
........-..+++||||||- ...+...+..
T Consensus 176 ~~l~~d~~Ls~~~~IIIDEAHERsLn~DfLLg 207 (1294)
T PRK11131 176 AEIQQDRLLMQYDTIIIDEAHERSLNIDFILG 207 (1294)
T ss_pred HHHhcCCccccCcEEEecCccccccccchHHH
Confidence 221111113579999999999 4666665544
No 108
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=83.44 E-value=8.5 Score=37.99 Aligned_cols=45 Identities=18% Similarity=0.128 Sum_probs=30.0
Q ss_pred HHhccCcEEEEcccccch-hhcCCCCC-CCCcEEEEecCCCCCchhh
Q 037641 102 QELMRFRVIFSTFTSSFR-LHNEGIPA-GHFSHIFLLDASSATEPET 146 (208)
Q Consensus 102 ~~l~~~~Vv~~T~~~a~~-l~~~~~~~-~~Fd~vIIDEAsQa~Epe~ 146 (208)
+.....+|+++|+..--. +-+..... ..|..+|||||-.++--..
T Consensus 150 ~i~~s~~vff~TpQil~ndL~~~~~~~ls~fs~iv~DE~Hra~kn~~ 196 (746)
T KOG0354|consen 150 EIVASKRVFFRTPQILENDLKSGLHDELSDFSLIVFDECHRTSKNHP 196 (746)
T ss_pred hhhcccceEEeChHhhhhhcccccccccceEEEEEEccccccccccc
Confidence 445678999999875332 11111222 4699999999999887443
No 109
>PRK11054 helD DNA helicase IV; Provisional
Probab=82.37 E-value=1.9 Score=42.23 Aligned_cols=40 Identities=18% Similarity=0.253 Sum_probs=27.5
Q ss_pred CCcEEEEecCCCCCchhhhHHHhhccc--CCceEEEEcCCCCC
Q 037641 129 HFSHIFLLDASSATEPETMIALTNLAN--EHTTVILTGTPNNR 169 (208)
Q Consensus 129 ~Fd~vIIDEAsQa~Epe~liPL~~l~~--~~~~vVLvGD~~QL 169 (208)
.|++|+|||+-..+... +-=|..+.. ...++++|||+.|-
T Consensus 430 ~~~~IlVDE~QD~s~~q-~~ll~~l~~~~~~~~l~~VGD~~Qs 471 (684)
T PRK11054 430 PWKHILVDEFQDISPQR-AALLAALRKQNSQTTLFAVGDDWQA 471 (684)
T ss_pred cccEEEEEccccCCHHH-HHHHHHHhccCCCCeEEEEECCCcc
Confidence 59999999997666433 222332322 34689999999994
No 110
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=81.95 E-value=10 Score=35.58 Aligned_cols=39 Identities=18% Similarity=0.139 Sum_probs=24.1
Q ss_pred ccCcEEEEcccccchhh-cCCCCCCCCcEEEEecCCCCCc
Q 037641 105 MRFRVIFSTFTSSFRLH-NEGIPAGHFSHIFLLDASSATE 143 (208)
Q Consensus 105 ~~~~Vv~~T~~~a~~l~-~~~~~~~~Fd~vIIDEAsQa~E 143 (208)
....|+++|-.....+. ...+.....+++|||||-.+.+
T Consensus 245 ~~~~IiV~TPgrL~~~l~~~~~~l~~v~~lViDEad~ml~ 284 (518)
T PLN00206 245 QGVELIVGTPGRLIDLLSKHDIELDNVSVLVLDEVDCMLE 284 (518)
T ss_pred CCCCEEEECHHHHHHHHHcCCccchheeEEEeecHHHHhh
Confidence 34689999964322211 1122334678999999987654
No 111
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=81.89 E-value=1.9 Score=44.76 Aligned_cols=38 Identities=13% Similarity=0.135 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHcCC----------CCeEEEECCChHHHHHHHHHhhh
Q 037641 23 LVVREAVLEIYKRSS----------KCRILVCAPINRTGDVLMRSLKK 60 (208)
Q Consensus 23 ~Tive~i~ql~~~~~----------~~rILV~A~SN~AvD~l~~rL~~ 60 (208)
.||+...+.++-... -..|||++-||.|+.++=+|+.+
T Consensus 32 yTIa~lyLrLlL~~g~~~~~~~~L~~~~ILvvTFT~aAt~Elr~RIr~ 79 (1181)
T PRK10876 32 FTIAALYLRLLLGLGGSAAFPRPLTVEEILVVTFTEAATEELRGRIRS 79 (1181)
T ss_pred HHHHHHHHHHHccCCccccccCCCChhhEEEEechHHHHHHHHHHHHH
Confidence 478888888775321 14899999999999998888743
No 112
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=81.77 E-value=2.2 Score=41.76 Aligned_cols=40 Identities=18% Similarity=0.336 Sum_probs=28.9
Q ss_pred CCCcEEEEecCCCCCchhhhHHHhhcccCCceEEEEcCCCC
Q 037641 128 GHFSHIFLLDASSATEPETMIALTNLANEHTTVILTGTPNN 168 (208)
Q Consensus 128 ~~Fd~vIIDEAsQa~Epe~liPL~~l~~~~~~vVLvGD~~Q 168 (208)
..|++|+|||.--....+.-+ +..+....+++++|||++|
T Consensus 207 ~~~~~ilVDEfQDtn~~Q~~l-l~~L~~~~~~l~vVGD~~Q 246 (715)
T TIGR01075 207 ERFTHILVDEFQDTNKIQYAW-IRLLAGNTGNVMIVGDDDQ 246 (715)
T ss_pred HhCCEEEEEccccCCHHHHHH-HHHHhCCCCeEEEEeCCcc
Confidence 479999999998776554422 2223345678999999999
No 113
>COG1204 Superfamily II helicase [General function prediction only]
Probab=81.38 E-value=16 Score=36.36 Aligned_cols=85 Identities=11% Similarity=0.166 Sum_probs=48.3
Q ss_pred CCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccCcchHHHhccCcEEEEccccc
Q 037641 38 KCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQLPSLQELMRFRVIFSTFTSS 117 (208)
Q Consensus 38 ~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~Vv~~T~~~a 117 (208)
+.|++..+|+.+=+.+.++++.+ +.... +||+-... + +.. ..+.+.++.||++|.-..
T Consensus 76 ~~k~vYivPlkALa~Ek~~~~~~-~~~~G-irV~~~Tg------------------D-~~~-~~~~l~~~~ViVtT~EK~ 133 (766)
T COG1204 76 GGKVVYIVPLKALAEEKYEEFSR-LEELG-IRVGISTG------------------D-YDL-DDERLARYDVIVTTPEKL 133 (766)
T ss_pred CCcEEEEeChHHHHHHHHHHhhh-HHhcC-CEEEEecC------------------C-ccc-chhhhccCCEEEEchHHh
Confidence 45777777777777777776662 11000 23332111 1 010 124567899999997643
Q ss_pred chh-hcCCCCCCCCcEEEEecCCCCCch
Q 037641 118 FRL-HNEGIPAGHFSHIFLLDASSATEP 144 (208)
Q Consensus 118 ~~l-~~~~~~~~~Fd~vIIDEAsQa~Ep 144 (208)
-.+ .+...--...+.|||||+-++.++
T Consensus 134 Dsl~R~~~~~~~~V~lvViDEiH~l~d~ 161 (766)
T COG1204 134 DSLTRKRPSWIEEVDLVVIDEIHLLGDR 161 (766)
T ss_pred hHhhhcCcchhhcccEEEEeeeeecCCc
Confidence 321 111111236899999999998887
No 114
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=81.18 E-value=7.2 Score=36.01 Aligned_cols=106 Identities=13% Similarity=0.143 Sum_probs=55.5
Q ss_pred chhHHHHHHH---HHHHHcCC-------CCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhcccc
Q 037641 20 KTGLVVREAV---LEIYKRSS-------KCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCL 89 (208)
Q Consensus 20 ~t~~Tive~i---~ql~~~~~-------~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~ 89 (208)
++|+|++=.+ .+++...+ +.++||.+||..=+..+...+.+...... +++...
T Consensus 134 GSGKTlay~lpil~~l~~~~~~~~~~~~~~~aLil~PtreLa~Q~~~~~~~l~~~~~-~~v~~~---------------- 196 (475)
T PRK01297 134 GTGKTAAFLISIINQLLQTPPPKERYMGEPRALIIAPTRELVVQIAKDAAALTKYTG-LNVMTF---------------- 196 (475)
T ss_pred CChHHHHHHHHHHHHHHhcCcccccccCCceEEEEeCcHHHHHHHHHHHHHhhccCC-CEEEEE----------------
Confidence 4678876432 33333211 35899999999988888777664321111 111110
Q ss_pred ccCCCccCcchHHHh--ccCcEEEEcccccchhhcC-CCCCCCCcEEEEecCCCCCch
Q 037641 90 YEGGECFQLPSLQEL--MRFRVIFSTFTSSFRLHNE-GIPAGHFSHIFLLDASSATEP 144 (208)
Q Consensus 90 ~~~~~~~~~~~~~~l--~~~~Vv~~T~~~a~~l~~~-~~~~~~Fd~vIIDEAsQa~Ep 144 (208)
..+..+. ...+.+ ...+|+++|-.....+... ......+++||||||-...+.
T Consensus 197 -~gg~~~~-~~~~~~~~~~~~Iiv~TP~~Ll~~~~~~~~~l~~l~~lViDEah~l~~~ 252 (475)
T PRK01297 197 -VGGMDFD-KQLKQLEARFCDILVATPGRLLDFNQRGEVHLDMVEVMVLDEADRMLDM 252 (475)
T ss_pred -EccCChH-HHHHHHhCCCCCEEEECHHHHHHHHHcCCcccccCceEEechHHHHHhc
Confidence 0000000 011122 3468999996543222211 122346899999999877653
No 115
>TIGR02784 addA_alphas double-strand break repair helicase AddA, alphaproteobacterial type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the alphaproteobacteria (as modeled here) and the Firmicutes, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=80.75 E-value=1.9 Score=44.51 Aligned_cols=42 Identities=17% Similarity=0.281 Sum_probs=28.1
Q ss_pred CCCcEEEEecCCCCCchh--hhHHHhhc--cc------CCceEEEEcCCCCC
Q 037641 128 GHFSHIFLLDASSATEPE--TMIALTNL--AN------EHTTVILTGTPNNR 169 (208)
Q Consensus 128 ~~Fd~vIIDEAsQa~Epe--~liPL~~l--~~------~~~~vVLvGD~~QL 169 (208)
..|+||+|||.=-..... .+-+|..- .. ....+++|||+||-
T Consensus 390 ~r~~~iLVDEFQDTs~~Q~~il~~L~~~~~~g~~~~~~~~~~lf~VGD~kQS 441 (1141)
T TIGR02784 390 RGIDHILVDEAQDTSPEQWDIIQALAEEFFSGEGARSGVERTIFAVGDEKQS 441 (1141)
T ss_pred cCCCEEEEECCcCCCHHHHHHHHHHHHhhcccccccCCCCCeEEEEeCCccc
Confidence 479999999996665433 34455420 00 13679999999994
No 116
>PRK13909 putative recombination protein RecB; Provisional
Probab=80.41 E-value=1.8 Score=43.64 Aligned_cols=42 Identities=12% Similarity=0.274 Sum_probs=28.4
Q ss_pred CCCcEEEEecCCCCCchhh--hHHHhh--ccc----CCceEEEEcCCCCC
Q 037641 128 GHFSHIFLLDASSATEPET--MIALTN--LAN----EHTTVILTGTPNNR 169 (208)
Q Consensus 128 ~~Fd~vIIDEAsQa~Epe~--liPL~~--l~~----~~~~vVLvGD~~QL 169 (208)
..|++|+|||+=-...... +-||.. +++ ..+.+++|||++|-
T Consensus 327 ~~~~~ilVDEfQDTs~~Q~~il~~L~~~~~~~~~~~~~~~lf~VGD~kQS 376 (910)
T PRK13909 327 SKISHILIDEFQDTSVLQYKILLPLIDEIKSGEGQKKFRSFFYVGDVKQS 376 (910)
T ss_pred cCCCEEEEECccCCCHHHHHHHHHHHHHhhcccccCCCCeEEEEcCchhh
Confidence 4699999999977665433 455531 111 13579999999995
No 117
>PHA02653 RNA helicase NPH-II; Provisional
Probab=80.27 E-value=7.8 Score=37.94 Aligned_cols=25 Identities=16% Similarity=0.105 Sum_probs=20.7
Q ss_pred CCeEEEECCChHHHHHHHHHhhhhC
Q 037641 38 KCRILVCAPINRTGDVLMRSLKKKI 62 (208)
Q Consensus 38 ~~rILV~A~SN~AvD~l~~rL~~~~ 62 (208)
+.+|+|.+|+-.++-.+..++.+.+
T Consensus 222 ~~~ilvt~PrreLa~qi~~~i~~~v 246 (675)
T PHA02653 222 ERPIVLSLPRVALVRLHSITLLKSL 246 (675)
T ss_pred CcEEEEECcHHHHHHHHHHHHHHHh
Confidence 4689999999999988888877543
No 118
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=79.30 E-value=7.7 Score=38.95 Aligned_cols=91 Identities=12% Similarity=0.074 Sum_probs=52.3
Q ss_pred CCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccCcchHHHhccCcEEEEccccc
Q 037641 38 KCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQLPSLQELMRFRVIFSTFTSS 117 (208)
Q Consensus 38 ~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~Vv~~T~~~a 117 (208)
+.+|.++-|--.|+-.+++|+++.++...=--||-..|..+.+. .+.+|-++|-..-
T Consensus 94 ~g~I~~tQPRRlAArsvA~RvAeel~~~~G~~VGY~iRfe~~~s-----------------------~~Trik~mTdGiL 150 (845)
T COG1643 94 AGKIGCTQPRRLAARSVAERVAEELGEKLGETVGYSIRFESKVS-----------------------PRTRIKVMTDGIL 150 (845)
T ss_pred CCeEEecCchHHHHHHHHHHHHHHhCCCcCceeeEEEEeeccCC-----------------------CCceeEEeccHHH
Confidence 45899999999999999999998765321001222222111111 2345666664332
Q ss_pred chhhcCCCCCCCCcEEEEecCCC-CCchhhhHHHh
Q 037641 118 FRLHNEGIPAGHFSHIFLLDASS-ATEPETMIALT 151 (208)
Q Consensus 118 ~~l~~~~~~~~~Fd~vIIDEAsQ-a~Epe~liPL~ 151 (208)
.+.......-..+++||||||-. ......++.+.
T Consensus 151 lrei~~D~~Ls~ys~vIiDEaHERSl~tDilLgll 185 (845)
T COG1643 151 LREIQNDPLLSGYSVVIIDEAHERSLNTDILLGLL 185 (845)
T ss_pred HHHHhhCcccccCCEEEEcchhhhhHHHHHHHHHH
Confidence 22222121234799999999975 44456666665
No 119
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=79.30 E-value=3.3 Score=40.62 Aligned_cols=40 Identities=18% Similarity=0.337 Sum_probs=28.3
Q ss_pred CCCcEEEEecCCCCCchhhhHHHhhcccCCceEEEEcCCCC
Q 037641 128 GHFSHIFLLDASSATEPETMIALTNLANEHTTVILTGTPNN 168 (208)
Q Consensus 128 ~~Fd~vIIDEAsQa~Epe~liPL~~l~~~~~~vVLvGD~~Q 168 (208)
..|++|+|||.--....+.-+ +..+.....++++|||++|
T Consensus 212 ~~~~~IlVDEfQDtn~~Q~~l-l~~L~~~~~~l~vVGD~dQ 251 (721)
T PRK11773 212 ERFTHILVDEFQDTNAIQYAW-IRLLAGDTGKVMIVGDDDQ 251 (721)
T ss_pred HhCCEEEEEchhcCCHHHHHH-HHHHhCCCCeEEEEecCcc
Confidence 479999999998776544311 1223334679999999999
No 120
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=78.98 E-value=2.6 Score=40.54 Aligned_cols=45 Identities=20% Similarity=0.172 Sum_probs=34.8
Q ss_pred CCchhHHHHHHHHHHHHcC--CCCeEEEECCChHHHHHHHHHhhhhCC
Q 037641 18 LSKTGLVVREAVLEIYKRS--SKCRILVCAPINRTGDVLMRSLKKKIP 63 (208)
Q Consensus 18 ~~~t~~Tive~i~ql~~~~--~~~rILV~A~SN~AvD~l~~rL~~~~~ 63 (208)
-||| .|+++-|..++... ...+||+.+-||.|+..+-+|+.+.++
T Consensus 26 sGKT-~vlt~Ria~li~~~~v~p~~Il~vTFTnkAA~em~~Rl~~~~~ 72 (655)
T COG0210 26 SGKT-RVLTERIAYLIAAGGVDPEQILAITFTNKAAAEMRERLLKLLG 72 (655)
T ss_pred CCch-hhHHHHHHHHHHcCCcChHHeeeeechHHHHHHHHHHHHHHhC
Confidence 3444 45888888888652 335899999999999999999987654
No 121
>TIGR02785 addA_Gpos recombination helicase AddA, Firmicutes type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the Firmicutes (as modeled here) and the alphaproteobacteria, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=78.57 E-value=2.6 Score=43.91 Aligned_cols=41 Identities=7% Similarity=0.273 Sum_probs=27.5
Q ss_pred CCcEEEEecCCCCCchh-hhHHHhhcc-cCCceEEEEcCCCCC
Q 037641 129 HFSHIFLLDASSATEPE-TMIALTNLA-NEHTTVILTGTPNNR 169 (208)
Q Consensus 129 ~Fd~vIIDEAsQa~Epe-~liPL~~l~-~~~~~vVLvGD~~QL 169 (208)
.|++|+|||.=-...-. .++.+..-. .....+++|||++|-
T Consensus 388 rf~~ILVDEfQDTn~lQ~~Il~~L~~~~~~~~nLf~VGD~KQS 430 (1232)
T TIGR02785 388 KFKEVLVDEYQDTNLLQESILQLLKRGEEDEGNLFMVGDVKQS 430 (1232)
T ss_pred CCCEEEEECCcCCCHHHHHHHHHHhccCCCCCeEEEEcCCcch
Confidence 79999999997666533 244443110 013689999999993
No 122
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=78.21 E-value=5.9 Score=39.12 Aligned_cols=88 Identities=19% Similarity=0.240 Sum_probs=53.3
Q ss_pred HHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccCcchHHH-
Q 037641 25 VREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQLPSLQE- 103 (208)
Q Consensus 25 ive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~~~~~~- 103 (208)
..++|-+.+++ |+.+||.-|--.=.+.+..|+...+ |...- .++..+.+ +.. ...|..
T Consensus 234 Yl~~i~~~L~~--GkqvLvLVPEI~Ltpq~~~rf~~rF--------g~~v~---vlHS~Ls~------~er--~~~W~~~ 292 (730)
T COG1198 234 YLEAIAKVLAQ--GKQVLVLVPEIALTPQLLARFKARF--------GAKVA---VLHSGLSP------GER--YRVWRRA 292 (730)
T ss_pred HHHHHHHHHHc--CCEEEEEeccccchHHHHHHHHHHh--------CCChh---hhcccCCh------HHH--HHHHHHH
Confidence 44677777776 7889999999999999999998754 32110 11111111 111 111222
Q ss_pred -hccCcEEEEcccccchhhcCCCCCCCCcEEEEecCC
Q 037641 104 -LMRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDAS 139 (208)
Q Consensus 104 -l~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAs 139 (208)
-.+++||+.|-++... +..+.-.|||||=.
T Consensus 293 ~~G~~~vVIGtRSAlF~------Pf~~LGLIIvDEEH 323 (730)
T COG1198 293 RRGEARVVIGTRSALFL------PFKNLGLIIVDEEH 323 (730)
T ss_pred hcCCceEEEEechhhcC------chhhccEEEEeccc
Confidence 2578999999876542 23356778888843
No 123
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=78.12 E-value=3.6 Score=39.66 Aligned_cols=40 Identities=5% Similarity=0.190 Sum_probs=29.2
Q ss_pred CCCcEEEEecCCCCCchhhhHHHhhcccCCceEEEEcCCCC
Q 037641 128 GHFSHIFLLDASSATEPETMIALTNLANEHTTVILTGTPNN 168 (208)
Q Consensus 128 ~~Fd~vIIDEAsQa~Epe~liPL~~l~~~~~~vVLvGD~~Q 168 (208)
+.|++|+|||.-..+..+.-+ |..+......+.++||++|
T Consensus 205 ~~~~~ilVDEfQD~~~~Q~~l-l~~L~~~~~~l~~vGD~~Q 244 (664)
T TIGR01074 205 NKIRYLLVDEYQDTNTSQYEL-VKLLVGDRARFTVVGDDDQ 244 (664)
T ss_pred HhCCEEEEeehccCCHHHHHH-HHHHhcCCCeEEEEcCCcc
Confidence 468999999998887655422 2223334568999999999
No 124
>TIGR01547 phage_term_2 phage terminase, large subunit, PBSX family. This model detects members of a highly divergent family of the large subunit of phage terminase. All members are encoded by phage genomes or within prophage regions of bacterial genomes. This is a distinct family from pfam03354.
Probab=77.68 E-value=12 Score=33.58 Aligned_cols=46 Identities=13% Similarity=0.172 Sum_probs=32.0
Q ss_pred CCCchhHHHHHHHHHHHHcCCCCeEEEECCChHHH-HHHHHHhhhhC
Q 037641 17 NLSKTGLVVREAVLEIYKRSSKCRILVCAPINRTG-DVLMRSLKKKI 62 (208)
Q Consensus 17 ~~~~t~~Tive~i~ql~~~~~~~rILV~A~SN~Av-D~l~~rL~~~~ 62 (208)
.-|||-.....++..++...++.+++++.+|..++ +++...+...+
T Consensus 11 gSGKS~~~~~~~~~~~~~~~~~~~~~~~r~~~~sl~~sv~~~l~~~i 57 (396)
T TIGR01547 11 RSGKTFAIALKLVEKLAINKKQQNILAARKVQNSIRDSVFKDIENLL 57 (396)
T ss_pred CcccHHHHHHHHHHHHHhcCCCcEEEEEehhhhHHHHHHHHHHHHHH
Confidence 44677777777777777754578999999998854 55555555433
No 125
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=77.18 E-value=3.3 Score=40.58 Aligned_cols=40 Identities=13% Similarity=0.252 Sum_probs=28.8
Q ss_pred CCCcEEEEecCCCCCchhhhHHHhhcccCCceEEEEcCCCC
Q 037641 128 GHFSHIFLLDASSATEPETMIALTNLANEHTTVILTGTPNN 168 (208)
Q Consensus 128 ~~Fd~vIIDEAsQa~Epe~liPL~~l~~~~~~vVLvGD~~Q 168 (208)
..|++|+|||+--......-+ +..+....+++++|||++|
T Consensus 208 ~~~~~IlVDEfQDtn~~Q~~l-l~~L~~~~~~l~vVGD~~Q 247 (726)
T TIGR01073 208 RKFQYIHVDEYQDTNRAQYTL-VRLLASRFRNLCVVGDADQ 247 (726)
T ss_pred HhCCEEEEEccccCCHHHHHH-HHHHhCCCCEEEEEeCCCc
Confidence 379999999998777655422 2223334678999999999
No 126
>PRK00254 ski2-like helicase; Provisional
Probab=77.12 E-value=11 Score=36.88 Aligned_cols=101 Identities=12% Similarity=0.090 Sum_probs=54.2
Q ss_pred hhHHHHHH--HHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccCc
Q 037641 21 TGLVVREA--VLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQL 98 (208)
Q Consensus 21 t~~Tive~--i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~ 98 (208)
.|+|++-. +++.+.. ++.++++.+|+..=++....++.+. .... ++++..... .+
T Consensus 50 sGKT~~~~l~il~~l~~-~~~~~l~l~P~~aLa~q~~~~~~~~-~~~g-~~v~~~~Gd---~~----------------- 106 (720)
T PRK00254 50 SGKTLVAEIVMVNKLLR-EGGKAVYLVPLKALAEEKYREFKDW-EKLG-LRVAMTTGD---YD----------------- 106 (720)
T ss_pred cHHHHHHHHHHHHHHHh-cCCeEEEEeChHHHHHHHHHHHHHH-hhcC-CEEEEEeCC---CC-----------------
Confidence 56777653 2332222 3678999999998888888777642 1110 122211100 00
Q ss_pred chHHHhccCcEEEEcccccchhhcCC-CCCCCCcEEEEecCCCCCch
Q 037641 99 PSLQELMRFRVIFSTFTSSFRLHNEG-IPAGHFSHIFLLDASSATEP 144 (208)
Q Consensus 99 ~~~~~l~~~~Vv~~T~~~a~~l~~~~-~~~~~Fd~vIIDEAsQa~Ep 144 (208)
...+.+.+.+|+++|......+.... ..-...++|||||+-...++
T Consensus 107 ~~~~~~~~~~IiV~Tpe~~~~ll~~~~~~l~~l~lvViDE~H~l~~~ 153 (720)
T PRK00254 107 STDEWLGKYDIIIATAEKFDSLLRHGSSWIKDVKLVVADEIHLIGSY 153 (720)
T ss_pred CchhhhccCCEEEEcHHHHHHHHhCCchhhhcCCEEEEcCcCccCCc
Confidence 00122356789999954322221110 11246899999999877543
No 127
>PF05127 Helicase_RecD: Helicase; InterPro: IPR007807 This domain is about 350 amino acid residues long and appears to have a P-loop motif, suggesting this is an ATPase. This domain is often N-terminal to a GCN5-related N-acetyltransferase domain IPR000182 from INTERPRO and C-terminal to IPR013562 from INTERPRO.; PDB: 2ZPA_B.
Probab=76.41 E-value=2.2 Score=34.75 Aligned_cols=24 Identities=33% Similarity=0.396 Sum_probs=13.2
Q ss_pred CeEEEECCChHHHHHHHHHhhhhC
Q 037641 39 CRILVCAPINRTGDVLMRSLKKKI 62 (208)
Q Consensus 39 ~rILV~A~SN~AvD~l~~rL~~~~ 62 (208)
.+|+||||+-.++..+.+.+...+
T Consensus 27 ~~I~vtAP~~~~~~~lf~~~~~~l 50 (177)
T PF05127_consen 27 IRILVTAPSPENVQTLFEFAEKGL 50 (177)
T ss_dssp --EEEE-SS--S-HHHHHCC----
T ss_pred ceEEEecCCHHHHHHHHHHHHhhc
Confidence 589999999999999988877644
No 128
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=76.25 E-value=15 Score=34.42 Aligned_cols=110 Identities=12% Similarity=0.032 Sum_probs=63.5
Q ss_pred CCCCchhHHHHHHHHHHHHcCC----------CCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhh
Q 037641 16 DNLSKTGLVVREAVLEIYKRSS----------KCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDIL 85 (208)
Q Consensus 16 ~~~~~t~~Tive~i~ql~~~~~----------~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~ 85 (208)
-.-|||.--+.=+|-.+++..+ ..++||.|||+.=||.+..+-.+... ..-+|...+.+
T Consensus 120 TGsGKT~aFLiPii~~~~~~~~~~~~~~~~~~~P~~lIlapTReL~~Qi~nea~k~~~-~s~~~~~~~yg---------- 188 (482)
T KOG0335|consen 120 TGSGKTAAFLIPIISYLLDEGPEDRGESGGGVYPRALILAPTRELVDQIYNEARKFSY-LSGMKSVVVYG---------- 188 (482)
T ss_pred CCCcchHHHHHHHHHHHHhcCcccCcccCCCCCCceEEEeCcHHHhhHHHHHHHhhcc-cccceeeeeeC----------
Confidence 3456777667777888887643 36899999999999999998776322 11122211111
Q ss_pred ccccccCCCccCcchHHHhccCcEEEEcccccchhhcC-CCCCCCCcEEEEecCCCCCc
Q 037641 86 PLCLYEGGECFQLPSLQELMRFRVIFSTFTSSFRLHNE-GIPAGHFSHIFLLDASSATE 143 (208)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~l~~~~Vv~~T~~~a~~l~~~-~~~~~~Fd~vIIDEAsQa~E 143 (208)
. ..+...-...-..+.|+++|-..-..+... .+.-...-++++|||-.+..
T Consensus 189 ---g----~~~~~q~~~~~~gcdIlvaTpGrL~d~~e~g~i~l~~~k~~vLDEADrMlD 240 (482)
T KOG0335|consen 189 ---G----TDLGAQLRFIKRGCDILVATPGRLKDLIERGKISLDNCKFLVLDEADRMLD 240 (482)
T ss_pred ---C----cchhhhhhhhccCccEEEecCchhhhhhhcceeehhhCcEEEecchHHhhh
Confidence 0 000000011124689999996433322221 12223456899999987665
No 129
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=73.83 E-value=16 Score=36.76 Aligned_cols=106 Identities=7% Similarity=-0.038 Sum_probs=55.1
Q ss_pred chhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccCcc
Q 037641 20 KTGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQLP 99 (208)
Q Consensus 20 ~t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~~ 99 (208)
++|+|++.++--++....|..|-|+|||..=+-...+.+.+...... +.++.-.. .+ ...
T Consensus 104 GeGKTLva~lpa~l~aL~G~~V~IvTpn~yLA~rd~e~~~~l~~~LG-lsv~~i~~---~~----------------~~~ 163 (830)
T PRK12904 104 GEGKTLVATLPAYLNALTGKGVHVVTVNDYLAKRDAEWMGPLYEFLG-LSVGVILS---GM----------------SPE 163 (830)
T ss_pred CCCcHHHHHHHHHHHHHcCCCEEEEecCHHHHHHHHHHHHHHHhhcC-CeEEEEcC---CC----------------CHH
Confidence 35689988776655555577899999976544444444333211000 11111000 00 011
Q ss_pred hHHHhccCcEEEEcccccch-hhcCCC-------CCCCCcEEEEecCCCCCchh
Q 037641 100 SLQELMRFRVIFSTFTSSFR-LHNEGI-------PAGHFSHIFLLDASSATEPE 145 (208)
Q Consensus 100 ~~~~l~~~~Vv~~T~~~a~~-l~~~~~-------~~~~Fd~vIIDEAsQa~Epe 145 (208)
..+..-.+.|+.+|-+-.+. +....+ ....|.++|||||=.+.-=|
T Consensus 164 er~~~y~~dI~ygT~~elgfDyLrd~~~~~~~~~~~r~~~~aIvDEaDsiLIDe 217 (830)
T PRK12904 164 ERREAYAADITYGTNNEFGFDYLRDNMVFSLEERVQRGLNYAIVDEVDSILIDE 217 (830)
T ss_pred HHHHhcCCCeEEECCcchhhhhhhcccccchhhhcccccceEEEechhhheecc
Confidence 12223357899999875532 111111 13468889999998765333
No 130
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=73.42 E-value=14 Score=37.90 Aligned_cols=100 Identities=15% Similarity=0.178 Sum_probs=58.8
Q ss_pred HHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCC--eEEEeccccCCCCCCchhhccccccCCCccCcch
Q 037641 23 LVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSD--MFRANAAFREVDGVPVDILPLCLYEGGECFQLPS 100 (208)
Q Consensus 23 ~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~--i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~~~ 100 (208)
+|=..++..++-+..|+|+++.=||-.=|-+..+||.+...... -.|++ -+. .++..-+ ...
T Consensus 110 KTTfg~~~sl~~a~kgkr~yii~PT~~Lv~Q~~~kl~~~~e~~~~~~~~~~-yh~---~l~~~ek------------ee~ 173 (1187)
T COG1110 110 KTTFGLLMSLYLAKKGKRVYIIVPTTTLVRQVYERLKKFAEDAGSLDVLVV-YHS---ALPTKEK------------EEA 173 (1187)
T ss_pred hhHHHHHHHHHHHhcCCeEEEEecCHHHHHHHHHHHHHHHhhcCCcceeee-ecc---ccchHHH------------HHH
Confidence 45556666666666689999999999999999999986422111 11221 000 0111000 011
Q ss_pred HHHhc--cCcEEEEcccccchhhcCCCCCCCCcEEEEecCC
Q 037641 101 LQELM--RFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDAS 139 (208)
Q Consensus 101 ~~~l~--~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAs 139 (208)
.+.+. +.+|+++|......-. ..+...+||.||||..-
T Consensus 174 le~i~~gdfdIlitTs~FL~k~~-e~L~~~kFdfifVDDVD 213 (1187)
T COG1110 174 LERIESGDFDILITTSQFLSKRF-EELSKLKFDFIFVDDVD 213 (1187)
T ss_pred HHHHhcCCccEEEEeHHHHHhhH-HHhcccCCCEEEEccHH
Confidence 23343 5899999976443221 12344689999999864
No 131
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=72.66 E-value=8.5 Score=38.84 Aligned_cols=38 Identities=5% Similarity=-0.064 Sum_probs=26.6
Q ss_pred chhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHH
Q 037641 20 KTGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRS 57 (208)
Q Consensus 20 ~t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~r 57 (208)
++|+|++-++--++....+..|.|++++..=+-...+.
T Consensus 105 GEGKTL~a~lp~~l~al~g~~VhIvT~ndyLA~RD~e~ 142 (908)
T PRK13107 105 GEGKTLTATLPAYLNALTGKGVHVITVNDYLARRDAEN 142 (908)
T ss_pred CCCchHHHHHHHHHHHhcCCCEEEEeCCHHHHHHHHHH
Confidence 46689988777666666788899999975544443333
No 132
>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=72.31 E-value=20 Score=31.92 Aligned_cols=110 Identities=12% Similarity=0.057 Sum_probs=0.0
Q ss_pred chhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhC------CCCCeEEEeccccCCCCCCchhhccc-----
Q 037641 20 KTGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKI------PKSDMFRANAAFREVDGVPVDILPLC----- 88 (208)
Q Consensus 20 ~t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~------~~~~i~Rv~~~~r~~~~~~~~l~~~~----- 88 (208)
+.|+|.+-.+.-+.. +.+.++.+|++.-++...+++.+.+ .+..+..+.. ....+++.+.
T Consensus 24 GsGKT~~~~~~~l~~---~~~~~~~~P~~aL~~~~~~~~~~~~~~~~~~~~~~v~~~~g------~~~~d~~~~~~~~~~ 94 (357)
T TIGR03158 24 GAGKTLAWLTPLLHG---ENDTIALYPTNALIEDQTEAIKEFVDVFKPERDVNLLHVSK------ATLKDIKEYANDKVG 94 (357)
T ss_pred CCCHHHHHHHHHHHc---CCCEEEEeChHHHHHHHHHHHHHHHHhcCCCCCceEEEecC------CchHHHHHhhhhhcc
Q ss_pred cccCCCccCcchHHHhccCcEEEEcccccchhhcCCCCC----------CCCcEEEEecC
Q 037641 89 LYEGGECFQLPSLQELMRFRVIFSTFTSSFRLHNEGIPA----------GHFSHIFLLDA 138 (208)
Q Consensus 89 ~~~~~~~~~~~~~~~l~~~~Vv~~T~~~a~~l~~~~~~~----------~~Fd~vIIDEA 138 (208)
.......+..-+...-...+.|++|.-............ ...+++||||+
T Consensus 95 ~~~g~~~~~~~r~~~~~~~p~illT~p~~l~~llr~~~~~~~~~~~~~~~~~~~iV~DE~ 154 (357)
T TIGR03158 95 SSKGEKLYNLLRNPIGTSTPIILLTNPDIFVYLTRFAYIDRGDIAAGFYTKFSTVIFDEF 154 (357)
T ss_pred cCccchhhhhHHHHHhcCCCCEEEecHHHHHHHHhhhccCcccchhhhhcCCCEEEEecc
No 133
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=71.55 E-value=5 Score=41.76 Aligned_cols=41 Identities=10% Similarity=0.239 Sum_probs=27.1
Q ss_pred CCCcEEEEecCCCCCchhh--hHHHhhcccCCceEEEEcCCCCC
Q 037641 128 GHFSHIFLLDASSATEPET--MIALTNLANEHTTVILTGTPNNR 169 (208)
Q Consensus 128 ~~Fd~vIIDEAsQa~Epe~--liPL~~l~~~~~~vVLvGD~~QL 169 (208)
..|++|+|||.=-...... +-.|.. ..+...+++||||+|-
T Consensus 376 ~~y~~ilIDEfQDT~~~Q~~il~~L~~-~~~~~~l~~VGDpkQs 418 (1181)
T PRK10876 376 TRYPVAMIDEFQDTDPQQYRIFRRIYR-HQPETALLLIGDPKQA 418 (1181)
T ss_pred hCCCEEEEECCccCCHHHHHHHHHHHc-CCCCCeEEEEeCCccc
Confidence 4799999999866554322 233321 1124579999999995
No 134
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=70.87 E-value=15 Score=35.80 Aligned_cols=118 Identities=14% Similarity=0.125 Sum_probs=62.2
Q ss_pred eEEEECCChHHHHHHHHHhhhhCCC--CCeEEEeccccCCCCCCchhhccccccCCCccCcchHHHhccCcEEEEccccc
Q 037641 40 RILVCAPINRTGDVLMRSLKKKIPK--SDMFRANAAFREVDGVPVDILPLCLYEGGECFQLPSLQELMRFRVIFSTFTSS 117 (208)
Q Consensus 40 rILV~A~SN~AvD~l~~rL~~~~~~--~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~Vv~~T~~~a 117 (208)
+|-++-|--.|+-.++.|+++.++. +. -||-..|..+... ...+|...|=..-
T Consensus 97 ~I~~TQPRRVAavslA~RVAeE~~~~lG~--~VGY~IRFed~ts-----------------------~~TrikymTDG~L 151 (674)
T KOG0922|consen 97 KIACTQPRRVAAVSLAKRVAEEMGCQLGE--EVGYTIRFEDSTS-----------------------KDTRIKYMTDGML 151 (674)
T ss_pred cEEeecCchHHHHHHHHHHHHHhCCCcCc--eeeeEEEecccCC-----------------------CceeEEEecchHH
Confidence 4999999999999999999986532 11 0122222211111 1245555554322
Q ss_pred chhhcCCCCCCCCcEEEEecCCCCCc-hhhhHHHhhcccCCceEEEEcCCCCCCcceechHHhhCCCCccHHHHHHcCC
Q 037641 118 FRLHNEGIPAGHFSHIFLLDASSATE-PETMIALTNLANEHTTVILTGTPNNRTSWVRSDIARKNGLRVSHFERLHATK 195 (208)
Q Consensus 118 ~~l~~~~~~~~~Fd~vIIDEAsQa~E-pe~liPL~~l~~~~~~vVLvGD~~QL~P~V~s~~a~~~gl~~SLfeRL~~~~ 195 (208)
-+-....-.-..|++||||||-.=+- -..|+.|..-. +=-...|.=+|+|- -++...|...+...
T Consensus 152 LRE~l~Dp~LskYsvIIlDEAHERsl~TDiLlGlLKki--------~~~R~~LklIimSA-----Tlda~kfS~yF~~a 217 (674)
T KOG0922|consen 152 LREILKDPLLSKYSVIILDEAHERSLHTDILLGLLKKI--------LKKRPDLKLIIMSA-----TLDAEKFSEYFNNA 217 (674)
T ss_pred HHHHhcCCccccccEEEEechhhhhhHHHHHHHHHHHH--------HhcCCCceEEEEee-----eecHHHHHHHhcCC
Confidence 11100000123799999999987543 45566665110 00111133344443 36677777777663
No 135
>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]
Probab=70.53 E-value=11 Score=37.39 Aligned_cols=138 Identities=14% Similarity=0.163 Sum_probs=76.0
Q ss_pred CCCCchhHHHHHHHHHHHHc-CCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCC
Q 037641 16 DNLSKTGLVVREAVLEIYKR-SSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGE 94 (208)
Q Consensus 16 ~~~~~t~~Tive~i~ql~~~-~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~ 94 (208)
|+||||=..| ....+|... +--.+-||+||. ...+|.+..+.+.+|..+++++-....+ -..+++|-. ..+
T Consensus 595 MGLGKTVQsi-svlAhLaE~~nIwGPFLVVtpa-StL~NWaqEisrFlP~~k~lpywGs~~e----RkiLrKfw~--rKn 666 (1185)
T KOG0388|consen 595 MGLGKTVQSI-SVLAHLAETHNIWGPFLVVTPA-STLHNWAQEISRFLPSFKVLPYWGSPSE----RKILRKFWN--RKN 666 (1185)
T ss_pred hccchhHHHH-HHHHHHHHhccCCCceEEeehH-HHHhHHHHHHHHhCccceeecCcCChhh----hHHHHHhcc--hhh
Confidence 6778776654 233344432 112489999995 4588999999888887777765321110 012333211 111
Q ss_pred ccCcchHHHhccCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCCchh---hhHHHhhcccCCceEEEEcCCCCC
Q 037641 95 CFQLPSLQELMRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSATEPE---TMIALTNLANEHTTVILTGTPNNR 169 (208)
Q Consensus 95 ~~~~~~~~~l~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~Epe---~liPL~~l~~~~~~vVLvGD~~QL 169 (208)
.|+ .-....|++++...+-.-. .-|..-.|.+.|+||| ||...+ -|=-|..+. ---++.|.|-|-|-
T Consensus 667 mY~-----rna~fhVviTSYQlvVtDe-ky~qkvKWQYMILDEA-QAIKSSsS~RWKtLLsF~-cRNRLLLTGTPIQN 736 (1185)
T KOG0388|consen 667 MYR-----RNAPFHVVITSYQLVVTDE-KYLQKVKWQYMILDEA-QAIKSSSSSRWKTLLSFK-CRNRLLLTGTPIQN 736 (1185)
T ss_pred hhc-----cCCCceEEEEeeeeeechH-HHHHhhhhhheehhHH-HHhhhhhhhHHHHHhhhh-ccceeeecCCccch
Confidence 121 1134678888876543110 0123447999999998 443332 233344221 12579999988763
No 136
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=70.00 E-value=21 Score=36.13 Aligned_cols=104 Identities=8% Similarity=-0.042 Sum_probs=55.2
Q ss_pred hhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccCcch
Q 037641 21 TGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQLPS 100 (208)
Q Consensus 21 t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~~~ 100 (208)
.|+|++.++--++....|..|-|+||+..=+..=.+.+.+.+.... ++++.-.. +.+ ...
T Consensus 106 EGKTLvA~l~a~l~al~G~~VhvvT~ndyLA~RD~e~m~~l~~~lG-l~v~~i~~---~~~----------------~~e 165 (913)
T PRK13103 106 EGKTLVGTLAVYLNALSGKGVHVVTVNDYLARRDANWMRPLYEFLG-LSVGIVTP---FQP----------------PEE 165 (913)
T ss_pred CCChHHHHHHHHHHHHcCCCEEEEeCCHHHHHHHHHHHHHHhcccC-CEEEEECC---CCC----------------HHH
Confidence 4589988877777666789999999975433333333332211111 12221100 000 111
Q ss_pred HHHhccCcEEEEcccccch--hhcCCCC-------CCCCcEEEEecCCCCCchh
Q 037641 101 LQELMRFRVIFSTFTSSFR--LHNEGIP-------AGHFSHIFLLDASSATEPE 145 (208)
Q Consensus 101 ~~~l~~~~Vv~~T~~~a~~--l~~~~~~-------~~~Fd~vIIDEAsQa~Epe 145 (208)
++..-.+.|+.+|.+..+. |.+ .+. ...|.++||||+--+.-=|
T Consensus 166 rr~~Y~~dI~YGT~~e~gFDYLrD-~~~~~~~~~vqr~l~~aIVDEvDsiLIDE 218 (913)
T PRK13103 166 KRAAYAADITYGTNNEFGFDYLRD-NMAFSLDDKFQRELNFAVIDEVDSILIDE 218 (913)
T ss_pred HHHHhcCCEEEEcccccccchhhc-cceechhhhcccccceeEechhhheeccc
Confidence 3334458899988775432 111 111 2467888888887655333
No 137
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=69.86 E-value=20 Score=33.72 Aligned_cols=107 Identities=17% Similarity=0.172 Sum_probs=57.0
Q ss_pred chhHHHHH---HHHHHHH-cCCCCe-EEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCC
Q 037641 20 KTGLVVRE---AVLEIYK-RSSKCR-ILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGE 94 (208)
Q Consensus 20 ~t~~Tive---~i~ql~~-~~~~~r-ILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~ 94 (208)
+||+|++= ++-.+.. ...... .||.+||-.-+..+.+-+.+......-+|+.. . -.+.
T Consensus 76 GsGKT~Af~lP~l~~l~~~~~~~~~~aLil~PTRELA~Qi~~~~~~~~~~~~~~~~~~----------------i-~GG~ 138 (513)
T COG0513 76 GTGKTAAFLLPLLQKILKSVERKYVSALILAPTRELAVQIAEELRKLGKNLGGLRVAV----------------V-YGGV 138 (513)
T ss_pred CChHHHHHHHHHHHHHhcccccCCCceEEECCCHHHHHHHHHHHHHHHhhcCCccEEE----------------E-ECCC
Confidence 46677653 3333332 222222 89999999999998888775321110011110 0 0011
Q ss_pred ccCcchHHHhc-cCcEEEEcccccchhhc-CCCCCCCCcEEEEecCCCCCch
Q 037641 95 CFQLPSLQELM-RFRVIFSTFTSSFRLHN-EGIPAGHFSHIFLLDASSATEP 144 (208)
Q Consensus 95 ~~~~~~~~~l~-~~~Vv~~T~~~a~~l~~-~~~~~~~Fd~vIIDEAsQa~Ep 144 (208)
.+. .+.+.++ ..+||++|-.-.-.+.. ..+...+..++|+|||-++.+.
T Consensus 139 ~~~-~q~~~l~~~~~ivVaTPGRllD~i~~~~l~l~~v~~lVlDEADrmLd~ 189 (513)
T COG0513 139 SIR-KQIEALKRGVDIVVATPGRLLDLIKRGKLDLSGVETLVLDEADRMLDM 189 (513)
T ss_pred CHH-HHHHHHhcCCCEEEECccHHHHHHHcCCcchhhcCEEEeccHhhhhcC
Confidence 111 1122333 38899998642222222 2244457899999999997765
No 138
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=68.42 E-value=7.9 Score=35.61 Aligned_cols=130 Identities=13% Similarity=0.164 Sum_probs=71.4
Q ss_pred CCCchhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCcc
Q 037641 17 NLSKTGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECF 96 (208)
Q Consensus 17 ~~~~t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~ 96 (208)
+-|||+--+.=++..|+......+.||.+||-.=+-.|.+-... ++..-=+|+-.- ..|..+
T Consensus 108 GSGKT~afaLPIl~~LL~~p~~~~~lVLtPtRELA~QI~e~fe~-Lg~~iglr~~~l-----------------vGG~~m 169 (476)
T KOG0330|consen 108 GSGKTGAFALPILQRLLQEPKLFFALVLTPTRELAQQIAEQFEA-LGSGIGLRVAVL-----------------VGGMDM 169 (476)
T ss_pred CCCchhhhHHHHHHHHHcCCCCceEEEecCcHHHHHHHHHHHHH-hccccCeEEEEE-----------------ecCchH
Confidence 34666665556666677765568999999999888887776654 322211222110 101100
Q ss_pred CcchHHHhccCcEEEEcccccch-hh-cCCCCCCCCcEEEEecCCCCCchhh------hHHHhhcccCCceEEEEcCCC
Q 037641 97 QLPSLQELMRFRVIFSTFTSSFR-LH-NEGIPAGHFSHIFLLDASSATEPET------MIALTNLANEHTTVILTGTPN 167 (208)
Q Consensus 97 ~~~~~~~l~~~~Vv~~T~~~a~~-l~-~~~~~~~~Fd~vIIDEAsQa~Epe~------liPL~~l~~~~~~vVLvGD~~ 167 (208)
..-.....++-.|+++|...-.. +. ..+|.-....++|+|||-...+-+. +++.. +..++.+|++-.+
T Consensus 170 ~~q~~~L~kkPhilVaTPGrL~dhl~~Tkgf~le~lk~LVlDEADrlLd~dF~~~ld~ILk~i---p~erqt~LfsATM 245 (476)
T KOG0330|consen 170 MLQANQLSKKPHILVATPGRLWDHLENTKGFSLEQLKFLVLDEADRLLDMDFEEELDYILKVI---PRERQTFLFSATM 245 (476)
T ss_pred HHHHHHhhcCCCEEEeCcHHHHHHHHhccCccHHHhHHHhhchHHhhhhhhhHHHHHHHHHhc---CccceEEEEEeec
Confidence 01112223456788888743221 11 1234444567899999988765443 22222 2457788876543
No 139
>PF09949 DUF2183: Uncharacterized conserved protein (DUF2183); InterPro: IPR019236 This domain, found in various bacterial and fungal proteins, has no known function.
Probab=66.98 E-value=3.4 Score=30.40 Aligned_cols=26 Identities=23% Similarity=0.359 Sum_probs=20.8
Q ss_pred CCceEEEEcCCCCCCcceechHHhhC
Q 037641 156 EHTTVILTGTPNNRTSWVRSDIARKN 181 (208)
Q Consensus 156 ~~~~vVLvGD~~QL~P~V~s~~a~~~ 181 (208)
+..++|||||.-|-.|-+-.+.++++
T Consensus 63 P~~kfiLIGDsgq~DpeiY~~ia~~~ 88 (100)
T PF09949_consen 63 PERKFILIGDSGQHDPEIYAEIARRF 88 (100)
T ss_pred CCCcEEEEeeCCCcCHHHHHHHHHHC
Confidence 45899999999999988777666553
No 140
>TIGR00609 recB exodeoxyribonuclease V, beta subunit. All proteins in this family for which functions are known are DNA-DNA helicases that are used as part of an exonuclease-helicase complex (made up of RecBCD homologs) that function to generate substrates for the initiation of recombination and recombinational repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=66.29 E-value=8.2 Score=39.79 Aligned_cols=41 Identities=15% Similarity=0.335 Sum_probs=26.7
Q ss_pred CCCcEEEEecCCCCCchhhhHHHhhcccCC--ceEEEEcCCCCC
Q 037641 128 GHFSHIFLLDASSATEPETMIALTNLANEH--TTVILTGTPNNR 169 (208)
Q Consensus 128 ~~Fd~vIIDEAsQa~Epe~liPL~~l~~~~--~~vVLvGD~~QL 169 (208)
..|++|+|||.=-.. |.-+-=+..+.... ..+++||||||=
T Consensus 295 ~ry~~vLVDEFQDTd-~~Q~~il~~L~~~~~~~~L~~VGDpKQS 337 (1087)
T TIGR00609 295 EQYPIALIDEFQDTD-PQQYRIFSKLFIAQKTTSLFLIGDPKQA 337 (1087)
T ss_pred hCCCEEEEECCcCCC-HHHHHHHHHHHhCCCCCeEEEEECCccc
Confidence 479999999986555 33222222232222 379999999995
No 141
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=65.98 E-value=24 Score=35.02 Aligned_cols=112 Identities=9% Similarity=-0.008 Sum_probs=58.5
Q ss_pred chhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccCcc
Q 037641 20 KTGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQLP 99 (208)
Q Consensus 20 ~t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~~ 99 (208)
+.|+|++.++.-.+....|+.|-|+|++..=+..=++.+.+...... ++++.-.. ..++ .
T Consensus 101 GEGKTLvA~l~a~l~AL~G~~VhvvT~NdyLA~RDae~m~~ly~~LG-Lsvg~i~~---~~~~----------------~ 160 (764)
T PRK12326 101 GEGKTLAGAIAAAGYALQGRRVHVITVNDYLARRDAEWMGPLYEALG-LTVGWITE---ESTP----------------E 160 (764)
T ss_pred CCCHHHHHHHHHHHHHHcCCCeEEEcCCHHHHHHHHHHHHHHHHhcC-CEEEEECC---CCCH----------------H
Confidence 34689998887777766789999999975544443333332111100 23332110 0111 1
Q ss_pred hHHHhccCcEEEEcccccch--hhcC------CCCCCCCcEEEEecCCCCCchhhhHHHh
Q 037641 100 SLQELMRFRVIFSTFTSSFR--LHNE------GIPAGHFSHIFLLDASSATEPETMIALT 151 (208)
Q Consensus 100 ~~~~l~~~~Vv~~T~~~a~~--l~~~------~~~~~~Fd~vIIDEAsQa~Epe~liPL~ 151 (208)
.++..-++.|+-+|.+..+. +.+. ..-...|..+||||+--+.-=|.-.||.
T Consensus 161 err~aY~~DItYgTn~e~gFDyLRDnm~~~~~~~v~R~~~faIVDEvDSiLIDeArtPLi 220 (764)
T PRK12326 161 ERRAAYACDVTYASVNEIGFDVLRDQLVTDVADLVSPNPDVAIIDEADSVLVDEALVPLV 220 (764)
T ss_pred HHHHHHcCCCEEcCCcccccccchhhhccChHhhcCCccceeeecchhhheeccccCcee
Confidence 12333456777777665432 1110 0112458899999987655444434443
No 142
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=64.86 E-value=26 Score=35.55 Aligned_cols=44 Identities=18% Similarity=0.257 Sum_probs=33.9
Q ss_pred CCchhHHHHHHHHHHH-HcCCCCeEEEECCChHHHHHHHHHhhhhC
Q 037641 18 LSKTGLVVREAVLEIY-KRSSKCRILVCAPINRTGDVLMRSLKKKI 62 (208)
Q Consensus 18 ~~~t~~Tive~i~ql~-~~~~~~rILV~A~SN~AvD~l~~rL~~~~ 62 (208)
-|||+. +.+.|+.-. ...+.++|+++-|.-.||=-+++|+....
T Consensus 199 cGKTTQ-vpQfiLd~~~~~~~~~~IicTQPRRIsAIsvAeRVa~ER 243 (924)
T KOG0920|consen 199 CGKTTQ-VPQFILDEAIESGAACNIICTQPRRISAISVAERVAKER 243 (924)
T ss_pred CCchhh-hhHHHHHHHHhcCCCCeEEecCCchHHHHHHHHHHHHHh
Confidence 345544 557777644 45577899999999999999999999754
No 143
>PF03354 Terminase_1: Phage Terminase ; InterPro: IPR005021 This entry is represented by Lactococcus phage bIL285, Orf41 (terminase). The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=63.59 E-value=77 Score=29.42 Aligned_cols=44 Identities=18% Similarity=0.251 Sum_probs=29.4
Q ss_pred CchhHHHHHHHHHHHH-cCCCCeEEEECCChHHHHHHHHHhhhhC
Q 037641 19 SKTGLVVREAVLEIYK-RSSKCRILVCAPINRTGDVLMRSLKKKI 62 (208)
Q Consensus 19 ~~t~~Tive~i~ql~~-~~~~~rILV~A~SN~AvD~l~~rL~~~~ 62 (208)
|||+...+-++..++. ..++..|+++|++...+..+...+.+.+
T Consensus 34 GKS~l~a~i~ly~l~~~g~~~~~i~~~A~~~~QA~~~f~~~~~~i 78 (477)
T PF03354_consen 34 GKSTLAAAIALYMLFLDGEPGAEIYCAANTRDQAKIVFDEAKKMI 78 (477)
T ss_pred CccHHHHHHHHHHHhcCCccCceEEEEeCCHHHHHHHHHHHHHHH
Confidence 5555433223333332 2356889999999999999999887654
No 144
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=62.99 E-value=7.1 Score=41.82 Aligned_cols=38 Identities=16% Similarity=0.209 Sum_probs=26.6
Q ss_pred cEEEEecCCCCCchhh--hHHHhhcccCCceEEEEcCCCCCCc
Q 037641 131 SHIFLLDASSATEPET--MIALTNLANEHTTVILTGTPNNRTS 171 (208)
Q Consensus 131 d~vIIDEAsQa~Epe~--liPL~~l~~~~~~vVLvGD~~QL~P 171 (208)
+++|||||++..--+. |+-++.. ...| |++||.+|+.-
T Consensus 370 ~ilIVDEA~~Ls~rdm~~Ll~~A~~--~gar-VllgD~~Q~~a 409 (1623)
T PRK14712 370 STVIVDQGEKLSLKETLTLLDGAAR--HNVQ-VLITDSGQRTG 409 (1623)
T ss_pred cEEEEECCCcCCHHHHHHHHHHHHh--cCCE-EEEEechhhhh
Confidence 8999999999876554 3433321 2356 66889999955
No 145
>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=62.07 E-value=8.5 Score=35.60 Aligned_cols=37 Identities=16% Similarity=0.102 Sum_probs=24.1
Q ss_pred hhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhh
Q 037641 21 TGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKK 60 (208)
Q Consensus 21 t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~ 60 (208)
+|+|++-.+-.+.. +...||.+|+..=+...+.++..
T Consensus 37 sGKTl~y~lp~l~~---~~~~lVi~P~~~L~~dq~~~l~~ 73 (470)
T TIGR00614 37 GGKSLCYQLPALCS---DGITLVISPLISLMEDQVLQLKA 73 (470)
T ss_pred CcHhHHHHHHHHHc---CCcEEEEecHHHHHHHHHHHHHH
Confidence 56888755544433 45789999997765555666553
No 146
>KOG0987 consensus DNA helicase PIF1/RRM3 [Cell cycle control, cell division, chromosome partitioning]
Probab=61.57 E-value=4.7 Score=38.30 Aligned_cols=45 Identities=11% Similarity=0.066 Sum_probs=30.7
Q ss_pred cEEEEecCCCCCchhhhHHHhhc----c---c--CCceEEEEcCCCCCCcceech
Q 037641 131 SHIFLLDASSATEPETMIALTNL----A---N--EHTTVILTGTPNNRTSWVRSD 176 (208)
Q Consensus 131 d~vIIDEAsQa~Epe~liPL~~l----~---~--~~~~vVLvGD~~QL~P~V~s~ 176 (208)
+++|+|||++.... ++--+-.. . . ..+.+++.||..|++|++...
T Consensus 218 ~~~i~dE~~m~~~~-~fe~ld~~~r~i~~~~~pfggk~~~~~GDF~qllpv~~~~ 271 (540)
T KOG0987|consen 218 KLIIWDEAPMVDRY-CFEKLDRTLRDIRKNDKPFGGKVLVLGGDFRQLLPVIEGA 271 (540)
T ss_pred cceeeecccccchh-hhhhhhHHHHHHhhcCCCCCCeeeeccCcccccCcccCCC
Confidence 67999999997632 11111100 0 0 358899999999999998864
No 147
>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.
Probab=61.02 E-value=12 Score=29.79 Aligned_cols=40 Identities=23% Similarity=0.395 Sum_probs=28.2
Q ss_pred CCCCcEEEEecCCCCC-----chhhhHHHhhcccCCceEEEEcCC
Q 037641 127 AGHFSHIFLLDASSAT-----EPETMIALTNLANEHTTVILTGTP 166 (208)
Q Consensus 127 ~~~Fd~vIIDEAsQa~-----Epe~liPL~~l~~~~~~vVLvGD~ 166 (208)
.+.+|.||+||..-+. ..+-++-+..-.++...+||.|-.
T Consensus 93 ~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~ 137 (159)
T cd00561 93 SGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRN 137 (159)
T ss_pred cCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCC
Confidence 4579999999998873 344455555444445689999876
No 148
>PRK13909 putative recombination protein RecB; Provisional
Probab=60.54 E-value=15 Score=37.11 Aligned_cols=48 Identities=13% Similarity=0.152 Sum_probs=34.3
Q ss_pred ccCCCCchhHHHHHHHHHHHHc-CCCCeEEEECCChHHHHHHHHHhhhhC
Q 037641 14 NSDNLSKTGLVVREAVLEIYKR-SSKCRILVCAPINRTGDVLMRSLKKKI 62 (208)
Q Consensus 14 ~~~~~~~t~~Tive~i~ql~~~-~~~~rILV~A~SN~AvD~l~~rL~~~~ 62 (208)
++-+-|||- ||+.-.+.++.. .....||+.+-||.|+.++=+|+.+.+
T Consensus 5 AsAGsGKT~-~L~~~yl~ll~~~~~~~~IlavTFT~kAa~Emk~Ri~~~L 53 (910)
T PRK13909 5 ASAGSGKTF-ALSVRFLALLFKGANPSEILALTFTKKAANEMKERIIDTL 53 (910)
T ss_pred cCCCCchhH-HHHHHHHHHHhcCCCcceEEEEeehHHHHHHHHHHHHHHH
Confidence 344555654 466666665543 333699999999999999999998754
No 149
>PRK13767 ATP-dependent helicase; Provisional
Probab=59.87 E-value=13 Score=37.53 Aligned_cols=40 Identities=18% Similarity=0.360 Sum_probs=25.3
Q ss_pred hhHHHHHH---HHHHHHc------CCCCeEEEECCChHHHHHHHHHhhh
Q 037641 21 TGLVVREA---VLEIYKR------SSKCRILVCAPINRTGDVLMRSLKK 60 (208)
Q Consensus 21 t~~Tive~---i~ql~~~------~~~~rILV~A~SN~AvD~l~~rL~~ 60 (208)
+|||++-. +.+++.. .++.++|+.+|+..=+..+..++.+
T Consensus 58 SGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtraLa~di~~~L~~ 106 (876)
T PRK13767 58 SGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRALNNDIHRNLEE 106 (876)
T ss_pred CcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHHHHHHHHHHHHH
Confidence 55777653 2333331 1245799999998888877776653
No 150
>KOG0392 consensus SNF2 family DNA-dependent ATPase domain-containing protein [Transcription]
Probab=58.22 E-value=34 Score=35.96 Aligned_cols=145 Identities=15% Similarity=0.117 Sum_probs=84.5
Q ss_pred CCCCchhHHHHHHHHHHHHcC------CCCeEEEECCChHHHHHHHHHhhhhCCCCCe-EEEeccccCCCCCCchhhccc
Q 037641 16 DNLSKTGLVVREAVLEIYKRS------SKCRILVCAPINRTGDVLMRSLKKKIPKSDM-FRANAAFREVDGVPVDILPLC 88 (208)
Q Consensus 16 ~~~~~t~~Tive~i~ql~~~~------~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i-~Rv~~~~r~~~~~~~~l~~~~ 88 (208)
|+||||=.|++-+....+++. ...+.||.+||- =+++....+.+..+-.++ .++|.+.
T Consensus 1003 MGLGKTLQticilAsd~y~r~s~~~e~~~~PSLIVCPsT-LtGHW~~E~~kf~pfL~v~~yvg~p~-------------- 1067 (1549)
T KOG0392|consen 1003 MGLGKTLQTICILASDHYKRRSESSEFNRLPSLIVCPST-LTGHWKSEVKKFFPFLKVLQYVGPPA-------------- 1067 (1549)
T ss_pred ccccHHHHHHHHHHHHHHhhcccchhhccCCeEEECCch-hhhHHHHHHHHhcchhhhhhhcCChH--------------
Confidence 899999999998888877761 124577888864 356667666665543222 1333221
Q ss_pred cccCCCccCcchHHHhccCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCCchhhhHHHh-hcccCCceEEEEcCCC
Q 037641 89 LYEGGECFQLPSLQELMRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSATEPETMIALT-NLANEHTTVILTGTPN 167 (208)
Q Consensus 89 ~~~~~~~~~~~~~~~l~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~Epe~liPL~-~l~~~~~~vVLvGD~~ 167 (208)
.+.......+++.||++....+.+-.. .+....|-++|+||--=..-..+-+.=+ ..-+...|+||-|-|-
T Consensus 1068 -------~r~~lR~q~~~~~iiVtSYDv~RnD~d-~l~~~~wNYcVLDEGHVikN~ktkl~kavkqL~a~hRLILSGTPI 1139 (1549)
T KOG0392|consen 1068 -------ERRELRDQYKNANIIVTSYDVVRNDVD-YLIKIDWNYCVLDEGHVIKNSKTKLTKAVKQLRANHRLILSGTPI 1139 (1549)
T ss_pred -------HHHHHHhhccccceEEeeHHHHHHHHH-HHHhcccceEEecCcceecchHHHHHHHHHHHhhcceEEeeCCCc
Confidence 011112345678999987665442111 1223468899999986555444322111 0112357999999987
Q ss_pred CCCcceechHHhhCCCCccHHHHHHc
Q 037641 168 NRTSWVRSDIARKNGLRVSHFERLHA 193 (208)
Q Consensus 168 QL~P~V~s~~a~~~gl~~SLfeRL~~ 193 (208)
|-.+. .= -|||+-|+=
T Consensus 1140 QNnvl------eL----WSLFdFLMP 1155 (1549)
T KOG0392|consen 1140 QNNVL------EL----WSLFDFLMP 1155 (1549)
T ss_pred ccCHH------HH----HHHHHHhcc
Confidence 76542 11 367776653
No 151
>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair]
Probab=56.70 E-value=33 Score=32.88 Aligned_cols=78 Identities=14% Similarity=0.155 Sum_probs=51.5
Q ss_pred CCeEEEECCChHHHHHHHHHhhh--hCCCCCeEEEeccccCCCCCCchhhccccccCCCccCcchHHHhccCcEEEEccc
Q 037641 38 KCRILVCAPINRTGDVLMRSLKK--KIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQLPSLQELMRFRVIFSTFT 115 (208)
Q Consensus 38 ~~rILV~A~SN~AvD~l~~rL~~--~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~Vv~~T~~ 115 (208)
++++||.|.|+.+|+..-..... -+.++++.|+-+..++. |. .++-|+++|.+
T Consensus 345 kK~clvLcts~VSVeQWkqQfk~wsti~d~~i~rFTsd~Ke~------------------~~-------~~~gvvvsTYs 399 (776)
T KOG1123|consen 345 KKSCLVLCTSAVSVEQWKQQFKQWSTIQDDQICRFTSDAKER------------------FP-------SGAGVVVTTYS 399 (776)
T ss_pred cccEEEEecCccCHHHHHHHHHhhcccCccceEEeecccccc------------------CC-------CCCcEEEEeee
Confidence 46899999999999998777654 24556677776533211 00 23578899988
Q ss_pred ccchhhcC---------CCCCCCCcEEEEecCCC
Q 037641 116 SSFRLHNE---------GIPAGHFSHIFLLDASS 140 (208)
Q Consensus 116 ~a~~l~~~---------~~~~~~Fd~vIIDEAsQ 140 (208)
+.+.-... -+....|-.+++||.--
T Consensus 400 Mva~t~kRS~eaek~m~~l~~~EWGllllDEVHv 433 (776)
T KOG1123|consen 400 MVAYTGKRSHEAEKIMDFLRGREWGLLLLDEVHV 433 (776)
T ss_pred hhhhcccccHHHHHHHHHHhcCeeeeEEeehhcc
Confidence 76532111 12345799999999864
No 152
>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=55.86 E-value=1.1e+02 Score=31.22 Aligned_cols=124 Identities=17% Similarity=0.172 Sum_probs=67.3
Q ss_pred HHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccCcchHH
Q 037641 23 LVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQLPSLQ 102 (208)
Q Consensus 23 ~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~~~~~ 102 (208)
..+.+++++-+.+ +.+++|.+++-..++.+.+.|.+..++..+..+.+. ++..-+. ...+
T Consensus 647 ~~i~~~i~~el~~--g~qv~if~n~i~~~e~l~~~L~~~~p~~~v~~lHG~------m~~~eRe------------~im~ 706 (926)
T TIGR00580 647 ELVREAIRRELLR--GGQVFYVHNRIESIEKLATQLRELVPEARIAIAHGQ------MTENELE------------EVML 706 (926)
T ss_pred HHHHHHHHHHHHc--CCeEEEEECCcHHHHHHHHHHHHhCCCCeEEEecCC------CCHHHHH------------HHHH
Confidence 3455666665554 568999999999999988888865444333222211 1111000 0011
Q ss_pred Hh--ccCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCCchhhhHHHhh-ccc---CCceEEEEcCCCCCCcc
Q 037641 103 EL--MRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSATEPETMIALTN-LAN---EHTTVILTGTPNNRTSW 172 (208)
Q Consensus 103 ~l--~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~Epe~liPL~~-l~~---~~~~vVLvGD~~QL~P~ 172 (208)
.+ .+.+|++||-..+. +++-...++||++.|-....+. +.=+.+ ... ++.-++++-+++.|.|.
T Consensus 707 ~F~~Gk~~ILVaT~iie~-----GIDIp~v~~VIi~~a~~~gls~-l~Qr~GRvGR~g~~g~aill~~~~~~l~~~ 776 (926)
T TIGR00580 707 EFYKGEFQVLVCTTIIET-----GIDIPNANTIIIERADKFGLAQ-LYQLRGRVGRSKKKAYAYLLYPHQKALTED 776 (926)
T ss_pred HHHcCCCCEEEECChhhc-----ccccccCCEEEEecCCCCCHHH-HHHHhcCCCCCCCCeEEEEEECCcccCCHH
Confidence 11 35789999865433 3444568899999987654443 222221 010 11225556566666654
No 153
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=54.06 E-value=10 Score=35.75 Aligned_cols=49 Identities=14% Similarity=0.148 Sum_probs=31.9
Q ss_pred CCCcEEEEecCCCCCchhh--hHHHhhcccCCceEEEE-cCCCCCCcceech
Q 037641 128 GHFSHIFLLDASSATEPET--MIALTNLANEHTTVILT-GTPNNRTSWVRSD 176 (208)
Q Consensus 128 ~~Fd~vIIDEAsQa~Epe~--liPL~~l~~~~~~vVLv-GD~~QL~P~V~s~ 176 (208)
+.|.++|||||-+++.... |....--.+....+||+ .|+..++|.+.|.
T Consensus 118 ~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fIlattd~~kl~~tI~SR 169 (509)
T PRK14958 118 GRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILATTDHHKLPVTVLSR 169 (509)
T ss_pred CCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEEEEECChHhchHHHHHH
Confidence 5789999999999885332 22222111233556665 6888999887765
No 154
>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=53.55 E-value=8.3 Score=37.98 Aligned_cols=69 Identities=20% Similarity=0.340 Sum_probs=44.8
Q ss_pred HHHhccCcEEEEcccccchhhcCC---------CCCCCCcEEEEecCCCCCchhhhHH--HhhcccCCceEEEEcCCCCC
Q 037641 101 LQELMRFRVIFSTFTSSFRLHNEG---------IPAGHFSHIFLLDASSATEPETMIA--LTNLANEHTTVILTGTPNNR 169 (208)
Q Consensus 101 ~~~l~~~~Vv~~T~~~a~~l~~~~---------~~~~~Fd~vIIDEAsQa~Epe~liP--L~~l~~~~~~vVLvGD~~QL 169 (208)
.+.+..+.||++|..-..+-.... +..-.|..||+|||--..-+-+-.. ++.+. ...|+.|.|-|-|-
T Consensus 426 ~~~L~~YDvViTTY~lva~~~~~e~~~~~~~spL~~I~W~RVILDEAH~IrN~~tq~S~AVC~L~-a~~RWclTGTPiqN 504 (901)
T KOG4439|consen 426 AKELRKYDVVITTYNLVANKPDDELEEGKNSSPLARIAWSRVILDEAHNIRNSNTQCSKAVCKLS-AKSRWCLTGTPIQN 504 (901)
T ss_pred HHHHhhcceEEEeeeccccCCchhhhcccCccHHHHhhHHHhhhhhhhhhcccchhHHHHHHHHh-hcceeecccCcccc
Confidence 567888999999998665411101 1122588999999976665544332 23232 35799999998885
Q ss_pred C
Q 037641 170 T 170 (208)
Q Consensus 170 ~ 170 (208)
.
T Consensus 505 n 505 (901)
T KOG4439|consen 505 N 505 (901)
T ss_pred c
Confidence 4
No 155
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=53.37 E-value=21 Score=28.90 Aligned_cols=40 Identities=15% Similarity=0.175 Sum_probs=27.0
Q ss_pred CCCCcEEEEecCCC------CCchhhhHHHhhcccCCceEEEEcCCC
Q 037641 127 AGHFSHIFLLDASS------ATEPETMIALTNLANEHTTVILTGTPN 167 (208)
Q Consensus 127 ~~~Fd~vIIDEAsQ------a~Epe~liPL~~l~~~~~~vVLvGD~~ 167 (208)
.+.||.||+||..- ..|- -++-+....++.-.+||.|-..
T Consensus 95 ~~~~DlvVLDEi~~A~~~gli~~~-~v~~lL~~rp~~~evVlTGR~~ 140 (173)
T TIGR00708 95 DPELDLVLLDELTYALKYGYLDVE-EVVEALQERPGHQHVIITGRGC 140 (173)
T ss_pred cCCCCEEEehhhHHHHHCCCcCHH-HHHHHHHhCCCCCEEEEECCCC
Confidence 46799999999984 3333 3445553444556899999754
No 156
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=52.75 E-value=43 Score=33.56 Aligned_cols=39 Identities=5% Similarity=-0.061 Sum_probs=27.8
Q ss_pred hhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhh
Q 037641 21 TGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLK 59 (208)
Q Consensus 21 t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~ 59 (208)
.|+|++.++.-++....|..|-|+|||..=+..=.+.+.
T Consensus 104 EGKTLvA~l~a~l~al~G~~v~vvT~neyLA~Rd~e~~~ 142 (796)
T PRK12906 104 EGKTLTATLPVYLNALTGKGVHVVTVNEYLSSRDATEMG 142 (796)
T ss_pred CCCcHHHHHHHHHHHHcCCCeEEEeccHHHHHhhHHHHH
Confidence 458999888777777778999999997654444444333
No 157
>KOG0386 consensus Chromatin remodeling complex SWI/SNF, component SWI2 and related ATPases (DNA/RNA helicase superfamily) [Chromatin structure and dynamics; Transcription]
Probab=52.63 E-value=15 Score=37.56 Aligned_cols=62 Identities=16% Similarity=0.265 Sum_probs=44.2
Q ss_pred ccCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCCchhhhHHHhhccc---CCceEEEEcCCCC
Q 037641 105 MRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSATEPETMIALTNLAN---EHTTVILTGTPNN 168 (208)
Q Consensus 105 ~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~Epe~liPL~~l~~---~~~~vVLvGD~~Q 168 (208)
.+++|+++|.--..... ..+..-.|-++||||.-++.-.++=+... +.+ ...|++|.|-|-|
T Consensus 492 gKFnVLlTtyEyiikdk-~lLsKI~W~yMIIDEGHRmKNa~~KLt~~-L~t~y~~q~RLLLTGTPLQ 556 (1157)
T KOG0386|consen 492 GKFNVLLTTYEYIIKDK-ALLSKISWKYMIIDEGHRMKNAICKLTDT-LNTHYRAQRRLLLTGTPLQ 556 (1157)
T ss_pred ccceeeeeeHHHhcCCH-HHHhccCCcceeecccccccchhhHHHHH-hhccccchhhhhhcCChhh
Confidence 67899999976544311 11334579999999999999887755444 321 2478999999988
No 158
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=52.34 E-value=54 Score=34.40 Aligned_cols=134 Identities=13% Similarity=0.200 Sum_probs=69.7
Q ss_pred CCCCchhHHHHHH--HHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCC-eEEEec-cccCCCCCCchhhcccccc
Q 037641 16 DNLSKTGLVVREA--VLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSD-MFRANA-AFREVDGVPVDILPLCLYE 91 (208)
Q Consensus 16 ~~~~~t~~Tive~--i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~-i~Rv~~-~~r~~~~~~~~l~~~~~~~ 91 (208)
|+||||=.||+=+ +.+-+.. ..+.||+.|=.. +-+....+.... .-+ |+-.|+ .+|. .++.|.-+.
T Consensus 398 mgLgktvqti~fl~~l~~~~~~--~gpflvvvplst-~~~W~~ef~~w~-~mn~i~y~g~~~sr~------~i~~ye~~~ 467 (1373)
T KOG0384|consen 398 MGLGKTVQTITFLSYLFHSLQI--HGPFLVVVPLST-ITAWEREFETWT-DMNVIVYHGNLESRQ------LIRQYEFYH 467 (1373)
T ss_pred cCCCcchHHHHHHHHHHHhhhc--cCCeEEEeehhh-hHHHHHHHHHHh-hhceeeeecchhHHH------HHHHHHhee
Confidence 7899988776432 2222222 236777777322 223333333322 222 222333 1221 133343222
Q ss_pred CCCccCcchHHHhccCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCCc--hhhhHHHhhcccCCceEEEEcCCCC
Q 037641 92 GGECFQLPSLQELMRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSATE--PETMIALTNLANEHTTVILTGTPNN 168 (208)
Q Consensus 92 ~~~~~~~~~~~~l~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~E--pe~liPL~~l~~~~~~vVLvGD~~Q 168 (208)
..+ ..-.+.+++++|.-..-.-. ..+..-+|.+++||||-...- +..+-.|. ..+-..++.+.|-|-|
T Consensus 468 ~~~-------~~~lkf~~lltTye~~LkDk-~~L~~i~w~~~~vDeahrLkN~~~~l~~~l~-~f~~~~rllitgTPlQ 537 (1373)
T KOG0384|consen 468 SSN-------TKKLKFNALLTTYEIVLKDK-AELSKIPWRYLLVDEAHRLKNDESKLYESLN-QFKMNHRLLITGTPLQ 537 (1373)
T ss_pred cCC-------ccccccceeehhhHHHhccH-hhhccCCcceeeecHHhhcCchHHHHHHHHH-HhcccceeeecCCCcc
Confidence 111 11124678888876542110 112345799999999999874 44344444 2334678999999999
No 159
>TIGR02784 addA_alphas double-strand break repair helicase AddA, alphaproteobacterial type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the alphaproteobacteria (as modeled here) and the Firmicutes, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=52.27 E-value=25 Score=36.40 Aligned_cols=46 Identities=13% Similarity=0.197 Sum_probs=34.3
Q ss_pred CCCCchhHHHHHHHHHHHHc-CCCCeEEEECCChHHHHHHHHHhhhhC
Q 037641 16 DNLSKTGLVVREAVLEIYKR-SSKCRILVCAPINRTGDVLMRSLKKKI 62 (208)
Q Consensus 16 ~~~~~t~~Tive~i~ql~~~-~~~~rILV~A~SN~AvD~l~~rL~~~~ 62 (208)
-+-|||. ++++-++.++.. .+..+||+.+.||.|+.++-+|+.+.+
T Consensus 19 agsgkt~-~l~~~~~~~~~~~~~~~~i~~~t~t~~aa~em~~Ri~~~L 65 (1141)
T TIGR02784 19 AGSGKTH-VLTQRVIRLLLNGVPPSKILCLTYTKAAAAEMQNRVFDRL 65 (1141)
T ss_pred CCCCHHH-HHHHHHHHHHHcCCCCCeEEEEecCHHHHHHHHHHHHHHH
Confidence 3445554 477777766643 445799999999999999999988754
No 160
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=51.65 E-value=21 Score=37.08 Aligned_cols=41 Identities=24% Similarity=0.485 Sum_probs=29.2
Q ss_pred CCCcEEEEecCCCCCchhhhHHHhhcccC----CceEEEEcCCCCC
Q 037641 128 GHFSHIFLLDASSATEPETMIALTNLANE----HTTVILTGTPNNR 169 (208)
Q Consensus 128 ~~Fd~vIIDEAsQa~Epe~liPL~~l~~~----~~~vVLvGD~~QL 169 (208)
.+|+++.|||+ |=|-|.=+--+..+... ...++|||||||-
T Consensus 377 ~~~~~iLIDEf-QDT~~~Q~~Il~~l~~~~~~~~~~lF~VGD~KQS 421 (1139)
T COG1074 377 EQYPHILIDEF-QDTDPQQWRILSRLFAGFKAGNRTLFLVGDPKQS 421 (1139)
T ss_pred hcCCeEEeecc-ccCCHHHHHHHHHHHhcCCCCCCceEEecCchHH
Confidence 58999999998 55556544444444333 2589999999994
No 161
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=51.53 E-value=13 Score=33.03 Aligned_cols=49 Identities=12% Similarity=0.142 Sum_probs=34.8
Q ss_pred CCCcEEEEecCCCCCchhh--hHHHhhcccCCceEEEEcC-CCCCCcceech
Q 037641 128 GHFSHIFLLDASSATEPET--MIALTNLANEHTTVILTGT-PNNRTSWVRSD 176 (208)
Q Consensus 128 ~~Fd~vIIDEAsQa~Epe~--liPL~~l~~~~~~vVLvGD-~~QL~P~V~s~ 176 (208)
+.+.++|||||-.+++... |.-..-=++....|||+.+ +.+|.|+|.|.
T Consensus 112 g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSR 163 (319)
T PRK08769 112 GIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSR 163 (319)
T ss_pred CCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhh
Confidence 4688999999999997543 3332211223567999988 67899998876
No 162
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=50.37 E-value=1.8e+02 Score=27.83 Aligned_cols=94 Identities=21% Similarity=0.291 Sum_probs=60.6
Q ss_pred HHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEec-cccCCC-CCCchhhccccccCCCccCcchHH
Q 037641 25 VREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANA-AFREVD-GVPVDILPLCLYEGGECFQLPSLQ 102 (208)
Q Consensus 25 ive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~-~~r~~~-~~~~~l~~~~~~~~~~~~~~~~~~ 102 (208)
+-+++...+...++.||+|-++--..++.|+..|.+.-+... .|+-. .+|.-+ .+.. ..+++
T Consensus 353 l~eilke~~~k~~~~RvIVFT~yRdTae~i~~~L~~~~~~~~-~rFiGQa~r~~~~GMsQ---------------keQ~e 416 (542)
T COG1111 353 LREILKEQLEKNGDSRVIVFTEYRDTAEEIVNFLKKIGIKAR-VRFIGQASREGDKGMSQ---------------KEQKE 416 (542)
T ss_pred HHHHHHHHHhcCCCceEEEEehhHhHHHHHHHHHHhcCCcce-eEEeeccccccccccCH---------------HHHHH
Confidence 445666666666789999999999999999999987432222 35543 233211 1111 11122
Q ss_pred Hh-----ccCcEEEEcccccchhhcCCCCCCCCcEEEEecCC
Q 037641 103 EL-----MRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDAS 139 (208)
Q Consensus 103 ~l-----~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAs 139 (208)
.+ .+++|.++|..+ ..+++-+.-|.||+=|+.
T Consensus 417 iI~~Fr~Ge~nVLVaTSVg-----EEGLDIp~vDlVifYEpv 453 (542)
T COG1111 417 IIDQFRKGEYNVLVATSVG-----EEGLDIPEVDLVIFYEPV 453 (542)
T ss_pred HHHHHhcCCceEEEEcccc-----cccCCCCcccEEEEecCC
Confidence 22 358999999654 446666789999998887
No 163
>KOG0953 consensus Mitochondrial RNA helicase SUV3, DEAD-box superfamily [RNA processing and modification]
Probab=48.19 E-value=9.4 Score=36.67 Aligned_cols=76 Identities=21% Similarity=0.280 Sum_probs=48.1
Q ss_pred cCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCCchhh----hHHHhhcccCCceEEEEcCCCCCCcceechHHhhC
Q 037641 106 RFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSATEPET----MIALTNLANEHTTVILTGTPNNRTSWVRSDIARKN 181 (208)
Q Consensus 106 ~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~Epe~----liPL~~l~~~~~~vVLvGD~~QL~P~V~s~~a~~~ 181 (208)
.++.+.||.-+++ -...||+++|||.-++..|+- --+|.++ .++-+=|+|||--|+ .|++ .++..
T Consensus 259 ~a~hvScTVEM~s-------v~~~yeVAViDEIQmm~Dp~RGwAWTrALLGl--~AdEiHLCGepsvld-lV~~-i~k~T 327 (700)
T KOG0953|consen 259 PAQHVSCTVEMVS-------VNTPYEVAVIDEIQMMRDPSRGWAWTRALLGL--AADEIHLCGEPSVLD-LVRK-ILKMT 327 (700)
T ss_pred cccceEEEEEEee-------cCCceEEEEehhHHhhcCcccchHHHHHHHhh--hhhhhhccCCchHHH-HHHH-HHhhc
Confidence 4788888877655 234799999999999888863 1223333 247888999987765 3332 12222
Q ss_pred C--CCccHHHHHH
Q 037641 182 G--LRVSHFERLH 192 (208)
Q Consensus 182 g--l~~SLfeRL~ 192 (208)
| +.+-.+|||-
T Consensus 328 Gd~vev~~YeRl~ 340 (700)
T KOG0953|consen 328 GDDVEVREYERLS 340 (700)
T ss_pred CCeeEEEeecccC
Confidence 2 4555566653
No 164
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=47.66 E-value=33 Score=36.19 Aligned_cols=43 Identities=23% Similarity=0.360 Sum_probs=33.9
Q ss_pred CCCCCCcEEEEecCCCCCc--hhhhHHHhhcccCCceEEEEcCCCC
Q 037641 125 IPAGHFSHIFLLDASSATE--PETMIALTNLANEHTTVILTGTPNN 168 (208)
Q Consensus 125 ~~~~~Fd~vIIDEAsQa~E--pe~liPL~~l~~~~~~vVLvGD~~Q 168 (208)
|....|.++|+|||-...- ..-|-+|.++. ..+|+.|.|-|-|
T Consensus 733 FkrkrWqyLvLDEaqnIKnfksqrWQAllnfn-sqrRLLLtgTPLq 777 (1958)
T KOG0391|consen 733 FKRKRWQYLVLDEAQNIKNFKSQRWQALLNFN-SQRRLLLTGTPLQ 777 (1958)
T ss_pred HHhhccceeehhhhhhhcchhHHHHHHHhccc-hhheeeecCCchh
Confidence 4567899999999987654 44578888775 4689999999987
No 165
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=47.57 E-value=20 Score=29.51 Aligned_cols=40 Identities=18% Similarity=0.234 Sum_probs=27.8
Q ss_pred CCCCcEEEEecCCCCCc-----hhhhHHHhhcccCCceEEEEcCC
Q 037641 127 AGHFSHIFLLDASSATE-----PETMIALTNLANEHTTVILTGTP 166 (208)
Q Consensus 127 ~~~Fd~vIIDEAsQa~E-----pe~liPL~~l~~~~~~vVLvGD~ 166 (208)
.+.||.||+||..-|.. .+-++-+....+....+||.|-.
T Consensus 113 ~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evVlTGR~ 157 (191)
T PRK05986 113 DESYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVVITGRG 157 (191)
T ss_pred CCCCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEEEECCC
Confidence 46799999999987654 34455555344445689999973
No 166
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=47.57 E-value=72 Score=33.26 Aligned_cols=100 Identities=14% Similarity=0.190 Sum_probs=59.2
Q ss_pred CCCchhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCcc
Q 037641 17 NLSKTGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECF 96 (208)
Q Consensus 17 ~~~~t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~ 96 (208)
+-|||...+-.+....+ .|+.|-|..||--=+..-.+.+.+.+. +-.+|+..-+|..+. .+.+
T Consensus 625 GFGKTEVAmRAAFkAV~---~GKQVAvLVPTTlLA~QHy~tFkeRF~-~fPV~I~~LSRF~s~--kE~~----------- 687 (1139)
T COG1197 625 GFGKTEVAMRAAFKAVM---DGKQVAVLVPTTLLAQQHYETFKERFA-GFPVRIEVLSRFRSA--KEQK----------- 687 (1139)
T ss_pred CCcHHHHHHHHHHHHhc---CCCeEEEEcccHHhHHHHHHHHHHHhc-CCCeeEEEecccCCH--HHHH-----------
Confidence 34667665544444333 378999999999988888888887664 334677665553211 0000
Q ss_pred CcchHHHh--ccCcEEEEcccccchhhcCCCCCCCCcEEEEecCC
Q 037641 97 QLPSLQEL--MRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDAS 139 (208)
Q Consensus 97 ~~~~~~~l--~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAs 139 (208)
...+.+ ....||+.|- ++-+..+.....-.+||||=-
T Consensus 688 --~il~~la~G~vDIvIGTH----rLL~kdv~FkdLGLlIIDEEq 726 (1139)
T COG1197 688 --EILKGLAEGKVDIVIGTH----RLLSKDVKFKDLGLLIIDEEQ 726 (1139)
T ss_pred --HHHHHHhcCCccEEEech----HhhCCCcEEecCCeEEEechh
Confidence 011222 3468898883 333333434456789999954
No 167
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=46.07 E-value=77 Score=30.46 Aligned_cols=37 Identities=14% Similarity=0.050 Sum_probs=22.4
Q ss_pred hhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhh
Q 037641 21 TGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKK 60 (208)
Q Consensus 21 t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~ 60 (208)
.|+|++-.+-.++. +..+||.+|+..=+......+..
T Consensus 51 sGKTl~y~lpal~~---~g~tlVisPl~sL~~dqv~~l~~ 87 (607)
T PRK11057 51 GGKSLCYQIPALVL---DGLTLVVSPLISLMKDQVDQLLA 87 (607)
T ss_pred chHHHHHHHHHHHc---CCCEEEEecHHHHHHHHHHHHHH
Confidence 55777655444433 34688888877665555555543
No 168
>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=45.83 E-value=6.1 Score=31.28 Aligned_cols=41 Identities=10% Similarity=0.090 Sum_probs=23.9
Q ss_pred HHHhccCcEEEEcccccchhh---cC-CCCCCCCcEEEEecCCCCC
Q 037641 101 LQELMRFRVIFSTFTSSFRLH---NE-GIPAGHFSHIFLLDASSAT 142 (208)
Q Consensus 101 ~~~l~~~~Vv~~T~~~a~~l~---~~-~~~~~~Fd~vIIDEAsQa~ 142 (208)
++....++||+++.+-..... .. ++ ...-.+||||||-..-
T Consensus 114 r~~~~~adivi~~y~yl~~~~~~~~~~~~-~~~~~ivI~DEAHNL~ 158 (174)
T PF06733_consen 114 RELAKNADIVICNYNYLFDPSIRKSLFGI-DLKDNIVIFDEAHNLE 158 (174)
T ss_dssp HHCGGG-SEEEEETHHHHSHHHHHHHCT---CCCEEEEETTGGGCG
T ss_pred HHhcccCCEEEeCHHHHhhHHHHhhhccc-cccCcEEEEecccchH
Confidence 445778999999977322110 00 11 1245789999998653
No 169
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=44.93 E-value=20 Score=31.03 Aligned_cols=45 Identities=16% Similarity=0.149 Sum_probs=0.0
Q ss_pred CCccCcchHHHhccCcEEEEcccccchhh---cCCCCCCCCcEEEEecC
Q 037641 93 GECFQLPSLQELMRFRVIFSTFTSSFRLH---NEGIPAGHFSHIFLLDA 138 (208)
Q Consensus 93 ~~~~~~~~~~~l~~~~Vv~~T~~~a~~l~---~~~~~~~~Fd~vIIDEA 138 (208)
+.|+....++.+.+++||++.-+...... ..+... ..++||||||
T Consensus 198 ~~CpY~~~r~~~~~Adivi~ny~yll~~~~r~~~~~~l-~~~~lIiDEA 245 (289)
T smart00489 198 GGCPYFASRKAIEFANVVVLPYQYLLDPKIRQALSIEL-KDSIVIFDEA 245 (289)
T ss_pred CCChhHHHHHHhhcCCEEEECHHHHhcHHHHHHhcccc-cccEEEEeCc
No 170
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=44.93 E-value=20 Score=31.03 Aligned_cols=45 Identities=16% Similarity=0.149 Sum_probs=0.0
Q ss_pred CCccCcchHHHhccCcEEEEcccccchhh---cCCCCCCCCcEEEEecC
Q 037641 93 GECFQLPSLQELMRFRVIFSTFTSSFRLH---NEGIPAGHFSHIFLLDA 138 (208)
Q Consensus 93 ~~~~~~~~~~~l~~~~Vv~~T~~~a~~l~---~~~~~~~~Fd~vIIDEA 138 (208)
+.|+....++.+.+++||++.-+...... ..+... ..++||||||
T Consensus 198 ~~CpY~~~r~~~~~Adivi~ny~yll~~~~r~~~~~~l-~~~~lIiDEA 245 (289)
T smart00488 198 GGCPYFASRKAIEFANVVVLPYQYLLDPKIRQALSIEL-KDSIVIFDEA 245 (289)
T ss_pred CCChhHHHHHHhhcCCEEEECHHHHhcHHHHHHhcccc-cccEEEEeCc
No 171
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=44.28 E-value=35 Score=32.84 Aligned_cols=41 Identities=17% Similarity=0.284 Sum_probs=28.4
Q ss_pred CCCcEEEEecCCCCCchhhhHHHhhcccCCceEEEEcCCCCC
Q 037641 128 GHFSHIFLLDASSATEPETMIALTNLANEHTTVILTGTPNNR 169 (208)
Q Consensus 128 ~~Fd~vIIDEAsQa~Epe~liPL~~l~~~~~~vVLvGD~~QL 169 (208)
..|++|+|||.-... |.-.--+..++.....+..|||+.|-
T Consensus 212 ~rf~~iLvDE~QDtn-~~Q~~ll~~la~~~~~l~~VGD~dQs 252 (655)
T COG0210 212 ARFRYILVDEFQDTN-PLQYELLKLLAGNAANLFVVGDDDQS 252 (655)
T ss_pred hhCCEEEEeCcCCCC-HHHHHHHHHHhCCCCCEEEEcCCccc
Confidence 579999999986644 43333333344445788899999995
No 172
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=44.23 E-value=83 Score=30.09 Aligned_cols=43 Identities=14% Similarity=0.231 Sum_probs=27.4
Q ss_pred cCcEEEEcccccchhhc-----CCCCCCCCcEEEEecCCCCCchh--hhHHHh
Q 037641 106 RFRVIFSTFTSSFRLHN-----EGIPAGHFSHIFLLDASSATEPE--TMIALT 151 (208)
Q Consensus 106 ~~~Vv~~T~~~a~~l~~-----~~~~~~~Fd~vIIDEAsQa~Epe--~liPL~ 151 (208)
...|+++|- |++.+ ..|.-.+...+|||||-...... -|+|..
T Consensus 270 ~~DIlVaTP---GRLVDHl~~~k~f~Lk~LrfLVIDEADRll~qsfQ~Wl~~v 319 (620)
T KOG0350|consen 270 RIDILVATP---GRLVDHLNNTKSFDLKHLRFLVIDEADRLLDQSFQEWLDTV 319 (620)
T ss_pred ccceEEcCc---hHHHHhccCCCCcchhhceEEEechHHHHHHHHHHHHHHHH
Confidence 468999985 55432 12333466789999998866532 355544
No 173
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=44.03 E-value=16 Score=36.61 Aligned_cols=37 Identities=16% Similarity=0.183 Sum_probs=28.1
Q ss_pred chhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHH
Q 037641 20 KTGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRS 57 (208)
Q Consensus 20 ~t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~r 57 (208)
+||+|++=++--+... .+.+++|.+||..=.+.++.+
T Consensus 274 GtGKT~ayllp~l~~~-~~~~vvI~t~T~~Lq~Ql~~~ 310 (820)
T PRK07246 274 GIGKTYGYLLPLLAQS-DQRQIIVSVPTKILQDQIMAE 310 (820)
T ss_pred CCcHHHHHHHHHHHhc-CCCcEEEEeCcHHHHHHHHHH
Confidence 5888987766544433 468999999999998888644
No 174
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=43.73 E-value=81 Score=33.97 Aligned_cols=115 Identities=12% Similarity=0.158 Sum_probs=56.7
Q ss_pred chhHHHHHH---HHHHHHcC----------CCCeEEEECCChHHHHHHHHHhhhhCCCC--CeEEEeccccCCCCCCchh
Q 037641 20 KTGLVVREA---VLEIYKRS----------SKCRILVCAPINRTGDVLMRSLKKKIPKS--DMFRANAAFREVDGVPVDI 84 (208)
Q Consensus 20 ~t~~Tive~---i~ql~~~~----------~~~rILV~A~SN~AvD~l~~rL~~~~~~~--~i~Rv~~~~r~~~~~~~~l 84 (208)
.+|||++-. +.+++... ++.++|+.+|+..=+..+..+|...+.+. ..-|.+... . .+
T Consensus 6 GSGKTLAA~LpaL~~Ll~~~~~~~~~~~~~~~~raLYISPLKALa~Dv~~~L~~pl~~i~~~~~~~g~~~-----~--~i 78 (1490)
T PRK09751 6 GSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNLQIPLKGIADERRRRGETE-----V--NL 78 (1490)
T ss_pred CcHHHHHHHHHHHHHHHhcccccccccccCCCCEEEEEeChHHHHHHHHHHHHHHHHhhhhhhhhccccc-----C--ce
Confidence 467888754 34555431 25799999999887777777765321100 000111100 0 00
Q ss_pred hccccccCCCccCcchHHHh-ccCcEEEEcccccchhhcCCC--CCCCCcEEEEecCCCCCc
Q 037641 85 LPLCLYEGGECFQLPSLQEL-MRFRVIFSTFTSSFRLHNEGI--PAGHFSHIFLLDASSATE 143 (208)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~l-~~~~Vv~~T~~~a~~l~~~~~--~~~~Fd~vIIDEAsQa~E 143 (208)
.- ..+. ++.-.....+.+ +..+|+++|--+...+..... .-...++|||||+-...+
T Consensus 79 ~V-~vrt-GDt~~~eR~rll~~ppdILVTTPEsL~~LLtsk~r~~L~~Vr~VIVDE~H~L~g 138 (1490)
T PRK09751 79 RV-GIRT-GDTPAQERSKLTRNPPDILITTPESLYLMLTSRARETLRGVETVIIDEVHAVAG 138 (1490)
T ss_pred EE-EEEE-CCCCHHHHHHHhcCCCCEEEecHHHHHHHHhhhhhhhhccCCEEEEecHHHhcc
Confidence 00 0001 110000111223 357899999775433211111 124579999999977654
No 175
>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=41.76 E-value=1.2e+02 Score=28.96 Aligned_cols=37 Identities=16% Similarity=0.100 Sum_probs=21.9
Q ss_pred hhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhh
Q 037641 21 TGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKK 60 (208)
Q Consensus 21 t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~ 60 (208)
.|+|++-.+-.++. +..++|.+|+-.=+..-+.++..
T Consensus 39 ~GKTl~y~lpal~~---~g~~lVisPl~sL~~dq~~~l~~ 75 (591)
T TIGR01389 39 GGKSLCYQVPALLL---KGLTVVISPLISLMKDQVDQLRA 75 (591)
T ss_pred ccHhHHHHHHHHHc---CCcEEEEcCCHHHHHHHHHHHHH
Confidence 45777654443332 34677888887665555555554
No 176
>PF00265 TK: Thymidine kinase; InterPro: IPR001267 Thymidine kinase (TK) (2.7.1.21 from EC) is an ubiquitous enzyme that catalyzes the ATP-dependent phosphorylation of thymidine. Two different families of Thymidine kinase have been identified [, ] and are represented in this entry; one groups together Thymidine kinase from herpesviruses, as well as cytosolic thymidylate kinases and the second family groups Thymidine kinase from various sources that include, vertebrates, bacteria, the Bacteriophage T4, poxviruses, African swine fever virus (ASFV) and Fish lymphocystis disease virus (FLDV). The major capsid protein of insect iridescent viruses also belongs to this family.; GO: 0004797 thymidine kinase activity, 0005524 ATP binding; PDB: 1XX6_B 2J9R_A 2J87_B 3E2I_A 2JA1_A 2UZ3_B 2B8T_B 2WVJ_A 1W4R_F 1XBT_F ....
Probab=41.41 E-value=31 Score=27.74 Aligned_cols=34 Identities=24% Similarity=0.341 Sum_probs=21.4
Q ss_pred CCcEEEEecCCCCCchhhhHHHhhc-ccCCceEEEEc
Q 037641 129 HFSHIFLLDASSATEPETMIALTNL-ANEHTTVILTG 164 (208)
Q Consensus 129 ~Fd~vIIDEAsQa~Epe~liPL~~l-~~~~~~vVLvG 164 (208)
.+|+|+||||---. ++ +..+... ......|+..|
T Consensus 76 ~~dvI~IDEaQFf~-~~-i~~l~~~~~~~g~~Vi~~G 110 (176)
T PF00265_consen 76 DYDVIGIDEAQFFD-EQ-IVQLVEILANKGIPVICAG 110 (176)
T ss_dssp TCSEEEESSGGGST-TT-HHHHHHHHHHTT-EEEEEE
T ss_pred CCCEEEEechHhhH-HH-HHHHHHHHHhCCCeEEEEe
Confidence 39999999998776 33 3334322 23467777775
No 177
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=41.23 E-value=83 Score=30.79 Aligned_cols=104 Identities=12% Similarity=0.167 Sum_probs=55.6
Q ss_pred chhHHHHHHH---HHHHHcCCCCeEEEECC----ChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccC
Q 037641 20 KTGLVVREAV---LEIYKRSSKCRILVCAP----INRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEG 92 (208)
Q Consensus 20 ~t~~Tive~i---~ql~~~~~~~rILV~A~----SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~ 92 (208)
.+|+|++.=+ -.++.. +++.|...| -|.--+..-+|.. .++-..-+|||...-.-.+-| +.
T Consensus 242 asGKTLIgElAGi~~~l~~--g~KmlfLvPLVALANQKy~dF~~rYs-~LglkvairVG~srIk~~~~p--v~------- 309 (830)
T COG1202 242 ASGKTLIGELAGIPRLLSG--GKKMLFLVPLVALANQKYEDFKERYS-KLGLKVAIRVGMSRIKTREEP--VV------- 309 (830)
T ss_pred CCCcchHHHhhCcHHHHhC--CCeEEEEehhHHhhcchHHHHHHHhh-cccceEEEEechhhhcccCCc--cc-------
Confidence 4677777543 334442 566766555 3444444555553 233233367776311000000 00
Q ss_pred CCccCcchHHHhccCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCCc
Q 037641 93 GECFQLPSLQELMRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSATE 143 (208)
Q Consensus 93 ~~~~~~~~~~~l~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~E 143 (208)
...-.+|.||+.|.-+.-.+-..+-..+..-+|+|||.-...+
T Consensus 310 --------~~t~~dADIIVGTYEGiD~lLRtg~~lgdiGtVVIDEiHtL~d 352 (830)
T COG1202 310 --------VDTSPDADIIVGTYEGIDYLLRTGKDLGDIGTVVIDEIHTLED 352 (830)
T ss_pred --------cCCCCCCcEEEeechhHHHHHHcCCcccccceEEeeeeeeccc
Confidence 0112468999999988665432222345788999999988765
No 178
>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=40.87 E-value=37 Score=32.18 Aligned_cols=45 Identities=20% Similarity=0.351 Sum_probs=31.3
Q ss_pred CCCCcEEEEecCCCCCchhh-hHHHhhcc--cCCceEEEEcCCCCCCcceech
Q 037641 127 AGHFSHIFLLDASSATEPET-MIALTNLA--NEHTTVILTGTPNNRTSWVRSD 176 (208)
Q Consensus 127 ~~~Fd~vIIDEAsQa~Epe~-liPL~~l~--~~~~~vVLvGD~~QL~P~V~s~ 176 (208)
.+.||+|+||-||.+-.-+. +-+|..+. ++..+++++|. ..|-++
T Consensus 464 ~~gfDVvLiDTAGR~~~~~~lm~~l~k~~~~~~pd~i~~vge-----alvg~d 511 (587)
T KOG0781|consen 464 NQGFDVVLIDTAGRMHNNAPLMTSLAKLIKVNKPDLILFVGE-----ALVGND 511 (587)
T ss_pred hcCCCEEEEeccccccCChhHHHHHHHHHhcCCCceEEEehh-----hhhCcH
Confidence 35799999999999866433 44555443 36789999985 345555
No 179
>PF13173 AAA_14: AAA domain
Probab=40.83 E-value=36 Score=25.23 Aligned_cols=36 Identities=28% Similarity=0.342 Sum_probs=22.4
Q ss_pred CCcEEEEecCCCCCchhhhHHHhhcccC--CceEEEEcCC
Q 037641 129 HFSHIFLLDASSATEPETMIALTNLANE--HTTVILTGTP 166 (208)
Q Consensus 129 ~Fd~vIIDEAsQa~Epe~liPL~~l~~~--~~~vVLvGD~ 166 (208)
...+|||||+-.+.+-.. .+..+... ..++|+.|--
T Consensus 61 ~~~~i~iDEiq~~~~~~~--~lk~l~d~~~~~~ii~tgS~ 98 (128)
T PF13173_consen 61 GKKYIFIDEIQYLPDWED--ALKFLVDNGPNIKIILTGSS 98 (128)
T ss_pred CCcEEEEehhhhhccHHH--HHHHHHHhccCceEEEEccc
Confidence 467899999988854333 33323222 3578887743
No 180
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=39.87 E-value=31 Score=32.70 Aligned_cols=49 Identities=20% Similarity=0.270 Sum_probs=30.6
Q ss_pred CCCcEEEEecCCCCCchh--hhHHHhhcccCCceEEEEc-CCCCCCcceech
Q 037641 128 GHFSHIFLLDASSATEPE--TMIALTNLANEHTTVILTG-TPNNRTSWVRSD 176 (208)
Q Consensus 128 ~~Fd~vIIDEAsQa~Epe--~liPL~~l~~~~~~vVLvG-D~~QL~P~V~s~ 176 (208)
+.|.++|||||-.++... .|+-..--.+....+||+. |+..++|.|.|.
T Consensus 118 ~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~t~d~~kil~tI~SR 169 (527)
T PRK14969 118 GRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSR 169 (527)
T ss_pred CCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEEeCChhhCchhHHHH
Confidence 468899999998887532 2332221112335677776 777888777654
No 181
>PF15609 PRTase_2: Phosphoribosyl transferase
Probab=39.70 E-value=32 Score=28.36 Aligned_cols=32 Identities=13% Similarity=0.141 Sum_probs=28.5
Q ss_pred CCchhHHHHHHHHHHHHcCCCCeEEEECCChH
Q 037641 18 LSKTGLVVREAVLEIYKRSSKCRILVCAPINR 49 (208)
Q Consensus 18 ~~~t~~Tive~i~ql~~~~~~~rILV~A~SN~ 49 (208)
.-.||.|+.++|..+....|.+++-+++=.|.
T Consensus 130 EiSTG~T~lnli~al~~~~p~~~yvvasL~d~ 161 (191)
T PF15609_consen 130 EISTGNTFLNLIRALHAKYPRKRYVVASLLDW 161 (191)
T ss_pred CccchHHHHHHHHHHHHhCCCceEEEEEEeeC
Confidence 34699999999999999999999999998877
No 182
>TIGR02785 addA_Gpos recombination helicase AddA, Firmicutes type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the Firmicutes (as modeled here) and the alphaproteobacteria, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=39.30 E-value=42 Score=35.24 Aligned_cols=38 Identities=18% Similarity=0.250 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHcC-CCCeEEEECCChHHHHHHHHHhhhh
Q 037641 24 VVREAVLEIYKRS-SKCRILVCAPINRTGDVLMRSLKKK 61 (208)
Q Consensus 24 Tive~i~ql~~~~-~~~rILV~A~SN~AvD~l~~rL~~~ 61 (208)
++++-|.+++... +-.+|||.|.||.|+.++-+|+.+.
T Consensus 30 ~lv~r~~~~~~~~~~~~~il~~tFt~~aa~e~~~ri~~~ 68 (1232)
T TIGR02785 30 VLVERIIKKILRGVDIDRLLVVTFTNAAAREMKERIEEA 68 (1232)
T ss_pred HHHHHHHHHHhcCCCHhhEEEEeccHHHHHHHHHHHHHH
Confidence 4778777766532 2257999999999999988888753
No 183
>cd06533 Glyco_transf_WecG_TagA The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common antigen (eca) synthesis. B. subtilis TagA plays a key role in the Wall Teichoic Acid (WTA) biosynthetic pathway, catalyzing the transfer of N-acetylmannosamine to the C4 hydroxyl of a membrane-anchored N-acetylglucosaminyl diphospholipid to make ManNAc-beta-(1,4)-GlcNAc-pp-undecaprenyl. This is the first committed step in this pathway. Also included in this group is Xanthomonas campestris pv. campestris GumM, a glycosyltransferase participating in the biosynthesis of the exopolysaccharide xanthan.
Probab=39.16 E-value=1.1e+02 Score=24.15 Aligned_cols=48 Identities=17% Similarity=0.224 Sum_probs=39.9
Q ss_pred chhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeE
Q 037641 20 KTGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMF 68 (208)
Q Consensus 20 ~t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~ 68 (208)
-+|..+...+++.... ++.||-+...+...++.+.+++.+..++.+++
T Consensus 29 ~~g~dl~~~ll~~~~~-~~~~v~llG~~~~~~~~~~~~l~~~yp~l~i~ 76 (171)
T cd06533 29 VTGSDLMPALLELAAQ-KGLRVFLLGAKPEVLEKAAERLRARYPGLKIV 76 (171)
T ss_pred cCcHHHHHHHHHHHHH-cCCeEEEECCCHHHHHHHHHHHHHHCCCcEEE
Confidence 3678888888887765 37899999999999999999999877766665
No 184
>PF02572 CobA_CobO_BtuR: ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; InterPro: IPR003724 ATP:cob(I)alamin (or ATP:corrinoid) adenosyltransferases (2.5.1.17 from EC), catalyse the conversion of cobalamin (vitamin B12) into its coenzyme form, adenosylcobalamin (coenzyme B12) []. Adenosylcobalamin (AdoCbl) is required for the ativity of certain enzymes. AdoCbl contains an adenosyl moiety liganded to the cobalt ion of cobalamin via a covalent Co-C bond, and its synthesis is unique to certain prokaryotes. ATP:cob(I)alamin adenosyltransferases are classed into three groups: CobA-type [], EutT-type [] and PduO-type []. Each of the three enzyme types appears to be specialised for particular AdoCbl-dependent enzymes or for the de novo synthesis AdoCbl. PduO and EutT are distantly related, sharing short conserved motifs, while CobA is evolutionarily unrelated and is an example of convergent evolution. This entry represents the ATP:cob(I)alamin adenosyltransferases CobA (Salmonella typhimurium), CobO (Pseudomonas denitrificans), and ButR (Escherichia coli). There is a high degree of sequence identity between these proteins []. CobA is responsible for attaching the adenosyl moiety from ATP to the cobalt ion of the corrin ring, necessary for the convertion of cobalamin to adenosylcobalamin [, ]. ; GO: 0005524 ATP binding, 0008817 cob(I)yrinic acid a,c-diamide adenosyltransferase activity, 0009236 cobalamin biosynthetic process; PDB: 1G64_A 1G5T_A 1G5R_A.
Probab=38.71 E-value=47 Score=26.82 Aligned_cols=42 Identities=24% Similarity=0.368 Sum_probs=23.4
Q ss_pred CCCCCcEEEEecCCCCC-----chhhhHHHhhcccCCceEEEEcCCC
Q 037641 126 PAGHFSHIFLLDASSAT-----EPETMIALTNLANEHTTVILTGTPN 167 (208)
Q Consensus 126 ~~~~Fd~vIIDEAsQa~-----Epe~liPL~~l~~~~~~vVLvGD~~ 167 (208)
..+.||.||+||..-|. ..+-++-+....+....+||.|-..
T Consensus 93 ~~~~~dlvILDEi~~a~~~gll~~~~v~~~l~~rp~~~evVlTGR~~ 139 (172)
T PF02572_consen 93 SSGEYDLVILDEINYAVDYGLLSEEEVLDLLENRPESLEVVLTGRNA 139 (172)
T ss_dssp T-TT-SEEEEETHHHHHHTTSS-HHHHHHHHHTS-TT-EEEEE-SS-
T ss_pred hCCCCCEEEEcchHHHhHCCCccHHHHHHHHHcCCCCeEEEEECCCC
Confidence 34679999999986533 3344444443344567899998765
No 185
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=38.68 E-value=28 Score=34.13 Aligned_cols=54 Identities=11% Similarity=0.062 Sum_probs=0.0
Q ss_pred CCccCcchHHHhccCcEEEEcccccchhhcC----CCCCCCCcEEEEecCCCCCchhh
Q 037641 93 GECFQLPSLQELMRFRVIFSTFTSSFRLHNE----GIPAGHFSHIFLLDASSATEPET 146 (208)
Q Consensus 93 ~~~~~~~~~~~l~~~~Vv~~T~~~a~~l~~~----~~~~~~Fd~vIIDEAsQa~Epe~ 146 (208)
+.||.....+...+|+||++-=+--..-... .++...++++|||||-+..+...
T Consensus 206 ~~Cf~~~ar~~a~~AdivVtNH~LLladl~~~~~~iLp~~~~~~lViDEAH~L~d~A~ 263 (697)
T PRK11747 206 RECPFFKARREIDEADVVVANHDLVLADLELGGGVVLPDPENLLYVLDEGHHLPDVAR 263 (697)
T ss_pred ccChHHHHHHHHhhCCEEEECcHHHHhhhhccCCcccCCCCCCEEEEECccchHHHHH
No 186
>COG1444 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]
Probab=38.17 E-value=34 Score=34.04 Aligned_cols=61 Identities=15% Similarity=0.257 Sum_probs=0.0
Q ss_pred cEEEEecCCCCCchhhhHHHhhcccCCceEEEEcCCCCCCcceechHHhhCCCCccHHHHHHc-----------CCC--C
Q 037641 131 SHIFLLDASSATEPETMIALTNLANEHTTVILTGTPNNRTSWVRSDIARKNGLRVSHFERLHA-----------TKT--Y 197 (208)
Q Consensus 131 d~vIIDEAsQa~Epe~liPL~~l~~~~~~vVLvGD~~QL~P~V~s~~a~~~gl~~SLfeRL~~-----------~~~--y 197 (208)
|+++||||+-.--|-..--+. .-.+++++ -+|++-+--..||+.=+.++|-+ .+| |
T Consensus 325 DllvVDEAAaIplplL~~l~~----~~~rv~~s-------TTIhGYEGtGRgF~lkf~~~l~~~~~~~~~~~~l~ePIRy 393 (758)
T COG1444 325 DLLVVDEAAAIPLPLLHKLLR----RFPRVLFS-------TTIHGYEGTGRGFSLKFLARLRKQRDTTLHELELEEPIRY 393 (758)
T ss_pred CEEEEehhhcCChHHHHHHHh----hcCceEEE-------eeecccccCChHHHHHHHHHhcccccceEEEEeccCCccc
Q ss_pred CCCCC
Q 037641 198 SNFNP 202 (208)
Q Consensus 198 ~~~~~ 202 (208)
+..||
T Consensus 394 a~gDP 398 (758)
T COG1444 394 APGDP 398 (758)
T ss_pred CCCCc
No 187
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=37.80 E-value=36 Score=30.54 Aligned_cols=50 Identities=12% Similarity=0.102 Sum_probs=34.1
Q ss_pred CCCCcEEEEecCCCCCchhh--hHHHhhcccCCceEEEEcCC-CCCCcceech
Q 037641 127 AGHFSHIFLLDASSATEPET--MIALTNLANEHTTVILTGTP-NNRTSWVRSD 176 (208)
Q Consensus 127 ~~~Fd~vIIDEAsQa~Epe~--liPL~~l~~~~~~vVLvGD~-~QL~P~V~s~ 176 (208)
.+.+.++|||+|-.+++... |+-..-=+++...+||+... .+|.|+|.|.
T Consensus 130 ~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~SR 182 (342)
T PRK06964 130 RGGARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSR 182 (342)
T ss_pred cCCceEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHhc
Confidence 35689999999999997543 22222112245668888765 7899998875
No 188
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=37.41 E-value=27 Score=30.78 Aligned_cols=49 Identities=14% Similarity=0.106 Sum_probs=32.9
Q ss_pred CCCcEEEEecCCCCCchh--hhHHHhhcccCCceEEEEc-CCCCCCcceech
Q 037641 128 GHFSHIFLLDASSATEPE--TMIALTNLANEHTTVILTG-TPNNRTSWVRSD 176 (208)
Q Consensus 128 ~~Fd~vIIDEAsQa~Epe--~liPL~~l~~~~~~vVLvG-D~~QL~P~V~s~ 176 (208)
+.+.++|||||..++... .|....-=+++...+||+. ++.+|.|+|.|.
T Consensus 109 ~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~~~ll~TIrSR 160 (329)
T PRK08058 109 SNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENKHQILPTILSR 160 (329)
T ss_pred cCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCChHhCcHHHHhh
Confidence 467899999998888632 2333331122446677777 567899998766
No 189
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=36.97 E-value=64 Score=31.95 Aligned_cols=27 Identities=7% Similarity=0.048 Sum_probs=23.6
Q ss_pred CCCeEEEECCChHHHHHHHHHhhhhCC
Q 037641 37 SKCRILVCAPINRTGDVLMRSLKKKIP 63 (208)
Q Consensus 37 ~~~rILV~A~SN~AvD~l~~rL~~~~~ 63 (208)
.|++|-++-|--.|+--++.|+++.++
T Consensus 309 ~gk~IgcTQPRRVAAmSVAaRVA~EMg 335 (902)
T KOG0923|consen 309 GGKKIGCTQPRRVAAMSVAARVAEEMG 335 (902)
T ss_pred CCceEeecCcchHHHHHHHHHHHHHhC
Confidence 456799999999999999999998774
No 190
>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A ....
Probab=36.81 E-value=32 Score=27.03 Aligned_cols=49 Identities=24% Similarity=0.334 Sum_probs=30.1
Q ss_pred CCCcEEEEecCCCCCchhh--hHHHhhcccCCceEEEEcC-CCCCCcceech
Q 037641 128 GHFSHIFLLDASSATEPET--MIALTNLANEHTTVILTGT-PNNRTSWVRSD 176 (208)
Q Consensus 128 ~~Fd~vIIDEAsQa~Epe~--liPL~~l~~~~~~vVLvGD-~~QL~P~V~s~ 176 (208)
+.+.++|||||-.+++... |.-..-=++....+||+-+ +.++.|+|.|.
T Consensus 101 ~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~t~~~~~il~TI~SR 152 (162)
T PF13177_consen 101 GKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILITNNPSKILPTIRSR 152 (162)
T ss_dssp SSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEEES-GGGS-HHHHTT
T ss_pred CCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEEECChHHChHHHHhh
Confidence 4689999999999986432 2211111224567777665 56789988875
No 191
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=36.78 E-value=1.6e+02 Score=29.93 Aligned_cols=34 Identities=12% Similarity=0.105 Sum_probs=24.3
Q ss_pred CeEEEECCChHHHHHHHHHhhhhCCCCCeEEEec
Q 037641 39 CRILVCAPINRTGDVLMRSLKKKIPKSDMFRANA 72 (208)
Q Consensus 39 ~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~ 72 (208)
.+|..++.||..++.++..+-+--...++.=+|+
T Consensus 111 pkIyyaSRTHsQltQvvrElrrT~Y~vkmtVLgS 144 (945)
T KOG1132|consen 111 PKIYYASRTHSQLTQVVRELRRTGYRVKMTVLGS 144 (945)
T ss_pred ceEEEecchHHHHHHHHHHHhhcCCCCceEEeec
Confidence 5899999999999999998876222234443444
No 192
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=36.50 E-value=26 Score=34.43 Aligned_cols=49 Identities=24% Similarity=0.255 Sum_probs=32.4
Q ss_pred CCCCcEEEEecCCCCCchhhhHHHhhc---ccCCceEEEEc-CCCCCCcceech
Q 037641 127 AGHFSHIFLLDASSATEPETMIALTNL---ANEHTTVILTG-TPNNRTSWVRSD 176 (208)
Q Consensus 127 ~~~Fd~vIIDEAsQa~Epe~liPL~~l---~~~~~~vVLvG-D~~QL~P~V~s~ 176 (208)
.+.|.++||||+-+++.... =.|... ..+...|||+. |+.+|+|+|.|.
T Consensus 122 ~gr~KViIIDEah~Ls~~Aa-NALLKTLEEPP~~v~FILaTtep~kLlpTIrSR 174 (700)
T PRK12323 122 AGRFKVYMIDEVHMLTNHAF-NAMLKTLEEPPEHVKFILATTDPQKIPVTVLSR 174 (700)
T ss_pred cCCceEEEEEChHhcCHHHH-HHHHHhhccCCCCceEEEEeCChHhhhhHHHHH
Confidence 35789999999999885332 222211 11335677776 467889998876
No 193
>KOG2108 consensus 3'-5' DNA helicase [Replication, recombination and repair]
Probab=36.28 E-value=18 Score=36.15 Aligned_cols=38 Identities=24% Similarity=0.364 Sum_probs=27.8
Q ss_pred CCcEEEEecCCCCCchhhhHHHhhcccCCceEEEEcCCCCC
Q 037641 129 HFSHIFLLDASSATEPETMIALTNLANEHTTVILTGTPNNR 169 (208)
Q Consensus 129 ~Fd~vIIDEAsQa~Epe~liPL~~l~~~~~~vVLvGD~~QL 169 (208)
.||+||+||+.-++- ++.-|. ...+..+.+.+||..|=
T Consensus 441 ~~d~Ii~D~~~d~t~--c~~~li-~i~~~~~~~~~gd~~q~ 478 (853)
T KOG2108|consen 441 KFDYIILDEAQDCTP--CIQNLI-LIQKHNIKVFVGDFHQS 478 (853)
T ss_pred ccceeeehhhhcCch--HHHHHH-hhhhcccccccCchHhh
Confidence 699999999999885 333444 22245669999998874
No 194
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=35.90 E-value=33 Score=33.55 Aligned_cols=47 Identities=11% Similarity=0.133 Sum_probs=30.7
Q ss_pred CCCcEEEEecCCCCCchh--hhHHHhhcccCCceEEEEc---CCCCCCcceech
Q 037641 128 GHFSHIFLLDASSATEPE--TMIALTNLANEHTTVILTG---TPNNRTSWVRSD 176 (208)
Q Consensus 128 ~~Fd~vIIDEAsQa~Epe--~liPL~~l~~~~~~vVLvG---D~~QL~P~V~s~ 176 (208)
+.|.++|||||-+++... .|+... -...+++++++ |+..|+|+|.|.
T Consensus 118 g~~KV~IIDEah~Ls~~a~NALLKtL--EEPp~~v~FIL~Tt~~~kLl~TI~SR 169 (647)
T PRK07994 118 GRFKVYLIDEVHMLSRHSFNALLKTL--EEPPEHVKFLLATTDPQKLPVTILSR 169 (647)
T ss_pred CCCEEEEEechHhCCHHHHHHHHHHH--HcCCCCeEEEEecCCccccchHHHhh
Confidence 578999999999998632 233322 11224444444 778889888876
No 195
>PF03808 Glyco_tran_WecB: Glycosyl transferase WecB/TagA/CpsF family; InterPro: IPR004629 The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in Enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.; GO: 0009058 biosynthetic process
Probab=35.48 E-value=1.3e+02 Score=23.81 Aligned_cols=47 Identities=15% Similarity=0.176 Sum_probs=39.3
Q ss_pred hhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeE
Q 037641 21 TGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMF 68 (208)
Q Consensus 21 t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~ 68 (208)
+|..+...+++.... ++.||-+...+...++.+..+|.+..++.+++
T Consensus 32 ~g~dl~~~l~~~~~~-~~~~ifllG~~~~~~~~~~~~l~~~yP~l~iv 78 (172)
T PF03808_consen 32 TGSDLFPDLLRRAEQ-RGKRIFLLGGSEEVLEKAAANLRRRYPGLRIV 78 (172)
T ss_pred CHHHHHHHHHHHHHH-cCCeEEEEeCCHHHHHHHHHHHHHHCCCeEEE
Confidence 777888888886665 47899999999999999999999877766665
No 196
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=35.42 E-value=43 Score=33.11 Aligned_cols=49 Identities=18% Similarity=0.244 Sum_probs=30.9
Q ss_pred CCCcEEEEecCCCCCchhh--hHHHhhcccCCceEEEEc-CCCCCCcceech
Q 037641 128 GHFSHIFLLDASSATEPET--MIALTNLANEHTTVILTG-TPNNRTSWVRSD 176 (208)
Q Consensus 128 ~~Fd~vIIDEAsQa~Epe~--liPL~~l~~~~~~vVLvG-D~~QL~P~V~s~ 176 (208)
+.+.++||||+..++.... |+-..--......+||+. |+..+++.+.|.
T Consensus 118 gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fILaTtd~~kL~~TIrSR 169 (709)
T PRK08691 118 GKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPHKVPVTVLSR 169 (709)
T ss_pred CCcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEEEEeCCccccchHHHHH
Confidence 4678999999988775221 222221112345677765 888888887764
No 197
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=35.42 E-value=51 Score=29.55 Aligned_cols=50 Identities=24% Similarity=0.193 Sum_probs=32.7
Q ss_pred CCCCCcEEEEecCCCCCchhhhHHHhhcc---cCCceEEEEc-CCCCCCcceech
Q 037641 126 PAGHFSHIFLLDASSATEPETMIALTNLA---NEHTTVILTG-TPNNRTSWVRSD 176 (208)
Q Consensus 126 ~~~~Fd~vIIDEAsQa~Epe~liPL~~l~---~~~~~vVLvG-D~~QL~P~V~s~ 176 (208)
+...|.++|+|||--++ .+++-+|.+.. .+..+|+||= ..--+++.+.|.
T Consensus 126 ~~~~fKiiIlDEcdsmt-sdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi~SR 179 (346)
T KOG0989|consen 126 PCPPFKIIILDECDSMT-SDAQAALRRTMEDFSRTTRFILICNYLSRIIRPLVSR 179 (346)
T ss_pred CCCcceEEEEechhhhh-HHHHHHHHHHHhccccceEEEEEcCChhhCChHHHhh
Confidence 44579999999997766 67778877553 2456777763 333455444443
No 198
>PRK10113 cell division modulator; Provisional
Probab=35.24 E-value=27 Score=23.95 Aligned_cols=24 Identities=13% Similarity=0.086 Sum_probs=19.4
Q ss_pred CCceEEEEcCCCCCCcceechHHh
Q 037641 156 EHTTVILTGTPNNRTSWVRSDIAR 179 (208)
Q Consensus 156 ~~~~vVLvGD~~QL~P~V~s~~a~ 179 (208)
+---+||.||+++-.|...+.++.
T Consensus 42 KYVAFvl~ge~FrRSPaFs~PEsA 65 (80)
T PRK10113 42 KYVAFVLMGESFLRSPAFSVPESA 65 (80)
T ss_pred ceEEEEEechhhccCCccCCcHHH
Confidence 345689999999999998877643
No 199
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=35.23 E-value=35 Score=30.36 Aligned_cols=50 Identities=14% Similarity=0.145 Sum_probs=34.2
Q ss_pred CCCCcEEEEecCCCCCchhh--hHHHhhcccCCceEEEEcCC-CCCCcceech
Q 037641 127 AGHFSHIFLLDASSATEPET--MIALTNLANEHTTVILTGTP-NNRTSWVRSD 176 (208)
Q Consensus 127 ~~~Fd~vIIDEAsQa~Epe~--liPL~~l~~~~~~vVLvGD~-~QL~P~V~s~ 176 (208)
.+.+.++|||+|-.+++... |.-..-=+++...++|+.++ .+|.|+|.|.
T Consensus 105 ~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SR 157 (325)
T PRK06871 105 QGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSR 157 (325)
T ss_pred cCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhh
Confidence 35689999999999997543 22222112345778888874 5999999875
No 200
>PRK10689 transcription-repair coupling factor; Provisional
Probab=35.10 E-value=1.7e+02 Score=30.69 Aligned_cols=96 Identities=18% Similarity=0.162 Sum_probs=56.0
Q ss_pred HHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCCccCcchHHHh
Q 037641 25 VREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGECFQLPSLQEL 104 (208)
Q Consensus 25 ive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~~~~~~~~~~l 104 (208)
+.+.++.-+.+ +.+++|..++-..++.+.++|.+.+++..+..+... ++..-+.. ....+
T Consensus 798 ~k~~il~el~r--~gqv~vf~n~i~~ie~la~~L~~~~p~~~v~~lHG~------m~q~eRe~------------im~~F 857 (1147)
T PRK10689 798 VREAILREILR--GGQVYYLYNDVENIQKAAERLAELVPEARIAIGHGQ------MRERELER------------VMNDF 857 (1147)
T ss_pred HHHHHHHHHhc--CCeEEEEECCHHHHHHHHHHHHHhCCCCcEEEEeCC------CCHHHHHH------------HHHHH
Confidence 34555544443 457888889988899999888876554444333221 11111100 00111
Q ss_pred --ccCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCCchh
Q 037641 105 --MRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSATEPE 145 (208)
Q Consensus 105 --~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~Epe 145 (208)
.+.+|++||...+. +++-...++|||+.|-.-.-|.
T Consensus 858 r~Gk~~VLVaTdIier-----GIDIP~v~~VIi~~ad~fglaq 895 (1147)
T PRK10689 858 HHQRFNVLVCTTIIET-----GIDIPTANTIIIERADHFGLAQ 895 (1147)
T ss_pred HhcCCCEEEECchhhc-----ccccccCCEEEEecCCCCCHHH
Confidence 35789999966433 3444578999999887655454
No 201
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=34.86 E-value=41 Score=29.83 Aligned_cols=49 Identities=12% Similarity=0.201 Sum_probs=33.1
Q ss_pred CCCcEEEEecCCCCCchhh--hHHHhhcccCCceEEEEcC-CCCCCcceech
Q 037641 128 GHFSHIFLLDASSATEPET--MIALTNLANEHTTVILTGT-PNNRTSWVRSD 176 (208)
Q Consensus 128 ~~Fd~vIIDEAsQa~Epe~--liPL~~l~~~~~~vVLvGD-~~QL~P~V~s~ 176 (208)
+.+.++|||||-.+++... |+...-=++....+||+-+ +.+|.|+|.|.
T Consensus 105 ~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SR 156 (328)
T PRK05707 105 GGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSR 156 (328)
T ss_pred CCCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhh
Confidence 4688999999999997443 4433311223456676665 45899999876
No 202
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=33.94 E-value=38 Score=29.85 Aligned_cols=48 Identities=17% Similarity=0.221 Sum_probs=34.0
Q ss_pred CCCcEEEEecCCCCCchh--hhHHHhhcccCCceEEEEc-CCCCCCcceech
Q 037641 128 GHFSHIFLLDASSATEPE--TMIALTNLANEHTTVILTG-TPNNRTSWVRSD 176 (208)
Q Consensus 128 ~~Fd~vIIDEAsQa~Epe--~liPL~~l~~~~~~vVLvG-D~~QL~P~V~s~ 176 (208)
+.+.++|||||-.+++.. .|.-+.-=++ ...+||+. ++.+|.|+|.|.
T Consensus 123 ~~~kVvII~~ae~m~~~aaNaLLK~LEEPp-~~~fILi~~~~~~Ll~TI~SR 173 (314)
T PRK07399 123 APRKVVVIEDAETMNEAAANALLKTLEEPG-NGTLILIAPSPESLLPTIVSR 173 (314)
T ss_pred CCceEEEEEchhhcCHHHHHHHHHHHhCCC-CCeEEEEECChHhCcHHHHhh
Confidence 468999999999888743 2444432122 45788776 788999999876
No 203
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=33.60 E-value=65 Score=30.95 Aligned_cols=41 Identities=10% Similarity=0.109 Sum_probs=31.5
Q ss_pred chhHHHHHHHHHHHH-cCCCCeEEEECCChHHHHHHHHHhhh
Q 037641 20 KTGLVVREAVLEIYK-RSSKCRILVCAPINRTGDVLMRSLKK 60 (208)
Q Consensus 20 ~t~~Tive~i~ql~~-~~~~~rILV~A~SN~AvD~l~~rL~~ 60 (208)
+||+|+.-++--+.. ...+++|.|+++|+..-|.++++...
T Consensus 44 GtGKTl~yL~~al~~~~~~~~~viist~t~~lq~q~~~~~~~ 85 (654)
T COG1199 44 GTGKTLAYLLPALAYAREEGKKVIISTRTKALQEQLLEEDLP 85 (654)
T ss_pred CccHHHHHHHHHHHHHHHcCCcEEEECCCHHHHHHHHHhhcc
Confidence 488998876555443 22358999999999999999999765
No 204
>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=33.47 E-value=35 Score=34.18 Aligned_cols=38 Identities=11% Similarity=0.155 Sum_probs=26.9
Q ss_pred chhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHH
Q 037641 20 KTGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRS 57 (208)
Q Consensus 20 ~t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~r 57 (208)
+||||++=++--+.....+++|+|++||..=.+.++.+
T Consensus 274 G~GKT~ayLlp~~~~~~~~~~vvi~t~t~~Lq~Ql~~~ 311 (850)
T TIGR01407 274 GTGKTLGYLLPALYYAITEKPVVISTNTKVLQSQLLEK 311 (850)
T ss_pred CCchhHHHHHHHHHHhcCCCeEEEEeCcHHHHHHHHHH
Confidence 47788876554443332577999999999977777664
No 205
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=33.39 E-value=35 Score=30.77 Aligned_cols=44 Identities=23% Similarity=0.276 Sum_probs=28.2
Q ss_pred cEEEEecCCCCCchhhhH-HHhhcccCCceEEEEcCCCCC--Ccceech
Q 037641 131 SHIFLLDASSATEPETMI-ALTNLANEHTTVILTGTPNNR--TSWVRSD 176 (208)
Q Consensus 131 d~vIIDEAsQa~Epe~li-PL~~l~~~~~~vVLvGD~~QL--~P~V~s~ 176 (208)
-.||+|||-- +-++-+= =|.++ .-..+.|..||+.|+ |+.++|.
T Consensus 245 AfVIlDEaQN-tT~~QmKMfLTRi-Gf~skmvItGD~tQiDLp~~vkSG 291 (348)
T COG1702 245 AFVILDEAQN-TTVGQMKMFLTRI-GFESKMVITGDITQIDLPRGVKSG 291 (348)
T ss_pred eEEEEecccc-cchhhhceeeeee-cCCceEEEEcCcccccCCCccccc
Confidence 3599999966 4333210 01111 135899999999996 7778766
No 206
>KOG4284 consensus DEAD box protein [Transcription]
Probab=32.61 E-value=27 Score=34.43 Aligned_cols=46 Identities=22% Similarity=0.265 Sum_probs=33.9
Q ss_pred HHHhccCcEEEEcccccchhhcCC-CCCCCCcEEEEecCCCCCchhh
Q 037641 101 LQELMRFRVIFSTFTSSFRLHNEG-IPAGHFSHIFLLDASSATEPET 146 (208)
Q Consensus 101 ~~~l~~~~Vv~~T~~~a~~l~~~~-~~~~~Fd~vIIDEAsQa~Epe~ 146 (208)
+..+++++||+.|-.-...+...+ +..++.+..|+|||-|..+-++
T Consensus 138 ~~rlk~~rIvIGtPGRi~qL~el~~~n~s~vrlfVLDEADkL~~t~s 184 (980)
T KOG4284|consen 138 LIRLKQTRIVIGTPGRIAQLVELGAMNMSHVRLFVLDEADKLMDTES 184 (980)
T ss_pred hhhhhhceEEecCchHHHHHHHhcCCCccceeEEEeccHHhhhchhh
Confidence 455788999999976555554433 3446789999999999988554
No 207
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=32.43 E-value=37 Score=32.95 Aligned_cols=48 Identities=19% Similarity=0.210 Sum_probs=31.3
Q ss_pred CCCcEEEEecCCCCCchhhhHHHhhcc---cCCceEEEE-cCCCCCCcceech
Q 037641 128 GHFSHIFLLDASSATEPETMIALTNLA---NEHTTVILT-GTPNNRTSWVRSD 176 (208)
Q Consensus 128 ~~Fd~vIIDEAsQa~Epe~liPL~~l~---~~~~~vVLv-GD~~QL~P~V~s~ 176 (208)
+.|.++||||+-+++... .=.|.... .....+||+ +|+..++|.+.|.
T Consensus 123 g~~KV~IIDEvh~Ls~~a-~NaLLKtLEEPP~~~~fIL~Ttd~~kil~TIlSR 174 (618)
T PRK14951 123 GRFKVFMIDEVHMLTNTA-FNAMLKTLEEPPEYLKFVLATTDPQKVPVTVLSR 174 (618)
T ss_pred CCceEEEEEChhhCCHHH-HHHHHHhcccCCCCeEEEEEECCchhhhHHHHHh
Confidence 579999999999988533 22222111 123456665 5888998887764
No 208
>COG0279 GmhA Phosphoheptose isomerase [Carbohydrate transport and metabolism]
Probab=32.01 E-value=64 Score=26.23 Aligned_cols=35 Identities=11% Similarity=0.177 Sum_probs=26.5
Q ss_pred CCCCchhHHHHHHHHHHHHcCCCCeEEEECCChHHHH
Q 037641 16 DNLSKTGLVVREAVLEIYKRSSKCRILVCAPINRTGD 52 (208)
Q Consensus 16 ~~~~~t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD 52 (208)
..+...-.-+++.|.|.++. +.|||+|...-.|+|
T Consensus 21 ~~l~~~I~~aa~~i~~~l~~--G~Kvl~cGNGgSaad 55 (176)
T COG0279 21 EALIEAIERAAQLLVQSLLN--GNKVLACGNGGSAAD 55 (176)
T ss_pred HHhHHHHHHHHHHHHHHHHc--CCEEEEECCCcchhh
Confidence 44444555677778888876 789999999888877
No 209
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=31.23 E-value=84 Score=30.71 Aligned_cols=132 Identities=17% Similarity=0.203 Sum_probs=67.6
Q ss_pred cCCCCchhHHHHHHHHHHHHcCC--CCeEEEECCChHHHHHHHHHhhhhCCCCC-e-EEEeccccCCCCCCchhhccccc
Q 037641 15 SDNLSKTGLVVREAVLEIYKRSS--KCRILVCAPINRTGDVLMRSLKKKIPKSD-M-FRANAAFREVDGVPVDILPLCLY 90 (208)
Q Consensus 15 ~~~~~~t~~Tive~i~ql~~~~~--~~rILV~A~SN~AvD~l~~rL~~~~~~~~-i-~Rv~~~~r~~~~~~~~l~~~~~~ 90 (208)
.|+||||=.|++-+.. ++...+ ..+.||.+|+.. +.++...+.+..+... + ...|.... ...
T Consensus 366 ~mglGKTiq~i~~l~~-~~~~~~~~~~~~liv~p~s~-~~nw~~e~~k~~~~~~~~~~~~g~~~~----~~~-------- 431 (866)
T COG0553 366 DMGLGKTVQTIALLLS-LLESIKVYLGPALIVVPASL-LSNWKREFEKFAPDLRLVLVYHGEKSE----LDK-------- 431 (866)
T ss_pred cccchhHHHHHHHHHh-hhhcccCCCCCeEEEecHHH-HHHHHHHHhhhCccccceeeeeCCccc----ccH--------
Confidence 4778888777765554 333222 358999999755 3444444443332222 1 11111100 000
Q ss_pred cCCCccCcchHHHhc------cCcEEEEcccccchh--hcCCCCCCCCcEEEEecCCCCCchhhhHHHhh-cccCCceEE
Q 037641 91 EGGECFQLPSLQELM------RFRVIFSTFTSSFRL--HNEGIPAGHFSHIFLLDASSATEPETMIALTN-LANEHTTVI 161 (208)
Q Consensus 91 ~~~~~~~~~~~~~l~------~~~Vv~~T~~~a~~l--~~~~~~~~~Fd~vIIDEAsQa~Epe~liPL~~-l~~~~~~vV 161 (208)
.......+. ...|+++|....... ....+....|+.+|+|||-...-..+-..... .....-++.
T Consensus 432 ------~~~~~~~~~~~~~~~~~~v~itty~~l~~~~~~~~~l~~~~~~~~v~DEa~~ikn~~s~~~~~l~~~~~~~~~~ 505 (866)
T COG0553 432 ------KREALRDLLKLHLVIIFDVVITTYELLRRFLVDHGGLKKIEWDRVVLDEAHRIKNDQSSEGKALQFLKALNRLD 505 (866)
T ss_pred ------HHHHHHHHhhhcccceeeEEechHHHHHHhhhhHHHHhhceeeeeehhhHHHHhhhhhHHHHHHHHHhhcceee
Confidence 000111111 257777777654431 12234456799999999987555444333220 112346799
Q ss_pred EEcCC
Q 037641 162 LTGTP 166 (208)
Q Consensus 162 LvGD~ 166 (208)
|-|.|
T Consensus 506 LtgTP 510 (866)
T COG0553 506 LTGTP 510 (866)
T ss_pred CCCCh
Confidence 99999
No 210
>PLN03025 replication factor C subunit; Provisional
Probab=31.14 E-value=54 Score=28.54 Aligned_cols=38 Identities=8% Similarity=0.141 Sum_probs=26.6
Q ss_pred HHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhC
Q 037641 25 VREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKI 62 (208)
Q Consensus 25 ive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~ 62 (208)
+++.+.++........+|+++|.-.---.++..+.+.+
T Consensus 21 ~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l 58 (319)
T PLN03025 21 AVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHEL 58 (319)
T ss_pred HHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence 45666666665444568999998887777777777654
No 211
>PRK05917 DNA polymerase III subunit delta'; Validated
Probab=31.11 E-value=50 Score=28.96 Aligned_cols=49 Identities=16% Similarity=0.230 Sum_probs=33.7
Q ss_pred CCCcEEEEecCCCCCchhh--hHHHhhcccCCceEEEEcCC-CCCCcceech
Q 037641 128 GHFSHIFLLDASSATEPET--MIALTNLANEHTTVILTGTP-NNRTSWVRSD 176 (208)
Q Consensus 128 ~~Fd~vIIDEAsQa~Epe~--liPL~~l~~~~~~vVLvGD~-~QL~P~V~s~ 176 (208)
+.+.++|||+|-.+++... |.-+.-=+++...++|+.+. .+|.|+|.|.
T Consensus 94 ~~~kv~ii~~ad~mt~~AaNaLLK~LEEPp~~~~fiL~~~~~~~ll~TI~SR 145 (290)
T PRK05917 94 SPYKIYIIHEADRMTLDAISAFLKVLEDPPQHGVIILTSAKPQRLPPTIRSR 145 (290)
T ss_pred CCceEEEEechhhcCHHHHHHHHHHhhcCCCCeEEEEEeCChhhCcHHHHhc
Confidence 5789999999999986432 22222112345778888887 7889998765
No 212
>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=30.96 E-value=83 Score=31.58 Aligned_cols=44 Identities=9% Similarity=0.161 Sum_probs=25.4
Q ss_pred hHHHhccCcEEEEcccccc-hhhcCCCCCCCCcEEEEecCCCCCc
Q 037641 100 SLQELMRFRVIFSTFTSSF-RLHNEGIPAGHFSHIFLLDASSATE 143 (208)
Q Consensus 100 ~~~~l~~~~Vv~~T~~~a~-~l~~~~~~~~~Fd~vIIDEAsQa~E 143 (208)
.++....++||+|.-+-.. .+.....-...++++|||||-+..+
T Consensus 410 ar~~a~~AdivItNHa~L~~~~~~~~~ilp~~~~lIiDEAH~L~d 454 (850)
T TIGR01407 410 AQKNAEQAQILITNHAYLITRLVDNPELFPSFRDLIIDEAHHLPD 454 (850)
T ss_pred HHHHHhcCCEEEecHHHHHHHhhcccccCCCCCEEEEECcchHHH
Confidence 3456788999998543111 1101100013468999999998643
No 213
>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=30.80 E-value=50 Score=31.58 Aligned_cols=105 Identities=11% Similarity=0.094 Sum_probs=55.5
Q ss_pred CCCCchhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHH-HHhhhhCCCCCeEEEeccccCCCCCCchhhccccccCCC
Q 037641 16 DNLSKTGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLM-RSLKKKIPKSDMFRANAAFREVDGVPVDILPLCLYEGGE 94 (208)
Q Consensus 16 ~~~~~t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~-~rL~~~~~~~~i~Rv~~~~r~~~~~~~~l~~~~~~~~~~ 94 (208)
-++|||. .+..++...+...| ..+|++-||..+++... .||...+.....+| +. +.+.-.. ..++
T Consensus 42 aQ~GkT~-~~~n~~g~~i~~~P-~~~l~v~Pt~~~a~~~~~~rl~Pmi~~sp~l~-----~~---~~~~~~~----~~~~ 107 (557)
T PF05876_consen 42 AQVGKTE-LLLNWIGYSIDQDP-GPMLYVQPTDDAAKDFSKERLDPMIRASPVLR-----RK---LSPSKSR----DSGN 107 (557)
T ss_pred chhhHhH-HHHhhceEEEEeCC-CCEEEEEEcHHHHHHHHHHHHHHHHHhCHHHH-----HH---hCchhhc----ccCC
Confidence 3556665 34445555555655 69999999999998877 56665443221111 00 0000000 0000
Q ss_pred ccCcchHHHhccCcEEEEcccccchhhcCCCCCCCCcEEEEecCCCCC
Q 037641 95 CFQLPSLQELMRFRVIFSTFTSSFRLHNEGIPAGHFSHIFLLDASSAT 142 (208)
Q Consensus 95 ~~~~~~~~~l~~~~Vv~~T~~~a~~l~~~~~~~~~Fd~vIIDEAsQa~ 142 (208)
. ...+.+....+.+....+.+. +.....++++.||.....
T Consensus 108 t---~~~k~f~gg~l~~~ga~S~~~-----l~s~~~r~~~~DEvD~~p 147 (557)
T PF05876_consen 108 T---ILYKRFPGGFLYLVGANSPSN-----LRSRPARYLLLDEVDRYP 147 (557)
T ss_pred c---hhheecCCCEEEEEeCCCCcc-----cccCCcCEEEEechhhcc
Confidence 0 001122334566665555543 344578999999998773
No 214
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=30.74 E-value=1.7e+02 Score=29.99 Aligned_cols=37 Identities=14% Similarity=0.037 Sum_probs=27.2
Q ss_pred hhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhh
Q 037641 21 TGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKK 61 (208)
Q Consensus 21 t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~ 61 (208)
.|+|++.++--.+.+..|+.|-|.+.+ |-|+.|=.+.
T Consensus 109 EGKTL~atlpaylnAL~GkgVhVVTvN----dYLA~RDae~ 145 (939)
T PRK12902 109 EGKTLVATLPSYLNALTGKGVHVVTVN----DYLARRDAEW 145 (939)
T ss_pred CChhHHHHHHHHHHhhcCCCeEEEeCC----HHHHHhHHHH
Confidence 458998877777777778899999885 5666665543
No 215
>PF03823 Neurokinin_B: Neurokinin B; InterPro: IPR003635 Tachykinins [, , ] are a group of biologically active peptides which excite neurons, evoke behavioral responses, are potent vasodilatators and contract (directly or indirectly) many smooth muscles. This family includes neurokinins, as well as many other peptides. Like other tachykinins, neurokinins are synthesized as larger protein precursors that are enzymatically converted to their mature forms.; GO: 0007217 tachykinin receptor signaling pathway
Probab=30.36 E-value=26 Score=23.15 Aligned_cols=13 Identities=31% Similarity=0.370 Sum_probs=8.8
Q ss_pred CCccHHHHHHcCC
Q 037641 183 LRVSHFERLHATK 195 (208)
Q Consensus 183 l~~SLfeRL~~~~ 195 (208)
+..||+.||++..
T Consensus 46 LPpslLRRLydsr 58 (59)
T PF03823_consen 46 LPPSLLRRLYDSR 58 (59)
T ss_pred CCHHHHHHHHhcc
Confidence 3447888888753
No 216
>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=30.17 E-value=95 Score=30.35 Aligned_cols=39 Identities=15% Similarity=0.159 Sum_probs=28.2
Q ss_pred chhHHHHHHHHHHH--HcCCCCeEEEECCChHHHHHHHHHh
Q 037641 20 KTGLVVREAVLEIY--KRSSKCRILVCAPINRTGDVLMRSL 58 (208)
Q Consensus 20 ~t~~Tive~i~ql~--~~~~~~rILV~A~SN~AvD~l~~rL 58 (208)
+||||++=++--+. ...++.||+|++||..=.+.+...+
T Consensus 26 GtGKTlAYLlpal~~~~~~~~~rvlIstpT~~Lq~Ql~~~l 66 (636)
T TIGR03117 26 GVGKTLAMIMAALTMLKERPDQKIAIAVPTLALMGQLWSEL 66 (636)
T ss_pred CCcHHHHHHHHHHHHHHhccCceEEEECCcHHHHHHHHHHH
Confidence 47888876554332 2224789999999999999988744
No 217
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=29.74 E-value=46 Score=29.74 Aligned_cols=49 Identities=10% Similarity=0.141 Sum_probs=29.0
Q ss_pred CCCcEEEEecCCCCCch--hhhHHHhhcccCCceEEEEc-CCCCCCcceech
Q 037641 128 GHFSHIFLLDASSATEP--ETMIALTNLANEHTTVILTG-TPNNRTSWVRSD 176 (208)
Q Consensus 128 ~~Fd~vIIDEAsQa~Ep--e~liPL~~l~~~~~~vVLvG-D~~QL~P~V~s~ 176 (208)
+.+.++|||||-.++.. +.|+...--.+...++|+++ |+.+++|.+.|.
T Consensus 118 ~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~~l~~tI~SR 169 (363)
T PRK14961 118 SRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIPKTILSR 169 (363)
T ss_pred CCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCChHhhhHHHHhh
Confidence 45789999999888753 23433331112234567665 456787766543
No 218
>TIGR02802 Pal_lipo peptidoglycan-associated lipoprotein. Members of this protein are Pal (also called OprL), the Peptidoglycan-Associated Lipoprotein of the Tol-Pal system. The system appears to be involved both in the maintenance of outer membrane integrity and in the import of certain organic molecules as nutrients. Members of this family contain a hydrodrophobic lipoprotein signal sequence, a conserved N-terminal cleavage and modification site, a poorly conserved low-complexity region, together comprising about 65 amino acids, and a well-conserved C-terminal domain. The seed alignment for this model includes only the conserved C-terminal domain.
Probab=29.57 E-value=64 Score=22.97 Aligned_cols=37 Identities=14% Similarity=0.223 Sum_probs=28.9
Q ss_pred cccCCCCchhHHHHHHHHHHHHcCCCCeEEEECCChH
Q 037641 13 NNSDNLSKTGLVVREAVLEIYKRSSKCRILVCAPINR 49 (208)
Q Consensus 13 ~~~~~~~~t~~Tive~i~ql~~~~~~~rILV~A~SN~ 49 (208)
..+..|.+.+.-....+.++++..|+..|.|.++|..
T Consensus 6 ~~s~~l~~~~~~~L~~~a~~l~~~~~~~i~I~Ghtd~ 42 (104)
T TIGR02802 6 FDSSDLKSEAQAILDAHAAYLKKNPSVRVTIEGHTDE 42 (104)
T ss_pred CCccccCHHHHHHHHHHHHHHHHCCCcEEEEEEecCC
Confidence 3445677777777777888888888889999999854
No 219
>COG4889 Predicted helicase [General function prediction only]
Probab=29.44 E-value=37 Score=34.79 Aligned_cols=37 Identities=27% Similarity=0.347 Sum_probs=26.3
Q ss_pred cCcEEEEcccccchhhcC-CCCCCCCcEEEEecCCCCC
Q 037641 106 RFRVIFSTFTSSFRLHNE-GIPAGHFSHIFLLDASSAT 142 (208)
Q Consensus 106 ~~~Vv~~T~~~a~~l~~~-~~~~~~Fd~vIIDEAsQa~ 142 (208)
.--||+||..+..+.... ......||.||-|||-..+
T Consensus 280 ~~~vvFsTYQSl~~i~eAQe~G~~~fDliicDEAHRTt 317 (1518)
T COG4889 280 GLTVVFSTYQSLPRIKEAQEAGLDEFDLIICDEAHRTT 317 (1518)
T ss_pred CcEEEEEcccchHHHHHHHHcCCCCccEEEecchhccc
Confidence 345999999987654321 1123579999999999876
No 220
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=29.34 E-value=54 Score=28.78 Aligned_cols=107 Identities=15% Similarity=0.174 Sum_probs=58.5
Q ss_pred CCCCchhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHH---hhhhCCCCCeEEE-eccccCCCCCCchhhcccccc
Q 037641 16 DNLSKTGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRS---LKKKIPKSDMFRA-NAAFREVDGVPVDILPLCLYE 91 (208)
Q Consensus 16 ~~~~~t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~r---L~~~~~~~~i~Rv-~~~~r~~~~~~~~l~~~~~~~ 91 (208)
.+.|||..-+.....|+--......|||.++|..-+-.|... ..+++|..++--+ |.-.. +
T Consensus 88 sgmgktavfvl~tlqqiepv~g~vsvlvmchtrelafqi~~ey~rfskymP~vkvaVFfGG~~I---------k------ 152 (387)
T KOG0329|consen 88 SGMGKTAVFVLATLQQIEPVDGQVSVLVMCHTRELAFQISKEYERFSKYMPSVKVSVFFGGLFI---------K------ 152 (387)
T ss_pred cCCCceeeeehhhhhhcCCCCCeEEEEEEeccHHHHHHHHHHHHHHHhhCCCceEEEEEcceec---------c------
Confidence 356777654444444444333357899999998877776544 4455654432211 11100 0
Q ss_pred CCCccCcchHHHhccC-cEEEEcccccchhh-cCCCCCCCCcEEEEecCCCCCch
Q 037641 92 GGECFQLPSLQELMRF-RVIFSTFTSSFRLH-NEGIPAGHFSHIFLLDASSATEP 144 (208)
Q Consensus 92 ~~~~~~~~~~~~l~~~-~Vv~~T~~~a~~l~-~~~~~~~~Fd~vIIDEAsQa~Ep 144 (208)
...+.++++ .||+.|-.-...+. +..+.-.+..+.++|||..+.|-
T Consensus 153 -------kdee~lk~~PhivVgTPGrilALvr~k~l~lk~vkhFvlDEcdkmle~ 200 (387)
T KOG0329|consen 153 -------KDEELLKNCPHIVVGTPGRILALVRNRSLNLKNVKHFVLDECDKMLEQ 200 (387)
T ss_pred -------ccHHHHhCCCeEEEcCcHHHHHHHHhccCchhhcceeehhhHHHHHHH
Confidence 112233333 57777754322222 22334456788999999987764
No 221
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=28.99 E-value=62 Score=30.92 Aligned_cols=49 Identities=14% Similarity=0.156 Sum_probs=30.8
Q ss_pred CCCcEEEEecCCCCCchh--hhHHHhhcccCCceEEEEcC-CCCCCcceech
Q 037641 128 GHFSHIFLLDASSATEPE--TMIALTNLANEHTTVILTGT-PNNRTSWVRSD 176 (208)
Q Consensus 128 ~~Fd~vIIDEAsQa~Epe--~liPL~~l~~~~~~vVLvGD-~~QL~P~V~s~ 176 (208)
+.+.++|||||..++... .|....--.++...+||++. +..|+|.+.|.
T Consensus 116 ~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL~ttd~~kL~~tI~SR 167 (535)
T PRK08451 116 ARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATTDPLKLPATILSR 167 (535)
T ss_pred CCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEEEECChhhCchHHHhh
Confidence 468899999998887532 23322211123456777764 56888887765
No 222
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=28.60 E-value=2.8e+02 Score=29.05 Aligned_cols=43 Identities=9% Similarity=0.033 Sum_probs=25.6
Q ss_pred HHHhccCcEEEEcccccc---hhhc--CCCCCCCCcEEEEecCCCCCch
Q 037641 101 LQELMRFRVIFSTFTSSF---RLHN--EGIPAGHFSHIFLLDASSATEP 144 (208)
Q Consensus 101 ~~~l~~~~Vv~~T~~~a~---~l~~--~~~~~~~Fd~vIIDEAsQa~Ep 144 (208)
+.++.+++||++|---.- +... ..+ .+....|||||.-..-|+
T Consensus 206 ~tei~~tqiiVTTPEKwDvvTRk~~~d~~l-~~~V~LviIDEVHlLhd~ 253 (1230)
T KOG0952|consen 206 KTEIADTQIIVTTPEKWDVVTRKSVGDSAL-FSLVRLVIIDEVHLLHDD 253 (1230)
T ss_pred HHHHHhcCEEEecccceeeeeeeeccchhh-hhheeeEEeeeehhhcCc
Confidence 345888999999965321 1000 001 123578999999876654
No 223
>smart00577 CPDc catalytic domain of ctd-like phosphatases.
Probab=28.58 E-value=80 Score=24.15 Aligned_cols=61 Identities=13% Similarity=0.044 Sum_probs=36.5
Q ss_pred cCcEEEEcccccch----hhcCCCCCCCCcEEEEecCCCCCchhhhHHHhhcccCCceEEEEcCC
Q 037641 106 RFRVIFSTFTSSFR----LHNEGIPAGHFSHIFLLDASSATEPETMIALTNLANEHTTVILTGTP 166 (208)
Q Consensus 106 ~~~Vv~~T~~~a~~----l~~~~~~~~~Fd~vIIDEAsQa~Epe~liPL~~l~~~~~~vVLvGD~ 166 (208)
...+.++|.+.... +...++....|+.|+-.|-.....|..+-.+..+....++.|++||.
T Consensus 60 ~~~l~I~Ts~~~~~~~~il~~l~~~~~~f~~i~~~~d~~~~KP~~~k~l~~l~~~p~~~i~i~Ds 124 (148)
T smart00577 60 LFELVVFTAGLRMYADPVLDLLDPKKYFGYRRLFRDECVFVKGKYVKDLSLLGRDLSNVIIIDDS 124 (148)
T ss_pred ccEEEEEeCCcHHHHHHHHHHhCcCCCEeeeEEECccccccCCeEeecHHHcCCChhcEEEEECC
Confidence 35677777554221 11222222346888887777666676544455444456899999997
No 224
>PF14419 SPOUT_MTase_2: AF2226-like SPOUT RNA Methylase fused to THUMP
Probab=28.18 E-value=2.1e+02 Score=23.16 Aligned_cols=79 Identities=11% Similarity=0.264 Sum_probs=53.8
Q ss_pred HHHHHhhcccCCCCchhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCC-e-EEEeccccCCCCCCch
Q 037641 6 QFELQMRNNSDNLSKTGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSD-M-FRANAAFREVDGVPVD 83 (208)
Q Consensus 6 ~~~~~~~~~~~~~~~t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~-i-~Rv~~~~r~~~~~~~~ 83 (208)
.+|+|.++-....-|...++ .=++|+.+...+..|.|+-|.-..+.++.++|.+.+.... + +=+| +| +.+|..
T Consensus 62 Ry~iQ~ksY~r~v~kvpV~V-~DlYQ~vRdR~~~~lIvtdPkG~~is~vk~~L~~~~r~~~eV~v~iG--SR--eGiP~G 136 (173)
T PF14419_consen 62 RYQIQRKSYGREVRKVPVYV-QDLYQVVRDRKGEPLIVTDPKGDPISEVKDKLAEDLRYAKEVVVFIG--SR--EGIPRG 136 (173)
T ss_pred HHHHHHHhcCCeeeEeeeeH-HHHHHHHHhcCCCeEEEECCCCCcHHHHHHHHHHHHhhCcEEEEEEE--cc--cCCChh
Confidence 46777777766666666654 4456666666788899999999999999999998764432 1 2234 34 357777
Q ss_pred hhcccc
Q 037641 84 ILPLCL 89 (208)
Q Consensus 84 l~~~~~ 89 (208)
+..|..
T Consensus 137 lfRfAd 142 (173)
T PF14419_consen 137 LFRFAD 142 (173)
T ss_pred HHHHhh
Confidence 666553
No 225
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=28.05 E-value=58 Score=23.60 Aligned_cols=36 Identities=25% Similarity=0.335 Sum_probs=23.3
Q ss_pred cEEEEecCCCCCchhhhHHHhhcc-cCCceEEEEcCC
Q 037641 131 SHIFLLDASSATEPETMIALTNLA-NEHTTVILTGTP 166 (208)
Q Consensus 131 d~vIIDEAsQa~Epe~liPL~~l~-~~~~~vVLvGD~ 166 (208)
.++|||||-.....+.+--|..+. ...-++|++|-|
T Consensus 89 ~~lviDe~~~l~~~~~l~~l~~l~~~~~~~vvl~G~~ 125 (131)
T PF13401_consen 89 VLLVIDEADHLFSDEFLEFLRSLLNESNIKVVLVGTP 125 (131)
T ss_dssp EEEEEETTHHHHTHHHHHHHHHHTCSCBEEEEEEESS
T ss_pred eEEEEeChHhcCCHHHHHHHHHHHhCCCCeEEEEECh
Confidence 589999999861233333333232 345689999988
No 226
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=27.71 E-value=2.7e+02 Score=26.60 Aligned_cols=37 Identities=16% Similarity=0.174 Sum_probs=22.6
Q ss_pred hccCcEEEEcccccchhhc-C----CCCCCCCcEEEEecCCCCCc
Q 037641 104 LMRFRVIFSTFTSSFRLHN-E----GIPAGHFSHIFLLDASSATE 143 (208)
Q Consensus 104 l~~~~Vv~~T~~~a~~l~~-~----~~~~~~Fd~vIIDEAsQa~E 143 (208)
-+.++|+++|- |++-+ . +|.....+++|+|||-...|
T Consensus 203 ~k~~niliATP---GRLlDHlqNt~~f~~r~~k~lvlDEADrlLd 244 (543)
T KOG0342|consen 203 VKGCNILIATP---GRLLDHLQNTSGFLFRNLKCLVLDEADRLLD 244 (543)
T ss_pred hccccEEEeCC---chHHhHhhcCCcchhhccceeEeecchhhhh
Confidence 34688999886 44321 1 12222347899999987654
No 227
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=27.59 E-value=49 Score=29.41 Aligned_cols=50 Identities=20% Similarity=0.193 Sum_probs=34.5
Q ss_pred CCCCcEEEEecCCCCCchhh--hHHHhhcccCCceEEEEcCC-CCCCcceech
Q 037641 127 AGHFSHIFLLDASSATEPET--MIALTNLANEHTTVILTGTP-NNRTSWVRSD 176 (208)
Q Consensus 127 ~~~Fd~vIIDEAsQa~Epe~--liPL~~l~~~~~~vVLvGD~-~QL~P~V~s~ 176 (208)
.+.+.++|||+|-.+++... |.-..-=++...-+||+-++ .+|.|+|.|.
T Consensus 106 ~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrSR 158 (334)
T PRK07993 106 LGGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSR 158 (334)
T ss_pred cCCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhc
Confidence 35689999999999997432 33222112345778888875 7899999865
No 228
>PF00165 HTH_AraC: Bacterial regulatory helix-turn-helix proteins, AraC family; PDB: 1WPK_A 1ZGW_A 1U8B_A.
Probab=27.35 E-value=34 Score=20.28 Aligned_cols=21 Identities=38% Similarity=0.521 Sum_probs=16.7
Q ss_pred echHHhhCCCCccHHHHHHcC
Q 037641 174 RSDIARKNGLRVSHFERLHAT 194 (208)
Q Consensus 174 ~s~~a~~~gl~~SLfeRL~~~ 194 (208)
-.+.|...|++.|.|.|+++.
T Consensus 11 l~~iA~~~g~S~~~f~r~Fk~ 31 (42)
T PF00165_consen 11 LEDIAEQAGFSPSYFSRLFKK 31 (42)
T ss_dssp HHHHHHHHTS-HHHHHHHHHH
T ss_pred HHHHHHHHCCCHHHHHHHHHH
Confidence 356788999999999999864
No 229
>PF03237 Terminase_6: Terminase-like family; InterPro: IPR004921 The terminase is a component of the molecular motor that translocates genomic DNA into empty capsids during DNA packaging []. The large subunit heterodimerises with the small terminase protein, which is docked on the capsid portal protein. The latter forms a ring through which genomic DNA is translocated into the capsid. The terminase protein may have or induce an endonuclease activity to cleave DNA after encapsidation. This entry represents a family of terminase large subunits found in a variety of the Caudovirales and prophage regions of bacterial genomes. Homologues are also found in Gene Transfer Agents (GTA) [], including ORFg2 (RCAP_rcc01683) of the GTA of Rhodobacter capsulatus (Rhodopseudomonas capsulata) [see Fig.1, in ].; PDB: 2O0K_A 3CPE_A 2O0J_A 2O0H_A 3C6H_A 3C6A_A.
Probab=27.31 E-value=1.1e+02 Score=26.10 Aligned_cols=41 Identities=17% Similarity=0.218 Sum_probs=26.4
Q ss_pred CCCCchhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHH
Q 037641 16 DNLSKTGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMR 56 (208)
Q Consensus 16 ~~~~~t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~ 56 (208)
-+.|||......++..++...++.+|++++.+..+.+.+..
T Consensus 6 r~~GKT~~~~~~~~~~~~~~~~~~~vi~~~~~~~~~~~~~~ 46 (384)
T PF03237_consen 6 RGSGKTTLIAIWFLWWALTRPPGRRVIIASTYRQARDIFGR 46 (384)
T ss_dssp SSS-HHHHHHHHHHHHHHSSSS--EEEEEESSHHHHHHHHH
T ss_pred ccccHHHHHHHHHHHHHhhCCCCcEEEEecCHHHHHHHHHH
Confidence 46788888777777776666444788888666666666554
No 230
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=27.31 E-value=70 Score=32.16 Aligned_cols=49 Identities=18% Similarity=0.199 Sum_probs=31.1
Q ss_pred CCCcEEEEecCCCCCchh--hhHHHhhcccCCceEEEEc-CCCCCCcceech
Q 037641 128 GHFSHIFLLDASSATEPE--TMIALTNLANEHTTVILTG-TPNNRTSWVRSD 176 (208)
Q Consensus 128 ~~Fd~vIIDEAsQa~Epe--~liPL~~l~~~~~~vVLvG-D~~QL~P~V~s~ 176 (208)
+.|.++||||+-.++... .|+-..--.....+|||+. |+.+++|.|.|.
T Consensus 118 gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~KIp~TIrSR 169 (830)
T PRK07003 118 ARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIPVTVLSR 169 (830)
T ss_pred CCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhhccchhhhh
Confidence 468999999999988632 2333321112235566654 566788888775
No 231
>PF04364 DNA_pol3_chi: DNA polymerase III chi subunit, HolC; InterPro: IPR007459 The DNA polymerase III holoenzyme (2.7.7.7 from EC) is the polymerase responsible for the replication of the Escherichia coli chromosome. The holoenzyme is composed of the DNA polymerase III core, the sliding clamp, and the DnaX clamp loading complex. The DnaX complex contains either the tau or gamma product of gene dnax, complexed to delta.delta and to chi psi. Chi forms a 1:1 heterodimer with psi. The chi psi complex functions by increasing the affinity of tau and gamma for delta.delta allowing a functional clamp-loading complex to form at physiological subunit concentrations. Psi is responsible for the interaction with DnaX (gamma/tau), but psi is insoluble unless it is in a complex with chi [].; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication; PDB: 3SXU_A 1EM8_C.
Probab=27.19 E-value=1.5e+02 Score=22.73 Aligned_cols=36 Identities=19% Similarity=0.221 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhh
Q 037641 23 LVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKK 60 (208)
Q Consensus 23 ~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~ 60 (208)
..++.++...+++ |.||+|.+++...++.|=+.|..
T Consensus 16 ~~~c~L~~k~~~~--g~rv~V~~~d~~~a~~lD~~LW~ 51 (137)
T PF04364_consen 16 RFACRLAEKAYRQ--GQRVLVLCPDEEQAEALDELLWT 51 (137)
T ss_dssp HHHHHHHHHHHHT--T--EEEE-SSHHHHHHHHHHTTT
T ss_pred HHHHHHHHHHHHc--CCeEEEEeCCHHHHHHHHHHHHC
Confidence 5677778888876 78999999999999988888875
No 232
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=26.08 E-value=59 Score=30.67 Aligned_cols=49 Identities=14% Similarity=0.186 Sum_probs=29.5
Q ss_pred CCCcEEEEecCCCCCch--hhhHHHhhcccCCceEEEEcC-CCCCCcceech
Q 037641 128 GHFSHIFLLDASSATEP--ETMIALTNLANEHTTVILTGT-PNNRTSWVRSD 176 (208)
Q Consensus 128 ~~Fd~vIIDEAsQa~Ep--e~liPL~~l~~~~~~vVLvGD-~~QL~P~V~s~ 176 (208)
+.+.++|||||-..+.. ..|+...--....-.+||+.. +.+++|.+.|.
T Consensus 120 g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~~TI~SR 171 (484)
T PRK14956 120 GKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPETILSR 171 (484)
T ss_pred CCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhccHHHHhh
Confidence 46899999999998863 223222211112234455553 57888888766
No 233
>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B ....
Probab=25.89 E-value=1e+02 Score=26.98 Aligned_cols=38 Identities=24% Similarity=0.252 Sum_probs=23.0
Q ss_pred CchhHHHHHHHHHHHHcCCCCeEEEE--CCChHHHHHHHH
Q 037641 19 SKTGLVVREAVLEIYKRSSKCRILVC--APINRTGDVLMR 56 (208)
Q Consensus 19 ~~t~~Tive~i~ql~~~~~~~rILV~--A~SN~AvD~l~~ 56 (208)
|+.|+|-+.+...+..+..|.|+|++ .|.|.-.|.+=.
T Consensus 10 GGVGKTT~aaA~A~~~A~~G~rtLlvS~Dpa~~L~d~l~~ 49 (305)
T PF02374_consen 10 GGVGKTTVAAALALALARRGKRTLLVSTDPAHSLSDVLGQ 49 (305)
T ss_dssp TTSSHHHHHHHHHHHHHHTTS-EEEEESSTTTHHHHHHTS
T ss_pred CCCCcHHHHHHHHHHHhhCCCCeeEeecCCCccHHHHhCC
Confidence 55666666655554444468899998 566666665433
No 234
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=25.17 E-value=60 Score=27.61 Aligned_cols=49 Identities=20% Similarity=0.319 Sum_probs=32.8
Q ss_pred CCCcEEEEecCCCCCch--hhhHHHhhcccCCceEEEEcC-CCCCCcceech
Q 037641 128 GHFSHIFLLDASSATEP--ETMIALTNLANEHTTVILTGT-PNNRTSWVRSD 176 (208)
Q Consensus 128 ~~Fd~vIIDEAsQa~Ep--e~liPL~~l~~~~~~vVLvGD-~~QL~P~V~s~ 176 (208)
+.+.+||||||-.+++. ..+....--.+....++|+=+ +..+.|++.|.
T Consensus 108 ~~~kviiidead~mt~~A~nallk~lEep~~~~~~il~~n~~~~il~tI~SR 159 (325)
T COG0470 108 GGYKVVIIDEADKLTEDAANALLKTLEEPPKNTRFILITNDPSKILPTIRSR 159 (325)
T ss_pred CCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeEEEEEcCChhhccchhhhc
Confidence 57899999999999973 223333322234567777766 77888877765
No 235
>PHA01813 hypothetical protein
Probab=24.84 E-value=19 Score=23.31 Aligned_cols=27 Identities=30% Similarity=0.346 Sum_probs=21.4
Q ss_pred CCCCccHHHHHHcCCC-CCCCCCccccc
Q 037641 181 NGLRVSHFERLHATKT-YSNFNPMFITM 207 (208)
Q Consensus 181 ~gl~~SLfeRL~~~~~-y~~~~~~~~t~ 207 (208)
+...+|.||.+.+... |+.||.+|-|+
T Consensus 19 ~~h~i~~fe~~~~~kviysy~~~n~~~k 46 (58)
T PHA01813 19 FPHQISMFEDLYDAKVVYSYYEYNLFTK 46 (58)
T ss_pred ChhHHHHHHhhhceeEEeeeehhhHHHH
Confidence 3467899999998754 89999888764
No 236
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=24.82 E-value=71 Score=30.54 Aligned_cols=38 Identities=11% Similarity=0.180 Sum_probs=25.2
Q ss_pred HHHHHHHHHHcCCCCe-EEEECCChHHHHHHHHHhhhhC
Q 037641 25 VREAVLEIYKRSSKCR-ILVCAPINRTGDVLMRSLKKKI 62 (208)
Q Consensus 25 ive~i~ql~~~~~~~r-ILV~A~SN~AvD~l~~rL~~~~ 62 (208)
+++.+.+.++...-.+ +|.++|.-.--..++..+.+.+
T Consensus 24 v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~lAkal 62 (559)
T PRK05563 24 ITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFAKAV 62 (559)
T ss_pred HHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence 5555666665433334 7889998887777777777654
No 237
>TIGR00696 wecB_tagA_cpsF bacterial polymer biosynthesis proteins, WecB/TagA/CpsF family. The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.
Probab=24.54 E-value=2.9e+02 Score=22.17 Aligned_cols=47 Identities=19% Similarity=0.156 Sum_probs=37.4
Q ss_pred hhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCeE
Q 037641 21 TGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDMF 68 (208)
Q Consensus 21 t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i~ 68 (208)
||..++..+++.... .+.||-+...+...++.+.++|.+..++..+.
T Consensus 32 ~G~dl~~~l~~~~~~-~~~~vfllG~~~~v~~~~~~~l~~~yP~l~i~ 78 (177)
T TIGR00696 32 AGPDLMEELCQRAGK-EKLPIFLYGGKPDVLQQLKVKLIKEYPKLKIV 78 (177)
T ss_pred ChHHHHHHHHHHHHH-cCCeEEEECCCHHHHHHHHHHHHHHCCCCEEE
Confidence 577777777766554 46899999999999999999999877766654
No 238
>PRK05818 DNA polymerase III subunit delta'; Validated
Probab=24.44 E-value=65 Score=27.87 Aligned_cols=49 Identities=14% Similarity=0.097 Sum_probs=33.9
Q ss_pred CCCcEEEEecCCCCCchhh--hHHHhhcccCCceEEEEcC-CCCCCcceech
Q 037641 128 GHFSHIFLLDASSATEPET--MIALTNLANEHTTVILTGT-PNNRTSWVRSD 176 (208)
Q Consensus 128 ~~Fd~vIIDEAsQa~Epe~--liPL~~l~~~~~~vVLvGD-~~QL~P~V~s~ 176 (208)
+.+.++|||+|-.+++... |+-+.-=+++...++|+.+ +.++.|+|.|.
T Consensus 87 ~~~KV~II~~ae~m~~~AaNaLLK~LEEPp~~t~fiLit~~~~~lLpTI~SR 138 (261)
T PRK05818 87 NGKKIYIIYGIEKLNKQSANSLLKLIEEPPKNTYGIFTTRNENNILNTILSR 138 (261)
T ss_pred CCCEEEEeccHhhhCHHHHHHHHHhhcCCCCCeEEEEEECChHhCchHhhhh
Confidence 4588999999999986432 2222211234577888887 67999999987
No 239
>PRK07276 DNA polymerase III subunit delta'; Validated
Probab=24.32 E-value=75 Score=27.84 Aligned_cols=49 Identities=12% Similarity=0.170 Sum_probs=32.4
Q ss_pred CCCcEEEEecCCCCCchhh--hHHHhhcccCCceEEEEc-CCCCCCcceech
Q 037641 128 GHFSHIFLLDASSATEPET--MIALTNLANEHTTVILTG-TPNNRTSWVRSD 176 (208)
Q Consensus 128 ~~Fd~vIIDEAsQa~Epe~--liPL~~l~~~~~~vVLvG-D~~QL~P~V~s~ 176 (208)
+.+.++|||+|-.+++... |.-..-=+++..-+||+- ++.++.|+|.|.
T Consensus 103 ~~~kV~II~~ad~m~~~AaNaLLKtLEEPp~~t~~iL~t~~~~~lLpTI~SR 154 (290)
T PRK07276 103 GKQQVFIIKDADKMHVNAANSLLKVIEEPQSEIYIFLLTNDENKVLPTIKSR 154 (290)
T ss_pred CCcEEEEeehhhhcCHHHHHHHHHHhcCCCCCeEEEEEECChhhCchHHHHc
Confidence 4678999999999997543 222210012235577755 777899999876
No 240
>PRK07414 cob(I)yrinic acid a,c-diamide adenosyltransferase; Validated
Probab=24.28 E-value=1.2e+02 Score=24.68 Aligned_cols=40 Identities=28% Similarity=0.409 Sum_probs=26.6
Q ss_pred CCCCcEEEEecCCCCCc-----hhhhHHHhhcccCCceEEEEcCC
Q 037641 127 AGHFSHIFLLDASSATE-----PETMIALTNLANEHTTVILTGTP 166 (208)
Q Consensus 127 ~~~Fd~vIIDEAsQa~E-----pe~liPL~~l~~~~~~vVLvGD~ 166 (208)
.+.+|.||+||..-|.. .+-++-+....++.-.+||.|-.
T Consensus 113 ~~~~dlvVLDEi~~Al~~gli~~eeVl~~L~~rp~~~evILTGR~ 157 (178)
T PRK07414 113 EGRYSLVVLDELSLAIQFGLIPETEVLEFLEKRPSHVDVILTGPE 157 (178)
T ss_pred CCCCCEEEEehhHHHHHCCCccHHHHHHHHHhCCCCCEEEEECCC
Confidence 46799999999876543 33344444334445689999874
No 241
>TIGR00678 holB DNA polymerase III, delta' subunit. At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.
Probab=23.98 E-value=66 Score=25.40 Aligned_cols=49 Identities=18% Similarity=0.212 Sum_probs=29.5
Q ss_pred CCCcEEEEecCCCCCchh--hhHHHhhcccCCceEEEE-cCCCCCCcceech
Q 037641 128 GHFSHIFLLDASSATEPE--TMIALTNLANEHTTVILT-GTPNNRTSWVRSD 176 (208)
Q Consensus 128 ~~Fd~vIIDEAsQa~Epe--~liPL~~l~~~~~~vVLv-GD~~QL~P~V~s~ 176 (208)
+.+.++|||||-.++... .|+....-.++...+||+ .++..|.|.+.+.
T Consensus 95 ~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~sr 146 (188)
T TIGR00678 95 SGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRSR 146 (188)
T ss_pred CCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHHhh
Confidence 457899999998887642 244433222233556554 4667777766543
No 242
>PRK05728 DNA polymerase III subunit chi; Validated
Probab=23.93 E-value=2e+02 Score=22.12 Aligned_cols=35 Identities=17% Similarity=0.175 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhh
Q 037641 24 VVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKK 60 (208)
Q Consensus 24 Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~ 60 (208)
.++.++...+.+ |.||+|.+++...++.|=+.|..
T Consensus 17 ~~c~L~~ka~~~--g~rv~I~~~d~~~a~~lD~~LW~ 51 (142)
T PRK05728 17 LLCELAEKALRA--GWRVLVQCEDEEQAEALDEALWT 51 (142)
T ss_pred HHHHHHHHHHHC--CCEEEEEcCCHHHHHHHHHHhcC
Confidence 566777776665 88999999999888887777774
No 243
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=23.32 E-value=58 Score=33.10 Aligned_cols=38 Identities=11% Similarity=0.122 Sum_probs=29.3
Q ss_pred chhHHHHHHHHHHHH-cCCCCeEEEECCChHHHHHHHHH
Q 037641 20 KTGLVVREAVLEIYK-RSSKCRILVCAPINRTGDVLMRS 57 (208)
Q Consensus 20 ~t~~Tive~i~ql~~-~~~~~rILV~A~SN~AvD~l~~r 57 (208)
+||||++=++--++. ...+++|+|+++|..=-+.++.|
T Consensus 286 GtGKTlaYLlpa~~~a~~~~~~vvIsT~T~~LQ~Ql~~k 324 (928)
T PRK08074 286 GTGKSLAYLLPAAYFAKKKEEPVVISTYTIQLQQQLLEK 324 (928)
T ss_pred CCchhHHHHHHHHHHhhccCCeEEEEcCCHHHHHHHHHh
Confidence 478898776655443 23578999999999999998886
No 244
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=23.31 E-value=90 Score=27.98 Aligned_cols=50 Identities=8% Similarity=0.191 Sum_probs=31.8
Q ss_pred CCCCcEEEEecCCCCCchhh--hHHHhhcccCCce-EEEEcCCCCCCcceech
Q 037641 127 AGHFSHIFLLDASSATEPET--MIALTNLANEHTT-VILTGTPNNRTSWVRSD 176 (208)
Q Consensus 127 ~~~Fd~vIIDEAsQa~Epe~--liPL~~l~~~~~~-vVLvGD~~QL~P~V~s~ 176 (208)
.+.+.+||||||-.+++... |+...-=.+.... +++.+.+.+|.|++.|.
T Consensus 139 ~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~~~fiLit~~~~~llptIrSR 191 (351)
T PRK09112 139 DGNWRIVIIDPADDMNRNAANAILKTLEEPPARALFILISHSSGRLLPTIRSR 191 (351)
T ss_pred cCCceEEEEEchhhcCHHHHHHHHHHHhcCCCCceEEEEECChhhccHHHHhh
Confidence 35788999999999987443 3333311112233 45556777888988875
No 245
>TIGR01091 upp uracil phosphoribosyltransferase. that includes uracil phosphoribosyltransferase, uridine kinases, and other, uncharacterized proteins.
Probab=22.74 E-value=1.4e+02 Score=24.39 Aligned_cols=44 Identities=25% Similarity=0.256 Sum_probs=27.6
Q ss_pred hhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCCCCCe
Q 037641 21 TGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIPKSDM 67 (208)
Q Consensus 21 t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~~~~i 67 (208)
||.|+..++..+....+. +|.+++- .+.-.=++++.+..|+..+
T Consensus 134 TG~Tl~~ai~~L~~~G~~-~I~v~~l--l~~~~gl~~l~~~~p~v~i 177 (207)
T TIGR01091 134 TGGTMIAALDLLKKRGAK-KIKVLSI--VAAPEGIEAVEKAHPDVDI 177 (207)
T ss_pred chHHHHHHHHHHHHcCCC-EEEEEEE--ecCHHHHHHHHHHCCCCEE
Confidence 899999999999887654 5655554 2222334445555554433
No 246
>PF08445 FR47: FR47-like protein; InterPro: IPR013653 Proteins in this entry have a conserved region similar to the C-terminal region of the Drosophila melanogaster (Fruit fly) hypothetical protein FR47 (Q9VR51 from SWISSPROT). This protein has been found to consist of two N-acyltransferase-like domains swapped with the C-terminal strands. ; GO: 0016747 transferase activity, transferring acyl groups other than amino-acyl groups; PDB: 1SQH_A 3EC4_B.
Probab=22.69 E-value=2.1e+02 Score=19.79 Aligned_cols=34 Identities=21% Similarity=0.187 Sum_probs=22.0
Q ss_pred HHHH-HHHHHHHcCCCCeEEEECCChHHHHHHHHHh
Q 037641 24 VVRE-AVLEIYKRSSKCRILVCAPINRTGDVLMRSL 58 (208)
Q Consensus 24 Tive-~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL 58 (208)
.++. ++.++..+ .....|.+..+|.+.-.+.+||
T Consensus 41 ~lv~~l~~~~~~~-g~~~~l~v~~~N~~s~~ly~kl 75 (86)
T PF08445_consen 41 ALVAALARELLER-GKTPFLYVDADNEASIRLYEKL 75 (86)
T ss_dssp HHHHHHHHHHHHT-TSEEEEEEETT-HHHHHHHHHC
T ss_pred HHHHHHHHHHHhC-CCcEEEEEECCCHHHHHHHHHc
Confidence 4444 44455554 3346788889999988888776
No 247
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=22.65 E-value=71 Score=28.33 Aligned_cols=50 Identities=8% Similarity=0.088 Sum_probs=33.8
Q ss_pred CCCCcEEEEecCCCCCchhh--hHHHhhcccCCceEEEEcC-CCCCCcceech
Q 037641 127 AGHFSHIFLLDASSATEPET--MIALTNLANEHTTVILTGT-PNNRTSWVRSD 176 (208)
Q Consensus 127 ~~~Fd~vIIDEAsQa~Epe~--liPL~~l~~~~~~vVLvGD-~~QL~P~V~s~ 176 (208)
.+.+.++|||+|-.+++... |.-..-=+++...+||+.+ +.+|.|+|.|.
T Consensus 106 ~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~SR 158 (319)
T PRK06090 106 LNGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSR 158 (319)
T ss_pred cCCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhc
Confidence 35689999999999996443 2222211223467888755 57899999876
No 248
>PF02863 Arg_repressor_C: Arginine repressor, C-terminal domain; InterPro: IPR020899 The arginine dihydrolase (AD) pathway is found in many prokaryotes and some primitive eukaryotes, an example of the latter being Giardia lamblia (Giardia intestinalis) []. The three-enzyme anaerobic pathway breaks down L-arginine to form 1 mol of ATP, carbon dioxide and ammonia. In simpler bacteria, the first enzyme, arginine deiminase, can account for up to 10% of total cell protein []. Most prokaryotic arginine deiminase pathways are under the control of a repressor gene, termed ArgR []. This is a negative regulator, and will only release the arginine deiminase operon for expression in the presence of arginine []. The crystal structure of apo-ArgR from Bacillus stearothermophilus has been determined to 2.5A by means of X-ray crystallography []. The protein exists as a hexamer of identical subunits, and is shown to have six DNA-binding domains, clustered around a central oligomeric core when bound to arginine. It predominantly interacts with A.T residues in ARG boxes. This hexameric protein binds DNA at its N terminus to repress arginine biosyntheis or activate arginine catabolism. Some species have several ArgR paralogs. In a neighbour-joining tree, some of these paralogous sequences show long branches and differ significantly from the well-conserved C-terminal region. ; GO: 0006355 regulation of transcription, DNA-dependent; PDB: 1B4B_B 1B4A_A 3V4G_A 1F9N_F 2P5M_A 1XXA_E 1XXC_C 1XXB_F 3LAJ_D 3BUE_D ....
Probab=22.61 E-value=83 Score=21.22 Aligned_cols=45 Identities=20% Similarity=0.212 Sum_probs=33.5
Q ss_pred CCCCchhHHHHHHHHHHHHc------CCCCeEEEECCChHHHHHHHHHhhh
Q 037641 16 DNLSKTGLVVREAVLEIYKR------SSKCRILVCAPINRTGDVLMRSLKK 60 (208)
Q Consensus 16 ~~~~~t~~Tive~i~ql~~~------~~~~rILV~A~SN~AvD~l~~rL~~ 60 (208)
|..++++..+..++-+.... ...-.|||.+.|+.+++.+.+++.+
T Consensus 19 kt~pG~A~~va~~iD~~~~~~I~GtIAgdDTilvi~~~~~~a~~l~~~l~~ 69 (70)
T PF02863_consen 19 KTLPGNAQAVAAAIDQLNLPEIFGTIAGDDTILVICRSEEDAEELEEKLKE 69 (70)
T ss_dssp EESTTCHHHHHHHHHHHCGTTEEEEEEESSEEEEEESTTSHHHHHHHHHHT
T ss_pred EeCCCcHHHHHHHHHhcCCcccEEEEeCCCEEEEEeCCHHHHHHHHHHHHh
Confidence 45677777777777765431 0136899999999999999999864
No 249
>CHL00181 cbbX CbbX; Provisional
Probab=22.57 E-value=1.1e+02 Score=26.50 Aligned_cols=39 Identities=15% Similarity=0.278 Sum_probs=21.6
Q ss_pred cEEEEecCCCCCc--------hhh---hHHHhhcccCCceEEEEcCCCCC
Q 037641 131 SHIFLLDASSATE--------PET---MIALTNLANEHTTVILTGTPNNR 169 (208)
Q Consensus 131 d~vIIDEAsQa~E--------pe~---liPL~~l~~~~~~vVLvGD~~QL 169 (208)
.++||||+..... ++. |..+..-....-.+|++|.+..+
T Consensus 124 gVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~~ 173 (287)
T CHL00181 124 GVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQRDDLVVIFAGYKDRM 173 (287)
T ss_pred CEEEEEccchhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHH
Confidence 6999999987522 232 22222111123468888876544
No 250
>TIGR03172 probable selenium-dependent hydroxylase accessory protein YqeC. This uncharacterized protein family includes YqeC from Escherichia coli. A phylogenetic profiling analysis shows correlation with SelD, the selenium donor protein, even in species where SelD contributes to neither selenocysteine nor selenouridine biosynthesis. Instead, this family, and families TIGR03309 and TIGR03310 appear to mark selenium-dependent molybdenum hydroxylase maturation systems.
Probab=22.12 E-value=1.1e+02 Score=25.92 Aligned_cols=24 Identities=21% Similarity=0.117 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHcCCCCeEEEECCChH
Q 037641 24 VVREAVLEIYKRSSKCRILVCAPINR 49 (208)
Q Consensus 24 Tive~i~ql~~~~~~~rILV~A~SN~ 49 (208)
++..++.++-.+ |.||++++-|+.
T Consensus 13 l~~~l~~~~~~~--g~~v~~TTTT~m 36 (232)
T TIGR03172 13 TMFWLAAEYRKE--GYRVLVTTTTRM 36 (232)
T ss_pred HHHHHHHHHHHC--CCeEEEECCccc
Confidence 355566555554 789999999987
No 251
>COG4178 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]
Probab=21.75 E-value=96 Score=30.15 Aligned_cols=44 Identities=30% Similarity=0.240 Sum_probs=32.8
Q ss_pred CCCcEEEEecCCCCCchhhhHHHhhccc---CCceEEEEcCCCCCCc
Q 037641 128 GHFSHIFLLDASSATEPETMIALTNLAN---EHTTVILTGTPNNRTS 171 (208)
Q Consensus 128 ~~Fd~vIIDEAsQa~Epe~liPL~~l~~---~~~~vVLvGD~~QL~P 171 (208)
.+.++||+|||.-+.++++-.-+..+.+ +...+|-||..--|.+
T Consensus 532 ~kP~~v~LDEATsALDe~~e~~l~q~l~~~lp~~tvISV~Hr~tl~~ 578 (604)
T COG4178 532 HKPKWVFLDEATSALDEETEDRLYQLLKEELPDATVISVGHRPTLWN 578 (604)
T ss_pred cCCCEEEEecchhccChHHHHHHHHHHHhhCCCCEEEEeccchhhHH
Confidence 3689999999999999999777764432 3466888876655554
No 252
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=21.55 E-value=5.3e+02 Score=25.08 Aligned_cols=34 Identities=18% Similarity=0.141 Sum_probs=21.3
Q ss_pred CcEEEEcccccchhhc-----CCCCCCCCcEEEEecCCCCCc
Q 037641 107 FRVIFSTFTSSFRLHN-----EGIPAGHFSHIFLLDASSATE 143 (208)
Q Consensus 107 ~~Vv~~T~~~a~~l~~-----~~~~~~~Fd~vIIDEAsQa~E 143 (208)
-.||++|- |++.+ ..|.-....++|+|||-.+.|
T Consensus 303 PDIVIATP---GRlIDHlrNs~sf~ldsiEVLvlDEADRMLe 341 (691)
T KOG0338|consen 303 PDIVIATP---GRLIDHLRNSPSFNLDSIEVLVLDEADRMLE 341 (691)
T ss_pred CCEEEecc---hhHHHHhccCCCccccceeEEEechHHHHHH
Confidence 36888885 44321 123333567899999987654
No 253
>PF04413 Glycos_transf_N: 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); InterPro: IPR007507 This is a domain found in proteins that transfer activated sugars to a variety of substrates, including glycogen, fructose-6-phosphate and lipopolysaccharides. Proteins bearing this domain transfer UDP, ADP, GDP or CMP linked sugars. This region is flanked at the N terminus by a signal peptide and at the C terminus by a glycosyl transferase group 1 domain (IPR001296 from INTERPRO). The eukaryotic glycogen synthases may be distant members of this bacterial family [].; GO: 0005529 sugar binding, 0016740 transferase activity, 0005975 carbohydrate metabolic process; PDB: 2XCI_A 2XCU_B.
Probab=21.51 E-value=86 Score=25.33 Aligned_cols=36 Identities=17% Similarity=0.241 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhh
Q 037641 24 VVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLK 59 (208)
Q Consensus 24 Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~ 59 (208)
.+..+|.++.++.|+.+||+++.|....+.....+.
T Consensus 36 a~~~Li~~l~~~~p~~~illT~~T~tg~~~~~~~~~ 71 (186)
T PF04413_consen 36 AARPLIKRLRKQRPDLRILLTTTTPTGREMARKLLP 71 (186)
T ss_dssp HHHHHHHHHTT---TS-EEEEES-CCHHHHHHGG-G
T ss_pred HHHHHHHHHHHhCCCCeEEEEecCCchHHHHHHhCC
Confidence 455677777777899999999999999988755543
No 254
>COG4820 EutJ Ethanolamine utilization protein, possible chaperonin [Amino acid transport and metabolism]
Probab=21.40 E-value=52 Score=27.85 Aligned_cols=25 Identities=24% Similarity=0.299 Sum_probs=22.1
Q ss_pred CccHHHHHHcCCCCCCCCCcccccC
Q 037641 184 RVSHFERLHATKTYSNFNPMFITML 208 (208)
Q Consensus 184 ~~SLfeRL~~~~~y~~~~~~~~t~l 208 (208)
..++|||-+..+.|..+-|.|+|-|
T Consensus 242 ~e~~Fe~~l~l~v~~P~~p~y~TPL 266 (277)
T COG4820 242 VEELFEKQLALQVHLPQHPLYMTPL 266 (277)
T ss_pred HHHHHHHHhccccccCCCcceechh
Confidence 4689999998899999999999965
No 255
>PF13155 Toprim_2: Toprim-like
Probab=21.39 E-value=2.1e+02 Score=19.71 Aligned_cols=46 Identities=15% Similarity=0.273 Sum_probs=35.2
Q ss_pred CCchhHHHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhhhCC
Q 037641 18 LSKTGLVVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKKKIP 63 (208)
Q Consensus 18 ~~~t~~Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~~~~ 63 (208)
++..|....+.+..++...+.++|.+|---..|.....+++.+.+.
T Consensus 27 l~~~~~~~~~~~~~~l~~~~~~~i~l~~DnD~aG~~~~~~~~~~l~ 72 (96)
T PF13155_consen 27 LAGGGTLSEKQQIKFLKENPYKKIVLAFDNDEAGRKAAEKLQKELK 72 (96)
T ss_pred EECCchHHHHHHHHHHHhCCCCcEEEEeCCCHHHHHHHHHHHHHHH
Confidence 5555555566777777655557899999999999999999987653
No 256
>PRK05564 DNA polymerase III subunit delta'; Validated
Probab=20.85 E-value=85 Score=27.21 Aligned_cols=49 Identities=14% Similarity=0.185 Sum_probs=31.2
Q ss_pred CCCcEEEEecCCCCCch--hhhHHHhhcccCCceEEEE-cCCCCCCcceech
Q 037641 128 GHFSHIFLLDASSATEP--ETMIALTNLANEHTTVILT-GTPNNRTSWVRSD 176 (208)
Q Consensus 128 ~~Fd~vIIDEAsQa~Ep--e~liPL~~l~~~~~~vVLv-GD~~QL~P~V~s~ 176 (208)
+.+.++|||||-.+++. ..|....-=++....+||+ -++.+|.|+|.|.
T Consensus 92 ~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SR 143 (313)
T PRK05564 92 GDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSR 143 (313)
T ss_pred CCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhh
Confidence 36789999999888762 2344433112234566666 4577899988765
No 257
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=20.65 E-value=1.5e+02 Score=30.10 Aligned_cols=43 Identities=12% Similarity=0.131 Sum_probs=26.3
Q ss_pred chHHHhccCcEEEEcccccchhhcCCCC---CCCCcEEEEecCCCCCc
Q 037641 99 PSLQELMRFRVIFSTFTSSFRLHNEGIP---AGHFSHIFLLDASSATE 143 (208)
Q Consensus 99 ~~~~~l~~~~Vv~~T~~~a~~l~~~~~~---~~~Fd~vIIDEAsQa~E 143 (208)
...+...+|+||++-=+ -.+.+.... -..++++|||||-+..+
T Consensus 424 ~ar~~a~~AdivItNHa--lLl~dl~~~~~ilp~~~~lViDEAH~l~d 469 (928)
T PRK08074 424 RAKNRAKFADLVITNHA--LLLTDLTSEEPLLPSYEHIIIDEAHHFEE 469 (928)
T ss_pred HHHHHHhcCCEEEECHH--HHHHHHhhhcccCCCCCeEEEECCchHHH
Confidence 34566788999986533 111111000 13589999999998654
No 258
>COG1519 KdtA 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]
Probab=20.37 E-value=1.7e+02 Score=27.19 Aligned_cols=37 Identities=16% Similarity=0.092 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHcCCCCeEEEECCChHHHHHHHHHhhh
Q 037641 24 VVREAVLEIYKRSSKCRILVCAPINRTGDVLMRSLKK 60 (208)
Q Consensus 24 Tive~i~ql~~~~~~~rILV~A~SN~AvD~l~~rL~~ 60 (208)
++.-+|.++.++.|+.+||+++-|+..++.+..++-+
T Consensus 64 a~~pLv~~l~~~~P~~~ilvTt~T~Tg~e~a~~~~~~ 100 (419)
T COG1519 64 AALPLVRALRERFPDLRILVTTMTPTGAERAAALFGD 100 (419)
T ss_pred HHHHHHHHHHHhCCCCCEEEEecCccHHHHHHHHcCC
Confidence 4555788888999999999999999999998888754
No 259
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=20.34 E-value=81 Score=30.63 Aligned_cols=38 Identities=13% Similarity=0.112 Sum_probs=24.6
Q ss_pred HHHHHHHHHHcCC-CCeEEEECCChHHHHHHHHHhhhhC
Q 037641 25 VREAVLEIYKRSS-KCRILVCAPINRTGDVLMRSLKKKI 62 (208)
Q Consensus 25 ive~i~ql~~~~~-~~rILV~A~SN~AvD~l~~rL~~~~ 62 (208)
+++.+.+++.... ..-+|+++|.-.--..++..+++.+
T Consensus 24 i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L 62 (620)
T PRK14948 24 IATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSL 62 (620)
T ss_pred HHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHh
Confidence 4445555555422 2467899998887777777777654
No 260
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=20.18 E-value=1e+02 Score=27.19 Aligned_cols=39 Identities=21% Similarity=0.351 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHcCC-CCeEEEECCChHHHHHHHHHhhhhC
Q 037641 24 VVREAVLEIYKRSS-KCRILVCAPINRTGDVLMRSLKKKI 62 (208)
Q Consensus 24 Tive~i~ql~~~~~-~~rILV~A~SN~AvD~l~~rL~~~~ 62 (208)
.+++.+.+.++... ...+|++.|.-.-...++..+.+.+
T Consensus 24 ~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l 63 (367)
T PRK14970 24 HITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKI 63 (367)
T ss_pred HHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence 35677777776532 2468899999776667666666544
Done!